Query 028848
Match_columns 202
No_of_seqs 204 out of 1693
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 03:29:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028848hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0330 ATP-dependent RNA heli 99.9 7.6E-25 1.7E-29 188.0 13.2 126 66-199 57-182 (476)
2 PTZ00110 helicase; Provisional 99.9 4.9E-23 1.1E-27 188.8 16.4 124 68-199 128-256 (545)
3 KOG0331 ATP-dependent RNA heli 99.9 1.3E-23 2.7E-28 188.4 11.3 121 71-199 92-218 (519)
4 COG0513 SrmB Superfamily II DN 99.9 4.6E-23 9.9E-28 187.7 15.0 123 70-199 29-153 (513)
5 PRK04837 ATP-dependent RNA hel 99.9 6.2E-23 1.4E-27 182.6 15.5 121 71-199 9-136 (423)
6 KOG0338 ATP-dependent RNA heli 99.9 1.2E-23 2.5E-28 185.8 10.3 123 69-199 180-305 (691)
7 KOG0340 ATP-dependent RNA heli 99.9 3.1E-23 6.6E-28 176.5 10.2 124 68-199 5-128 (442)
8 PLN00206 DEAD-box ATP-dependen 99.9 2E-22 4.2E-27 183.9 16.3 147 40-199 96-249 (518)
9 PRK11776 ATP-dependent RNA hel 99.9 4.1E-22 8.9E-27 179.1 15.4 122 71-199 5-126 (460)
10 PRK10590 ATP-dependent RNA hel 99.9 6.8E-22 1.5E-26 177.7 15.2 120 72-199 3-128 (456)
11 PRK04537 ATP-dependent RNA hel 99.9 9.3E-22 2E-26 181.3 15.6 121 71-199 10-137 (572)
12 PRK11634 ATP-dependent RNA hel 99.9 2E-21 4.2E-26 180.6 15.3 122 71-199 7-128 (629)
13 KOG0348 ATP-dependent RNA heli 99.9 7.1E-22 1.5E-26 175.3 11.7 124 68-199 134-265 (708)
14 KOG0345 ATP-dependent RNA heli 99.9 4.8E-21 1E-25 167.9 13.7 116 77-199 13-134 (567)
15 PRK11192 ATP-dependent RNA hel 99.9 8.9E-21 1.9E-25 169.2 15.3 121 71-199 2-126 (434)
16 PRK01297 ATP-dependent RNA hel 99.8 1.9E-20 4.1E-25 169.1 15.5 121 71-199 88-216 (475)
17 KOG0346 RNA helicase [RNA proc 99.8 2.1E-21 4.5E-26 169.1 8.6 125 69-199 18-148 (569)
18 KOG0342 ATP-dependent RNA heli 99.8 4.2E-21 9.1E-26 168.9 10.4 129 64-199 76-208 (543)
19 KOG0334 RNA helicase [RNA proc 99.8 5.2E-21 1.1E-25 180.0 10.7 127 65-199 360-491 (997)
20 PTZ00424 helicase 45; Provisio 99.8 3.2E-20 6.8E-25 163.5 14.7 124 68-199 26-149 (401)
21 KOG0347 RNA helicase [RNA proc 99.8 7.1E-21 1.5E-25 169.5 9.0 128 64-199 175-316 (731)
22 KOG0335 ATP-dependent RNA heli 99.8 1.4E-20 3E-25 166.8 6.8 134 55-199 62-205 (482)
23 KOG0339 ATP-dependent RNA heli 99.8 2.9E-20 6.3E-25 164.4 8.5 128 64-199 217-349 (731)
24 KOG0333 U5 snRNP-like RNA heli 99.8 7.6E-20 1.6E-24 162.2 10.5 127 65-199 240-375 (673)
25 KOG0343 RNA Helicase [RNA proc 99.8 4.8E-20 1E-24 164.3 9.1 122 65-194 64-189 (758)
26 KOG0328 Predicted ATP-dependen 99.8 2E-20 4.3E-25 155.6 5.6 125 67-199 24-148 (400)
27 TIGR03817 DECH_helic helicase/ 99.8 5.8E-19 1.3E-23 166.9 15.1 113 76-199 20-132 (742)
28 KOG0337 ATP-dependent RNA heli 99.8 1.2E-19 2.5E-24 157.5 7.6 121 71-199 22-143 (529)
29 KOG0326 ATP-dependent RNA heli 99.8 1.2E-20 2.5E-25 159.2 1.1 121 71-199 86-206 (459)
30 KOG0336 ATP-dependent RNA heli 99.8 1.8E-19 4E-24 156.1 7.8 161 28-199 175-346 (629)
31 cd00268 DEADc DEAD-box helicas 99.8 5.8E-18 1.3E-22 135.8 15.4 120 72-199 1-122 (203)
32 KOG0341 DEAD-box protein abstr 99.8 8.5E-20 1.8E-24 157.4 3.8 162 36-199 130-305 (610)
33 KOG0327 Translation initiation 99.7 3.4E-18 7.3E-23 146.9 5.8 125 67-199 23-148 (397)
34 KOG0329 ATP-dependent RNA heli 99.7 1.3E-17 2.8E-22 137.3 7.4 130 60-199 35-164 (387)
35 COG1201 Lhr Lhr-like helicases 99.7 1.5E-16 3.3E-21 149.7 11.9 113 77-199 8-126 (814)
36 PRK02362 ski2-like helicase; P 99.7 4E-16 8.6E-21 147.9 12.8 102 72-185 3-105 (737)
37 PRK13767 ATP-dependent helicas 99.7 9.5E-16 2E-20 147.5 15.0 119 77-199 18-149 (876)
38 PF00270 DEAD: DEAD/DEAH box h 99.6 2.6E-15 5.7E-20 116.4 12.5 97 94-199 1-98 (169)
39 COG1205 Distinct helicase fami 99.6 1.3E-15 2.7E-20 145.7 12.9 116 79-202 57-175 (851)
40 KOG0332 ATP-dependent RNA heli 99.6 2.3E-16 5E-21 135.5 6.9 116 61-184 81-198 (477)
41 KOG0350 DEAD-box ATP-dependent 99.6 6.4E-16 1.4E-20 136.7 9.2 108 82-197 149-266 (620)
42 PRK00254 ski2-like helicase; P 99.6 3.3E-15 7.2E-20 141.3 13.7 104 72-186 3-107 (720)
43 KOG4284 DEAD box protein [Tran 99.6 2.7E-16 5.9E-21 142.7 4.7 117 72-195 27-143 (980)
44 KOG0344 ATP-dependent RNA heli 99.6 2.7E-15 5.9E-20 134.8 8.3 103 61-163 126-234 (593)
45 TIGR00643 recG ATP-dependent D 99.6 1.9E-14 4E-19 134.4 13.5 96 82-189 226-327 (630)
46 PRK01172 ski2-like helicase; P 99.6 2.4E-14 5.3E-19 134.5 13.3 101 72-185 3-103 (674)
47 PRK12899 secA preprotein trans 99.6 2.4E-14 5.2E-19 135.8 13.2 111 76-199 68-186 (970)
48 TIGR02621 cas3_GSU0051 CRISPR- 99.6 1.5E-14 3.2E-19 137.0 10.1 110 88-199 12-138 (844)
49 TIGR00580 mfd transcription-re 99.5 1.1E-13 2.4E-18 133.4 14.6 109 79-199 438-557 (926)
50 PRK10917 ATP-dependent DNA hel 99.5 1.1E-13 2.4E-18 130.2 14.1 102 86-199 256-367 (681)
51 PRK14701 reverse gyrase; Provi 99.5 1.1E-13 2.3E-18 139.2 14.2 110 80-199 67-181 (1638)
52 PRK10689 transcription-repair 99.5 1.5E-13 3.3E-18 134.9 14.3 105 83-199 592-706 (1147)
53 PRK09401 reverse gyrase; Revie 99.5 3.2E-13 7E-18 132.9 14.4 100 88-199 77-182 (1176)
54 TIGR00614 recQ_fam ATP-depende 99.5 4.4E-13 9.4E-18 121.2 11.6 68 88-161 7-74 (470)
55 TIGR01054 rgy reverse gyrase. 99.5 7.7E-13 1.7E-17 130.3 13.7 82 81-165 67-148 (1171)
56 PRK12898 secA preprotein trans 99.4 6.1E-13 1.3E-17 123.5 11.0 96 89-200 101-196 (656)
57 PRK11057 ATP-dependent DNA hel 99.4 5.1E-12 1.1E-16 117.6 12.6 68 88-161 21-88 (607)
58 PLN03137 ATP-dependent DNA hel 99.4 5.4E-12 1.2E-16 122.1 13.0 107 71-195 436-545 (1195)
59 TIGR01389 recQ ATP-dependent D 99.3 7.6E-12 1.7E-16 116.0 12.1 71 85-161 5-76 (591)
60 COG1198 PriA Primosomal protei 99.3 9.9E-12 2.1E-16 116.6 9.8 141 38-194 135-291 (730)
61 PRK05580 primosome assembly pr 99.3 2.6E-11 5.7E-16 114.1 12.4 84 92-189 144-230 (679)
62 PRK09200 preprotein translocas 99.2 1.1E-10 2.3E-15 110.8 10.7 98 88-200 75-172 (790)
63 smart00487 DEXDc DEAD-like hel 99.2 4.1E-10 8.8E-15 87.8 12.4 101 87-196 3-104 (201)
64 COG1204 Superfamily II helicas 99.2 1.6E-10 3.5E-15 109.7 10.4 101 77-188 16-117 (766)
65 PHA02558 uvsW UvsW helicase; P 99.2 2.8E-10 6E-15 103.8 11.4 74 90-165 112-185 (501)
66 TIGR00963 secA preprotein tran 99.1 2.1E-10 4.5E-15 107.7 9.8 95 89-199 54-148 (745)
67 KOG0349 Putative DEAD-box RNA 99.1 7.2E-11 1.6E-15 103.8 4.5 62 71-132 3-64 (725)
68 TIGR01407 dinG_rel DnaQ family 99.1 9.1E-10 2E-14 106.2 11.9 97 80-186 234-335 (850)
69 PHA02653 RNA helicase NPH-II; 99.1 7.2E-10 1.6E-14 104.0 10.4 87 94-185 166-264 (675)
70 PRK09751 putative ATP-dependen 99.0 5.9E-10 1.3E-14 111.4 9.1 88 112-199 1-102 (1490)
71 TIGR03714 secA2 accessory Sec 99.0 1.4E-09 3E-14 102.6 10.0 98 89-200 68-168 (762)
72 KOG0952 DNA/RNA helicase MER3/ 99.0 1.3E-09 2.9E-14 103.9 9.1 93 88-188 106-206 (1230)
73 TIGR03158 cas3_cyano CRISPR-as 99.0 6.1E-09 1.3E-13 91.2 10.9 64 96-165 1-66 (357)
74 PRK13104 secA preprotein trans 98.9 4.1E-09 8.8E-14 100.6 9.9 94 92-200 82-175 (896)
75 COG1202 Superfamily II helicas 98.9 3.6E-09 7.8E-14 96.0 8.5 102 72-184 196-299 (830)
76 TIGR03117 cas_csf4 CRISPR-asso 98.9 7.7E-09 1.7E-13 96.3 11.0 78 102-186 11-89 (636)
77 PRK13766 Hef nuclease; Provisi 98.9 1.6E-08 3.4E-13 96.6 12.3 96 91-198 14-109 (773)
78 PRK07246 bifunctional ATP-depe 98.9 9.9E-09 2.2E-13 98.6 10.4 85 89-186 243-332 (820)
79 TIGR00595 priA primosomal prot 98.9 9.2E-09 2E-13 94.0 8.6 49 111-162 1-49 (505)
80 PF04851 ResIII: Type III rest 98.8 1.1E-08 2.5E-13 79.6 7.8 67 92-164 3-76 (184)
81 TIGR01587 cas3_core CRISPR-ass 98.8 9.1E-09 2E-13 89.5 7.5 54 109-163 1-54 (358)
82 COG1110 Reverse gyrase [DNA re 98.8 5.5E-08 1.2E-12 93.0 13.1 97 85-192 75-172 (1187)
83 KOG0354 DEAD-box like helicase 98.7 3.2E-08 6.9E-13 92.5 8.6 91 91-193 61-151 (746)
84 COG1200 RecG RecG-like helicas 98.7 2.1E-07 4.6E-12 86.1 11.1 90 85-186 256-351 (677)
85 PRK12904 preprotein translocas 98.7 8.8E-08 1.9E-12 91.2 8.6 95 89-200 79-174 (830)
86 PRK11664 ATP-dependent RNA hel 98.6 1.4E-07 3.1E-12 90.5 9.4 60 99-161 12-71 (812)
87 smart00489 DEXDc3 DEAD-like he 98.6 1.9E-07 4E-12 79.7 9.1 73 89-162 6-85 (289)
88 smart00488 DEXDc2 DEAD-like he 98.6 1.9E-07 4E-12 79.7 9.1 73 89-162 6-85 (289)
89 COG1061 SSL2 DNA or RNA helica 98.6 1.5E-07 3.2E-12 84.8 8.6 68 91-164 35-106 (442)
90 PRK09694 helicase Cas3; Provis 98.6 3.5E-07 7.5E-12 88.3 10.8 73 91-164 285-357 (878)
91 cd00046 DEXDc DEAD-like helica 98.6 8.8E-07 1.9E-11 64.8 10.0 55 108-163 1-55 (144)
92 COG4581 Superfamily II RNA hel 98.5 3.4E-07 7.4E-12 88.7 8.6 73 86-162 114-186 (1041)
93 TIGR01970 DEAH_box_HrpB ATP-de 98.5 1E-06 2.2E-11 84.7 10.9 59 99-160 9-67 (819)
94 KOG0951 RNA helicase BRR2, DEA 98.5 7.9E-07 1.7E-11 86.7 9.6 92 89-188 306-406 (1674)
95 COG1197 Mfd Transcription-repa 98.4 3.1E-06 6.7E-11 82.5 12.6 103 80-194 582-691 (1139)
96 COG1111 MPH1 ERCC4-like helica 98.4 2.4E-06 5.1E-11 76.8 10.7 72 92-166 15-86 (542)
97 COG0514 RecQ Superfamily II DN 98.4 1.5E-06 3.1E-11 80.3 9.3 73 84-162 8-81 (590)
98 PRK13107 preprotein translocas 98.4 1.1E-06 2.3E-11 84.2 8.4 93 92-200 82-175 (908)
99 PRK08074 bifunctional ATP-depe 98.4 3.2E-06 6.9E-11 82.6 11.2 88 89-186 255-348 (928)
100 TIGR00603 rad25 DNA repair hel 98.3 2.9E-06 6.4E-11 80.3 10.1 67 92-164 255-324 (732)
101 PRK11448 hsdR type I restricti 98.2 7E-06 1.5E-10 81.3 9.2 70 92-162 413-487 (1123)
102 PF13245 AAA_19: Part of AAA d 98.2 1.1E-05 2.4E-10 55.3 7.6 51 108-158 11-62 (76)
103 KOG0352 ATP-dependent DNA heli 98.2 7.6E-06 1.6E-10 72.5 7.9 74 83-162 9-85 (641)
104 KOG0353 ATP-dependent DNA heli 98.2 9.3E-06 2E-10 71.1 8.2 88 71-164 70-160 (695)
105 PF13086 AAA_11: AAA domain; P 98.1 9.2E-06 2E-10 65.4 7.2 68 93-160 2-75 (236)
106 PRK14873 primosome assembly pr 98.1 8.2E-06 1.8E-10 76.9 7.6 50 111-163 164-213 (665)
107 PRK11747 dinG ATP-dependent DN 98.1 2.5E-05 5.4E-10 74.2 10.4 88 89-186 23-121 (697)
108 TIGR00604 rad3 DNA repair heli 98.1 1.9E-05 4E-10 75.1 9.2 74 89-162 7-84 (705)
109 PF00580 UvrD-helicase: UvrD/R 98.0 2.3E-05 5E-10 66.0 7.8 70 93-164 1-71 (315)
110 PRK12326 preprotein translocas 98.0 0.00011 2.3E-09 69.4 12.5 97 89-201 76-172 (764)
111 COG1199 DinG Rad3-related DNA 98.0 4E-05 8.6E-10 72.1 9.3 73 88-162 11-87 (654)
112 PRK12906 secA preprotein trans 98.0 8.7E-05 1.9E-09 70.9 11.4 96 89-200 78-173 (796)
113 TIGR00348 hsdR type I site-spe 97.8 4.9E-05 1.1E-09 71.9 7.4 70 93-163 239-318 (667)
114 KOG0351 ATP-dependent DNA heli 97.8 4.1E-05 8.8E-10 74.4 6.5 91 86-194 258-348 (941)
115 PRK13103 secA preprotein trans 97.8 0.00012 2.5E-09 70.6 9.4 87 89-189 80-166 (913)
116 COG4098 comFA Superfamily II D 97.8 0.00011 2.4E-09 63.7 8.3 81 92-185 97-181 (441)
117 COG1203 CRISPR-associated heli 97.7 0.00019 4.1E-09 68.6 8.6 74 92-165 195-273 (733)
118 KOG0948 Nuclear exosomal RNA h 97.6 0.00011 2.4E-09 69.0 6.6 66 92-160 129-194 (1041)
119 TIGR00376 DNA helicase, putati 97.6 0.00026 5.7E-09 66.7 9.1 67 91-160 156-223 (637)
120 PF13604 AAA_30: AAA domain; P 97.6 0.00042 9.1E-09 55.7 8.8 63 92-157 1-65 (196)
121 KOG1803 DNA helicase [Replicat 97.6 0.0002 4.3E-09 65.9 7.4 65 92-159 185-250 (649)
122 COG0556 UvrB Helicase subunit 97.6 0.00013 2.8E-09 66.4 5.9 67 92-164 12-83 (663)
123 KOG0947 Cytoplasmic exosomal R 97.4 0.00058 1.3E-08 65.8 7.5 73 88-164 294-366 (1248)
124 CHL00122 secA preprotein trans 97.3 0.0013 2.8E-08 63.3 9.4 96 89-200 74-169 (870)
125 PF02562 PhoH: PhoH-like prote 97.2 0.0009 2E-08 54.4 6.0 59 91-150 3-61 (205)
126 PF07517 SecA_DEAD: SecA DEAD- 97.0 0.013 2.9E-07 49.5 11.8 85 91-188 76-160 (266)
127 PF00176 SNF2_N: SNF2 family N 97.0 0.0051 1.1E-07 51.5 9.3 56 108-164 26-83 (299)
128 KOG1802 RNA helicase nonsense 97.0 0.0027 6E-08 59.3 7.5 75 86-162 404-478 (935)
129 PRK10919 ATP-dependent DNA hel 96.9 0.003 6.6E-08 59.9 8.0 70 92-163 2-72 (672)
130 PRK15483 type III restriction- 96.8 0.0053 1.1E-07 60.0 8.6 51 108-159 60-110 (986)
131 PF07652 Flavi_DEAD: Flaviviru 96.8 0.0017 3.7E-08 49.9 4.3 52 107-161 4-56 (148)
132 TIGR00631 uvrb excinuclease AB 96.8 0.0053 1.2E-07 58.1 8.3 66 92-163 9-79 (655)
133 PRK11054 helD DNA helicase IV; 96.8 0.011 2.3E-07 56.4 9.9 73 89-163 193-266 (684)
134 TIGR01074 rep ATP-dependent DN 96.7 0.0068 1.5E-07 57.3 8.3 70 93-164 2-72 (664)
135 PRK12902 secA preprotein trans 96.7 0.01 2.2E-07 57.5 9.3 97 89-201 83-179 (939)
136 TIGR01075 uvrD DNA helicase II 96.7 0.0059 1.3E-07 58.3 7.6 71 92-164 4-75 (715)
137 PRK11773 uvrD DNA-dependent he 96.6 0.0078 1.7E-07 57.6 8.3 71 92-164 9-80 (721)
138 KOG0949 Predicted helicase, DE 96.6 0.0065 1.4E-07 59.0 7.1 70 92-162 511-580 (1330)
139 TIGR02785 addA_Gpos recombinat 96.4 0.011 2.5E-07 59.7 8.3 68 93-162 2-69 (1232)
140 COG3973 Superfamily I DNA and 96.4 0.013 2.9E-07 54.4 7.7 85 80-165 193-287 (747)
141 PRK10536 hypothetical protein; 96.4 0.016 3.5E-07 48.8 7.6 61 88-149 55-115 (262)
142 COG4889 Predicted helicase [Ge 96.4 0.011 2.3E-07 57.2 7.0 92 80-186 149-245 (1518)
143 COG4096 HsdR Type I site-speci 96.3 0.0082 1.8E-07 57.4 6.2 73 92-165 165-242 (875)
144 PRK13894 conjugal transfer ATP 96.2 0.027 5.9E-07 48.8 8.3 46 83-131 125-171 (319)
145 TIGR01073 pcrA ATP-dependent D 96.1 0.022 4.7E-07 54.5 8.0 70 92-163 4-74 (726)
146 PRK13833 conjugal transfer pro 96.0 0.043 9.2E-07 47.7 8.6 39 93-132 129-168 (323)
147 PRK11131 ATP-dependent RNA hel 96.0 0.022 4.9E-07 57.4 7.5 64 97-164 79-149 (1294)
148 PRK05973 replicative DNA helic 95.9 0.024 5.3E-07 47.1 6.5 54 105-162 62-115 (237)
149 PRK04914 ATP-dependent helicas 95.9 0.042 9.1E-07 54.2 8.9 67 92-160 152-220 (956)
150 cd01124 KaiC KaiC is a circadi 95.9 0.024 5.2E-07 44.3 6.1 49 110-162 2-50 (187)
151 PLN03142 Probable chromatin-re 95.8 0.08 1.7E-06 52.6 10.6 72 92-164 169-244 (1033)
152 TIGR01448 recD_rel helicase, p 95.8 0.08 1.7E-06 50.8 10.3 65 91-156 322-386 (720)
153 PRK05298 excinuclease ABC subu 95.8 0.039 8.5E-07 52.3 8.0 66 92-163 12-82 (652)
154 PRK14722 flhF flagellar biosyn 95.8 0.12 2.6E-06 45.9 10.4 70 63-133 74-163 (374)
155 TIGR02782 TrbB_P P-type conjug 95.7 0.05 1.1E-06 46.7 7.7 57 93-150 117-174 (299)
156 PF05970 PIF1: PIF1-like helic 95.6 0.031 6.8E-07 49.1 6.1 69 92-163 1-77 (364)
157 PF09848 DUF2075: Uncharacteri 95.6 0.028 6E-07 49.2 5.7 51 109-160 3-53 (352)
158 TIGR03499 FlhF flagellar biosy 95.6 0.1 2.3E-06 44.3 9.1 68 67-134 138-221 (282)
159 KOG0950 DNA polymerase theta/e 95.6 0.027 5.9E-07 54.6 6.0 87 76-165 206-296 (1008)
160 TIGR03877 thermo_KaiC_1 KaiC d 95.5 0.031 6.6E-07 46.1 5.6 53 107-163 21-73 (237)
161 KOG0951 RNA helicase BRR2, DEA 95.5 0.015 3.2E-07 58.0 3.9 72 90-165 1141-1214(1674)
162 PRK12903 secA preprotein trans 95.5 0.083 1.8E-06 51.3 8.8 97 89-201 76-172 (925)
163 TIGR02768 TraA_Ti Ti-type conj 95.4 0.16 3.4E-06 49.0 10.6 61 92-155 352-413 (744)
164 COG1484 DnaC DNA replication p 95.3 0.06 1.3E-06 45.1 6.5 67 89-159 80-153 (254)
165 PF06745 KaiC: KaiC; InterPro 95.2 0.047 1E-06 44.4 5.7 52 107-162 19-71 (226)
166 PRK13851 type IV secretion sys 95.2 0.033 7.1E-07 48.8 5.0 30 103-133 158-187 (344)
167 COG4962 CpaF Flp pilus assembl 95.2 0.042 9.1E-07 48.0 5.4 78 65-151 135-213 (355)
168 PF01695 IstB_IS21: IstB-like 95.1 0.048 1E-06 43.2 5.3 47 105-155 45-91 (178)
169 PRK10875 recD exonuclease V su 95.1 0.15 3.3E-06 48.1 9.4 66 94-159 154-220 (615)
170 TIGR01447 recD exodeoxyribonuc 95.0 0.15 3.3E-06 47.8 9.1 66 94-159 147-214 (586)
171 PRK13889 conjugal transfer rel 95.0 0.12 2.7E-06 51.1 8.7 61 92-155 346-407 (988)
172 PRK05703 flhF flagellar biosyn 94.6 0.27 5.8E-06 44.3 9.3 63 68-130 166-244 (424)
173 TIGR02525 plasmid_TraJ plasmid 94.6 0.13 2.8E-06 45.6 7.1 25 108-133 150-174 (372)
174 PRK13900 type IV secretion sys 94.6 0.053 1.1E-06 47.3 4.5 30 104-134 157-186 (332)
175 KOG1805 DNA replication helica 94.5 0.11 2.4E-06 50.7 6.9 67 90-159 667-734 (1100)
176 cd01130 VirB11-like_ATPase Typ 94.3 0.09 1.9E-06 41.6 5.0 32 93-124 10-42 (186)
177 TIGR03878 thermo_KaiC_2 KaiC d 94.3 0.089 1.9E-06 44.1 5.2 38 107-147 36-73 (259)
178 PRK06921 hypothetical protein; 94.1 0.83 1.8E-05 38.5 10.8 48 106-156 116-163 (266)
179 PRK08181 transposase; Validate 94.0 0.3 6.4E-06 41.4 7.9 58 93-154 88-149 (269)
180 PRK06526 transposase; Provisio 94.0 0.12 2.7E-06 43.3 5.5 47 104-154 95-141 (254)
181 PRK04328 hypothetical protein; 93.9 0.15 3.3E-06 42.4 5.9 52 107-162 23-74 (249)
182 PRK12377 putative replication 93.9 0.29 6.3E-06 40.9 7.5 45 108-156 102-146 (248)
183 TIGR03881 KaiC_arch_4 KaiC dom 93.8 0.17 3.7E-06 41.1 5.9 52 107-162 20-71 (229)
184 PF00437 T2SE: Type II/IV secr 93.8 0.076 1.6E-06 44.4 3.9 30 105-135 125-154 (270)
185 TIGR01967 DEAH_box_HrpA ATP-de 93.8 0.27 5.9E-06 49.9 8.2 68 89-159 61-132 (1283)
186 PF02399 Herpes_ori_bp: Origin 93.7 0.12 2.6E-06 49.7 5.4 51 109-161 51-101 (824)
187 COG2804 PulE Type II secretory 93.7 0.19 4.2E-06 45.9 6.4 41 93-134 242-284 (500)
188 TIGR03880 KaiC_arch_3 KaiC dom 93.6 0.2 4.3E-06 40.6 5.9 53 107-163 16-68 (224)
189 PF13481 AAA_25: AAA domain; P 93.6 0.29 6.4E-06 38.3 6.7 58 106-164 31-95 (193)
190 smart00382 AAA ATPases associa 93.5 0.079 1.7E-06 38.0 3.1 39 107-148 2-40 (148)
191 TIGR02237 recomb_radB DNA repa 93.4 0.2 4.4E-06 40.0 5.7 38 107-147 12-49 (209)
192 PRK12727 flagellar biosynthesi 93.4 1.6 3.5E-05 40.6 12.0 68 65-132 294-375 (559)
193 COG0467 RAD55 RecA-superfamily 93.4 0.19 4.1E-06 41.8 5.7 55 107-165 23-77 (260)
194 PF10412 TrwB_AAD_bind: Type I 93.4 0.1 2.2E-06 46.3 4.3 48 105-156 13-61 (386)
195 COG0210 UvrD Superfamily I DNA 93.4 0.27 5.9E-06 46.4 7.4 71 92-164 2-73 (655)
196 COG1875 NYN ribonuclease and A 93.4 0.21 4.5E-06 44.2 5.9 65 88-152 224-290 (436)
197 PF12846 AAA_10: AAA-like doma 93.4 0.18 3.8E-06 42.0 5.5 42 108-152 2-43 (304)
198 TIGR02655 circ_KaiC circadian 93.3 0.17 3.6E-06 46.3 5.5 53 107-163 21-74 (484)
199 PRK08533 flagellar accessory p 93.3 0.23 5E-06 40.9 5.8 53 106-162 23-75 (230)
200 PRK07952 DNA replication prote 93.3 0.51 1.1E-05 39.3 7.9 59 94-156 78-144 (244)
201 PRK06835 DNA replication prote 93.2 0.55 1.2E-05 40.9 8.3 46 106-155 182-227 (329)
202 KOG0390 DNA repair protein, SN 93.1 0.77 1.7E-05 44.3 9.7 93 92-193 238-346 (776)
203 PRK12900 secA preprotein trans 93.0 0.36 7.8E-06 47.6 7.5 95 92-201 138-232 (1025)
204 COG3587 Restriction endonuclea 93.0 0.13 2.8E-06 49.6 4.4 47 109-156 76-122 (985)
205 cd00009 AAA The AAA+ (ATPases 93.0 0.62 1.3E-05 33.6 7.3 18 107-124 19-36 (151)
206 TIGR03743 SXT_TraD conjugative 93.0 0.32 6.9E-06 46.1 7.0 54 108-164 177-232 (634)
207 cd00983 recA RecA is a bacter 92.9 0.38 8.2E-06 41.9 6.9 40 107-149 55-94 (325)
208 PRK04296 thymidine kinase; Pro 92.9 0.18 3.9E-06 40.2 4.6 37 107-146 2-38 (190)
209 PRK10436 hypothetical protein; 92.9 0.22 4.8E-06 45.4 5.6 39 94-133 203-243 (462)
210 cd01120 RecA-like_NTPases RecA 92.9 0.34 7.4E-06 36.1 5.9 40 110-152 2-41 (165)
211 PRK13826 Dtr system oriT relax 92.8 1.1 2.3E-05 45.1 10.6 62 92-156 381-443 (1102)
212 TIGR02538 type_IV_pilB type IV 92.8 0.23 4.9E-06 46.4 5.7 39 94-133 301-341 (564)
213 TIGR02524 dot_icm_DotB Dot/Icm 92.8 0.35 7.5E-06 42.6 6.6 27 106-133 133-159 (358)
214 PF02534 T4SS-DNA_transf: Type 92.8 0.098 2.1E-06 47.2 3.2 50 108-162 45-94 (469)
215 PRK08116 hypothetical protein; 92.8 0.96 2.1E-05 38.1 9.0 44 109-156 116-159 (268)
216 COG1419 FlhF Flagellar GTP-bin 92.7 0.52 1.1E-05 42.1 7.5 78 107-194 203-280 (407)
217 cd01129 PulE-GspE PulE/GspE Th 92.7 0.33 7.2E-06 40.8 6.1 38 94-132 65-104 (264)
218 TIGR01420 pilT_fam pilus retra 92.7 0.42 9.1E-06 41.7 6.9 26 107-133 122-147 (343)
219 PRK11889 flhF flagellar biosyn 92.6 0.56 1.2E-05 42.2 7.6 27 108-134 242-268 (436)
220 TIGR03819 heli_sec_ATPase heli 92.5 0.4 8.6E-06 42.0 6.5 47 83-132 155-202 (340)
221 PRK12726 flagellar biosynthesi 92.5 1.4 2.9E-05 39.5 9.8 69 67-135 146-234 (407)
222 cd00984 DnaB_C DnaB helicase C 92.4 0.46 9.9E-06 38.7 6.4 39 106-147 12-51 (242)
223 PRK09354 recA recombinase A; P 92.3 0.52 1.1E-05 41.5 6.9 38 107-147 60-97 (349)
224 COG0630 VirB11 Type IV secreto 92.2 0.49 1.1E-05 40.9 6.7 40 92-132 127-167 (312)
225 TIGR02655 circ_KaiC circadian 92.2 0.3 6.6E-06 44.6 5.6 58 101-162 252-314 (484)
226 KOG1132 Helicase of the DEAD s 92.1 0.62 1.3E-05 45.3 7.7 39 92-130 21-63 (945)
227 TIGR02640 gas_vesic_GvpN gas v 92.1 0.17 3.7E-06 42.4 3.6 25 101-125 15-39 (262)
228 TIGR03754 conj_TOL_TraD conjug 92.1 0.54 1.2E-05 44.5 7.2 53 108-163 181-235 (643)
229 TIGR02012 tigrfam_recA protein 92.0 0.37 8E-06 41.9 5.7 29 108-136 56-84 (321)
230 PRK06067 flagellar accessory p 92.0 0.53 1.2E-05 38.4 6.4 52 107-162 25-76 (234)
231 cd01122 GP4d_helicase GP4d_hel 92.0 0.19 4.2E-06 41.8 3.9 49 106-158 29-78 (271)
232 COG1219 ClpX ATP-dependent pro 92.0 0.099 2.1E-06 45.5 2.1 19 106-124 96-114 (408)
233 cd01121 Sms Sms (bacterial rad 91.9 1.2 2.6E-05 39.5 8.9 52 107-162 82-133 (372)
234 TIGR02788 VirB11 P-type DNA tr 91.9 0.18 4E-06 43.3 3.7 21 104-124 141-161 (308)
235 PRK09183 transposase/IS protei 91.8 0.35 7.6E-06 40.6 5.2 47 104-154 99-145 (259)
236 cd01131 PilT Pilus retraction 91.8 0.36 7.9E-06 38.6 5.1 23 110-133 4-26 (198)
237 PF12340 DUF3638: Protein of u 91.7 0.95 2.1E-05 37.5 7.5 82 76-162 9-93 (229)
238 cd01127 TrwB Bacterial conjuga 91.7 0.19 4.2E-06 44.9 3.7 46 105-153 40-85 (410)
239 TIGR02533 type_II_gspE general 91.7 0.37 8.1E-06 44.2 5.6 39 94-133 227-267 (486)
240 cd01126 TraG_VirD4 The TraG/Tr 91.7 0.1 2.2E-06 46.0 2.0 48 109-161 1-48 (384)
241 TIGR02760 TraI_TIGR conjugativ 91.6 0.84 1.8E-05 48.6 8.7 63 91-155 1018-1085(1960)
242 KOG2340 Uncharacterized conser 91.6 1.2 2.6E-05 41.3 8.5 76 90-165 214-320 (698)
243 PRK12723 flagellar biosynthesi 91.4 0.77 1.7E-05 41.0 7.1 23 108-130 175-197 (388)
244 PRK14712 conjugal transfer nic 91.3 1 2.2E-05 46.9 8.6 62 92-154 835-900 (1623)
245 PRK08727 hypothetical protein; 91.1 0.78 1.7E-05 37.7 6.5 50 109-162 43-92 (233)
246 cd01394 radB RadB. The archaea 91.1 0.62 1.3E-05 37.5 5.8 42 101-145 8-54 (218)
247 KOG1131 RNA polymerase II tran 91.0 2.1 4.5E-05 39.8 9.5 75 89-163 13-92 (755)
248 PRK13709 conjugal transfer nic 91.0 1.2 2.6E-05 46.8 8.9 63 92-155 967-1033(1747)
249 PRK12901 secA preprotein trans 91.0 0.67 1.5E-05 46.0 6.7 96 92-201 169-264 (1112)
250 PRK13700 conjugal transfer pro 90.8 0.28 6.1E-06 46.9 4.0 46 105-153 183-228 (732)
251 KOG0920 ATP-dependent RNA heli 90.5 1.3 2.8E-05 43.6 8.2 65 94-158 175-239 (924)
252 PRK14723 flhF flagellar biosyn 90.5 2.1 4.6E-05 41.4 9.6 64 68-131 130-209 (767)
253 KOG1123 RNA polymerase II tran 90.4 0.22 4.9E-06 45.7 2.8 70 92-167 302-374 (776)
254 PRK09361 radB DNA repair and r 90.4 0.48 1E-05 38.3 4.6 38 107-147 23-60 (225)
255 PF13555 AAA_29: P-loop contai 90.1 0.29 6.3E-06 32.1 2.5 18 107-124 23-40 (62)
256 PF00448 SRP54: SRP54-type pro 90.1 1.6 3.4E-05 35.1 7.3 25 110-134 4-28 (196)
257 PF00308 Bac_DnaA: Bacterial d 90.0 0.57 1.2E-05 38.2 4.8 37 109-146 36-72 (219)
258 PF12775 AAA_7: P-loop contain 90.0 0.23 5.1E-06 42.0 2.5 21 104-124 30-50 (272)
259 TIGR00416 sms DNA repair prote 90.0 0.68 1.5E-05 42.1 5.6 52 107-162 94-145 (454)
260 PF00004 AAA: ATPase family as 89.9 0.25 5.5E-06 35.8 2.3 16 110-125 1-16 (132)
261 PRK14721 flhF flagellar biosyn 89.9 4.6 0.0001 36.4 10.7 64 66-129 135-213 (420)
262 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.8 0.65 1.4E-05 37.0 4.9 26 108-133 39-64 (205)
263 PRK09302 circadian clock prote 89.8 0.7 1.5E-05 42.4 5.6 51 108-162 274-324 (509)
264 PRK13764 ATPase; Provisional 89.8 1 2.3E-05 42.4 6.8 28 106-134 256-283 (602)
265 COG3972 Superfamily I DNA and 89.5 0.22 4.8E-06 45.6 2.1 68 94-163 164-231 (660)
266 TIGR02784 addA_alphas double-s 89.5 1.3 2.8E-05 44.8 7.7 56 107-162 10-65 (1141)
267 PRK11823 DNA repair protein Ra 89.3 0.88 1.9E-05 41.3 5.8 53 107-163 80-132 (446)
268 TIGR02760 TraI_TIGR conjugativ 89.2 2 4.3E-05 45.9 9.0 63 92-157 429-493 (1960)
269 TIGR02759 TraD_Ftype type IV c 89.1 0.69 1.5E-05 43.3 5.1 42 106-150 175-216 (566)
270 PF13191 AAA_16: AAA ATPase do 89.1 0.98 2.1E-05 34.7 5.2 28 107-135 24-51 (185)
271 TIGR03420 DnaA_homol_Hda DnaA 89.0 0.83 1.8E-05 36.7 5.0 20 107-126 38-57 (226)
272 PF13207 AAA_17: AAA domain; P 89.0 0.28 6.2E-06 35.3 2.0 16 110-125 2-17 (121)
273 COG1643 HrpA HrpA-like helicas 89.0 1.6 3.5E-05 42.7 7.6 64 95-160 53-116 (845)
274 PF13401 AAA_22: AAA domain; P 88.9 0.99 2.2E-05 32.7 5.0 23 107-129 4-26 (131)
275 TIGR02562 cas3_yersinia CRISPR 88.8 3.1 6.6E-05 41.7 9.4 86 93-187 409-502 (1110)
276 PF13238 AAA_18: AAA domain; P 88.8 0.3 6.4E-06 35.2 2.0 17 110-126 1-17 (129)
277 COG1222 RPT1 ATP-dependent 26S 88.8 0.65 1.4E-05 41.0 4.3 17 108-124 186-202 (406)
278 KOG1002 Nucleotide excision re 88.7 1.4 3E-05 40.7 6.5 88 92-194 184-276 (791)
279 cd01363 Motor_domain Myosin an 88.7 0.35 7.5E-06 38.4 2.4 25 99-123 14-40 (186)
280 PRK14087 dnaA chromosomal repl 88.6 1.6 3.4E-05 39.7 7.0 47 108-156 142-188 (450)
281 PRK09302 circadian clock prote 88.6 1 2.3E-05 41.3 5.9 52 107-162 31-83 (509)
282 PF01935 DUF87: Domain of unkn 88.5 0.78 1.7E-05 37.2 4.5 41 107-149 23-63 (229)
283 PF13671 AAA_33: AAA domain; P 88.5 0.34 7.3E-06 35.9 2.2 15 110-124 2-16 (143)
284 COG2805 PilT Tfp pilus assembl 88.5 0.97 2.1E-05 39.1 5.1 26 110-136 128-153 (353)
285 KOG0953 Mitochondrial RNA heli 88.4 0.67 1.5E-05 43.1 4.4 46 110-162 194-239 (700)
286 COG0610 Type I site-specific r 88.4 1.5 3.3E-05 43.6 7.1 56 109-165 275-330 (962)
287 KOG2373 Predicted mitochondria 88.3 0.94 2E-05 40.0 5.0 53 102-154 264-320 (514)
288 TIGR01425 SRP54_euk signal rec 88.2 3.8 8.2E-05 37.1 9.0 34 109-145 102-135 (429)
289 PRK08084 DNA replication initi 88.1 1.1 2.4E-05 36.9 5.1 18 108-125 46-63 (235)
290 PF07728 AAA_5: AAA domain (dy 88.1 0.35 7.6E-06 35.9 2.0 16 109-124 1-16 (139)
291 PRK13897 type IV secretion sys 88.0 0.42 9E-06 45.1 2.8 50 108-162 159-208 (606)
292 PRK00149 dnaA chromosomal repl 88.0 1.7 3.6E-05 39.3 6.7 45 108-154 149-193 (450)
293 cd03115 SRP The signal recogni 88.0 1.1 2.3E-05 34.7 4.8 23 110-132 3-25 (173)
294 PF13177 DNA_pol3_delta2: DNA 87.9 4 8.6E-05 31.6 7.9 75 109-188 21-116 (162)
295 PRK08903 DnaA regulatory inact 87.9 1.1 2.3E-05 36.3 4.9 19 107-125 42-60 (227)
296 TIGR02880 cbbX_cfxQ probable R 87.7 1.3 2.8E-05 37.7 5.5 18 107-124 58-75 (284)
297 KOG1133 Helicase of the DEAD s 87.7 1.1 2.4E-05 42.6 5.4 42 92-133 15-60 (821)
298 PRK06893 DNA replication initi 87.7 0.94 2E-05 37.1 4.5 18 109-126 41-58 (229)
299 PF05729 NACHT: NACHT domain 87.7 1.2 2.7E-05 33.3 4.9 24 109-132 2-25 (166)
300 cd01393 recA_like RecA is a b 87.7 1.6 3.5E-05 35.1 5.8 43 107-149 19-64 (226)
301 PF06309 Torsin: Torsin; Inte 87.6 1.1 2.5E-05 33.6 4.5 51 110-160 56-111 (127)
302 TIGR00362 DnaA chromosomal rep 87.6 1.7 3.8E-05 38.5 6.5 38 108-146 137-174 (405)
303 KOG0952 DNA/RNA helicase MER3/ 87.6 0.59 1.3E-05 46.3 3.7 85 92-185 927-1012(1230)
304 PRK05642 DNA replication initi 87.3 1.6 3.5E-05 35.9 5.7 42 108-153 46-87 (234)
305 PF02374 ArsA_ATPase: Anion-tr 87.2 1.4 3.1E-05 37.8 5.5 40 110-152 4-45 (305)
306 PRK14974 cell division protein 87.1 2.4 5.2E-05 37.1 7.0 48 109-159 142-192 (336)
307 PF02367 UPF0079: Uncharacteri 87.1 0.75 1.6E-05 34.3 3.3 41 105-151 13-53 (123)
308 KOG0989 Replication factor C, 87.0 0.89 1.9E-05 39.4 4.0 23 108-130 58-80 (346)
309 KOG0385 Chromatin remodeling c 87.0 4.6 0.0001 39.1 9.0 72 92-165 167-243 (971)
310 CHL00181 cbbX CbbX; Provisiona 86.9 1.5 3.2E-05 37.4 5.4 21 107-127 59-79 (287)
311 COG1074 RecB ATP-dependent exo 86.8 1.5 3.3E-05 44.4 6.2 55 106-160 15-71 (1139)
312 cd00544 CobU Adenosylcobinamid 86.8 1.4 3.1E-05 34.5 4.9 45 110-160 2-46 (169)
313 TIGR00064 ftsY signal recognit 86.8 1.3 2.8E-05 37.5 5.0 35 108-145 73-107 (272)
314 PRK13850 type IV secretion sys 86.7 0.63 1.4E-05 44.4 3.3 48 108-160 140-187 (670)
315 TIGR02773 addB_Gpos ATP-depend 86.7 1.5 3.2E-05 44.5 6.1 50 111-161 5-54 (1158)
316 PF09439 SRPRB: Signal recogni 86.6 0.63 1.4E-05 37.1 2.8 23 107-129 3-25 (181)
317 PRK11331 5-methylcytosine-spec 86.3 0.99 2.1E-05 41.1 4.2 33 93-125 180-212 (459)
318 KOG0926 DEAH-box RNA helicase 86.3 0.6 1.3E-05 45.2 2.9 25 100-124 264-288 (1172)
319 KOG4150 Predicted ATP-dependen 86.2 0.37 7.9E-06 45.0 1.4 106 86-197 280-385 (1034)
320 COG4185 Uncharacterized protei 86.2 0.23 5E-06 39.1 0.1 71 110-194 5-91 (187)
321 TIGR01547 phage_term_2 phage t 86.2 2.8 6.1E-05 37.0 7.0 54 110-163 4-58 (396)
322 KOG0924 mRNA splicing factor A 86.2 2.5 5.5E-05 40.5 6.8 62 94-159 358-421 (1042)
323 KOG4439 RNA polymerase II tran 86.1 2.4 5.1E-05 40.6 6.6 85 92-186 325-421 (901)
324 PRK00131 aroK shikimate kinase 85.8 0.51 1.1E-05 36.0 1.9 21 105-125 2-22 (175)
325 TIGR03015 pepcterm_ATPase puta 85.7 1.2 2.5E-05 36.8 4.2 35 92-126 23-62 (269)
326 TIGR02767 TraG-Ti Ti-type conj 85.6 0.84 1.8E-05 43.2 3.5 49 108-161 212-260 (623)
327 TIGR02881 spore_V_K stage V sp 85.5 1.5 3.3E-05 36.5 4.7 19 108-126 43-61 (261)
328 PRK13822 conjugal transfer cou 85.4 0.79 1.7E-05 43.5 3.2 49 108-161 225-273 (641)
329 cd01370 KISc_KIP3_like Kinesin 85.3 0.74 1.6E-05 40.1 2.9 24 101-124 80-105 (338)
330 cd01368 KISc_KIF23_like Kinesi 85.2 0.72 1.6E-05 40.3 2.7 24 101-124 81-106 (345)
331 cd01367 KISc_KIF2_like Kinesin 85.2 0.71 1.5E-05 39.9 2.6 25 101-125 77-103 (322)
332 TIGR00150 HI0065_YjeE ATPase, 84.9 0.9 1.9E-05 34.4 2.8 41 106-152 21-61 (133)
333 TIGR02238 recomb_DMC1 meiotic 84.9 3.1 6.8E-05 35.9 6.5 62 100-161 84-154 (313)
334 PRK08939 primosomal protein Dn 84.9 1.8 3.9E-05 37.3 5.0 27 107-133 156-182 (306)
335 KOG0745 Putative ATP-dependent 84.8 0.54 1.2E-05 42.6 1.7 18 107-124 226-243 (564)
336 PRK12724 flagellar biosynthesi 84.7 6.1 0.00013 35.8 8.4 22 110-131 226-247 (432)
337 PRK05707 DNA polymerase III su 84.7 6.4 0.00014 34.2 8.4 89 93-186 4-118 (328)
338 PRK13880 conjugal transfer cou 84.7 0.72 1.6E-05 43.8 2.6 45 108-157 176-220 (636)
339 PRK14088 dnaA chromosomal repl 84.6 1.8 4E-05 39.1 5.1 38 108-146 131-168 (440)
340 cd01373 KISc_KLP2_like Kinesin 84.6 0.85 1.8E-05 39.7 2.9 22 102-123 68-91 (337)
341 PF04665 Pox_A32: Poxvirus A32 84.6 1.7 3.6E-05 36.3 4.5 16 109-124 15-30 (241)
342 KOG0387 Transcription-coupled 84.4 4.1 8.8E-05 39.5 7.4 69 92-164 205-280 (923)
343 PRK10416 signal recognition pa 84.4 1.9 4.1E-05 37.4 4.9 35 108-145 115-149 (318)
344 cd01369 KISc_KHC_KIF5 Kinesin 84.2 0.88 1.9E-05 39.3 2.8 23 101-123 69-93 (325)
345 PF00225 Kinesin: Kinesin moto 84.2 1 2.2E-05 38.8 3.2 26 101-126 67-94 (335)
346 PF02456 Adeno_IVa2: Adenoviru 84.2 1.4 3.1E-05 38.2 3.9 46 110-158 90-137 (369)
347 PRK06995 flhF flagellar biosyn 84.2 4.8 0.0001 37.0 7.6 24 108-131 257-280 (484)
348 cd01375 KISc_KIF9_like Kinesin 84.2 0.85 1.9E-05 39.6 2.7 24 101-124 73-98 (334)
349 PRK10078 ribose 1,5-bisphospho 84.1 0.85 1.8E-05 35.9 2.5 19 107-125 2-20 (186)
350 cd01376 KISc_KID_like Kinesin 84.1 0.97 2.1E-05 39.0 3.0 24 101-124 73-98 (319)
351 cd01365 KISc_KIF1A_KIF1B Kines 84.0 0.89 1.9E-05 39.8 2.8 23 101-123 81-105 (356)
352 PHA02244 ATPase-like protein 83.9 1.5 3.3E-05 38.9 4.2 22 103-124 115-136 (383)
353 PRK12402 replication factor C 83.9 1.5 3.2E-05 37.4 4.1 18 109-126 38-55 (337)
354 PRK14729 miaA tRNA delta(2)-is 83.9 0.79 1.7E-05 39.5 2.3 21 108-128 5-25 (300)
355 PRK09519 recA DNA recombinatio 83.8 3.3 7.3E-05 40.2 6.7 29 108-136 61-89 (790)
356 KOG1533 Predicted GTPase [Gene 83.6 1.4 3E-05 36.9 3.5 24 110-134 5-28 (290)
357 PRK06731 flhF flagellar biosyn 83.5 7.6 0.00017 32.9 8.1 24 108-131 76-99 (270)
358 PRK13531 regulatory ATPase Rav 83.4 1.2 2.7E-05 40.8 3.5 24 101-124 33-56 (498)
359 PHA02533 17 large terminase pr 83.4 10 0.00022 35.4 9.5 72 92-164 59-130 (534)
360 PRK10867 signal recognition pa 83.3 2 4.4E-05 38.8 4.8 33 110-145 103-136 (433)
361 KOG1807 Helicases [Replication 83.3 5.6 0.00012 38.6 7.7 69 92-160 378-449 (1025)
362 cd01123 Rad51_DMC1_radA Rad51_ 83.3 1.3 2.8E-05 35.9 3.2 41 107-147 19-62 (235)
363 PRK13876 conjugal transfer cou 83.2 0.85 1.8E-05 43.5 2.5 45 108-157 145-189 (663)
364 PF03796 DnaB_C: DnaB-like hel 83.1 5.1 0.00011 33.1 6.9 38 108-147 20-57 (259)
365 TIGR02746 TraC-F-type type-IV 83.1 2.2 4.8E-05 41.2 5.3 39 108-149 431-469 (797)
366 PTZ00035 Rad51 protein; Provis 83.0 6.8 0.00015 34.2 7.9 47 101-147 107-161 (337)
367 KOG0389 SNF2 family DNA-depend 83.0 6.9 0.00015 38.1 8.2 90 93-194 400-493 (941)
368 PRK08154 anaerobic benzoate ca 82.8 7.9 0.00017 33.2 8.1 83 44-126 33-152 (309)
369 PF07724 AAA_2: AAA domain (Cd 82.8 0.93 2E-05 35.6 2.2 16 109-124 5-20 (171)
370 PRK14086 dnaA chromosomal repl 82.6 3.9 8.4E-05 38.7 6.5 45 109-155 316-360 (617)
371 COG0593 DnaA ATPase involved i 82.6 3.6 7.8E-05 37.0 6.0 40 108-148 114-153 (408)
372 PF14532 Sigma54_activ_2: Sigm 82.5 2.2 4.7E-05 31.8 4.1 20 105-124 19-38 (138)
373 PF01078 Mg_chelatase: Magnesi 82.4 1.7 3.6E-05 35.4 3.5 27 98-124 12-39 (206)
374 cd00227 CPT Chloramphenicol (C 82.2 1.1 2.5E-05 34.8 2.5 19 107-125 2-20 (175)
375 PRK00771 signal recognition pa 82.0 2.5 5.5E-05 38.3 4.9 34 109-145 97-130 (437)
376 cd01374 KISc_CENP_E Kinesin mo 82.0 1.2 2.6E-05 38.4 2.8 25 101-125 66-92 (321)
377 TIGR02928 orc1/cdc6 family rep 81.8 4.9 0.00011 34.7 6.6 17 108-124 41-57 (365)
378 PRK14530 adenylate kinase; Pro 81.8 1 2.2E-05 36.3 2.1 20 106-125 2-21 (215)
379 PF05496 RuvB_N: Holliday junc 81.8 3.1 6.6E-05 34.5 4.9 49 109-162 52-100 (233)
380 TIGR01650 PD_CobS cobaltochela 81.7 1.7 3.6E-05 37.9 3.5 24 102-125 59-82 (327)
381 PTZ00301 uridine kinase; Provi 81.7 3.3 7.2E-05 33.7 5.1 15 110-124 6-20 (210)
382 TIGR01313 therm_gnt_kin carboh 81.5 0.96 2.1E-05 34.5 1.8 15 110-124 1-15 (163)
383 PLN02165 adenylate isopentenyl 81.5 1.2 2.7E-05 38.9 2.6 20 107-126 43-62 (334)
384 COG1474 CDC6 Cdc6-related prot 81.4 8 0.00017 34.2 7.8 24 109-132 44-67 (366)
385 cd00071 GMPK Guanosine monopho 81.4 1.6 3.4E-05 32.8 2.9 15 110-124 2-16 (137)
386 PRK04301 radA DNA repair and r 81.4 3.6 7.8E-05 35.4 5.5 53 108-160 103-159 (317)
387 PRK00411 cdc6 cell division co 81.4 6.2 0.00013 34.6 7.1 21 108-128 56-76 (394)
388 KOG0925 mRNA splicing factor A 81.3 6.9 0.00015 36.2 7.3 88 70-159 25-112 (699)
389 PTZ00293 thymidine kinase; Pro 81.3 2.2 4.8E-05 34.9 3.9 38 107-147 4-41 (211)
390 TIGR02688 conserved hypothetic 81.1 10 0.00022 34.5 8.3 34 102-135 204-238 (449)
391 TIGR02322 phosphon_PhnN phosph 81.1 1.2 2.6E-05 34.5 2.3 18 108-125 2-19 (179)
392 PF00625 Guanylate_kin: Guanyl 81.0 3.1 6.7E-05 32.6 4.6 18 107-124 2-19 (183)
393 PRK06620 hypothetical protein; 80.9 1 2.2E-05 36.7 1.8 18 108-125 45-62 (214)
394 TIGR00382 clpX endopeptidase C 80.9 1.2 2.6E-05 40.1 2.4 18 107-124 116-133 (413)
395 COG3451 VirB4 Type IV secretor 80.8 2.6 5.7E-05 41.1 4.8 39 109-149 438-476 (796)
396 PF00154 RecA: recA bacterial 80.8 5.9 0.00013 34.5 6.6 29 107-135 53-81 (322)
397 PRK00300 gmk guanylate kinase; 80.8 1.3 2.7E-05 35.2 2.3 18 106-123 4-21 (205)
398 cd02025 PanK Pantothenate kina 80.6 3.2 6.8E-05 33.9 4.7 23 110-133 2-24 (220)
399 PRK07261 topology modulation p 80.6 1.3 2.8E-05 34.6 2.2 18 109-126 2-19 (171)
400 PRK05342 clpX ATP-dependent pr 80.6 1.3 2.7E-05 39.9 2.4 18 107-124 108-125 (412)
401 cd01372 KISc_KIF4 Kinesin moto 80.3 1.4 3.1E-05 38.2 2.6 23 102-124 67-91 (341)
402 TIGR03263 guanyl_kin guanylate 80.3 1.3 2.8E-05 34.3 2.2 18 107-124 1-18 (180)
403 PRK08769 DNA polymerase III su 80.0 26 0.00056 30.4 10.3 91 92-187 4-126 (319)
404 PLN03187 meiotic recombination 80.0 18 0.00038 31.8 9.4 53 109-161 128-184 (344)
405 cd03114 ArgK-like The function 79.9 4.3 9.4E-05 30.9 5.0 21 110-130 2-22 (148)
406 COG0714 MoxR-like ATPases [Gen 79.9 2.3 5.1E-05 36.6 3.9 23 102-124 38-60 (329)
407 PRK08118 topology modulation p 79.8 1.3 2.9E-05 34.5 2.1 16 109-124 3-18 (167)
408 PRK12422 chromosomal replicati 79.7 4.3 9.3E-05 36.9 5.6 42 108-153 142-183 (445)
409 cd01364 KISc_BimC_Eg5 Kinesin 79.7 1.5 3.2E-05 38.3 2.6 23 102-124 75-99 (352)
410 cd01371 KISc_KIF3 Kinesin moto 79.6 1.5 3.2E-05 38.0 2.6 23 101-123 74-98 (333)
411 PRK00091 miaA tRNA delta(2)-is 79.5 1.4 3.1E-05 37.9 2.4 19 109-127 6-24 (307)
412 KOG0060 Long-chain acyl-CoA tr 79.4 1.3 2.7E-05 41.5 2.1 21 104-124 458-478 (659)
413 cd00106 KISc Kinesin motor dom 79.3 2 4.3E-05 37.0 3.2 24 100-123 70-95 (328)
414 cd01983 Fer4_NifH The Fer4_Nif 79.3 5.7 0.00012 26.5 5.0 21 110-130 2-22 (99)
415 TIGR00959 ffh signal recogniti 79.3 3.5 7.6E-05 37.3 4.9 22 109-130 101-122 (428)
416 TIGR00176 mobB molybdopterin-g 79.3 4.7 0.0001 31.0 5.0 18 110-127 2-19 (155)
417 TIGR03600 phage_DnaB phage rep 79.1 5.8 0.00013 35.4 6.3 37 108-147 195-232 (421)
418 KOG0242 Kinesin-like protein [ 79.0 1.5 3.3E-05 41.9 2.6 23 101-123 79-103 (675)
419 PRK08506 replicative DNA helic 79.0 5.6 0.00012 36.3 6.2 47 108-158 193-239 (472)
420 PF03193 DUF258: Protein of un 78.9 4.3 9.3E-05 31.7 4.7 43 81-123 4-51 (161)
421 smart00129 KISc Kinesin motor, 78.8 2.2 4.7E-05 36.9 3.4 25 100-124 71-97 (335)
422 PF00005 ABC_tran: ABC transpo 78.8 1.7 3.7E-05 31.9 2.3 19 106-124 10-28 (137)
423 PRK05541 adenylylsulfate kinas 78.7 4.7 0.0001 31.2 4.9 19 106-124 6-24 (176)
424 cd01125 repA Hexameric Replica 78.7 8.1 0.00017 31.6 6.6 56 109-165 3-67 (239)
425 cd02028 UMPK_like Uridine mono 78.5 4.4 9.6E-05 31.8 4.8 15 110-124 2-16 (179)
426 PRK03992 proteasome-activating 78.3 1.6 3.4E-05 38.9 2.3 17 108-124 166-182 (389)
427 COG1136 SalX ABC-type antimicr 78.3 1.3 2.9E-05 36.6 1.7 19 105-123 29-47 (226)
428 PF05707 Zot: Zonular occluden 78.2 2.4 5.1E-05 33.7 3.1 27 110-136 3-30 (193)
429 cd00561 CobA_CobO_BtuR ATP:cor 78.2 5.2 0.00011 31.2 5.0 31 110-143 5-35 (159)
430 KOG0738 AAA+-type ATPase [Post 78.2 1.8 4E-05 38.8 2.6 23 102-124 235-262 (491)
431 KOG0729 26S proteasome regulat 78.1 1.6 3.4E-05 37.5 2.1 17 108-124 212-228 (435)
432 PF07088 GvpD: GvpD gas vesicl 78.0 1.4 3.1E-05 39.5 2.0 48 106-158 9-56 (484)
433 cd02034 CooC The accessory pro 77.8 5.5 0.00012 29.1 4.8 33 110-145 2-34 (116)
434 COG0419 SbcC ATPase involved i 77.8 1.5 3.2E-05 43.3 2.2 18 109-126 27-44 (908)
435 PRK06762 hypothetical protein; 77.7 1.8 3.9E-05 33.1 2.3 16 109-124 4-19 (166)
436 cd01366 KISc_C_terminal Kinesi 77.5 2.1 4.6E-05 36.9 2.9 25 100-124 69-95 (329)
437 PTZ00361 26 proteosome regulat 77.5 1.7 3.8E-05 39.3 2.4 18 107-124 217-234 (438)
438 TIGR00665 DnaB replicative DNA 77.4 7.4 0.00016 34.8 6.4 38 108-148 196-234 (434)
439 PRK05986 cob(I)alamin adenolsy 77.2 5.5 0.00012 32.0 5.0 31 106-136 21-51 (191)
440 COG0606 Predicted ATPase with 77.1 2.7 5.8E-05 38.4 3.4 20 105-124 196-215 (490)
441 TIGR03744 traC_PFL_4706 conjug 77.1 4.4 9.5E-05 40.0 5.2 40 108-149 476-515 (893)
442 COG0470 HolB ATPase involved i 77.0 13 0.00028 31.3 7.6 76 108-188 24-123 (325)
443 PF13476 AAA_23: AAA domain; P 77.0 1.9 4E-05 33.5 2.2 15 110-124 22-36 (202)
444 TIGR03238 dnd_assoc_3 dnd syst 77.0 2.9 6.2E-05 38.5 3.6 32 94-125 12-50 (504)
445 PF00158 Sigma54_activat: Sigm 76.9 2.7 5.8E-05 32.9 3.0 19 106-124 21-39 (168)
446 PRK14737 gmk guanylate kinase; 76.7 1.9 4E-05 34.3 2.1 18 107-124 4-21 (186)
447 PTZ00454 26S protease regulato 76.7 1.9 4.2E-05 38.5 2.4 18 107-124 179-196 (398)
448 TIGR01359 UMP_CMP_kin_fam UMP- 76.5 1.9 4.1E-05 33.5 2.1 15 110-124 2-16 (183)
449 PF00265 TK: Thymidine kinase; 76.4 4.1 8.9E-05 32.2 4.0 36 110-148 4-39 (176)
450 PRK05748 replicative DNA helic 76.4 7.8 0.00017 35.0 6.3 47 108-158 204-251 (448)
451 cd02021 GntK Gluconate kinase 76.4 2.1 4.5E-05 32.1 2.2 16 110-125 2-17 (150)
452 cd02019 NK Nucleoside/nucleoti 76.4 2.2 4.8E-05 28.0 2.1 15 110-124 2-16 (69)
453 PRK13909 putative recombinatio 76.3 6.4 0.00014 39.0 6.1 52 111-162 2-53 (910)
454 PRK06547 hypothetical protein; 76.3 2.1 4.5E-05 33.6 2.3 16 109-124 17-32 (172)
455 COG1126 GlnQ ABC-type polar am 76.2 1.9 4E-05 35.7 2.0 19 105-123 26-44 (240)
456 PF03205 MobB: Molybdopterin g 76.2 6.1 0.00013 29.9 4.8 25 110-134 3-27 (140)
457 TIGR01242 26Sp45 26S proteasom 76.2 1.9 4.2E-05 37.7 2.3 17 108-124 157-173 (364)
458 KOG0240 Kinesin (SMY1 subfamil 76.0 2.7 5.9E-05 39.0 3.2 32 92-123 58-99 (607)
459 PF03029 ATP_bind_1: Conserved 75.9 3.7 8.1E-05 34.0 3.8 32 112-144 1-32 (238)
460 cd02020 CMPK Cytidine monophos 75.8 2.2 4.8E-05 31.5 2.3 16 110-125 2-17 (147)
461 COG1223 Predicted ATPase (AAA+ 75.8 1.8 3.9E-05 37.0 1.8 17 108-124 152-168 (368)
462 TIGR02236 recomb_radA DNA repa 75.6 4 8.6E-05 34.8 4.0 40 108-147 96-138 (310)
463 TIGR01360 aden_kin_iso1 adenyl 75.3 2.2 4.9E-05 33.0 2.3 16 109-124 5-20 (188)
464 PLN03025 replication factor C 75.3 7.3 0.00016 33.4 5.6 19 108-126 35-53 (319)
465 cd01428 ADK Adenylate kinase ( 75.3 2.2 4.8E-05 33.3 2.2 15 110-124 2-16 (194)
466 cd00820 PEPCK_HprK Phosphoenol 75.2 2.2 4.7E-05 31.1 2.0 21 106-126 14-34 (107)
467 PRK14531 adenylate kinase; Pro 75.1 2.1 4.5E-05 33.6 2.0 17 109-125 4-20 (183)
468 PF05673 DUF815: Protein of un 75.1 34 0.00073 28.7 9.2 65 108-186 53-117 (249)
469 COG0542 clpA ATP-binding subun 75.1 7.7 0.00017 37.7 6.1 56 109-164 523-619 (786)
470 cd00464 SK Shikimate kinase (S 75.0 2.3 5E-05 31.7 2.2 17 109-125 1-17 (154)
471 PRK08356 hypothetical protein; 74.9 2.2 4.7E-05 33.9 2.1 16 109-124 7-22 (195)
472 PRK06217 hypothetical protein; 74.9 2.2 4.7E-05 33.4 2.1 16 109-124 3-18 (183)
473 PRK00080 ruvB Holliday junctio 74.9 3.4 7.3E-05 35.6 3.4 19 108-126 52-70 (328)
474 TIGR00609 recB exodeoxyribonuc 74.8 7.7 0.00017 39.2 6.3 54 106-160 9-64 (1087)
475 PRK13768 GTPase; Provisional 74.8 5.4 0.00012 33.2 4.5 19 109-127 4-22 (253)
476 PRK00889 adenylylsulfate kinas 74.8 6.9 0.00015 30.2 4.9 21 106-126 3-23 (175)
477 PF03237 Terminase_6: Terminas 74.8 12 0.00027 31.6 6.9 42 111-153 1-43 (384)
478 COG1224 TIP49 DNA helicase TIP 74.6 2.4 5.2E-05 37.7 2.4 20 105-124 63-82 (450)
479 PF13173 AAA_14: AAA domain 74.6 5.5 0.00012 29.2 4.1 22 107-128 2-23 (128)
480 PRK09825 idnK D-gluconate kina 74.5 2.5 5.3E-05 33.2 2.3 19 106-124 2-20 (176)
481 PRK08760 replicative DNA helic 74.4 9.2 0.0002 35.0 6.3 47 109-159 231-278 (476)
482 PF00485 PRK: Phosphoribulokin 74.4 2.2 4.8E-05 33.7 2.0 15 110-124 2-16 (194)
483 TIGR00708 cobA cob(I)alamin ad 74.4 7.5 0.00016 30.8 5.0 32 110-144 8-39 (173)
484 PRK08233 hypothetical protein; 74.2 2.4 5.1E-05 32.7 2.1 16 109-124 5-20 (182)
485 PRK14532 adenylate kinase; Pro 74.1 2.3 5.1E-05 33.2 2.1 16 109-124 2-17 (188)
486 COG1435 Tdk Thymidine kinase [ 74.1 6.4 0.00014 31.9 4.5 37 107-146 4-40 (201)
487 TIGR00174 miaA tRNA isopenteny 74.1 3.4 7.4E-05 35.3 3.2 19 110-128 2-20 (287)
488 PHA02542 41 41 helicase; Provi 74.0 8.7 0.00019 35.2 6.0 45 100-147 178-227 (473)
489 PF06068 TIP49: TIP49 C-termin 74.0 2.5 5.3E-05 37.7 2.3 39 105-146 48-86 (398)
490 COG0468 RecA RecA/RadA recombi 74.0 5.3 0.00012 34.1 4.3 40 110-152 63-102 (279)
491 PF01745 IPT: Isopentenyl tran 74.0 4.1 8.9E-05 33.6 3.5 19 110-128 4-22 (233)
492 COG0324 MiaA tRNA delta(2)-iso 74.0 2.5 5.4E-05 36.5 2.3 17 110-126 6-22 (308)
493 PLN02199 shikimate kinase 73.9 3.7 8.1E-05 35.4 3.3 25 102-126 97-121 (303)
494 PRK01184 hypothetical protein; 73.7 2.5 5.3E-05 33.0 2.1 16 110-125 4-19 (184)
495 TIGR03574 selen_PSTK L-seryl-t 73.7 6.3 0.00014 32.4 4.6 17 110-126 2-18 (249)
496 cd01918 HprK_C HprK/P, the bif 73.6 3.3 7.2E-05 31.9 2.7 23 106-128 13-35 (149)
497 TIGR03689 pup_AAA proteasome A 73.4 2.3 4.9E-05 39.4 2.0 16 108-123 217-232 (512)
498 KOG0743 AAA+-type ATPase [Post 73.0 2.5 5.5E-05 38.3 2.2 24 108-132 236-259 (457)
499 PRK13873 conjugal transfer ATP 72.7 5.7 0.00012 38.8 4.7 39 109-149 443-481 (811)
500 PF03215 Rad17: Rad17 cell cyc 72.7 4.2 9.1E-05 37.7 3.6 16 109-124 47-62 (519)
No 1
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.92 E-value=7.6e-25 Score=188.02 Aligned_cols=126 Identities=29% Similarity=0.356 Sum_probs=119.5
Q ss_pred hhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 66 SLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
...+.+|.++|+.+++.+++.+.||..||++|+++||.++.|+|+++.|.||||||.+|++||++.+...+..++++||+
T Consensus 57 ~e~~~sf~dLgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLt 136 (476)
T KOG0330|consen 57 DESFKSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLT 136 (476)
T ss_pred hhhhcchhhcCcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEec
Confidence 44567788889999999999999999999999999999999999999999999999999999999998888888999999
Q ss_pred CCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 146 PTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 146 Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||||||.||.++|..++... ++++..+.||.++..|.-.|.+.|||
T Consensus 137 PtRELA~QI~e~fe~Lg~~i--------glr~~~lvGG~~m~~q~~~L~kkPhi 182 (476)
T KOG0330|consen 137 PTRELAQQIAEQFEALGSGI--------GLRVAVLVGGMDMMLQANQLSKKPHI 182 (476)
T ss_pred CcHHHHHHHHHHHHHhcccc--------CeEEEEEecCchHHHHHHHhhcCCCE
Confidence 99999999999999999988 68999999999999999999999997
No 2
>PTZ00110 helicase; Provisional
Probab=99.90 E-value=4.9e-23 Score=188.80 Aligned_cols=124 Identities=28% Similarity=0.383 Sum_probs=111.4
Q ss_pred cHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc-----CCCcEEE
Q 028848 68 TLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQAV 142 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-----~~~~~~l 142 (202)
.+..|.+.++++.+++.|.++||..||++|.++||.+++|+|++++++||||||++|++|++..+... ..++++|
T Consensus 128 p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~L 207 (545)
T PTZ00110 128 PVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVL 207 (545)
T ss_pred ccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEE
Confidence 34556667999999999999999999999999999999999999999999999999999998877543 2467899
Q ss_pred EEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 143 IVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 143 il~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||+||+||+.|+.+.++.++... .+++.+++||.+...|...++++++|
T Consensus 208 IL~PTreLa~Qi~~~~~~~~~~~--------~i~~~~~~gg~~~~~q~~~l~~~~~I 256 (545)
T PTZ00110 208 VLAPTRELAEQIREQCNKFGASS--------KIRNTVAYGGVPKRGQIYALRRGVEI 256 (545)
T ss_pred EECChHHHHHHHHHHHHHHhccc--------CccEEEEeCCCCHHHHHHHHHcCCCE
Confidence 99999999999999999998875 57889999999999999999988886
No 3
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.90 E-value=1.3e-23 Score=188.38 Aligned_cols=121 Identities=28% Similarity=0.380 Sum_probs=113.1
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHh------cCCCcEEEEE
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQAVIV 144 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~------~~~~~~~lil 144 (202)
.|.+.++.+++...++..||..|||||.++||.++.|+|++..+.||||||++|++|++.++.. .+++|++|||
T Consensus 92 ~f~~~~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL 171 (519)
T KOG0331|consen 92 AFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVL 171 (519)
T ss_pred hhhcccccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEE
Confidence 6666799999999999999999999999999999999999999999999999999999999876 2357899999
Q ss_pred cCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 145 VPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 145 ~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
+||||||.|+...+..++... .++..++|||.+...|.+.|+++.+|
T Consensus 172 ~PTRELA~QV~~~~~~~~~~~--------~~~~~cvyGG~~~~~Q~~~l~~gvdi 218 (519)
T KOG0331|consen 172 APTRELAVQVQAEAREFGKSL--------RLRSTCVYGGAPKGPQLRDLERGVDV 218 (519)
T ss_pred cCcHHHHHHHHHHHHHHcCCC--------CccEEEEeCCCCccHHHHHHhcCCcE
Confidence 999999999999999999886 58899999999999999999999877
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=4.6e-23 Score=187.74 Aligned_cols=123 Identities=30% Similarity=0.461 Sum_probs=110.8
Q ss_pred HhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHh--cCCCcEEEEEcCC
Q 028848 70 RELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA--QRSAVQAVIVVPT 147 (202)
Q Consensus 70 ~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~--~~~~~~~lil~Pt 147 (202)
..|.++++.+.+++++.+.||..|||+|.++||.++.|+|+++.++||||||.+|++|+++.+.. ......+||++||
T Consensus 29 ~~F~~l~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PT 108 (513)
T COG0513 29 PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPT 108 (513)
T ss_pred CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCC
Confidence 44556699999999999999999999999999999999999999999999999999999999874 2222229999999
Q ss_pred HhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 148 RELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||||.|+.+.+..++.+.+ .+++..++||.+...|...|++++||
T Consensus 109 RELA~Qi~~~~~~~~~~~~-------~~~~~~i~GG~~~~~q~~~l~~~~~i 153 (513)
T COG0513 109 RELAVQIAEELRKLGKNLG-------GLRVAVVYGGVSIRKQIEALKRGVDI 153 (513)
T ss_pred HHHHHHHHHHHHHHHhhcC-------CccEEEEECCCCHHHHHHHHhcCCCE
Confidence 9999999999999999862 47899999999999999999998887
No 5
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.90 E-value=6.2e-23 Score=182.62 Aligned_cols=121 Identities=26% Similarity=0.357 Sum_probs=109.2
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-------CCcEEEE
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-------~~~~~li 143 (202)
.|.+.||++.+++++.+.||..||++|+++||.+++|+|++++||||||||++|++|+++.+...+ .++++||
T Consensus 9 ~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~li 88 (423)
T PRK04837 9 KFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALI 88 (423)
T ss_pred CHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEE
Confidence 345559999999999999999999999999999999999999999999999999999998875432 3579999
Q ss_pred EcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 144 VVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 144 l~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|+||+||+.|+++.+..++... ++++..++||.....+.+.++.++||
T Consensus 89 l~PtreLa~Qi~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~l~~~~~I 136 (423)
T PRK04837 89 MAPTRELAVQIHADAEPLAQAT--------GLKLGLAYGGDGYDKQLKVLESGVDI 136 (423)
T ss_pred ECCcHHHHHHHHHHHHHHhccC--------CceEEEEECCCCHHHHHHHhcCCCCE
Confidence 9999999999999999999876 58889999999999998888888887
No 6
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.90 E-value=1.2e-23 Score=185.79 Aligned_cols=123 Identities=29% Similarity=0.381 Sum_probs=114.4
Q ss_pred HHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC---CCcEEEEEc
Q 028848 69 LRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---SAVQAVIVV 145 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~---~~~~~lil~ 145 (202)
..+|.+++|...+++++..+||..|||||.++||..+-|+|++.||.||||||-+|++|+++++.... ..-++|||+
T Consensus 180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~ 259 (691)
T KOG0338|consen 180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLV 259 (691)
T ss_pred hhhHHhcccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEe
Confidence 44788889999999999999999999999999999999999999999999999999999999876544 234899999
Q ss_pred CCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 146 PTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 146 Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|||||+.|++++.++++.+. ++.++.++||-+.+.|...|+..|||
T Consensus 260 PTRELaiQv~sV~~qlaqFt--------~I~~~L~vGGL~lk~QE~~LRs~PDI 305 (691)
T KOG0338|consen 260 PTRELAIQVHSVTKQLAQFT--------DITVGLAVGGLDLKAQEAVLRSRPDI 305 (691)
T ss_pred ccHHHHHHHHHHHHHHHhhc--------cceeeeeecCccHHHHHHHHhhCCCE
Confidence 99999999999999999998 69999999999999999999999998
No 7
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.89 E-value=3.1e-23 Score=176.50 Aligned_cols=124 Identities=25% Similarity=0.372 Sum_probs=117.2
Q ss_pred cHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 68 TLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
+...|..+||.+++.+.++.+|+..|||+|+.|||.|+.|+|++.+|.||||||.+|.+|+++.+...+.+..++|+.||
T Consensus 5 t~~~F~~LGl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPT 84 (442)
T KOG0340|consen 5 TAKPFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPT 84 (442)
T ss_pred ccCchhhcCccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecch
Confidence 34556777999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 148 RELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|||+.|+.+.|..+++.. ++++..++||.++-.|-..|..+||+
T Consensus 85 rELA~QiaEQF~alGk~l--------~lK~~vivGG~d~i~qa~~L~~rPHv 128 (442)
T KOG0340|consen 85 RELALQIAEQFIALGKLL--------NLKVSVIVGGTDMIMQAAILSDRPHV 128 (442)
T ss_pred HHHHHHHHHHHHHhcccc--------cceEEEEEccHHHhhhhhhcccCCCe
Confidence 999999999999999887 68999999999999999999999987
No 8
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.89 E-value=2e-22 Score=183.88 Aligned_cols=147 Identities=25% Similarity=0.391 Sum_probs=120.6
Q ss_pred CchHHHHHhcCCCCCHHHHHhccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCc
Q 028848 40 SWKPLRAVLSSSAVSIEELAAGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSG 119 (202)
Q Consensus 40 ~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsG 119 (202)
+......+.....+.+. +...| .++.+|.+.++++.+++.+.+.||..|||+|.++||.++.|+|+++.++||||
T Consensus 96 ~~~~~~~~r~~~~i~~~--g~~~p---~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSG 170 (518)
T PLN00206 96 SSSQAELLRRKLEIHVK--GEAVP---PPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSG 170 (518)
T ss_pred CHHHHHHHHHHCCCEec--CCCCC---chhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 34444554444444332 22333 44566677799999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHh-------cCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHH
Q 028848 120 KTLTYLLLIFSLVNA-------QRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSW 192 (202)
Q Consensus 120 KT~~~l~~il~~l~~-------~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~ 192 (202)
||++|++|++..+.. ...++++|||+||+||+.|+.+.++.+++.. ++++..++||....+|..+
T Consensus 171 KTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~--------~~~~~~~~gG~~~~~q~~~ 242 (518)
T PLN00206 171 KTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGL--------PFKTALVVGGDAMPQQLYR 242 (518)
T ss_pred ccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCC--------CceEEEEECCcchHHHHHH
Confidence 999999999987643 1246799999999999999999999998875 5788999999999999999
Q ss_pred HhhcCCC
Q 028848 193 LKVLYSL 199 (202)
Q Consensus 193 l~~~~~i 199 (202)
++.+++|
T Consensus 243 l~~~~~I 249 (518)
T PLN00206 243 IQQGVEL 249 (518)
T ss_pred hcCCCCE
Confidence 9888876
No 9
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.88 E-value=4.1e-22 Score=179.12 Aligned_cols=122 Identities=32% Similarity=0.422 Sum_probs=111.7
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
.|.+++|++.+++++.++||..|||+|+++||.++.|+|++++|+||||||++|++|+++.+......+++||++||++|
T Consensus 5 ~f~~l~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreL 84 (460)
T PRK11776 5 AFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTREL 84 (460)
T ss_pred ChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHH
Confidence 45666999999999999999999999999999999999999999999999999999999999776667799999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 151 GMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
+.|+.+.++.++.... ++++..++||.+...|.+.++.+++|
T Consensus 85 a~Q~~~~~~~~~~~~~-------~~~v~~~~Gg~~~~~~~~~l~~~~~I 126 (460)
T PRK11776 85 ADQVAKEIRRLARFIP-------NIKVLTLCGGVPMGPQIDSLEHGAHI 126 (460)
T ss_pred HHHHHHHHHHHHhhCC-------CcEEEEEECCCChHHHHHHhcCCCCE
Confidence 9999999999987652 58889999999999999999888876
No 10
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.88 E-value=6.8e-22 Score=177.71 Aligned_cols=120 Identities=28% Similarity=0.405 Sum_probs=108.8
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC------CCcEEEEEc
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR------SAVQAVIVV 145 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~------~~~~~lil~ 145 (202)
|.++||++.+++.+.++||..||++|+++||.+++|+|+++++|||||||++|++|+++.+.... ..+++|||+
T Consensus 3 f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~ 82 (456)
T PRK10590 3 FDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILT 82 (456)
T ss_pred HHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEe
Confidence 55669999999999999999999999999999999999999999999999999999999886432 245899999
Q ss_pred CCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 146 PTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 146 Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||++|+.|+.+.++.+.... ++++..++||.+..+|..++...+||
T Consensus 83 PtreLa~Qi~~~~~~~~~~~--------~~~~~~~~gg~~~~~~~~~l~~~~~I 128 (456)
T PRK10590 83 PTRELAAQIGENVRDYSKYL--------NIRSLVVFGGVSINPQMMKLRGGVDV 128 (456)
T ss_pred CcHHHHHHHHHHHHHHhccC--------CCEEEEEECCcCHHHHHHHHcCCCcE
Confidence 99999999999999998876 57889999999999998888887876
No 11
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.88 E-value=9.3e-22 Score=181.25 Aligned_cols=121 Identities=26% Similarity=0.355 Sum_probs=109.2
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-------CCcEEEE
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-------~~~~~li 143 (202)
+|.+++|++.++++|.+.||..|||+|+++||.+++|+|++++++||||||++|++|+++.+.... ..+++||
T Consensus 10 ~f~~l~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLI 89 (572)
T PRK04537 10 TFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALI 89 (572)
T ss_pred ChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEE
Confidence 355559999999999999999999999999999999999999999999999999999999875421 2469999
Q ss_pred EcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 144 VVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 144 l~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|+||+||+.|+++.+..++... ++++..++||.....|..+++.++||
T Consensus 90 l~PTreLa~Qi~~~~~~l~~~~--------~i~v~~l~Gg~~~~~q~~~l~~~~dI 137 (572)
T PRK04537 90 LAPTRELAIQIHKDAVKFGADL--------GLRFALVYGGVDYDKQRELLQQGVDV 137 (572)
T ss_pred EeCcHHHHHHHHHHHHHHhccC--------CceEEEEECCCCHHHHHHHHhCCCCE
Confidence 9999999999999999998876 58899999999999999999888876
No 12
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.87 E-value=2e-21 Score=180.64 Aligned_cols=122 Identities=28% Similarity=0.403 Sum_probs=111.7
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
.|.+++|++.++++|.++||..|||+|+++||.++.|+|++++|+||||||++|++|+++.+......+++|||+||++|
T Consensus 7 ~f~~l~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreL 86 (629)
T PRK11634 7 TFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTREL 86 (629)
T ss_pred CHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHH
Confidence 35666999999999999999999999999999999999999999999999999999999988776667799999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 151 GMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
+.|+.+.++.+..... ++.+..+|||.+...|...++.+++|
T Consensus 87 a~Qv~~~l~~~~~~~~-------~i~v~~~~gG~~~~~q~~~l~~~~~I 128 (629)
T PRK11634 87 AVQVAEAMTDFSKHMR-------GVNVVALYGGQRYDVQLRALRQGPQI 128 (629)
T ss_pred HHHHHHHHHHHHhhcC-------CceEEEEECCcCHHHHHHHhcCCCCE
Confidence 9999999999987652 58899999999999999988888877
No 13
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.87 E-value=7.1e-22 Score=175.34 Aligned_cols=124 Identities=31% Similarity=0.472 Sum_probs=108.3
Q ss_pred cHHhHhcCCCCHHHHHHHHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc------CCCcE
Q 028848 68 TLRELCQGHVPEHVLRRMDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ------RSAVQ 140 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~------~~~~~ 140 (202)
+-..|..+||++.+...|.. +++..||.+|+++||.+++|+|+++.++||||||++|++|+++.+... ..++.
T Consensus 134 ts~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ 213 (708)
T KOG0348|consen 134 TSAAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPY 213 (708)
T ss_pred ccccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCce
Confidence 34467778999999999976 699999999999999999999999999999999999999999988653 25789
Q ss_pred EEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEE-EEecCCchHHhHHHHhhcCCC
Q 028848 141 AVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVM-ALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 141 ~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~-~~~gg~~~~~~~~~l~~~~~i 199 (202)
||||+|||||+.|+++.+.+|.+.. .+-|- .+.||.....++..|++|.+|
T Consensus 214 ALVivPTREL~~Q~y~~~qKLl~~~--------hWIVPg~lmGGEkkKSEKARLRKGiNI 265 (708)
T KOG0348|consen 214 ALVIVPTRELALQIYETVQKLLKPF--------HWIVPGVLMGGEKKKSEKARLRKGINI 265 (708)
T ss_pred EEEEechHHHHHHHHHHHHHHhcCc--------eEEeeceeecccccccHHHHHhcCceE
Confidence 9999999999999999999998764 34344 445888888899999999887
No 14
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.86 E-value=4.8e-21 Score=167.90 Aligned_cols=116 Identities=28% Similarity=0.464 Sum_probs=105.1
Q ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-----CCcEEEEEcCCHhhH
Q 028848 77 VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-----SAVQAVIVVPTRELG 151 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-----~~~~~lil~Pt~~La 151 (202)
|.+++++++...||..+||+|..+||.+++++|+++.++||||||++|++|+++.+.++. ..+-+||++|||||+
T Consensus 13 L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa 92 (567)
T KOG0345|consen 13 LSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELA 92 (567)
T ss_pred ccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHH
Confidence 669999999999999999999999999999999999999999999999999999985432 235799999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhh-cCCC
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKV-LYSL 199 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~-~~~i 199 (202)
.||.+++..+.... .+++..+++||.+..++...+++ +|+|
T Consensus 93 ~QI~~V~~~F~~~l-------~~l~~~l~vGG~~v~~Di~~fkee~~nI 134 (567)
T KOG0345|consen 93 RQIREVAQPFLEHL-------PNLNCELLVGGRSVEEDIKTFKEEGPNI 134 (567)
T ss_pred HHHHHHHHHHHHhh-------hccceEEEecCccHHHHHHHHHHhCCcE
Confidence 99999999999885 37888999999999999999985 5876
No 15
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.86 E-value=8.9e-21 Score=169.16 Aligned_cols=121 Identities=30% Similarity=0.431 Sum_probs=108.7
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc----CCCcEEEEEcC
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ----RSAVQAVIVVP 146 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~----~~~~~~lil~P 146 (202)
.|+++++.+.+++.+.+.||..||++|+++|+.++.|+|+++++|||+|||++|++|+++.+... ...+++||++|
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~P 81 (434)
T PRK11192 2 TFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTP 81 (434)
T ss_pred CHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECC
Confidence 35666999999999999999999999999999999999999999999999999999999887532 13468999999
Q ss_pred CHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 147 TRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 147 t~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|++|+.|+.+.+..++... ++++..++||....++...+..++||
T Consensus 82 t~eLa~Q~~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~l~~~~~I 126 (434)
T PRK11192 82 TRELAMQVADQARELAKHT--------HLDIATITGGVAYMNHAEVFSENQDI 126 (434)
T ss_pred cHHHHHHHHHHHHHHHccC--------CcEEEEEECCCCHHHHHHHhcCCCCE
Confidence 9999999999999999876 57888999999999988888888876
No 16
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.85 E-value=1.9e-20 Score=169.06 Aligned_cols=121 Identities=26% Similarity=0.369 Sum_probs=107.3
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-------CCcEEEE
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-------~~~~~li 143 (202)
.|...+|++.+.++|.+.||..||++|.++|+.+++|+|+++.++||||||++|++|+++.+.... ..+++||
T Consensus 88 ~f~~~~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLi 167 (475)
T PRK01297 88 RFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALI 167 (475)
T ss_pred CHhHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEE
Confidence 345559999999999999999999999999999999999999999999999999999999886543 1469999
Q ss_pred EcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhc-CCC
Q 028848 144 VVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVL-YSL 199 (202)
Q Consensus 144 l~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~-~~i 199 (202)
|+||++|+.|+.+.++.+.... ++.+..++||.....+.+.+.+. ++|
T Consensus 168 l~PtreLa~Q~~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~~~~~~~~I 216 (475)
T PRK01297 168 IAPTRELVVQIAKDAAALTKYT--------GLNVMTFVGGMDFDKQLKQLEARFCDI 216 (475)
T ss_pred EeCcHHHHHHHHHHHHHhhccC--------CCEEEEEEccCChHHHHHHHhCCCCCE
Confidence 9999999999999999998876 57888899999988888888754 676
No 17
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.85 E-value=2.1e-21 Score=169.11 Aligned_cols=125 Identities=30% Similarity=0.359 Sum_probs=110.2
Q ss_pred HHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHh------cCCCcEEE
Q 028848 69 LRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQAV 142 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~------~~~~~~~l 142 (202)
...|++.||.+.+++++.+.||..||-+|+.+||.++.|+|++..|.||||||.+|++|+++.+.. +..++.++
T Consensus 18 ~ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~ 97 (569)
T KOG0346|consen 18 EKTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAV 97 (569)
T ss_pred hccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeE
Confidence 356667799999999999999999999999999999999999999999999999999999997753 23578999
Q ss_pred EEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 143 IVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 143 il~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||+||+||+.|++.++.++..+-+ +.++++-+....+....+.||...|||
T Consensus 98 iLvPTkEL~qQvy~viekL~~~c~------k~lr~~nl~s~~sdsv~~~~L~d~pdI 148 (569)
T KOG0346|consen 98 ILVPTKELAQQVYKVIEKLVEYCS------KDLRAINLASSMSDSVNSVALMDLPDI 148 (569)
T ss_pred EEechHHHHHHHHHHHHHHHHHHH------HhhhhhhhhcccchHHHHHHHccCCCe
Confidence 999999999999999998887654 357777777777778888999999998
No 18
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.85 E-value=4.2e-21 Score=168.89 Aligned_cols=129 Identities=26% Similarity=0.400 Sum_probs=117.7
Q ss_pred CChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC----CCc
Q 028848 64 NNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR----SAV 139 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~----~~~ 139 (202)
.+..+-..|.+..|.+..+++++++||..||++|+.+++.++.|+|+++.|.||||||++|++|.++.+...+ .+.
T Consensus 76 ~s~~~~~~f~~~~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~ 155 (543)
T KOG0342|consen 76 DSITTTFRFEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGT 155 (543)
T ss_pred cchhhhhHhhccccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCe
Confidence 4466677788889999999999999999999999999999999999999999999999999999999887644 566
Q ss_pred EEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 140 QAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 140 ~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
.++|++||||||.|++.+.+.+..+.. .+.+..++||.+.+.+.+.+.++++|
T Consensus 156 ~vlIi~PTRELA~Q~~~eak~Ll~~h~-------~~~v~~viGG~~~~~e~~kl~k~~ni 208 (543)
T KOG0342|consen 156 GVLIICPTRELAMQIFAEAKELLKYHE-------SITVGIVIGGNNFSVEADKLVKGCNI 208 (543)
T ss_pred eEEEecccHHHHHHHHHHHHHHHhhCC-------CcceEEEeCCccchHHHHHhhccccE
Confidence 899999999999999999999999873 57899999999999999999998876
No 19
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.84 E-value=5.2e-21 Score=180.04 Aligned_cols=127 Identities=31% Similarity=0.446 Sum_probs=116.9
Q ss_pred ChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-----CCc
Q 028848 65 NSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-----SAV 139 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-----~~~ 139 (202)
-+.++..|.+.|+...++..++++||..|++||.+|||.|+.|+|+|.+|.||||||++|++|++.++..++ .+|
T Consensus 360 ~pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGP 439 (997)
T KOG0334|consen 360 CPKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGP 439 (997)
T ss_pred CCcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCc
Confidence 345678888999999999999999999999999999999999999999999999999999999998875443 588
Q ss_pred EEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 140 QAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 140 ~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
-+|||+||++|+.||++.++.|+... +++++++|||.....|+..|+++..|
T Consensus 440 i~li~aPtrela~QI~r~~~kf~k~l--------~ir~v~vygg~~~~~qiaelkRg~eI 491 (997)
T KOG0334|consen 440 IALILAPTRELAMQIHREVRKFLKLL--------GIRVVCVYGGSGISQQIAELKRGAEI 491 (997)
T ss_pred eEEEEcCCHHHHHHHHHHHHHHHhhc--------CceEEEecCCccHHHHHHHHhcCCce
Confidence 99999999999999999999999986 68999999999999999999998554
No 20
>PTZ00424 helicase 45; Provisional
Probab=99.84 E-value=3.2e-20 Score=163.49 Aligned_cols=124 Identities=28% Similarity=0.403 Sum_probs=109.9
Q ss_pred cHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 68 TLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
....|.++|+++.+.+++.+.||..|+++|.++|+.+++|+|+++++|||||||++|++|+++.+.....+.++|||+|+
T Consensus 26 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt 105 (401)
T PTZ00424 26 IVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPT 105 (401)
T ss_pred ccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCC
Confidence 35667777999999999999999999999999999999999999999999999999999999988765556699999999
Q ss_pred HhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 148 RELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
++|+.|+.+.+..++... .+....++||....++...+..+++|
T Consensus 106 ~~L~~Q~~~~~~~~~~~~--------~~~~~~~~g~~~~~~~~~~~~~~~~I 149 (401)
T PTZ00424 106 RELAQQIQKVVLALGDYL--------KVRCHACVGGTVVRDDINKLKAGVHM 149 (401)
T ss_pred HHHHHHHHHHHHHHhhhc--------CceEEEEECCcCHHHHHHHHcCCCCE
Confidence 999999999999998765 46677788888888888787777765
No 21
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.84 E-value=7.1e-21 Score=169.47 Aligned_cols=128 Identities=27% Similarity=0.406 Sum_probs=116.0
Q ss_pred CChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhc-------
Q 028848 64 NNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQ------- 135 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~------- 135 (202)
.....+.+|...+++.+++++|..+||..||+||..++|++..| .|++..|.||||||++|-|||++.+...
T Consensus 175 ~~~~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~ 254 (731)
T KOG0347|consen 175 SSKVDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQEL 254 (731)
T ss_pred ccccChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhh
Confidence 45567889999999999999999999999999999999999998 7999999999999999999999854321
Q ss_pred ----CCCcE--EEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 136 ----RSAVQ--AVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 136 ----~~~~~--~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
..+++ +||+.||||||.|+...+..+++.+ ++++..++||-...+|.+.|++.|||
T Consensus 255 ~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t--------~i~v~si~GGLavqKQqRlL~~~p~I 316 (731)
T KOG0347|consen 255 SNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKT--------QIRVASITGGLAVQKQQRLLNQRPDI 316 (731)
T ss_pred hhHHhccCcceeEEecChHHHHHHHHHHHHHhcccc--------CeEEEEeechhHHHHHHHHHhcCCCE
Confidence 13445 9999999999999999999999987 69999999999999999999999998
No 22
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=1.4e-20 Score=166.78 Aligned_cols=134 Identities=25% Similarity=0.341 Sum_probs=116.8
Q ss_pred HHHHHhccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHh
Q 028848 55 IEELAAGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 55 ~~~l~~~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
++....+.|.... .|.+..+.+.+..+++..+|..|||+|+.+||.+..|+|++.||+||||||.+||+|++..+..
T Consensus 62 v~~~G~~~p~~i~---~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~ 138 (482)
T KOG0335|consen 62 VKVSGRDVPPHIP---TFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLD 138 (482)
T ss_pred eeccCCccCCCcc---cccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHh
Confidence 3333444444433 6667778889999999999999999999999999999999999999999999999999998765
Q ss_pred cC----------CCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 135 QR----------SAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 135 ~~----------~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
.+ ..+++|||+|||||+.|++++.+++.... .++.+.+|||.+...|...+.+++||
T Consensus 139 ~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s--------~~~~~~~ygg~~~~~q~~~~~~gcdI 205 (482)
T KOG0335|consen 139 EGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLS--------GMKSVVVYGGTDLGAQLRFIKRGCDI 205 (482)
T ss_pred cCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccc--------cceeeeeeCCcchhhhhhhhccCccE
Confidence 43 35899999999999999999999999876 68899999999999999999999998
No 23
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=2.9e-20 Score=164.44 Aligned_cols=128 Identities=28% Similarity=0.341 Sum_probs=115.4
Q ss_pred CChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc-----CCC
Q 028848 64 NNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSA 138 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-----~~~ 138 (202)
.+..++..|+.-|+.+.|+.++++..|..|||+|.+++|..++|+|++..|.||||||-+|+.|++-++..+ ..+
T Consensus 217 s~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~g 296 (731)
T KOG0339|consen 217 SPPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEG 296 (731)
T ss_pred CCCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCC
Confidence 344445555555999999999999999999999999999999999999999999999999999998877543 367
Q ss_pred cEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 139 VQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 139 ~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|.++|++|||||+.|++.++++|++.. +++++++|||++..+|...|+.++.|
T Consensus 297 Pi~vilvPTrela~Qi~~eaKkf~K~y--------gl~~v~~ygGgsk~eQ~k~Lk~g~Ei 349 (731)
T KOG0339|consen 297 PIGVILVPTRELASQIFSEAKKFGKAY--------GLRVVAVYGGGSKWEQSKELKEGAEI 349 (731)
T ss_pred CeEEEEeccHHHHHHHHHHHHHhhhhc--------cceEEEeecCCcHHHHHHhhhcCCeE
Confidence 899999999999999999999999987 69999999999999999999998876
No 24
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.81 E-value=7.6e-20 Score=162.20 Aligned_cols=127 Identities=27% Similarity=0.384 Sum_probs=116.8
Q ss_pred ChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC--------
Q 028848 65 NSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------- 136 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-------- 136 (202)
-..+++.|++.|++.++++.+.+.||..|||+|+++||..++.+|+|+.+.||||||.+|++|++..+.+..
T Consensus 240 lpnplrnwEE~~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~ 319 (673)
T KOG0333|consen 240 LPNPLRNWEESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENN 319 (673)
T ss_pred CCccccChhhcCCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhc
Confidence 345688999999999999999999999999999999999999999999999999999999999988775433
Q ss_pred -CCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 137 -SAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 137 -~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
.+++++||.|||+|+.|+.++-.++++.. +++++.++||-+..+|--.|..+++|
T Consensus 320 ~~gpyaiilaptReLaqqIeeEt~kf~~~l--------g~r~vsvigg~s~EEq~fqls~gcei 375 (673)
T KOG0333|consen 320 IEGPYAIILAPTRELAQQIEEETNKFGKPL--------GIRTVSVIGGLSFEEQGFQLSMGCEI 375 (673)
T ss_pred ccCceeeeechHHHHHHHHHHHHHHhcccc--------cceEEEEecccchhhhhhhhhcccee
Confidence 47899999999999999999999999987 58999999999999998899988876
No 25
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.81 E-value=4.8e-20 Score=164.34 Aligned_cols=122 Identities=25% Similarity=0.436 Sum_probs=111.1
Q ss_pred ChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC----CCcE
Q 028848 65 NSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR----SAVQ 140 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~----~~~~ 140 (202)
...++..|++..|....+++|++.+|..||.+|+.+||..+.|+|++..+.||||||++|++|+++.+.+.+ ++.-
T Consensus 64 ~~~~~~kF~dlpls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlG 143 (758)
T KOG0343|consen 64 DSTTIKKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLG 143 (758)
T ss_pred hhhhhhhHHhCCCchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCce
Confidence 356777889999999999999999999999999999999999999999999999999999999999998765 6789
Q ss_pred EEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHh
Q 028848 141 AVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 141 ~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~ 194 (202)
|||++||||||.|+++++.+++++. +++...++||.....++..+.
T Consensus 144 alIISPTRELA~QtFevL~kvgk~h--------~fSaGLiiGG~~~k~E~eRi~ 189 (758)
T KOG0343|consen 144 ALIISPTRELALQTFEVLNKVGKHH--------DFSAGLIIGGKDVKFELERIS 189 (758)
T ss_pred eEEecchHHHHHHHHHHHHHHhhcc--------ccccceeecCchhHHHHHhhh
Confidence 9999999999999999999999997 688888899988776655544
No 26
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=2e-20 Score=155.64 Aligned_cols=125 Identities=28% Similarity=0.391 Sum_probs=115.6
Q ss_pred hcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 67 LTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
.....|..+|+.+.+++++..+||.+|+.+|+.|++.|+.|+|++.++..|+|||..|.+.+++.+.-+....|+|||+|
T Consensus 24 ~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsP 103 (400)
T KOG0328|consen 24 KVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSP 103 (400)
T ss_pred ccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecC
Confidence 34556677799999999999999999999999999999999999999999999999999999998887777779999999
Q ss_pred CHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 147 TRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 147 t~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
||||+.|+.+++..++.++ ++....|+||.+..++++.+..+.|+
T Consensus 104 TRELa~Qi~~vi~alg~~m--------nvq~hacigg~n~gedikkld~G~hv 148 (400)
T KOG0328|consen 104 TRELAVQIQKVILALGDYM--------NVQCHACIGGKNLGEDIKKLDYGQHV 148 (400)
T ss_pred hHHHHHHHHHHHHHhcccc--------cceEEEEecCCccchhhhhhcccceE
Confidence 9999999999999999998 58889999999999999999988765
No 27
>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=99.80 E-value=5.8e-19 Score=166.88 Aligned_cols=113 Identities=21% Similarity=0.325 Sum_probs=99.3
Q ss_pred CCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 76 gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+++.+.+.+.+.||..|+++|.++|+.+++|+|+++.+|||||||++|++|+++.+..+ .+.++|||+||++|+.|+.
T Consensus 20 ~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~-~~~~aL~l~PtraLa~q~~ 98 (742)
T TIGR03817 20 WAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD-PRATALYLAPTKALAADQL 98 (742)
T ss_pred cCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC-CCcEEEEEcChHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999999999988654 3569999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 156 KVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
+.++.++ .. ++++ ..++|+...++++++++.++|
T Consensus 99 ~~l~~l~-~~--------~i~v-~~~~Gdt~~~~r~~i~~~~~I 132 (742)
T TIGR03817 99 RAVRELT-LR--------GVRP-ATYDGDTPTEERRWAREHARY 132 (742)
T ss_pred HHHHHhc-cC--------CeEE-EEEeCCCCHHHHHHHhcCCCE
Confidence 9999987 22 4665 556666667888888888877
No 28
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=1.2e-19 Score=157.52 Aligned_cols=121 Identities=28% Similarity=0.446 Sum_probs=112.2
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHh
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRE 149 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~ 149 (202)
.|..+||...+++++.+.||+.|||+|+.++|.++.|+|++..+.||||||.||++|+++.+.... .+.++++++||++
T Consensus 22 ~fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralilsptre 101 (529)
T KOG0337|consen 22 GFQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRE 101 (529)
T ss_pred CccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHH
Confidence 345559999999999999999999999999999999999999999999999999999999886543 5679999999999
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 150 LGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|+.|..++++.++++. +++..+.+||..+++|-..|..+|||
T Consensus 102 La~qtlkvvkdlgrgt--------~lr~s~~~ggD~~eeqf~~l~~npDi 143 (529)
T KOG0337|consen 102 LALQTLKVVKDLGRGT--------KLRQSLLVGGDSIEEQFILLNENPDI 143 (529)
T ss_pred HHHHHHHHHHHhcccc--------chhhhhhcccchHHHHHHHhccCCCE
Confidence 9999999999999998 58889999999999999999999987
No 29
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=1.2e-20 Score=159.23 Aligned_cols=121 Identities=30% Similarity=0.495 Sum_probs=112.3
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
+|++.+|-.+++..+.+.||..|+|+|+++||..+.|+|++..+..|+|||-+|++|+++.++..+...|++|+||||||
T Consensus 86 efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrel 165 (459)
T KOG0326|consen 86 EFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTREL 165 (459)
T ss_pred cHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchh
Confidence 45555899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 151 GMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|.|+...++.++++. ++.+....||+++++++-.|...+|+
T Consensus 166 ALQtSqvc~~lskh~--------~i~vmvttGGT~lrDDI~Rl~~~VH~ 206 (459)
T KOG0326|consen 166 ALQTSQVCKELSKHL--------GIKVMVTTGGTSLRDDIMRLNQTVHL 206 (459)
T ss_pred hHHHHHHHHHHhccc--------CeEEEEecCCcccccceeeecCceEE
Confidence 999999999999998 58889999999999988777766665
No 30
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=1.8e-19 Score=156.15 Aligned_cols=161 Identities=26% Similarity=0.359 Sum_probs=125.2
Q ss_pred ccccccCCCCCCCchHHHHHhcCC-CCCHHHHH----hccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHH
Q 028848 28 EFTNRAFLPVSISWKPLRAVLSSS-AVSIEELA----AGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALP 102 (202)
Q Consensus 28 ~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~l~----~~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~ 102 (202)
+|.++.......+..++..+..++ .+...++. ...|+|.-+|.+-- +-.+++++++++.||.+|||+|.++||
T Consensus 175 nfYke~~e~s~ls~~q~~~~r~en~~it~dd~K~gekrpIPnP~ctFddAF--q~~pevmenIkK~GFqKPtPIqSQaWP 252 (629)
T KOG0336|consen 175 NFYKESNETSNLSKEQLQEWRKENFNITCDDLKEGEKRPIPNPVCTFDDAF--QCYPEVMENIKKTGFQKPTPIQSQAWP 252 (629)
T ss_pred hhhhcCchhccCCHHHHHHHHHcCCcEEecccccCCcccCCCCcCcHHHHH--hhhHHHHHHHHhccCCCCCcchhcccc
Confidence 444444344455555666655543 33333332 23466666776432 346889999999999999999999999
Q ss_pred HHHcCCCEEEEccCCCchHHHHHHHHHHHHHh------cCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCce
Q 028848 103 VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCT 176 (202)
Q Consensus 103 ~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~------~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~ 176 (202)
.+|+|.|++..+.||+|||++||.|-+.++.. .+.++.+|++.|||||+.|+.-+++++.-+ +.+
T Consensus 253 I~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyn---------g~k 323 (629)
T KOG0336|consen 253 ILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYN---------GLK 323 (629)
T ss_pred eeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhc---------Ccc
Confidence 99999999999999999999999997655532 346789999999999999999999888765 578
Q ss_pred EEEEecCCchHHhHHHHhhcCCC
Q 028848 177 VMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 177 v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
-+++|||++..+|.+.|+++.+|
T Consensus 324 svc~ygggnR~eqie~lkrgvei 346 (629)
T KOG0336|consen 324 SVCVYGGGNRNEQIEDLKRGVEI 346 (629)
T ss_pred eEEEecCCCchhHHHHHhcCceE
Confidence 89999999999999999999765
No 31
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.78 E-value=5.8e-18 Score=135.81 Aligned_cols=120 Identities=34% Similarity=0.492 Sum_probs=104.3
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc--CCCcEEEEEcCCHh
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ--RSAVQAVIVVPTRE 149 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~--~~~~~~lil~Pt~~ 149 (202)
|.+.++++.+.+.+.+.|+..|++.|+++++.+.+|+|++++++||+|||++|++++++.+... ..+++++|++|+++
T Consensus 1 ~~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~ 80 (203)
T cd00268 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRE 80 (203)
T ss_pred CCcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHH
Confidence 3456899999999999999999999999999999999999999999999999999999988776 45679999999999
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 150 LGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
|+.|+.+.++.+.... ++.+..+.|+....+....+...++|
T Consensus 81 L~~q~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i 122 (203)
T cd00268 81 LALQIAEVARKLGKHT--------NLKVVVIYGGTSIDKQIRKLKRGPHI 122 (203)
T ss_pred HHHHHHHHHHHHhccC--------CceEEEEECCCCHHHHHHHhcCCCCE
Confidence 9999999999988764 57778888888877776666545554
No 32
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.78 E-value=8.5e-20 Score=157.38 Aligned_cols=162 Identities=25% Similarity=0.373 Sum_probs=127.1
Q ss_pred CCCCCchHHHHHhcCCCCCHHHHHh------ccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCC
Q 028848 36 PVSISWKPLRAVLSSSAVSIEELAA------GTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRD 109 (202)
Q Consensus 36 ~~~~~~~~l~~~~~~~~~~~~~l~~------~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~ 109 (202)
+....|++.++....+....+.... +....+.++++|.++.++..+++.+++.|+..|||+|-+.+|.+++|+|
T Consensus 130 Pi~T~WkPP~hir~mS~e~~e~vRk~~~I~veGd~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRD 209 (610)
T KOG0341|consen 130 PIKTAWKPPRHIRKMSEEQRELVRKQLHILVEGDDIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRD 209 (610)
T ss_pred cchhccCCcHHHHHhhHHHHHHHHHhheEEeeCCCCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCc
Confidence 4455677766666554433222211 1223455677888889999999999999999999999999999999999
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHh--------cCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEe
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNA--------QRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALL 181 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~--------~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~ 181 (202)
++..+-||||||++|.+|++-.... ...+|.+||+||.|||+.|+++.+..++...+ ......++...|+
T Consensus 210 mIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~--e~g~P~lRs~Lci 287 (610)
T KOG0341|consen 210 MIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQ--EAGYPELRSLLCI 287 (610)
T ss_pred eeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHH--hcCChhhhhhhhh
Confidence 9999999999999999998654322 23578999999999999999998887776442 1223457888999
Q ss_pred cCCchHHhHHHHhhcCCC
Q 028848 182 DGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 182 gg~~~~~~~~~l~~~~~i 199 (202)
||.+.++|.+-++.++||
T Consensus 288 GG~~v~eql~~v~~GvHi 305 (610)
T KOG0341|consen 288 GGVPVREQLDVVRRGVHI 305 (610)
T ss_pred cCccHHHHHHHHhcCeeE
Confidence 999999999999999988
No 33
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=3.4e-18 Score=146.89 Aligned_cols=125 Identities=30% Similarity=0.423 Sum_probs=114.0
Q ss_pred hcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 67 LTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
..+++|.+++|.+.+++.+..+||.+|+.+|+.||.++..|.|++.++.+|+|||.+|++++++.++-.....+||+++|
T Consensus 23 evvdsfddm~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaP 102 (397)
T KOG0327|consen 23 EVVDSFDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAP 102 (397)
T ss_pred HHhhhhhhcCCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcc
Confidence 34668888899999999999999999999999999999999999999999999999999999999877667779999999
Q ss_pred CHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhh-cCCC
Q 028848 147 TRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKV-LYSL 199 (202)
Q Consensus 147 t~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~-~~~i 199 (202)
+|+|+.|+.+++..++... +.++..+.||.+...+-..++. .|||
T Consensus 103 treLa~qi~~v~~~lg~~~--------~~~v~~~igg~~~~~~~~~i~~~~~hi 148 (397)
T KOG0327|consen 103 TRELAQQIQKVVRALGDHM--------DVSVHACIGGTNVRREDQALLKDKPHI 148 (397)
T ss_pred hHHHHHHHHHHHHhhhccc--------ceeeeeecCcccchhhhhhhhccCcee
Confidence 9999999999999999987 5889999999999877666665 4887
No 34
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.72 E-value=1.3e-17 Score=137.34 Aligned_cols=130 Identities=21% Similarity=0.376 Sum_probs=119.4
Q ss_pred hccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCc
Q 028848 60 AGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAV 139 (202)
Q Consensus 60 ~~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~ 139 (202)
...+....-|++| -|.+++++++-++||..|+.+|.+|||...-|.|++.+|.+|.|||.+|+++.++.++.-.+.+
T Consensus 35 syv~ihssgfrdf---llkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~v 111 (387)
T KOG0329|consen 35 SYVSIHSSGFRDF---LLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQV 111 (387)
T ss_pred cEEEEeccchhhh---hcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeE
Confidence 3445556677887 6789999999999999999999999999999999999999999999999999999998877788
Q ss_pred EEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 140 QAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 140 ~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
.+|++|.|||||-|+.+++.++.++++ ++++..+|||.+..++.+.|++-|||
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP-------~vkvaVFfGG~~Ikkdee~lk~~Phi 164 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMP-------SVKVSVFFGGLFIKKDEELLKNCPHI 164 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCC-------CceEEEEEcceeccccHHHHhCCCeE
Confidence 999999999999999999999999986 69999999999999999999998987
No 35
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.69 E-value=1.5e-16 Score=149.75 Aligned_cols=113 Identities=20% Similarity=0.252 Sum_probs=95.1
Q ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc-----CCCcEEEEEcCCHhhH
Q 028848 77 VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQAVIVVPTRELG 151 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-----~~~~~~lil~Pt~~La 151 (202)
|++.+.+.+.+. |..||+.|.++||.+.+|+|+|+.||||||||++.++|++..+... ..++.+||++|.++|.
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn 86 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN 86 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHH
Confidence 577888878777 9999999999999999999999999999999999999999987665 3568999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCch-HHhHHHHhhcCCC
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGML-RRHKSWLKVLYSL 199 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~-~~~~~~l~~~~~i 199 (202)
+++.+++...++..| +.+ .+.||+.. .+..+.+++.|||
T Consensus 87 ~Di~~rL~~~~~~~G--------~~v-~vRhGDT~~~er~r~~~~PPdI 126 (814)
T COG1201 87 NDIRRRLEEPLRELG--------IEV-AVRHGDTPQSEKQKMLKNPPHI 126 (814)
T ss_pred HHHHHHHHHHHHHcC--------Ccc-ceecCCCChHHhhhccCCCCcE
Confidence 999999999999874 566 44555554 4444445556898
No 36
>PRK02362 ski2-like helicase; Provisional
Probab=99.67 E-value=4e-16 Score=147.85 Aligned_cols=102 Identities=21% Similarity=0.192 Sum_probs=88.8
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
|.+++|++.+.+.+.+.|+..|+|+|.+|++. ++.|+|+++++|||||||++|.+++++.+..++ +++|++|+++|
T Consensus 3 ~~~l~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~~~---kal~i~P~raL 79 (737)
T PRK02362 3 IAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARGG---KALYIVPLRAL 79 (737)
T ss_pred hhhcCCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhcCC---cEEEEeChHHH
Confidence 45568999999999999999999999999998 788999999999999999999999999887555 89999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCc
Q 028848 151 GMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGM 185 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~ 185 (202)
+.|.++.++++... ++++..++|+..
T Consensus 80 a~q~~~~~~~~~~~---------g~~v~~~tGd~~ 105 (737)
T PRK02362 80 ASEKFEEFERFEEL---------GVRVGISTGDYD 105 (737)
T ss_pred HHHHHHHHHHhhcC---------CCEEEEEeCCcC
Confidence 99999999987542 356666655543
No 37
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.67 E-value=9.5e-16 Score=147.52 Aligned_cols=119 Identities=21% Similarity=0.236 Sum_probs=91.5
Q ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc------CCCcEEEEEcCCHhh
Q 028848 77 VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ------RSAVQAVIVVPTREL 150 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~------~~~~~~lil~Pt~~L 150 (202)
+++.+.+.+. .+|..|||+|+++|+.+++|+|+++++|||||||++|++|+++.+... ..++++||++|+++|
T Consensus 18 l~~~v~~~~~-~~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL 96 (876)
T PRK13767 18 LRPYVREWFK-EKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96 (876)
T ss_pred cCHHHHHHHH-HccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence 4555555544 478999999999999999999999999999999999999999877542 235789999999999
Q ss_pred HHHHHHHHHH-------HhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 151 GMQVTKVARV-------LAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 151 a~Q~~~~~~~-------l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
+.|+++.+.. ++...+. ...++++..+.|+.+..++.+.+++.|||
T Consensus 97 a~di~~~L~~~l~~i~~~~~~~g~---~~~~i~v~v~~Gdt~~~~r~~~l~~~p~I 149 (876)
T PRK13767 97 NNDIHRNLEEPLTEIREIAKERGE---ELPEIRVAIRTGDTSSYEKQKMLKKPPHI 149 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCC---CcCCeeEEEEcCCCCHHHHHHHHhCCCCE
Confidence 9999886653 3322211 11256777777777777777777777887
No 38
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.65 E-value=2.6e-15 Score=116.37 Aligned_cols=97 Identities=28% Similarity=0.431 Sum_probs=82.5
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCC
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHK 173 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~ 173 (202)
||.|.++++.+.+|+++++.||||+|||++|+.+++..+..+ ...++++++|+++|+.|+.+.++.+....
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~~~lii~P~~~l~~q~~~~~~~~~~~~-------- 71 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG-KDARVLIIVPTRALAEQQFERLRKFFSNT-------- 71 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSSEEEEEESSHHHHHHHHHHHHHHTTTT--------
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC-CCceEEEEeeccccccccccccccccccc--------
Confidence 799999999999999999999999999999999999988876 44499999999999999999999999874
Q ss_pred CceEEEEecCCchH-HhHHHHhhcCCC
Q 028848 174 PCTVMALLDGGMLR-RHKSWLKVLYSL 199 (202)
Q Consensus 174 ~~~v~~~~gg~~~~-~~~~~l~~~~~i 199 (202)
++++..++++.... ++..++..+++|
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~i 98 (169)
T PF00270_consen 72 NVRVVLLHGGQSISEDQREVLSNQADI 98 (169)
T ss_dssp TSSEEEESTTSCHHHHHHHHHHTTSSE
T ss_pred ccccccccccccccccccccccccccc
Confidence 46778888888755 555666555665
No 39
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.65 E-value=1.3e-15 Score=145.67 Aligned_cols=116 Identities=22% Similarity=0.273 Sum_probs=99.0
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 79 ~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
..+..++.+.|...+..+|.+|+..+.+|+|+++.++||||||++|++||++.+.++... ++|+|.||++|++++.++|
T Consensus 57 ~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a-~AL~lYPtnALa~DQ~~rl 135 (851)
T COG1205 57 ESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA-RALLLYPTNALANDQAERL 135 (851)
T ss_pred hHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc-cEEEEechhhhHhhHHHHH
Confidence 344667777888889999999999999999999999999999999999999999887755 8899999999999999999
Q ss_pred HHHhcCCCCCCCCCCCceEEEEecCCchHHhH-HHHhhcCCC--CCC
Q 028848 159 RVLAAKPSDTDLEHKPCTVMALLDGGMLRRHK-SWLKVLYSL--TSY 202 (202)
Q Consensus 159 ~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~-~~l~~~~~i--~~~ 202 (202)
+++....+. ++ ....|+|...++++ ...+..||| |||
T Consensus 136 ~~~~~~~~~------~v-~~~~y~Gdt~~~~r~~~~~~pp~IllTNp 175 (851)
T COG1205 136 RELISDLPG------KV-TFGRYTGDTPPEERRAIIRNPPDILLTNP 175 (851)
T ss_pred HHHHHhCCC------cc-eeeeecCCCChHHHHHHHhCCCCEEEeCH
Confidence 999998752 34 46778888877777 455566998 765
No 40
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.65 E-value=2.3e-16 Score=135.50 Aligned_cols=116 Identities=23% Similarity=0.379 Sum_probs=104.4
Q ss_pred ccCCChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcC--CCEEEEccCCCchHHHHHHHHHHHHHhcCCC
Q 028848 61 GTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138 (202)
Q Consensus 61 ~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~ 138 (202)
+...|..+.++|++++|.|++++++..++|..|+.+|+.++|.++.. ++++.++..|+|||.+|.+.++.+++..-..
T Consensus 81 dpnsPlyS~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~ 160 (477)
T KOG0332|consen 81 DPNSPLYSAKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVV 160 (477)
T ss_pred CCCCCccccccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccC
Confidence 45678889999999999999999999999999999999999999886 6899999999999999999999999888888
Q ss_pred cEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCC
Q 028848 139 VQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGG 184 (202)
Q Consensus 139 ~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~ 184 (202)
|+++.|+||||||.|+.+++.+.+++. .++...++-|.
T Consensus 161 PQ~iCLaPtrELA~Q~~eVv~eMGKf~--------~ita~yair~s 198 (477)
T KOG0332|consen 161 PQCICLAPTRELAPQTGEVVEEMGKFT--------ELTASYAIRGS 198 (477)
T ss_pred CCceeeCchHHHHHHHHHHHHHhcCce--------eeeEEEEecCc
Confidence 899999999999999999999999987 35555555444
No 41
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.64 E-value=6.4e-16 Score=136.75 Aligned_cols=108 Identities=30% Similarity=0.372 Sum_probs=93.1
Q ss_pred HHHHHhCCCCCCCHHHHHHHHHHH---------cCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhH
Q 028848 82 LRRMDETGYVLPTDIQREALPVLF---------SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELG 151 (202)
Q Consensus 82 ~~~l~~~g~~~~t~~Q~~~i~~il---------~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La 151 (202)
.+.+.++++....|+|.+++|.++ .++|+.+.||||||||++|.+||.+.+.... +-.||+|++||++|+
T Consensus 149 ~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~ 228 (620)
T KOG0350|consen 149 DQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELA 228 (620)
T ss_pred HHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHH
Confidence 345788899999999999999874 2479999999999999999999999987653 457999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcC
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLY 197 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~ 197 (202)
.|++++|..++... ++-|+.+.|-.+.+++.++|...|
T Consensus 229 ~QV~~~f~~~~~~t--------gL~V~~~sgq~sl~~E~~qL~~~~ 266 (620)
T KOG0350|consen 229 LQVYDTFKRLNSGT--------GLAVCSLSGQNSLEDEARQLASDP 266 (620)
T ss_pred HHHHHHHHHhccCC--------ceEEEecccccchHHHHHHHhcCC
Confidence 99999999999988 466677777778888888888774
No 42
>PRK00254 ski2-like helicase; Provisional
Probab=99.63 E-value=3.3e-15 Score=141.26 Aligned_cols=104 Identities=21% Similarity=0.176 Sum_probs=88.5
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
|.++++++.+.+.+.+.||..|+|+|.++++. +++|+|+++++|||||||++|.+|+++.+... +.++||++|+++|
T Consensus 3 ~~~l~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~--~~~~l~l~P~~aL 80 (720)
T PRK00254 3 VDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE--GGKAVYLVPLKAL 80 (720)
T ss_pred HHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc--CCeEEEEeChHHH
Confidence 34558999999999999999999999999986 88999999999999999999999999877532 2389999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 151 GMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
+.|+++.++.+.. . ++++..+.|+...
T Consensus 81 a~q~~~~~~~~~~-~--------g~~v~~~~Gd~~~ 107 (720)
T PRK00254 81 AEEKYREFKDWEK-L--------GLRVAMTTGDYDS 107 (720)
T ss_pred HHHHHHHHHHHhh-c--------CCEEEEEeCCCCC
Confidence 9999999987643 2 4676666666543
No 43
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.62 E-value=2.7e-16 Score=142.66 Aligned_cols=117 Identities=31% Similarity=0.463 Sum_probs=105.8
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhH
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La 151 (202)
|+++-+..+++..|++++|..||++|..|||.++.+.|+++++..|+|||++|.+.+++.+......++.+|++||||++
T Consensus 27 fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREia 106 (980)
T KOG4284|consen 27 FEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIA 106 (980)
T ss_pred HHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhh
Confidence 34447788999999999999999999999999999999999999999999999999998888877888999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhh
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~ 195 (202)
.|+.+.+..+|... .+++-..++||+....++..|++
T Consensus 107 VQI~~tv~~v~~sf-------~g~~csvfIGGT~~~~d~~rlk~ 143 (980)
T KOG4284|consen 107 VQIKETVRKVAPSF-------TGARCSVFIGGTAHKLDLIRLKQ 143 (980)
T ss_pred hHHHHHHHHhcccc-------cCcceEEEecCchhhhhhhhhhh
Confidence 99999999999866 46787888899998888877775
No 44
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.59 E-value=2.7e-15 Score=134.76 Aligned_cols=103 Identities=32% Similarity=0.500 Sum_probs=88.4
Q ss_pred ccCCChhcHHhHhc-CCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc----
Q 028848 61 GTGNNSLTLRELCQ-GHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ---- 135 (202)
Q Consensus 61 ~~~~~~~~~~~l~~-~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~---- 135 (202)
..+.+..+|..+.. -..+..+++.+...+|..|+|+|++++|.++.++|++.|+|||||||++|.+|++.++...
T Consensus 126 ~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~ 205 (593)
T KOG0344|consen 126 HLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEK 205 (593)
T ss_pred CCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhccc
Confidence 33555555555433 2467888999999999999999999999999999999999999999999999999887542
Q ss_pred -CCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 136 -RSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 136 -~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
+.+.+++|+.|+++|+.|++.++.+|..
T Consensus 206 ~~~gl~a~Il~ptreLa~Qi~re~~k~~~ 234 (593)
T KOG0344|consen 206 HKVGLRALILSPTRELAAQIYREMRKYSI 234 (593)
T ss_pred CccceEEEEecchHHHHHHHHHHHHhcCC
Confidence 4678999999999999999999999993
No 45
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.58 E-value=1.9e-14 Score=134.36 Aligned_cols=96 Identities=23% Similarity=0.247 Sum_probs=81.8
Q ss_pred HHHHHhCCCCCCCHHHHHHHHHHHcC------CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 82 LRRMDETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 82 ~~~l~~~g~~~~t~~Q~~~i~~il~g------~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+.+...+| .||+.|+.+++.++++ .+.+++|+||||||++|+++++..+..+. +++||+||++|+.|++
T Consensus 226 ~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~---qvlilaPT~~LA~Q~~ 301 (630)
T TIGR00643 226 TKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGY---QVALMAPTEILAEQHY 301 (630)
T ss_pred HHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCC---cEEEECCHHHHHHHHH
Confidence 344566788 6999999999999876 25899999999999999999999887655 9999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCceEEEEecCCchHHh
Q 028848 156 KVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRH 189 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~ 189 (202)
+.++++.... ++++..++||....+.
T Consensus 302 ~~~~~l~~~~--------gi~v~lltg~~~~~~r 327 (630)
T TIGR00643 302 NSLRNLLAPL--------GIEVALLTGSLKGKRR 327 (630)
T ss_pred HHHHHHhccc--------CcEEEEEecCCCHHHH
Confidence 9999998765 5788888887776553
No 46
>PRK01172 ski2-like helicase; Provisional
Probab=99.57 E-value=2.4e-14 Score=134.47 Aligned_cols=101 Identities=21% Similarity=0.203 Sum_probs=86.6
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhH
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La 151 (202)
|.+++|++.+.+.+.+.+|. ++++|.++++.+.+|+++++++|||||||+++.+++++.+..++ ++++++|+++|+
T Consensus 3 ~~~~~l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~~---k~v~i~P~raLa 78 (674)
T PRK01172 3 ISDLGYDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAGL---KSIYIVPLRSLA 78 (674)
T ss_pred HhhcCCCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhCC---cEEEEechHHHH
Confidence 34558999999999999987 99999999999999999999999999999999999999887655 899999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCc
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGM 185 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~ 185 (202)
.|+++.++++.. . ++++...+|+..
T Consensus 79 ~q~~~~~~~l~~-~--------g~~v~~~~G~~~ 103 (674)
T PRK01172 79 MEKYEELSRLRS-L--------GMRVKISIGDYD 103 (674)
T ss_pred HHHHHHHHHHhh-c--------CCeEEEEeCCCC
Confidence 999999987653 2 355555555544
No 47
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.57 E-value=2.4e-14 Score=135.78 Aligned_cols=111 Identities=21% Similarity=0.220 Sum_probs=97.6
Q ss_pred CCCHHHHHHHH-----hCCCCCC---CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 76 HVPEHVLRRMD-----ETGYVLP---TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 76 gl~~~l~~~l~-----~~g~~~~---t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
++..++.+.+. ..||..| +|+|.++++.+..++++++.++||+|||++|++|++..+..++ .++|++||
T Consensus 68 al~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~---~v~IVTpT 144 (970)
T PRK12899 68 GVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK---PVHLVTVN 144 (970)
T ss_pred CCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC---CeEEEeCC
Confidence 67777777766 5788888 9999999999999999999999999999999999998776554 58999999
Q ss_pred HhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 148 RELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
++||.|..+.+..+.++. ++++.+++||.+..+|+..+ .|||
T Consensus 145 rELA~Qdae~m~~L~k~l--------GLsV~~i~GG~~~~eq~~~y--~~DI 186 (970)
T PRK12899 145 DYLAQRDCEWVGSVLRWL--------GLTTGVLVSGSPLEKRKEIY--QCDV 186 (970)
T ss_pred HHHHHHHHHHHHHHHhhc--------CCeEEEEeCCCCHHHHHHHc--CCCE
Confidence 999999999999999987 58999999999998887665 4777
No 48
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.56 E-value=1.5e-14 Score=137.03 Aligned_cols=110 Identities=18% Similarity=0.151 Sum_probs=88.0
Q ss_pred CCCCCCCHHHHHHHHHHHcCC-CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEE-EcCCHhhHHHHHHHHHHHhcCC
Q 028848 88 TGYVLPTDIQREALPVLFSSR-DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI-VVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~-~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~li-l~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
.||. |||+|+++++.++.|+ ++++.++||||||.+|.++.+. +..+...++.|| ++|+|+|+.|+++.+.++++..
T Consensus 12 ~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~-~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLA-VEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERL 89 (844)
T ss_pred hCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhcc-ccccccccceEEEeCchHHHHHHHHHHHHHHHHHh
Confidence 4887 9999999999999998 5888899999999977655443 233344567776 5699999999999999999865
Q ss_pred CC---------------CCCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 166 SD---------------TDLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 166 ~~---------------~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
.. ......++++..++||.+...|...+..+|+|
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~I 138 (844)
T TIGR02621 90 PDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAV 138 (844)
T ss_pred cccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcE
Confidence 21 01223468999999999999999999988887
No 49
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.54 E-value=1.1e-13 Score=133.38 Aligned_cols=109 Identities=19% Similarity=0.146 Sum_probs=86.6
Q ss_pred HHHHHHHHh-CCCCCCCHHHHHHHHHHHcC------CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhH
Q 028848 79 EHVLRRMDE-TGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 79 ~~l~~~l~~-~g~~~~t~~Q~~~i~~il~g------~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La 151 (202)
..+.+.+.+ .+|. ||++|..||+.++++ +|.+++|+||||||++|+.+++..+..+. +++||+||++|+
T Consensus 438 ~~~~~~~~~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~---qvlvLvPT~~LA 513 (926)
T TIGR00580 438 LEWQQEFEDSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGK---QVAVLVPTTLLA 513 (926)
T ss_pred HHHHHHHHHhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCC---eEEEEeCcHHHH
Confidence 344455544 5884 999999999999875 69999999999999999999999887665 999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHH---HHhhc-CCC
Q 028848 152 MQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKS---WLKVL-YSL 199 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~---~l~~~-~~i 199 (202)
.|+++.++++.... ++++..+.++.+..++.+ .++.+ +||
T Consensus 514 ~Q~~~~f~~~~~~~--------~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dI 557 (926)
T TIGR00580 514 QQHFETFKERFANF--------PVTIELLSRFRSAKEQNEILKELASGKIDI 557 (926)
T ss_pred HHHHHHHHHHhccC--------CcEEEEEeccccHHHHHHHHHHHHcCCceE
Confidence 99999999987765 577777766666544433 34444 664
No 50
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.54 E-value=1.1e-13 Score=130.22 Aligned_cols=102 Identities=19% Similarity=0.186 Sum_probs=83.3
Q ss_pred HhCCCCCCCHHHHHHHHHHHcC------CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 86 DETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~il~g------~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
...+| .||++|+++++.+.++ ++.+++|+||||||++|++|++..+..+. +++||+||++|+.|+++.++
T Consensus 256 ~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~---q~lilaPT~~LA~Q~~~~l~ 331 (681)
T PRK10917 256 ASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGY---QAALMAPTEILAEQHYENLK 331 (681)
T ss_pred HhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCC---eEEEEeccHHHHHHHHHHHH
Confidence 34567 5999999999999877 47999999999999999999999887655 99999999999999999999
Q ss_pred HHhcCCCCCCCCCCCceEEEEecCCchHHhH---HHHhhc-CCC
Q 028848 160 VLAAKPSDTDLEHKPCTVMALLDGGMLRRHK---SWLKVL-YSL 199 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~---~~l~~~-~~i 199 (202)
++.... ++++..++||.+..+.. ..+..+ +||
T Consensus 332 ~l~~~~--------~i~v~ll~G~~~~~~r~~~~~~l~~g~~~I 367 (681)
T PRK10917 332 KLLEPL--------GIRVALLTGSLKGKERREILEAIASGEADI 367 (681)
T ss_pred HHHhhc--------CcEEEEEcCCCCHHHHHHHHHHHhCCCCCE
Confidence 999776 47777777777754433 344444 555
No 51
>PRK14701 reverse gyrase; Provisional
Probab=99.53 E-value=1.1e-13 Score=139.24 Aligned_cols=110 Identities=15% Similarity=0.167 Sum_probs=85.2
Q ss_pred HHHHHHHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 80 HVLRRMDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 80 ~l~~~l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
++.+.+++ .|| .|+++|+++++.++.|+|+++.+|||||||++++.+.+.....+ .++||++||++|+.|+.+.+
T Consensus 67 ~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~g---~~aLVl~PTreLa~Qi~~~l 142 (1638)
T PRK14701 67 EFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALKG---KKCYIILPTTLLVKQTVEKI 142 (1638)
T ss_pred HHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhcC---CeEEEEECHHHHHHHHHHHH
Confidence 34455555 699 69999999999999999999999999999997666655443333 49999999999999999999
Q ss_pred HHHhcCCCCCCCCCCCceEEEEecCCchHHhHHH---Hhhc-CCC
Q 028848 159 RVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSW---LKVL-YSL 199 (202)
Q Consensus 159 ~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~---l~~~-~~i 199 (202)
+.++...+ .++++..++||.+..++.+. ++++ +||
T Consensus 143 ~~l~~~~~------~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dI 181 (1638)
T PRK14701 143 ESFCEKAN------LDVRLVYYHSNLRKKEKEEFLERIENGDFDI 181 (1638)
T ss_pred HHHHhhcC------CceeEEEEeCCCCHHHHHHHHHHHhcCCCCE
Confidence 99988653 24666677777776665443 4444 665
No 52
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.52 E-value=1.5e-13 Score=134.86 Aligned_cols=105 Identities=22% Similarity=0.167 Sum_probs=85.9
Q ss_pred HHHHhCCCCCCCHHHHHHHHHHHcC------CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 83 RRMDETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 83 ~~l~~~g~~~~t~~Q~~~i~~il~g------~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
+.....+| .||++|.++|+.++++ +|++++|+||+|||++|+.+++..+..+. +++||+||++|+.|+++
T Consensus 592 ~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~---qvlvLvPT~eLA~Q~~~ 667 (1147)
T PRK10689 592 LFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHK---QVAVLVPTTLLAQQHYD 667 (1147)
T ss_pred HHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHHH
Confidence 33455678 6999999999999887 79999999999999999999887776554 99999999999999999
Q ss_pred HHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHh---hc-CCC
Q 028848 157 VARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLK---VL-YSL 199 (202)
Q Consensus 157 ~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~---~~-~~i 199 (202)
.+++..... ++++..+.++.+..++.+.++ ++ +||
T Consensus 668 ~f~~~~~~~--------~v~i~~l~g~~s~~e~~~il~~l~~g~~dI 706 (1147)
T PRK10689 668 NFRDRFANW--------PVRIEMLSRFRSAKEQTQILAEAAEGKIDI 706 (1147)
T ss_pred HHHHhhccC--------CceEEEEECCCCHHHHHHHHHHHHhCCCCE
Confidence 999866543 577777888888777766554 33 665
No 53
>PRK09401 reverse gyrase; Reviewed
Probab=99.50 E-value=3.2e-13 Score=132.86 Aligned_cols=100 Identities=27% Similarity=0.294 Sum_probs=77.6
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~ 167 (202)
.|+ .|+++|+.++|.++.|+|++++||||||||. |.+++...+.. .+.+++||+||++|+.|+.+.++.++...
T Consensus 77 ~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~--~g~~alIL~PTreLa~Qi~~~l~~l~~~~-- 150 (1176)
T PRK09401 77 TGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK--KGKKSYIIFPTRLLVEQVVEKLEKFGEKV-- 150 (1176)
T ss_pred cCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHHHHhhhc--
Confidence 377 7999999999999999999999999999996 54555444433 24599999999999999999999999876
Q ss_pred CCCCCCCceEEEEecCCch-----HHhHHHHhhc-CCC
Q 028848 168 TDLEHKPCTVMALLDGGML-----RRHKSWLKVL-YSL 199 (202)
Q Consensus 168 ~~~~~~~~~v~~~~gg~~~-----~~~~~~l~~~-~~i 199 (202)
++.+..+++|++. .++...++++ +||
T Consensus 151 ------~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~I 182 (1176)
T PRK09401 151 ------GCGVKILYYHSSLKKKEKEEFLERLKEGDFDI 182 (1176)
T ss_pred ------CceEEEEEccCCcchhHHHHHHHHHhcCCCCE
Confidence 4667777777653 2233344543 666
No 54
>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=99.46 E-value=4.4e-13 Score=121.20 Aligned_cols=68 Identities=22% Similarity=0.329 Sum_probs=61.4
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.||..|+|+|.++|+.+++|+|+++.+|||||||++|++|++. .++ .+||++|+++|+.|+.+.++.+
T Consensus 7 ~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~---~~~---~~lVi~P~~~L~~dq~~~l~~~ 74 (470)
T TIGR00614 7 FGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC---SDG---ITLVISPLISLMEDQVLQLKAS 74 (470)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH---cCC---cEEEEecHHHHHHHHHHHHHHc
Confidence 5999999999999999999999999999999999999999864 233 7899999999999998888743
No 55
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.46 E-value=7.7e-13 Score=130.26 Aligned_cols=82 Identities=23% Similarity=0.220 Sum_probs=67.3
Q ss_pred HHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 81 VLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 81 l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
+.+.+.+.....|+++|+.+++.++.|+|++++||||||||. |.+++...+.. .+.++|||+||++|+.|+++.++.
T Consensus 67 f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~~ 143 (1171)
T TIGR01054 67 FEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKISS 143 (1171)
T ss_pred HHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHHH
Confidence 344455444447999999999999999999999999999997 66666555433 245999999999999999999999
Q ss_pred HhcCC
Q 028848 161 LAAKP 165 (202)
Q Consensus 161 l~~~~ 165 (202)
++...
T Consensus 144 l~~~~ 148 (1171)
T TIGR01054 144 LAEKA 148 (1171)
T ss_pred HHHhc
Confidence 99865
No 56
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.44 E-value=6.1e-13 Score=123.47 Aligned_cols=96 Identities=23% Similarity=0.137 Sum_probs=83.3
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|+++|..+++.++.|+ +..+.||+|||++|++|++.....++ +++|++||++||.|.++.+..+.++.
T Consensus 101 g~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G~---~v~VvTptreLA~qdae~~~~l~~~l--- 171 (656)
T PRK12898 101 GQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAGL---PVHVITVNDYLAERDAELMRPLYEAL--- 171 (656)
T ss_pred CC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcCC---eEEEEcCcHHHHHHHHHHHHHHHhhc---
Confidence 54 68999999999999998 89999999999999999998776555 99999999999999999999999887
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.+++||.+ .+.+.+..++||+
T Consensus 172 -----Glsv~~i~gg~~--~~~r~~~y~~dIv 196 (656)
T PRK12898 172 -----GLTVGCVVEDQS--PDERRAAYGADIT 196 (656)
T ss_pred -----CCEEEEEeCCCC--HHHHHHHcCCCEE
Confidence 589999988865 3445556678883
No 57
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.37 E-value=5.1e-12 Score=117.60 Aligned_cols=68 Identities=26% Similarity=0.368 Sum_probs=61.8
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.||..++|+|+++++.+++|+|+++.+|||+|||++|++|++.. .+ .+||++|+++|+.|+.+.++.+
T Consensus 21 fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~---~g---~tlVisPl~sL~~dqv~~l~~~ 88 (607)
T PRK11057 21 FGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL---DG---LTLVVSPLISLMKDQVDQLLAN 88 (607)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc---CC---CEEEEecHHHHHHHHHHHHHHc
Confidence 59999999999999999999999999999999999999998742 33 7899999999999999988754
No 58
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.37 E-value=5.4e-12 Score=122.14 Aligned_cols=107 Identities=19% Similarity=0.151 Sum_probs=81.9
Q ss_pred hHhcCCCC--HHHHHHHHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 71 ELCQGHVP--EHVLRRMDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 71 ~l~~~gl~--~~l~~~l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
.|...+++ ..+...++. .||..++|+|+++|+.++.|+|+++.+|||+|||+||++|++.. .+ .+||++|+
T Consensus 436 ~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~---~G---iTLVISPL 509 (1195)
T PLN03137 436 KWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC---PG---ITLVISPL 509 (1195)
T ss_pred cccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc---CC---cEEEEeCH
Confidence 35444444 344444444 59999999999999999999999999999999999999999752 33 79999999
Q ss_pred HhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHhh
Q 028848 148 RELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~ 195 (202)
++|+.++...+... ++....+.++....++.+.++.
T Consensus 510 iSLmqDQV~~L~~~------------GI~Aa~L~s~~s~~eq~~ilr~ 545 (1195)
T PLN03137 510 VSLIQDQIMNLLQA------------NIPAASLSAGMEWAEQLEILQE 545 (1195)
T ss_pred HHHHHHHHHHHHhC------------CCeEEEEECCCCHHHHHHHHHH
Confidence 99998555444421 4667777888887777766654
No 59
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.35 E-value=7.6e-12 Score=116.04 Aligned_cols=71 Identities=23% Similarity=0.296 Sum_probs=62.9
Q ss_pred HHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 85 MDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 85 l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
|++ .||..++++|.++|+.+++|+|+++.+|||+|||++|++|++. .++ .++|++|+++|..|..+.++.+
T Consensus 5 l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~---~~g---~~lVisPl~sL~~dq~~~l~~~ 76 (591)
T TIGR01389 5 LKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALL---LKG---LTVVISPLISLMKDQVDQLRAA 76 (591)
T ss_pred HHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHH---cCC---cEEEEcCCHHHHHHHHHHHHHc
Confidence 444 6999999999999999999999999999999999999999863 233 6899999999999999988864
No 60
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.30 E-value=9.9e-12 Score=116.57 Aligned_cols=141 Identities=23% Similarity=0.305 Sum_probs=106.3
Q ss_pred CCCchHHHHHhcCCCCCHHHHHhccCCChhcHHhHhcCCCCHHHHHHHHh-------CC---CCCCCHHHHHHHHHHHcC
Q 028848 38 SISWKPLRAVLSSSAVSIEELAAGTGNNSLTLRELCQGHVPEHVLRRMDE-------TG---YVLPTDIQREALPVLFSS 107 (202)
Q Consensus 38 ~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~~l~~~l~~-------~g---~~~~t~~Q~~~i~~il~g 107 (202)
.++...+..+..........+....+.+...++.|.+.|+.+.. ..... .. ...+++.|+.++..+.+.
T Consensus 135 ~kq~~~l~~l~~~~~~~~~~l~~~~~~s~~~~~~l~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~Ln~~Q~~a~~~i~~~ 213 (730)
T COG1198 135 KKQARVLEALLQGGEWTRSALAHAAGVSLSVLKGLEKKGLIEII-ELEPPLVVAPPDPSLSEWLALNQEQQAAVEAILSS 213 (730)
T ss_pred hhHHHHHHHHHcCCccchhhhhhhcchhHHHHHHHHhcCceeee-cccCCCcccccccccccccccCHHHHHHHHHHHHh
Confidence 33444555555545555666777788888999999999987765 22211 11 347799999999998655
Q ss_pred ----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecC
Q 028848 108 ----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDG 183 (202)
Q Consensus 108 ----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg 183 (202)
...++.|+||||||++|+..|.+.+.+++ ++|+|+|+++|+.|+.++|+...... +.++|+
T Consensus 214 ~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gk---qvLvLVPEI~Ltpq~~~rf~~rFg~~------------v~vlHS 278 (730)
T COG1198 214 LGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGK---QVLVLVPEIALTPQLLARFKARFGAK------------VAVLHS 278 (730)
T ss_pred cccccceeEeCCCCCcHHHHHHHHHHHHHHcCC---EEEEEeccccchHHHHHHHHHHhCCC------------hhhhcc
Confidence 56999999999999999999999999998 99999999999999999998766532 455666
Q ss_pred Cch--HHhHHHHh
Q 028848 184 GML--RRHKSWLK 194 (202)
Q Consensus 184 ~~~--~~~~~~l~ 194 (202)
+-. ++...|.+
T Consensus 279 ~Ls~~er~~~W~~ 291 (730)
T COG1198 279 GLSPGERYRVWRR 291 (730)
T ss_pred cCChHHHHHHHHH
Confidence 543 44455665
No 61
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.29 E-value=2.6e-11 Score=114.12 Aligned_cols=84 Identities=26% Similarity=0.259 Sum_probs=69.4
Q ss_pred CCCHHHHHHHHHHHcC---CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 92 LPTDIQREALPVLFSS---RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g---~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
.+|+.|+++++.+.++ .+++++|+||||||++|+.++.+.+..++ ++|||+||++|+.|+.+++++...
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~---~vLvLvPt~~L~~Q~~~~l~~~fg----- 215 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGK---QALVLVPEIALTPQMLARFRARFG----- 215 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHHHHHHHHhC-----
Confidence 5899999999999874 78999999999999999999988887766 999999999999999999987542
Q ss_pred CCCCCCceEEEEecCCchHHh
Q 028848 169 DLEHKPCTVMALLDGGMLRRH 189 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~ 189 (202)
..+..+.+|.+..++
T Consensus 216 ------~~v~~~~s~~s~~~r 230 (679)
T PRK05580 216 ------APVAVLHSGLSDGER 230 (679)
T ss_pred ------CCEEEEECCCCHHHH
Confidence 345555555555443
No 62
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.19 E-value=1.1e-10 Score=110.75 Aligned_cols=98 Identities=19% Similarity=0.095 Sum_probs=82.6
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|..+++.++.|+ ++.+.||+|||++|++|++.....++ +++|++||++||.|..+.+..+.++.
T Consensus 75 ~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G~---~v~VvTpt~~LA~qd~e~~~~l~~~l-- 146 (790)
T PRK09200 75 LGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALEGK---GVHLITVNDYLAKRDAEEMGQVYEFL-- 146 (790)
T ss_pred hCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHcCC---CeEEEeCCHHHHHHHHHHHHHHHhhc--
Confidence 365 78999999999998886 89999999999999999986655566 89999999999999999999999997
Q ss_pred CCCCCCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 168 TDLEHKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 168 ~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.+++||.+..++++.. ..+||+
T Consensus 147 ------Gl~v~~i~g~~~~~~~r~~~-y~~dIv 172 (790)
T PRK09200 147 ------GLTVGLNFSDIDDASEKKAI-YEADII 172 (790)
T ss_pred ------CCeEEEEeCCCCcHHHHHHh-cCCCEE
Confidence 58888888888755555543 457773
No 63
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.19 E-value=4.1e-10 Score=87.75 Aligned_cols=101 Identities=33% Similarity=0.408 Sum_probs=80.6
Q ss_pred hCCCCCCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 87 ETGYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
..++..+++.|.+++..+..+ +.+++.++||+|||.+++.+++..+.... ..++++++|++.++.|+...+..+....
T Consensus 3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSL 81 (201)
T ss_pred ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence 346778999999999999998 99999999999999999999998887653 2389999999999999999999888654
Q ss_pred CCCCCCCCCceEEEEecCCchHHhHHHHhhc
Q 028848 166 SDTDLEHKPCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 166 ~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~ 196 (202)
.......+++....++...+..+
T Consensus 82 --------~~~~~~~~~~~~~~~~~~~~~~~ 104 (201)
T smart00487 82 --------GLKVVGLYGGDSKREQLRKLESG 104 (201)
T ss_pred --------CeEEEEEeCCcchHHHHHHHhcC
Confidence 23455666776655555555444
No 64
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.16 E-value=1.6e-10 Score=109.68 Aligned_cols=101 Identities=27% Similarity=0.253 Sum_probs=80.7
Q ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 77 VPEHVLRRMDETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
+.+.+.+.++..++..+.+.|+.++.. +.++.|+++++|||||||++.++.+++.+..+ +.+++++||+++|+.+.+
T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~Ek~ 93 (766)
T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAEEKY 93 (766)
T ss_pred ccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CCcEEEEeChHHHHHHHH
Confidence 456666666667776777777777665 56679999999999999999999999998875 238999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCceEEEEecCCchHH
Q 028848 156 KVARVLAAKPSDTDLEHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~ 188 (202)
+.+.++..+ +++|....|+.....
T Consensus 94 ~~~~~~~~~---------GirV~~~TgD~~~~~ 117 (766)
T COG1204 94 EEFSRLEEL---------GIRVGISTGDYDLDD 117 (766)
T ss_pred HHhhhHHhc---------CCEEEEecCCcccch
Confidence 999966654 588777777766444
No 65
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.16 E-value=2.8e-10 Score=103.84 Aligned_cols=74 Identities=23% Similarity=0.188 Sum_probs=60.7
Q ss_pred CCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 90 YVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 90 ~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
...|++.|+++++.++.+.+.++++|||+|||+++...+...+.. ...++|||+||++|+.|+.+.+++++...
T Consensus 112 ~~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~--~~~~vLilvpt~eL~~Q~~~~l~~~~~~~ 185 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLEN--YEGKVLIIVPTTSLVTQMIDDFVDYRLFP 185 (501)
T ss_pred cCCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhc--CCCeEEEEECcHHHHHHHHHHHHHhcccc
Confidence 357999999999999999999999999999999875543333332 22389999999999999999999887543
No 66
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.14 E-value=2.1e-10 Score=107.69 Aligned_cols=95 Identities=20% Similarity=0.148 Sum_probs=78.2
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|+++|..+...++.|+ +..+.||+|||++|++|++-....++ +++|++||.+||.|..+.+..+.++.
T Consensus 54 g~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~G~---~V~VvTpt~~LA~qdae~~~~l~~~L--- 124 (745)
T TIGR00963 54 GM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALTGK---GVHVVTVNDYLAQRDAEWMGQVYRFL--- 124 (745)
T ss_pred CC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHhCC---CEEEEcCCHHHHHHHHHHHHHHhccC---
Confidence 55 58999999999888886 89999999999999999854333455 79999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i 199 (202)
++++.+++||.+..+++..+ .+||
T Consensus 125 -----GLsv~~i~g~~~~~~r~~~y--~~dI 148 (745)
T TIGR00963 125 -----GLSVGLILSGMSPEERREAY--ACDI 148 (745)
T ss_pred -----CCeEEEEeCCCCHHHHHHhc--CCCE
Confidence 58999998888765544333 3666
No 67
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.10 E-value=7.2e-11 Score=103.83 Aligned_cols=62 Identities=35% Similarity=0.531 Sum_probs=58.1
Q ss_pred hHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHH
Q 028848 71 ELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
.|++.|+.+++-.+..++.+.-||.+|.++||.|+.|-|++..+.||||||-+|.+|+++.+
T Consensus 3 af~e~gv~pel~~a~~e~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~lpilqiv 64 (725)
T KOG0349|consen 3 AFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIV 64 (725)
T ss_pred chHhhCcchHhhhhhhhhccccccccccccccEEecCCcEEEEeccCCCCccceehhhHHHH
Confidence 46677999999999999999999999999999999999999999999999999999998765
No 68
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.08 E-value=9.1e-10 Score=106.19 Aligned_cols=97 Identities=22% Similarity=0.202 Sum_probs=77.7
Q ss_pred HHHHHHHhCCCCCCCHHHHHHHH----HHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 80 HVLRRMDETGYVLPTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 80 ~l~~~l~~~g~~~~t~~Q~~~i~----~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+.+.+...||. +++.|.+.+. .+..|+++++.|+||+|||.+|++|++.....++ +++|.+||++|..|+.
T Consensus 234 ~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~---~vvi~t~t~~Lq~Ql~ 309 (850)
T TIGR01407 234 LFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEK---PVVISTNTKVLQSQLL 309 (850)
T ss_pred HHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCC---eEEEEeCcHHHHHHHH
Confidence 555667777886 6899998666 4567889999999999999999999987665333 8999999999999996
Q ss_pred H-HHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 156 K-VARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 156 ~-~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
. .+..+.+..+ .++++..+.|+.+.
T Consensus 310 ~~~~~~l~~~~~------~~~~~~~~kG~~~y 335 (850)
T TIGR01407 310 EKDIPLLNEILN------FKINAALIKGKSNY 335 (850)
T ss_pred HHHHHHHHHHcC------CCceEEEEEcchhh
Confidence 5 6777766543 25888889988876
No 69
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.07 E-value=7.2e-10 Score=104.02 Aligned_cols=87 Identities=17% Similarity=0.115 Sum_probs=67.8
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHH---------HHHHHHHHHHh---cCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLT---------YLLLIFSLVNA---QRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~---------~l~~il~~l~~---~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
..+|+++++.+++|++++++|+||||||.+ |+++.+..+++ .....+++|++|+++|+.|+..++.+.
T Consensus 166 ~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~ 245 (675)
T PHA02653 166 PDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHH
Confidence 358999999999999999999999999997 55555555432 223458999999999999999999876
Q ss_pred hcCCCCCCCCCCCceEEEEecCCc
Q 028848 162 AAKPSDTDLEHKPCTVMALLDGGM 185 (202)
Q Consensus 162 ~~~~~~~~~~~~~~~v~~~~gg~~ 185 (202)
..+.. ..+..+...+||..
T Consensus 246 vg~~~-----~~g~~v~v~~Gg~~ 264 (675)
T PHA02653 246 LGFDE-----IDGSPISLKYGSIP 264 (675)
T ss_pred hCccc-----cCCceEEEEECCcc
Confidence 65421 23466777888876
No 70
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.05 E-value=5.9e-10 Score=111.37 Aligned_cols=88 Identities=18% Similarity=0.194 Sum_probs=63.7
Q ss_pred EEccCCCchHHHHHHHHHHHHHhc----------CCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC----CCCCCCCceE
Q 028848 112 LHAQTGSGKTLTYLLLIFSLVNAQ----------RSAVQAVIVVPTRELGMQVTKVARVLAAKPSD----TDLEHKPCTV 177 (202)
Q Consensus 112 ~~a~TGsGKT~~~l~~il~~l~~~----------~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~----~~~~~~~~~v 177 (202)
+++|||||||++|++|+++.+... ..++++||++|+++|+.|+.+.++........ ......+++|
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 479999999999999999887542 23579999999999999999998753221100 0001125777
Q ss_pred EEEecCCchHHhHHHHhhcCCC
Q 028848 178 MALLDGGMLRRHKSWLKVLYSL 199 (202)
Q Consensus 178 ~~~~gg~~~~~~~~~l~~~~~i 199 (202)
..+.|+.+..++++.+++.|||
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdI 102 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDI 102 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCE
Confidence 7777777777766667777888
No 71
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.02 E-value=1.4e-09 Score=102.62 Aligned_cols=98 Identities=19% Similarity=0.132 Sum_probs=74.2
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|+++|......+..| .++.++||+|||++|++|++.....++ .++|++|+++||.|..+.+..+.++.
T Consensus 68 gl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~g~---~V~VVTpn~yLA~Rdae~m~~l~~~L--- 138 (762)
T TIGR03714 68 GM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNALTGK---GAMLVTTNDYLAKRDAEEMGPVYEWL--- 138 (762)
T ss_pred CC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhhcCC---ceEEeCCCHHHHHHHHHHHHHHHhhc---
Confidence 54 5677776666665555 699999999999999999876655555 79999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCc---hHHhHHHHhhcCCCC
Q 028848 169 DLEHKPCTVMALLDGGM---LRRHKSWLKVLYSLT 200 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~---~~~~~~~l~~~~~i~ 200 (202)
++++..+++|.. +..+.+....++||+
T Consensus 139 -----GLsv~~~~~~s~~~~~~~~~rr~~y~~dIv 168 (762)
T TIGR03714 139 -----GLTVSLGVVDDPDEEYDANEKRKIYNSDIV 168 (762)
T ss_pred -----CCcEEEEECCCCccccCHHHHHHhCCCCEE
Confidence 577777776632 333334444567773
No 72
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.00 E-value=1.3e-09 Score=103.85 Aligned_cols=93 Identities=24% Similarity=0.323 Sum_probs=74.6
Q ss_pred CCCCCCCHHHHHHHHHHH-cCCCEEEEccCCCchHHHHHHHHHHHHHhc-------CCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 88 TGYVLPTDIQREALPVLF-SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-------RSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il-~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-------~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.+|..++.+|..++|.+. +..|+|+|||||||||.+|++.|++.+..+ +++.+.++++|+++||..+.+-+.
T Consensus 106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~ 185 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFS 185 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHh
Confidence 367789999999999875 457899999999999999999999998752 367899999999999998887775
Q ss_pred HHhcCCCCCCCCCCCceEEEEecCCchHH
Q 028848 160 VLAAKPSDTDLEHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~v~~~~gg~~~~~ 188 (202)
+-.... +++|..+.|+....+
T Consensus 186 kkl~~~--------gi~v~ELTGD~ql~~ 206 (1230)
T KOG0952|consen 186 KKLAPL--------GISVRELTGDTQLTK 206 (1230)
T ss_pred hhcccc--------cceEEEecCcchhhH
Confidence 433332 577777777665543
No 73
>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=98.95 E-value=6.1e-09 Score=91.24 Aligned_cols=64 Identities=23% Similarity=0.266 Sum_probs=55.2
Q ss_pred HHHHHHHHHHcCCC--EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 96 IQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 96 ~Q~~~i~~il~g~~--~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
.|.++++.+.++.+ +++++|||||||++|++|++. .+ .++++++|+++|+.|+.++++++....
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~---~~---~~~~~~~P~~aL~~~~~~~~~~~~~~~ 66 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH---GE---NDTIALYPTNALIEDQTEAIKEFVDVF 66 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH---cC---CCEEEEeChHHHHHHHHHHHHHHHHhc
Confidence 48999999998875 788999999999999999874 22 268999999999999999999987643
No 74
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.94 E-value=4.1e-09 Score=100.55 Aligned_cols=94 Identities=19% Similarity=0.081 Sum_probs=75.0
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLE 171 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.|.++|-..--.+..| -+..++||+|||++|++|++.....++ .++|++||++||.|..+.+..+.++.
T Consensus 82 ~~ydvQliGg~~Lh~G--~Iaem~TGeGKTL~a~Lpa~~~al~G~---~V~VvTpn~yLA~qd~e~m~~l~~~l------ 150 (896)
T PRK13104 82 RHFDVQLIGGMVLHEG--NIAEMRTGEGKTLVATLPAYLNAISGR---GVHIVTVNDYLAKRDSQWMKPIYEFL------ 150 (896)
T ss_pred CcchHHHhhhhhhccC--ccccccCCCCchHHHHHHHHHHHhcCC---CEEEEcCCHHHHHHHHHHHHHHhccc------
Confidence 4678886655445555 378999999999999999997666665 79999999999999999999999987
Q ss_pred CCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 172 HKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 172 ~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.+++||.+..+++..+ .+||+
T Consensus 151 --GLtv~~i~gg~~~~~r~~~y--~~dIv 175 (896)
T PRK13104 151 --GLTVGVIYPDMSHKEKQEAY--KADIV 175 (896)
T ss_pred --CceEEEEeCCCCHHHHHHHh--CCCEE
Confidence 58888888887766654443 46763
No 75
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.93 E-value=3.6e-09 Score=95.97 Aligned_cols=102 Identities=20% Similarity=0.151 Sum_probs=84.1
Q ss_pred HhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHHH-hcCCCcEEEEEcCCHh
Q 028848 72 LCQGHVPEHVLRRMDETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRE 149 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l~-~~~~~~~~lil~Pt~~ 149 (202)
+.++.+++.+.+.++..|++.+.|+|..++.. ++.|.|.++.++|+||||++.-++=+..+. .++ +.|+|+|..+
T Consensus 196 vdeLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~---KmlfLvPLVA 272 (830)
T COG1202 196 VDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGK---KMLFLVPLVA 272 (830)
T ss_pred ccccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCC---eEEEEehhHH
Confidence 34558999999999999999999999999987 889999999999999999998776555444 355 8899999999
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCC
Q 028848 150 LGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGG 184 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~ 184 (202)
||+|-++.|++--... ++++...+|-.
T Consensus 273 LANQKy~dF~~rYs~L--------glkvairVG~s 299 (830)
T COG1202 273 LANQKYEDFKERYSKL--------GLKVAIRVGMS 299 (830)
T ss_pred hhcchHHHHHHHhhcc--------cceEEEEechh
Confidence 9999999997655554 45555555544
No 76
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.93 E-value=7.7e-09 Score=96.34 Aligned_cols=78 Identities=23% Similarity=0.244 Sum_probs=63.3
Q ss_pred HHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh-cCCCCCCCCCCCceEEEE
Q 028848 102 PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA-AKPSDTDLEHKPCTVMAL 180 (202)
Q Consensus 102 ~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~-~~~~~~~~~~~~~~v~~~ 180 (202)
..+.++..+++.++||+|||.+|++|++..+.... +.++||++||++|+.|+.+.+..+. +..+ .++++..+
T Consensus 11 ~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~------~~i~~~~l 83 (636)
T TIGR03117 11 TSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-DQKIAIAVPTLALMGQLWSELERLTAEGLA------GPVQAGFF 83 (636)
T ss_pred HHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-CceEEEECCcHHHHHHHHHHHHHHHHhhcC------CCeeEEEE
Confidence 33456788999999999999999999988765321 2489999999999999999999888 4432 26888888
Q ss_pred ecCCch
Q 028848 181 LDGGML 186 (202)
Q Consensus 181 ~gg~~~ 186 (202)
.|+.++
T Consensus 84 kGr~nY 89 (636)
T TIGR03117 84 PGSQEF 89 (636)
T ss_pred ECCccc
Confidence 888876
No 77
>PRK13766 Hef nuclease; Provisional
Probab=98.90 E-value=1.6e-08 Score=96.64 Aligned_cols=96 Identities=19% Similarity=0.196 Sum_probs=72.8
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCC
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDL 170 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~ 170 (202)
-.+.+.|.+.+..++.+ +.+++++||+|||.++++++...+.. .+.++||++||++|+.|+.+.++.+....
T Consensus 14 ~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~--~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~----- 85 (773)
T PRK13766 14 IEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHK--KGGKVLILAPTKPLVEQHAEFFRKFLNIP----- 85 (773)
T ss_pred CCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHh--CCCeEEEEeCcHHHHHHHHHHHHHHhCCC-----
Confidence 46789999999888887 99999999999999999998887742 23389999999999999999999876543
Q ss_pred CCCCceEEEEecCCchHHhHHHHhhcCC
Q 028848 171 EHKPCTVMALLDGGMLRRHKSWLKVLYS 198 (202)
Q Consensus 171 ~~~~~~v~~~~gg~~~~~~~~~l~~~~~ 198 (202)
+..+..+ +|+....++..+....+
T Consensus 86 ---~~~v~~~-~g~~~~~~r~~~~~~~~ 109 (773)
T PRK13766 86 ---EEKIVVF-TGEVSPEKRAELWEKAK 109 (773)
T ss_pred ---CceEEEE-eCCCCHHHHHHHHhCCC
Confidence 2444444 44444445555544443
No 78
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.88 E-value=9.9e-09 Score=98.58 Aligned_cols=85 Identities=22% Similarity=0.264 Sum_probs=68.3
Q ss_pred CCCCCCHHHHHHHHH----HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH-HHHHHHHhc
Q 028848 89 GYVLPTDIQREALPV----LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV-TKVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~----il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~-~~~~~~l~~ 163 (202)
|| ++.+.|.+-... +..+..+++.|+||+|||++|++|++... .+.+++|++||++|+.|+ .+.+..+.+
T Consensus 243 ~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~----~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~ 317 (820)
T PRK07246 243 GL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----DQRQIIVSVPTKILQDQIMAEEVKAIQE 317 (820)
T ss_pred CC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----CCCcEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 45 468899885544 34567899999999999999999987644 234899999999999999 577888887
Q ss_pred CCCCCCCCCCCceEEEEecCCch
Q 028848 164 KPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 164 ~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
.. ++++..+.||.+.
T Consensus 318 ~~--------~~~~~~~kg~~~y 332 (820)
T PRK07246 318 VF--------HIDCHSLKGPQNY 332 (820)
T ss_pred hc--------CCcEEEEECCccc
Confidence 75 4677788888876
No 79
>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=98.85 E-value=9.2e-09 Score=93.97 Aligned_cols=49 Identities=29% Similarity=0.365 Sum_probs=44.2
Q ss_pred EEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|++|+||||||++|+..+.+.+..++ ++|||+|+++|+.|+.+++++..
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~---~vLvlvP~i~L~~Q~~~~l~~~f 49 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK---SVLVLVPEIALTPQMIQRFKYRF 49 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHHHHHHHHh
Confidence 57899999999999998888887777 99999999999999999998754
No 80
>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=98.84 E-value=1.1e-08 Score=79.59 Aligned_cols=67 Identities=31% Similarity=0.381 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHHHc-------CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFS-------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~-------g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
++++.|.+++..+.. .+.+++.++||||||.+++..+.+... ++++++|++.|..|+.+.+..+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------~~l~~~p~~~l~~Q~~~~~~~~~~~ 76 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------KVLIVAPNISLLEQWYDEFDDFGSE 76 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------ceeEecCHHHHHHHHHHHHHHhhhh
Confidence 468999999998863 578999999999999999876666554 8899999999999999999666553
No 81
>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=98.83 E-value=9.1e-09 Score=89.50 Aligned_cols=54 Identities=30% Similarity=0.338 Sum_probs=47.3
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
|+++.+|||||||++|+.++++.+..+ ...+++|++|+++|+.|++++++.+..
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~-~~~~ii~v~P~~~L~~q~~~~l~~~f~ 54 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQ-KADRVIIALPTRATINAMYRRAKELFG 54 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhC-CCCeEEEEeehHHHHHHHHHHHHHHhC
Confidence 589999999999999999999887543 344999999999999999999998753
No 82
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.83 E-value=5.5e-08 Score=92.98 Aligned_cols=97 Identities=25% Similarity=0.316 Sum_probs=78.5
Q ss_pred HHhC-CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 85 MDET-GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 85 l~~~-g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
+++. |+ .|...|+.+...+..|+++-+.||||.|||..-++..+-...+++ +++|++||..|+.|+.+.+.++++
T Consensus 75 F~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kgk---r~yii~PT~~Lv~Q~~~kl~~~~e 150 (1187)
T COG1110 75 FKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGK---RVYIIVPTTTLVRQVYERLKKFAE 150 (1187)
T ss_pred HHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcCC---eEEEEecCHHHHHHHHHHHHHHHh
Confidence 3443 55 799999999999999999999999999999887776665555555 999999999999999999999998
Q ss_pred CCCCCCCCCCCceEEEEecCCchHHhHHH
Q 028848 164 KPSDTDLEHKPCTVMALLDGGMLRRHKSW 192 (202)
Q Consensus 164 ~~~~~~~~~~~~~v~~~~gg~~~~~~~~~ 192 (202)
..+ ...+..+||+....++++.
T Consensus 151 ~~~-------~~~~~~~yh~~l~~~ekee 172 (1187)
T COG1110 151 DAG-------SLDVLVVYHSALPTKEKEE 172 (1187)
T ss_pred hcC-------CcceeeeeccccchHHHHH
Confidence 874 3455555999965555443
No 83
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.75 E-value=3.2e-08 Score=92.55 Aligned_cols=91 Identities=20% Similarity=0.236 Sum_probs=72.8
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCC
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDL 170 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~ 170 (202)
-.+...|.+.....| |+++++++|||+|||.+....++++++.... .++++++|++-|+.|....+..++..
T Consensus 61 ~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a~~~~~~~~------ 132 (746)
T KOG0354|consen 61 LELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIACFSIYLIP------ 132 (746)
T ss_pred ccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHHHHhhccCc------
Confidence 367899999999988 9999999999999999999999999976554 49999999999999999888877754
Q ss_pred CCCCceEEEEecCCchHHhHHHH
Q 028848 171 EHKPCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 171 ~~~~~~v~~~~gg~~~~~~~~~l 193 (202)
.++.+..||...+..+..+
T Consensus 133 ----~~~T~~l~~~~~~~~r~~i 151 (746)
T KOG0354|consen 133 ----YSVTGQLGDTVPRSNRGEI 151 (746)
T ss_pred ----ccceeeccCccCCCchhhh
Confidence 2445555664444433333
No 84
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.66 E-value=2.1e-07 Score=86.12 Aligned_cols=90 Identities=22% Similarity=0.252 Sum_probs=76.0
Q ss_pred HHhCCCCCCCHHHHHHHHHHHcC------CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 85 MDETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~il~g------~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
+...+| .+|..|+.++..|... .+-|++|--|||||++.+++++..+..|. |+..|+||--||.|.++.+
T Consensus 256 ~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~---Q~ALMAPTEILA~QH~~~~ 331 (677)
T COG1200 256 LAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGY---QAALMAPTEILAEQHYESL 331 (677)
T ss_pred HHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCC---eeEEeccHHHHHHHHHHHH
Confidence 345566 5899999999999765 34689999999999999999999999888 9999999999999999999
Q ss_pred HHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 159 RVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 159 ~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
.++.... +++|....|...-
T Consensus 332 ~~~l~~~--------~i~V~lLtG~~kg 351 (677)
T COG1200 332 RKWLEPL--------GIRVALLTGSLKG 351 (677)
T ss_pred HHHhhhc--------CCeEEEeecccch
Confidence 9999876 4776666555443
No 85
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.65 E-value=8.8e-08 Score=91.25 Aligned_cols=95 Identities=21% Similarity=0.172 Sum_probs=76.3
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHH-HHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIF-SLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il-~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~ 167 (202)
|. .|.++|-...-.+..|+ +..+.||+|||+++.+|++ ..+ .++ ++-|++||..||.|..+.+..+.+..
T Consensus 79 g~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL-~G~---~V~IvTpn~yLA~rd~e~~~~l~~~L-- 149 (830)
T PRK12904 79 GM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNAL-TGK---GVHVVTVNDYLAKRDAEWMGPLYEFL-- 149 (830)
T ss_pred CC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHH-cCC---CEEEEecCHHHHHHHHHHHHHHHhhc--
Confidence 54 57889987776666664 7899999999999999996 554 455 57799999999999999999999987
Q ss_pred CCCCCCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 168 TDLEHKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 168 ~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.+++||.+..+++..+. +||+
T Consensus 150 ------Glsv~~i~~~~~~~er~~~y~--~dI~ 174 (830)
T PRK12904 150 ------GLSVGVILSGMSPEERREAYA--ADIT 174 (830)
T ss_pred ------CCeEEEEcCCCCHHHHHHhcC--CCeE
Confidence 588888888888777666543 6663
No 86
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.63 E-value=1.4e-07 Score=90.51 Aligned_cols=60 Identities=22% Similarity=0.247 Sum_probs=49.2
Q ss_pred HHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 99 EALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 99 ~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
+.+..+.++++++++|+||||||.+|.+++++.... ..+++|+.|+|++|.|+.+++.+.
T Consensus 12 ~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~---~~~ilvlqPrR~aA~qia~rva~~ 71 (812)
T PRK11664 12 ELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI---NGKIIMLEPRRLAARNVAQRLAEQ 71 (812)
T ss_pred HHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc---CCeEEEECChHHHHHHHHHHHHHH
Confidence 344556678899999999999999999998875432 238999999999999999998543
No 87
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.62 E-value=1.9e-07 Score=79.71 Aligned_cols=73 Identities=27% Similarity=0.289 Sum_probs=58.4
Q ss_pred CCCCCCHHHHHHH----HHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCC---CcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 89 GYVLPTDIQREAL----PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS---AVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 89 g~~~~t~~Q~~~i----~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~---~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.|. |+|.|.+.+ ..+..|.++++.+|||+|||++|+.|++..+...+. ..++++.++|..+..|....++++
T Consensus 6 Py~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 6 PYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 444 599999954 445678899999999999999999999876654332 237899999999999988888776
Q ss_pred h
Q 028848 162 A 162 (202)
Q Consensus 162 ~ 162 (202)
.
T Consensus 85 ~ 85 (289)
T smart00489 85 M 85 (289)
T ss_pred c
Confidence 4
No 88
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.62 E-value=1.9e-07 Score=79.71 Aligned_cols=73 Identities=27% Similarity=0.289 Sum_probs=58.4
Q ss_pred CCCCCCHHHHHHH----HHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCC---CcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 89 GYVLPTDIQREAL----PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS---AVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 89 g~~~~t~~Q~~~i----~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~---~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.|. |+|.|.+.+ ..+..|.++++.+|||+|||++|+.|++..+...+. ..++++.++|..+..|....++++
T Consensus 6 Py~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 6 PYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 444 599999954 445678899999999999999999999876654332 237899999999999988888776
Q ss_pred h
Q 028848 162 A 162 (202)
Q Consensus 162 ~ 162 (202)
.
T Consensus 85 ~ 85 (289)
T smart00488 85 M 85 (289)
T ss_pred c
Confidence 4
No 89
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.61 E-value=1.5e-07 Score=84.80 Aligned_cols=68 Identities=29% Similarity=0.316 Sum_probs=57.1
Q ss_pred CCCCHHHHHHHHHHHc----CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 91 VLPTDIQREALPVLFS----SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~----g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
..+.+.|++++..+.+ ++..++..|||+|||.+++..+.... . .+|||||+++|+.|+.+.+......
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~---~---~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK---R---STLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc---C---CEEEEECcHHHHHHHHHHHHHhcCC
Confidence 3589999999999987 88899999999999999987775432 2 4999999999999998777765544
No 90
>PRK09694 helicase Cas3; Provisional
Probab=98.59 E-value=3.5e-07 Score=88.26 Aligned_cols=73 Identities=25% Similarity=0.288 Sum_probs=58.4
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
..|+|.|+.+......+..+++.+|||+|||++.+..+...+..++ ..++++..||+++++|++++++++.+.
T Consensus 285 ~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~-~~gi~~aLPT~Atan~m~~Rl~~~~~~ 357 (878)
T PRK09694 285 YQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGL-ADSIIFALPTQATANAMLSRLEALASK 357 (878)
T ss_pred CCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCC-CCeEEEECcHHHHHHHHHHHHHHHHHH
Confidence 3799999988654344556899999999999999888776555443 338899999999999999999876654
No 91
>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=98.55 E-value=8.8e-07 Score=64.83 Aligned_cols=55 Identities=44% Similarity=0.612 Sum_probs=46.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
+++++.++||+|||..++..+......++ ..+++|++|++.++.|..+.+.....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~-~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLK-GGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhccc-CCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 36899999999999999999888776433 23899999999999999999988775
No 92
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.51 E-value=3.4e-07 Score=88.67 Aligned_cols=73 Identities=21% Similarity=0.202 Sum_probs=64.6
Q ss_pred HhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 86 DETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
...+|. +.+.|++++-.+..|..|+++||||||||++.-.++...+..+. ++++.+|.++|.+|.++.+...-
T Consensus 114 ~~~~F~-LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~q---rviYTsPIKALsNQKyrdl~~~f 186 (1041)
T COG4581 114 REYPFE-LDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQ---RVIYTSPIKALSNQKYRDLLAKF 186 (1041)
T ss_pred HhCCCC-cCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCC---ceEeccchhhhhhhHHHHHHHHh
Confidence 345664 78999999999999999999999999999999889888887777 79999999999999998886543
No 93
>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=98.48 E-value=1e-06 Score=84.73 Aligned_cols=59 Identities=15% Similarity=0.205 Sum_probs=49.9
Q ss_pred HHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 99 EALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 99 ~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
+.+..+.++.+++++|+||||||.+|.+++++.... +.+++|+.|+|++|.|+.+++.+
T Consensus 9 ~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~---~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 9 ALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGI---GGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhcc---CCeEEEEeCcHHHHHHHHHHHHH
Confidence 445556678899999999999999999999887632 34899999999999999999854
No 94
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.46 E-value=7.9e-07 Score=86.66 Aligned_cols=92 Identities=22% Similarity=0.245 Sum_probs=75.7
Q ss_pred CCCCCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcC--------CCcEEEEEcCCHhhHHHHHHHHH
Q 028848 89 GYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQR--------SAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~--------~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
|...++.+|....+..+.+ .++++|||||+|||.+.++.+++.+..+. ...+..+++|.++|+..+...|.
T Consensus 306 g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfS 385 (1674)
T KOG0951|consen 306 GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFS 385 (1674)
T ss_pred cchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHH
Confidence 5567899999999998877 57999999999999999999999887543 24588999999999998888776
Q ss_pred HHhcCCCCCCCCCCCceEEEEecCCchHH
Q 028848 160 VLAAKPSDTDLEHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~v~~~~gg~~~~~ 188 (202)
+-.... +++|.-+.|......
T Consensus 386 kRla~~--------GI~V~ElTgD~~l~~ 406 (1674)
T KOG0951|consen 386 KRLAPL--------GITVLELTGDSQLGK 406 (1674)
T ss_pred hhcccc--------CcEEEEecccccchh
Confidence 555444 689999988876533
No 95
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.43 E-value=3.1e-06 Score=82.49 Aligned_cols=103 Identities=22% Similarity=0.185 Sum_probs=78.8
Q ss_pred HHHHHHHh-CCCCCCCHHHHHHHHHHHc----C--CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 80 HVLRRMDE-TGYVLPTDIQREALPVLFS----S--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 80 ~l~~~l~~-~g~~~~t~~Q~~~i~~il~----g--~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
+.++.+.+ .+|. .|+-|..||..+.. + .|-|+||--|-|||++.+.+++..+..++ |+.+||||--||.
T Consensus 582 ~~q~~F~~~FPye-ET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GK---QVAvLVPTTlLA~ 657 (1139)
T COG1197 582 EWQEEFEASFPYE-ETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGK---QVAVLVPTTLLAQ 657 (1139)
T ss_pred HHHHHHHhcCCCc-CCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCC---eEEEEcccHHhHH
Confidence 33344433 3665 49999999998754 3 58899999999999999999999998887 9999999999999
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchHHhHHHHh
Q 028848 153 QVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 153 Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~~~~~~l~ 194 (202)
|-++.|++-..+. |++|-.+--=.+..+|+..++
T Consensus 658 QHy~tFkeRF~~f--------PV~I~~LSRF~s~kE~~~il~ 691 (1139)
T COG1197 658 QHYETFKERFAGF--------PVRIEVLSRFRSAKEQKEILK 691 (1139)
T ss_pred HHHHHHHHHhcCC--------CeeEEEecccCCHHHHHHHHH
Confidence 9999998766665 566555544444445544444
No 96
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.41 E-value=2.4e-06 Score=76.82 Aligned_cols=72 Identities=19% Similarity=0.248 Sum_probs=60.5
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPS 166 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~ 166 (202)
.+...|.......+.+ +.|++-|||-|||.+.+.-+...+...+. ++|+|+||+.|+.|..+.|++....+.
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~--kvlfLAPTKPLV~Qh~~~~~~v~~ip~ 86 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGG--KVLFLAPTKPLVLQHAEFCRKVTGIPE 86 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCC--eEEEecCCchHHHHHHHHHHHHhCCCh
Confidence 4567777777666665 89999999999999998888888765443 899999999999999999999887763
No 97
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.40 E-value=1.5e-06 Score=80.27 Aligned_cols=73 Identities=23% Similarity=0.329 Sum_probs=63.1
Q ss_pred HHHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 84 RMDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 84 ~l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.|++ .||..+.+.|+++|..+++|+|+++.-|||.||++||.+|.+-. .+ -+||++|.++|-.+..+.++..+
T Consensus 8 ~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~---~G---~TLVVSPLiSLM~DQV~~l~~~G 81 (590)
T COG0514 8 VLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL---EG---LTLVVSPLISLMKDQVDQLEAAG 81 (590)
T ss_pred HHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc---CC---CEEEECchHHHHHHHHHHHHHcC
Confidence 3444 48999999999999999999999999999999999999998543 22 67999999999999888888555
No 98
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.39 E-value=1.1e-06 Score=84.24 Aligned_cols=93 Identities=23% Similarity=0.055 Sum_probs=72.2
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLE 171 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.|.++|-..--.+..| -+....||.|||++|.+|++.....++ .+.|++|+.+||.|..+.+..+.++.
T Consensus 82 ~~ydVQliGgl~L~~G--~IaEm~TGEGKTL~a~lp~~l~al~g~---~VhIvT~ndyLA~RD~e~m~~l~~~l------ 150 (908)
T PRK13107 82 RHFDVQLLGGMVLDSN--RIAEMRTGEGKTLTATLPAYLNALTGK---GVHVITVNDYLARRDAENNRPLFEFL------ 150 (908)
T ss_pred CcCchHHhcchHhcCC--ccccccCCCCchHHHHHHHHHHHhcCC---CEEEEeCCHHHHHHHHHHHHHHHHhc------
Confidence 4678886544444444 478999999999999999987766666 69999999999999999999999997
Q ss_pred CCCceEEEEecCCchHHhHHHHh-hcCCCC
Q 028848 172 HKPCTVMALLDGGMLRRHKSWLK-VLYSLT 200 (202)
Q Consensus 172 ~~~~~v~~~~gg~~~~~~~~~l~-~~~~i~ 200 (202)
++++.++++|.+..+ ..+ ..+||+
T Consensus 151 --Glsv~~i~~~~~~~~---r~~~Y~~dI~ 175 (908)
T PRK13107 151 --GLTVGINVAGLGQQE---KKAAYNADIT 175 (908)
T ss_pred --CCeEEEecCCCCHHH---HHhcCCCCeE
Confidence 588888888776532 222 357774
No 99
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.36 E-value=3.2e-06 Score=82.57 Aligned_cols=88 Identities=24% Similarity=0.261 Sum_probs=65.3
Q ss_pred CCCCCCHHHHHHHHHH----HcCCCEEEEccCCCchHHHHHHHHHHHHH-hcCCCcEEEEEcCCHhhHHHHHHH-HHHHh
Q 028848 89 GYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVTKV-ARVLA 162 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~~l~~il~~l~-~~~~~~~~lil~Pt~~La~Q~~~~-~~~l~ 162 (202)
|| ++.+.|.+-+..+ ..+..+++.|+||+|||++|++|.+.... .++ +++|.++|+.|..|+... +..+.
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~---~vvIsT~T~~LQ~Ql~~kDiP~L~ 330 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEE---PVVISTYTIQLQQQLLEKDIPLLQ 330 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCC---eEEEEcCCHHHHHHHHHhhHHHHH
Confidence 44 5789999866544 46678999999999999999999876543 344 899999999999999763 44444
Q ss_pred cCCCCCCCCCCCceEEEEecCCch
Q 028848 163 AKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 163 ~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
+..+ .+++++.+-|.++.
T Consensus 331 ~~~~------~~~~~~~lKGr~nY 348 (928)
T PRK08074 331 KIFP------FPVEAALLKGRSHY 348 (928)
T ss_pred HHcC------CCceEEEEEccccc
Confidence 4332 25777777777764
No 100
>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=98.34 E-value=2.9e-06 Score=80.27 Aligned_cols=67 Identities=16% Similarity=0.226 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHHc-C--CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFS-S--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~-g--~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+.+.|++++..+.. | +..+++.|||+|||++.+..+.. + ++ ++|||||+.+|+.|+.+.|.++...
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~-l--~k---~tLILvps~~Lv~QW~~ef~~~~~l 324 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACT-V--KK---SCLVLCTSAVSVEQWKQQFKMWSTI 324 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHH-h--CC---CEEEEeCcHHHHHHHHHHHHHhcCC
Confidence 579999999998763 4 36789999999999998766543 2 33 6899999999999999999988643
No 101
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.18 E-value=7e-06 Score=81.34 Aligned_cols=70 Identities=24% Similarity=0.320 Sum_probs=55.4
Q ss_pred CCCHHHHHHHHHHH----cC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 92 LPTDIQREALPVLF----SS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 92 ~~t~~Q~~~i~~il----~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.+.+.|..++..+. .| +..+++.+||||||.+.+..+...+.. ....++|+|+|+++|+.|..+.|+.+.
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~-~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKA-KRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhc-CccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 58999999998764 33 578999999999998865554444433 333499999999999999999998764
No 102
>PF13245 AAA_19: Part of AAA domain
Probab=98.18 E-value=1.1e-05 Score=55.26 Aligned_cols=51 Identities=22% Similarity=0.309 Sum_probs=40.8
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.-+++.|++|||||...+..+...+.. ...+-++++++|++..+..+.+++
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 335669999999998888888877754 111348999999999999998888
No 103
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.16 E-value=7.6e-06 Score=72.55 Aligned_cols=74 Identities=19% Similarity=0.258 Sum_probs=58.3
Q ss_pred HHHHh-CCCCCC-CHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 83 RRMDE-TGYVLP-TDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 83 ~~l~~-~g~~~~-t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
++|++ .|+..+ ++.|++++..+..+ .||.++.|||+||.+||-+|.+- .++ -.||++|.++|..+..+.+.
T Consensus 9 eaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~---~~g---ITIV~SPLiALIkDQiDHL~ 82 (641)
T KOG0352|consen 9 EALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALV---HGG---ITIVISPLIALIKDQIDHLK 82 (641)
T ss_pred HHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHH---hCC---eEEEehHHHHHHHHHHHHHH
Confidence 34444 255433 89999999987665 69999999999999999999753 233 67999999999998888887
Q ss_pred HHh
Q 028848 160 VLA 162 (202)
Q Consensus 160 ~l~ 162 (202)
.|-
T Consensus 83 ~LK 85 (641)
T KOG0352|consen 83 RLK 85 (641)
T ss_pred hcC
Confidence 654
No 104
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.15 E-value=9.3e-06 Score=71.11 Aligned_cols=88 Identities=20% Similarity=0.232 Sum_probs=70.0
Q ss_pred hHhcCCCC--HHHHHHHHh-CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 71 ELCQGHVP--EHVLRRMDE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 71 ~l~~~gl~--~~l~~~l~~-~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
.|.+.+++ .+..+.|++ ....++.|.|.++|...++|.|+++.-|||-||.+||-+|.+. .++ .+|+++|.
T Consensus 70 awdkd~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~---adg---~alvi~pl 143 (695)
T KOG0353|consen 70 AWDKDDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC---ADG---FALVICPL 143 (695)
T ss_pred ccccCCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh---cCC---ceEeechh
Confidence 35554543 444454544 3556789999999999999999999999999999999999854 333 78999999
Q ss_pred HhhHHHHHHHHHHHhcC
Q 028848 148 RELGMQVTKVARVLAAK 164 (202)
Q Consensus 148 ~~La~Q~~~~~~~l~~~ 164 (202)
++|..+..-.++.++-.
T Consensus 144 islmedqil~lkqlgi~ 160 (695)
T KOG0353|consen 144 ISLMEDQILQLKQLGID 160 (695)
T ss_pred HHHHHHHHHHHHHhCcc
Confidence 99999988888887744
No 105
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.11 E-value=9.2e-06 Score=65.36 Aligned_cols=68 Identities=22% Similarity=0.327 Sum_probs=51.1
Q ss_pred CCHHHHHHHHHHHcCCC-EEEEccCCCchHHHHHHHHHHHHH-----hcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 93 PTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVN-----AQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~-~l~~a~TGsGKT~~~l~~il~~l~-----~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
+++.|..|+..++...+ .++.||+|+|||.+....+..... ....+.++|+++|+..-+.++.+.+.+
T Consensus 2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 68999999999998888 999999999999766555544421 133444899999999999999998887
No 106
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.11 E-value=8.2e-06 Score=76.88 Aligned_cols=50 Identities=20% Similarity=0.199 Sum_probs=44.1
Q ss_pred EEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
+..+.+|||||++|+..+.+.+..++ ++|||+|++.|+.|+.++|+....
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk---~vLvLvPEi~lt~q~~~rl~~~f~ 213 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGR---GALVVVPDQRDVDRLEAALRALLG 213 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCC---eEEEEecchhhHHHHHHHHHHHcC
Confidence 33445699999999999999999888 999999999999999999987653
No 107
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.08 E-value=2.5e-05 Score=74.23 Aligned_cols=88 Identities=26% Similarity=0.339 Sum_probs=62.5
Q ss_pred CCCCCCHHHHHHHHHHH---cC------CCEEEEccCCCchHHHHHHHHHHHHH-hcCCCcEEEEEcCCHhhHHHHH-HH
Q 028848 89 GYVLPTDIQREALPVLF---SS------RDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVT-KV 157 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il---~g------~~~l~~a~TGsGKT~~~l~~il~~l~-~~~~~~~~lil~Pt~~La~Q~~-~~ 157 (202)
|| ++.+.|.+-+..+. ++ ..+++.|+||+|||++||+|.+.... .++ +++|-+.|+.|-.|+. +.
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k---~vVIST~T~~LQeQL~~kD 98 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKK---KLVISTATVALQEQLVSKD 98 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCC---eEEEEcCCHHHHHHHHhhh
Confidence 55 46899998665543 33 56889999999999999999876443 455 8999999999999996 44
Q ss_pred HHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 158 ARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 158 ~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
+..+.+..+ .+++++.+=|-++.
T Consensus 99 lP~l~~~l~------~~~~~~llKGr~nY 121 (697)
T PRK11747 99 LPLLLKISG------LDFKFTLAKGRGRY 121 (697)
T ss_pred hhHHHHHcC------CCceEEEEcCcccc
Confidence 555554443 24665555554443
No 108
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.06 E-value=1.9e-05 Score=75.14 Aligned_cols=74 Identities=24% Similarity=0.238 Sum_probs=62.9
Q ss_pred CCCCCCHHHHHHHHHH----HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 89 GYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.|..+.|.|.+.+..+ ..|.+.++.+|||+|||++.|.+.+......+...+.++.+.|..-..|+.++++++.
T Consensus 7 Py~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 7 PYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLM 84 (705)
T ss_pred CCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhh
Confidence 5666799999988664 4678899999999999999999999877654444689999999999999999999865
No 109
>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=98.00 E-value=2.3e-05 Score=66.02 Aligned_cols=70 Identities=24% Similarity=0.248 Sum_probs=56.6
Q ss_pred CCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
+|+.|.+++.. ...++++.|..|||||.+.+.-+...+..++ ..-+.|++++|+..+..+.+++......
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 57899998876 4568999999999999999888888887663 4457999999999999999999886554
No 110
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.99 E-value=0.00011 Score=69.42 Aligned_cols=97 Identities=18% Similarity=0.123 Sum_probs=76.7
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-...-.++.|. +....||+|||++..+|+......++ ++.|++|+--||.|-.+.+..+.+..
T Consensus 76 g~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~G~---~VhvvT~NdyLA~RDae~m~~ly~~L--- 146 (764)
T PRK12326 76 GL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQGR---RVHVITVNDYLARRDAEWMGPLYEAL--- 146 (764)
T ss_pred CC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHcCC---CeEEEcCCHHHHHHHHHHHHHHHHhc---
Confidence 54 57999999998888884 56899999999999999887777777 89999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLTS 201 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~~ 201 (202)
++++.++.++.+.. +++..- ..||++
T Consensus 147 -----GLsvg~i~~~~~~~-err~aY-~~DItY 172 (764)
T PRK12326 147 -----GLTVGWITEESTPE-ERRAAY-ACDVTY 172 (764)
T ss_pred -----CCEEEEECCCCCHH-HHHHHH-cCCCEE
Confidence 57877666655543 333332 466753
No 111
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.96 E-value=4e-05 Score=72.10 Aligned_cols=73 Identities=25% Similarity=0.297 Sum_probs=58.8
Q ss_pred CCCCCCCHHHHHHHHHH----HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 88 TGYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.....+.+.|.+.+..+ .++..+++.||||+|||++|+.|++......+ ..++|.++|+.|-.|+.+....+.
T Consensus 11 ~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~--~~viist~t~~lq~q~~~~~~~~~ 87 (654)
T COG1199 11 FPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG--KKVIISTRTKALQEQLLEEDLPIH 87 (654)
T ss_pred CCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcC--CcEEEECCCHHHHHHHHHhhcchh
Confidence 34557899999988654 34455999999999999999999988664433 389999999999999998876653
No 112
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.96 E-value=8.7e-05 Score=70.90 Aligned_cols=96 Identities=24% Similarity=0.127 Sum_probs=75.1
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-...-.+..|+ +....||+|||++..+|+......++ ++-+++|+--||.|=++.+..+.+..
T Consensus 78 g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~G~---~v~vvT~neyLA~Rd~e~~~~~~~~L--- 148 (796)
T PRK12906 78 GL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALTGK---GVHVVTVNEYLSSRDATEMGELYRWL--- 148 (796)
T ss_pred CC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHcCC---CeEEEeccHHHHHhhHHHHHHHHHhc---
Confidence 54 57899988776777775 78999999999999999888777777 89999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.++.++.+.. +++.. ...||+
T Consensus 149 -----Gl~vg~i~~~~~~~-~r~~~-y~~dI~ 173 (796)
T PRK12906 149 -----GLTVGLNLNSMSPD-EKRAA-YNCDIT 173 (796)
T ss_pred -----CCeEEEeCCCCCHH-HHHHH-hcCCCe
Confidence 57877666554433 33322 245664
No 113
>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=97.83 E-value=4.9e-05 Score=71.87 Aligned_cols=70 Identities=27% Similarity=0.305 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHH----c------CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 93 PTDIQREALPVLF----S------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 93 ~t~~Q~~~i~~il----~------g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
+...|..++..+. . .+..++..+||||||+..+..+...+. .....++|+|+|.++|..|+.+.|..+.
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~-~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALE-LLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHh-hcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 5778988887752 2 245889999999999988777655553 3345599999999999999999999876
Q ss_pred c
Q 028848 163 A 163 (202)
Q Consensus 163 ~ 163 (202)
.
T Consensus 318 ~ 318 (667)
T TIGR00348 318 K 318 (667)
T ss_pred C
Confidence 4
No 114
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=97.80 E-value=4.1e-05 Score=74.43 Aligned_cols=91 Identities=21% Similarity=0.164 Sum_probs=68.1
Q ss_pred HhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 86 DETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
...|+....+.|.++|...+.|+|+++..|||.||.+||-+|.+- .++ -.||++|.++|...+...+...
T Consensus 258 ~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l---~~g---itvVISPL~SLm~DQv~~L~~~---- 327 (941)
T KOG0351|consen 258 EVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALL---LGG---VTVVISPLISLMQDQVTHLSKK---- 327 (941)
T ss_pred HHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeeccccc---cCC---ceEEeccHHHHHHHHHHhhhhc----
Confidence 346889999999999999999999999999999999999888642 233 6799999999998766666211
Q ss_pred CCCCCCCCCceEEEEecCCchHHhHHHHh
Q 028848 166 SDTDLEHKPCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 166 ~~~~~~~~~~~v~~~~gg~~~~~~~~~l~ 194 (202)
+|....+.++....+++..++
T Consensus 328 --------~I~a~~L~s~q~~~~~~~i~q 348 (941)
T KOG0351|consen 328 --------GIPACFLSSIQTAAERLAILQ 348 (941)
T ss_pred --------CcceeeccccccHHHHHHHHH
Confidence 344444445555555544444
No 115
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.80 E-value=0.00012 Score=70.65 Aligned_cols=87 Identities=20% Similarity=0.070 Sum_probs=68.2
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-..--.+..| -+....||+|||++..+|++-....++ ++.|++|+--||.|-.+.+..+.++.
T Consensus 80 Gm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al~G~---~VhvvT~ndyLA~RD~e~m~~l~~~l--- 150 (913)
T PRK13103 80 GM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNALSGK---GVHVVTVNDYLARRDANWMRPLYEFL--- 150 (913)
T ss_pred CC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHHcCC---CEEEEeCCHHHHHHHHHHHHHHhccc---
Confidence 53 5688886655455555 467899999999999999887777777 89999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHh
Q 028848 169 DLEHKPCTVMALLDGGMLRRH 189 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~ 189 (202)
++++.++.++.+..+.
T Consensus 151 -----Gl~v~~i~~~~~~~er 166 (913)
T PRK13103 151 -----GLSVGIVTPFQPPEEK 166 (913)
T ss_pred -----CCEEEEECCCCCHHHH
Confidence 5787766555444433
No 116
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.79 E-value=0.00011 Score=63.69 Aligned_cols=81 Identities=20% Similarity=0.197 Sum_probs=66.4
Q ss_pred CCCHHHHHHHHHH----HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC
Q 028848 92 LPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~ 167 (202)
++|+.|+.+-..+ .+..+.+++|+||+|||+-..-.|...+..|. ++.|-+|-...+..++.+++.-..
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~---~vciASPRvDVclEl~~Rlk~aF~---- 169 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG---RVCIASPRVDVCLELYPRLKQAFS---- 169 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC---eEEEecCcccchHHHHHHHHHhhc----
Confidence 6899999876554 45679999999999999998888888888877 899999999999999888876543
Q ss_pred CCCCCCCceEEEEecCCc
Q 028848 168 TDLEHKPCTVMALLDGGM 185 (202)
Q Consensus 168 ~~~~~~~~~v~~~~gg~~ 185 (202)
++.+.++||+..
T Consensus 170 ------~~~I~~Lyg~S~ 181 (441)
T COG4098 170 ------NCDIDLLYGDSD 181 (441)
T ss_pred ------cCCeeeEecCCc
Confidence 356777777765
No 117
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.66 E-value=0.00019 Score=68.64 Aligned_cols=74 Identities=23% Similarity=0.308 Sum_probs=61.9
Q ss_pred CCCHHHHHHHHHHHcC---C-CEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 92 LPTDIQREALPVLFSS---R-DCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g---~-~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
...+.|..++..++.. . .+++.+|||.|||++.+++....+.. .....+.+++.|++.+.++++++++......
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~ 273 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF 273 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhccc
Confidence 3478888888877644 3 68899999999999999999888776 3455699999999999999999999877664
No 118
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.64 E-value=0.00011 Score=69.04 Aligned_cols=66 Identities=17% Similarity=0.183 Sum_probs=60.9
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
.+.|.|+.+|..+-++..+++.|.|.+|||.+.-.+|...+..+. |+|+-+|-++|.+|-++++..
T Consensus 129 ~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~kQ---RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 129 TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREKQ---RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhcC---eEEeeChhhhhcchhHHHHHH
Confidence 578999999999999999999999999999999889888887777 999999999999999988864
No 119
>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=97.64 E-value=0.00026 Score=66.66 Aligned_cols=67 Identities=24% Similarity=0.277 Sum_probs=56.3
Q ss_pred CCCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 91 VLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
..+++.|..++..++.. ..++++||+|+|||......+.+.+..+. ++|+++||..-+.++.+.+..
T Consensus 156 ~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~---~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL---RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC---CEEEEcCcHHHHHHHHHHHHh
Confidence 35799999999998876 56889999999999887776766666555 899999999999999888865
No 120
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.61 E-value=0.00042 Score=55.74 Aligned_cols=63 Identities=21% Similarity=0.305 Sum_probs=45.5
Q ss_pred CCCHHHHHHHHHHHcCC--CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHH
Q 028848 92 LPTDIQREALPVLFSSR--DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~--~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~ 157 (202)
++++.|++++..++... -.++.|+.|+|||.+. ..+...+... +.++++++||...+..+.+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~--g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEAA--GKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHHT--T--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHhC--CCeEEEECCcHHHHHHHHHh
Confidence 36899999999987554 3778899999999753 4455555443 24899999999888887766
No 121
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.60 E-value=0.0002 Score=65.91 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHHHcCCC-EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~-~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.+++-|++|+....+.++ .+++||+|+|||.....-|.+.+.+++ ++|+..||.+-+.-+.+++.
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~k---~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQKK---RVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHcCC---eEEEEcCchHHHHHHHHHhc
Confidence 568899999998877755 789999999999999999999998888 99999999998888888644
No 122
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.59 E-value=0.00013 Score=66.45 Aligned_cols=67 Identities=28% Similarity=0.333 Sum_probs=51.1
Q ss_pred CCCHHHHHHHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.|+.-|-+||..+..| +.-.+.|.||||||..-.--|. .+ ++ -+|||+|.+.||.|++.+|+.+...
T Consensus 12 ~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~-~~--~r---PtLV~AhNKTLAaQLy~Efk~fFP~ 83 (663)
T COG0556 12 KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIA-KV--QR---PTLVLAHNKTLAAQLYSEFKEFFPE 83 (663)
T ss_pred CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHH-Hh--CC---CeEEEecchhHHHHHHHHHHHhCcC
Confidence 4788888888877544 4678899999999965433322 12 23 5799999999999999999998753
No 123
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.36 E-value=0.00058 Score=65.80 Aligned_cols=73 Identities=18% Similarity=0.140 Sum_probs=60.2
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+| .+...|++||-.+..|..|++.|+|.+|||++.-.+|.-....+. +++|-+|-++|.+|-++.|+.....
T Consensus 294 ~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq~h~T---R~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 294 YPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQKHMT---RTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred CCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHHhhcc---ceEecchhhhhccchHHHHHHhccc
Confidence 355 579999999999999999999999999999996666543333333 8999999999999999999865544
No 124
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.32 E-value=0.0013 Score=63.28 Aligned_cols=96 Identities=23% Similarity=0.106 Sum_probs=69.6
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-...-.+.. .-+....||.|||+++.+|+.-....++ .+.|++++..||.+-.+.+..+-++.
T Consensus 74 G~-r~ydvQlig~l~L~~--G~IaEm~TGEGKTL~a~l~ayl~aL~G~---~VhVvT~NdyLA~RD~e~m~pvy~~L--- 144 (870)
T CHL00122 74 GL-RHFDVQLIGGLVLND--GKIAEMKTGEGKTLVATLPAYLNALTGK---GVHIVTVNDYLAKRDQEWMGQIYRFL--- 144 (870)
T ss_pred CC-CCCchHhhhhHhhcC--CccccccCCCCchHHHHHHHHHHHhcCC---ceEEEeCCHHHHHHHHHHHHHHHHHc---
Confidence 55 478888766544444 4678999999999999998854333455 78999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLT 200 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~ 200 (202)
++++.++.++.+..+.+.. ...|||
T Consensus 145 -----GLsvg~i~~~~~~~err~a--Y~~DIt 169 (870)
T CHL00122 145 -----GLTVGLIQEGMSSEERKKN--YLKDIT 169 (870)
T ss_pred -----CCceeeeCCCCChHHHHHh--cCCCCE
Confidence 5777766665554433222 235664
No 125
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.20 E-value=0.0009 Score=54.41 Aligned_cols=59 Identities=25% Similarity=0.300 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
...|..|+.++..++...-+++.|+.|+|||+..+...++.+..+. .-+.+|.-|..+.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~-~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGE-YDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS--SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCC-CcEEEEEecCCCC
Confidence 3468999999999997777899999999999999999998887644 3367777777653
No 126
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=97.04 E-value=0.013 Score=49.48 Aligned_cols=85 Identities=19% Similarity=0.106 Sum_probs=64.2
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCC
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDL 170 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~ 170 (202)
..|.++|-.++=.+..|+ ++.-.||-|||++..+|..-....++ .+-|++....||.+=.+.+..+-+..
T Consensus 76 ~~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G~---~V~vvT~NdyLA~RD~~~~~~~y~~L----- 145 (266)
T PF07517_consen 76 LRPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQGK---GVHVVTSNDYLAKRDAEEMRPFYEFL----- 145 (266)
T ss_dssp ----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTSS----EEEEESSHHHHHHHHHHHHHHHHHT-----
T ss_pred CcccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhcC---CcEEEeccHHHhhccHHHHHHHHHHh-----
Confidence 368999999987777775 88999999999998777655555565 88899999999999999999998887
Q ss_pred CCCCceEEEEecCCchHH
Q 028848 171 EHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 171 ~~~~~~v~~~~gg~~~~~ 188 (202)
++++..++.+.+..+
T Consensus 146 ---Glsv~~~~~~~~~~~ 160 (266)
T PF07517_consen 146 ---GLSVGIITSDMSSEE 160 (266)
T ss_dssp ---T--EEEEETTTEHHH
T ss_pred ---hhccccCccccCHHH
Confidence 588777777766433
No 127
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=97.03 E-value=0.0051 Score=51.45 Aligned_cols=56 Identities=30% Similarity=0.303 Sum_probs=38.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCC--cEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSA--VQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~--~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
+..+++-.+|+|||...+..+.......+.. -.+||++|. .+..|+.+++.+++..
T Consensus 26 ~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~ 83 (299)
T PF00176_consen 26 RGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDP 83 (299)
T ss_dssp -EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT
T ss_pred CCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcccccc
Confidence 4689999999999988776665444333321 248999999 8889999999999864
No 128
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.96 E-value=0.0027 Score=59.34 Aligned_cols=75 Identities=15% Similarity=0.198 Sum_probs=62.0
Q ss_pred HhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 86 DETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
...++.+++.-|..|+..+|+..-.|++||+|+|||++-.--+.+.+... +..+|+.+|..--+.|+.+-+.+.+
T Consensus 404 s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~--~~~VLvcApSNiAVDqLaeKIh~tg 478 (935)
T KOG1802|consen 404 SVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQH--AGPVLVCAPSNIAVDQLAEKIHKTG 478 (935)
T ss_pred cCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhc--CCceEEEcccchhHHHHHHHHHhcC
Confidence 34577889999999999999998899999999999998777777766653 3478999999988999888776443
No 129
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.95 E-value=0.003 Score=59.92 Aligned_cols=70 Identities=20% Similarity=0.161 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.+++.|++++.. ....+++.|..|||||.+.+.-+...+...+ ..-+.|+++.|+.-|..+.+++..+..
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 378999998864 2346888999999999999888888886533 334789999999999999999987654
No 130
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.83 E-value=0.0053 Score=60.04 Aligned_cols=51 Identities=25% Similarity=0.400 Sum_probs=41.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.++.+..+||+|||.+|+..|++....-+ ..+.||+||+.+.-..+...+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~-~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYG-LFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcC-CcEEEEEeCCHHHHHHHHHHhh
Confidence 46899999999999999999988765433 3478999999998777776554
No 131
>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=96.83 E-value=0.0017 Score=49.90 Aligned_cols=52 Identities=21% Similarity=0.310 Sum_probs=37.2
Q ss_pred CCCEEEEccCCCchHHHHHHHH-HHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLI-FSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~i-l~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
|.--++-..+|+|||--.+--+ .+.+.++. ++|||.|||.++..+.+.++..
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~---rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRL---RVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT-----EEEEESSHHHHHHHHHHTTTS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccC---eEEEecccHHHHHHHHHHHhcC
Confidence 4445778899999998765544 45666666 9999999999999988887643
No 132
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.81 E-value=0.0053 Score=58.11 Aligned_cols=66 Identities=24% Similarity=0.335 Sum_probs=51.3
Q ss_pred CCCHHHHHHHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.|+..|..++..+.++ +..++.|.||||||..... +++.. ++ .+||++|+..+|.|+++.|+.+..
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~-~~~~~--~~---p~Lvi~~n~~~A~ql~~el~~f~p 79 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMAN-VIAQV--NR---PTLVIAHNKTLAAQLYNEFKEFFP 79 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHH-HHHHh--CC---CEEEEECCHHHHHHHHHHHHHhCC
Confidence 5899999999887544 2567999999999976543 22222 33 689999999999999999998864
No 133
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.76 E-value=0.011 Score=56.37 Aligned_cols=73 Identities=16% Similarity=0.081 Sum_probs=56.9
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.-..+|+.|+.++-. ...++++.|..|||||.+.+.-+...+..+. .+-++|+++.++..+..+.+++.....
T Consensus 193 e~~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 193 ESSPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred cCCCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 335789999998843 3346889999999999998887777776543 334899999999999999988876543
No 134
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.71 E-value=0.0068 Score=57.26 Aligned_cols=70 Identities=23% Similarity=0.185 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc-CCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-RSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
+|+.|++++.. ...++++.|..|||||.+.+.-+...+... ...-+.|+++.|+.-+..+.+++.++...
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~ 72 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGK 72 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCc
Confidence 68999998753 345799999999999999998888888643 23447888889999999999999876643
No 135
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.70 E-value=0.01 Score=57.52 Aligned_cols=97 Identities=18% Similarity=0.057 Sum_probs=70.9
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-..--.+..| -+....||-|||++..+|+.-....++ .+.|+.++-.||.+=.+.+..+-++.
T Consensus 83 G~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL~Gk---gVhVVTvNdYLA~RDae~m~~vy~~L--- 153 (939)
T PRK12902 83 GM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNALTGK---GVHVVTVNDYLARRDAEWMGQVHRFL--- 153 (939)
T ss_pred CC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhhcCC---CeEEEeCCHHHHHhHHHHHHHHHHHh---
Confidence 44 4688886655555555 467999999999999998876555566 78999999999999999999999987
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLTS 201 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~~ 201 (202)
+++|.++.++.. .+++ .-....||++
T Consensus 154 -----GLtvg~i~~~~~-~~er-r~aY~~DItY 179 (939)
T PRK12902 154 -----GLSVGLIQQDMS-PEER-KKNYACDITY 179 (939)
T ss_pred -----CCeEEEECCCCC-hHHH-HHhcCCCeEE
Confidence 577776655443 3332 3344566643
No 136
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.67 E-value=0.0059 Score=58.31 Aligned_cols=71 Identities=24% Similarity=0.209 Sum_probs=57.9
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+|+.|++++.. ....+++.|..|||||.+...=+...+.... ..-+.|+++.|+.-|..+.+++.++...
T Consensus 4 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~ 75 (715)
T TIGR01075 4 GLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT 75 (715)
T ss_pred ccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 589999998854 2357999999999999998888888776533 3447899999999999999999887753
No 137
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.64 E-value=0.0078 Score=57.57 Aligned_cols=71 Identities=24% Similarity=0.227 Sum_probs=57.4
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+|+.|++++.. ....+++.|..|||||.+...=+...+...+ ..-+.|+++-|+.-|..+.+++.++...
T Consensus 9 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~ 80 (721)
T PRK11773 9 SLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT 80 (721)
T ss_pred hcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 489999998853 2347899999999999998888887776433 3347899999999999999999887653
No 138
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=96.57 E-value=0.0065 Score=59.03 Aligned_cols=70 Identities=26% Similarity=0.296 Sum_probs=59.0
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.|...|.+.+..+-.+...++.+||-+|||.+-...+..+++....+ -+|+.+||++|++|+...+...-
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~-VVIyvaPtKaLVnQvsa~VyaRF 580 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSD-VVIYVAPTKALVNQVSANVYARF 580 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhcCCC-EEEEecchHHHhhhhhHHHHHhh
Confidence 67899999999998999999999999999999878888887655444 67899999999999987665433
No 139
>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=96.44 E-value=0.011 Score=59.67 Aligned_cols=68 Identities=19% Similarity=0.143 Sum_probs=56.1
Q ss_pred CCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.|+.|.++|. ..+.++++.|.-|||||.+.+--++..+..+...-+.|+++=|+.-+..+.+++.+..
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l 69 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEAL 69 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHH
Confidence 5899999996 4678999999999999999988888877655333368999999999988888876644
No 140
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=96.39 E-value=0.013 Score=54.42 Aligned_cols=85 Identities=19% Similarity=0.216 Sum_probs=59.7
Q ss_pred HHHHHHHhCCCCC-------CCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC---CCcEEEEEcCCHh
Q 028848 80 HVLRRMDETGYVL-------PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---SAVQAVIVVPTRE 149 (202)
Q Consensus 80 ~l~~~l~~~g~~~-------~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~---~~~~~lil~Pt~~ 149 (202)
.+...|.++.-.. ..+.|-+.|. .-.+.-++++|..|||||.+.+.-+...+..-+ .+-.+||+.|.+-
T Consensus 193 vL~~~Lek~ss~~mrdIV~TIQkEQneIIR-~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~v 271 (747)
T COG3973 193 VLQRVLEKNSSAKMRDIVETIQKEQNEIIR-FEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRV 271 (747)
T ss_pred HHHHHHHhccchhHHHHHHHhhHhHHHHHh-ccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHH
Confidence 4455566553332 3344544442 123445899999999999999887777776433 2225899999999
Q ss_pred hHHHHHHHHHHHhcCC
Q 028848 150 LGMQVTKVARVLAAKP 165 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~ 165 (202)
+..-+.+++..|+...
T Consensus 272 FleYis~VLPeLGe~~ 287 (747)
T COG3973 272 FLEYISRVLPELGEEG 287 (747)
T ss_pred HHHHHHHhchhhccCc
Confidence 9999999999999864
No 141
>PRK10536 hypothetical protein; Provisional
Probab=96.39 E-value=0.016 Score=48.76 Aligned_cols=61 Identities=13% Similarity=0.116 Sum_probs=45.6
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
.++...|..|...+..+.....+++.|++|+|||...+...++.+..+. .-+.+|.-|+.+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~-~~kIiI~RP~v~ 115 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKD-VDRIIVTRPVLQ 115 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-eeEEEEeCCCCC
Confidence 3566679999999999988888899999999999998887776664433 224555546543
No 142
>COG4889 Predicted helicase [General function prediction only]
Probab=96.35 E-value=0.011 Score=57.24 Aligned_cols=92 Identities=18% Similarity=0.167 Sum_probs=62.1
Q ss_pred HHHHHHHhCCCCCCCHHHHHHHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 80 HVLRRMDETGYVLPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 80 ~l~~~l~~~g~~~~t~~Q~~~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
++..++.-..-.+|.|.|++|+....+| +.-|+. ..|+|||...|-...... + .+.|+|+|.+.|..|.
T Consensus 149 e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIM-AcGTGKTfTsLkisEala-~----~~iL~LvPSIsLLsQT 222 (1518)
T COG4889 149 ELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIM-ACGTGKTFTSLKISEALA-A----ARILFLVPSISLLSQT 222 (1518)
T ss_pred ccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEEE-ecCCCccchHHHHHHHHh-h----hheEeecchHHHHHHH
Confidence 3334444445668999999999998765 223333 348999988766554333 2 3899999999999998
Q ss_pred HHHHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 155 TKVARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 155 ~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
.+.-..=.+ .+++...++.+...
T Consensus 223 lrew~~~~~---------l~~~a~aVcSD~kv 245 (1518)
T COG4889 223 LREWTAQKE---------LDFRASAVCSDDKV 245 (1518)
T ss_pred HHHHhhccC---------ccceeEEEecCccc
Confidence 776543222 35777777776654
No 143
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.34 E-value=0.0082 Score=57.37 Aligned_cols=73 Identities=19% Similarity=0.116 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHH----HcCC-CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 92 LPTDIQREALPVL----FSSR-DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----l~g~-~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
.+...|..||..+ ..|+ .+|+...||+|||-..+..|...+ +.+..-++|+|+=.++|+.|.+..+..+.-+.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~-r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~ 242 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLI-KSGWVKRVLFLADRNALVDQAYGAFEDFLPFG 242 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHH-hcchhheeeEEechHHHHHHHHHHHHHhCCCc
Confidence 5788999999765 4453 489999999999988765555444 44334499999999999999998888776543
No 144
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.20 E-value=0.027 Score=48.82 Aligned_cols=46 Identities=35% Similarity=0.393 Sum_probs=31.4
Q ss_pred HHHHhCCCCCCCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHH
Q 028848 83 RRMDETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 83 ~~l~~~g~~~~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~ 131 (202)
+.+.+.|. +++.|...+.. +..+.++++.|+|||||| .++..++..
T Consensus 125 ~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~ 171 (319)
T PRK13894 125 DQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINE 171 (319)
T ss_pred HHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHh
Confidence 33444454 45677777764 566789999999999999 444555544
No 145
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=96.12 E-value=0.022 Score=54.53 Aligned_cols=70 Identities=20% Similarity=0.198 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.+++.|++++.. ...++++.|..|||||.+.+.=+...+..++ ..-+.|+++-|+.-+..+.+++.+++.
T Consensus 4 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 4 HLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred ccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 589999998864 2347999999999999999888888886543 333789999999999999999988764
No 146
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.01 E-value=0.043 Score=47.70 Aligned_cols=39 Identities=23% Similarity=0.256 Sum_probs=28.6
Q ss_pred CCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHH
Q 028848 93 PTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 93 ~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
+++.|...+.. +..+.+++++|+||||||... ..++..+
T Consensus 129 ~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i 168 (323)
T PRK13833 129 MTEAQASVIRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEI 168 (323)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence 56777777655 456779999999999999654 5555554
No 147
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.97 E-value=0.022 Score=57.41 Aligned_cols=64 Identities=25% Similarity=0.335 Sum_probs=39.9
Q ss_pred HHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEE--cC----CHhhHHHHHHHHHH-HhcC
Q 028848 97 QREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIV--VP----TRELGMQVTKVARV-LAAK 164 (202)
Q Consensus 97 Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil--~P----t~~La~Q~~~~~~~-l~~~ 164 (202)
-.+.+..+.++..++++|+||||||. .+|.+.... +. +..+.|. -| +++||.|+.+++.. ++..
T Consensus 79 r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle~-g~-g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~ 149 (1294)
T PRK11131 79 KQDILEAIRDHQVVIVAGETGSGKTT--QLPKICLEL-GR-GVKGLIGHTQPRRLAARTVANRIAEELETELGGC 149 (1294)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHHc-CC-CCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcce
Confidence 33445556666778899999999999 467432221 21 1122333 25 67999999998875 4443
No 148
>PRK05973 replicative DNA helicase; Provisional
Probab=95.94 E-value=0.024 Score=47.10 Aligned_cols=54 Identities=26% Similarity=0.250 Sum_probs=39.2
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
..|.-+++.|++|+|||...+..+.+....+. +++|++-+-. ..|+.+++..+.
T Consensus 62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge---~vlyfSlEes-~~~i~~R~~s~g 115 (237)
T PRK05973 62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGR---TGVFFTLEYT-EQDVRDRLRALG 115 (237)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCC---eEEEEEEeCC-HHHHHHHHHHcC
Confidence 34556899999999999887777766665554 7888875544 567777777664
No 149
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.90 E-value=0.042 Score=54.17 Aligned_cols=67 Identities=19% Similarity=0.124 Sum_probs=52.5
Q ss_pred CCCHHHHHHHHHHHcC--CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
.|.|.|......++.. ..+|+.-..|.|||.-....+...+..+... ++||+||. .|..|+..++.+
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~-rvLIVvP~-sL~~QW~~El~~ 220 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAE-RVLILVPE-TLQHQWLVEMLR 220 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCC-cEEEEcCH-HHHHHHHHHHHH
Confidence 5899999988776543 3689999999999988766665555554433 89999998 899999998854
No 150
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=95.89 E-value=0.024 Score=44.28 Aligned_cols=49 Identities=20% Similarity=0.262 Sum_probs=36.0
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
+++.|++|+|||...+.-+...+..+. .++++..+ +-..++.+.+..++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~---~v~~~s~e-~~~~~~~~~~~~~g 50 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGE---PGLYVTLE-ESPEELIENAESLG 50 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCC---cEEEEECC-CCHHHHHHHHHHcC
Confidence 688999999999887766666665555 77877654 55777777777663
No 151
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.85 E-value=0.08 Score=52.58 Aligned_cols=72 Identities=22% Similarity=0.160 Sum_probs=52.0
Q ss_pred CCCHHHHHHHHHHH----cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLF----SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il----~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+.+.|.+.+.-+. +|.+.|+.-..|.|||+..+..+..........-..||+||. ++..|+.+++.+++..
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~ 244 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPV 244 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCC
Confidence 57899999987653 577889999999999987544443322222222267999996 6678899999988743
No 152
>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=95.82 E-value=0.08 Score=50.81 Aligned_cols=65 Identities=20% Similarity=0.233 Sum_probs=48.0
Q ss_pred CCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
..+++.|++++..+...+-+++.|..|+|||.+. ..++..+........+++++||-.-+..+.+
T Consensus 322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 3689999999999988888999999999999764 3444444433212367888999776666653
No 153
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.77 E-value=0.039 Score=52.28 Aligned_cols=66 Identities=24% Similarity=0.319 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.|++.|..++..+.++ +..++.|.+||||+..... ++... ++ .+||++|+...+.|+++.++.+..
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~-l~~~~--~r---~vLIVt~~~~~A~~l~~dL~~~~~ 82 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMAN-VIARL--QR---PTLVLAHNKTLAAQLYSEFKEFFP 82 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHH-HHHHh--CC---CEEEEECCHHHHHHHHHHHHHhcC
Confidence 5899999999887543 2567999999999977542 22221 33 689999999999999999988864
No 154
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.76 E-value=0.12 Score=45.87 Aligned_cols=70 Identities=19% Similarity=0.072 Sum_probs=42.3
Q ss_pred CCChhcHHhHhcCCCCHHHHHHHHhC-C----CCCCCHHHHHHHHHH---------------HcCCCEEEEccCCCchHH
Q 028848 63 GNNSLTLRELCQGHVPEHVLRRMDET-G----YVLPTDIQREALPVL---------------FSSRDCILHAQTGSGKTL 122 (202)
Q Consensus 63 ~~~~~~~~~l~~~gl~~~l~~~l~~~-g----~~~~t~~Q~~~i~~i---------------l~g~~~l~~a~TGsGKT~ 122 (202)
|.....++.|.+.|+.+.+.+.+-+. . ...+...+... ..+ ..|..+++.||||+|||.
T Consensus 74 p~~~~l~~~L~~~g~~~~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~l~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTT 152 (374)
T PRK14722 74 PVHGALTKYLFAAGFSAQLVRMIVDNLPEGEGYDTLDAAADWA-QSVLAANLPVLDSEDALMERGGVFALMGPTGVGKTT 152 (374)
T ss_pred cHHHHHHHHHHHCCCCHHHHHHHHHhhhhhcccCCHHHHHHHH-HHHHHhcchhhcCCCccccCCcEEEEECCCCCCHHH
Confidence 44445568889999999887776442 1 11222212111 111 124468999999999998
Q ss_pred HHHHHHHHHHH
Q 028848 123 TYLLLIFSLVN 133 (202)
Q Consensus 123 ~~l~~il~~l~ 133 (202)
...........
T Consensus 153 tiakLA~~~~~ 163 (374)
T PRK14722 153 TTAKLAARCVM 163 (374)
T ss_pred HHHHHHHHHHH
Confidence 87666555443
No 155
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=95.69 E-value=0.05 Score=46.68 Aligned_cols=57 Identities=28% Similarity=0.381 Sum_probs=34.1
Q ss_pred CCHHHHHHHHH-HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 93 PTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 93 ~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
+++.|...+.. +..+.+++++|+||||||.. +..++..+.......+++++=-+.|+
T Consensus 117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl-l~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 117 MTAAQRDVLREAVLARKNILVVGGTGSGKTTL-ANALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHhhccCCCceEEEECCchhh
Confidence 45566666654 45567899999999999965 35555555432111244444444443
No 156
>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=95.57 E-value=0.031 Score=49.14 Aligned_cols=69 Identities=12% Similarity=0.234 Sum_probs=47.1
Q ss_pred CCCHHHHHHHHHH------HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH--HHHHHHHhc
Q 028848 92 LPTDIQREALPVL------FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV--TKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i------l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~--~~~~~~l~~ 163 (202)
.+++.|+.++..+ ..+..+.+.|+-|+|||.++-. +.+.+.. .+..+++++||--=|..+ ...++++..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~--~~~~~~~~a~tg~AA~~i~~G~T~hs~f~ 77 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRS--RGKKVLVTAPTGIAAFNIPGGRTIHSFFG 77 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhcc--ccceEEEecchHHHHHhccCCcchHHhcC
Confidence 3688999999888 6677899999999999866533 2333332 223788889996666555 344444443
No 157
>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=95.56 E-value=0.028 Score=49.15 Aligned_cols=51 Identities=16% Similarity=0.190 Sum_probs=38.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
-+++.|..|||||++.+..+... .....+..++++++...|...+...+..
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l-~~~~~~~~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKEL-QNSEEGKKVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHh-hccccCCceEEEEecchHHHHHHHHHhh
Confidence 37899999999999887666555 1112233889999999999888777754
No 158
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.56 E-value=0.1 Score=44.26 Aligned_cols=68 Identities=25% Similarity=0.161 Sum_probs=39.8
Q ss_pred hcHHhHhcCCCCHHHHHHHHhC--CCCCCCHHHHHHHHHH---H-----------cCCCEEEEccCCCchHHHHHHHHHH
Q 028848 67 LTLRELCQGHVPEHVLRRMDET--GYVLPTDIQREALPVL---F-----------SSRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~--g~~~~t~~Q~~~i~~i---l-----------~g~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
.....|.+.|+.+.+.+.+.+. +..............+ + .+..+++.||||+|||......+..
T Consensus 138 ~l~~~L~~~gv~~~la~~L~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~vi~~vGptGvGKTTt~~kLa~~ 217 (282)
T TIGR03499 138 KLLERLLRAGVSPELARELLEKLPERADAEDAWRWLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAAR 217 (282)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHhccCCccccccCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3456778888888877776552 2222222333332222 1 1235788999999999887655544
Q ss_pred HHHh
Q 028848 131 LVNA 134 (202)
Q Consensus 131 ~l~~ 134 (202)
....
T Consensus 218 ~~~~ 221 (282)
T TIGR03499 218 FVLE 221 (282)
T ss_pred HHHH
Confidence 4433
No 159
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=95.56 E-value=0.027 Score=54.61 Aligned_cols=87 Identities=20% Similarity=0.314 Sum_probs=64.9
Q ss_pred CCCHHHHH-HHHhCCCCCCCHHHHHHH--HHHHcCCCEEEEccCCCchHHHHHHHHHHH-HHhcCCCcEEEEEcCCHhhH
Q 028848 76 HVPEHVLR-RMDETGYVLPTDIQREAL--PVLFSSRDCILHAQTGSGKTLTYLLLIFSL-VNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 76 gl~~~l~~-~l~~~g~~~~t~~Q~~~i--~~il~g~~~l~~a~TGsGKT~~~l~~il~~-l~~~~~~~~~lil~Pt~~La 151 (202)
++++...+ ..+..|...+...|.+|+ +.++.+++.+...||+.|||++.-+.++.. +...+ .++.+.|-.+.+
T Consensus 206 ~~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr---~~llilp~vsiv 282 (1008)
T KOG0950|consen 206 RLPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRR---NVLLILPYVSIV 282 (1008)
T ss_pred cCchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhh---ceeEecceeehh
Confidence 44444433 334468889999999998 568899999999999999999998877764 44455 677778887777
Q ss_pred HHHHHHHHHHhcCC
Q 028848 152 MQVTKVARVLAAKP 165 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~ 165 (202)
..-...+..+....
T Consensus 283 ~Ek~~~l~~~~~~~ 296 (1008)
T KOG0950|consen 283 QEKISALSPFSIDL 296 (1008)
T ss_pred HHHHhhhhhhcccc
Confidence 66666666666655
No 160
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.53 E-value=0.031 Score=46.10 Aligned_cols=53 Identities=15% Similarity=0.206 Sum_probs=39.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
|..+++.|++|+|||...+..+.+.+.++. .+++++-+ +-..|+.+.+..+.-
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~ge---~~lyvs~e-e~~~~i~~~~~~~g~ 73 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE---PGIYVALE-EHPVQVRRNMAQFGW 73 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCC---cEEEEEee-CCHHHHHHHHHHhCC
Confidence 467999999999999887777766665555 78887744 566777777776553
No 161
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.46 E-value=0.015 Score=58.00 Aligned_cols=72 Identities=19% Similarity=0.283 Sum_probs=54.1
Q ss_pred CCCCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHH-HHHHhcCC
Q 028848 90 YVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV-ARVLAAKP 165 (202)
Q Consensus 90 ~~~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~-~~~l~~~~ 165 (202)
|...+++|.++++.+.+. .++++.+|+|||||.|.-++++. .....+++++.|.-+.+.-+++. -+++....
T Consensus 1141 f~~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~ 1214 (1674)
T KOG0951|consen 1141 FQDFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLL 1214 (1674)
T ss_pred ccccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhcccc
Confidence 334489999999887654 56999999999999998888766 22344899999998888766544 45565554
No 162
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=95.45 E-value=0.083 Score=51.30 Aligned_cols=97 Identities=15% Similarity=0.040 Sum_probs=69.3
Q ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
|. .|.++|-..--.+..|+ +....||-|||++..+|+.-....|+ .+-|+...--||..=.+.+..+-++.
T Consensus 76 G~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~Gk---gVhVVTvNdYLA~RDae~mg~vy~fL--- 146 (925)
T PRK12903 76 GK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALTGK---GVIVSTVNEYLAERDAEEMGKVFNFL--- 146 (925)
T ss_pred CC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhcCC---ceEEEecchhhhhhhHHHHHHHHHHh---
Confidence 55 57889987776666663 68999999999999988754444555 67888888999998888888888887
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHhhcCCCCC
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLKVLYSLTS 201 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~~~~~i~~ 201 (202)
+++|.++.++.... +++. ....|||+
T Consensus 147 -----GLsvG~i~~~~~~~-~rr~-aY~~DItY 172 (925)
T PRK12903 147 -----GLSVGINKANMDPN-LKRE-AYACDITY 172 (925)
T ss_pred -----CCceeeeCCCCChH-HHHH-hccCCCee
Confidence 47766665544433 3332 22467753
No 163
>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=95.37 E-value=0.16 Score=49.01 Aligned_cols=61 Identities=13% Similarity=0.078 Sum_probs=45.0
Q ss_pred CCCHHHHHHHHHHHcC-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 92 LPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+++.|+.++..++.+ +-+++.|+.|+|||... ..+.+.+... +.++++++||---+..+.
T Consensus 352 ~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll-~~i~~~~~~~--g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 352 RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTML-KAAREAWEAA--GYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHH-HHHHHHHHhC--CCeEEEEeCcHHHHHHHH
Confidence 5799999999998875 55799999999998663 3344444432 337889999976666554
No 164
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.26 E-value=0.06 Score=45.14 Aligned_cols=67 Identities=18% Similarity=0.246 Sum_probs=44.9
Q ss_pred CCCCCCHHHHHHHHHHH-------cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 89 GYVLPTDIQREALPVLF-------SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il-------~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.|......++.++..+. .+.++++.|++|+|||........+.+ ..+ ..++++++.+|..++...+.
T Consensus 80 d~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g---~sv~f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 80 DFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAG---ISVLFITAPDLLSKLKAAFD 153 (254)
T ss_pred cccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcC---CeEEEEEHHHHHHHHHHHHh
Confidence 44455666666665443 456999999999999976655544545 322 33455788899888876554
No 165
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=95.23 E-value=0.047 Score=44.38 Aligned_cols=52 Identities=15% Similarity=0.224 Sum_probs=36.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|..+++.|++|+|||...+.-+.+.+.+ +. .+++++- -+-..++.+.++.+.
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge---~vlyvs~-ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE---KVLYVSF-EEPPEELIENMKSFG 71 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT-----EEEEES-SS-HHHHHHHHHTTT
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC---cEEEEEe-cCCHHHHHHHHHHcC
Confidence 4569999999999998887777777777 66 7777764 344566666666554
No 166
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.22 E-value=0.033 Score=48.82 Aligned_cols=30 Identities=27% Similarity=0.313 Sum_probs=22.3
Q ss_pred HHHcCCCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 103 VLFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 103 ~il~g~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
.+..+.++++.|+||||||.. +..++..+.
T Consensus 158 ~v~~~~nilI~G~tGSGKTTl-l~aLl~~i~ 187 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTM-SKTLISAIP 187 (344)
T ss_pred HHHcCCeEEEECCCCccHHHH-HHHHHcccC
Confidence 356778999999999999955 455555554
No 167
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=95.17 E-value=0.042 Score=47.97 Aligned_cols=78 Identities=18% Similarity=0.224 Sum_probs=47.3
Q ss_pred ChhcHHhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCC-CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEE
Q 028848 65 NSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSR-DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI 143 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~-~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~li 143 (202)
+..+++.|.+..+.-. .+ ..|..+++.|...+-.+..++ +++++|.||||||.. +-++...+.... +++.
T Consensus 135 p~lsIRKf~k~~ltl~---dl--i~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl-LNal~~~i~~~e---RvIt 205 (355)
T COG4962 135 PTLSIRKFPKIKLTLL---DL--IIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL-LNALSGFIDSDE---RVIT 205 (355)
T ss_pred CcccccccccccccHH---HH--HHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH-HHHHHhcCCCcc---cEEE
Confidence 4455666655443211 11 246688999999988776665 999999999999954 233333333333 5555
Q ss_pred EcCCHhhH
Q 028848 144 VVPTRELG 151 (202)
Q Consensus 144 l~Pt~~La 151 (202)
+==|.||-
T Consensus 206 iEDtaELq 213 (355)
T COG4962 206 IEDTAELQ 213 (355)
T ss_pred Eeehhhhc
Confidence 54444443
No 168
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.13 E-value=0.048 Score=43.21 Aligned_cols=47 Identities=15% Similarity=0.200 Sum_probs=29.8
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
..+.++++.|++|+|||.......-+.+..+. .+++ +...+|...+.
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~---~v~f-~~~~~L~~~l~ 91 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGY---SVLF-ITASDLLDELK 91 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT-----EEE-EEHHHHHHHHH
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCc---ceeE-eecCceecccc
Confidence 35678999999999999876655555565444 5555 45566665554
No 169
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=95.11 E-value=0.15 Score=48.07 Aligned_cols=66 Identities=23% Similarity=0.314 Sum_probs=47.5
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhc-CCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-RSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.+.|+.|+-..+..+-.++.|++|+|||......+....... ....++++.+||.-=+..+.+.+.
T Consensus 154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 154 VDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 589999999888888899999999999977543332222222 123478888999777777665554
No 170
>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=95.00 E-value=0.15 Score=47.77 Aligned_cols=66 Identities=21% Similarity=0.357 Sum_probs=45.8
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC--CCcEEEEEcCCHhhHHHHHHHHH
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR--SAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~--~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
...|+.++..++...-+++.|+.|+|||.+....+.......+ ...++++.+||--=+..+.+.+.
T Consensus 147 ~~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~ 214 (586)
T TIGR01447 147 QNWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLR 214 (586)
T ss_pred cHHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHH
Confidence 3789999999999889999999999999874333222222111 12478889999666666555443
No 171
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=94.97 E-value=0.12 Score=51.08 Aligned_cols=61 Identities=16% Similarity=0.126 Sum_probs=46.5
Q ss_pred CCCHHHHHHHHHHHcCCC-EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 92 LPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~-~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+++.|++++..++.+.+ +++.|..|+|||.. +-.+....... +.+++.++||---+..+.
T Consensus 346 ~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~~V~~~ApTGkAA~~L~ 407 (988)
T PRK13889 346 VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GYEVRGAALSGIAAENLE 407 (988)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CCeEEEecCcHHHHHHHh
Confidence 589999999999998765 68999999999976 45555555442 337899999976665553
No 172
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.62 E-value=0.27 Score=44.35 Aligned_cols=63 Identities=21% Similarity=0.193 Sum_probs=36.3
Q ss_pred cHHhHhcCCCCHHHHHHHHhC--CCCCCCH--HHHHHHHHH------------HcCCCEEEEccCCCchHHHHHHHHHH
Q 028848 68 TLRELCQGHVPEHVLRRMDET--GYVLPTD--IQREALPVL------------FSSRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~--g~~~~t~--~Q~~~i~~i------------l~g~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
....|.+.|+.+.+.+.+.+. ....... ..+.....+ ..++.+++.||||+|||.........
T Consensus 166 ~~~~L~~~gv~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~i~~vGptGvGKTTt~~kLA~~ 244 (424)
T PRK05703 166 LYKRLKRSGLSPEIAEKLLKLLLEHMPPRERTAWRYLLELLANMIPVRVEDILKQGGVVALVGPTGVGKTTTLAKLAAR 244 (424)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhCccccccccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 456777888888777666442 1111111 233333222 12456889999999999876654443
No 173
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.62 E-value=0.13 Score=45.63 Aligned_cols=25 Identities=24% Similarity=0.292 Sum_probs=18.8
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
..++++|+||||||... ..++..+.
T Consensus 150 GlilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 150 GLGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred CEEEEECCCCCCHHHHH-HHHHHHHH
Confidence 46899999999999654 55666554
No 174
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.55 E-value=0.053 Score=47.29 Aligned_cols=30 Identities=23% Similarity=0.285 Sum_probs=22.6
Q ss_pred HHcCCCEEEEccCCCchHHHHHHHHHHHHHh
Q 028848 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
+..+.+++++|+||||||.. +..++..+..
T Consensus 157 v~~~~nili~G~tgSGKTTl-l~aL~~~ip~ 186 (332)
T PRK13900 157 VISKKNIIISGGTSTGKTTF-TNAALREIPA 186 (332)
T ss_pred HHcCCcEEEECCCCCCHHHH-HHHHHhhCCC
Confidence 45678999999999999955 4555555543
No 175
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=94.52 E-value=0.11 Score=50.68 Aligned_cols=67 Identities=24% Similarity=0.255 Sum_probs=53.8
Q ss_pred CCCCCHHHHHHHHHHHcCCC-EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 90 YVLPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 90 ~~~~t~~Q~~~i~~il~g~~-~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
...++..|++|+-.++..+| .++.|=+|+|||......|-..+..++ ++|+.+-|..-+..+.-.++
T Consensus 667 ~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~gk---kVLLtsyThsAVDNILiKL~ 734 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALGK---KVLLTSYTHSAVDNILIKLK 734 (1100)
T ss_pred HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcCC---eEEEEehhhHHHHHHHHHHh
Confidence 34689999999999998887 688999999999998887777777777 88888888766665555444
No 176
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=94.30 E-value=0.09 Score=41.63 Aligned_cols=32 Identities=25% Similarity=0.304 Sum_probs=25.2
Q ss_pred CCHHHHHHHHH-HHcCCCEEEEccCCCchHHHH
Q 028848 93 PTDIQREALPV-LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 93 ~t~~Q~~~i~~-il~g~~~l~~a~TGsGKT~~~ 124 (202)
.++.|...+.. +..|..+++.|+||||||...
T Consensus 10 ~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 10 FSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 56777777765 456788999999999999764
No 177
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=94.26 E-value=0.089 Score=44.09 Aligned_cols=38 Identities=11% Similarity=0.090 Sum_probs=28.9
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
|.-+++.|++|+|||...+..+.+.+..+. ++++++-+
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge---~vlyis~E 73 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGN---PVLFVTVE 73 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC---cEEEEEec
Confidence 456899999999999887776666555544 77888755
No 178
>PRK06921 hypothetical protein; Provisional
Probab=94.10 E-value=0.83 Score=38.48 Aligned_cols=48 Identities=21% Similarity=0.141 Sum_probs=28.8
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
.+..++++|++|+|||-... ++...+.... +..++++ +..++..++..
T Consensus 116 ~~~~l~l~G~~G~GKThLa~-aia~~l~~~~-g~~v~y~-~~~~l~~~l~~ 163 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLT-AAANELMRKK-GVPVLYF-PFVEGFGDLKD 163 (266)
T ss_pred CCCeEEEECCCCCcHHHHHH-HHHHHHhhhc-CceEEEE-EHHHHHHHHHH
Confidence 35679999999999995543 4444333321 2255554 45566555544
No 179
>PRK08181 transposase; Validated
Probab=94.02 E-value=0.3 Score=41.38 Aligned_cols=58 Identities=17% Similarity=0.225 Sum_probs=36.0
Q ss_pred CCHHHHHHHH----HHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 93 PTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 93 ~t~~Q~~~i~----~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
.+..|..++. -+..+.+++++|++|+|||-.......+.+..+. .+++ ++..+|..++
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~---~v~f-~~~~~L~~~l 149 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGW---RVLF-TRTTDLVQKL 149 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCC---ceee-eeHHHHHHHH
Confidence 3556665553 2346788999999999999655444434444433 4444 4556666655
No 180
>PRK06526 transposase; Provisional
Probab=93.99 E-value=0.12 Score=43.27 Aligned_cols=47 Identities=13% Similarity=0.189 Sum_probs=29.4
Q ss_pred HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
+..+.+++++||+|+|||........+.+..+. ++++ ....+|..++
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~---~v~f-~t~~~l~~~l 141 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH---RVLF-ATAAQWVARL 141 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC---chhh-hhHHHHHHHH
Confidence 345678999999999999776555444444433 4444 3334454444
No 181
>PRK04328 hypothetical protein; Provisional
Probab=93.91 E-value=0.15 Score=42.39 Aligned_cols=52 Identities=19% Similarity=0.278 Sum_probs=37.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|..+++.|++|+|||...+..+.+.+..+. .++++. +-+-..++.+.+..+.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge---~~lyis-~ee~~~~i~~~~~~~g 74 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE---PGVYVA-LEEHPVQVRRNMRQFG 74 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC---cEEEEE-eeCCHHHHHHHHHHcC
Confidence 456899999999999877766666666655 677776 4445556777766665
No 182
>PRK12377 putative replication protein; Provisional
Probab=93.89 E-value=0.29 Score=40.95 Aligned_cols=45 Identities=18% Similarity=0.225 Sum_probs=27.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
..++++|++|+|||-.... +.+.+.... ..+ +.++..+|..++..
T Consensus 102 ~~l~l~G~~GtGKThLa~A-Ia~~l~~~g--~~v-~~i~~~~l~~~l~~ 146 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAA-IGNRLLAKG--RSV-IVVTVPDVMSRLHE 146 (248)
T ss_pred CeEEEECCCCCCHHHHHHH-HHHHHHHcC--CCe-EEEEHHHHHHHHHH
Confidence 5699999999999955433 333333322 144 44455677776654
No 183
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=93.83 E-value=0.17 Score=41.12 Aligned_cols=52 Identities=15% Similarity=0.205 Sum_probs=34.1
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|..+++.|++|+|||...+..+.+.+.++. .++++.-+ +...++.+.++.+.
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~---~~~~is~e-~~~~~i~~~~~~~g 71 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGD---PVIYVTTE-ESRESIIRQAAQFG 71 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCC---eEEEEEcc-CCHHHHHHHHHHhC
Confidence 567899999999999876655555555444 66776643 33456555554443
No 184
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=93.80 E-value=0.076 Score=44.38 Aligned_cols=30 Identities=20% Similarity=0.290 Sum_probs=22.6
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhc
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~ 135 (202)
..+.++++.|+||||||... ..++..+...
T Consensus 125 ~~~~~ili~G~tGSGKTT~l-~all~~i~~~ 154 (270)
T PF00437_consen 125 RGRGNILISGPTGSGKTTLL-NALLEEIPPE 154 (270)
T ss_dssp HTTEEEEEEESTTSSHHHHH-HHHHHHCHTT
T ss_pred ccceEEEEECCCccccchHH-HHHhhhcccc
Confidence 45678999999999999665 5555666554
No 185
>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=93.75 E-value=0.27 Score=49.90 Aligned_cols=68 Identities=21% Similarity=0.164 Sum_probs=37.4
Q ss_pred CCCCCCHHHH---HHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCC-CcEEEEEcCCHhhHHHHHHHHH
Q 028848 89 GYVLPTDIQR---EALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS-AVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 89 g~~~~t~~Q~---~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~-~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.|...-|+.+ +.+..+.++..++++|+||||||.. +|.+... .+.. ..+.++.-|-|--+..+..++.
T Consensus 61 ~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTq--lPq~lle-~~~~~~~~I~~tQPRRlAA~svA~RvA 132 (1283)
T TIGR01967 61 RYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQ--LPKICLE-LGRGSHGLIGHTQPRRLAARTVAQRIA 132 (1283)
T ss_pred cCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHH--HHHHHHH-cCCCCCceEecCCccHHHHHHHHHHHH
Confidence 4544455544 3444555666789999999999994 4543322 2211 1133334466555555554443
No 186
>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=93.71 E-value=0.12 Score=49.74 Aligned_cols=51 Identities=14% Similarity=0.218 Sum_probs=40.5
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
-.++.+|.|||||.+.+.++-+.+. ....++|+++..++|+.++..+|+..
T Consensus 51 V~vVRSpMGTGKTtaLi~wLk~~l~--~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 51 VLVVRSPMGTGKTTALIRWLKDALK--NPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred eEEEECCCCCCcHHHHHHHHHHhcc--CCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 3688999999999988776655542 12238999999999999999999744
No 187
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.67 E-value=0.19 Score=45.91 Aligned_cols=41 Identities=32% Similarity=0.356 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHcCCC--EEEEccCCCchHHHHHHHHHHHHHh
Q 028848 93 PTDIQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~--~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
+++.|...+..+++... +|+.||||||||.. +..++..+..
T Consensus 242 ~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 242 MSPFQLARLLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 36777777777666544 78899999999966 3455555543
No 188
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=93.57 E-value=0.2 Score=40.63 Aligned_cols=53 Identities=13% Similarity=0.157 Sum_probs=37.0
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
|.-+++.|++|+|||...+..+...+.++. .++++.-+. -..++.+.+..+.-
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~---~~~y~s~e~-~~~~l~~~~~~~~~ 68 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGE---KAMYISLEE-REERILGYAKSKGW 68 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC---eEEEEECCC-CHHHHHHHHHHcCC
Confidence 456899999999999876666666665555 777776543 46677777666543
No 189
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=93.57 E-value=0.29 Score=38.34 Aligned_cols=58 Identities=19% Similarity=0.223 Sum_probs=37.9
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhc-------CCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-------RSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-------~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.|.-+++.|++|+|||.+.+-.+.+..... ....+++++..+-. ..++.+++..+...
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~~~ 95 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALLQD 95 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHHTT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHhcc
Confidence 455689999999999988766666555311 13348888887766 66777888776654
No 190
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=93.48 E-value=0.079 Score=37.98 Aligned_cols=39 Identities=18% Similarity=0.083 Sum_probs=23.7
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~ 148 (202)
+..+++.|++|+|||......+....... ..++++.++.
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~---~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG---GGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC---CCEEEECCEE
Confidence 45689999999999976544432222111 1356666553
No 191
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=93.45 E-value=0.2 Score=39.98 Aligned_cols=38 Identities=18% Similarity=0.239 Sum_probs=28.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
|.-+.+.|++|+|||...+..+.+....+. +++++.-+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~---~v~yi~~e 49 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGK---KVVYIDTE 49 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC---eEEEEECC
Confidence 345899999999999988777666555443 77777665
No 192
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.44 E-value=1.6 Score=40.63 Aligned_cols=68 Identities=18% Similarity=0.029 Sum_probs=40.0
Q ss_pred ChhcHHhHhcCCCCHHHHHHHHhC-CC-CCCCHHHHHHHHHH------------HcCCCEEEEccCCCchHHHHHHHHHH
Q 028848 65 NSLTLRELCQGHVPEHVLRRMDET-GY-VLPTDIQREALPVL------------FSSRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~-g~-~~~t~~Q~~~i~~i------------l~g~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
....++.|.+.|+.+.+.+.|.+. .- .............+ ..|..+.+.|++|+|||.........
T Consensus 294 ~~~l~~~L~~~Gvs~~la~~L~~~l~~~~~~~~~~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~ 373 (559)
T PRK12727 294 RAQALELMDDYGFDAGLTRDVAMQIPADTELHRGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQR 373 (559)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHhhhcccchhhHHHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 344457888899998888777442 11 11112222222222 23456888999999999887554444
Q ss_pred HH
Q 028848 131 LV 132 (202)
Q Consensus 131 ~l 132 (202)
..
T Consensus 374 la 375 (559)
T PRK12727 374 FA 375 (559)
T ss_pred HH
Confidence 33
No 193
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=93.43 E-value=0.19 Score=41.84 Aligned_cols=55 Identities=18% Similarity=0.242 Sum_probs=40.7
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
|..+++.|++|||||...+..+.+.+..+. .++++ -+.+....+.+.+.++.-..
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge---~vlyv-s~~e~~~~l~~~~~~~g~d~ 77 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGE---PVLYV-STEESPEELLENARSFGWDL 77 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCC---cEEEE-EecCCHHHHHHHHHHcCCCH
Confidence 567999999999999887777777776644 55554 56677777777777655443
No 194
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=93.43 E-value=0.1 Score=46.29 Aligned_cols=48 Identities=23% Similarity=0.323 Sum_probs=29.7
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHH-HHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFS-LVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~-~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
...+++++.|.||||||.++ ..++. ...++. +++|.=|.-+.....++
T Consensus 13 ~e~~~~li~G~~GsGKT~~i-~~ll~~~~~~g~---~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 13 SENRHILIIGATGSGKTQAI-RHLLDQIRARGD---RAIIYDPKGEFTERFYR 61 (386)
T ss_dssp GGGG-EEEEE-TTSSHHHHH-HHHHHHHHHTT----EEEEEEETTHHHHHH--
T ss_pred hhhCcEEEECCCCCCHHHHH-HHHHHHHHHcCC---EEEEEECCchHHHHhcC
Confidence 34578999999999999755 44444 444444 77777788666554433
No 195
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=93.43 E-value=0.27 Score=46.37 Aligned_cols=71 Identities=23% Similarity=0.110 Sum_probs=57.9
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCC-cEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA-VQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~-~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+++.|++++... ...+++.|..|||||.+...-+.+.+..+... -+.|.+.=|+--|..+.+++.++...
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~ 73 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGL 73 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCc
Confidence 4789999988654 34688889999999999999888888775433 35788888999999999999988874
No 196
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=93.40 E-value=0.21 Score=44.22 Aligned_cols=65 Identities=26% Similarity=0.266 Sum_probs=48.0
Q ss_pred CCCCCCCHHHHHHHHHHHcCC--CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 88 TGYVLPTDIQREALPVLFSSR--DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~il~g~--~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
.|+..-+..|..|+..++... -|.+.|.-|||||+..+.+-++.....+...+.++--|+..+..
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~ 290 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGE 290 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCccc
Confidence 477777889999999888653 27788999999999988877665544444446777777765543
No 197
>PF12846 AAA_10: AAA-like domain
Probab=93.39 E-value=0.18 Score=41.96 Aligned_cols=42 Identities=26% Similarity=0.336 Sum_probs=29.9
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
.++++.|.||||||......+.+.+..+. .++++=|..+...
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~---~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGP---RVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCC---CEEEEcCCchHHH
Confidence 47899999999999877755555665554 6677766655444
No 198
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.28 E-value=0.17 Score=46.32 Aligned_cols=53 Identities=23% Similarity=0.333 Sum_probs=39.4
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
|..+++.|++|+|||...+.-+.+.+.+ +. .+++++-+ |-..++.+.+.+++-
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge---~~lyvs~e-E~~~~l~~~~~~~G~ 74 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDE---PGVFVTFE-ESPQDIIKNARSFGW 74 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCC---CEEEEEEe-cCHHHHHHHHHHcCC
Confidence 4679999999999998887777666655 45 67777754 666777777776654
No 199
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.28 E-value=0.23 Score=40.88 Aligned_cols=53 Identities=11% Similarity=0.144 Sum_probs=35.4
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.|.-+++.|++|+|||...+..+...+..+. +++++..+- -..++.+.+.++.
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~---~~~yi~~e~-~~~~~~~~~~~~g 75 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGY---SVSYVSTQL-TTTEFIKQMMSLG 75 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCC---cEEEEeCCC-CHHHHHHHHHHhC
Confidence 4667999999999999886655555555444 677777443 3355555555544
No 200
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.26 E-value=0.51 Score=39.35 Aligned_cols=59 Identities=15% Similarity=0.188 Sum_probs=34.0
Q ss_pred CHHHHHHHHHHHc-------C-CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 94 TDIQREALPVLFS-------S-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 94 t~~Q~~~i~~il~-------g-~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
+..|+.++..+.. + ..++++|++|+|||........+....+. .++++ +..+|...+..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~---~v~~i-t~~~l~~~l~~ 144 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK---SVLII-TVADIMSAMKD 144 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEE-EHHHHHHHHHH
Confidence 4556655544321 1 36899999999999665544444443333 55554 45555554433
No 201
>PRK06835 DNA replication protein DnaC; Validated
Probab=93.19 E-value=0.55 Score=40.90 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=28.5
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+.+++++|++|+|||.......-..+.++. .++++ +..+|..++.
T Consensus 182 ~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~---~V~y~-t~~~l~~~l~ 227 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLSNCIAKELLDRGK---SVIYR-TADELIEILR 227 (329)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHCCC---eEEEE-EHHHHHHHHH
Confidence 3478999999999999644333333443333 55554 5566666553
No 202
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=93.10 E-value=0.77 Score=44.29 Aligned_cols=93 Identities=22% Similarity=0.286 Sum_probs=62.3
Q ss_pred CCCHHHHHHHHHH---HcCC-------CEEEEccCCCchHHHHHHHHHHHHHhcCC----CcEEEEEcCCHhhHHHHHHH
Q 028848 92 LPTDIQREALPVL---FSSR-------DCILHAQTGSGKTLTYLLLIFSLVNAQRS----AVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 92 ~~t~~Q~~~i~~i---l~g~-------~~l~~a~TGsGKT~~~l~~il~~l~~~~~----~~~~lil~Pt~~La~Q~~~~ 157 (202)
.+.|.|++.+..+ +.|. ..++.=..|+|||+-.+..+-..+.+... -.++||++|- .|..-+.++
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccH-HHHHHHHHH
Confidence 5789999999876 2332 25556678999998876666555655443 1378999996 788888999
Q ss_pred HHHHhcCCCCCCCCCCCceEEEEecCCch--HHhHHHH
Q 028848 158 ARVLAAKPSDTDLEHKPCTVMALLDGGML--RRHKSWL 193 (202)
Q Consensus 158 ~~~l~~~~~~~~~~~~~~~v~~~~gg~~~--~~~~~~l 193 (202)
|.+..... .+....++++... .++..++
T Consensus 317 F~KWl~~~--------~i~~l~~~~~~~~~w~~~~sil 346 (776)
T KOG0390|consen 317 FGKWLGNH--------RINPLDFYSTKKSSWIKLKSIL 346 (776)
T ss_pred HHHhcccc--------ccceeeeecccchhhhhhHHHH
Confidence 98876542 3555666666652 3444444
No 203
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=93.04 E-value=0.36 Score=47.65 Aligned_cols=95 Identities=23% Similarity=0.134 Sum_probs=66.3
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLE 171 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.|.++|-..--.+..| -+....||-|||++..+|+.-....++ .+-|+.-.--||..=.+.+..+-++.
T Consensus 138 ~~ydVQLiGgivLh~G--~IAEM~TGEGKTLvatlp~yLnAL~G~---gVHvVTvNDYLA~RDaewm~p~y~fl------ 206 (1025)
T PRK12900 138 VPYDVQLIGGIVLHSG--KISEMATGEGKTLVSTLPTFLNALTGR---GVHVVTVNDYLAQRDKEWMNPVFEFH------ 206 (1025)
T ss_pred cccchHHhhhHHhhcC--CccccCCCCCcchHhHHHHHHHHHcCC---CcEEEeechHhhhhhHHHHHHHHHHh------
Confidence 4677775544444555 357889999999999999765444555 56777788889988888888888887
Q ss_pred CCCceEEEEecCCchHHhHHHHhhcCCCCC
Q 028848 172 HKPCTVMALLDGGMLRRHKSWLKVLYSLTS 201 (202)
Q Consensus 172 ~~~~~v~~~~gg~~~~~~~~~l~~~~~i~~ 201 (202)
+++|.++.++.+.. + +.-....|||+
T Consensus 207 --GLtVg~i~~~~~~~-~-Rr~aY~~DItY 232 (1025)
T PRK12900 207 --GLSVGVILNTMRPE-E-RREQYLCDITY 232 (1025)
T ss_pred --CCeeeeeCCCCCHH-H-HHHhCCCccee
Confidence 57877775544433 3 23445577754
No 204
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.01 E-value=0.13 Score=49.64 Aligned_cols=47 Identities=32% Similarity=0.434 Sum_probs=35.2
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
++=+...||+|||.||+..|.+.= +.-+-.+-+|+||+.+.-.-+..
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLh-k~YG~~KFIivVPs~AIkeGv~~ 122 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELH-KKYGLFKFIIVVPSLAIKEGVFL 122 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHH-HHhCceeEEEEeccHHHHhhhHH
Confidence 567789999999999999987643 33334578999999887555443
No 205
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=93.00 E-value=0.62 Score=33.60 Aligned_cols=18 Identities=28% Similarity=0.453 Sum_probs=15.4
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
+..+++.|++|+|||...
T Consensus 19 ~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 567999999999999644
No 206
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=93.00 E-value=0.32 Score=46.08 Aligned_cols=54 Identities=20% Similarity=0.242 Sum_probs=40.0
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh--hHHHHHHHHHHHhcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE--LGMQVTKVARVLAAK 164 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~--La~Q~~~~~~~l~~~ 164 (202)
.++++.|+||+|||..+...+.+.+..+. .++++=|-.. |...+...++..+..
T Consensus 177 ~H~lv~G~TGsGKT~l~~~l~~q~i~~g~---~viv~DpKgD~~l~~~~~~~~~~~G~~ 232 (634)
T TIGR03743 177 GHTLVLGTTGVGKTRLAELLITQDIRRGD---VVIVIDPKGDADLKRRMRAEAKRAGRP 232 (634)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCC---eEEEEeCCCchHHHHHHHHHHHHhCCC
Confidence 46999999999999888777777776554 6777777744 777777777666543
No 207
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=92.94 E-value=0.38 Score=41.88 Aligned_cols=40 Identities=18% Similarity=0.072 Sum_probs=28.3
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
|+-+.++|++|||||...+..+.+....+. .++++..+-.
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~---~~vyId~E~~ 94 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGG---TVAFIDAEHA 94 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC---CEEEECcccc
Confidence 345889999999999888777766655444 5666655443
No 208
>PRK04296 thymidine kinase; Provisional
Probab=92.91 E-value=0.18 Score=40.16 Aligned_cols=37 Identities=14% Similarity=0.220 Sum_probs=27.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
|.-.++.|++|+|||...+-.+......++ +++++-|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~---~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEERGM---KVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHcCC---eEEEEec
Confidence 344688999999999887776666655555 7777766
No 209
>PRK10436 hypothetical protein; Provisional
Probab=92.90 E-value=0.22 Score=45.38 Aligned_cols=39 Identities=26% Similarity=0.276 Sum_probs=25.5
Q ss_pred CHHHHHHHHHHHcC--CCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 94 TDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 94 t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
.+.|.+.+..+... --+++.|+||||||... ..++..+.
T Consensus 203 ~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 203 TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 45566666554432 34899999999999765 34555554
No 210
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=92.87 E-value=0.34 Score=36.11 Aligned_cols=40 Identities=28% Similarity=0.319 Sum_probs=26.2
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
+++.|++|+|||......+......+. .++++..+..+..
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~---~v~~~~~e~~~~~ 41 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGG---KVVYVDIEEEIEE 41 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCC---EEEEEECCcchHH
Confidence 578999999999876555444443333 6777766554443
No 211
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=92.83 E-value=1.1 Score=45.10 Aligned_cols=62 Identities=18% Similarity=0.096 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHHc-CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 92 LPTDIQREALPVLFS-SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~-g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
.+++.|.+++..+.. ++-+++.|..|+|||...- .+.+..... +.+++.++||---+..+.+
T Consensus 381 ~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~~--G~~V~g~ApTgkAA~~L~e 443 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AAREAWEAA--GYRVVGGALAGKAAEGLEK 443 (1102)
T ss_pred CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHHHHHHc--CCeEEEEcCcHHHHHHHHH
Confidence 589999999998764 3457899999999996643 344444332 2388899999766666644
No 212
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=92.82 E-value=0.23 Score=46.38 Aligned_cols=39 Identities=21% Similarity=0.290 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHHcC--CCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 94 TDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 94 t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
.+.|.+.+..++.. --++++|+||||||... ..++..+.
T Consensus 301 ~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 301 EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 45666666655443 24789999999999775 45555554
No 213
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=92.82 E-value=0.35 Score=42.64 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=19.9
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
.+.-++++||||||||... ..++..+.
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i~ 159 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIRELA 159 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 4457999999999999754 55555553
No 214
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=92.78 E-value=0.098 Score=47.25 Aligned_cols=50 Identities=20% Similarity=0.303 Sum_probs=37.4
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.++++.|+||||||..|++|.+ +.... .++|.=|--||........++.+
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l--l~~~~---s~iV~D~KgEl~~~t~~~r~~~G 94 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL--LNYPG---SMIVTDPKGELYEKTAGYRKKRG 94 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH--HhccC---CEEEEECCCcHHHHHHHHHHHCC
Confidence 3699999999999999999975 33222 56777788888877766665443
No 215
>PRK08116 hypothetical protein; Validated
Probab=92.75 E-value=0.96 Score=38.12 Aligned_cols=44 Identities=20% Similarity=0.225 Sum_probs=27.1
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
.++++|++|+|||.... ++.+.+.... ..+++ .+..++...+..
T Consensus 116 gl~l~G~~GtGKThLa~-aia~~l~~~~--~~v~~-~~~~~ll~~i~~ 159 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAA-CIANELIEKG--VPVIF-VNFPQLLNRIKS 159 (268)
T ss_pred eEEEECCCCCCHHHHHH-HHHHHHHHcC--CeEEE-EEHHHHHHHHHH
Confidence 49999999999986554 4445444332 24444 455666665543
No 216
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=92.71 E-value=0.52 Score=42.14 Aligned_cols=78 Identities=22% Similarity=0.175 Sum_probs=41.5
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
++-+.+.||||.|||....-.........+..--+||-.=|--.+ -++.++.|++.+ ++.+..++....+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIG--A~EQLk~Ya~im--------~vp~~vv~~~~el 272 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIG--AVEQLKTYADIM--------GVPLEVVYSPKEL 272 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhh--HHHHHHHHHHHh--------CCceEEecCHHHH
Confidence 567899999999999887554444332222222445544442211 134455555554 2344455555544
Q ss_pred HHhHHHHh
Q 028848 187 RRHKSWLK 194 (202)
Q Consensus 187 ~~~~~~l~ 194 (202)
.+.+..++
T Consensus 273 ~~ai~~l~ 280 (407)
T COG1419 273 AEAIEALR 280 (407)
T ss_pred HHHHHHhh
Confidence 44444444
No 217
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=92.71 E-value=0.33 Score=40.84 Aligned_cols=38 Identities=26% Similarity=0.246 Sum_probs=23.9
Q ss_pred CHHHHHHHHHHHc-C-CCEEEEccCCCchHHHHHHHHHHHH
Q 028848 94 TDIQREALPVLFS-S-RDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 94 t~~Q~~~i~~il~-g-~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
.+.|.+.+..++. . ..+++.|+||||||... ..++..+
T Consensus 65 ~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i 104 (264)
T cd01129 65 KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSEL 104 (264)
T ss_pred CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhh
Confidence 3445555554433 2 35899999999999765 3444444
No 218
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=92.67 E-value=0.42 Score=41.72 Aligned_cols=26 Identities=27% Similarity=0.382 Sum_probs=19.1
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
+..++++|+||||||... ..++..+.
T Consensus 122 ~g~ili~G~tGSGKTT~l-~al~~~i~ 147 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTL-ASMIDYIN 147 (343)
T ss_pred CcEEEEECCCCCCHHHHH-HHHHHhhC
Confidence 456899999999999765 44455454
No 219
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.65 E-value=0.56 Score=42.19 Aligned_cols=27 Identities=26% Similarity=0.320 Sum_probs=19.6
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
+.+.+.|+||+|||.............
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~ 268 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGK 268 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 357899999999998876655444433
No 220
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=92.53 E-value=0.4 Score=41.97 Aligned_cols=47 Identities=21% Similarity=0.226 Sum_probs=30.1
Q ss_pred HHHHhCCCCCCCHHHHHHHHHH-HcCCCEEEEccCCCchHHHHHHHHHHHH
Q 028848 83 RRMDETGYVLPTDIQREALPVL-FSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 83 ~~l~~~g~~~~t~~Q~~~i~~i-l~g~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
+.+.+.|+ +++.+...+..+ ..+.++++.|+||||||... ..++..+
T Consensus 155 ~~l~~~g~--~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll-~al~~~i 202 (340)
T TIGR03819 155 DELVASGT--FPPGVARLLRAIVAARLAFLISGGTGSGKTTLL-SALLALV 202 (340)
T ss_pred HHHHHcCC--CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH-HHHHccC
Confidence 33444454 456666666554 45679999999999998654 3344444
No 221
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.50 E-value=1.4 Score=39.51 Aligned_cols=69 Identities=23% Similarity=0.222 Sum_probs=40.1
Q ss_pred hcHHhHhcCCCCHHHHHHHHhC---CC-----CCCCHHHHHHHHHHH------------cCCCEEEEccCCCchHHHHHH
Q 028848 67 LTLRELCQGHVPEHVLRRMDET---GY-----VLPTDIQREALPVLF------------SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~---g~-----~~~t~~Q~~~i~~il------------~g~~~l~~a~TGsGKT~~~l~ 126 (202)
..++.|.+.|+.+.+...+.+. .+ ..+..+...+.+.+. .++.+++.||+|+|||.....
T Consensus 146 ~~~~~L~~~gV~~~~~~~l~~~~~~~~~~~~~~~~~~v~~~~~~~L~~~l~~~~~~~~~~~~ii~lvGptGvGKTTt~ak 225 (407)
T PRK12726 146 DFVKFLKGRGISDTYVADFMQAGRKQFKQVETAHLDDITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVK 225 (407)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHhccccccccHHHHHHHHHHHhcCcEeeCCCceecCCeEEEEECCCCCCHHHHHHH
Confidence 3466777888888766665331 11 122233344443332 234578999999999988766
Q ss_pred HHHHHHHhc
Q 028848 127 LIFSLVNAQ 135 (202)
Q Consensus 127 ~il~~l~~~ 135 (202)
.......++
T Consensus 226 LA~~l~~~g 234 (407)
T PRK12726 226 LGWQLLKQN 234 (407)
T ss_pred HHHHHHHcC
Confidence 554444433
No 222
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=92.37 E-value=0.46 Score=38.75 Aligned_cols=39 Identities=15% Similarity=0.135 Sum_probs=28.8
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCC
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPT 147 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt 147 (202)
.|.-+++.|++|+|||...+..+.+.... +. .+++++.+
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~---~vly~s~E 51 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGK---PVLFFSLE 51 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCC---ceEEEeCC
Confidence 35568999999999997776666666655 44 77888744
No 223
>PRK09354 recA recombinase A; Provisional
Probab=92.30 E-value=0.52 Score=41.45 Aligned_cols=38 Identities=24% Similarity=0.131 Sum_probs=27.1
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
|+-+.++|++|||||...+..+.+....+. .++++-.+
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~---~~~yId~E 97 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGG---TAAFIDAE 97 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC---cEEEECCc
Confidence 345889999999999998887777665544 44544433
No 224
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.21 E-value=0.49 Score=40.86 Aligned_cols=40 Identities=20% Similarity=0.195 Sum_probs=28.4
Q ss_pred CCCHHHHHH-HHHHHcCCCEEEEccCCCchHHHHHHHHHHHH
Q 028848 92 LPTDIQREA-LPVLFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 92 ~~t~~Q~~~-i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
.+++.|.+- |-.+.++++++++|+||||||.. +.+++..+
T Consensus 127 t~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~I 167 (312)
T COG0630 127 TISPEQAAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFI 167 (312)
T ss_pred CCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC
Confidence 456666554 44567889999999999999954 45555444
No 225
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=92.19 E-value=0.3 Score=44.64 Aligned_cols=58 Identities=19% Similarity=0.192 Sum_probs=42.1
Q ss_pred HHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 101 LPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 101 i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
++.++.| .-+++.|++|+|||...+.-+...+.++. +++|++- -|-..|+.+++.+++
T Consensus 252 lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge---~~~y~s~-eEs~~~i~~~~~~lg 314 (484)
T TIGR02655 252 LDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKE---RAILFAY-EESRAQLLRNAYSWG 314 (484)
T ss_pred HHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCC---eEEEEEe-eCCHHHHHHHHHHcC
Confidence 4555544 45899999999999887777666666555 7888764 355678888887765
No 226
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=92.12 E-value=0.62 Score=45.25 Aligned_cols=39 Identities=26% Similarity=0.412 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHc----CCCEEEEccCCCchHHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFS----SRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~----g~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
.|.+.|..-+..++. +.+.++.+|||+|||++.|-..+.
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LA 63 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLA 63 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHH
Confidence 579999998877654 457899999999999998876653
No 227
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=92.11 E-value=0.17 Score=42.39 Aligned_cols=25 Identities=32% Similarity=0.328 Sum_probs=20.4
Q ss_pred HHHHHcCCCEEEEccCCCchHHHHH
Q 028848 101 LPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 101 i~~il~g~~~l~~a~TGsGKT~~~l 125 (202)
+..+..|.++++.|++|+|||....
T Consensus 15 l~~l~~g~~vLL~G~~GtGKT~lA~ 39 (262)
T TIGR02640 15 LRYLKSGYPVHLRGPAGTGKTTLAM 39 (262)
T ss_pred HHHHhcCCeEEEEcCCCCCHHHHHH
Confidence 3445678899999999999998754
No 228
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=92.05 E-value=0.54 Score=44.54 Aligned_cols=53 Identities=19% Similarity=0.154 Sum_probs=40.9
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCH--hhHHHHHHHHHHHhc
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR--ELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~--~La~Q~~~~~~~l~~ 163 (202)
.+.++.|+||+|||..+...+.+.+..+. .++++=|-. ++...+...++..++
T Consensus 181 gHtlV~GtTGsGKT~l~~~li~q~i~~g~---~vi~fDpkgD~el~~~~~~~~~~~GR 235 (643)
T TIGR03754 181 GHTLVLGTTRVGKTRLAELLITQDIRRGD---VVIVFDPKGDADLLKRMYAEAKRAGR 235 (643)
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHHcCC---eEEEEeCCCCHHHHHHHHHHHHHhCC
Confidence 46899999999999998888878776555 777777874 566677777776665
No 229
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=92.03 E-value=0.37 Score=41.88 Aligned_cols=29 Identities=28% Similarity=0.109 Sum_probs=22.6
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~ 136 (202)
.-+.++|++|||||...+..+.+....+.
T Consensus 56 ~iteI~G~~GsGKTtLaL~~~~~~~~~g~ 84 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLALHAIAEAQKAGG 84 (321)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 45889999999999888777766655443
No 230
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=92.02 E-value=0.53 Score=38.42 Aligned_cols=52 Identities=8% Similarity=0.233 Sum_probs=35.8
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||......+...+..+. +++++.-+.. ..++.+.+.++.
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~---~~~y~~~e~~-~~~~~~~~~~~g 76 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGK---KVYVITTENT-SKSYLKQMESVK 76 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCC---EEEEEEcCCC-HHHHHHHHHHCC
Confidence 456899999999999877666666665554 7777765533 456666666554
No 231
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=92.01 E-value=0.19 Score=41.80 Aligned_cols=49 Identities=18% Similarity=0.139 Sum_probs=32.2
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.|.-+++.|++|+|||...+..+.+.... +. .+++++-+-. ..++..++
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~---~vl~iS~E~~-~~~~~~r~ 78 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQHGV---RVGTISLEEP-VVRTARRL 78 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCc---eEEEEEcccC-HHHHHHHH
Confidence 45678999999999998766665555544 33 7788775432 33444444
No 232
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=92.00 E-value=0.099 Score=45.47 Aligned_cols=19 Identities=47% Similarity=0.566 Sum_probs=15.7
Q ss_pred cCCCEEEEccCCCchHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
+..|+++.||||||||+..
T Consensus 96 ~KSNILLiGPTGsGKTlLA 114 (408)
T COG1219 96 SKSNILLIGPTGSGKTLLA 114 (408)
T ss_pred eeccEEEECCCCCcHHHHH
Confidence 3457999999999999754
No 233
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=91.92 E-value=1.2 Score=39.45 Aligned_cols=52 Identities=19% Similarity=0.171 Sum_probs=36.1
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+.........+. +++++.-+ +-..|+..+..++.
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~---~VlYvs~E-Es~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGG---KVLYVSGE-ESPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCC---eEEEEECC-cCHHHHHHHHHHcC
Confidence 355899999999999877666555444333 78888765 33567777666654
No 234
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=91.89 E-value=0.18 Score=43.26 Aligned_cols=21 Identities=38% Similarity=0.517 Sum_probs=17.9
Q ss_pred HHcCCCEEEEccCCCchHHHH
Q 028848 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~ 124 (202)
+..+.++++.|+||||||...
T Consensus 141 v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 141 IASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred hhCCCEEEEECCCCCCHHHHH
Confidence 457789999999999999764
No 235
>PRK09183 transposase/IS protein; Provisional
Probab=91.82 E-value=0.35 Score=40.56 Aligned_cols=47 Identities=21% Similarity=0.277 Sum_probs=29.8
Q ss_pred HHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
+..|.++++.|++|+|||.............+. .++++ +..+|..++
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~---~v~~~-~~~~l~~~l 145 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEAVRAGI---KVRFT-TAADLLLQL 145 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCC---eEEEE-eHHHHHHHH
Confidence 456788999999999999765544333344333 55554 445555443
No 236
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=91.78 E-value=0.36 Score=38.63 Aligned_cols=23 Identities=30% Similarity=0.535 Sum_probs=17.0
Q ss_pred EEEEccCCCchHHHHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
+++.||||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 688999999999774 44454444
No 237
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=91.73 E-value=0.95 Score=37.47 Aligned_cols=82 Identities=22% Similarity=0.333 Sum_probs=53.2
Q ss_pred CCCHHHHHHHHhCCCCCCCHHHHHHHHHHHc---CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFS---SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 76 gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~---g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
..|++++-.+.. ++ ...+.|.+....+.+ |.+.+.+.-.|.|||.|.+ |++.....++.. -+.++||. +|..
T Consensus 9 ~~P~wLl~E~e~-~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~-Pmla~~LAdg~~-LvrviVpk-~Ll~ 83 (229)
T PF12340_consen 9 EYPDWLLFEIES-NI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIV-PMLALALADGSR-LVRVIVPK-ALLE 83 (229)
T ss_pred hChHHHHHHHHc-Cc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHH-HHHHHHHcCCCc-EEEEEcCH-HHHH
Confidence 345555444432 33 368999998888765 5789999999999998864 554444333322 34455554 5888
Q ss_pred HHHHHHHHHh
Q 028848 153 QVTKVARVLA 162 (202)
Q Consensus 153 Q~~~~~~~l~ 162 (202)
|....++.-.
T Consensus 84 q~~~~L~~~l 93 (229)
T PF12340_consen 84 QMRQMLRSRL 93 (229)
T ss_pred HHHHHHHHHH
Confidence 8888876543
No 238
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=91.71 E-value=0.19 Score=44.89 Aligned_cols=46 Identities=22% Similarity=0.250 Sum_probs=30.3
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q 153 (202)
...+++++.|+||||||.+....+......+. +++|+=|..++...
T Consensus 40 ~~~~h~~i~g~tGsGKt~~i~~l~~~~~~~~~---~~vi~D~kg~~~~~ 85 (410)
T cd01127 40 AEEAHTMIIGTTGTGKTTQIRELLASIRARGD---RAIIYDPNGGFVSK 85 (410)
T ss_pred hhhccEEEEcCCCCCHHHHHHHHHHHHHhcCC---CEEEEeCCcchhHh
Confidence 44578999999999999764222333333333 67777788776543
No 239
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=91.71 E-value=0.37 Score=44.17 Aligned_cols=39 Identities=26% Similarity=0.234 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHHcCC--CEEEEccCCCchHHHHHHHHHHHHH
Q 028848 94 TDIQREALPVLFSSR--DCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 94 t~~Q~~~i~~il~g~--~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
++.|.+.+..+.... -+++.|+||||||... ..++..+.
T Consensus 227 ~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 227 SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 566776776655433 3789999999999764 33455443
No 240
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=91.69 E-value=0.1 Score=46.00 Aligned_cols=48 Identities=21% Similarity=0.222 Sum_probs=35.5
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
++++.|+||||||..+++|-+-. ... .++|.=|--|+........+..
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~--~~~---s~vv~D~Kge~~~~t~~~r~~~ 48 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT--WPG---SVVVLDPKGENFELTSEHRRAL 48 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc--CCC---CEEEEccchhHHHHHHHHHHHc
Confidence 47899999999999999886532 222 6777788888887766555543
No 241
>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=91.61 E-value=0.84 Score=48.61 Aligned_cols=63 Identities=19% Similarity=0.234 Sum_probs=45.7
Q ss_pred CCCCHHHHHHHHHHHcCC--CEEEEccCCCchHHHHH---HHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 91 VLPTDIQREALPVLFSSR--DCILHAQTGSGKTLTYL---LLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 91 ~~~t~~Q~~~i~~il~g~--~~l~~a~TGsGKT~~~l---~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
..+++.|++++..++.+. -+++.|..|+|||...- -++.+..... +.+++.++||-.-+..+.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~--g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESE--QLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhc--CCeEEEEeChHHHHHHHH
Confidence 368999999999988764 47889999999997762 3444444332 347888999977666554
No 242
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.60 E-value=1.2 Score=41.31 Aligned_cols=76 Identities=21% Similarity=0.291 Sum_probs=56.7
Q ss_pred CCCCCHHHHHHHHHHHcCCCEEEEc-cCCCch--HHHHHHHHHHHHHh----------------------------cCCC
Q 028848 90 YVLPTDIQREALPVLFSSRDCILHA-QTGSGK--TLTYLLLIFSLVNA----------------------------QRSA 138 (202)
Q Consensus 90 ~~~~t~~Q~~~i~~il~g~~~l~~a-~TGsGK--T~~~l~~il~~l~~----------------------------~~~~ 138 (202)
-..+|+.|.+.+..+.+.+|++.-- --+.|+ +-+|++-+++++.+ |-..
T Consensus 214 s~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tR 293 (698)
T KOG2340|consen 214 SEPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTR 293 (698)
T ss_pred cCcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCC
Confidence 3478999999999999999976432 224555 55677777766531 1124
Q ss_pred cEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 139 VQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 139 ~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
|++||+||+|+-|..+.+.+..+..+.
T Consensus 294 pkVLivvpfRe~A~riVn~lis~l~G~ 320 (698)
T KOG2340|consen 294 PKVLIVVPFRESAYRIVNLLISLLSGD 320 (698)
T ss_pred ceEEEEecchHHHHHHHHHHHHHhcCc
Confidence 789999999999999999999886554
No 243
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.36 E-value=0.77 Score=40.96 Aligned_cols=23 Identities=43% Similarity=0.349 Sum_probs=17.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
..+++.|+||+|||....-....
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~ 197 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAI 197 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 35889999999999887554433
No 244
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=91.28 E-value=1 Score=46.93 Aligned_cols=62 Identities=19% Similarity=0.250 Sum_probs=44.1
Q ss_pred CCCHHHHHHHHHHHcC--CCEEEEccCCCchHHHH--HHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTY--LLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~--l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
.+|+.|++++..++.+ +-+++.|..|+|||... ++.++..+.. ..+..++.++||---+..+
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e-~~g~~V~glAPTgkAa~~L 900 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPE-SERPRVVGLGPTHRAVGEM 900 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhh-ccCceEEEEechHHHHHHH
Confidence 6899999999999866 56899999999999774 2222332222 2234788899996655554
No 245
>PRK08727 hypothetical protein; Validated
Probab=91.11 E-value=0.78 Score=37.69 Aligned_cols=50 Identities=22% Similarity=0.226 Sum_probs=29.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.++++|++|+|||-.......+....+. +++++ +..++...+.+.+..+.
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~---~~~y~-~~~~~~~~~~~~~~~l~ 92 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAGR---SSAYL-PLQAAAGRLRDALEALE 92 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCC---cEEEE-eHHHhhhhHHHHHHHHh
Confidence 4899999999999554333333333332 56654 44455555555555443
No 246
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=91.10 E-value=0.62 Score=37.46 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=29.1
Q ss_pred HHHHHc-----CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 101 LPVLFS-----SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 101 i~~il~-----g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
++.++. |.-+++.|++|+|||...+..+.+....+. .++++.
T Consensus 8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~---~v~yi~ 54 (218)
T cd01394 8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGK---KVAYID 54 (218)
T ss_pred HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEEE
Confidence 455554 344889999999999887776666554444 677764
No 247
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=91.01 E-value=2.1 Score=39.76 Aligned_cols=75 Identities=20% Similarity=0.167 Sum_probs=45.7
Q ss_pred CCCCCCHHHHHHHHHHH----cCCCEEEEccCCCchHHHHHHHHHHHHHhcC-CCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 89 GYVLPTDIQREALPVLF----SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~il----~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~-~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
.|....|.|-.-+-.+. ++-+.++..|+|+|||.+.+..++.....-+ ...+.++-+-|..=......+++.+..
T Consensus 13 PY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~l~~ 92 (755)
T KOG1131|consen 13 PYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKRLMD 92 (755)
T ss_pred CCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHHHHH
Confidence 45667888877665443 3346899999999999998877766443333 233455554443333344444544443
No 248
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=91.00 E-value=1.2 Score=46.82 Aligned_cols=63 Identities=24% Similarity=0.239 Sum_probs=44.3
Q ss_pred CCCHHHHHHHHHHHcCC--CEEEEccCCCchHHHHHHHHHHHHHh--cCCCcEEEEEcCCHhhHHHHH
Q 028848 92 LPTDIQREALPVLFSSR--DCILHAQTGSGKTLTYLLLIFSLVNA--QRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~--~~l~~a~TGsGKT~~~l~~il~~l~~--~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.+++.|++++..++.+. -+++.|..|+|||... -.+...+.. ...+.+++.++||---+..+.
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l-~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQF-RAVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHH-HHHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence 58999999999998764 5899999999999764 233333321 122347888999976555543
No 249
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=90.95 E-value=0.67 Score=46.03 Aligned_cols=96 Identities=18% Similarity=0.032 Sum_probs=64.6
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLE 171 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.+.++|-..--.+..| -+....||-|||++..+|+.-....|+ .+-|+...--||..=.+.+..+-++.
T Consensus 169 ~~yDVQliGgivLh~G--~IAEM~TGEGKTLvAtlp~yLnAL~Gk---gVHvVTVNDYLA~RDaewmgply~fL------ 237 (1112)
T PRK12901 169 VHYDVQLIGGVVLHQG--KIAEMATGEGKTLVATLPVYLNALTGN---GVHVVTVNDYLAKRDSEWMGPLYEFH------ 237 (1112)
T ss_pred cccchHHhhhhhhcCC--ceeeecCCCCchhHHHHHHHHHHHcCC---CcEEEEechhhhhccHHHHHHHHHHh------
Confidence 4566764443334444 467899999999999998765555565 56777888889988888888888887
Q ss_pred CCCceEEEEecCCchHHhHHHHhhcCCCCC
Q 028848 172 HKPCTVMALLDGGMLRRHKSWLKVLYSLTS 201 (202)
Q Consensus 172 ~~~~~v~~~~gg~~~~~~~~~l~~~~~i~~ 201 (202)
+++|.++....+..++ +.-....|||+
T Consensus 238 --GLsvg~i~~~~~~~~~-rr~aY~~DItY 264 (1112)
T PRK12901 238 --GLSVDCIDKHQPNSEA-RRKAYNADITY 264 (1112)
T ss_pred --CCceeecCCCCCCHHH-HHHhCCCccee
Confidence 4776655553433333 33445567754
No 250
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=90.82 E-value=0.28 Score=46.90 Aligned_cols=46 Identities=20% Similarity=0.118 Sum_probs=30.5
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q 153 (202)
...+++++.|-||||||.++--.+-+...++. ++||.=|.-+.+..
T Consensus 183 ~E~~H~li~GttGSGKS~~i~~LL~~ir~RGd---rAIIyD~~GeFv~~ 228 (732)
T PRK13700 183 SEIQNFCLHGTVGAGKSEVIRRLANYARQRGD---MVVIYDRSGEFVKS 228 (732)
T ss_pred hhhcceEEeCCCCCCHHHHHHHHHHHHHHcCC---eEEEEeCCCchHHH
Confidence 34568999999999999876444444334444 66666666555443
No 251
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=90.53 E-value=1.3 Score=43.60 Aligned_cols=65 Identities=17% Similarity=0.240 Sum_probs=48.1
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
...+++.+..+.+...+++.|.||+|||.---.-+++.....+..+..++--|-|--|--+.+++
T Consensus 175 ~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRV 239 (924)
T KOG0920|consen 175 YKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERV 239 (924)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHH
Confidence 56777788888888999999999999998876666665433335556666668876666666555
No 252
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=90.48 E-value=2.1 Score=41.42 Aligned_cols=64 Identities=20% Similarity=0.012 Sum_probs=35.8
Q ss_pred cHHhHhcCCCCHHHHHHHHhC--CCCCCCHHHHHHHHHH------H--------cCCCEEEEccCCCchHHHHHHHHHHH
Q 028848 68 TLRELCQGHVPEHVLRRMDET--GYVLPTDIQREALPVL------F--------SSRDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~--g~~~~t~~Q~~~i~~i------l--------~g~~~l~~a~TGsGKT~~~l~~il~~ 131 (202)
..+.|.+.|+.+.+.+.+-+. .-..+....+.....+ + .|.-+.+.||||+|||.......-..
T Consensus 130 l~~~Ll~~dv~~~la~~l~~~l~~~~~~~~~~~~l~~~L~~~l~il~~~~~~~~~g~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 130 LFRWLLGAGFSGQLARALLERLPVGYDRPAAMAWIRNELATHLPVLRDEDALLAQGGVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhccCCCcccCCCeEEEEECCCCCcHHHHHHHHHhhH
Confidence 346677888888776665432 1112222222222222 1 13347899999999998876554333
No 253
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=90.39 E-value=0.22 Score=45.71 Aligned_cols=70 Identities=17% Similarity=0.231 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHHHcC---CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCC
Q 028848 92 LPTDIQREALPVLFSS---RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g---~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~ 167 (202)
.+.|.|+.++..+..+ +.-++.-|-|+|||++-+-++.. + .+ ++|+|+..---+.|+...|+.++...++
T Consensus 302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t-i--kK---~clvLcts~VSVeQWkqQfk~wsti~d~ 374 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT-I--KK---SCLVLCTSAVSVEQWKQQFKQWSTIQDD 374 (776)
T ss_pred ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee-e--cc---cEEEEecCccCHHHHHHHHHhhcccCcc
Confidence 5689999999998743 56788889999999987554321 1 23 7899999988899999999988765543
No 254
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.36 E-value=0.48 Score=38.35 Aligned_cols=38 Identities=18% Similarity=0.205 Sum_probs=28.3
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
|.-+++.|++|+|||...+..+.+.+..+. +++++.-+
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~---~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGK---KVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCC---eEEEEECC
Confidence 345899999999999887777666665544 67777655
No 255
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.10 E-value=0.29 Score=32.10 Aligned_cols=18 Identities=22% Similarity=0.377 Sum_probs=15.2
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
|...++.|++|||||..+
T Consensus 23 g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 23 GDVTLITGPNGSGKSTLL 40 (62)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 446899999999999765
No 256
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=90.09 E-value=1.6 Score=35.07 Aligned_cols=25 Identities=36% Similarity=0.236 Sum_probs=19.0
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHh
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
+++.||||+|||....-.......+
T Consensus 4 i~lvGptGvGKTTt~aKLAa~~~~~ 28 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIAKLAARLKLK 28 (196)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred EEEECCCCCchHhHHHHHHHHHhhc
Confidence 6789999999999876655554444
No 257
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=90.03 E-value=0.57 Score=38.21 Aligned_cols=37 Identities=24% Similarity=0.241 Sum_probs=25.9
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
.++++|++|+|||- .+.++.+.+.....+.+++++..
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHHCTTS-EEEEEH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhccccccceeecH
Confidence 48999999999996 56666666655444557777753
No 258
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=89.99 E-value=0.23 Score=42.00 Aligned_cols=21 Identities=33% Similarity=0.468 Sum_probs=17.8
Q ss_pred HHcCCCEEEEccCCCchHHHH
Q 028848 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~ 124 (202)
+.+++.++++|++|+|||...
T Consensus 30 ~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHHH
T ss_pred HHcCCcEEEECCCCCchhHHH
Confidence 356788999999999999764
No 259
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=89.97 E-value=0.68 Score=42.13 Aligned_cols=52 Identities=21% Similarity=0.176 Sum_probs=36.0
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+..+.+....+. +++++..+ +-..|+..+..++.
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~---kvlYvs~E-Es~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQM---KVLYVSGE-ESLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCC---cEEEEECc-CCHHHHHHHHHHcC
Confidence 456899999999999887766555444333 68888766 33567766666554
No 260
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=89.89 E-value=0.25 Score=35.78 Aligned_cols=16 Identities=38% Similarity=0.532 Sum_probs=13.5
Q ss_pred EEEEccCCCchHHHHH
Q 028848 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
++++||+|+|||...-
T Consensus 1 ill~G~~G~GKT~l~~ 16 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLAR 16 (132)
T ss_dssp EEEESSTTSSHHHHHH
T ss_pred CEEECcCCCCeeHHHH
Confidence 5899999999997643
No 261
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.88 E-value=4.6 Score=36.44 Aligned_cols=64 Identities=22% Similarity=0.118 Sum_probs=35.7
Q ss_pred hhcHHhHhcCCCCHHHHHHHHhC--CCCCCCHHHHHHHHH----H---------HcCCCEEEEccCCCchHHHHHHHHH
Q 028848 66 SLTLRELCQGHVPEHVLRRMDET--GYVLPTDIQREALPV----L---------FSSRDCILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~--g~~~~t~~Q~~~i~~----i---------l~g~~~l~~a~TGsGKT~~~l~~il 129 (202)
...++.|.+.|+.+.+.+.+-+. +..........+... + ..|.-+.+.|+||+|||.......-
T Consensus 135 ~~~~~~L~~~~v~~~la~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~vi~lvGpnG~GKTTtlakLA~ 213 (420)
T PRK14721 135 MKVLRTLLSAGFSPLLSRHLLEKLPADRDFEQSLKKTISLLTLNLRTIGGDEIIEQGGVYALIGPTGVGKTTTTAKLAA 213 (420)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcCCccccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence 44567888888888777665331 111111111111111 1 1234588999999999988754443
No 262
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=89.84 E-value=0.65 Score=37.01 Aligned_cols=26 Identities=31% Similarity=0.408 Sum_probs=17.6
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
.++++.|.||||||.+....+...+.
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 48999999999999776655555544
No 263
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.80 E-value=0.7 Score=42.40 Aligned_cols=51 Identities=20% Similarity=0.186 Sum_probs=36.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.-+++.|++|+|||...+..+.+.+..+. ++++++-+ +-..++.+.+..++
T Consensus 274 ~~~li~G~~G~GKT~l~~~~~~~~~~~g~---~~~yis~e-~~~~~i~~~~~~~g 324 (509)
T PRK09302 274 SIILVSGATGTGKTLLASKFAEAACRRGE---RCLLFAFE-ESRAQLIRNARSWG 324 (509)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHhCCC---cEEEEEec-CCHHHHHHHHHHcC
Confidence 45888999999999887766666665555 77777654 34667777766654
No 264
>PRK13764 ATPase; Provisional
Probab=89.77 E-value=1 Score=42.37 Aligned_cols=28 Identities=11% Similarity=0.216 Sum_probs=21.0
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHh
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
.+.+++++|+||||||.. +.+++..+..
T Consensus 256 ~~~~ILIsG~TGSGKTTl-l~AL~~~i~~ 283 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTF-AQALAEFYAD 283 (602)
T ss_pred cCCEEEEECCCCCCHHHH-HHHHHHHHhh
Confidence 456799999999999964 4556666553
No 265
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.53 E-value=0.22 Score=45.64 Aligned_cols=68 Identities=13% Similarity=0.031 Sum_probs=46.0
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
..-|..+.-..-.|.- .+.|-.|||||++...-..+ +...+..-+.++-+-|+.|+.++.+.+.+++.
T Consensus 164 D~~Q~kaa~~~~~G~q-rIrGLAGSGKT~~La~Kaa~-lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f 231 (660)
T COG3972 164 DTDQTKAAFQSGFGKQ-RIRGLAGSGKTELLAHKAAE-LHSKNPDSRIAFTFFTKILASTMRTLVPEFFF 231 (660)
T ss_pred cchhheeeeecCCchh-hhhcccCCCchhHHHHHHHH-HhcCCCCceEEEEeehHHHHHHHHHHHHHHHH
Confidence 3445444333333433 56888999999887665443 33344444888999999999999988888774
No 266
>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=89.45 E-value=1.3 Score=44.76 Aligned_cols=56 Identities=14% Similarity=0.111 Sum_probs=44.8
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
..++++.|.-|||||.+.+.-++..+..+...-+.++++-|+.=+..+.+++....
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L 65 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRL 65 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 45799999999999999988888877665544478999999988888877765444
No 267
>PRK11823 DNA repair protein RadA; Provisional
Probab=89.30 E-value=0.88 Score=41.26 Aligned_cols=53 Identities=21% Similarity=0.200 Sum_probs=36.4
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~ 163 (202)
|.-+++.|++|+|||...+.........+. +++++.-+ +-..|+..+..++.-
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~---~vlYvs~E-es~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGG---KVLYVSGE-ESASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEEEcc-ccHHHHHHHHHHcCC
Confidence 345899999999999876666555443343 78888755 345677776666553
No 268
>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=89.25 E-value=2 Score=45.88 Aligned_cols=63 Identities=21% Similarity=0.286 Sum_probs=45.8
Q ss_pred CCCHHHHHHHHHHHcC--CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHH
Q 028848 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g--~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~ 157 (202)
.+++.|++++..++.. +-.++.|+.|+|||... -.+....... +.++++++||-.-+.++.+.
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l-~~l~~~~~~~--G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIA-QLLLHLASEQ--GYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHH-HHHHHHHHhc--CCeEEEEeCCHHHHHHHHHH
Confidence 5799999999998876 45789999999999663 3344444332 23889999997666665543
No 269
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=89.10 E-value=0.69 Score=43.26 Aligned_cols=42 Identities=19% Similarity=0.353 Sum_probs=26.4
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L 150 (202)
..+++++.|+||||||.+. ..++..+...+ -+++|+=|.-+.
T Consensus 175 e~~h~li~G~tGsGKs~~i-~~ll~~~~~~g--~~~ii~D~~g~~ 216 (566)
T TIGR02759 175 ETQHILIHGTTGSGKSVAI-RKLLRWIRQRG--DRAIIYDKGCTF 216 (566)
T ss_pred cccceEEEcCCCCCHHHHH-HHHHHHHHhcC--CeEEEEECCCCe
Confidence 3468999999999999643 44444443221 266666666444
No 270
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=89.05 E-value=0.98 Score=34.73 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=16.2
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~ 135 (202)
++.++++|+.|+|||... ..+...+...
T Consensus 24 ~~~~ll~G~~G~GKT~ll-~~~~~~~~~~ 51 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSLL-RALLDRLAER 51 (185)
T ss_dssp ---EEE-B-TTSSHHHHH-HHHHHHHHHH
T ss_pred CcEEEEECCCCCCHHHHH-HHHHHHHHhc
Confidence 357999999999999654 3355555444
No 271
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=89.05 E-value=0.83 Score=36.69 Aligned_cols=20 Identities=30% Similarity=0.326 Sum_probs=16.2
Q ss_pred CCCEEEEccCCCchHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~ 126 (202)
+..++++|++|+|||.....
T Consensus 38 ~~~lll~G~~G~GKT~la~~ 57 (226)
T TIGR03420 38 DRFLYLWGESGSGKSHLLQA 57 (226)
T ss_pred CCeEEEECCCCCCHHHHHHH
Confidence 46799999999999976543
No 272
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=89.00 E-value=0.28 Score=35.34 Aligned_cols=16 Identities=31% Similarity=0.399 Sum_probs=13.5
Q ss_pred EEEEccCCCchHHHHH
Q 028848 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|||||...-
T Consensus 2 I~I~G~~gsGKST~a~ 17 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAK 17 (121)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred EEEECCCCCCHHHHHH
Confidence 6789999999997653
No 273
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=88.98 E-value=1.6 Score=42.66 Aligned_cols=64 Identities=19% Similarity=0.156 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 95 DIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 95 ~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
....+.+..+.+..-+++.|+||||||...-.-+++.-..+. -...+.=|-|-=|.-+.+++.+
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~--g~I~~tQPRRlAArsvA~RvAe 116 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIA--GKIGCTQPRRLAARSVAERVAE 116 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccC--CeEEecCchHHHHHHHHHHHHH
Confidence 344455556667778999999999999886555554433111 1333334666445555555533
No 274
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=88.95 E-value=0.99 Score=32.74 Aligned_cols=23 Identities=30% Similarity=0.280 Sum_probs=14.9
Q ss_pred CCCEEEEccCCCchHHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il 129 (202)
+..++++|++|+|||...-....
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~ 26 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLAR 26 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHH
Confidence 45689999999999987544443
No 275
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=88.85 E-value=3.1 Score=41.67 Aligned_cols=86 Identities=19% Similarity=0.210 Sum_probs=59.9
Q ss_pred CCHHHHHHHHHHHc--------CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 93 PTDIQREALPVLFS--------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~il~--------g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
-..-|-.|+..+.. |--++=.|.||+|||.+=.-.| ..+...+.++|..|-.-.|.|+.|..+.+++-...
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARIm-yaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L 487 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAM-YALRDDKQGARFAIALGLRSLTLQTGHALKTRLNL 487 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHH-HHhCCCCCCceEEEEccccceeccchHHHHHhcCC
Confidence 35688888887643 2235567999999998854443 33445556668778788999999999999987765
Q ss_pred CCCCCCCCCCceEEEEecCCchH
Q 028848 165 PSDTDLEHKPCTVMALLDGGMLR 187 (202)
Q Consensus 165 ~~~~~~~~~~~~v~~~~gg~~~~ 187 (202)
.+| ...+++||...+
T Consensus 488 ~~d--------dLAVlIGs~Av~ 502 (1110)
T TIGR02562 488 SDD--------DLAVLIGGTAVQ 502 (1110)
T ss_pred Ccc--------ceEEEECHHHHH
Confidence 543 345666665543
No 276
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=88.82 E-value=0.3 Score=35.24 Aligned_cols=17 Identities=29% Similarity=0.155 Sum_probs=14.1
Q ss_pred EEEEccCCCchHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
+++.|.+|||||.+.-.
T Consensus 1 I~i~G~~GsGKtTia~~ 17 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKE 17 (129)
T ss_dssp EEEEESTTSSHHHHHHH
T ss_pred CEEECCCCCCHHHHHHH
Confidence 57899999999988543
No 277
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=88.76 E-value=0.65 Score=41.01 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=15.1
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+-+|++||+|+|||+..
T Consensus 186 KGVLLYGPPGTGKTLLA 202 (406)
T COG1222 186 KGVLLYGPPGTGKTLLA 202 (406)
T ss_pred CceEeeCCCCCcHHHHH
Confidence 56999999999999765
No 278
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=88.71 E-value=1.4 Score=40.69 Aligned_cols=88 Identities=24% Similarity=0.272 Sum_probs=58.0
Q ss_pred CCCHHHHHHHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCC
Q 028848 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPS 166 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~ 166 (202)
.+-|.|++.+--+... ..-++.-..|.|||.--+..++.-+. .-..||++|+.+| .|+.+++.++....
T Consensus 184 ~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~~----ra~tLVvaP~VAl-mQW~nEI~~~T~gs- 257 (791)
T KOG1002|consen 184 PLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLAEVD----RAPTLVVAPTVAL-MQWKNEIERHTSGS- 257 (791)
T ss_pred cchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHhccc----cCCeeEEccHHHH-HHHHHHHHHhccCc-
Confidence 4567787766433221 23466778999999776555554222 2258999999986 47888887776632
Q ss_pred CCCCCCCCceEEEEecCCchHHhHHHHh
Q 028848 167 DTDLEHKPCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 167 ~~~~~~~~~~v~~~~gg~~~~~~~~~l~ 194 (202)
. -+.+|+|.......++|.
T Consensus 258 --------l-kv~~YhG~~R~~nikel~ 276 (791)
T KOG1002|consen 258 --------L-KVYIYHGAKRDKNIKELM 276 (791)
T ss_pred --------e-EEEEEecccccCCHHHhh
Confidence 3 467788887766666665
No 279
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=88.66 E-value=0.35 Score=38.36 Aligned_cols=25 Identities=36% Similarity=0.388 Sum_probs=19.8
Q ss_pred HHHHHHHcCCC--EEEEccCCCchHHH
Q 028848 99 EALPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 99 ~~i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
.++..++.|.| ++.+|.||||||..
T Consensus 14 ~~v~~~~~G~n~~i~~yG~tGsGKT~T 40 (186)
T cd01363 14 PLLQSALDGYNVCIFAYGQTGSGKTYT 40 (186)
T ss_pred HHHHHHhCCcceeEEEECCCCCcceEe
Confidence 45666778866 78899999999954
No 280
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=88.64 E-value=1.6 Score=39.66 Aligned_cols=47 Identities=15% Similarity=0.211 Sum_probs=30.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~ 156 (202)
..++++|++|+||| ..+.++.+.+.....+.+++++.. .++...+..
T Consensus 142 npl~i~G~~G~GKT-HLl~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~ 188 (450)
T PRK14087 142 NPLFIYGESGMGKT-HLLKAAKNYIESNFSDLKVSYMSG-DEFARKAVD 188 (450)
T ss_pred CceEEECCCCCcHH-HHHHHHHHHHHHhCCCCeEEEEEH-HHHHHHHHH
Confidence 35899999999999 444666666655444447777654 455554443
No 281
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.61 E-value=1 Score=41.26 Aligned_cols=52 Identities=19% Similarity=0.302 Sum_probs=37.0
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+.-+.+.+.+ +. .++++. +-+-..|+.+.+..++
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge---~~lyis-~ee~~~~i~~~~~~~g 83 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDE---PGVFVT-FEESPEDIIRNVASFG 83 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCC---CEEEEE-ccCCHHHHHHHHHHcC
Confidence 4668999999999998877666666655 44 667765 3345667777776664
No 282
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=88.51 E-value=0.78 Score=37.18 Aligned_cols=41 Identities=29% Similarity=0.464 Sum_probs=26.0
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
++++.+.|.||||||...-.-+.+.+. +.+..++|+=|.-|
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ll~~l~~--~~~~~~ii~D~~GE 63 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKVLLEELLK--KKGAKVIIFDPHGE 63 (229)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHHHh--cCCCCEEEEcCCCc
Confidence 478999999999999765555544442 22225555555433
No 283
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=88.51 E-value=0.34 Score=35.92 Aligned_cols=15 Identities=40% Similarity=0.474 Sum_probs=13.1
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
++++|++|||||...
T Consensus 2 ii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 2 IILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 688999999999774
No 284
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=88.50 E-value=0.97 Score=39.15 Aligned_cols=26 Identities=27% Similarity=0.505 Sum_probs=19.7
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcC
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~ 136 (202)
+|+.|||||||+... .+++..+++..
T Consensus 128 ILVTGpTGSGKSTTl-AamId~iN~~~ 153 (353)
T COG2805 128 ILVTGPTGSGKSTTL-AAMIDYINKHK 153 (353)
T ss_pred EEEeCCCCCcHHHHH-HHHHHHHhccC
Confidence 889999999998663 55666776544
No 285
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=88.45 E-value=0.67 Score=43.08 Aligned_cols=46 Identities=24% Similarity=0.262 Sum_probs=36.6
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
++-+|||.||||--. ++++...+ .+++--|.|-||..++++++..+
T Consensus 194 i~H~GPTNSGKTy~A----Lqrl~~ak---sGvycGPLrLLA~EV~~r~na~g 239 (700)
T KOG0953|consen 194 IMHVGPTNSGKTYRA----LQRLKSAK---SGVYCGPLRLLAHEVYDRLNALG 239 (700)
T ss_pred EEEeCCCCCchhHHH----HHHHhhhc---cceecchHHHHHHHHHHHhhhcC
Confidence 556799999999654 55555556 67888999999999999998654
No 286
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=88.38 E-value=1.5 Score=43.59 Aligned_cols=56 Identities=23% Similarity=0.269 Sum_probs=44.8
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
..++.=-+|||||+.-+...-..+.. ...+.+++++=.++|-.|+.+.|..+....
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~-~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~ 330 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLEL-PKNPKVLFVVDRKDLDDQTSDEFQSFGKVA 330 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhc-cCCCeEEEEechHHHHHHHHHHHHHHHHhh
Confidence 47788889999999865554444433 566799999999999999999999988765
No 287
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=88.32 E-value=0.94 Score=40.04 Aligned_cols=53 Identities=19% Similarity=0.228 Sum_probs=35.2
Q ss_pred HHHHcCC----CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 102 PVLFSSR----DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 102 ~~il~g~----~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
..++.|. -.++.||||||||.....-.+....++-+...+=+=.|..-|+.-+
T Consensus 264 Nk~LkGhR~GElTvlTGpTGsGKTTFlsEYsLDL~~QGVnTLwgSFEi~n~rla~~m 320 (514)
T KOG2373|consen 264 NKYLKGHRPGELTVLTGPTGSGKTTFLSEYSLDLFTQGVNTLWGSFEIPNKRLAHWM 320 (514)
T ss_pred HHHhccCCCCceEEEecCCCCCceeEehHhhHHHHhhhhhheeeeeecchHHHHHHH
Confidence 4456653 3788999999999876666666666665444444445776666544
No 288
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=88.20 E-value=3.8 Score=37.10 Aligned_cols=34 Identities=24% Similarity=0.241 Sum_probs=21.4
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
-++++|++|+|||....-........+. +++++.
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~---kV~lV~ 135 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGF---KPCLVC 135 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEc
Confidence 3788999999998776544433322232 555554
No 289
>PRK08084 DNA replication initiation factor; Provisional
Probab=88.06 E-value=1.1 Score=36.87 Aligned_cols=18 Identities=17% Similarity=0.252 Sum_probs=15.0
Q ss_pred CCEEEEccCCCchHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
..++++||+|+|||-...
T Consensus 46 ~~l~l~Gp~G~GKThLl~ 63 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLH 63 (235)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 578999999999996543
No 290
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=88.05 E-value=0.35 Score=35.93 Aligned_cols=16 Identities=31% Similarity=0.420 Sum_probs=13.9
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
++++.|++|+|||...
T Consensus 1 ~vlL~G~~G~GKt~l~ 16 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA 16 (139)
T ss_dssp EEEEEESSSSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4799999999999774
No 291
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=87.96 E-value=0.42 Score=45.06 Aligned_cols=50 Identities=18% Similarity=0.151 Sum_probs=38.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
.++++.||||||||..|++|.+-.. .. .++|+=|--|+........++.+
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~--~~---S~VV~DpKGEl~~~Ta~~R~~~G 208 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW--ED---SVVVHDIKLENYELTSGWREKQG 208 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC--CC---CEEEEeCcHHHHHHHHHHHHHCC
Confidence 4689999999999999999976532 22 56777788888877776666543
No 292
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=87.95 E-value=1.7 Score=39.32 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=26.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~ 154 (202)
..++++|++|+|||... .++...+.....+.+++++ +..++...+
T Consensus 149 ~~l~l~G~~G~GKThL~-~ai~~~~~~~~~~~~v~yi-~~~~~~~~~ 193 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL-HAIGNYILEKNPNAKVVYV-TSEKFTNDF 193 (450)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHHhCCCCeEEEE-EHHHHHHHH
Confidence 35899999999999554 4444444433223366665 334444433
No 293
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=87.95 E-value=1.1 Score=34.67 Aligned_cols=23 Identities=35% Similarity=0.317 Sum_probs=16.8
Q ss_pred EEEEccCCCchHHHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l 132 (202)
+++.|++|+|||...........
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~ 25 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLK 25 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 57889999999988655444333
No 294
>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=87.88 E-value=4 Score=31.56 Aligned_cols=75 Identities=19% Similarity=0.305 Sum_probs=44.6
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhc-----------------CCCcEEEEEcCCHh----hHHHHHHHHHHHhcCCCC
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQ-----------------RSAVQAVIVVPTRE----LGMQVTKVARVLAAKPSD 167 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~-----------------~~~~~~lil~Pt~~----La~Q~~~~~~~l~~~~~~ 167 (202)
.+|++|+.|+||+......+-..+-.. ...+...++-|... -..|+.+....+....
T Consensus 21 a~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~-- 98 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSP-- 98 (162)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS---
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHHH--
Confidence 379999999999877554443332211 22456777777754 4566664444443322
Q ss_pred CCCCCCCceEEEEecCCchHH
Q 028848 168 TDLEHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 168 ~~~~~~~~~v~~~~gg~~~~~ 188 (202)
...+.+|+.+.....+..
T Consensus 99 ---~~~~~KviiI~~ad~l~~ 116 (162)
T PF13177_consen 99 ---SEGKYKVIIIDEADKLTE 116 (162)
T ss_dssp ---TTSSSEEEEEETGGGS-H
T ss_pred ---hcCCceEEEeehHhhhhH
Confidence 224688888888877633
No 295
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=87.88 E-value=1.1 Score=36.34 Aligned_cols=19 Identities=26% Similarity=0.352 Sum_probs=15.3
Q ss_pred CCCEEEEccCCCchHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
+..++++|++|+|||...-
T Consensus 42 ~~~~~l~G~~G~GKT~La~ 60 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQ 60 (227)
T ss_pred CCeEEEECCCCCCHHHHHH
Confidence 4569999999999995543
No 296
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=87.75 E-value=1.3 Score=37.67 Aligned_cols=18 Identities=22% Similarity=0.314 Sum_probs=15.7
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
+.++++.|++|+|||.+.
T Consensus 58 ~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 457999999999999775
No 297
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=87.74 E-value=1.1 Score=42.64 Aligned_cols=42 Identities=26% Similarity=0.431 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHH----HHcCCCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 92 LPTDIQREALPV----LFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 92 ~~t~~Q~~~i~~----il~g~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
+|..||...+.. +..|+--+..+|||+|||+..+-..+.-+.
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~ 60 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLR 60 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHH
Confidence 689999888765 356887799999999999998877765543
No 298
>PRK06893 DNA replication initiation factor; Validated
Probab=87.72 E-value=0.94 Score=37.09 Aligned_cols=18 Identities=17% Similarity=0.058 Sum_probs=14.2
Q ss_pred CEEEEccCCCchHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~ 126 (202)
.++++|++|+|||-....
T Consensus 41 ~l~l~G~~G~GKThL~~a 58 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKA 58 (229)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 478999999999955433
No 299
>PF05729 NACHT: NACHT domain
Probab=87.69 E-value=1.2 Score=33.29 Aligned_cols=24 Identities=25% Similarity=0.235 Sum_probs=16.8
Q ss_pred CEEEEccCCCchHHHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
-+++.|+.|+|||......+....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~ 25 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLA 25 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHH
Confidence 378999999999976544333333
No 300
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=87.67 E-value=1.6 Score=35.11 Aligned_cols=43 Identities=21% Similarity=0.119 Sum_probs=28.1
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhc---CCCcEEEEEcCCHh
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ---RSAVQAVIVVPTRE 149 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~---~~~~~~lil~Pt~~ 149 (202)
|.-+.+.|++|+|||...+..+......+ .....++++..+..
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 45589999999999988776655544333 01136777766543
No 301
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=87.64 E-value=1.1 Score=33.59 Aligned_cols=51 Identities=16% Similarity=0.139 Sum_probs=29.3
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc-----CCHhhHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV-----PTRELGMQVTKVARV 160 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~-----Pt~~La~Q~~~~~~~ 160 (202)
+-++|+||+||+.+.-+.+.+....+.....+...+ |....+.+-.+.+++
T Consensus 56 lSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~ 111 (127)
T PF06309_consen 56 LSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKS 111 (127)
T ss_pred EEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHH
Confidence 457999999999886655555444444433444333 444444444444443
No 302
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=87.58 E-value=1.7 Score=38.54 Aligned_cols=38 Identities=18% Similarity=0.134 Sum_probs=24.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
..++++|++|+|||... ..+.+.+.....+..++++..
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhCCCCcEEEEEH
Confidence 35889999999999654 445544443322336666643
No 303
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=87.58 E-value=0.59 Score=46.26 Aligned_cols=85 Identities=24% Similarity=0.268 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHH-cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCC
Q 028848 92 LPTDIQREALPVLF-SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDL 170 (202)
Q Consensus 92 ~~t~~Q~~~i~~il-~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~ 170 (202)
..+|+|.+.+-.+. -..++++-+|||+|||.+|-.++...+..... .++++++|-.+|+....+.-...-...
T Consensus 927 ~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~-~kvvyIap~kalvker~~Dw~~r~~~~----- 1000 (1230)
T KOG0952|consen 927 YFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPG-SKVVYIAPDKALVKERSDDWSKRDELP----- 1000 (1230)
T ss_pred ccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCCC-ccEEEEcCCchhhcccccchhhhcccC-----
Confidence 44556655443221 23468889999999999999999887765443 489999999999876555444333222
Q ss_pred CCCCceEEEEecCCc
Q 028848 171 EHKPCTVMALLDGGM 185 (202)
Q Consensus 171 ~~~~~~v~~~~gg~~ 185 (202)
+++++-+.|...
T Consensus 1001 ---g~k~ie~tgd~~ 1012 (1230)
T KOG0952|consen 1001 ---GIKVIELTGDVT 1012 (1230)
T ss_pred ---CceeEeccCccC
Confidence 456555555443
No 304
>PRK05642 DNA replication initiation factor; Validated
Probab=87.35 E-value=1.6 Score=35.87 Aligned_cols=42 Identities=19% Similarity=0.108 Sum_probs=25.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q 153 (202)
..++++|++|+|||-. +.++.+.+... +.+++++. ..++...
T Consensus 46 ~~l~l~G~~G~GKTHL-l~a~~~~~~~~--~~~v~y~~-~~~~~~~ 87 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL-LQAACLRFEQR--GEPAVYLP-LAELLDR 87 (234)
T ss_pred CeEEEECCCCCCHHHH-HHHHHHHHHhC--CCcEEEee-HHHHHhh
Confidence 4588999999999965 44444433322 22666654 3455443
No 305
>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=87.17 E-value=1.4 Score=37.82 Aligned_cols=40 Identities=23% Similarity=0.370 Sum_probs=30.6
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc--CCHhhHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGM 152 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~--Pt~~La~ 152 (202)
+++.|.-|.|||.+.....+....+++ ++|+++ |...|..
T Consensus 4 ~~~~GKGGVGKTT~aaA~A~~~A~~G~---rtLlvS~Dpa~~L~d 45 (305)
T PF02374_consen 4 LFFGGKGGVGKTTVAAALALALARRGK---RTLLVSTDPAHSLSD 45 (305)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTTS----EEEEESSTTTHHHH
T ss_pred EEEecCCCCCcHHHHHHHHHHHhhCCC---CeeEeecCCCccHHH
Confidence 678899999999998888777777666 788875 6666554
No 306
>PRK14974 cell division protein FtsY; Provisional
Probab=87.15 E-value=2.4 Score=37.06 Aligned_cols=48 Identities=23% Similarity=0.174 Sum_probs=27.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC---HhhHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT---RELGMQVTKVAR 159 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt---~~La~Q~~~~~~ 159 (202)
-+++.|++|+|||.............+. +++++... ..-..|+.....
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~~g~---~V~li~~Dt~R~~a~eqL~~~a~ 192 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKKNGF---SVVIAAGDTFRAGAIEQLEEHAE 192 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCC---eEEEecCCcCcHHHHHHHHHHHH
Confidence 3788999999999876554433322222 55555432 233445544333
No 307
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=87.12 E-value=0.75 Score=34.34 Aligned_cols=41 Identities=22% Similarity=0.263 Sum_probs=23.3
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhH
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La 151 (202)
..|.-+++.|.-|+||| .|...+...+.. ..-|-+||-.|+
T Consensus 13 ~~g~vi~L~GdLGaGKT-tf~r~l~~~lg~-----~~~V~SPTF~l~ 53 (123)
T PF02367_consen 13 KPGDVILLSGDLGAGKT-TFVRGLARALGI-----DEEVTSPTFSLV 53 (123)
T ss_dssp SS-EEEEEEESTTSSHH-HHHHHHHHHTT-------S----TTTTSE
T ss_pred CCCCEEEEECCCCCCHH-HHHHHHHHHcCC-----CCCcCCCCeEEE
Confidence 34455889999999999 555566555522 225667775554
No 308
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=87.02 E-value=0.89 Score=39.37 Aligned_cols=23 Identities=26% Similarity=0.327 Sum_probs=18.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~ 130 (202)
.+++.+||+|+|||.+.++..-+
T Consensus 58 p~~LFyGPpGTGKTStalafar~ 80 (346)
T KOG0989|consen 58 PHYLFYGPPGTGKTSTALAFARA 80 (346)
T ss_pred ceEEeeCCCCCcHhHHHHHHHHH
Confidence 46899999999999987765433
No 309
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=86.98 E-value=4.6 Score=39.14 Aligned_cols=72 Identities=21% Similarity=0.201 Sum_probs=47.3
Q ss_pred CCCHHHHHHHH----HHHcCCCEEEEccCCCchHHHHHHHHHHHHH-hcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 92 LPTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 92 ~~t~~Q~~~i~----~il~g~~~l~~a~TGsGKT~~~l~~il~~l~-~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
.+.+.|-+.+. ...+|-+.++.-..|-|||+--+..+..... ++-.+ --||++|--.|. .+.++|++++...
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~G-PfLVi~P~StL~-NW~~Ef~rf~P~l 243 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPG-PFLVIAPKSTLD-NWMNEFKRFTPSL 243 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCC-CeEEEeeHhhHH-HHHHHHHHhCCCc
Confidence 56778877654 3457888999999999999764333222222 22234 458899987664 5677777777543
No 310
>CHL00181 cbbX CbbX; Provisional
Probab=86.90 E-value=1.5 Score=37.37 Aligned_cols=21 Identities=24% Similarity=0.319 Sum_probs=17.3
Q ss_pred CCCEEEEccCCCchHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~ 127 (202)
|.+++++|++|+|||.+.-..
T Consensus 59 ~~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred CceEEEECCCCCCHHHHHHHH
Confidence 557999999999999886544
No 311
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=86.85 E-value=1.5 Score=44.36 Aligned_cols=55 Identities=16% Similarity=0.265 Sum_probs=42.8
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcC--CCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR--SAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~--~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
.+.++++.|..|||||.+...-++..+..+. .-.+.|++..|+.=+..+..++.+
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~ 71 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRD 71 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHH
Confidence 4568999999999999998888888777642 334789999988777777666543
No 312
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=86.80 E-value=1.4 Score=34.50 Aligned_cols=45 Identities=9% Similarity=0.035 Sum_probs=29.8
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
+++.|++|||||......+.. .+. +++++.-...+...+.+++.+
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~---~~~---~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE---LGG---PVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh---cCC---CeEEEEccCcCCHHHHHHHHH
Confidence 578999999999775544322 222 678887776666555555444
No 313
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=86.78 E-value=1.3 Score=37.46 Aligned_cols=35 Identities=20% Similarity=0.227 Sum_probs=23.2
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
+-+++.|++|+|||.............++ +++++.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~---~V~li~ 107 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGK---SVLLAA 107 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCC---EEEEEe
Confidence 34777899999999887665544433333 565554
No 314
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=86.71 E-value=0.63 Score=44.40 Aligned_cols=48 Identities=13% Similarity=0.143 Sum_probs=35.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
.++++.|+||||||..|++|-+-.. .. .++|+=|--|+........++
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~--~g---S~VV~DpKGE~~~~Ta~~R~~ 187 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF--KG---SVIALDVKGELFELTSRARKA 187 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC--CC---CEEEEeCCchHHHHHHHHHHh
Confidence 4799999999999999999975422 22 567777877777666555544
No 315
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=86.70 E-value=1.5 Score=44.46 Aligned_cols=50 Identities=14% Similarity=0.202 Sum_probs=38.8
Q ss_pred EEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
++.|+.|||||.+.+--+.+.+..+..+++.+++||+.. +-+..+++...
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~l~~~~~~~~~illVPeq~-TF~~e~rl~~~ 54 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQKIKENPLGKPIILIVPDQM-TFQMEQALLND 54 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHHHhhCCCCCcEEEEcCCcc-cHHHHHHHHHh
Confidence 578999999999998888888877666778999999864 55555555543
No 316
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=86.56 E-value=0.63 Score=37.12 Aligned_cols=23 Identities=30% Similarity=0.429 Sum_probs=16.9
Q ss_pred CCCEEEEccCCCchHHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il 129 (202)
...+++.||.|||||..|.....
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~L~~ 25 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQLVN 25 (181)
T ss_dssp --EEEEE-STTSSHHHHHHHHHH
T ss_pred CceEEEEcCCCCCHHHHHHHHhc
Confidence 35689999999999998876554
No 317
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=86.35 E-value=0.99 Score=41.08 Aligned_cols=33 Identities=27% Similarity=0.354 Sum_probs=25.8
Q ss_pred CCHHHHHHHHHHHcCCCEEEEccCCCchHHHHH
Q 028848 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l 125 (202)
+-......+..+..+++++++|++|+|||...-
T Consensus 180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 180 PETTIETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 344555666777789999999999999997654
No 318
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.34 E-value=0.6 Score=45.23 Aligned_cols=25 Identities=28% Similarity=0.368 Sum_probs=18.5
Q ss_pred HHHHHHcCCCEEEEccCCCchHHHH
Q 028848 100 ALPVLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 100 ~i~~il~g~~~l~~a~TGsGKT~~~ 124 (202)
.+.+|....-+++||.||||||.-.
T Consensus 264 IMEaIn~n~vvIIcGeTGsGKTTQv 288 (1172)
T KOG0926|consen 264 IMEAINENPVVIICGETGSGKTTQV 288 (1172)
T ss_pred HHHHhhcCCeEEEecCCCCCccccc
Confidence 3344555556899999999999763
No 319
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.23 E-value=0.37 Score=45.05 Aligned_cols=106 Identities=9% Similarity=-0.096 Sum_probs=73.6
Q ss_pred HhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 86 DETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
..+.......+|..++..+..|+++++...|-+||.++|-......+..... -..|+..|+.+++....+-++-..+..
T Consensus 280 ~~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~-s~~~~~~~~~~~~~~~~~~~~V~~~~I 358 (1034)
T KOG4150|consen 280 NKNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLCHA-TNSLLPSEMVEHLRNGSKGQVVHVEVI 358 (1034)
T ss_pred hcccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcCcc-cceecchhHHHHhhccCCceEEEEEeh
Confidence 3344556678999999999999999999999999999998877766544332 256888899998876554443322221
Q ss_pred CCCCCCCCCceEEEEecCCchHHhHHHHhhcC
Q 028848 166 SDTDLEHKPCTVMALLDGGMLRRHKSWLKVLY 197 (202)
Q Consensus 166 ~~~~~~~~~~~v~~~~gg~~~~~~~~~l~~~~ 197 (202)
. .+.--++..+.|.+..+.+...+.+-
T Consensus 359 ~-----~~K~A~V~~~D~~sE~~~~A~~R~~~ 385 (1034)
T KOG4150|consen 359 K-----ARKSAYVEMSDKLSETTKSALKRIGL 385 (1034)
T ss_pred h-----hhhcceeecccCCCchhHHHHHhcCc
Confidence 0 01112566778888887777777653
No 320
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.21 E-value=0.23 Score=39.07 Aligned_cols=71 Identities=20% Similarity=0.225 Sum_probs=39.5
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhh----------------HHHHHHHHHHHhcCCCCCCCCCC
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL----------------GMQVTKVARVLAAKPSDTDLEHK 173 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~L----------------a~Q~~~~~~~l~~~~~~~~~~~~ 173 (202)
.++.|+.|||||.+|.......+. +++.+.+-++ +.+...+++.+.+.. +
T Consensus 5 ~IvaG~NGsGKstv~~~~~~~~~~-------~~~~VN~D~iA~~i~p~~p~~~~i~A~r~ai~~i~~~I~~~-------~ 70 (187)
T COG4185 5 DIVAGPNGSGKSTVYASTLAPLLP-------GIVFVNADEIAAQISPDNPTSAAIQAARVAIDRIARLIDLG-------R 70 (187)
T ss_pred EEEecCCCCCceeeeeccchhhcC-------CeEEECHHHHhhhcCCCCchHHHHHHHHHHHHHHHHHHHcC-------C
Confidence 467899999999998765443321 1222222222 333445555555543 3
Q ss_pred CceEEEEecCCchHHhHHHHh
Q 028848 174 PCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 174 ~~~v~~~~gg~~~~~~~~~l~ 194 (202)
++-.-....|.+..+.++.-+
T Consensus 71 ~F~~ETtLS~~s~~~~ik~Ak 91 (187)
T COG4185 71 PFIAETTLSGPSILELIKTAK 91 (187)
T ss_pred CcceEEeeccchHHHHHHHHH
Confidence 555555566666655555444
No 321
>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=86.20 E-value=2.8 Score=37.00 Aligned_cols=54 Identities=17% Similarity=0.149 Sum_probs=37.9
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh-hHHHHHHHHHHHhc
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE-LGMQVTKVARVLAA 163 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~-La~Q~~~~~~~l~~ 163 (202)
.+++|..|||||.+...-++..+.....+.+++++-++.. |-.-+...+.....
T Consensus 4 ~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~ 58 (396)
T TIGR01547 4 IIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLS 58 (396)
T ss_pred EEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHH
Confidence 5789999999999988777766555323358888888865 55555666654433
No 322
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.18 E-value=2.5 Score=40.49 Aligned_cols=62 Identities=23% Similarity=0.275 Sum_probs=37.5
Q ss_pred CHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc--CCHhhHHHHHHHHH
Q 028848 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGMQVTKVAR 159 (202)
Q Consensus 94 t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~--Pt~~La~Q~~~~~~ 159 (202)
...+.+.+..|....-+++.|.||||||.-.- +.+...+.+...+|-| |-|.-|.-+.+++.
T Consensus 358 f~~R~~ll~~ir~n~vvvivgETGSGKTTQl~----QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa 421 (1042)
T KOG0924|consen 358 FACRDQLLSVIRENQVVVIVGETGSGKTTQLA----QYLYEDGYADNGMIGCTQPRRVAAISVAKRVA 421 (1042)
T ss_pred HHHHHHHHHHHhhCcEEEEEecCCCCchhhhH----HHHHhcccccCCeeeecCchHHHHHHHHHHHH
Confidence 34455555555666778999999999997642 2333333222334444 77776666665553
No 323
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=86.08 E-value=2.4 Score=40.63 Aligned_cols=85 Identities=25% Similarity=0.235 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHHc-----CCCEEEEccCCCchHHHHHHHHHHHHH-----hcC--CCcEEEEEcCCHhhHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFS-----SRDCILHAQTGSGKTLTYLLLIFSLVN-----AQR--SAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~-----g~~~l~~a~TGsGKT~~~l~~il~~l~-----~~~--~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
.+-|.|+.++.-+.- +..-++....|-|||+.-+..|++.-. .++ .....||+||- .|..|+..++.
T Consensus 325 ~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa-Sli~qW~~Ev~ 403 (901)
T KOG4439|consen 325 ELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA-SLIHQWEAEVA 403 (901)
T ss_pred ecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH-HHHHHHHHHHH
Confidence 456788888765532 223667778899999976666654322 111 12247999996 67889998886
Q ss_pred HHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 160 VLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
+-.... -++ +.+|||.+.
T Consensus 404 ~rl~~n--------~Ls-V~~~HG~n~ 421 (901)
T KOG4439|consen 404 RRLEQN--------ALS-VYLYHGPNK 421 (901)
T ss_pred HHHhhc--------ceE-EEEecCCcc
Confidence 655432 244 666777774
No 324
>PRK00131 aroK shikimate kinase; Reviewed
Probab=85.85 E-value=0.51 Score=36.03 Aligned_cols=21 Identities=19% Similarity=0.253 Sum_probs=17.3
Q ss_pred HcCCCEEEEccCCCchHHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l 125 (202)
..+..+++.|++|||||.+.-
T Consensus 2 ~~~~~i~l~G~~GsGKstla~ 22 (175)
T PRK00131 2 LKGPNIVLIGFMGAGKSTIGR 22 (175)
T ss_pred CCCCeEEEEcCCCCCHHHHHH
Confidence 356789999999999998753
No 325
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=85.75 E-value=1.2 Score=36.82 Aligned_cols=35 Identities=20% Similarity=0.265 Sum_probs=24.4
Q ss_pred CCCHHHHHHHHHHH----cCC-CEEEEccCCCchHHHHHH
Q 028848 92 LPTDIQREALPVLF----SSR-DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 92 ~~t~~Q~~~i~~il----~g~-~~l~~a~TGsGKT~~~l~ 126 (202)
.+++.+++++..+. .+. .+++.|++|+|||...-.
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~ 62 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRN 62 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHH
Confidence 35677777776553 233 488999999999976543
No 326
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=85.64 E-value=0.84 Score=43.19 Aligned_cols=49 Identities=20% Similarity=0.180 Sum_probs=34.8
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.++++.|+||||||..+++|-+ +.... .++|+=|--|+.......-++.
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnL--L~~~g---S~VV~DpKgE~~~~Ta~~R~~~ 260 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTA--LKYGG---PLVCLDPSTEVAPMVCEHRRQA 260 (623)
T ss_pred ceEEEEeCCCCCccceeehhhh--hcCCC---CEEEEEChHHHHHHHHHHHHHc
Confidence 4799999999999999999963 33222 4666677777766655444433
No 327
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=85.48 E-value=1.5 Score=36.45 Aligned_cols=19 Identities=26% Similarity=0.399 Sum_probs=15.7
Q ss_pred CCEEEEccCCCchHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~ 126 (202)
.+++++||+|+|||.+.-.
T Consensus 43 ~~vll~GppGtGKTtlA~~ 61 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARI 61 (261)
T ss_pred ceEEEEcCCCCCHHHHHHH
Confidence 4689999999999977533
No 328
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=85.41 E-value=0.79 Score=43.52 Aligned_cols=49 Identities=18% Similarity=0.186 Sum_probs=35.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l 161 (202)
.++++.|+||||||..+++|-+ +..+. .++|+=|--|+...+....++.
T Consensus 225 ~H~Lv~ApTgsGKt~g~VIPnL--L~~~g---S~VV~DpKgEl~~~Ta~~R~~~ 273 (641)
T PRK13822 225 THGLVFAGSGGFKTTSVVVPTA--LKWGG---PLVVLDPSTEVAPMVSEHRRDA 273 (641)
T ss_pred ceEEEEeCCCCCccceEehhhh--hcCCC---CEEEEeCcHHHHHHHHHHHHHC
Confidence 4789999999999999999964 22222 4666668888776665555444
No 329
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=85.33 E-value=0.74 Score=40.08 Aligned_cols=24 Identities=25% Similarity=0.336 Sum_probs=18.5
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
+..++.|.+ ++.+|.||||||...
T Consensus 80 v~~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 80 VDGVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred HHHHHCCCCceEEeeCCCCCCCeEEE
Confidence 344567765 788999999999774
No 330
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=85.23 E-value=0.72 Score=40.31 Aligned_cols=24 Identities=29% Similarity=0.346 Sum_probs=18.2
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
+..++.|.+ ++.+|.||||||...
T Consensus 81 v~~~l~G~n~ti~aYGqtGSGKTyTm 106 (345)
T cd01368 81 VQDLLKGKNSLLFTYGVTNSGKTYTM 106 (345)
T ss_pred HHHHhCCCceEEEEeCCCCCCCeEEe
Confidence 334567765 788999999998663
No 331
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=85.19 E-value=0.71 Score=39.90 Aligned_cols=25 Identities=48% Similarity=0.748 Sum_probs=18.8
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTYL 125 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~l 125 (202)
+..++.|.+ ++.+|.||||||....
T Consensus 77 v~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 77 IPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred HHHHhCCCceEEEeccCCCCCCceEec
Confidence 344567765 7889999999997653
No 332
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=84.91 E-value=0.9 Score=34.40 Aligned_cols=41 Identities=22% Similarity=0.221 Sum_probs=25.3
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
.|.-+++.|+.|+|||. |+..+.+.+... .-|-+||-.|++
T Consensus 21 ~~~~i~l~G~lGaGKTt-l~~~l~~~lg~~-----~~v~SPTf~lv~ 61 (133)
T TIGR00150 21 FGTVVLLKGDLGAGKTT-LVQGLLQGLGIQ-----GNVTSPTFTLVN 61 (133)
T ss_pred CCCEEEEEcCCCCCHHH-HHHHHHHHcCCC-----CcccCCCeeeee
Confidence 45568899999999984 445555544221 135567655443
No 333
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=84.91 E-value=3.1 Score=35.94 Aligned_cols=62 Identities=11% Similarity=0.036 Sum_probs=37.3
Q ss_pred HHHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHH---hcCCCcEEEEEcCCHhh-HHHHHHHHHHH
Q 028848 100 ALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVN---AQRSAVQAVIVVPTREL-GMQVTKVARVL 161 (202)
Q Consensus 100 ~i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~---~~~~~~~~lil~Pt~~L-a~Q~~~~~~~l 161 (202)
.++.++.| .-+.++|++|+|||...+..+..... .+..+.+++|+.-+-.+ ..++.+.+.++
T Consensus 84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~ 154 (313)
T TIGR02238 84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERF 154 (313)
T ss_pred HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHc
Confidence 35566655 34789999999999887655543321 12233478888766543 34444444444
No 334
>PRK08939 primosomal protein DnaI; Reviewed
Probab=84.90 E-value=1.8 Score=37.31 Aligned_cols=27 Identities=19% Similarity=0.222 Sum_probs=18.8
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
++.++++|++|+|||.......-+...
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~ 182 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAK 182 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 457999999999999655443333443
No 335
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=84.76 E-value=0.54 Score=42.58 Aligned_cols=18 Identities=44% Similarity=0.582 Sum_probs=15.0
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
..|+|+.||||||||+..
T Consensus 226 KSNvLllGPtGsGKTlla 243 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTLLA 243 (564)
T ss_pred cccEEEECCCCCchhHHH
Confidence 347999999999999653
No 336
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=84.74 E-value=6.1 Score=35.76 Aligned_cols=22 Identities=32% Similarity=0.336 Sum_probs=17.6
Q ss_pred EEEEccCCCchHHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~ 131 (202)
+++.|++|+|||......+...
T Consensus 226 i~lvGptGvGKTTtaaKLA~~~ 247 (432)
T PRK12724 226 VFFVGPTGSGKTTSIAKLAAKY 247 (432)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 7789999999998876665443
No 337
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=84.74 E-value=6.4 Score=34.22 Aligned_cols=89 Identities=17% Similarity=0.129 Sum_probs=51.8
Q ss_pred CCHHHHHHHHHHHcC-C---CEEEEccCCCchHHHHHHHHHHHHHh------------------cCCCcEEEEEcCCH--
Q 028848 93 PTDIQREALPVLFSS-R---DCILHAQTGSGKTLTYLLLIFSLVNA------------------QRSAVQAVIVVPTR-- 148 (202)
Q Consensus 93 ~t~~Q~~~i~~il~g-~---~~l~~a~TGsGKT~~~l~~il~~l~~------------------~~~~~~~lil~Pt~-- 148 (202)
+.|.|...|..+... + -++++|+.|.|||.......-..+-. .+..|-..++.|..
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~ 83 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEAD 83 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCC
Confidence 356777777776543 2 38899999999997654432222211 11245667777852
Q ss_pred --hhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 149 --ELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 149 --~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
--+.|+.+....+...+ ...+.+|+.+.....+
T Consensus 84 ~~i~id~iR~l~~~~~~~~-----~~~~~kv~iI~~a~~m 118 (328)
T PRK05707 84 KTIKVDQVRELVSFVVQTA-----QLGGRKVVLIEPAEAM 118 (328)
T ss_pred CCCCHHHHHHHHHHHhhcc-----ccCCCeEEEECChhhC
Confidence 23566666555544432 1235777777665554
No 338
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=84.70 E-value=0.72 Score=43.75 Aligned_cols=45 Identities=20% Similarity=0.082 Sum_probs=33.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~ 157 (202)
.++++.|+||||||..+++|.+-. .+. .++|+=|--|+.......
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~--~~~---S~VV~D~KGE~~~~Tag~ 220 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS--WGH---SSVITDLKGELWALTAGW 220 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh--CCC---CEEEEeCcHHHHHHHHHH
Confidence 469999999999999999997542 222 567777888876544433
No 339
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=84.62 E-value=1.8 Score=39.10 Aligned_cols=38 Identities=16% Similarity=0.167 Sum_probs=24.3
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
..++++|++|+|||-.. .++.+.+.....+.+++++..
T Consensus 131 n~l~lyG~~G~GKTHLl-~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLL-QSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH
Confidence 35899999999999543 455554444333346666643
No 340
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=84.57 E-value=0.85 Score=39.69 Aligned_cols=22 Identities=41% Similarity=0.394 Sum_probs=17.1
Q ss_pred HHHHcCCC--EEEEccCCCchHHH
Q 028848 102 PVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 102 ~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
+.++.|.+ ++.+|.||||||..
T Consensus 68 ~~~~~G~n~ti~aYGqTGSGKTyT 91 (337)
T cd01373 68 EDCLSGYNGSIFAYGQTGSGKTYT 91 (337)
T ss_pred HHHhCCCceeEEEeCCCCCCceEE
Confidence 34567766 78899999999844
No 341
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=84.57 E-value=1.7 Score=36.29 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=13.6
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
.+++.|++|||||...
T Consensus 15 r~viIG~sGSGKT~li 30 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLI 30 (241)
T ss_pred eEEEECCCCCCHHHHH
Confidence 5889999999999654
No 342
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=84.44 E-value=4.1 Score=39.52 Aligned_cols=69 Identities=25% Similarity=0.248 Sum_probs=47.5
Q ss_pred CCCHHHHHHHHHH----HcCCCEEEEccCCCchHHH---HHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVL----FSSRDCILHAQTGSGKTLT---YLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~---~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.+.+.|++++.-+ .++.--++--..|-|||.- ||..+.+ .++-.-.+||+||. .+..|+.++|..+...
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~---S~k~~~paLIVCP~-Tii~qW~~E~~~w~p~ 280 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHH---SGKLTKPALIVCPA-TIIHQWMKEFQTWWPP 280 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhh---cccccCceEEEccH-HHHHHHHHHHHHhCcc
Confidence 5688999987654 3445567778899999864 3333332 22322379999997 5678888888887753
No 343
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=84.37 E-value=1.9 Score=37.37 Aligned_cols=35 Identities=17% Similarity=0.153 Sum_probs=21.8
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
.-+++.||+|+|||.............++ +++++.
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~---~V~Li~ 149 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGK---KVLLAA 149 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCC---eEEEEe
Confidence 34778999999999876544433333333 555543
No 344
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=84.23 E-value=0.88 Score=39.27 Aligned_cols=23 Identities=35% Similarity=0.429 Sum_probs=18.1
Q ss_pred HHHHHcCCC--EEEEccCCCchHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
++.++.|.+ ++.+|.||||||..
T Consensus 69 v~~~~~G~n~~i~ayG~tgSGKT~T 93 (325)
T cd01369 69 VDDVLNGYNGTIFAYGQTGSGKTYT 93 (325)
T ss_pred HHHHHcCccceEEEeCCCCCCceEE
Confidence 444577766 78899999999876
No 345
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=84.19 E-value=1 Score=38.83 Aligned_cols=26 Identities=31% Similarity=0.365 Sum_probs=18.6
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~l~ 126 (202)
+..++.|.+ ++.+|+||||||....-
T Consensus 67 v~~~l~G~n~~i~ayG~tgSGKT~Tm~G 94 (335)
T PF00225_consen 67 VDSVLDGYNATIFAYGQTGSGKTYTMFG 94 (335)
T ss_dssp HHHHHTT-EEEEEEEESTTSSHHHHHTB
T ss_pred HHHhhcCCceEEEeeccccccccccccc
Confidence 344578876 78899999999965433
No 346
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=84.17 E-value=1.4 Score=38.23 Aligned_cols=46 Identities=20% Similarity=0.283 Sum_probs=27.7
Q ss_pred EEEEccCCCchHHHHHHHHHH--HHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFS--LVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~--~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.+++|||||||.-.. .-++. .+. ...-.+++++|++....-.....
T Consensus 90 ~~VYGPTG~GKSqLl-RNLis~~lI~--P~PETVfFItP~~~mIpp~E~~a 137 (369)
T PF02456_consen 90 GVVYGPTGSGKSQLL-RNLISCQLIQ--PPPETVFFITPQKDMIPPQEITA 137 (369)
T ss_pred EEEECCCCCCHHHHH-HHhhhcCccc--CCCCceEEECCCCCCCCHHHHHH
Confidence 578999999997432 22211 111 11226889999987765544443
No 347
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=84.16 E-value=4.8 Score=37.04 Aligned_cols=24 Identities=33% Similarity=0.184 Sum_probs=18.2
Q ss_pred CCEEEEccCCCchHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~ 131 (202)
.-+.+.||||+|||.......-..
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~ 280 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARC 280 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHH
Confidence 447899999999999876554433
No 348
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=84.15 E-value=0.85 Score=39.61 Aligned_cols=24 Identities=29% Similarity=0.400 Sum_probs=18.1
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
++.++.|.+ ++.+|.||||||...
T Consensus 73 v~~~~~G~n~~i~ayG~tgSGKTyTm 98 (334)
T cd01375 73 VDSALDGYNGTIFAYGQTGAGKTFTM 98 (334)
T ss_pred HHHHhCCCccceeeecCCCCCCeEEc
Confidence 344567765 889999999998553
No 349
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=84.09 E-value=0.85 Score=35.92 Aligned_cols=19 Identities=26% Similarity=0.260 Sum_probs=15.8
Q ss_pred CCCEEEEccCCCchHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
|..+++.||+|||||.+.-
T Consensus 2 g~~i~l~G~sGsGKsTl~~ 20 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLA 20 (186)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 5568899999999997753
No 350
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=84.08 E-value=0.97 Score=38.97 Aligned_cols=24 Identities=38% Similarity=0.569 Sum_probs=18.7
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
++.++.|.| ++.+|.||||||...
T Consensus 73 v~~~~~G~n~~i~ayG~tgSGKTyTm 98 (319)
T cd01376 73 VPHLLSGQNATVFAYGSTGAGKTHTM 98 (319)
T ss_pred HHHHhCCCceEEEEECCCCCCCcEEE
Confidence 444677876 788999999999754
No 351
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=83.99 E-value=0.89 Score=39.82 Aligned_cols=23 Identities=39% Similarity=0.472 Sum_probs=17.8
Q ss_pred HHHHHcCCC--EEEEccCCCchHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
++.++.|.+ ++.+|.||||||..
T Consensus 81 v~~~l~G~n~~i~ayGqtGSGKT~T 105 (356)
T cd01365 81 LDHAFEGYNVCLFAYGQTGSGKSYT 105 (356)
T ss_pred HHHHhCCCceEEEEecCCCCCCeEE
Confidence 334567766 78899999999974
No 352
>PHA02244 ATPase-like protein
Probab=83.93 E-value=1.5 Score=38.92 Aligned_cols=22 Identities=23% Similarity=0.317 Sum_probs=18.1
Q ss_pred HHHcCCCEEEEccCCCchHHHH
Q 028848 103 VLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 103 ~il~g~~~l~~a~TGsGKT~~~ 124 (202)
.+..+.++++.|+||+|||...
T Consensus 115 ~l~~~~PVLL~GppGtGKTtLA 136 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHIA 136 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHHH
Confidence 3456789999999999999654
No 353
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=83.91 E-value=1.5 Score=37.41 Aligned_cols=18 Identities=28% Similarity=0.392 Sum_probs=15.2
Q ss_pred CEEEEccCCCchHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~ 126 (202)
.++++||+|+|||.....
T Consensus 38 ~lll~Gp~GtGKT~la~~ 55 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRA 55 (337)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 699999999999976543
No 354
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=83.88 E-value=0.79 Score=39.45 Aligned_cols=21 Identities=14% Similarity=0.194 Sum_probs=16.5
Q ss_pred CCEEEEccCCCchHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~i 128 (202)
+-+++.||||||||...+-..
T Consensus 5 ~ii~I~GpTasGKS~LAl~LA 25 (300)
T PRK14729 5 KIVFIFGPTAVGKSNILFHFP 25 (300)
T ss_pred cEEEEECCCccCHHHHHHHHH
Confidence 347899999999998766543
No 355
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=83.84 E-value=3.3 Score=40.24 Aligned_cols=29 Identities=24% Similarity=0.119 Sum_probs=22.0
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~ 136 (202)
.-++++|++|+|||...+..+......+.
T Consensus 61 siteI~G~~GsGKTtLal~~~~~a~~~G~ 89 (790)
T PRK09519 61 RVIEIYGPESSGKTTVALHAVANAQAAGG 89 (790)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 45889999999999888776666554443
No 356
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=83.59 E-value=1.4 Score=36.94 Aligned_cols=24 Identities=29% Similarity=0.407 Sum_probs=17.6
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHh
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
.++.||+||||| .|+.-+.+.+..
T Consensus 5 qvVIGPPgSGKs-TYc~g~~~fls~ 28 (290)
T KOG1533|consen 5 QVVIGPPGSGKS-TYCNGMSQFLSA 28 (290)
T ss_pred eEEEcCCCCCcc-chhhhHHHHHHH
Confidence 478899999998 566666555544
No 357
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=83.46 E-value=7.6 Score=32.88 Aligned_cols=24 Identities=29% Similarity=0.387 Sum_probs=18.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~ 131 (202)
..+.+.|++|+|||..+.......
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l 99 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQF 99 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHH
Confidence 568999999999998876655443
No 358
>PRK13531 regulatory ATPase RavA; Provisional
Probab=83.43 E-value=1.2 Score=40.82 Aligned_cols=24 Identities=25% Similarity=0.290 Sum_probs=20.2
Q ss_pred HHHHHcCCCEEEEccCCCchHHHH
Q 028848 101 LPVLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~il~g~~~l~~a~TGsGKT~~~ 124 (202)
+-.++.|.++++.|++|+|||...
T Consensus 33 l~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 33 LLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHccCCCEEEECCCChhHHHHH
Confidence 345678899999999999999775
No 359
>PHA02533 17 large terminase protein; Provisional
Probab=83.36 E-value=10 Score=35.37 Aligned_cols=72 Identities=14% Similarity=0.158 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcC
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~ 164 (202)
.|.|.|+..+..+..++-.++.-+-..|||.+.....+......+ +.++++++|+.+-+..+.+.++.+.+.
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~-~~~v~i~A~~~~QA~~vF~~ik~~ie~ 130 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DKNVGILAHKASMAAEVLDRTKQAIEL 130 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CCEEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 578999999887765666667777889999987654443322222 348999999999999998888766554
No 360
>PRK10867 signal recognition particle protein; Provisional
Probab=83.34 E-value=2 Score=38.84 Aligned_cols=33 Identities=24% Similarity=0.286 Sum_probs=22.3
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEc
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVV 145 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~ 145 (202)
+++.|++|+|||....-........ ++ +++++.
T Consensus 103 I~~vG~~GsGKTTtaakLA~~l~~~~G~---kV~lV~ 136 (433)
T PRK10867 103 IMMVGLQGAGKTTTAGKLAKYLKKKKKK---KVLLVA 136 (433)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhcCC---cEEEEE
Confidence 7889999999998876655544443 33 555544
No 361
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=83.32 E-value=5.6 Score=38.64 Aligned_cols=69 Identities=17% Similarity=0.090 Sum_probs=52.4
Q ss_pred CCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcC---CCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---SAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 92 ~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~---~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
.+..-|+.|....+..+--+++||+|+|||.+-+..+-..+.... .....++.|-|..-..|....+..
T Consensus 378 ildsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~ 449 (1025)
T KOG1807|consen 378 ILDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYY 449 (1025)
T ss_pred eecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHh
Confidence 345568888888888888899999999999999888877665432 223568888888878887766653
No 362
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=83.25 E-value=1.3 Score=35.93 Aligned_cols=41 Identities=20% Similarity=0.092 Sum_probs=26.6
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhc---CCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ---RSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~---~~~~~~lil~Pt 147 (202)
|.-+.+.|++|+|||...+..+......+ ..+-.++++.-+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e 62 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTE 62 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCC
Confidence 45589999999999988776665533222 012267777644
No 363
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=83.24 E-value=0.85 Score=43.47 Aligned_cols=45 Identities=16% Similarity=0.053 Sum_probs=31.4
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~ 157 (202)
.++++.|+||||||..+++|-+-.. .. .++|+=|--|+.......
T Consensus 145 ~hvLviApTrSGKgvg~VIPnLL~~--~~---S~VV~D~KGEl~~~Ta~~ 189 (663)
T PRK13876 145 EHVLCFAPTRSGKGVGLVVPTLLTW--PG---SAIVHDIKGENWQLTAGF 189 (663)
T ss_pred ceEEEEecCCCCcceeEehhhHHhC--CC---CEEEEeCcchHHHHHHHH
Confidence 4799999999999999999975432 22 455555666665544443
No 364
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=83.11 E-value=5.1 Score=33.13 Aligned_cols=38 Identities=16% Similarity=0.132 Sum_probs=29.0
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
.-+++.|.||.|||...+..+.+....++ ..+++++.+
T Consensus 20 ~L~vi~a~pg~GKT~~~l~ia~~~a~~~~--~~vly~SlE 57 (259)
T PF03796_consen 20 ELTVIAARPGVGKTAFALQIALNAALNGG--YPVLYFSLE 57 (259)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTTS--SEEEEEESS
T ss_pred cEEEEEecccCCchHHHHHHHHHHHHhcC--CeEEEEcCC
Confidence 34788999999999888877777766532 388888876
No 365
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=83.07 E-value=2.2 Score=41.25 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=26.7
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
.++++.|+||||||..--..+...+..+. +++|+=|..+
T Consensus 431 ~n~~I~G~tGsGKS~~~~~l~~~~~~~g~---~v~iiD~~~s 469 (797)
T TIGR02746 431 YNIAVVGGSGAGKSFFMQELIVDNLSRGG---KVWVIDVGRS 469 (797)
T ss_pred cceEEEcCCCCCHHHHHHHHHHHHHhCCC---EEEEEeCCCC
Confidence 36999999999999775544444444333 7777766654
No 366
>PTZ00035 Rad51 protein; Provisional
Probab=83.00 E-value=6.8 Score=34.19 Aligned_cols=47 Identities=15% Similarity=0.056 Sum_probs=27.5
Q ss_pred HHHHHcC-----CCEEEEccCCCchHHHHHHHHHHHHH---hcCCCcEEEEEcCC
Q 028848 101 LPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVN---AQRSAVQAVIVVPT 147 (202)
Q Consensus 101 i~~il~g-----~~~l~~a~TGsGKT~~~l~~il~~l~---~~~~~~~~lil~Pt 147 (202)
++.++.| .-+.+.|++|+|||...+........ .+..+-+++++.-+
T Consensus 107 LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE 161 (337)
T PTZ00035 107 LDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTE 161 (337)
T ss_pred HHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEcc
Confidence 4555654 23779999999999876554433221 12223366666533
No 367
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=82.96 E-value=6.9 Score=38.05 Aligned_cols=90 Identities=18% Similarity=0.143 Sum_probs=57.1
Q ss_pred CCHHHHHHHHHH----HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCC
Q 028848 93 PTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDT 168 (202)
Q Consensus 93 ~t~~Q~~~i~~i----l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~ 168 (202)
+-+.|...+.-+ ..+.+.++.-..|-|||. =+++.+..+.+.+....-||+||.-.|- .+.++|.++|-
T Consensus 400 LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTi-QvIaFlayLkq~g~~gpHLVVvPsSTle-NWlrEf~kwCP----- 472 (941)
T KOG0389|consen 400 LKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTI-QVIAFLAYLKQIGNPGPHLVVVPSSTLE-NWLREFAKWCP----- 472 (941)
T ss_pred ccchhhhhHHHHHHHHHccccceehhhccCcchh-HHHHHHHHHHHcCCCCCcEEEecchhHH-HHHHHHHHhCC-----
Confidence 566777666532 244567888999999994 4455555554433222458899986654 45677777774
Q ss_pred CCCCCCceEEEEecCCchHHhHHHHh
Q 028848 169 DLEHKPCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 169 ~~~~~~~~v~~~~gg~~~~~~~~~l~ 194 (202)
.++|-..||....+++++..-
T Consensus 473 -----sl~Ve~YyGSq~ER~~lR~~i 493 (941)
T KOG0389|consen 473 -----SLKVEPYYGSQDERRELRERI 493 (941)
T ss_pred -----ceEEEeccCcHHHHHHHHHHH
Confidence 467666667666655555443
No 368
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=82.80 E-value=7.9 Score=33.21 Aligned_cols=83 Identities=22% Similarity=0.233 Sum_probs=48.6
Q ss_pred HHHHhcCCCCCHHHHHhccCCChhcHHhHhcCCCCH--HHHHHHHh-CC-----------------------CCCCCHHH
Q 028848 44 LRAVLSSSAVSIEELAAGTGNNSLTLRELCQGHVPE--HVLRRMDE-TG-----------------------YVLPTDIQ 97 (202)
Q Consensus 44 l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~--~l~~~l~~-~g-----------------------~~~~t~~Q 97 (202)
++.......++.+++++..+.+..++..|+...-.+ ..+..+.+ .+ +..+++.|
T Consensus 33 l~~~R~~~gltq~~lA~~~gvs~~~i~~~E~g~~~ps~~~l~~ia~~l~v~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~ 112 (309)
T PRK08154 33 VRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVDTSSPDWLLIRELLEQASPAQ 112 (309)
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCCCCCCCHHHHHHHHHHhCCCHHHHhCCCCCCChHHHHHHHHHhcCCHHH
Confidence 455555667777777777777777777775543211 11111111 11 12455666
Q ss_pred HHHHHHHH-----------cCCCEEEEccCCCchHHHHHH
Q 028848 98 REALPVLF-----------SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 98 ~~~i~~il-----------~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.+.+-.++ .+..+++.|..|||||.+.-.
T Consensus 113 ~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~ 152 (309)
T PRK08154 113 LARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRM 152 (309)
T ss_pred HHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHH
Confidence 55554442 224689999999999988644
No 369
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=82.75 E-value=0.93 Score=35.61 Aligned_cols=16 Identities=31% Similarity=0.434 Sum_probs=13.8
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
++++.||||+|||+..
T Consensus 5 ~~ll~GpsGvGKT~la 20 (171)
T PF07724_consen 5 NFLLAGPSGVGKTELA 20 (171)
T ss_dssp EEEEESSTTSSHHHHH
T ss_pred EEEEECCCCCCHHHHH
Confidence 5889999999999753
No 370
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=82.62 E-value=3.9 Score=38.70 Aligned_cols=45 Identities=18% Similarity=0.162 Sum_probs=26.7
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~ 155 (202)
.++++|++|+|||-. +.++.+.+.....+.+++++ +..++..++.
T Consensus 316 pL~LyG~sGsGKTHL-L~AIa~~a~~~~~g~~V~Yi-taeef~~el~ 360 (617)
T PRK14086 316 PLFIYGESGLGKTHL-LHAIGHYARRLYPGTRVRYV-SSEEFTNEFI 360 (617)
T ss_pred cEEEECCCCCCHHHH-HHHHHHHHHHhCCCCeEEEe-eHHHHHHHHH
Confidence 489999999999944 34454544432223366665 4444554443
No 371
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=82.59 E-value=3.6 Score=36.99 Aligned_cols=40 Identities=20% Similarity=0.150 Sum_probs=27.3
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~ 148 (202)
..++++|++|+|||- .+.++-+.........+++++..+.
T Consensus 114 nplfi~G~~GlGKTH-Ll~Aign~~~~~~~~a~v~y~~se~ 153 (408)
T COG0593 114 NPLFIYGGVGLGKTH-LLQAIGNEALANGPNARVVYLTSED 153 (408)
T ss_pred CcEEEECCCCCCHHH-HHHHHHHHHHhhCCCceEEeccHHH
Confidence 469999999999994 4455555555444455777776654
No 372
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=82.51 E-value=2.2 Score=31.81 Aligned_cols=20 Identities=30% Similarity=0.463 Sum_probs=15.8
Q ss_pred HcCCCEEEEccCCCchHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~ 124 (202)
.....+++.|++|+||+.+.
T Consensus 19 ~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 19 KSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp CSSS-EEEECCTTSSHHHHH
T ss_pred CCCCcEEEEcCCCCCHHHHH
Confidence 45578999999999998763
No 373
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=82.36 E-value=1.7 Score=35.45 Aligned_cols=27 Identities=26% Similarity=0.416 Sum_probs=17.0
Q ss_pred HHHHHH-HHcCCCEEEEccCCCchHHHH
Q 028848 98 REALPV-LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 98 ~~~i~~-il~g~~~l~~a~TGsGKT~~~ 124 (202)
+.++.. ...+.++++.|+.|+|||...
T Consensus 12 KrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 12 KRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp HHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred HHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 334433 345678999999999999764
No 374
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=82.18 E-value=1.1 Score=34.77 Aligned_cols=19 Identities=26% Similarity=0.284 Sum_probs=16.1
Q ss_pred CCCEEEEccCCCchHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
|+-+++.|++|||||.+.-
T Consensus 2 ~~~i~l~G~~gsGKst~a~ 20 (175)
T cd00227 2 GRIIILNGGSSAGKSSIAR 20 (175)
T ss_pred CCEEEEECCCCCCHHHHHH
Confidence 5678999999999998753
No 375
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=82.01 E-value=2.5 Score=38.27 Aligned_cols=34 Identities=26% Similarity=0.191 Sum_probs=22.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
.++++|++|+|||.+...........+. +++++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~---kV~lV~ 130 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGL---KVGLVA 130 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCC---eEEEec
Confidence 4788999999999886555443333222 555544
No 376
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=81.98 E-value=1.2 Score=38.38 Aligned_cols=25 Identities=28% Similarity=0.282 Sum_probs=18.9
Q ss_pred HHHHHcCCC--EEEEccCCCchHHHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLTYL 125 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~~l 125 (202)
++.++.|.+ ++.+|+||||||....
T Consensus 66 v~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 66 VRSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred HHHHHCCCceeEEeecCCCCCCceecc
Confidence 344567765 7889999999997653
No 377
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=81.83 E-value=4.9 Score=34.74 Aligned_cols=17 Identities=29% Similarity=0.499 Sum_probs=14.8
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
.+++++|++|+|||.+.
T Consensus 41 ~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CcEEEECCCCCCHHHHH
Confidence 47999999999999664
No 378
>PRK14530 adenylate kinase; Provisional
Probab=81.78 E-value=1 Score=36.30 Aligned_cols=20 Identities=25% Similarity=0.277 Sum_probs=16.2
Q ss_pred cCCCEEEEccCCCchHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l 125 (202)
.+..+++.|++|||||...-
T Consensus 2 ~~~~I~i~G~pGsGKsT~~~ 21 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQSS 21 (215)
T ss_pred CCCEEEEECCCCCCHHHHHH
Confidence 35678999999999997653
No 379
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=81.77 E-value=3.1 Score=34.53 Aligned_cols=49 Identities=14% Similarity=0.110 Sum_probs=25.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
+++++||+|.|||...-+-.-+ -+.. ....-.|..+-..++...+..+.
T Consensus 52 h~lf~GPPG~GKTTLA~IIA~e----~~~~-~~~~sg~~i~k~~dl~~il~~l~ 100 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTLARIIANE----LGVN-FKITSGPAIEKAGDLAAILTNLK 100 (233)
T ss_dssp EEEEESSTTSSHHHHHHHHHHH----CT---EEEEECCC--SCHHHHHHHHT--
T ss_pred eEEEECCCccchhHHHHHHHhc----cCCC-eEeccchhhhhHHHHHHHHHhcC
Confidence 5899999999999765332211 1111 22333465555555555555443
No 380
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=81.74 E-value=1.7 Score=37.93 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=19.4
Q ss_pred HHHHcCCCEEEEccCCCchHHHHH
Q 028848 102 PVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 102 ~~il~g~~~l~~a~TGsGKT~~~l 125 (202)
-.+..++++++.|++|+|||...-
T Consensus 59 ~~l~~~~~ilL~G~pGtGKTtla~ 82 (327)
T TIGR01650 59 AGFAYDRRVMVQGYHGTGKSTHIE 82 (327)
T ss_pred HHHhcCCcEEEEeCCCChHHHHHH
Confidence 345567899999999999997753
No 381
>PTZ00301 uridine kinase; Provisional
Probab=81.68 E-value=3.3 Score=33.65 Aligned_cols=15 Identities=27% Similarity=0.304 Sum_probs=12.5
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+.+.|++|||||...
T Consensus 6 IgIaG~SgSGKTTla 20 (210)
T PTZ00301 6 IGISGASGSGKSSLS 20 (210)
T ss_pred EEEECCCcCCHHHHH
Confidence 567899999999765
No 382
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=81.55 E-value=0.96 Score=34.53 Aligned_cols=15 Identities=33% Similarity=0.459 Sum_probs=12.5
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+++.|++|||||...
T Consensus 1 i~l~G~~GsGKSTla 15 (163)
T TIGR01313 1 FVLMGVAGSGKSTIA 15 (163)
T ss_pred CEEECCCCCCHHHHH
Confidence 468899999999664
No 383
>PLN02165 adenylate isopentenyltransferase
Probab=81.53 E-value=1.2 Score=38.86 Aligned_cols=20 Identities=25% Similarity=0.338 Sum_probs=16.6
Q ss_pred CCCEEEEccCCCchHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~ 126 (202)
|.-+++.||||||||.....
T Consensus 43 g~iivIiGPTGSGKStLA~~ 62 (334)
T PLN02165 43 DKVVVIMGATGSGKSRLSVD 62 (334)
T ss_pred CCEEEEECCCCCcHHHHHHH
Confidence 45689999999999988754
No 384
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=81.45 E-value=8 Score=34.20 Aligned_cols=24 Identities=33% Similarity=0.441 Sum_probs=18.4
Q ss_pred CEEEEccCCCchHHHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
++++.|+||+|||.+--.-+-+..
T Consensus 44 n~~iyG~~GTGKT~~~~~v~~~l~ 67 (366)
T COG1474 44 NIIIYGPTGTGKTATVKFVMEELE 67 (366)
T ss_pred cEEEECCCCCCHhHHHHHHHHHHH
Confidence 699999999999988655544433
No 385
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=81.39 E-value=1.6 Score=32.80 Aligned_cols=15 Identities=27% Similarity=0.488 Sum_probs=12.6
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+++.||+|||||...
T Consensus 2 i~i~GpsGsGKstl~ 16 (137)
T cd00071 2 IVLSGPSGVGKSTLL 16 (137)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999744
No 386
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=81.37 E-value=3.6 Score=35.35 Aligned_cols=53 Identities=17% Similarity=0.106 Sum_probs=31.4
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh---cCCCcEEEEEcCCHhh-HHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPTREL-GMQVTKVARV 160 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~---~~~~~~~lil~Pt~~L-a~Q~~~~~~~ 160 (202)
.-+.++|++|+|||...+..+...... +..+..++++.-+-.. ..++.+.+..
T Consensus 103 ~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~ 159 (317)
T PRK04301 103 SITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA 159 (317)
T ss_pred cEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHH
Confidence 347899999999998877666554332 1122367777654432 3344444433
No 387
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=81.36 E-value=6.2 Score=34.57 Aligned_cols=21 Identities=24% Similarity=0.365 Sum_probs=16.6
Q ss_pred CCEEEEccCCCchHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~i 128 (202)
.+++++|++|+|||...-..+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~ 76 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVF 76 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 569999999999997654433
No 388
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.34 E-value=6.9 Score=36.19 Aligned_cols=88 Identities=16% Similarity=0.175 Sum_probs=47.7
Q ss_pred HhHhcCCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 70 RELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 70 ~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
.-|..+.......+.+++..--.-...+.+.+..+.+..-+++.|.||||||.-.-...+........ .+..--|-|-
T Consensus 25 Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~--~v~CTQprrv 102 (699)
T KOG0925|consen 25 NPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLT--GVACTQPRRV 102 (699)
T ss_pred CCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhcc--ceeecCchHH
Confidence 33444455566666555533222233334444455666779999999999997643333332222111 3444457776
Q ss_pred hHHHHHHHHH
Q 028848 150 LGMQVTKVAR 159 (202)
Q Consensus 150 La~Q~~~~~~ 159 (202)
-+.++..+..
T Consensus 103 aamsva~RVa 112 (699)
T KOG0925|consen 103 AAMSVAQRVA 112 (699)
T ss_pred HHHHHHHHHH
Confidence 6666655543
No 389
>PTZ00293 thymidine kinase; Provisional
Probab=81.28 E-value=2.2 Score=34.85 Aligned_cols=38 Identities=16% Similarity=0.233 Sum_probs=27.7
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
|+=-+++||.+||||.-.+..+.....+++ +++++-|.
T Consensus 4 G~i~vi~GpMfSGKTteLLr~i~~y~~ag~---kv~~~kp~ 41 (211)
T PTZ00293 4 GTISVIIGPMFSGKTTELMRLVKRFTYSEK---KCVVIKYS 41 (211)
T ss_pred eEEEEEECCCCChHHHHHHHHHHHHHHcCC---ceEEEEec
Confidence 444678999999999877777766666555 56666663
No 390
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=81.12 E-value=10 Score=34.47 Aligned_cols=34 Identities=21% Similarity=0.258 Sum_probs=24.2
Q ss_pred HHHHcCCCEEEEccCCCchHHHHHHHHHH-HHHhc
Q 028848 102 PVLFSSRDCILHAQTGSGKTLTYLLLIFS-LVNAQ 135 (202)
Q Consensus 102 ~~il~g~~~l~~a~TGsGKT~~~l~~il~-~l~~~ 135 (202)
+.+..+.|++..||+|+|||-.|...-.. .+..+
T Consensus 204 ~fve~~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 204 PLVEPNYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred HHHhcCCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 55567789999999999999777653333 34443
No 391
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=81.10 E-value=1.2 Score=34.53 Aligned_cols=18 Identities=22% Similarity=0.213 Sum_probs=14.8
Q ss_pred CCEEEEccCCCchHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
.-+++.|++|||||...-
T Consensus 2 ~~~~i~G~sGsGKttl~~ 19 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLD 19 (179)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 347899999999998763
No 392
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=80.98 E-value=3.1 Score=32.55 Aligned_cols=18 Identities=33% Similarity=0.462 Sum_probs=15.4
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
++-+++.||+||||+...
T Consensus 2 ~r~ivl~Gpsg~GK~~l~ 19 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLA 19 (183)
T ss_dssp SSEEEEESSTTSSHHHHH
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 567899999999999765
No 393
>PRK06620 hypothetical protein; Validated
Probab=80.92 E-value=1 Score=36.67 Aligned_cols=18 Identities=22% Similarity=0.241 Sum_probs=14.7
Q ss_pred CCEEEEccCCCchHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
..++++||+|+|||-..-
T Consensus 45 ~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 458999999999996543
No 394
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=80.87 E-value=1.2 Score=40.08 Aligned_cols=18 Identities=44% Similarity=0.556 Sum_probs=15.5
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
..++++.||||+|||...
T Consensus 116 ~~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 116 KSNILLIGPTGSGKTLLA 133 (413)
T ss_pred CceEEEECCCCcCHHHHH
Confidence 347999999999999875
No 395
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=80.82 E-value=2.6 Score=41.09 Aligned_cols=39 Identities=21% Similarity=0.245 Sum_probs=23.5
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
+.+++|+||+|||+..-..+.+....+. ++++++=+.+.
T Consensus 438 hT~I~G~tGaGKTvLl~~llaq~~k~~~--~~iv~fDk~~g 476 (796)
T COG3451 438 HTLIIGPTGAGKTVLLSFLLAQALKYGN--PQIVAFDKDNG 476 (796)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHHhcC--CcEEEEcCCCc
Confidence 6899999999999664444444433321 25555544433
No 396
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=80.80 E-value=5.9 Score=34.49 Aligned_cols=29 Identities=24% Similarity=0.108 Sum_probs=21.6
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhc
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~ 135 (202)
|+-+-+.|+++||||...+..+.+....+
T Consensus 53 G~ivEi~G~~ssGKttLaL~~ia~~q~~g 81 (322)
T PF00154_consen 53 GRIVEIYGPESSGKTTLALHAIAEAQKQG 81 (322)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred CceEEEeCCCCCchhhhHHHHHHhhhccc
Confidence 34567899999999988887776654443
No 397
>PRK00300 gmk guanylate kinase; Provisional
Probab=80.78 E-value=1.3 Score=35.18 Aligned_cols=18 Identities=22% Similarity=0.335 Sum_probs=15.4
Q ss_pred cCCCEEEEccCCCchHHH
Q 028848 106 SSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~ 123 (202)
.|.-+++.|++|||||..
T Consensus 4 ~g~~i~i~G~sGsGKstl 21 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTL 21 (205)
T ss_pred CCCEEEEECCCCCCHHHH
Confidence 466789999999999965
No 398
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=80.64 E-value=3.2 Score=33.88 Aligned_cols=23 Identities=17% Similarity=0.212 Sum_probs=15.4
Q ss_pred EEEEccCCCchHHHHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~ 133 (202)
+-+.|++|||||... -.+...+.
T Consensus 2 igI~G~sGSGKTTla-~~L~~~l~ 24 (220)
T cd02025 2 IGIAGSVAVGKSTTA-RVLQALLS 24 (220)
T ss_pred EEeeCCCCCCHHHHH-HHHHHHHh
Confidence 357899999999764 33334443
No 399
>PRK07261 topology modulation protein; Provisional
Probab=80.62 E-value=1.3 Score=34.62 Aligned_cols=18 Identities=22% Similarity=0.196 Sum_probs=14.6
Q ss_pred CEEEEccCCCchHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~ 126 (202)
.+++.|++|||||...-.
T Consensus 2 ri~i~G~~GsGKSTla~~ 19 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARK 19 (171)
T ss_pred EEEEEcCCCCCHHHHHHH
Confidence 478999999999977643
No 400
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=80.57 E-value=1.3 Score=39.91 Aligned_cols=18 Identities=44% Similarity=0.556 Sum_probs=15.5
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
..++++.||||+|||...
T Consensus 108 ~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLA 125 (412)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 357999999999999774
No 401
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=80.32 E-value=1.4 Score=38.21 Aligned_cols=23 Identities=43% Similarity=0.530 Sum_probs=18.1
Q ss_pred HHHHcCCC--EEEEccCCCchHHHH
Q 028848 102 PVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
+.++.|.+ ++.+|.||||||...
T Consensus 67 ~~~~~G~n~~i~ayG~tgSGKT~Tm 91 (341)
T cd01372 67 DGLFEGYNATVLAYGQTGSGKTYTM 91 (341)
T ss_pred HHHhCCCccceeeecCCCCCCcEEe
Confidence 34467765 788999999999774
No 402
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=80.27 E-value=1.3 Score=34.27 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=14.5
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
|+-+++.|++|||||...
T Consensus 1 g~ii~l~G~~GsGKsTl~ 18 (180)
T TIGR03263 1 GLLIVISGPSGVGKSTLV 18 (180)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 345789999999999753
No 403
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=80.05 E-value=26 Score=30.44 Aligned_cols=91 Identities=20% Similarity=0.233 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHH----cCC---CEEEEccCCCchHHHHHHHHHHHHH---------------hcCCCcEEEEE--cCC
Q 028848 92 LPTDIQREALPVLF----SSR---DCILHAQTGSGKTLTYLLLIFSLVN---------------AQRSAVQAVIV--VPT 147 (202)
Q Consensus 92 ~~t~~Q~~~i~~il----~g~---~~l~~a~TGsGKT~~~l~~il~~l~---------------~~~~~~~~lil--~Pt 147 (202)
.+.|.|..++..+. .|+ -++++|+.|.||+.......-..+- .....|-..++ .|+
T Consensus 4 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~ 83 (319)
T PRK08769 4 AFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPN 83 (319)
T ss_pred cccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCC
Confidence 45677877777653 343 3899999999998765433222211 11223445666 675
Q ss_pred Hh--------hHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCchH
Q 028848 148 RE--------LGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLR 187 (202)
Q Consensus 148 ~~--------La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~~ 187 (202)
.+ -+.|+.+....+...+ ...+.+|+.+.....+.
T Consensus 84 ~~~~k~~~~I~idqIR~l~~~~~~~p-----~~g~~kV~iI~~ae~m~ 126 (319)
T PRK08769 84 RTGDKLRTEIVIEQVREISQKLALTP-----QYGIAQVVIVDPADAIN 126 (319)
T ss_pred cccccccccccHHHHHHHHHHHhhCc-----ccCCcEEEEeccHhhhC
Confidence 21 2555554444443322 12357888888777653
No 404
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=80.00 E-value=18 Score=31.82 Aligned_cols=53 Identities=11% Similarity=-0.016 Sum_probs=32.0
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHH---hcCCCcEEEEEcCCHhh-HHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVN---AQRSAVQAVIVVPTREL-GMQVTKVARVL 161 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~---~~~~~~~~lil~Pt~~L-a~Q~~~~~~~l 161 (202)
-+.++|++|+|||...+..++.... .+..+.+++|+.-+-.+ ..++.+....+
T Consensus 128 ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~ 184 (344)
T PLN03187 128 ITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERF 184 (344)
T ss_pred EEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHc
Confidence 3679999999999876655444321 22223488888876532 33444444443
No 405
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=79.93 E-value=4.3 Score=30.92 Aligned_cols=21 Identities=24% Similarity=0.214 Sum_probs=15.3
Q ss_pred EEEEccCCCchHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~ 130 (202)
+.+.|+.|+|||.........
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~ 22 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITA 22 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHH
Confidence 567899999999765544433
No 406
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=79.90 E-value=2.3 Score=36.64 Aligned_cols=23 Identities=30% Similarity=0.446 Sum_probs=19.7
Q ss_pred HHHHcCCCEEEEccCCCchHHHH
Q 028848 102 PVLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~il~g~~~l~~a~TGsGKT~~~ 124 (202)
-.++.|..+++.|++|.|||...
T Consensus 38 ~a~~~~~~vll~G~PG~gKT~la 60 (329)
T COG0714 38 LALLAGGHVLLEGPPGVGKTLLA 60 (329)
T ss_pred HHHHcCCCEEEECCCCccHHHHH
Confidence 35678899999999999999764
No 407
>PRK08118 topology modulation protein; Reviewed
Probab=79.82 E-value=1.3 Score=34.45 Aligned_cols=16 Identities=38% Similarity=0.420 Sum_probs=13.6
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
.+++.|++|||||...
T Consensus 3 rI~I~G~~GsGKSTla 18 (167)
T PRK08118 3 KIILIGSGGSGKSTLA 18 (167)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4789999999999753
No 408
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=79.69 E-value=4.3 Score=36.86 Aligned_cols=42 Identities=17% Similarity=0.149 Sum_probs=25.1
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q 153 (202)
..++++|++|+|||-. +.++.+.+... +.+++++.. ..+..+
T Consensus 142 npl~L~G~~G~GKTHL-l~Ai~~~l~~~--~~~v~yi~~-~~f~~~ 183 (445)
T PRK12422 142 NPIYLFGPEGSGKTHL-MQAAVHALRES--GGKILYVRS-ELFTEH 183 (445)
T ss_pred ceEEEEcCCCCCHHHH-HHHHHHHHHHc--CCCEEEeeH-HHHHHH
Confidence 3589999999999954 34555444332 236666643 334433
No 409
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=79.69 E-value=1.5 Score=38.31 Aligned_cols=23 Identities=30% Similarity=0.371 Sum_probs=17.4
Q ss_pred HHHHcCCC--EEEEccCCCchHHHH
Q 028848 102 PVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
+.++.|.+ ++.+|.||||||...
T Consensus 75 ~~~~~G~n~~i~ayG~tgSGKTyTl 99 (352)
T cd01364 75 DEVLMGYNCTIFAYGQTGTGKTYTM 99 (352)
T ss_pred HHHhCCCeEEEEECCCCCCCCcEEe
Confidence 34567766 788999999999553
No 410
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=79.63 E-value=1.5 Score=38.04 Aligned_cols=23 Identities=30% Similarity=0.465 Sum_probs=17.3
Q ss_pred HHHHHcCCC--EEEEccCCCchHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
++.++.|.+ ++.+|.||||||..
T Consensus 74 v~~~~~G~n~~i~ayG~tgSGKTyT 98 (333)
T cd01371 74 VDSVLEGYNGTIFAYGQTGTGKTFT 98 (333)
T ss_pred HHHHhCCCceeEEecCCCCCCCcEe
Confidence 344567765 78899999999933
No 411
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=79.48 E-value=1.4 Score=37.95 Aligned_cols=19 Identities=32% Similarity=0.300 Sum_probs=15.6
Q ss_pred CEEEEccCCCchHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~ 127 (202)
-+++.||||||||......
T Consensus 6 ~i~i~GptgsGKt~la~~l 24 (307)
T PRK00091 6 VIVIVGPTASGKTALAIEL 24 (307)
T ss_pred EEEEECCCCcCHHHHHHHH
Confidence 4789999999999876543
No 412
>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]
Probab=79.42 E-value=1.3 Score=41.51 Aligned_cols=21 Identities=24% Similarity=0.406 Sum_probs=18.0
Q ss_pred HHcCCCEEEEccCCCchHHHH
Q 028848 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 il~g~~~l~~a~TGsGKT~~~ 124 (202)
+-+|.+++++|++|+|||..+
T Consensus 458 V~~g~~LLItG~sG~GKtSLl 478 (659)
T KOG0060|consen 458 VPSGQNLLITGPSGCGKTSLL 478 (659)
T ss_pred ecCCCeEEEECCCCCchhHHH
Confidence 357889999999999999655
No 413
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=79.29 E-value=2 Score=36.96 Aligned_cols=24 Identities=33% Similarity=0.414 Sum_probs=18.1
Q ss_pred HHHHHHcCCC--EEEEccCCCchHHH
Q 028848 100 ALPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 100 ~i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
.+..++.|.+ ++.+|+||||||..
T Consensus 70 ~v~~~~~G~~~~i~~yG~tgSGKT~t 95 (328)
T cd00106 70 LVESVLEGYNGTIFAYGQTGSGKTYT 95 (328)
T ss_pred HHHHHhCCCceeEEEecCCCCCCeEE
Confidence 3445567766 78899999999953
No 414
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=79.29 E-value=5.7 Score=26.46 Aligned_cols=21 Identities=24% Similarity=0.245 Sum_probs=14.6
Q ss_pred EEEEccCCCchHHHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~ 130 (202)
+++.|..|+|||..-......
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~ 22 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAA 22 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 456788899999775544433
No 415
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=79.27 E-value=3.5 Score=37.29 Aligned_cols=22 Identities=32% Similarity=0.308 Sum_probs=17.5
Q ss_pred CEEEEccCCCchHHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~ 130 (202)
-+++.|++|+|||.+..-.+..
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~ 122 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYY 122 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 3788999999999887665544
No 416
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=79.27 E-value=4.7 Score=31.05 Aligned_cols=18 Identities=28% Similarity=0.158 Sum_probs=13.5
Q ss_pred EEEEccCCCchHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~ 127 (202)
+.+.|++|||||......
T Consensus 2 i~i~G~~gsGKTtl~~~l 19 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERL 19 (155)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 457899999999764333
No 417
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=79.09 E-value=5.8 Score=35.41 Aligned_cols=37 Identities=14% Similarity=0.118 Sum_probs=25.8
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHH-HhcCCCcEEEEEcCC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLV-NAQRSAVQAVIVVPT 147 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l-~~~~~~~~~lil~Pt 147 (202)
.-+++.|++|+|||...+..+.+.. ..+. .+++++.+
T Consensus 195 ~liviag~pg~GKT~~al~ia~~~a~~~g~---~v~~fSlE 232 (421)
T TIGR03600 195 DLIVIGARPSMGKTTLALNIAENVALREGK---PVLFFSLE 232 (421)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHhCCC---cEEEEECC
Confidence 4478899999999977666655543 3333 67787755
No 418
>KOG0242 consensus Kinesin-like protein [Cytoskeleton]
Probab=79.00 E-value=1.5 Score=41.88 Aligned_cols=23 Identities=39% Similarity=0.450 Sum_probs=17.9
Q ss_pred HHHHHcCCC--EEEEccCCCchHHH
Q 028848 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~il~g~~--~l~~a~TGsGKT~~ 123 (202)
+..++.|.+ ++.+|.||||||..
T Consensus 79 v~~~l~G~N~TVFAYG~TgSGKTyT 103 (675)
T KOG0242|consen 79 LLSVLEGFNATVFAYGQTGSGKTYT 103 (675)
T ss_pred HHHHhcCcccceeeecCCCCCCceE
Confidence 344577765 89999999999864
No 419
>PRK08506 replicative DNA helicase; Provisional
Probab=78.98 E-value=5.6 Score=36.34 Aligned_cols=47 Identities=17% Similarity=0.130 Sum_probs=31.0
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.-+++.|.||.|||...+-.+.+....+. .+++++.+-. ..|+..++
T Consensus 193 ~LivIaarpg~GKT~fal~ia~~~~~~g~---~V~~fSlEMs-~~ql~~Rl 239 (472)
T PRK08506 193 DLIIIAARPSMGKTTLCLNMALKALNQDK---GVAFFSLEMP-AEQLMLRM 239 (472)
T ss_pred ceEEEEcCCCCChHHHHHHHHHHHHhcCC---cEEEEeCcCC-HHHHHHHH
Confidence 34788999999999877766666554433 6777776532 34444443
No 420
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=78.94 E-value=4.3 Score=31.74 Aligned_cols=43 Identities=28% Similarity=0.429 Sum_probs=29.4
Q ss_pred HHHHHHhCCCC-----CCCHHHHHHHHHHHcCCCEEEEccCCCchHHH
Q 028848 81 VLRRMDETGYV-----LPTDIQREALPVLFSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 81 l~~~l~~~g~~-----~~t~~Q~~~i~~il~g~~~l~~a~TGsGKT~~ 123 (202)
+++...+.||. .-+...-..+...+.++-+++.|++|.||+..
T Consensus 4 ~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSSL 51 (161)
T PF03193_consen 4 LLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSSL 51 (161)
T ss_dssp HHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHHH
T ss_pred HHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 34455555654 12344455566678888999999999999855
No 421
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=78.85 E-value=2.2 Score=36.86 Aligned_cols=25 Identities=32% Similarity=0.392 Sum_probs=18.6
Q ss_pred HHHHHHcCCC--EEEEccCCCchHHHH
Q 028848 100 ALPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 100 ~i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
.+..++.|.+ ++.+|+||||||...
T Consensus 71 ~v~~~~~G~~~~i~~yG~tgSGKT~tl 97 (335)
T smart00129 71 LVDSVLEGYNATIFAYGQTGSGKTYTM 97 (335)
T ss_pred HHHHHhcCCceeEEEeCCCCCCCceEe
Confidence 3445567766 678999999999553
No 422
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=78.79 E-value=1.7 Score=31.90 Aligned_cols=19 Identities=21% Similarity=0.277 Sum_probs=16.0
Q ss_pred cCCCEEEEccCCCchHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
.|.-+.+.|++|||||..+
T Consensus 10 ~g~~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLL 28 (137)
T ss_dssp TTSEEEEEESTTSSHHHHH
T ss_pred CCCEEEEEccCCCccccce
Confidence 4667899999999999655
No 423
>PRK05541 adenylylsulfate kinase; Provisional
Probab=78.72 E-value=4.7 Score=31.17 Aligned_cols=19 Identities=26% Similarity=0.225 Sum_probs=16.0
Q ss_pred cCCCEEEEccCCCchHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
.|.-+++.|++|||||...
T Consensus 6 ~~~~I~i~G~~GsGKst~a 24 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIA 24 (176)
T ss_pred CCCEEEEEcCCCCCHHHHH
Confidence 4567899999999999765
No 424
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=78.70 E-value=8.1 Score=31.57 Aligned_cols=56 Identities=14% Similarity=0.176 Sum_probs=34.9
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHh---------cCCCcEEEEEcCCHhhHHHHHHHHHHHhcCC
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNA---------QRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~---------~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~ 165 (202)
-.++.|+.|+|||...+...+....- .....+++|+.-+-. ..++.+++..++...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i~~~~ 67 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAILQHL 67 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHHHhhc
Confidence 35789999999998876665543310 012347888885533 235666666666543
No 425
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=78.54 E-value=4.4 Score=31.81 Aligned_cols=15 Identities=33% Similarity=0.328 Sum_probs=12.6
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+.+.|++|||||...
T Consensus 2 i~i~G~sgsGKttla 16 (179)
T cd02028 2 VGIAGPSGSGKTTFA 16 (179)
T ss_pred EEEECCCCCCHHHHH
Confidence 568999999999764
No 426
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=78.28 E-value=1.6 Score=38.86 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=14.8
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+.++++||+|+|||...
T Consensus 166 ~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CceEEECCCCCChHHHH
Confidence 56999999999999763
No 427
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=78.26 E-value=1.3 Score=36.55 Aligned_cols=19 Identities=21% Similarity=0.226 Sum_probs=15.9
Q ss_pred HcCCCEEEEccCCCchHHH
Q 028848 105 FSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~ 123 (202)
..|.-+.+.||+|||||..
T Consensus 29 ~~Ge~vaI~GpSGSGKSTL 47 (226)
T COG1136 29 EAGEFVAIVGPSGSGKSTL 47 (226)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 4577789999999999864
No 428
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=78.24 E-value=2.4 Score=33.70 Aligned_cols=27 Identities=22% Similarity=0.405 Sum_probs=16.1
Q ss_pred EEEEccCCCchHHHHHHH-HHHHHHhcC
Q 028848 110 CILHAQTGSGKTLTYLLL-IFSLVNAQR 136 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~-il~~l~~~~ 136 (202)
.+++|.+|||||...+.- ++..+.+++
T Consensus 3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr 30 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSYVIIPALKKGR 30 (193)
T ss_dssp EEEE--TTSSHHHHHHHHHHH-GGGS--
T ss_pred EEEEcCCCCcHhHHHHHHHHHHHHhCCC
Confidence 478999999999776666 555555443
No 429
>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=78.18 E-value=5.2 Score=31.17 Aligned_cols=31 Identities=19% Similarity=0.176 Sum_probs=24.8
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEE
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI 143 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~li 143 (202)
+.++..+|.|||.+.+--.+..+..+. ++++
T Consensus 5 i~vy~g~G~Gkt~~a~g~~~ra~~~g~---~v~~ 35 (159)
T cd00561 5 IQVYTGNGKGKTTAALGLALRALGHGY---RVGV 35 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC---eEEE
Confidence 567888899999999888888777665 6655
No 430
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=78.16 E-value=1.8 Score=38.75 Aligned_cols=23 Identities=30% Similarity=0.622 Sum_probs=17.8
Q ss_pred HHHHcC-----CCEEEEccCCCchHHHH
Q 028848 102 PVLFSS-----RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~il~g-----~~~l~~a~TGsGKT~~~ 124 (202)
|.+..| +.+|+.||+|+|||+..
T Consensus 235 Pe~F~GirrPWkgvLm~GPPGTGKTlLA 262 (491)
T KOG0738|consen 235 PEFFKGIRRPWKGVLMVGPPGTGKTLLA 262 (491)
T ss_pred HHHHhhcccccceeeeeCCCCCcHHHHH
Confidence 444555 46999999999999764
No 431
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=78.09 E-value=1.6 Score=37.46 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=15.3
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+.++++||+|+|||++.
T Consensus 212 kgvllygppgtgktl~a 228 (435)
T KOG0729|consen 212 KGVLLYGPPGTGKTLCA 228 (435)
T ss_pred CceEEeCCCCCchhHHH
Confidence 46999999999999886
No 432
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=78.01 E-value=1.4 Score=39.47 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=28.5
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.|+.+|+.|.+|+|||+.. +-++..+.... -+++++ ||.-..-+++.+
T Consensus 9 ~G~TLLIKG~PGTGKTtfa-LelL~~l~~~~---~v~YIS-TRVd~d~vy~~y 56 (484)
T PF07088_consen 9 PGQTLLIKGEPGTGKTTFA-LELLNSLKDHG---NVMYIS-TRVDQDTVYEMY 56 (484)
T ss_pred CCcEEEEecCCCCCceeee-hhhHHHHhccC---CeEEEE-eccCHHHHHHhh
Confidence 4678999999999999544 44455554433 345554 333333334333
No 433
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=77.81 E-value=5.5 Score=29.14 Aligned_cols=33 Identities=21% Similarity=0.240 Sum_probs=20.6
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEc
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~ 145 (202)
+++.|..|+|||............+++ +++++-
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~---~V~~id 34 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK---PVLAID 34 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC---cEEEEE
Confidence 678999999999875544433333333 454443
No 434
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=77.76 E-value=1.5 Score=43.30 Aligned_cols=18 Identities=17% Similarity=0.204 Sum_probs=14.8
Q ss_pred CEEEEccCCCchHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~ 126 (202)
-++++|+||||||..+-.
T Consensus 27 i~lI~G~nGsGKSSIldA 44 (908)
T COG0419 27 IFLIVGPNGAGKSSILDA 44 (908)
T ss_pred eEEEECCCCCcHHHHHHH
Confidence 478999999999987533
No 435
>PRK06762 hypothetical protein; Provisional
Probab=77.74 E-value=1.8 Score=33.09 Aligned_cols=16 Identities=38% Similarity=0.459 Sum_probs=13.5
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-++++|++|||||...
T Consensus 4 li~i~G~~GsGKST~A 19 (166)
T PRK06762 4 LIIIRGNSGSGKTTIA 19 (166)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3688999999999765
No 436
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=77.54 E-value=2.1 Score=36.92 Aligned_cols=25 Identities=32% Similarity=0.363 Sum_probs=19.3
Q ss_pred HHHHHHcCCC--EEEEccCCCchHHHH
Q 028848 100 ALPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 100 ~i~~il~g~~--~l~~a~TGsGKT~~~ 124 (202)
.+..++.|.+ ++.+|+||||||...
T Consensus 69 ~v~~~~~G~~~~i~ayG~tgSGKT~tl 95 (329)
T cd01366 69 LVQSALDGYNVCIFAYGQTGSGKTYTM 95 (329)
T ss_pred HHHHHhCCCceEEEEeCCCCCCCcEEe
Confidence 4455667876 788999999998755
No 437
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=77.45 E-value=1.7 Score=39.33 Aligned_cols=18 Identities=39% Similarity=0.562 Sum_probs=15.5
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.+.++++||+|+|||...
T Consensus 217 p~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLA 234 (438)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 457999999999999775
No 438
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=77.35 E-value=7.4 Score=34.82 Aligned_cols=38 Identities=18% Similarity=0.045 Sum_probs=26.0
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTR 148 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~ 148 (202)
.-+++.|++|+|||...+-.+.+.... +. .+++++.+-
T Consensus 196 ~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~---~vl~~SlEm 234 (434)
T TIGR00665 196 DLIILAARPSMGKTAFALNIAENAAIKEGK---PVAFFSLEM 234 (434)
T ss_pred eEEEEEeCCCCChHHHHHHHHHHHHHhCCC---eEEEEeCcC
Confidence 347889999999997766555554432 33 677777553
No 439
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=77.18 E-value=5.5 Score=32.03 Aligned_cols=31 Identities=19% Similarity=0.278 Sum_probs=25.6
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhcC
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~ 136 (202)
..-.+++++.+|.|||.+.+--.+..+..+.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~ 51 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK 51 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC
Confidence 3457999999999999999888888776655
No 440
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=77.13 E-value=2.7 Score=38.44 Aligned_cols=20 Identities=25% Similarity=0.413 Sum_probs=17.1
Q ss_pred HcCCCEEEEccCCCchHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~ 124 (202)
..|.++++.||+|||||...
T Consensus 196 AGgHnLl~~GpPGtGKTmla 215 (490)
T COG0606 196 AGGHNLLLVGPPGTGKTMLA 215 (490)
T ss_pred hcCCcEEEecCCCCchHHhh
Confidence 46789999999999999654
No 441
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=77.06 E-value=4.4 Score=40.03 Aligned_cols=40 Identities=20% Similarity=0.310 Sum_probs=28.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
.+.++.|+||||||...-..+.+.+... +.+++|+=|.++
T Consensus 476 ~n~~I~G~TGSGKS~l~~~li~q~~~~~--~~~v~IiD~g~s 515 (893)
T TIGR03744 476 AHLLILGPTGAGKSATLTNLLMQVMAVH--RPRLFIVEAGNS 515 (893)
T ss_pred ccEEEECCCCCCHHHHHHHHHHHHHHhc--CCEEEEEcCCCC
Confidence 4689999999999977655555555432 237888778776
No 442
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=77.03 E-value=13 Score=31.26 Aligned_cols=76 Identities=20% Similarity=0.221 Sum_probs=41.7
Q ss_pred CC-EEEEccCCCchHHHHHHHHHHHHHhc------------------CCCcEEEEEcCCHh-----hHHHHHHHHHHHhc
Q 028848 108 RD-CILHAQTGSGKTLTYLLLIFSLVNAQ------------------RSAVQAVIVVPTRE-----LGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~-~l~~a~TGsGKT~~~l~~il~~l~~~------------------~~~~~~lil~Pt~~-----La~Q~~~~~~~l~~ 163 (202)
.. ++++||.|+|||.+.....-...-.. +..+.++.+-|.-. ...++.+.......
T Consensus 24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~ 103 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSE 103 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhcc
Confidence 45 99999999999988655443332111 12345677766522 23333333333333
Q ss_pred CCCCCCCCCCCceEEEEecCCchHH
Q 028848 164 KPSDTDLEHKPCTVMALLDGGMLRR 188 (202)
Q Consensus 164 ~~~~~~~~~~~~~v~~~~gg~~~~~ 188 (202)
.. ...+.+++.+..-+.+..
T Consensus 104 ~~-----~~~~~kviiidead~mt~ 123 (325)
T COG0470 104 SP-----LEGGYKVVIIDEADKLTE 123 (325)
T ss_pred CC-----CCCCceEEEeCcHHHHhH
Confidence 32 123577777776666544
No 443
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=76.99 E-value=1.9 Score=33.45 Aligned_cols=15 Identities=27% Similarity=0.465 Sum_probs=13.2
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
.+++|++|+|||..+
T Consensus 22 ~vi~G~Ng~GKStil 36 (202)
T PF13476_consen 22 NVIYGPNGSGKSTIL 36 (202)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 678999999999775
No 444
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=76.98 E-value=2.9 Score=38.48 Aligned_cols=32 Identities=28% Similarity=0.276 Sum_probs=24.1
Q ss_pred CHHHHHHHHHH-------HcCCCEEEEccCCCchHHHHH
Q 028848 94 TDIQREALPVL-------FSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 94 t~~Q~~~i~~i-------l~g~~~l~~a~TGsGKT~~~l 125 (202)
+++|......+ ..|.-+.++|+.|||||...-
T Consensus 12 r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLLr 50 (504)
T TIGR03238 12 RKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEILA 50 (504)
T ss_pred hHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHHh
Confidence 67887765554 345679999999999997654
No 445
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=76.85 E-value=2.7 Score=32.89 Aligned_cols=19 Identities=32% Similarity=0.494 Sum_probs=14.9
Q ss_pred cCCCEEEEccCCCchHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
....++++|.+|+||+.+.
T Consensus 21 ~~~pVlI~GE~GtGK~~lA 39 (168)
T PF00158_consen 21 SDLPVLITGETGTGKELLA 39 (168)
T ss_dssp STS-EEEECSTTSSHHHHH
T ss_pred CCCCEEEEcCCCCcHHHHH
Confidence 3467999999999998664
No 446
>PRK14737 gmk guanylate kinase; Provisional
Probab=76.71 E-value=1.9 Score=34.33 Aligned_cols=18 Identities=22% Similarity=0.386 Sum_probs=15.1
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
++-++++||+|+|||.+.
T Consensus 4 ~~~ivl~GpsG~GK~tl~ 21 (186)
T PRK14737 4 PKLFIISSVAGGGKSTII 21 (186)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 456899999999999774
No 447
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=76.69 E-value=1.9 Score=38.52 Aligned_cols=18 Identities=33% Similarity=0.554 Sum_probs=15.7
Q ss_pred CCCEEEEccCCCchHHHH
Q 028848 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.+.++++||+|+|||...
T Consensus 179 pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 467999999999999864
No 448
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=76.48 E-value=1.9 Score=33.45 Aligned_cols=15 Identities=27% Similarity=0.361 Sum_probs=13.0
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+++.|++|||||...
T Consensus 2 i~i~G~pGsGKst~a 16 (183)
T TIGR01359 2 VFVLGGPGSGKGTQC 16 (183)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999764
No 449
>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=76.44 E-value=4.1 Score=32.18 Aligned_cols=36 Identities=17% Similarity=0.181 Sum_probs=26.2
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~ 148 (202)
.++.||.+||||.-.+.-+......++ +++++-|..
T Consensus 4 ~~i~GpM~sGKS~eLi~~~~~~~~~~~---~v~~~kp~~ 39 (176)
T PF00265_consen 4 EFITGPMFSGKSTELIRRIHRYEIAGK---KVLVFKPAI 39 (176)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEEEST
T ss_pred EEEECCcCChhHHHHHHHHHHHHhCCC---eEEEEEecc
Confidence 478899999999877766655555555 778877754
No 450
>PRK05748 replicative DNA helicase; Provisional
Probab=76.44 E-value=7.8 Score=35.01 Aligned_cols=47 Identities=15% Similarity=0.088 Sum_probs=29.9
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~ 158 (202)
.-+++.|.||.|||...+-.+.+.... +. .+++++.+-. ..|+..++
T Consensus 204 ~livIaarpg~GKT~~al~ia~~~a~~~g~---~v~~fSlEms-~~~l~~R~ 251 (448)
T PRK05748 204 DLIIVAARPSVGKTAFALNIAQNVATKTDK---NVAIFSLEMG-AESLVMRM 251 (448)
T ss_pred ceEEEEeCCCCCchHHHHHHHHHHHHhCCC---eEEEEeCCCC-HHHHHHHH
Confidence 347889999999997766655554322 33 6777765543 33554444
No 451
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=76.42 E-value=2.1 Score=32.12 Aligned_cols=16 Identities=25% Similarity=0.328 Sum_probs=13.4
Q ss_pred EEEEccCCCchHHHHH
Q 028848 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|||||...-
T Consensus 2 i~l~G~~GsGKST~a~ 17 (150)
T cd02021 2 IVVMGVSGSGKSTVGK 17 (150)
T ss_pred EEEEcCCCCCHHHHHH
Confidence 5789999999997753
No 452
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=76.39 E-value=2.2 Score=27.97 Aligned_cols=15 Identities=27% Similarity=0.406 Sum_probs=12.4
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+.+.|+.|||||...
T Consensus 2 i~i~G~~gsGKst~~ 16 (69)
T cd02019 2 IAITGGSGSGKSTVA 16 (69)
T ss_pred EEEECCCCCCHHHHH
Confidence 567899999998664
No 453
>PRK13909 putative recombination protein RecB; Provisional
Probab=76.34 E-value=6.4 Score=38.99 Aligned_cols=52 Identities=17% Similarity=0.198 Sum_probs=39.8
Q ss_pred EEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHh
Q 028848 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~ 162 (202)
++.|.-|||||.+...-.+..+..+...-+.|.+.=|+.=+..+.+++....
T Consensus 2 ~~~AsAGsGKT~~L~~~yl~ll~~~~~~~~IlavTFT~kAa~Emk~Ri~~~L 53 (910)
T PRK13909 2 ALKASAGSGKTFALSVRFLALLFKGANPSEILALTFTKKAANEMKERIIDTL 53 (910)
T ss_pred ceecCCCCchhHHHHHHHHHHHhcCCCcceEEEEeehHHHHHHHHHHHHHHH
Confidence 4678999999999888777777766554588888888887777776665433
No 454
>PRK06547 hypothetical protein; Provisional
Probab=76.26 E-value=2.1 Score=33.63 Aligned_cols=16 Identities=31% Similarity=0.538 Sum_probs=13.1
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-+++.|++|||||...
T Consensus 17 ~i~i~G~~GsGKTt~a 32 (172)
T PRK06547 17 TVLIDGRSGSGKTTLA 32 (172)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3677799999999775
No 455
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=76.23 E-value=1.9 Score=35.69 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=15.5
Q ss_pred HcCCCEEEEccCCCchHHH
Q 028848 105 FSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~ 123 (202)
..|.-+.++||.|||||..
T Consensus 26 ~~Gevv~iiGpSGSGKSTl 44 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTL 44 (240)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 3566789999999999854
No 456
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=76.22 E-value=6.1 Score=29.88 Aligned_cols=25 Identities=28% Similarity=0.171 Sum_probs=16.8
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHh
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~ 134 (202)
+.++|+.+||||...-..+-....+
T Consensus 3 v~VvG~~~sGKTTl~~~Li~~l~~~ 27 (140)
T PF03205_consen 3 VQVVGPKNSGKTTLIRKLINELKRR 27 (140)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHHHHHhHc
Confidence 6789999999997654443333333
No 457
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=76.20 E-value=1.9 Score=37.71 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=14.7
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+.++++||+|+|||...
T Consensus 157 ~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLA 173 (364)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 56999999999999664
No 458
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=76.04 E-value=2.7 Score=39.02 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=23.3
Q ss_pred CCCHHHHHHHH--------HHHcCCC--EEEEccCCCchHHH
Q 028848 92 LPTDIQREALP--------VLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 92 ~~t~~Q~~~i~--------~il~g~~--~l~~a~TGsGKT~~ 123 (202)
.|+.-|.++.. .++.|.+ ++.+|+||||||-.
T Consensus 58 ~pnatQe~Vy~~~a~~Iv~dVL~GYNGTvfaYGqT~sGKTyt 99 (607)
T KOG0240|consen 58 SPNATQEDVYEFAAKPIVDDVLLGYNGTVFAYGQTGSGKTYT 99 (607)
T ss_pred CCCccHHHHHHHHHHHHHHHHhcccceeEEEecCCCCCccee
Confidence 56777776643 2467765 88899999999854
No 459
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=75.94 E-value=3.7 Score=33.98 Aligned_cols=32 Identities=25% Similarity=0.283 Sum_probs=19.8
Q ss_pred EEccCCCchHHHHHHHHHHHHHhcCCCcEEEEE
Q 028848 112 LHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIV 144 (202)
Q Consensus 112 ~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil 144 (202)
+.||.||||| .|+..+-+.+...+..+..+=|
T Consensus 1 ViGpaGSGKT-T~~~~~~~~~~~~~~~~~~vNL 32 (238)
T PF03029_consen 1 VIGPAGSGKT-TFCKGLSEWLESNGRDVYIVNL 32 (238)
T ss_dssp -EESTTSSHH-HHHHHHHHHHTTT-S-EEEEE-
T ss_pred CCCCCCCCHH-HHHHHHHHHHHhccCCceEEEc
Confidence 4699999998 6777777777655433333333
No 460
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=75.82 E-value=2.2 Score=31.45 Aligned_cols=16 Identities=25% Similarity=0.349 Sum_probs=13.3
Q ss_pred EEEEccCCCchHHHHH
Q 028848 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|||||...-
T Consensus 2 I~i~G~~GsGKst~a~ 17 (147)
T cd02020 2 IAIDGPAGSGKSTVAK 17 (147)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5789999999998753
No 461
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=75.81 E-value=1.8 Score=36.98 Aligned_cols=17 Identities=24% Similarity=0.555 Sum_probs=15.0
Q ss_pred CCEEEEccCCCchHHHH
Q 028848 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+++|.+||+|+|||...
T Consensus 152 knVLFyGppGTGKTm~A 168 (368)
T COG1223 152 KNVLFYGPPGTGKTMMA 168 (368)
T ss_pred ceeEEECCCCccHHHHH
Confidence 68999999999999654
No 462
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=75.65 E-value=4 Score=34.85 Aligned_cols=40 Identities=20% Similarity=0.091 Sum_probs=25.2
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHh---cCCCcEEEEEcCC
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPT 147 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~---~~~~~~~lil~Pt 147 (202)
.-+.++|++|+|||...+..+.+.... +..+..++++.-+
T Consensus 96 ~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te 138 (310)
T TIGR02236 96 AITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTE 138 (310)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECC
Confidence 347899999999998876665553321 1111267777644
No 463
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=75.34 E-value=2.2 Score=32.97 Aligned_cols=16 Identities=25% Similarity=0.256 Sum_probs=13.7
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-+++.|++|||||...
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4788999999999875
No 464
>PLN03025 replication factor C subunit; Provisional
Probab=75.28 E-value=7.3 Score=33.43 Aligned_cols=19 Identities=37% Similarity=0.539 Sum_probs=15.4
Q ss_pred CCEEEEccCCCchHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~ 126 (202)
.+++++||+|+|||.....
T Consensus 35 ~~lll~Gp~G~GKTtla~~ 53 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILA 53 (319)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3689999999999966543
No 465
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=75.26 E-value=2.2 Score=33.26 Aligned_cols=15 Identities=33% Similarity=0.406 Sum_probs=13.2
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+++.|++|||||...
T Consensus 2 I~i~G~pGsGKst~a 16 (194)
T cd01428 2 ILLLGPPGSGKGTQA 16 (194)
T ss_pred EEEECCCCCCHHHHH
Confidence 789999999999664
No 466
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=75.23 E-value=2.2 Score=31.09 Aligned_cols=21 Identities=24% Similarity=0.300 Sum_probs=16.9
Q ss_pred cCCCEEEEccCCCchHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.|.-+.+.|++|||||....+
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~~ 34 (107)
T cd00820 14 GKVGVLITGDSGIGKTELALE 34 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHHH
Confidence 345689999999999987655
No 467
>PRK14531 adenylate kinase; Provisional
Probab=75.15 E-value=2.1 Score=33.59 Aligned_cols=17 Identities=18% Similarity=0.260 Sum_probs=14.5
Q ss_pred CEEEEccCCCchHHHHH
Q 028848 109 DCILHAQTGSGKTLTYL 125 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l 125 (202)
.+++.|++|||||...-
T Consensus 4 ~i~i~G~pGsGKsT~~~ 20 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAA 20 (183)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 58999999999998743
No 468
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=75.14 E-value=34 Score=28.74 Aligned_cols=65 Identities=17% Similarity=0.323 Sum_probs=34.9
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHHHHHHHHHHHhcCCCCCCCCCCCceEEEEecCCch
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGML 186 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~Q~~~~~~~l~~~~~~~~~~~~~~~v~~~~gg~~~ 186 (202)
.++|++|..|+||+.. +-+++......+ .+ ||=++.-.| .++.+.+..+... +.+.+.++.+=++
T Consensus 53 nnvLL~G~rGtGKSSl-Vkall~~y~~~G--LR-lIev~k~~L-~~l~~l~~~l~~~---------~~kFIlf~DDLsF 117 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSL-VKALLNEYADQG--LR-LIEVSKEDL-GDLPELLDLLRDR---------PYKFILFCDDLSF 117 (249)
T ss_pred cceEEecCCCCCHHHH-HHHHHHHHhhcC--ce-EEEECHHHh-ccHHHHHHHHhcC---------CCCEEEEecCCCC
Confidence 5899999999999744 444555443322 34 444444333 2233333333322 3555666655444
No 469
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=75.09 E-value=7.7 Score=37.73 Aligned_cols=56 Identities=21% Similarity=0.174 Sum_probs=37.5
Q ss_pred CEEEEccCCCchHHHHHHHHHHHH--------------------H-------------hc-------CCCcEEEEEcCCH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLV--------------------N-------------AQ-------RSAVQAVIVVPTR 148 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l--------------------~-------------~~-------~~~~~~lil~Pt~ 148 (202)
.++..||||.|||+..-....... . .+ +..|.++||.=++
T Consensus 523 sFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEI 602 (786)
T COG0542 523 SFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEI 602 (786)
T ss_pred EEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechh
Confidence 489999999999988543322111 0 00 1357899999999
Q ss_pred hhHH-HHHHHHHHHhcC
Q 028848 149 ELGM-QVTKVARVLAAK 164 (202)
Q Consensus 149 ~La~-Q~~~~~~~l~~~ 164 (202)
|-|+ ++.+.|-+..+.
T Consensus 603 EKAHpdV~nilLQVlDd 619 (786)
T COG0542 603 EKAHPDVFNLLLQVLDD 619 (786)
T ss_pred hhcCHHHHHHHHHHhcC
Confidence 9987 666666655543
No 470
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=74.99 E-value=2.3 Score=31.73 Aligned_cols=17 Identities=29% Similarity=0.343 Sum_probs=14.2
Q ss_pred CEEEEccCCCchHHHHH
Q 028848 109 DCILHAQTGSGKTLTYL 125 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l 125 (202)
+++++|++|||||...-
T Consensus 1 ~i~l~G~~GsGKstla~ 17 (154)
T cd00464 1 NIVLIGMMGAGKTTVGR 17 (154)
T ss_pred CEEEEcCCCCCHHHHHH
Confidence 47899999999997753
No 471
>PRK08356 hypothetical protein; Provisional
Probab=74.91 E-value=2.2 Score=33.85 Aligned_cols=16 Identities=19% Similarity=0.071 Sum_probs=13.8
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-++++|++|||||.+.
T Consensus 7 ~i~~~G~~gsGK~t~a 22 (195)
T PRK08356 7 IVGVVGKIAAGKTTVA 22 (195)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4778999999999875
No 472
>PRK06217 hypothetical protein; Validated
Probab=74.91 E-value=2.2 Score=33.44 Aligned_cols=16 Identities=25% Similarity=0.254 Sum_probs=13.7
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
.+++.|.+|||||...
T Consensus 3 ~I~i~G~~GsGKSTla 18 (183)
T PRK06217 3 RIHITGASGSGTTTLG 18 (183)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4789999999999764
No 473
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=74.85 E-value=3.4 Score=35.62 Aligned_cols=19 Identities=26% Similarity=0.298 Sum_probs=15.8
Q ss_pred CCEEEEccCCCchHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~ 126 (202)
..++++||+|+|||.....
T Consensus 52 ~~~ll~GppG~GKT~la~~ 70 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANI 70 (328)
T ss_pred CcEEEECCCCccHHHHHHH
Confidence 4699999999999977543
No 474
>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=74.82 E-value=7.7 Score=39.21 Aligned_cols=54 Identities=20% Similarity=0.267 Sum_probs=40.3
Q ss_pred cCCCEEEEccCCCchHHHHHHHHHHHHHhc-C-CCcEEEEEcCCHhhHHHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-R-SAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~il~~l~~~-~-~~~~~lil~Pt~~La~Q~~~~~~~ 160 (202)
+| ..++.|..|+|||.....-++..+..+ . ..-+.|++.=|+.=+..+.+++++
T Consensus 9 ~G-~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 9 NG-TFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred CC-CEEEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHH
Confidence 45 567899999999998877777777654 2 224789998888777777777665
No 475
>PRK13768 GTPase; Provisional
Probab=74.80 E-value=5.4 Score=33.19 Aligned_cols=19 Identities=32% Similarity=0.277 Sum_probs=14.4
Q ss_pred CEEEEccCCCchHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~ 127 (202)
-+++.|+.|+|||......
T Consensus 4 ~i~v~G~~G~GKTt~~~~~ 22 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKAL 22 (253)
T ss_pred EEEEECCCCccHHHHHHHH
Confidence 3678899999999765433
No 476
>PRK00889 adenylylsulfate kinase; Provisional
Probab=74.78 E-value=6.9 Score=30.16 Aligned_cols=21 Identities=19% Similarity=0.177 Sum_probs=16.4
Q ss_pred cCCCEEEEccCCCchHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.|.-+++.|..|||||.+.-.
T Consensus 3 ~g~~i~~~G~~GsGKST~a~~ 23 (175)
T PRK00889 3 RGVTVWFTGLSGAGKTTIARA 23 (175)
T ss_pred CCeEEEEECCCCCCHHHHHHH
Confidence 355688999999999977543
No 477
>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=74.76 E-value=12 Score=31.58 Aligned_cols=42 Identities=19% Similarity=0.256 Sum_probs=24.9
Q ss_pred EEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC-HhhHHH
Q 028848 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT-RELGMQ 153 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt-~~La~Q 153 (202)
++.++.|+|||......++..+........+++. ++ ..+...
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~~ 43 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARDI 43 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHHH
Confidence 4678899999999887777666544433466666 55 444444
No 478
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=74.65 E-value=2.4 Score=37.67 Aligned_cols=20 Identities=25% Similarity=0.443 Sum_probs=16.6
Q ss_pred HcCCCEEEEccCCCchHHHH
Q 028848 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~ 124 (202)
++|+-+|+.||+|+|||-..
T Consensus 63 ~aGrgiLi~GppgTGKTAlA 82 (450)
T COG1224 63 MAGRGILIVGPPGTGKTALA 82 (450)
T ss_pred ccccEEEEECCCCCcHHHHH
Confidence 45678999999999999543
No 479
>PF13173 AAA_14: AAA domain
Probab=74.61 E-value=5.5 Score=29.20 Aligned_cols=22 Identities=32% Similarity=0.308 Sum_probs=17.1
Q ss_pred CCCEEEEccCCCchHHHHHHHH
Q 028848 107 SRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~i 128 (202)
++-+++.|+.|+|||......+
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~ 23 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLA 23 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 4568999999999997764444
No 480
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=74.54 E-value=2.5 Score=33.24 Aligned_cols=19 Identities=37% Similarity=0.503 Sum_probs=15.9
Q ss_pred cCCCEEEEccCCCchHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
.|.-+++.|++|+|||...
T Consensus 2 ~ge~i~l~G~sGsGKSTl~ 20 (176)
T PRK09825 2 AGESYILMGVSGSGKSLIG 20 (176)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4667899999999999765
No 481
>PRK08760 replicative DNA helicase; Provisional
Probab=74.42 E-value=9.2 Score=35.02 Aligned_cols=47 Identities=17% Similarity=0.027 Sum_probs=30.2
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHh-cCCCcEEEEEcCCHhhHHHHHHHHH
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~-~~~~~~~lil~Pt~~La~Q~~~~~~ 159 (202)
-+++.|.+|.|||...+-.+.+.... +. .+++++.+-. ..|+..++-
T Consensus 231 LivIaarPg~GKTafal~iA~~~a~~~g~---~V~~fSlEMs-~~ql~~Rl~ 278 (476)
T PRK08760 231 LIILAARPAMGKTTFALNIAEYAAIKSKK---GVAVFSMEMS-ASQLAMRLI 278 (476)
T ss_pred eEEEEeCCCCChhHHHHHHHHHHHHhcCC---ceEEEeccCC-HHHHHHHHH
Confidence 47889999999997776665554433 33 6777776644 335555443
No 482
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=74.41 E-value=2.2 Score=33.74 Aligned_cols=15 Identities=33% Similarity=0.324 Sum_probs=12.4
Q ss_pred EEEEccCCCchHHHH
Q 028848 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+-+.|++|||||...
T Consensus 2 IgI~G~sgSGKTTla 16 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLA 16 (194)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 467899999999654
No 483
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=74.38 E-value=7.5 Score=30.75 Aligned_cols=32 Identities=19% Similarity=0.363 Sum_probs=25.0
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEE
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIV 144 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil 144 (202)
+.+++.+|.|||.+.+--.+.....+. +++++
T Consensus 8 i~v~~g~GkGKtt~a~g~a~ra~~~g~---~v~iv 39 (173)
T TIGR00708 8 IIVHTGNGKGKTTAAFGMALRALGHGK---KVGVI 39 (173)
T ss_pred EEEECCCCCChHHHHHHHHHHHHHCCC---eEEEE
Confidence 677888999999999888887776655 55544
No 484
>PRK08233 hypothetical protein; Provisional
Probab=74.20 E-value=2.4 Score=32.66 Aligned_cols=16 Identities=31% Similarity=0.287 Sum_probs=12.9
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-+.+.|++|||||...
T Consensus 5 iI~I~G~~GsGKtTla 20 (182)
T PRK08233 5 IITIAAVSGGGKTTLT 20 (182)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3667899999999654
No 485
>PRK14532 adenylate kinase; Provisional
Probab=74.14 E-value=2.3 Score=33.21 Aligned_cols=16 Identities=25% Similarity=0.331 Sum_probs=13.9
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
++++.|++|||||...
T Consensus 2 ~i~~~G~pGsGKsT~a 17 (188)
T PRK14532 2 NLILFGPPAAGKGTQA 17 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4789999999999765
No 486
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=74.12 E-value=6.4 Score=31.88 Aligned_cols=37 Identities=19% Similarity=0.059 Sum_probs=25.7
Q ss_pred CCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
|+-.+++||..||||+-.+.-+.....++. ++++..|
T Consensus 4 g~l~~i~gpM~SGKT~eLl~r~~~~~~~g~---~v~vfkp 40 (201)
T COG1435 4 GWLEFIYGPMFSGKTEELLRRARRYKEAGM---KVLVFKP 40 (201)
T ss_pred EEEEEEEccCcCcchHHHHHHHHHHHHcCC---eEEEEec
Confidence 344688999999999988777766665554 4444444
No 487
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=74.07 E-value=3.4 Score=35.34 Aligned_cols=19 Identities=21% Similarity=0.253 Sum_probs=15.3
Q ss_pred EEEEccCCCchHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~i 128 (202)
+++.||||||||.......
T Consensus 2 i~i~G~t~~GKs~la~~l~ 20 (287)
T TIGR00174 2 IFIMGPTAVGKSQLAIQLA 20 (287)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5789999999998765543
No 488
>PHA02542 41 41 helicase; Provisional
Probab=74.01 E-value=8.7 Score=35.21 Aligned_cols=45 Identities=16% Similarity=0.113 Sum_probs=30.1
Q ss_pred HHHHHH-cC----CCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCC
Q 028848 100 ALPVLF-SS----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 100 ~i~~il-~g----~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt 147 (202)
.+..++ .| .-+++.|.+|.|||...+-.+.+....++ .+++++-+
T Consensus 178 ~LD~~t~gGl~~G~LiiIaarPgmGKTtfalniA~~~a~~g~---~Vl~fSLE 227 (473)
T PHA02542 178 ILNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAADYLQQGY---NVLYISME 227 (473)
T ss_pred HHHHhccCCCCCCcEEEEEcCCCccHHHHHHHHHHHHHhcCC---cEEEEecc
Confidence 455566 34 23778899999999887766666554443 66777643
No 489
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=73.99 E-value=2.5 Score=37.67 Aligned_cols=39 Identities=18% Similarity=0.206 Sum_probs=21.8
Q ss_pred HcCCCEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcC
Q 028848 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 105 l~g~~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~P 146 (202)
.+|+-+|+.||+|+|||-.. +.+.+.+ +.+-|.+.+-..
T Consensus 48 ~aGr~iLiaGppGtGKTAlA-~~ia~eL--G~~~PF~~isgS 86 (398)
T PF06068_consen 48 IAGRAILIAGPPGTGKTALA-MAIAKEL--GEDVPFVSISGS 86 (398)
T ss_dssp -TT-EEEEEE-TTSSHHHHH-HHHHHHC--TTTS-EEEEEGG
T ss_pred ccCcEEEEeCCCCCCchHHH-HHHHHHh--CCCCCeeEcccc
Confidence 35788999999999999443 3443333 344445554443
No 490
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=73.99 E-value=5.3 Score=34.05 Aligned_cols=40 Identities=20% Similarity=0.166 Sum_probs=30.7
Q ss_pred EEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHhhHH
Q 028848 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~La~ 152 (202)
+=++||.|||||.+.+..+......+. .++++--+..|-.
T Consensus 63 tEiyG~~gsGKT~lal~~~~~aq~~g~---~a~fIDtE~~l~p 102 (279)
T COG0468 63 TEIYGPESSGKTTLALQLVANAQKPGG---KAAFIDTEHALDP 102 (279)
T ss_pred EEEecCCCcchhhHHHHHHHHhhcCCC---eEEEEeCCCCCCH
Confidence 557899999999999998887776665 6777766655543
No 491
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=73.98 E-value=4.1 Score=33.62 Aligned_cols=19 Identities=32% Similarity=0.464 Sum_probs=13.9
Q ss_pred EEEEccCCCchHHHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~i 128 (202)
+++.||||+|||-..+...
T Consensus 4 ~~i~GpT~tGKt~~ai~lA 22 (233)
T PF01745_consen 4 YLIVGPTGTGKTALAIALA 22 (233)
T ss_dssp EEEE-STTSSHHHHHHHHH
T ss_pred EEEECCCCCChhHHHHHHH
Confidence 5789999999997765443
No 492
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=73.96 E-value=2.5 Score=36.54 Aligned_cols=17 Identities=29% Similarity=0.368 Sum_probs=14.0
Q ss_pred EEEEccCCCchHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
+++.|||+||||-..+-
T Consensus 6 i~I~GPTAsGKT~lai~ 22 (308)
T COG0324 6 IVIAGPTASGKTALAIA 22 (308)
T ss_pred EEEECCCCcCHHHHHHH
Confidence 78999999999966543
No 493
>PLN02199 shikimate kinase
Probab=73.89 E-value=3.7 Score=35.39 Aligned_cols=25 Identities=32% Similarity=0.309 Sum_probs=20.2
Q ss_pred HHHHcCCCEEEEccCCCchHHHHHH
Q 028848 102 PVLFSSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 102 ~~il~g~~~l~~a~TGsGKT~~~l~ 126 (202)
...+.|+++++.|.+|||||.+.-+
T Consensus 97 ~~~l~~~~I~LIG~~GSGKSTVgr~ 121 (303)
T PLN02199 97 KPYLNGRSMYLVGMMGSGKTTVGKL 121 (303)
T ss_pred HHHcCCCEEEEECCCCCCHHHHHHH
Confidence 3456788999999999999988533
No 494
>PRK01184 hypothetical protein; Provisional
Probab=73.71 E-value=2.5 Score=32.97 Aligned_cols=16 Identities=25% Similarity=0.050 Sum_probs=13.5
Q ss_pred EEEEccCCCchHHHHH
Q 028848 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|||||.+.-
T Consensus 4 i~l~G~~GsGKsT~a~ 19 (184)
T PRK01184 4 IGVVGMPGSGKGEFSK 19 (184)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6789999999999643
No 495
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=73.66 E-value=6.3 Score=32.42 Aligned_cols=17 Identities=29% Similarity=0.241 Sum_probs=14.1
Q ss_pred EEEEccCCCchHHHHHH
Q 028848 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
++++|.+|||||...-.
T Consensus 2 Ivl~G~pGSGKST~a~~ 18 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKE 18 (249)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 67899999999977643
No 496
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=73.56 E-value=3.3 Score=31.94 Aligned_cols=23 Identities=26% Similarity=0.358 Sum_probs=18.2
Q ss_pred cCCCEEEEccCCCchHHHHHHHH
Q 028848 106 SSRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~i 128 (202)
.|.-+++.|+.|+||+...+..+
T Consensus 13 ~g~gvLi~G~sG~GKStlal~L~ 35 (149)
T cd01918 13 GGIGVLITGPSGIGKSELALELI 35 (149)
T ss_pred CCEEEEEEcCCCCCHHHHHHHHH
Confidence 35679999999999997775443
No 497
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=73.37 E-value=2.3 Score=39.40 Aligned_cols=16 Identities=38% Similarity=0.630 Sum_probs=14.4
Q ss_pred CCEEEEccCCCchHHH
Q 028848 108 RDCILHAQTGSGKTLT 123 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~ 123 (202)
+.++++||+|+|||..
T Consensus 217 ~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLI 232 (512)
T ss_pred cceEEECCCCCcHHHH
Confidence 5699999999999975
No 498
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=72.96 E-value=2.5 Score=38.28 Aligned_cols=24 Identities=21% Similarity=0.537 Sum_probs=18.5
Q ss_pred CCEEEEccCCCchHHHHHHHHHHHH
Q 028848 108 RDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~il~~l 132 (202)
+..|++||+|+||+ .++.+|...+
T Consensus 236 RGYLLYGPPGTGKS-S~IaAmAn~L 259 (457)
T KOG0743|consen 236 RGYLLYGPPGTGKS-SFIAAMANYL 259 (457)
T ss_pred ccceeeCCCCCCHH-HHHHHHHhhc
Confidence 35899999999998 5566666555
No 499
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=72.73 E-value=5.7 Score=38.76 Aligned_cols=39 Identities=15% Similarity=0.211 Sum_probs=23.5
Q ss_pred CEEEEccCCCchHHHHHHHHHHHHHhcCCCcEEEEEcCCHh
Q 028848 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~il~~l~~~~~~~~~lil~Pt~~ 149 (202)
+.++.|+||||||..--..+.+.... .+.+++|+=+.++
T Consensus 443 n~~I~G~tGsGKS~l~~~l~~~~~~~--~g~~v~i~D~~~s 481 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLALMALQFRRY--PGAQVFAFDFGGS 481 (811)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhhc--CCCeEEEEeCCCC
Confidence 68899999999997654433332221 1225666655543
No 500
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=72.72 E-value=4.2 Score=37.72 Aligned_cols=16 Identities=38% Similarity=0.461 Sum_probs=13.6
Q ss_pred CEEEEccCCCchHHHH
Q 028848 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-+++.||+|+|||.+.
T Consensus 47 iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 47 ILLLTGPSGCGKTTTV 62 (519)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4788999999999764
Done!