Query 028887
Match_columns 202
No_of_seqs 236 out of 1970
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 04:06:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028887.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028887hhsearch_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 5.4E-24 1.2E-28 180.7 12.2 124 66-197 57-180 (476)
2 KOG0331 ATP-dependent RNA heli 99.9 2.5E-23 5.5E-28 184.4 11.4 117 71-195 92-214 (519)
3 PTZ00110 helicase; Provisional 99.9 5E-22 1.1E-26 180.5 17.2 159 24-194 88-251 (545)
4 COG0513 SrmB Superfamily II DN 99.9 2.8E-22 6.2E-27 180.9 14.9 119 70-195 29-149 (513)
5 PRK04837 ATP-dependent RNA hel 99.9 4.2E-22 9.2E-27 175.9 15.0 116 71-194 9-131 (423)
6 PLN00206 DEAD-box ATP-dependen 99.9 1.2E-21 2.6E-26 177.1 16.4 121 66-194 117-244 (518)
7 KOG0340 ATP-dependent RNA heli 99.9 2.1E-22 4.6E-27 169.4 9.9 119 68-194 5-123 (442)
8 KOG0338 ATP-dependent RNA heli 99.9 3.9E-22 8.4E-27 174.2 10.1 119 69-195 180-301 (691)
9 PRK11776 ATP-dependent RNA hel 99.9 2.3E-21 5E-26 172.9 14.9 117 71-194 5-121 (460)
10 PRK04537 ATP-dependent RNA hel 99.9 3.1E-21 6.7E-26 176.2 15.1 116 71-194 10-132 (572)
11 PRK10590 ATP-dependent RNA hel 99.9 3.4E-21 7.3E-26 171.8 14.9 115 71-193 2-122 (456)
12 PRK11634 ATP-dependent RNA hel 99.9 6.9E-21 1.5E-25 175.4 14.8 116 71-193 7-122 (629)
13 KOG0346 RNA helicase [RNA proc 99.9 1E-21 2.2E-26 169.1 8.4 124 68-197 17-146 (569)
14 KOG0345 ATP-dependent RNA heli 99.8 1E-20 2.3E-25 163.9 13.3 120 68-195 5-129 (567)
15 PRK01297 ATP-dependent RNA hel 99.8 3.7E-20 8E-25 165.8 15.4 116 71-194 88-210 (475)
16 KOG0348 ATP-dependent RNA heli 99.8 1.2E-20 2.6E-25 165.7 11.6 120 68-195 134-261 (708)
17 PRK11192 ATP-dependent RNA hel 99.8 3.8E-20 8.3E-25 163.8 14.8 116 71-194 2-121 (434)
18 KOG0328 Predicted ATP-dependen 99.8 2.4E-21 5.2E-26 159.1 5.7 123 64-194 21-143 (400)
19 KOG0334 RNA helicase [RNA proc 99.8 1.3E-20 2.9E-25 175.4 10.3 123 66-196 361-488 (997)
20 KOG0342 ATP-dependent RNA heli 99.8 2.9E-20 6.3E-25 161.8 10.5 125 64-195 76-204 (543)
21 PTZ00424 helicase 45; Provisio 99.8 2.1E-19 4.7E-24 157.1 14.9 115 68-190 26-140 (401)
22 KOG0347 RNA helicase [RNA proc 99.8 2.6E-20 5.7E-25 164.0 8.4 125 64-196 175-313 (731)
23 KOG0326 ATP-dependent RNA heli 99.8 6E-21 1.3E-25 159.0 2.8 113 69-189 84-196 (459)
24 KOG0343 RNA Helicase [RNA proc 99.8 6.2E-20 1.3E-24 161.8 9.2 122 65-194 64-189 (758)
25 TIGR03817 DECH_helic helicase/ 99.8 1.1E-18 2.4E-23 163.5 14.7 108 76-194 20-127 (742)
26 KOG0339 ATP-dependent RNA heli 99.8 3.1E-19 6.6E-24 156.2 8.6 122 65-194 218-344 (731)
27 KOG0335 ATP-dependent RNA heli 99.8 1.2E-19 2.7E-24 159.0 6.2 121 67-195 71-201 (482)
28 KOG0333 U5 snRNP-like RNA heli 99.8 1.1E-18 2.3E-23 153.2 10.3 122 65-194 240-370 (673)
29 cd00268 DEADc DEAD-box helicas 99.8 1.4E-17 3E-22 132.6 14.4 110 73-190 2-113 (203)
30 KOG0327 Translation initiation 99.8 5.8E-19 1.3E-23 149.8 6.2 122 67-196 23-144 (397)
31 KOG0337 ATP-dependent RNA heli 99.7 1.8E-18 3.9E-23 148.5 7.3 115 71-193 22-137 (529)
32 KOG0336 ATP-dependent RNA heli 99.7 3.5E-18 7.5E-23 146.6 6.7 158 27-195 174-342 (629)
33 KOG0329 ATP-dependent RNA heli 99.7 5.8E-18 1.3E-22 137.7 7.2 126 63-198 38-163 (387)
34 KOG0341 DEAD-box protein abstr 99.7 2.5E-18 5.3E-23 146.7 3.8 129 64-194 164-300 (610)
35 KOG0332 ATP-dependent RNA heli 99.7 1.3E-17 2.8E-22 141.5 7.2 105 61-165 81-187 (477)
36 PRK02362 ski2-like helicase; P 99.7 1.9E-16 4.1E-21 148.7 12.7 89 72-163 3-92 (737)
37 KOG0350 DEAD-box ATP-dependent 99.7 2.6E-16 5.6E-21 137.7 8.2 105 82-194 149-263 (620)
38 KOG4284 DEAD box protein [Tran 99.7 8E-17 1.7E-21 144.4 4.8 120 70-196 25-144 (980)
39 PRK00254 ski2-like helicase; P 99.6 2.1E-15 4.5E-20 141.4 13.5 89 72-162 3-92 (720)
40 COG1205 Distinct helicase fami 99.6 3.5E-16 7.5E-21 148.0 7.6 124 78-202 56-199 (851)
41 COG1201 Lhr Lhr-like helicases 99.6 3.9E-15 8.5E-20 138.8 12.0 107 76-192 7-118 (814)
42 PF00270 DEAD: DEAD/DEAH box h 99.6 1.3E-14 2.7E-19 111.8 11.8 91 94-193 1-92 (169)
43 PRK13767 ATP-dependent helicas 99.6 9.6E-15 2.1E-19 139.4 12.7 82 77-159 18-105 (876)
44 PRK01172 ski2-like helicase; P 99.6 1.2E-14 2.7E-19 135.3 13.0 88 72-163 3-90 (674)
45 KOG0344 ATP-dependent RNA heli 99.6 3.1E-15 6.7E-20 132.9 8.2 89 75-163 141-234 (593)
46 TIGR00643 recG ATP-dependent D 99.6 1.9E-14 4.2E-19 133.1 13.4 103 82-196 226-334 (630)
47 PRK10917 ATP-dependent DNA hel 99.6 2.9E-14 6.2E-19 132.9 13.6 98 86-195 256-359 (681)
48 TIGR00580 mfd transcription-re 99.6 4E-14 8.8E-19 135.0 14.1 107 78-196 437-550 (926)
49 PRK12899 secA preprotein trans 99.6 3.8E-14 8.3E-19 133.0 13.3 108 75-193 67-182 (970)
50 TIGR00614 recQ_fam ATP-depende 99.5 5.7E-14 1.2E-18 125.9 11.2 70 87-162 6-75 (470)
51 PRK14701 reverse gyrase; Provi 99.5 1.9E-13 4E-18 136.2 14.1 106 81-196 68-174 (1638)
52 PRK10689 transcription-repair 99.5 2.3E-13 4.9E-18 132.4 13.8 103 82-196 591-699 (1147)
53 TIGR01054 rgy reverse gyrase. 99.5 3.6E-13 7.9E-18 131.3 13.2 82 81-165 67-148 (1171)
54 TIGR02621 cas3_GSU0051 CRISPR- 99.5 1.8E-13 3.8E-18 128.5 9.0 105 88-194 12-133 (844)
55 PRK09401 reverse gyrase; Revie 99.5 6.8E-13 1.5E-17 129.4 12.9 87 88-186 77-163 (1176)
56 PRK11057 ATP-dependent DNA hel 99.4 1.4E-12 3.1E-17 120.3 12.4 69 88-162 21-89 (607)
57 PLN03137 ATP-dependent DNA hel 99.4 1.1E-12 2.3E-17 125.7 10.9 109 71-197 436-547 (1195)
58 TIGR01389 recQ ATP-dependent D 99.4 2E-12 4.2E-17 119.0 12.0 70 87-162 8-77 (591)
59 PRK12898 secA preprotein trans 99.4 3E-12 6.5E-17 117.7 10.9 84 88-185 100-183 (656)
60 PHA02558 uvsW UvsW helicase; P 99.3 1.1E-12 2.3E-17 118.6 6.0 152 2-164 12-184 (501)
61 PRK05580 primosome assembly pr 99.3 1.3E-11 2.8E-16 115.1 12.6 92 92-198 144-240 (679)
62 COG1198 PriA Primosomal protei 99.3 1.1E-11 2.3E-16 115.2 10.6 136 48-199 145-296 (730)
63 COG1204 Superfamily II helicas 99.2 1E-10 2.2E-15 109.9 10.2 86 77-164 16-102 (766)
64 TIGR00963 secA preprotein tran 99.1 2.8E-10 6.1E-15 105.7 10.3 89 88-190 53-141 (745)
65 smart00487 DEXDc DEAD-like hel 99.1 8.8E-10 1.9E-14 85.4 11.6 77 88-165 4-81 (201)
66 PRK09200 preprotein translocas 99.1 3.4E-10 7.4E-15 106.3 10.8 90 88-191 75-164 (790)
67 TIGR01407 dinG_rel DnaQ family 99.1 1.1E-09 2.3E-14 104.8 12.4 101 79-189 233-338 (850)
68 KOG0349 Putative DEAD-box RNA 99.0 1.8E-10 4E-15 100.2 4.5 62 71-132 3-64 (725)
69 TIGR03158 cas3_cyano CRISPR-as 99.0 1.6E-09 3.5E-14 94.1 10.1 63 96-164 1-65 (357)
70 KOG0952 DNA/RNA helicase MER3/ 99.0 1.1E-09 2.4E-14 103.2 8.9 76 88-163 106-189 (1230)
71 PHA02653 RNA helicase NPH-II; 99.0 1.7E-09 3.6E-14 100.6 9.7 87 94-185 166-264 (675)
72 COG1202 Superfamily II helicas 99.0 1.6E-09 3.5E-14 97.1 7.9 90 73-165 197-288 (830)
73 TIGR03714 secA2 accessory Sec 99.0 2.9E-09 6.2E-14 99.5 9.8 82 88-183 67-148 (762)
74 TIGR01587 cas3_core CRISPR-ass 99.0 2.3E-09 5E-14 92.6 8.3 55 109-164 1-55 (358)
75 PRK07246 bifunctional ATP-depe 99.0 6E-09 1.3E-13 99.2 11.5 93 89-194 243-340 (820)
76 TIGR00595 priA primosomal prot 98.9 3.8E-09 8.1E-14 95.7 9.1 73 111-198 1-75 (505)
77 PRK13104 secA preprotein trans 98.9 7E-09 1.5E-13 98.0 10.0 91 88-192 79-169 (896)
78 TIGR03117 cas_csf4 CRISPR-asso 98.9 1.4E-08 2.9E-13 93.8 11.5 84 102-192 11-95 (636)
79 PRK13766 Hef nuclease; Provisi 98.9 1.9E-08 4E-13 95.4 12.2 89 91-191 14-102 (773)
80 PF04851 ResIII: Type III rest 98.9 8.1E-09 1.8E-13 79.9 7.5 67 92-164 3-76 (184)
81 PRK09751 putative ATP-dependen 98.8 1.4E-08 3.1E-13 100.7 8.5 49 112-160 1-59 (1490)
82 COG4581 Superfamily II RNA hel 98.7 3E-08 6.6E-13 94.9 8.6 75 85-163 113-187 (1041)
83 COG1200 RecG RecG-like helicas 98.7 8.5E-08 1.8E-12 87.8 11.1 100 85-196 256-361 (677)
84 COG1061 SSL2 DNA or RNA helica 98.7 3.7E-08 8E-13 87.9 8.4 67 92-164 36-106 (442)
85 COG1110 Reverse gyrase [DNA re 98.7 2.4E-07 5.1E-12 87.9 13.1 99 88-197 79-178 (1187)
86 smart00489 DEXDc3 DEAD-like he 98.7 7.1E-08 1.5E-12 81.5 8.8 73 89-162 6-85 (289)
87 smart00488 DEXDc2 DEAD-like he 98.7 7.1E-08 1.5E-12 81.5 8.8 73 89-162 6-85 (289)
88 KOG0354 DEAD-box like helicase 98.7 8.2E-08 1.8E-12 88.9 8.4 71 92-164 62-132 (746)
89 PRK11664 ATP-dependent RNA hel 98.6 1.5E-07 3.3E-12 89.5 9.7 62 98-162 11-72 (812)
90 COG1111 MPH1 ERCC4-like helica 98.6 3.7E-07 8.1E-12 81.0 10.7 93 92-196 15-107 (542)
91 COG0514 RecQ Superfamily II DN 98.6 2.1E-07 4.6E-12 84.8 8.9 69 88-162 13-81 (590)
92 PRK12904 preprotein translocas 98.6 1.9E-07 4.2E-12 88.1 8.8 90 88-192 78-168 (830)
93 PRK09694 helicase Cas3; Provis 98.6 3.1E-07 6.7E-12 87.8 9.9 71 92-163 286-356 (878)
94 TIGR01970 DEAH_box_HrpB ATP-de 98.5 6.6E-07 1.4E-11 85.2 10.6 62 98-162 8-69 (819)
95 PRK08074 bifunctional ATP-depe 98.5 1.3E-06 2.7E-11 84.6 12.1 87 89-188 255-350 (928)
96 TIGR00603 rad25 DNA repair hel 98.4 1.1E-06 2.4E-11 82.3 10.0 66 92-163 255-323 (732)
97 cd00046 DEXDc DEAD-like helica 98.4 1.7E-06 3.6E-11 63.0 8.9 55 108-163 1-55 (144)
98 KOG0353 ATP-dependent DNA heli 98.4 9.2E-07 2E-11 76.4 8.4 106 70-194 69-177 (695)
99 COG1197 Mfd Transcription-repa 98.4 4E-06 8.8E-11 80.9 12.4 97 88-197 591-694 (1139)
100 KOG0951 RNA helicase BRR2, DEA 98.4 1.5E-06 3.2E-11 83.9 9.4 89 89-185 306-403 (1674)
101 PRK13107 preprotein translocas 98.4 1.4E-06 3E-11 82.6 8.4 85 88-186 79-163 (908)
102 PRK14873 primosome assembly pr 98.3 2E-06 4.4E-11 80.2 8.3 73 112-199 165-240 (665)
103 TIGR00604 rad3 DNA repair heli 98.2 4.2E-06 9.1E-11 78.9 8.8 74 89-162 7-84 (705)
104 PRK11448 hsdR type I restricti 98.2 4.2E-06 9.1E-11 82.1 8.9 70 92-162 413-487 (1123)
105 PRK11747 dinG ATP-dependent DN 98.2 1.3E-05 2.8E-10 75.5 11.5 65 89-157 23-97 (697)
106 KOG0352 ATP-dependent DNA heli 98.2 5.9E-06 1.3E-10 72.4 7.7 69 88-162 15-85 (641)
107 PF13245 AAA_19: Part of AAA d 98.2 1.1E-05 2.5E-10 54.6 7.4 52 107-158 10-62 (76)
108 COG1199 DinG Rad3-related DNA 98.1 1.3E-05 2.8E-10 74.8 9.1 71 89-161 12-86 (654)
109 PF13086 AAA_11: AAA domain; P 98.1 1.1E-05 2.4E-10 64.5 6.9 69 92-160 1-75 (236)
110 KOG0948 Nuclear exosomal RNA h 98.0 1.2E-05 2.5E-10 74.7 7.1 70 92-164 129-198 (1041)
111 KOG0351 ATP-dependent DNA heli 98.0 9.3E-06 2E-10 78.0 6.6 93 86-196 258-350 (941)
112 KOG0947 Cytoplasmic exosomal R 98.0 2.2E-05 4.8E-10 74.4 8.1 74 87-164 293-366 (1248)
113 PF00580 UvrD-helicase: UvrD/R 98.0 2.8E-05 6.1E-10 65.1 8.1 70 93-164 1-71 (315)
114 TIGR00348 hsdR type I site-spe 97.9 3E-05 6.6E-10 72.7 7.4 70 93-163 239-318 (667)
115 PRK12906 secA preprotein trans 97.8 9.6E-05 2.1E-09 69.9 9.2 88 88-190 77-164 (796)
116 COG4098 comFA Superfamily II D 97.8 9.4E-05 2E-09 63.4 8.3 70 92-164 97-170 (441)
117 PRK12326 preprotein translocas 97.8 0.00016 3.6E-09 67.5 10.2 88 88-190 75-162 (764)
118 COG1203 CRISPR-associated heli 97.8 8.4E-05 1.8E-09 70.4 8.4 73 93-165 196-273 (733)
119 COG0556 UvrB Helicase subunit 97.7 5.5E-05 1.2E-09 68.0 4.7 67 92-164 12-83 (663)
120 PRK13103 secA preprotein trans 97.6 0.00032 7E-09 67.0 9.3 88 88-190 79-166 (913)
121 TIGR00376 DNA helicase, putati 97.6 0.00031 6.8E-09 65.5 8.8 66 92-160 157-223 (637)
122 KOG1803 DNA helicase [Replicat 97.5 0.0003 6.5E-09 64.1 7.3 65 92-159 185-250 (649)
123 PF13604 AAA_30: AAA domain; P 97.4 0.00086 1.9E-08 53.4 8.1 63 92-157 1-65 (196)
124 PF02562 PhoH: PhoH-like prote 97.3 0.00076 1.6E-08 54.3 6.1 59 91-150 3-61 (205)
125 PF00176 SNF2_N: SNF2 family N 97.1 0.0033 7.1E-08 52.3 9.0 57 107-164 25-83 (299)
126 CHL00122 secA preprotein trans 97.1 0.0023 5E-08 61.0 8.2 72 88-165 73-144 (870)
127 PF07517 SecA_DEAD: SecA DEAD- 96.9 0.018 3.8E-07 48.3 11.5 85 87-185 73-157 (266)
128 TIGR00631 uvrb excinuclease AB 96.9 0.0028 6.2E-08 59.4 7.3 67 92-164 9-80 (655)
129 PRK10919 ATP-dependent DNA hel 96.9 0.004 8.6E-08 58.6 8.0 70 92-163 2-72 (672)
130 KOG0949 Predicted helicase, DE 96.8 0.0035 7.7E-08 60.2 7.3 70 92-162 511-580 (1330)
131 KOG1802 RNA helicase nonsense 96.8 0.0042 9.2E-08 57.5 7.3 75 85-161 403-477 (935)
132 PRK04914 ATP-dependent helicas 96.7 0.013 2.8E-07 57.1 10.1 70 92-163 152-223 (956)
133 PRK11131 ATP-dependent RNA hel 96.7 0.005 1.1E-07 61.4 7.3 61 95-160 77-144 (1294)
134 PF07652 Flavi_DEAD: Flaviviru 96.7 0.0023 5.1E-08 48.6 4.0 53 106-161 3-56 (148)
135 PRK15483 type III restriction- 96.7 0.0081 1.8E-07 58.2 8.4 51 108-159 60-110 (986)
136 PLN03142 Probable chromatin-re 96.7 0.023 5E-07 55.8 11.6 72 92-164 169-244 (1033)
137 TIGR01074 rep ATP-dependent DN 96.6 0.0085 1.9E-07 56.2 8.3 70 93-164 2-72 (664)
138 TIGR01075 uvrD DNA helicase II 96.6 0.0077 1.7E-07 57.1 7.8 72 91-164 3-75 (715)
139 PRK11054 helD DNA helicase IV; 96.6 0.018 4E-07 54.3 10.1 71 91-163 195-266 (684)
140 COG4096 HsdR Type I site-speci 96.5 0.0074 1.6E-07 57.1 6.9 72 92-164 165-241 (875)
141 PRK10536 hypothetical protein; 96.5 0.012 2.6E-07 49.1 7.4 60 89-149 56-115 (262)
142 PRK11773 uvrD DNA-dependent he 96.5 0.012 2.6E-07 55.9 8.1 71 92-164 9-80 (721)
143 TIGR02785 addA_Gpos recombinat 96.3 0.015 3.1E-07 58.5 8.1 69 93-163 2-70 (1232)
144 COG4889 Predicted helicase [Ge 96.3 0.017 3.6E-07 55.4 7.6 82 89-185 158-244 (1518)
145 PRK13894 conjugal transfer ATP 96.2 0.025 5.5E-07 48.6 8.1 47 83-132 125-172 (319)
146 PRK12902 secA preprotein trans 96.2 0.027 5.8E-07 54.2 8.9 72 88-165 82-153 (939)
147 KOG0950 DNA polymerase theta/e 96.1 0.017 3.6E-07 55.5 6.7 87 76-165 206-296 (1008)
148 PRK05298 excinuclease ABC subu 96.0 0.019 4.2E-07 53.9 7.0 67 92-164 12-83 (652)
149 KOG0951 RNA helicase BRR2, DEA 96.0 0.0067 1.5E-07 59.7 3.8 69 92-164 1143-1213(1674)
150 TIGR01073 pcrA ATP-dependent D 96.0 0.028 6.1E-07 53.4 7.9 71 92-164 4-75 (726)
151 PRK05973 replicative DNA helic 95.9 0.028 6.1E-07 46.3 6.6 66 92-162 50-115 (237)
152 cd01124 KaiC KaiC is a circadi 95.8 0.028 6.1E-07 43.5 5.9 49 110-162 2-50 (187)
153 TIGR01448 recD_rel helicase, p 95.7 0.094 2E-06 49.9 10.3 67 88-156 320-386 (720)
154 PF01695 IstB_IS21: IstB-like 95.7 0.023 5E-07 44.6 5.2 46 105-154 45-90 (178)
155 PRK13833 conjugal transfer pro 95.7 0.065 1.4E-06 46.1 8.3 39 93-132 129-168 (323)
156 PRK08181 transposase; Validate 95.6 0.16 3.5E-06 42.6 10.3 58 93-154 88-149 (269)
157 TIGR02768 TraA_Ti Ti-type conj 95.6 0.11 2.4E-06 49.6 10.4 75 77-155 338-413 (744)
158 TIGR03877 thermo_KaiC_1 KaiC d 95.5 0.03 6.5E-07 45.8 5.5 53 106-162 20-72 (237)
159 TIGR01447 recD exodeoxyribonuc 95.5 0.076 1.6E-06 49.3 8.4 65 94-158 147-213 (586)
160 TIGR02782 TrbB_P P-type conjug 95.4 0.1 2.2E-06 44.4 8.6 40 93-133 117-157 (299)
161 TIGR03499 FlhF flagellar biosy 95.4 0.56 1.2E-05 39.5 13.0 65 68-132 139-219 (282)
162 COG3973 Superfamily I DNA and 95.4 0.086 1.9E-06 48.7 8.3 86 79-165 192-287 (747)
163 PF06745 KaiC: KaiC; InterPro 95.3 0.04 8.6E-07 44.5 5.6 53 106-162 18-71 (226)
164 PRK13889 conjugal transfer rel 95.3 0.14 3E-06 50.3 10.1 63 88-154 343-406 (988)
165 PF09848 DUF2075: Uncharacteri 95.3 0.036 7.8E-07 48.0 5.6 52 109-161 3-54 (352)
166 PRK06526 transposase; Provisio 95.3 0.094 2E-06 43.6 7.8 47 104-154 95-141 (254)
167 PRK10875 recD exonuclease V su 95.3 0.12 2.6E-06 48.3 9.1 66 94-159 154-220 (615)
168 PF05970 PIF1: PIF1-like helic 95.2 0.049 1.1E-06 47.5 5.9 69 92-163 1-77 (364)
169 COG1484 DnaC DNA replication p 95.1 0.06 1.3E-06 44.7 6.1 67 89-159 80-153 (254)
170 PRK13851 type IV secretion sys 94.9 0.043 9.3E-07 47.6 4.9 30 103-133 158-187 (344)
171 COG2805 PilT Tfp pilus assembl 94.8 0.036 7.9E-07 47.2 3.9 26 110-136 128-153 (353)
172 PRK14722 flhF flagellar biosyn 94.8 0.46 1E-05 41.7 10.9 68 66-133 77-163 (374)
173 PRK05703 flhF flagellar biosyn 94.7 0.64 1.4E-05 41.5 11.7 62 68-129 166-243 (424)
174 COG1875 NYN ribonuclease and A 94.6 0.081 1.8E-06 46.2 5.6 64 88-151 224-289 (436)
175 COG4962 CpaF Flp pilus assembl 94.5 0.073 1.6E-06 46.0 5.1 77 65-150 135-212 (355)
176 TIGR01967 DEAH_box_HrpA ATP-de 94.4 0.2 4.4E-06 50.4 8.6 73 88-162 60-135 (1283)
177 PRK06921 hypothetical protein; 94.3 0.77 1.7E-05 38.3 10.8 47 106-155 116-162 (266)
178 TIGR02237 recomb_radB DNA repa 94.2 0.21 4.7E-06 39.5 7.1 38 107-147 12-49 (209)
179 PRK04328 hypothetical protein; 94.1 0.13 2.7E-06 42.5 5.7 53 106-162 22-74 (249)
180 PRK13900 type IV secretion sys 94.1 0.07 1.5E-06 46.1 4.3 29 104-133 157-185 (332)
181 cd01130 VirB11-like_ATPase Typ 94.1 0.1 2.2E-06 41.0 4.8 33 92-124 9-42 (186)
182 PRK06835 DNA replication prote 94.0 0.42 9E-06 41.3 8.9 46 106-155 182-227 (329)
183 COG2804 PulE Type II secretory 94.0 0.17 3.7E-06 45.8 6.6 40 94-134 243-284 (500)
184 TIGR03881 KaiC_arch_4 KaiC dom 93.9 0.16 3.5E-06 40.9 5.8 53 106-162 19-71 (229)
185 TIGR02525 plasmid_TraJ plasmid 93.8 0.25 5.4E-06 43.4 7.2 26 107-133 149-174 (372)
186 PRK12903 secA preprotein trans 93.7 0.37 7.9E-06 46.6 8.6 71 88-164 75-145 (925)
187 KOG1133 Helicase of the DEAD s 93.7 0.12 2.7E-06 48.3 5.2 42 92-133 15-60 (821)
188 PF00437 T2SE: Type II/IV secr 93.6 0.085 1.9E-06 43.7 3.8 31 104-135 124-154 (270)
189 TIGR03878 thermo_KaiC_2 KaiC d 93.6 0.19 4.1E-06 41.7 5.8 39 106-147 35-73 (259)
190 PRK12377 putative replication 93.6 0.31 6.7E-06 40.4 7.0 45 108-156 102-146 (248)
191 KOG1123 RNA polymerase II tran 93.5 0.077 1.7E-06 48.1 3.6 70 92-167 302-374 (776)
192 PLN03187 meiotic recombination 93.5 1.9 4.1E-05 37.5 12.1 54 108-161 127-184 (344)
193 KOG0390 DNA repair protein, SN 93.5 0.61 1.3E-05 44.5 9.6 94 92-195 238-348 (776)
194 PRK11889 flhF flagellar biosyn 93.5 1.2 2.7E-05 39.6 10.9 65 68-132 183-266 (436)
195 PRK08533 flagellar accessory p 93.4 0.25 5.3E-06 40.3 6.1 54 105-162 22-75 (230)
196 PRK12727 flagellar biosynthesi 93.4 2.1 4.5E-05 39.5 12.5 64 67-130 296-373 (559)
197 KOG1132 Helicase of the DEAD s 93.3 0.34 7.4E-06 46.5 7.6 73 92-164 21-136 (945)
198 PF02399 Herpes_ori_bp: Origin 93.3 0.16 3.4E-06 48.6 5.3 52 108-161 50-101 (824)
199 PF02534 T4SS-DNA_transf: Type 93.2 0.077 1.7E-06 47.6 3.2 51 108-163 45-95 (469)
200 TIGR03880 KaiC_arch_3 KaiC dom 93.2 0.28 6.1E-06 39.4 6.1 52 107-162 16-67 (224)
201 PRK13826 Dtr system oriT relax 93.0 0.95 2.1E-05 45.1 10.4 76 77-156 367-443 (1102)
202 PF12846 AAA_10: AAA-like doma 92.9 0.23 5E-06 41.0 5.4 42 108-152 2-43 (304)
203 PRK12723 flagellar biosynthesi 92.9 3 6.5E-05 36.9 12.5 21 108-128 175-195 (388)
204 TIGR02655 circ_KaiC circadian 92.8 0.21 4.5E-06 45.3 5.4 54 106-163 20-74 (484)
205 TIGR03743 SXT_TraD conjugative 92.8 0.33 7.2E-06 45.6 6.8 54 108-164 177-232 (634)
206 COG0467 RAD55 RecA-superfamily 92.8 0.23 5E-06 41.0 5.3 54 106-163 22-75 (260)
207 COG1419 FlhF Flagellar GTP-bin 92.8 0.43 9.4E-06 42.2 7.0 57 106-162 202-259 (407)
208 PF13481 AAA_25: AAA domain; P 92.8 0.42 9E-06 37.2 6.4 58 106-164 31-95 (193)
209 PRK10436 hypothetical protein; 92.8 0.28 6.1E-06 44.3 6.1 39 94-133 203-243 (462)
210 TIGR02538 type_IV_pilB type IV 92.8 0.27 5.8E-06 45.5 6.1 45 85-133 295-341 (564)
211 cd01122 GP4d_helicase GP4d_hel 92.7 0.14 3E-06 42.4 3.8 51 104-158 27-78 (271)
212 KOG1131 RNA polymerase II tran 92.7 1.1 2.3E-05 41.2 9.4 75 89-163 13-92 (755)
213 PRK07952 DNA replication prote 92.7 0.63 1.4E-05 38.4 7.6 57 94-154 78-142 (244)
214 TIGR03819 heli_sec_ATPase heli 92.7 0.35 7.6E-06 41.9 6.4 47 83-132 155-202 (340)
215 smart00382 AAA ATPases associa 92.7 0.12 2.5E-06 36.9 2.9 39 107-148 2-40 (148)
216 KOG1002 Nucleotide excision re 92.6 0.51 1.1E-05 43.0 7.2 86 93-193 185-275 (791)
217 PRK08727 hypothetical protein; 92.4 0.65 1.4E-05 37.8 7.3 52 108-163 42-93 (233)
218 PF10412 TrwB_AAD_bind: Type I 92.4 0.2 4.3E-06 44.1 4.5 47 105-155 13-60 (386)
219 cd00009 AAA The AAA+ (ATPases 92.3 0.79 1.7E-05 32.8 7.1 18 107-124 19-36 (151)
220 COG0210 UvrD Superfamily I DNA 92.3 0.5 1.1E-05 44.3 7.3 71 92-164 2-73 (655)
221 KOG2340 Uncharacterized conser 92.3 0.82 1.8E-05 41.9 8.2 75 91-165 215-320 (698)
222 TIGR02562 cas3_yersinia CRISPR 92.3 0.93 2E-05 44.7 9.1 74 93-167 409-490 (1110)
223 PRK06067 flagellar accessory p 92.3 0.47 1E-05 38.4 6.4 52 107-162 25-76 (234)
224 TIGR02655 circ_KaiC circadian 92.3 0.29 6.2E-06 44.4 5.5 52 107-162 263-314 (484)
225 PRK08116 hypothetical protein; 92.2 1.4 3E-05 36.8 9.2 44 108-155 115-158 (268)
226 TIGR02533 type_II_gspE general 92.2 0.35 7.5E-06 44.0 6.0 45 85-133 221-267 (486)
227 KOG0920 ATP-dependent RNA heli 92.2 0.69 1.5E-05 45.0 8.2 66 94-159 175-240 (924)
228 TIGR02640 gas_vesic_GvpN gas v 92.2 0.17 3.6E-06 42.1 3.6 28 99-126 13-40 (262)
229 PRK09183 transposase/IS protei 92.1 0.3 6.4E-06 40.6 5.1 46 104-153 99-144 (259)
230 PRK09361 radB DNA repair and r 92.1 1.4 3E-05 35.4 8.8 38 107-147 23-60 (225)
231 PRK13764 ATPase; Provisional 92.0 0.44 9.5E-06 44.4 6.4 28 106-134 256-283 (602)
232 cd01120 RecA-like_NTPases RecA 91.9 0.5 1.1E-05 35.0 5.7 39 110-151 2-40 (165)
233 cd00983 recA RecA is a bacter 91.9 0.58 1.3E-05 40.3 6.7 41 107-150 55-95 (325)
234 cd01394 radB RadB. The archaea 91.8 1.1 2.5E-05 35.6 8.0 36 107-145 19-54 (218)
235 cd01129 PulE-GspE PulE/GspE Th 91.8 0.6 1.3E-05 39.0 6.5 39 94-133 65-105 (264)
236 PF12340 DUF3638: Protein of u 91.8 0.97 2.1E-05 37.0 7.5 83 77-164 10-95 (229)
237 COG1219 ClpX ATP-dependent pro 91.7 0.11 2.4E-06 44.7 1.9 21 105-125 95-115 (408)
238 cd01126 TraG_VirD4 The TraG/Tr 91.6 0.076 1.6E-06 46.5 1.0 49 109-162 1-49 (384)
239 PRK04296 thymidine kinase; Pro 91.6 0.33 7.1E-06 38.3 4.6 37 107-146 2-38 (190)
240 cd00984 DnaB_C DnaB helicase C 91.6 0.55 1.2E-05 38.0 6.0 40 105-147 11-51 (242)
241 COG0630 VirB11 Type IV secreto 91.5 0.71 1.5E-05 39.5 6.8 60 67-132 107-167 (312)
242 PRK12726 flagellar biosynthesi 91.3 1.3 2.9E-05 39.2 8.4 67 67-133 146-232 (407)
243 COG3972 Superfamily I DNA and 91.3 0.43 9.4E-06 43.3 5.4 70 92-163 162-231 (660)
244 KOG0387 Transcription-coupled 91.3 0.79 1.7E-05 43.7 7.3 69 92-164 205-280 (923)
245 TIGR02012 tigrfam_recA protein 91.3 0.53 1.1E-05 40.5 5.8 37 107-146 55-91 (321)
246 TIGR02788 VirB11 P-type DNA tr 91.2 0.23 5E-06 42.3 3.5 21 104-124 141-161 (308)
247 PRK09354 recA recombinase A; P 91.1 0.78 1.7E-05 39.9 6.7 39 107-148 60-98 (349)
248 TIGR02524 dot_icm_DotB Dot/Icm 91.1 0.57 1.2E-05 40.9 5.9 27 106-133 133-159 (358)
249 TIGR03754 conj_TOL_TraD conjug 91.1 0.76 1.6E-05 43.2 7.0 53 108-163 181-235 (643)
250 KOG1805 DNA replication helica 91.0 0.77 1.7E-05 44.7 7.0 68 91-161 668-736 (1100)
251 PF00448 SRP54: SRP54-type pro 90.9 1.1 2.5E-05 35.6 7.0 50 109-161 3-54 (196)
252 cd01127 TrwB Bacterial conjuga 90.8 0.29 6.2E-06 43.4 3.8 49 101-153 36-85 (410)
253 KOG4439 RNA polymerase II tran 90.7 1.2 2.6E-05 42.1 7.7 85 92-186 325-421 (901)
254 TIGR02784 addA_alphas double-s 90.6 0.87 1.9E-05 45.6 7.4 57 107-163 10-66 (1141)
255 COG3587 Restriction endonuclea 90.6 0.36 7.8E-06 46.3 4.4 44 109-153 76-119 (985)
256 KOG0953 Mitochondrial RNA heli 90.5 0.4 8.8E-06 44.0 4.5 48 110-164 194-241 (700)
257 PF00308 Bac_DnaA: Bacterial d 90.3 0.49 1.1E-05 38.3 4.5 37 109-146 36-72 (219)
258 PRK14712 conjugal transfer nic 90.2 1.4 3E-05 45.6 8.3 61 92-153 835-899 (1623)
259 cd01121 Sms Sms (bacterial rad 90.1 2.3 4.9E-05 37.4 8.8 52 107-162 82-133 (372)
260 PRK09302 circadian clock prote 89.8 0.67 1.5E-05 42.2 5.5 52 107-162 273-324 (509)
261 PF12775 AAA_7: P-loop contain 89.7 0.24 5.2E-06 41.5 2.3 22 104-125 30-51 (272)
262 PRK13897 type IV secretion sys 89.6 0.27 5.9E-06 45.9 2.8 50 108-162 159-208 (606)
263 cd01131 PilT Pilus retraction 89.6 0.71 1.5E-05 36.6 4.9 23 110-133 4-26 (198)
264 PRK05642 DNA replication initi 89.6 1.4 3E-05 36.0 6.6 50 108-161 46-95 (234)
265 PRK13700 conjugal transfer pro 89.5 0.54 1.2E-05 44.6 4.6 45 105-153 183-228 (732)
266 PF13555 AAA_29: P-loop contai 89.4 0.33 7.3E-06 31.4 2.3 18 107-124 23-40 (62)
267 PRK14723 flhF flagellar biosyn 89.3 5.5 0.00012 38.3 11.2 62 69-130 131-208 (767)
268 TIGR02688 conserved hypothetic 89.3 2.1 4.6E-05 38.4 8.0 34 102-135 204-238 (449)
269 COG1074 RecB ATP-dependent exo 89.3 0.87 1.9E-05 45.7 6.2 57 106-162 15-73 (1139)
270 PRK13709 conjugal transfer nic 89.3 1.9 4.1E-05 45.1 8.6 62 92-154 967-1032(1747)
271 COG1643 HrpA HrpA-like helicas 89.3 1.6 3.5E-05 42.3 7.8 67 94-162 52-118 (845)
272 PRK06731 flhF flagellar biosyn 89.3 5.9 0.00013 33.2 10.3 23 108-130 76-98 (270)
273 PRK11823 DNA repair protein Ra 89.1 0.91 2E-05 40.8 5.7 52 107-162 80-131 (446)
274 TIGR02760 TraI_TIGR conjugativ 89.0 1.6 3.5E-05 46.2 8.1 61 92-154 1019-1084(1960)
275 PF13401 AAA_22: AAA domain; P 88.9 0.85 1.8E-05 32.9 4.5 23 106-128 3-25 (131)
276 TIGR00416 sms DNA repair prote 88.8 0.91 2E-05 40.9 5.5 52 107-162 94-145 (454)
277 PF13191 AAA_16: AAA ATPase do 88.8 0.99 2.1E-05 34.5 5.0 28 107-135 24-51 (185)
278 PF01935 DUF87: Domain of unkn 88.7 0.71 1.5E-05 37.1 4.4 26 107-132 23-48 (229)
279 TIGR03420 DnaA_homol_Hda DnaA 88.6 0.88 1.9E-05 36.3 4.8 21 106-126 37-57 (226)
280 KOG0952 DNA/RNA helicase MER3/ 88.6 0.45 9.8E-06 46.6 3.5 69 92-161 927-996 (1230)
281 cd01393 recA_like RecA is a b 88.5 2.5 5.5E-05 33.7 7.5 43 107-149 19-64 (226)
282 PRK14721 flhF flagellar biosyn 88.5 12 0.00027 33.4 12.3 81 67-147 136-231 (420)
283 PF00004 AAA: ATPase family as 88.5 0.35 7.5E-06 34.8 2.2 17 110-126 1-17 (132)
284 COG0610 Type I site-specific r 88.4 1.5 3.2E-05 43.3 7.0 57 108-165 274-330 (962)
285 PRK09302 circadian clock prote 88.3 1.1 2.5E-05 40.7 5.8 52 107-162 31-83 (509)
286 PRK13850 type IV secretion sys 88.2 0.34 7.3E-06 45.8 2.4 49 108-161 140-188 (670)
287 PF01580 FtsK_SpoIIIE: FtsK/Sp 88.2 1 2.2E-05 35.6 4.9 27 107-133 38-64 (205)
288 TIGR02880 cbbX_cfxQ probable R 87.9 1.2 2.5E-05 37.6 5.3 19 107-125 58-76 (284)
289 PRK08084 DNA replication initi 87.9 1.1 2.4E-05 36.5 5.0 20 107-126 45-64 (235)
290 PRK14087 dnaA chromosomal repl 87.8 1.8 4E-05 38.9 6.8 46 108-155 142-187 (450)
291 PF07728 AAA_5: AAA domain (dy 87.7 0.37 8E-06 35.5 2.0 17 109-125 1-17 (139)
292 TIGR02767 TraG-Ti Ti-type conj 87.7 0.83 1.8E-05 42.8 4.6 50 108-162 212-261 (623)
293 TIGR01420 pilT_fam pilus retra 87.6 1.1 2.4E-05 38.8 5.1 27 106-133 121-147 (343)
294 PF13207 AAA_17: AAA domain; P 87.4 0.42 9.2E-06 34.1 2.1 17 110-126 2-18 (121)
295 PRK06893 DNA replication initi 87.4 0.97 2.1E-05 36.7 4.4 21 108-128 40-60 (229)
296 PRK08903 DnaA regulatory inact 87.3 1.2 2.5E-05 35.8 4.8 19 107-125 42-60 (227)
297 PRK12900 secA preprotein trans 87.3 1.9 4.1E-05 42.4 6.8 69 92-165 138-206 (1025)
298 TIGR02773 addB_Gpos ATP-depend 87.3 2.1 4.6E-05 43.0 7.5 52 111-163 5-56 (1158)
299 PF03193 DUF258: Protein of un 87.2 1.2 2.6E-05 34.5 4.5 44 80-123 3-51 (161)
300 KOG4150 Predicted ATP-dependen 87.1 0.3 6.4E-06 45.1 1.3 98 87-190 281-378 (1034)
301 PRK11331 5-methylcytosine-spec 86.9 0.87 1.9E-05 41.0 4.1 33 93-125 180-212 (459)
302 PRK00149 dnaA chromosomal repl 86.7 1.9 4.1E-05 38.6 6.2 44 108-153 149-192 (450)
303 CHL00181 cbbX CbbX; Provisiona 86.7 1.5 3.2E-05 37.1 5.2 22 107-128 59-80 (287)
304 PF13238 AAA_18: AAA domain; P 86.6 0.5 1.1E-05 33.8 2.1 17 110-126 1-17 (129)
305 PRK08939 primosomal protein Dn 86.6 1.8 3.8E-05 37.0 5.7 26 107-132 156-181 (306)
306 TIGR02238 recomb_DMC1 meiotic 86.5 5.4 0.00012 34.2 8.7 63 100-162 84-155 (313)
307 PF02374 ArsA_ATPase: Anion-tr 86.5 1.6 3.4E-05 37.3 5.3 41 109-152 3-45 (305)
308 PRK13880 conjugal transfer cou 86.5 0.69 1.5E-05 43.5 3.4 46 108-158 176-221 (636)
309 TIGR02760 TraI_TIGR conjugativ 86.4 3.3 7.2E-05 43.9 8.5 63 92-157 429-493 (1960)
310 PF05729 NACHT: NACHT domain 86.3 1.6 3.5E-05 32.5 4.8 25 109-134 2-26 (166)
311 KOG1807 Helicases [Replication 86.1 3.8 8.1E-05 39.3 7.8 68 93-160 379-449 (1025)
312 KOG0926 DEAH-box RNA helicase 86.1 0.56 1.2E-05 45.0 2.5 25 99-123 263-287 (1172)
313 PRK13822 conjugal transfer cou 86.0 0.71 1.5E-05 43.4 3.2 50 108-162 225-274 (641)
314 TIGR00362 DnaA chromosomal rep 86.0 2.3 4.9E-05 37.5 6.3 44 108-153 137-180 (405)
315 PF13671 AAA_33: AAA domain; P 86.0 0.56 1.2E-05 34.5 2.1 15 110-124 2-16 (143)
316 cd01363 Motor_domain Myosin an 85.8 0.6 1.3E-05 36.6 2.3 25 99-123 14-40 (186)
317 cd00544 CobU Adenosylcobinamid 85.7 1.7 3.6E-05 33.8 4.7 45 110-160 2-46 (169)
318 TIGR01547 phage_term_2 phage t 85.7 2.9 6.4E-05 36.6 6.9 54 109-162 3-57 (396)
319 PHA02533 17 large terminase pr 85.6 6.7 0.00015 36.2 9.3 72 92-164 59-130 (534)
320 KOG0385 Chromatin remodeling c 85.5 7.8 0.00017 37.3 9.6 83 92-188 167-255 (971)
321 KOG0924 mRNA splicing factor A 85.5 2.7 5.9E-05 39.9 6.6 61 95-159 359-421 (1042)
322 PRK04301 radA DNA repair and r 85.5 3.4 7.3E-05 35.2 6.9 54 108-161 103-160 (317)
323 PTZ00035 Rad51 protein; Provis 85.3 4.8 0.00011 34.8 7.8 39 108-146 119-160 (337)
324 PRK13876 conjugal transfer cou 85.3 0.62 1.3E-05 44.0 2.5 45 108-157 145-189 (663)
325 TIGR02759 TraD_Ftype type IV c 85.2 1.2 2.5E-05 41.4 4.2 42 106-150 175-216 (566)
326 PF06309 Torsin: Torsin; Inte 85.2 1.8 3.8E-05 32.2 4.4 52 110-161 56-112 (127)
327 PF09439 SRPRB: Signal recogni 85.0 0.81 1.8E-05 36.1 2.7 24 107-130 3-26 (181)
328 PRK14974 cell division protein 84.9 3.7 8E-05 35.6 6.9 51 108-161 141-194 (336)
329 PRK12901 secA preprotein trans 84.7 2.8 6E-05 41.5 6.5 68 92-164 169-236 (1112)
330 TIGR03015 pepcterm_ATPase puta 84.4 1.3 2.9E-05 36.2 3.9 35 92-126 23-62 (269)
331 TIGR00064 ftsY signal recognit 84.4 4.1 8.9E-05 34.1 6.8 35 108-145 73-107 (272)
332 cd03115 SRP The signal recogni 84.4 2 4.4E-05 32.9 4.6 20 110-129 3-22 (173)
333 KOG1533 Predicted GTPase [Gene 84.4 1.2 2.6E-05 36.8 3.4 36 110-146 5-40 (290)
334 PRK12724 flagellar biosynthesi 84.3 3.7 8.1E-05 36.8 6.7 24 108-131 224-247 (432)
335 PF02456 Adeno_IVa2: Adenoviru 84.1 1.2 2.7E-05 38.2 3.5 42 110-153 90-132 (369)
336 TIGR02881 spore_V_K stage V sp 84.1 1.8 4E-05 35.7 4.6 19 108-126 43-61 (261)
337 PHA02244 ATPase-like protein 84.1 1.5 3.2E-05 38.6 4.1 22 103-124 115-136 (383)
338 PRK14729 miaA tRNA delta(2)-is 84.0 0.69 1.5E-05 39.4 2.0 20 108-127 5-24 (300)
339 PRK13531 regulatory ATPase Rav 84.0 1.1 2.4E-05 40.8 3.3 28 98-125 30-57 (498)
340 PLN03186 DNA repair protein RA 83.9 28 0.00061 30.2 12.0 42 108-149 124-168 (342)
341 PF14532 Sigma54_activ_2: Sigm 83.7 1.7 3.6E-05 32.2 3.8 21 104-124 18-38 (138)
342 TIGR02928 orc1/cdc6 family rep 83.5 3.1 6.7E-05 35.8 5.9 24 108-132 41-64 (365)
343 PF01078 Mg_chelatase: Magnesi 83.5 1.5 3.3E-05 35.3 3.6 27 98-124 12-39 (206)
344 PRK10078 ribose 1,5-bisphospho 83.5 0.89 1.9E-05 35.5 2.3 20 107-126 2-21 (186)
345 COG1223 Predicted ATPase (AAA+ 83.4 0.85 1.9E-05 38.4 2.2 18 107-124 151-168 (368)
346 COG1222 RPT1 ATP-dependent 26S 83.3 0.8 1.7E-05 40.0 2.1 17 108-124 186-202 (406)
347 KOG0738 AAA+-type ATPase [Post 83.0 0.93 2E-05 40.1 2.4 23 102-124 235-262 (491)
348 PRK00131 aroK shikimate kinase 82.9 0.84 1.8E-05 34.6 1.9 21 105-125 2-22 (175)
349 PRK05707 DNA polymerase III su 82.7 7 0.00015 33.7 7.7 70 93-162 4-99 (328)
350 PF04665 Pox_A32: Poxvirus A32 82.7 2.1 4.7E-05 35.3 4.3 23 109-132 15-37 (241)
351 PRK12402 replication factor C 82.7 1.8 3.8E-05 36.7 4.0 18 109-126 38-55 (337)
352 PF07724 AAA_2: AAA domain (Cd 82.6 0.92 2E-05 35.3 2.0 16 109-124 5-20 (171)
353 KOG0745 Putative ATP-dependent 82.5 0.84 1.8E-05 41.0 1.9 19 106-124 225-243 (564)
354 PRK08506 replicative DNA helic 82.2 4 8.6E-05 37.0 6.2 49 106-158 191-239 (472)
355 COG0606 Predicted ATPase with 82.1 1.4 3.1E-05 39.7 3.3 27 98-124 188-215 (490)
356 PRK10867 signal recognition pa 82.1 4.6 0.0001 36.2 6.5 41 109-152 102-145 (433)
357 TIGR02746 TraC-F-type type-IV 82.1 2.4 5.3E-05 40.7 5.1 38 109-149 432-469 (797)
358 PRK14088 dnaA chromosomal repl 82.0 2.6 5.6E-05 37.8 5.0 38 108-146 131-168 (440)
359 COG0714 MoxR-like ATPases [Gen 82.0 1.7 3.6E-05 37.2 3.6 23 102-124 38-60 (329)
360 TIGR01650 PD_CobS cobaltochela 81.9 1.7 3.6E-05 37.6 3.5 26 100-125 57-82 (327)
361 cd01123 Rad51_DMC1_radA Rad51_ 81.5 1.5 3.4E-05 35.2 3.1 42 106-147 18-62 (235)
362 PRK10416 signal recognition pa 81.5 2.8 6.1E-05 36.0 4.8 21 108-128 115-135 (318)
363 PLN02165 adenylate isopentenyl 81.2 1.3 2.7E-05 38.4 2.5 21 106-126 42-62 (334)
364 KOG0989 Replication factor C, 81.0 6.4 0.00014 33.9 6.6 23 108-130 58-80 (346)
365 PRK04220 2-phosphoglycerate ki 81.0 3.7 7.9E-05 35.1 5.2 85 36-124 14-109 (301)
366 cd01367 KISc_KIF2_like Kinesin 80.8 1.3 2.8E-05 38.0 2.5 24 102-125 78-103 (322)
367 TIGR02322 phosphon_PhnN phosph 80.8 1.2 2.6E-05 34.3 2.2 18 108-125 2-19 (179)
368 PRK09519 recA DNA recombinatio 80.8 4.9 0.00011 38.8 6.5 30 107-136 60-89 (790)
369 cd01370 KISc_KIP3_like Kinesin 80.7 1.7 3.6E-05 37.5 3.2 22 103-124 82-105 (338)
370 cd01368 KISc_KIF23_like Kinesi 80.7 1.3 2.9E-05 38.3 2.6 23 102-124 82-106 (345)
371 cd00227 CPT Chloramphenicol (C 80.7 1.3 2.9E-05 34.1 2.3 19 107-125 2-20 (175)
372 PTZ00301 uridine kinase; Provi 80.6 3.6 7.8E-05 33.1 4.9 15 110-124 6-20 (210)
373 PRK00300 gmk guanylate kinase; 80.4 1.4 2.9E-05 34.7 2.4 18 106-123 4-21 (205)
374 cd01373 KISc_KLP2_like Kinesin 80.2 1.3 2.9E-05 38.2 2.4 21 103-123 69-91 (337)
375 KOG2373 Predicted mitochondria 80.2 2.9 6.2E-05 36.7 4.3 46 108-153 274-319 (514)
376 PRK08154 anaerobic benzoate ca 80.1 11 0.00023 32.1 7.9 84 43-126 32-152 (309)
377 PF00225 Kinesin: Kinesin moto 80.1 1.8 4E-05 37.0 3.2 25 102-126 68-94 (335)
378 PF03796 DnaB_C: DnaB-like hel 80.1 10 0.00022 31.1 7.6 40 106-147 18-57 (259)
379 cd01376 KISc_KID_like Kinesin 80.0 1.6 3.5E-05 37.3 2.9 24 101-124 73-98 (319)
380 TIGR03263 guanyl_kin guanylate 80.0 1.4 3E-05 33.9 2.2 18 107-124 1-18 (180)
381 cd01369 KISc_KHC_KIF5 Kinesin 79.9 1.5 3.2E-05 37.5 2.6 23 101-123 69-93 (325)
382 PRK05342 clpX ATP-dependent pr 79.9 1.3 2.8E-05 39.5 2.3 18 107-124 108-125 (412)
383 PRK14086 dnaA chromosomal repl 79.9 5.2 0.00011 37.5 6.3 45 108-154 315-359 (617)
384 PF07088 GvpD: GvpD gas vesicl 79.9 1.2 2.6E-05 39.6 2.0 37 106-146 9-45 (484)
385 PF02367 UPF0079: Uncharacteri 79.8 2.5 5.5E-05 31.2 3.4 43 103-151 11-53 (123)
386 cd01365 KISc_KIF1A_KIF1B Kines 79.6 1.5 3.3E-05 38.0 2.6 22 102-123 82-105 (356)
387 TIGR00382 clpX endopeptidase C 79.6 1.3 2.9E-05 39.4 2.3 19 107-125 116-134 (413)
388 cd01375 KISc_KIF9_like Kinesin 79.6 1.5 3.3E-05 37.7 2.6 23 102-124 74-98 (334)
389 COG1126 GlnQ ABC-type polar am 79.5 1.1 2.4E-05 36.6 1.6 19 105-123 26-44 (240)
390 PF05496 RuvB_N: Holliday junc 79.2 6.2 0.00013 32.4 5.8 51 108-163 51-101 (233)
391 PRK00411 cdc6 cell division co 79.2 7.7 0.00017 33.7 6.9 20 108-127 56-75 (394)
392 PRK07261 topology modulation p 79.2 1.5 3.2E-05 34.0 2.2 18 109-126 2-19 (171)
393 PRK00771 signal recognition pa 79.0 7.5 0.00016 35.0 6.8 21 109-129 97-117 (437)
394 COG1474 CDC6 Cdc6-related prot 78.9 10 0.00022 33.3 7.5 23 108-130 43-65 (366)
395 PRK13909 putative recombinatio 78.9 5 0.00011 39.4 6.2 52 111-162 2-53 (910)
396 KOG0925 mRNA splicing factor A 78.8 7.4 0.00016 35.7 6.6 89 69-159 24-112 (699)
397 PRK03992 proteasome-activating 78.8 1.4 3E-05 38.8 2.1 17 108-124 166-182 (389)
398 PRK05748 replicative DNA helic 78.8 5.4 0.00012 35.7 5.9 49 106-158 202-251 (448)
399 PRK08118 topology modulation p 78.8 1.5 3.3E-05 33.8 2.1 16 109-124 3-18 (167)
400 cd00071 GMPK Guanosine monopho 78.7 2.1 4.5E-05 31.9 2.8 15 110-124 2-16 (137)
401 PF00158 Sigma54_activat: Sigm 78.7 2.2 4.8E-05 33.1 3.0 20 105-124 20-39 (168)
402 COG1136 SalX ABC-type antimicr 78.6 1.2 2.7E-05 36.4 1.6 19 105-123 29-47 (226)
403 PRK14530 adenylate kinase; Pro 78.5 1.5 3.2E-05 35.1 2.0 20 106-125 2-21 (215)
404 PLN03025 replication factor C 78.4 17 0.00036 30.9 8.6 19 108-126 35-53 (319)
405 PRK06620 hypothetical protein; 78.4 1.3 2.8E-05 35.7 1.7 18 108-125 45-62 (214)
406 PRK06995 flhF flagellar biosyn 78.4 18 0.00039 33.0 9.1 24 107-130 256-279 (484)
407 TIGR00665 DnaB replicative DNA 78.4 6.9 0.00015 34.8 6.5 39 106-147 194-233 (434)
408 TIGR01313 therm_gnt_kin carboh 78.4 1.3 2.9E-05 33.5 1.7 16 110-125 1-16 (163)
409 PRK00091 miaA tRNA delta(2)-is 78.3 1.6 3.4E-05 37.4 2.2 19 108-126 5-23 (307)
410 TIGR03600 phage_DnaB phage rep 78.3 8.4 0.00018 34.1 7.0 41 104-147 191-232 (421)
411 COG0468 RecA RecA/RadA recombi 78.3 11 0.00023 31.9 7.2 43 108-153 61-103 (279)
412 PRK05986 cob(I)alamin adenolsy 78.2 5.3 0.00011 31.8 5.0 31 106-136 21-51 (191)
413 KOG0389 SNF2 family DNA-depend 78.2 11 0.00023 36.4 7.7 70 93-164 400-473 (941)
414 COG0593 DnaA ATPase involved i 78.2 6.3 0.00014 35.1 6.0 41 107-148 113-153 (408)
415 TIGR03238 dnd_assoc_3 dnd syst 78.1 2.6 5.5E-05 38.4 3.6 32 94-125 12-50 (504)
416 PF00005 ABC_tran: ABC transpo 78.0 1.8 3.9E-05 31.5 2.3 20 105-124 9-28 (137)
417 PTZ00361 26 proteosome regulat 77.9 1.6 3.5E-05 39.2 2.3 20 106-125 216-235 (438)
418 TIGR00959 ffh signal recogniti 77.9 7.8 0.00017 34.7 6.6 22 109-130 101-122 (428)
419 cd00561 CobA_CobO_BtuR ATP:cor 77.8 5.2 0.00011 30.9 4.8 31 110-143 5-35 (159)
420 COG3451 VirB4 Type IV secretor 77.8 3.6 7.7E-05 39.8 4.7 38 109-148 438-475 (796)
421 TIGR00609 recB exodeoxyribonuc 77.6 5.7 0.00012 39.8 6.2 52 109-160 11-64 (1087)
422 COG0542 clpA ATP-binding subun 77.3 9.1 0.0002 36.9 7.1 28 137-164 591-619 (786)
423 PF00625 Guanylate_kin: Guanyl 77.3 1.9 4.2E-05 33.4 2.4 20 107-126 2-21 (183)
424 cd02025 PanK Pantothenate kina 77.3 4.3 9.4E-05 32.8 4.5 22 110-132 2-23 (220)
425 KOG0744 AAA+-type ATPase [Post 77.3 2.1 4.6E-05 37.1 2.7 24 108-132 178-201 (423)
426 TIGR01425 SRP54_euk signal rec 77.2 7.4 0.00016 34.9 6.2 43 109-154 102-146 (429)
427 COG5008 PilU Tfp pilus assembl 77.2 2.6 5.7E-05 35.7 3.2 55 66-124 84-144 (375)
428 KOG0060 Long-chain acyl-CoA tr 77.1 1.6 3.4E-05 40.5 2.0 21 104-124 458-478 (659)
429 COG4185 Uncharacterized protei 77.1 0.85 1.8E-05 35.5 0.2 21 110-130 5-25 (187)
430 PF13177 DNA_pol3_delta2: DNA 77.0 17 0.00038 27.7 7.6 75 109-188 21-116 (162)
431 cd01374 KISc_CENP_E Kinesin mo 77.0 2.1 4.5E-05 36.6 2.6 24 102-125 67-92 (321)
432 cd01125 repA Hexameric Replica 76.9 9.3 0.0002 31.0 6.4 54 109-163 3-65 (239)
433 PRK14737 gmk guanylate kinase; 76.9 1.7 3.8E-05 34.2 2.0 19 107-125 4-22 (186)
434 PTZ00454 26S protease regulato 76.8 1.8 4E-05 38.3 2.3 19 106-124 178-196 (398)
435 PF06068 TIP49: TIP49 C-termin 76.7 1.9 4.1E-05 38.0 2.3 27 105-132 48-74 (398)
436 TIGR01242 26Sp45 26S proteasom 76.5 1.9 4.1E-05 37.5 2.3 18 107-124 156-173 (364)
437 COG1224 TIP49 DNA helicase TIP 76.4 1.9 4.2E-05 37.8 2.3 27 105-132 63-89 (450)
438 PF13476 AAA_23: AAA domain; P 76.3 1.9 4.2E-05 33.2 2.1 16 109-124 21-36 (202)
439 cd00820 PEPCK_HprK Phosphoenol 76.2 1.9 4.1E-05 31.1 1.8 21 106-126 14-34 (107)
440 PF05673 DUF815: Protein of un 76.1 18 0.0004 30.0 7.8 25 108-133 53-77 (249)
441 TIGR03744 traC_PFL_4706 conjug 76.0 4.7 0.0001 39.5 5.0 40 108-149 476-515 (893)
442 KOG1534 Putative transcription 76.0 3.9 8.5E-05 33.4 3.7 37 109-146 5-41 (273)
443 cd02028 UMPK_like Uridine mono 76.0 5.5 0.00012 31.0 4.6 15 110-124 2-16 (179)
444 PF03029 ATP_bind_1: Conserved 75.3 3.7 8E-05 33.7 3.6 34 112-146 1-34 (238)
445 cd01983 Fer4_NifH The Fer4_Nif 75.2 8.1 0.00018 25.5 4.8 19 110-128 2-20 (99)
446 cd01918 HprK_C HprK/P, the bif 75.2 2.8 6E-05 32.1 2.6 23 106-128 13-35 (149)
447 PRK11608 pspF phage shock prot 75.0 3.3 7E-05 35.6 3.3 28 98-125 20-47 (326)
448 KOG0742 AAA+-type ATPase [Post 74.9 1.7 3.7E-05 38.9 1.5 19 108-126 385-403 (630)
449 PRK12422 chromosomal replicati 74.9 8.2 0.00018 34.7 5.9 36 108-146 142-177 (445)
450 PRK05541 adenylylsulfate kinas 74.8 6.7 0.00015 30.0 4.8 20 105-124 5-24 (176)
451 TIGR00708 cobA cob(I)alamin ad 74.6 7.1 0.00015 30.6 4.8 32 110-144 8-39 (173)
452 TIGR02974 phageshock_pspF psp 74.6 3.4 7.3E-05 35.6 3.3 23 102-124 17-39 (329)
453 KOG1942 DNA helicase, TBP-inte 74.5 3.5 7.6E-05 35.4 3.3 28 105-133 62-89 (456)
454 cd03114 ArgK-like The function 74.5 7.4 0.00016 29.4 4.8 19 110-128 2-20 (148)
455 cd01372 KISc_KIF4 Kinesin moto 74.5 2.5 5.4E-05 36.4 2.5 22 103-124 68-91 (341)
456 KOG0922 DEAH-box RNA helicase 74.5 2.4 5.2E-05 39.7 2.5 29 95-123 54-82 (674)
457 PF03237 Terminase_6: Terminas 74.5 12 0.00027 31.4 6.8 42 111-153 1-42 (384)
458 PRK09825 idnK D-gluconate kina 74.5 2.4 5.1E-05 33.0 2.2 19 106-124 2-20 (176)
459 cd00106 KISc Kinesin motor dom 74.4 3.1 6.8E-05 35.4 3.1 23 101-123 71-95 (328)
460 KOG0729 26S proteasome regulat 74.4 2.2 4.8E-05 36.2 2.0 18 108-125 212-229 (435)
461 PRK08699 DNA polymerase III su 74.3 27 0.00059 30.0 8.8 33 94-126 3-40 (325)
462 PHA02535 P terminase ATPase su 73.9 15 0.00033 34.3 7.4 87 74-163 120-207 (581)
463 cd01371 KISc_KIF3 Kinesin moto 73.9 2.6 5.6E-05 36.3 2.4 22 102-123 75-98 (333)
464 PF00154 RecA: recA bacterial 73.9 8.5 0.00018 33.2 5.5 28 107-134 53-80 (322)
465 cd01364 KISc_BimC_Eg5 Kinesin 73.8 2.6 5.7E-05 36.5 2.5 22 103-124 76-99 (352)
466 smart00129 KISc Kinesin motor, 73.8 3.5 7.6E-05 35.3 3.2 24 101-124 72-97 (335)
467 PRK06762 hypothetical protein; 73.7 2.5 5.5E-05 32.0 2.1 17 109-125 4-20 (166)
468 COG0324 MiaA tRNA delta(2)-iso 73.6 2.5 5.4E-05 36.2 2.2 17 109-125 5-21 (308)
469 cd02034 CooC The accessory pro 73.5 7.9 0.00017 28.0 4.6 19 110-128 2-20 (116)
470 PRK08769 DNA polymerase III su 73.5 44 0.00096 28.7 9.9 36 91-126 3-45 (319)
471 TIGR00174 miaA tRNA isopenteny 73.4 2.6 5.6E-05 35.7 2.3 19 110-128 2-20 (287)
472 PF08423 Rad51: Rad51; InterP 73.2 7.7 0.00017 32.1 5.0 91 100-195 26-124 (256)
473 PRK06547 hypothetical protein; 73.2 2.6 5.7E-05 32.8 2.1 16 109-124 17-32 (172)
474 TIGR02236 recomb_radA DNA repa 73.0 4.8 0.0001 34.0 3.9 41 107-147 95-138 (310)
475 COG1220 HslU ATP-dependent pro 73.0 2.6 5.6E-05 36.9 2.1 18 107-124 50-67 (444)
476 PRK05595 replicative DNA helic 73.0 14 0.00031 33.0 7.0 38 107-147 201-239 (444)
477 cd02019 NK Nucleoside/nucleoti 72.8 2.9 6.3E-05 27.1 1.9 15 110-124 2-16 (69)
478 cd02020 CMPK Cytidine monophos 72.7 2.8 6E-05 30.7 2.1 16 110-125 2-17 (147)
479 PRK00080 ruvB Holliday junctio 72.6 3 6.5E-05 35.7 2.5 18 108-125 52-69 (328)
480 PF01745 IPT: Isopentenyl tran 72.5 3 6.4E-05 34.1 2.3 19 110-128 4-22 (233)
481 PF05707 Zot: Zonular occluden 72.5 3.9 8.6E-05 32.1 3.0 26 110-135 3-29 (193)
482 TIGR00176 mobB molybdopterin-g 72.3 8.7 0.00019 29.2 4.8 15 110-124 2-16 (155)
483 TIGR02902 spore_lonB ATP-depen 72.3 3 6.6E-05 38.3 2.6 19 107-125 86-104 (531)
484 TIGR00635 ruvB Holliday juncti 72.2 2.8 6E-05 35.2 2.2 18 108-125 31-48 (305)
485 TIGR03689 pup_AAA proteasome A 72.2 2.6 5.6E-05 38.7 2.1 18 107-124 216-233 (512)
486 CHL00195 ycf46 Ycf46; Provisio 72.1 2.7 5.8E-05 38.4 2.2 17 108-124 260-276 (489)
487 KOG0736 Peroxisome assembly fa 72.1 5.3 0.00011 38.4 4.1 17 108-124 706-722 (953)
488 PF03354 Terminase_1: Phage Te 72.0 16 0.00034 33.1 7.1 58 108-165 23-81 (477)
489 PRK06904 replicative DNA helic 72.0 19 0.0004 32.7 7.6 50 105-158 219-269 (472)
490 cd03238 ABC_UvrA The excision 72.0 2.7 5.8E-05 32.9 1.9 22 105-126 19-40 (176)
491 PF00910 RNA_helicase: RNA hel 71.8 2.6 5.6E-05 29.8 1.7 17 110-126 1-17 (107)
492 PRK12608 transcription termina 71.8 6.7 0.00014 34.6 4.5 40 95-135 118-160 (380)
493 cd01366 KISc_C_terminal Kinesi 71.6 3.5 7.7E-05 35.2 2.7 25 100-124 69-95 (329)
494 PRK13873 conjugal transfer ATP 71.5 6.1 0.00013 38.2 4.6 38 109-148 443-480 (811)
495 cd02021 GntK Gluconate kinase 71.3 3.1 6.7E-05 30.9 2.1 17 110-126 2-18 (150)
496 TIGR01359 UMP_CMP_kin_fam UMP- 71.3 3.1 6.6E-05 32.0 2.1 16 110-125 2-17 (183)
497 COG1702 PhoH Phosphate starvat 71.3 8.2 0.00018 33.5 4.8 44 92-135 128-171 (348)
498 PHA03333 putative ATPase subun 71.3 57 0.0012 31.3 10.6 70 93-164 170-242 (752)
499 PHA00729 NTP-binding motif con 71.2 3.1 6.7E-05 34.0 2.2 18 109-126 19-36 (226)
500 PLN02748 tRNA dimethylallyltra 71.2 3.3 7.1E-05 37.6 2.5 21 107-127 22-42 (468)
No 1
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.91 E-value=5.4e-24 Score=180.66 Aligned_cols=124 Identities=29% Similarity=0.349 Sum_probs=114.9
Q ss_pred cchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec
Q 028887 66 SLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 35677888889999999999999999999999999999999999999999999999999999999998888889999999
Q ss_pred CCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHhc
Q 028887 146 PTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVLY 197 (202)
Q Consensus 146 Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l~ 197 (202)
||||||.||.++|..++... ++++..+.||.++..|...+.+-.
T Consensus 137 PtRELA~QI~e~fe~Lg~~i--------glr~~~lvGG~~m~~q~~~L~kkP 180 (476)
T KOG0330|consen 137 PTRELAQQIAEQFEALGSGI--------GLRVAVLVGGMDMMLQANQLSKKP 180 (476)
T ss_pred CcHHHHHHHHHHHHHhcccc--------CeEEEEEecCchHHHHHHHhhcCC
Confidence 99999999999999999887 799999999999999877765433
No 2
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.90 E-value=2.5e-23 Score=184.43 Aligned_cols=117 Identities=29% Similarity=0.400 Sum_probs=109.0
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh------cCCccEEEEe
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQAVIV 144 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 7777799999999999999999999999999999999999999999999999999999999986 2357899999
Q ss_pred cCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 145 VPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 145 ~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
+||||||.|+.+.+++++... .++++|+|||.....|.+.++.
T Consensus 172 ~PTRELA~QV~~~~~~~~~~~--------~~~~~cvyGG~~~~~Q~~~l~~ 214 (519)
T KOG0331|consen 172 APTRELAVQVQAEAREFGKSL--------RLRSTCVYGGAPKGPQLRDLER 214 (519)
T ss_pred cCcHHHHHHHHHHHHHHcCCC--------CccEEEEeCCCCccHHHHHHhc
Confidence 999999999999999999886 5789999999999999888765
No 3
>PTZ00110 helicase; Provisional
Probab=99.89 E-value=5e-22 Score=180.55 Aligned_cols=159 Identities=25% Similarity=0.328 Sum_probs=122.7
Q ss_pred CCCccccccccCCCCCCchHHHHHhccCCCCHHHHHcccCCCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHh
Q 028887 24 PNSIDFTNRAFLPVSISLKPLRAVLSSSAVSTEELAAGTGNNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPV 103 (202)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~ 103 (202)
+....|....+.....+...+..+.....+... .....+.++.+|.+.++++.+++.|.++||.+||++|.++||.
T Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~----~g~~~p~p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~ 163 (545)
T PTZ00110 88 PFEKNFYKEHPEVSALSSKEVDEIRKEKEITII----AGENVPKPVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPI 163 (545)
T ss_pred chhhhcccCChhhhcCCHHHHHHHHHhcCcEEe----cCCCCCcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHH
Confidence 334444444444445555555555444433321 1122345667788889999999999999999999999999999
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-----CCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEE
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVM 178 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-----~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~ 178 (202)
++.|+|++++|+||||||++|++|++..+... ..++++|||+||||||.|+.+.+++++... .+++.
T Consensus 164 ~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~--------~i~~~ 235 (545)
T PTZ00110 164 ALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASS--------KIRNT 235 (545)
T ss_pred HhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhccc--------CccEE
Confidence 99999999999999999999999999887543 236789999999999999999999998765 57888
Q ss_pred EEEeCCccHHHHHHHH
Q 028887 179 ALLDGGMLRRHKSWLK 194 (202)
Q Consensus 179 ~~~~g~~~~~~~~~l~ 194 (202)
.+++|.....|...++
T Consensus 236 ~~~gg~~~~~q~~~l~ 251 (545)
T PTZ00110 236 VAYGGVPKRGQIYALR 251 (545)
T ss_pred EEeCCCCHHHHHHHHH
Confidence 8999988877766554
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=2.8e-22 Score=180.89 Aligned_cols=119 Identities=31% Similarity=0.464 Sum_probs=105.9
Q ss_pred HHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh--cCCccEEEEecCC
Q 028887 70 RELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA--QRSAVQAVIVVPT 147 (202)
Q Consensus 70 ~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 55667799999999999999999999999999999999999999999999999999999999874 2222229999999
Q ss_pred HHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 148 RELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 148 r~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
||||.|+++.++.++.+.. .+++..++||.+...|.+.++.
T Consensus 109 RELA~Qi~~~~~~~~~~~~-------~~~~~~i~GG~~~~~q~~~l~~ 149 (513)
T COG0513 109 RELAVQIAEELRKLGKNLG-------GLRVAVVYGGVSIRKQIEALKR 149 (513)
T ss_pred HHHHHHHHHHHHHHHhhcC-------CccEEEEECCCCHHHHHHHHhc
Confidence 9999999999999998752 3678999999999999877765
No 5
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.88 E-value=4.2e-22 Score=175.87 Aligned_cols=116 Identities=28% Similarity=0.376 Sum_probs=101.4
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-------CccEEEE
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 456669999999999999999999999999999999999999999999999999999999886422 3578999
Q ss_pred ecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 144 VVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 144 l~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
|+||+|||.|+++++..++... ++.+..++||.....+.+.++
T Consensus 89 l~PtreLa~Qi~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~l~ 131 (423)
T PRK04837 89 MAPTRELAVQIHADAEPLAQAT--------GLKLGLAYGGDGYDKQLKVLE 131 (423)
T ss_pred ECCcHHHHHHHHHHHHHHhccC--------CceEEEEECCCCHHHHHHHhc
Confidence 9999999999999999998876 577777888877777665543
No 6
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.88 E-value=1.2e-21 Score=177.12 Aligned_cols=121 Identities=29% Similarity=0.456 Sum_probs=107.3
Q ss_pred cchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh-------cCCc
Q 028887 66 SLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-------QRSA 138 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-------~~~~ 138 (202)
..++.+|.+.++++.+++.+.+.||..|||+|.++||.++.|+|+++.++||||||++|++|++..+.. ...+
T Consensus 117 p~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~ 196 (518)
T PLN00206 117 PPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRN 196 (518)
T ss_pred CchhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCC
Confidence 367888888899999999999999999999999999999999999999999999999999999988753 1246
Q ss_pred cEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 139 VQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 139 ~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
+++|||+||||||.|+.+.++.++... .+.+..++||.....|..+++
T Consensus 197 ~~aLIL~PTreLa~Qi~~~~~~l~~~~--------~~~~~~~~gG~~~~~q~~~l~ 244 (518)
T PLN00206 197 PLAMVLTPTRELCVQVEDQAKVLGKGL--------PFKTALVVGGDAMPQQLYRIQ 244 (518)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHhCCC--------CceEEEEECCcchHHHHHHhc
Confidence 799999999999999999999998765 477888999988888766553
No 7
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.88 E-value=2.1e-22 Score=169.37 Aligned_cols=119 Identities=26% Similarity=0.403 Sum_probs=108.9
Q ss_pred hHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 68 TLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 34556667999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 148 RELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 148 r~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
||||.|+.+.|..++... ++++..++||.++-.|...|.
T Consensus 85 rELA~QiaEQF~alGk~l--------~lK~~vivGG~d~i~qa~~L~ 123 (442)
T KOG0340|consen 85 RELALQIAEQFIALGKLL--------NLKVSVIVGGTDMIMQAAILS 123 (442)
T ss_pred HHHHHHHHHHHHHhcccc--------cceEEEEEccHHHhhhhhhcc
Confidence 999999999999999876 688888999988777765553
No 8
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.87 E-value=3.9e-22 Score=174.23 Aligned_cols=119 Identities=30% Similarity=0.390 Sum_probs=108.8
Q ss_pred HHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC---CccEEEEec
Q 028887 69 LRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---SAVQAVIVV 145 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 55788889999999999999999999999999999999999999999999999999999999986433 346899999
Q ss_pred CCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 146 PTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 146 Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
|||||+.|++.+.++++... .+.+..++||-+.+.|...|+.
T Consensus 260 PTRELaiQv~sV~~qlaqFt--------~I~~~L~vGGL~lk~QE~~LRs 301 (691)
T KOG0338|consen 260 PTRELAIQVHSVTKQLAQFT--------DITVGLAVGGLDLKAQEAVLRS 301 (691)
T ss_pred ccHHHHHHHHHHHHHHHhhc--------cceeeeeecCccHHHHHHHHhh
Confidence 99999999999999999987 6899999999999999887764
No 9
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.87 E-value=2.3e-21 Score=172.88 Aligned_cols=117 Identities=33% Similarity=0.439 Sum_probs=103.7
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 46667999999999999999999999999999999999999999999999999999999999876667799999999999
Q ss_pred HHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 151 GMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
+.|+.+.++.++.... ++.+..++||.+...|.+.++
T Consensus 85 a~Q~~~~~~~~~~~~~-------~~~v~~~~Gg~~~~~~~~~l~ 121 (460)
T PRK11776 85 ADQVAKEIRRLARFIP-------NIKVLTLCGGVPMGPQIDSLE 121 (460)
T ss_pred HHHHHHHHHHHHhhCC-------CcEEEEEECCCChHHHHHHhc
Confidence 9999999999986532 367777888888877766554
No 10
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.87 E-value=3.1e-21 Score=176.20 Aligned_cols=116 Identities=28% Similarity=0.378 Sum_probs=102.9
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-------CccEEEE
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 356669999999999999999999999999999999999999999999999999999999885421 2479999
Q ss_pred ecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 144 VVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 144 l~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
|+||+||+.|+++.++.++... ++++..++||.....|.++++
T Consensus 90 l~PTreLa~Qi~~~~~~l~~~~--------~i~v~~l~Gg~~~~~q~~~l~ 132 (572)
T PRK04537 90 LAPTRELAIQIHKDAVKFGADL--------GLRFALVYGGVDYDKQRELLQ 132 (572)
T ss_pred EeCcHHHHHHHHHHHHHHhccC--------CceEEEEECCCCHHHHHHHHh
Confidence 9999999999999999998765 578888888888888777664
No 11
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.86 E-value=3.4e-21 Score=171.78 Aligned_cols=115 Identities=29% Similarity=0.429 Sum_probs=101.4
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC------CccEEEEe
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR------SAVQAVIV 144 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~------~~~~~Lil 144 (202)
.|.+.|+++.+++.+.++||..||++|.++||.++.|+|+++++|||||||++|++|+++.+.... ..+++|||
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil 81 (456)
T PRK10590 2 SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALIL 81 (456)
T ss_pred CHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEE
Confidence 356679999999999999999999999999999999999999999999999999999999986432 24589999
Q ss_pred cCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHH
Q 028887 145 VPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 145 ~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l 193 (202)
+||+|||.|+.+.++.+.... .+.+..+++|.....|..++
T Consensus 82 ~PtreLa~Qi~~~~~~~~~~~--------~~~~~~~~gg~~~~~~~~~l 122 (456)
T PRK10590 82 TPTRELAAQIGENVRDYSKYL--------NIRSLVVFGGVSINPQMMKL 122 (456)
T ss_pred eCcHHHHHHHHHHHHHHhccC--------CCEEEEEECCcCHHHHHHHH
Confidence 999999999999999998765 57788888888877765544
No 12
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.86 E-value=6.9e-21 Score=175.35 Aligned_cols=116 Identities=29% Similarity=0.416 Sum_probs=103.2
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 36666999999999999999999999999999999999999999999999999999999998776667899999999999
Q ss_pred HHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHH
Q 028887 151 GMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l 193 (202)
+.|+.+.++.+..... ++.++.+++|.....|.+.+
T Consensus 87 a~Qv~~~l~~~~~~~~-------~i~v~~~~gG~~~~~q~~~l 122 (629)
T PRK11634 87 AVQVAEAMTDFSKHMR-------GVNVVALYGGQRYDVQLRAL 122 (629)
T ss_pred HHHHHHHHHHHHhhcC-------CceEEEEECCcCHHHHHHHh
Confidence 9999999999886542 46788889998877665544
No 13
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.86 E-value=1e-21 Score=169.12 Aligned_cols=124 Identities=28% Similarity=0.326 Sum_probs=103.7
Q ss_pred hHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh------cCCccEE
Q 028887 68 TLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQA 141 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~------~~~~~~~ 141 (202)
....|++.|+++.+++++.+.||+.||-+|+.+||.++.|+|++..|.||||||.+|++|+++.+.. +..++.+
T Consensus 17 ~~ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa 96 (569)
T KOG0346|consen 17 KEKTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSA 96 (569)
T ss_pred hhccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhccccccccee
Confidence 3366777799999999999999999999999999999999999999999999999999999998753 3357899
Q ss_pred EEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHhc
Q 028887 142 VIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVLY 197 (202)
Q Consensus 142 Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l~ 197 (202)
+||+||||||.|++.++.++..+... .++++-+....+......||-.+.
T Consensus 97 ~iLvPTkEL~qQvy~viekL~~~c~k------~lr~~nl~s~~sdsv~~~~L~d~p 146 (569)
T KOG0346|consen 97 VILVPTKELAQQVYKVIEKLVEYCSK------DLRAINLASSMSDSVNSVALMDLP 146 (569)
T ss_pred EEEechHHHHHHHHHHHHHHHHHHHH------hhhhhhhhcccchHHHHHHHccCC
Confidence 99999999999999999888766532 366666666655555556665443
No 14
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.85 E-value=1e-20 Score=163.88 Aligned_cols=120 Identities=28% Similarity=0.462 Sum_probs=102.0
Q ss_pred hHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-----CccEEE
Q 028887 68 TLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-----SAVQAV 142 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~-----~~~~~L 142 (202)
.|.+|.. .|.+++++++...||+.+||+|..+||.+++++|+++.++||||||+||++|+++.+.+.. ..+.+|
T Consensus 5 ~~~~l~~-~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgal 83 (567)
T KOG0345|consen 5 SFSSLAP-PLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGAL 83 (567)
T ss_pred chhhcCC-CccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEE
Confidence 3444432 2669999999999999999999999999999999999999999999999999999995432 135799
Q ss_pred EecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 143 IVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 143 il~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
||+|||||+.||.+++..|..... ++...+++||....+..+.++.
T Consensus 84 IIsPTRELa~QI~~V~~~F~~~l~-------~l~~~l~vGG~~v~~Di~~fke 129 (567)
T KOG0345|consen 84 IISPTRELARQIREVAQPFLEHLP-------NLNCELLVGGRSVEEDIKTFKE 129 (567)
T ss_pred EecCcHHHHHHHHHHHHHHHHhhh-------ccceEEEecCccHHHHHHHHHH
Confidence 999999999999999999988732 5788899999888887666554
No 15
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=3.7e-20 Score=165.83 Aligned_cols=116 Identities=27% Similarity=0.375 Sum_probs=100.9
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-------CccEEEE
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-------SAVQAVI 143 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 355569999999999999999999999999999999999999999999999999999999886542 1468999
Q ss_pred ecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 144 VVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 144 l~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
|+||+||+.|+.+.++.+.... ++.+..++||.+...+.+.+.
T Consensus 168 l~PtreLa~Q~~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~~~ 210 (475)
T PRK01297 168 IAPTRELVVQIAKDAAALTKYT--------GLNVMTFVGGMDFDKQLKQLE 210 (475)
T ss_pred EeCcHHHHHHHHHHHHHhhccC--------CCEEEEEEccCChHHHHHHHh
Confidence 9999999999999999998765 467777788877777665543
No 16
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.84 E-value=1.2e-20 Score=165.67 Aligned_cols=120 Identities=33% Similarity=0.500 Sum_probs=99.6
Q ss_pred hHHHHHhCCCCHHHHHHHH-HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc------CCccE
Q 028887 68 TLRELCQGHVPEHVLRRME-ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ------RSAVQ 140 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~-~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 3445667799999999994 5799999999999999999999999999999999999999999998653 35788
Q ss_pred EEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCC-ccHHHHHHHHH
Q 028887 141 AVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGG-MLRRHKSWLKV 195 (202)
Q Consensus 141 ~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~l~~ 195 (202)
||||+||||||.|+++.+.++.... -..|.|++-|+ ....++..|++
T Consensus 214 ALVivPTREL~~Q~y~~~qKLl~~~--------hWIVPg~lmGGEkkKSEKARLRK 261 (708)
T KOG0348|consen 214 ALVIVPTRELALQIYETVQKLLKPF--------HWIVPGVLMGGEKKKSEKARLRK 261 (708)
T ss_pred EEEEechHHHHHHHHHHHHHHhcCc--------eEEeeceeecccccccHHHHHhc
Confidence 9999999999999999999998865 45666655554 44444555543
No 17
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.84 E-value=3.8e-20 Score=163.80 Aligned_cols=116 Identities=31% Similarity=0.459 Sum_probs=101.1
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc----CCccEEEEecC
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ----RSAVQAVIVVP 146 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 46777999999999999999999999999999999999999999999999999999999988532 22468999999
Q ss_pred CHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 147 TRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 147 tr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
|+||+.|+.+++..++... ++.+..++||.....+..++.
T Consensus 82 t~eLa~Q~~~~~~~l~~~~--------~~~v~~~~gg~~~~~~~~~l~ 121 (434)
T PRK11192 82 TRELAMQVADQARELAKHT--------HLDIATITGGVAYMNHAEVFS 121 (434)
T ss_pred cHHHHHHHHHHHHHHHccC--------CcEEEEEECCCCHHHHHHHhc
Confidence 9999999999999998775 467777777777777665543
No 18
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=2.4e-21 Score=159.13 Aligned_cols=123 Identities=28% Similarity=0.408 Sum_probs=114.2
Q ss_pred CCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEE
Q 028887 64 NNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI 143 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Li 143 (202)
........|.++|+.+++++++.+.||++|+.+|+.||+.|+.|+|+++++.+|+|||.+|-+.+++.++-+.+..++||
T Consensus 21 ~~~~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~li 100 (400)
T KOG0328|consen 21 EKVKVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALI 100 (400)
T ss_pred cCcccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEE
Confidence 34456778888999999999999999999999999999999999999999999999999999999999988888889999
Q ss_pred ecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 144 VVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 144 l~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
|+||||||.|+.+++..++++. ++.+-+|+||.+..+..+.+.
T Consensus 101 lsPTRELa~Qi~~vi~alg~~m--------nvq~hacigg~n~gedikkld 143 (400)
T KOG0328|consen 101 LSPTRELAVQIQKVILALGDYM--------NVQCHACIGGKNLGEDIKKLD 143 (400)
T ss_pred ecChHHHHHHHHHHHHHhcccc--------cceEEEEecCCccchhhhhhc
Confidence 9999999999999999999987 789999999999888877765
No 19
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.83 E-value=1.3e-20 Score=175.42 Aligned_cols=123 Identities=32% Similarity=0.442 Sum_probs=113.8
Q ss_pred cchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-----CCccE
Q 028887 66 SLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQ 140 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-----~~~~~ 140 (202)
..++..|.+.|+...++..++++||.+|++||.+|||.|+.|+|+|.+|.||||||++|++|++.++... ..+|.
T Consensus 361 pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi 440 (997)
T KOG0334|consen 361 PKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPI 440 (997)
T ss_pred CcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCce
Confidence 4688899999999999999999999999999999999999999999999999999999999999877533 24899
Q ss_pred EEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 141 AVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 141 ~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+|||+|||||+.||++.++.|+... +++++++|||.....|+..++..
T Consensus 441 ~li~aPtrela~QI~r~~~kf~k~l--------~ir~v~vygg~~~~~qiaelkRg 488 (997)
T KOG0334|consen 441 ALILAPTRELAMQIHREVRKFLKLL--------GIRVVCVYGGSGISQQIAELKRG 488 (997)
T ss_pred EEEEcCCHHHHHHHHHHHHHHHhhc--------CceEEEecCCccHHHHHHHHhcC
Confidence 9999999999999999999999875 79999999999999999998865
No 20
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.83 E-value=2.9e-20 Score=161.79 Aligned_cols=125 Identities=27% Similarity=0.403 Sum_probs=111.3
Q ss_pred CCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC----Ccc
Q 028887 64 NNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR----SAV 139 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 3456677788889999999999999999999999999999999999999999999999999999999987643 467
Q ss_pred EEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 140 QAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 140 ~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
.++|++||||||.|++.+++++..+.. .+.+..++||.+.....+.+..
T Consensus 156 ~vlIi~PTRELA~Q~~~eak~Ll~~h~-------~~~v~~viGG~~~~~e~~kl~k 204 (543)
T KOG0342|consen 156 GVLIICPTRELAMQIFAEAKELLKYHE-------SITVGIVIGGNNFSVEADKLVK 204 (543)
T ss_pred eEEEecccHHHHHHHHHHHHHHHhhCC-------CcceEEEeCCccchHHHHHhhc
Confidence 899999999999999999999998864 4788889999988877776654
No 21
>PTZ00424 helicase 45; Provisional
Probab=99.82 E-value=2.1e-19 Score=157.06 Aligned_cols=115 Identities=29% Similarity=0.425 Sum_probs=99.3
Q ss_pred hHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 68 TLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 45677778999999999999999999999999999999999999999999999999999999988765556789999999
Q ss_pred HHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHH
Q 028887 148 RELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 148 r~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
++|+.|+.+.++.++... .+.+..+++|.....+.
T Consensus 106 ~~L~~Q~~~~~~~~~~~~--------~~~~~~~~g~~~~~~~~ 140 (401)
T PTZ00424 106 RELAQQIQKVVLALGDYL--------KVRCHACVGGTVVRDDI 140 (401)
T ss_pred HHHHHHHHHHHHHHhhhc--------CceEEEEECCcCHHHHH
Confidence 999999999999998654 34555566666555443
No 22
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.82 E-value=2.6e-20 Score=163.99 Aligned_cols=125 Identities=28% Similarity=0.410 Sum_probs=111.9
Q ss_pred CCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhc-------
Q 028887 64 NNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQ------- 135 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~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 35567888988899999999999999999999999999999998 8999999999999999999999955321
Q ss_pred ----CCccE--EEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 136 ----RSAVQ--AVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 136 ----~~~~~--~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
..+++ +||++||||||.|+.+.+..++..+ ++++..++||-..++|.+.|+..
T Consensus 255 ~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t--------~i~v~si~GGLavqKQqRlL~~~ 313 (731)
T KOG0347|consen 255 SNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKT--------QIRVASITGGLAVQKQQRLLNQR 313 (731)
T ss_pred hhHHhccCcceeEEecChHHHHHHHHHHHHHhcccc--------CeEEEEeechhHHHHHHHHHhcC
Confidence 23455 9999999999999999999999987 79999999999999999888763
No 23
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.81 E-value=6e-21 Score=159.03 Aligned_cols=113 Identities=30% Similarity=0.513 Sum_probs=105.3
Q ss_pred HHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 69 LRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
=..|++.++.++++..+.+.||+.|+|+|.++||.++.|+|+++.|..|+|||-+|++|+++.++..+...+++|++|||
T Consensus 84 G~efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtr 163 (459)
T KOG0326|consen 84 GNEFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTR 163 (459)
T ss_pred CccHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecc
Confidence 34566669999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHH
Q 028887 149 ELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRH 189 (202)
Q Consensus 149 ~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 189 (202)
|||.|+.+.++++++.. ++.+....||.++++.
T Consensus 164 elALQtSqvc~~lskh~--------~i~vmvttGGT~lrDD 196 (459)
T KOG0326|consen 164 ELALQTSQVCKELSKHL--------GIKVMVTTGGTSLRDD 196 (459)
T ss_pred hhhHHHHHHHHHHhccc--------CeEEEEecCCcccccc
Confidence 99999999999999987 6888888888888765
No 24
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.81 E-value=6.2e-20 Score=161.78 Aligned_cols=122 Identities=25% Similarity=0.429 Sum_probs=109.6
Q ss_pred CcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC----CccE
Q 028887 65 NSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR----SAVQ 140 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 356778899999999999999999999999999999999999999999999999999999999999998643 5788
Q ss_pred EEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 141 AVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 141 ~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~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 9999999999999999999999987 577778888888766655544
No 25
>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=99.79 E-value=1.1e-18 Score=163.54 Aligned_cols=108 Identities=23% Similarity=0.366 Sum_probs=93.4
Q ss_pred CCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 76 HVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 76 gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 488999999999999999999999999999999999999999999999999999998753 4569999999999999999
Q ss_pred HHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 156 KVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
+.+++++.. +++ +.+++|.....++++++
T Consensus 99 ~~l~~l~~~---------~i~-v~~~~Gdt~~~~r~~i~ 127 (742)
T TIGR03817 99 RAVRELTLR---------GVR-PATYDGDTPTEERRWAR 127 (742)
T ss_pred HHHHHhccC---------CeE-EEEEeCCCCHHHHHHHh
Confidence 999999721 234 46677766666666554
No 26
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=3.1e-19 Score=156.20 Aligned_cols=122 Identities=30% Similarity=0.364 Sum_probs=111.9
Q ss_pred CcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-----CCcc
Q 028887 65 NSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAV 139 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-----~~~~ 139 (202)
...++..|+.-|+.+.|..++++..|+.||++|.+++|..+.|+|++..|.||||||-+|+.|++.+++.. +.+|
T Consensus 218 ~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gP 297 (731)
T KOG0339|consen 218 PPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGP 297 (731)
T ss_pred CCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCC
Confidence 44566677777999999999999999999999999999999999999999999999999999999888643 3578
Q ss_pred EEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 140 QAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 140 ~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
.++|+|||||||.|++.++++|++.. +++++++|||++..+|.+.|+
T Consensus 298 i~vilvPTrela~Qi~~eaKkf~K~y--------gl~~v~~ygGgsk~eQ~k~Lk 344 (731)
T KOG0339|consen 298 IGVILVPTRELASQIFSEAKKFGKAY--------GLRVVAVYGGGSKWEQSKELK 344 (731)
T ss_pred eEEEEeccHHHHHHHHHHHHHhhhhc--------cceEEEeecCCcHHHHHHhhh
Confidence 99999999999999999999999877 799999999999999999887
No 27
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=1.2e-19 Score=159.02 Aligned_cols=121 Identities=27% Similarity=0.388 Sum_probs=108.2
Q ss_pred chHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC----------
Q 028887 67 LTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---------- 136 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~---------- 136 (202)
..+..|.+..+.+.+..++...||..|||+|+.+||.+..|+|+++||+||||||.+|++|++..+...+
T Consensus 71 ~~i~~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~ 150 (482)
T KOG0335|consen 71 PHIPTFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGG 150 (482)
T ss_pred CCcccccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCC
Confidence 4566888888999999999999999999999999999999999999999999999999999999987543
Q ss_pred CccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 137 SAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 137 ~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
.+|++|||+|||||+.|++++.+++.... .+..+.+|+|.+...|.+.++.
T Consensus 151 ~~P~~lIlapTReL~~Qi~nea~k~~~~s--------~~~~~~~ygg~~~~~q~~~~~~ 201 (482)
T KOG0335|consen 151 VYPRALILAPTRELVDQIYNEARKFSYLS--------GMKSVVVYGGTDLGAQLRFIKR 201 (482)
T ss_pred CCCceEEEeCcHHHhhHHHHHHHhhcccc--------cceeeeeeCCcchhhhhhhhcc
Confidence 36899999999999999999999998876 6888999999888888766554
No 28
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.78 E-value=1.1e-18 Score=153.20 Aligned_cols=122 Identities=28% Similarity=0.391 Sum_probs=110.3
Q ss_pred CcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc---------
Q 028887 65 NSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ--------- 135 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~--------- 135 (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 34689999999999999999999999999999999999999999999999999999999999999877532
Q ss_pred CCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 136 RSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 136 ~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
-.++.++||.|||+|+.||.+.-.+|+... +++++.++||.+..+|--.+.
T Consensus 320 ~~gpyaiilaptReLaqqIeeEt~kf~~~l--------g~r~vsvigg~s~EEq~fqls 370 (673)
T KOG0333|consen 320 IEGPYAIILAPTRELAQQIEEETNKFGKPL--------GIRTVSVIGGLSFEEQGFQLS 370 (673)
T ss_pred ccCceeeeechHHHHHHHHHHHHHHhcccc--------cceEEEEecccchhhhhhhhh
Confidence 247899999999999999999999999887 699999999999998844443
No 29
>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=99.77 E-value=1.4e-17 Score=132.65 Aligned_cols=110 Identities=35% Similarity=0.535 Sum_probs=94.5
Q ss_pred HhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc--CCccEEEEecCCHHh
Q 028887 73 CQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ--RSAVQAVIVVPTREL 150 (202)
Q Consensus 73 ~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~--~~~~~~Lil~Ptr~L 150 (202)
.+.++++.+.+.+.+.|++.|++.|.++++.+.+|+++++.+|||+|||++|++|+++.+... ..+++++|++|+++|
T Consensus 2 ~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L 81 (203)
T cd00268 2 EELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTREL 81 (203)
T ss_pred CcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHH
Confidence 456899999999999999999999999999999999999999999999999999999998876 456799999999999
Q ss_pred HHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHH
Q 028887 151 GMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
+.|+.+.++.+.... ++.+..+.++....+..
T Consensus 82 ~~q~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~ 113 (203)
T cd00268 82 ALQIAEVARKLGKHT--------NLKVVVIYGGTSIDKQI 113 (203)
T ss_pred HHHHHHHHHHHhccC--------CceEEEEECCCCHHHHH
Confidence 999999999988653 35555555555544433
No 30
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.76 E-value=5.8e-19 Score=149.85 Aligned_cols=122 Identities=30% Similarity=0.420 Sum_probs=112.2
Q ss_pred chHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 67 LTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 46678999999999999999999999999999999999999999999999999999999999999987777889999999
Q ss_pred CHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 147 TRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 147 tr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+||||.|+.++...++... +..+..++||.....+...++..
T Consensus 103 treLa~qi~~v~~~lg~~~--------~~~v~~~igg~~~~~~~~~i~~~ 144 (397)
T KOG0327|consen 103 TRELAQQIQKVVRALGDHM--------DVSVHACIGGTNVRREDQALLKD 144 (397)
T ss_pred hHHHHHHHHHHHHhhhccc--------ceeeeeecCcccchhhhhhhhcc
Confidence 9999999999999999886 67888899999988777666654
No 31
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.75 E-value=1.8e-18 Score=148.46 Aligned_cols=115 Identities=30% Similarity=0.476 Sum_probs=104.6
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-CccEEEEecCCHH
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRE 149 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~-~~~~~Lil~Ptr~ 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 345559999999999999999999999999999999999999999999999999999999987644 4679999999999
Q ss_pred hHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHH
Q 028887 150 LGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l 193 (202)
|+.|+.++++.++... .++..+++||..+.+|-..|
T Consensus 102 La~qtlkvvkdlgrgt--------~lr~s~~~ggD~~eeqf~~l 137 (529)
T KOG0337|consen 102 LALQTLKVVKDLGRGT--------KLRQSLLVGGDSIEEQFILL 137 (529)
T ss_pred HHHHHHHHHHHhcccc--------chhhhhhcccchHHHHHHHh
Confidence 9999999999999987 57888899999999886555
No 32
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.73 E-value=3.5e-18 Score=146.56 Aligned_cols=158 Identities=27% Similarity=0.378 Sum_probs=117.4
Q ss_pred ccccccccCCCCCCchHHHHHhccC-CCCHHHHHcc----cCCCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHH
Q 028887 27 IDFTNRAFLPVSISLKPLRAVLSSS-AVSTEELAAG----TGNNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREAL 101 (202)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~----~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i 101 (202)
..|..++......+...+......+ .+..+++.++ .+.+..+|.+- .+-.+++++.+.+.||.+|||+|.++|
T Consensus 174 knfYke~~e~s~ls~~q~~~~r~en~~it~dd~K~gekrpIPnP~ctFddA--Fq~~pevmenIkK~GFqKPtPIqSQaW 251 (629)
T KOG0336|consen 174 KNFYKESNETSNLSKEQLQEWRKENFNITCDDLKEGEKRPIPNPVCTFDDA--FQCYPEVMENIKKTGFQKPTPIQSQAW 251 (629)
T ss_pred hhhhhcCchhccCCHHHHHHHHHcCCcEEecccccCCcccCCCCcCcHHHH--HhhhHHHHHHHHhccCCCCCcchhccc
Confidence 3444444444444444444444332 2333333221 23333444331 256789999999999999999999999
Q ss_pred HhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh------cCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccc
Q 028887 102 PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA------QRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLC 175 (202)
Q Consensus 102 ~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~------~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~ 175 (202)
|.+++|.|++..|.||+|||++||+|-+.++.. ...++.+|++.|||||+.|+.-+.+++..+ +.
T Consensus 252 PI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyn---------g~ 322 (629)
T KOG0336|consen 252 PILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYN---------GL 322 (629)
T ss_pred ceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhc---------Cc
Confidence 999999999999999999999999998766542 345789999999999999999888888765 57
Q ss_pred eEEEEEeCCccHHHHHHHHH
Q 028887 176 TVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 176 ~~~~~~~g~~~~~~~~~l~~ 195 (202)
+.+|+|||++..+|.+.++.
T Consensus 323 ksvc~ygggnR~eqie~lkr 342 (629)
T KOG0336|consen 323 KSVCVYGGGNRNEQIEDLKR 342 (629)
T ss_pred ceEEEecCCCchhHHHHHhc
Confidence 78999999999999888764
No 33
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.73 E-value=5.8e-18 Score=137.70 Aligned_cols=126 Identities=21% Similarity=0.377 Sum_probs=114.1
Q ss_pred CCCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEE
Q 028887 63 GNNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAV 142 (202)
Q Consensus 63 ~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~L 142 (202)
+..+.-|++| -+.|++++++-++||++|+++|.+|||...-|.|++++|.+|-|||.+|+++.+++++.-...+.+|
T Consensus 38 ~ihssgfrdf---llkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvl 114 (387)
T KOG0329|consen 38 SIHSSGFRDF---LLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVL 114 (387)
T ss_pred EEeccchhhh---hcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEE
Confidence 3455667777 6889999999999999999999999999999999999999999999999999999999887888999
Q ss_pred EecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHhcC
Q 028887 143 IVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVLYS 198 (202)
Q Consensus 143 il~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l~~ 198 (202)
++|.|||||.|+.+.+.++..+.+ ..++...+||..++++.+.|+...+
T Consensus 115 vmchtrelafqi~~ey~rfskymP-------~vkvaVFfGG~~Ikkdee~lk~~Ph 163 (387)
T KOG0329|consen 115 VMCHTRELAFQISKEYERFSKYMP-------SVKVSVFFGGLFIKKDEELLKNCPH 163 (387)
T ss_pred EEeccHHHHHHHHHHHHHHHhhCC-------CceEEEEEcceeccccHHHHhCCCe
Confidence 999999999999999999999876 4788999999999998888876543
No 34
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.72 E-value=2.5e-18 Score=146.66 Aligned_cols=129 Identities=26% Similarity=0.394 Sum_probs=109.9
Q ss_pred CCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh--------c
Q 028887 64 NNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA--------Q 135 (202)
Q Consensus 64 ~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~--------~ 135 (202)
.-+.++++|.++.++..+++.+.+.|+.+|||+|-+.+|.+++|+|.+..|-||||||++|.+|++-.... .
T Consensus 164 ~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~ 243 (610)
T KOG0341|consen 164 DIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFAR 243 (610)
T ss_pred CCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCcccc
Confidence 45578999999999999999999999999999999999999999999999999999999999999765432 2
Q ss_pred CCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 136 RSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 136 ~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
..+|-.||+||+||||.|+++.+..++........+ .++...|+||..+..|.+-.+
T Consensus 244 ~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P--~lRs~LciGG~~v~eql~~v~ 300 (610)
T KOG0341|consen 244 GEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYP--ELRSLLCIGGVPVREQLDVVR 300 (610)
T ss_pred CCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCCh--hhhhhhhhcCccHHHHHHHHh
Confidence 357899999999999999999988887643322222 577788999999999876654
No 35
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.71 E-value=1.3e-17 Score=141.50 Aligned_cols=105 Identities=24% Similarity=0.402 Sum_probs=98.2
Q ss_pred ccCCCcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHHHHHHHHHHhcCCc
Q 028887 61 GTGNNSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138 (202)
Q Consensus 61 ~~~~~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l~~~l~~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 44556678999999999999999999999999999999999999875 7899999999999999999999999988889
Q ss_pred cEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 139 VQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 139 ~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
|+++.|+||||||.|+.+++.++++..
T Consensus 161 PQ~iCLaPtrELA~Q~~eVv~eMGKf~ 187 (477)
T KOG0332|consen 161 PQCICLAPTRELAPQTGEVVEEMGKFT 187 (477)
T ss_pred CCceeeCchHHHHHHHHHHHHHhcCce
Confidence 999999999999999999999999876
No 36
>PRK02362 ski2-like helicase; Provisional
Probab=99.69 E-value=1.9e-16 Score=148.74 Aligned_cols=89 Identities=24% Similarity=0.279 Sum_probs=82.0
Q ss_pred HHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 72 LCQGHVPEHVLRRMEETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 45669999999999999999999999999998 778999999999999999999999999987555 89999999999
Q ss_pred HHHHHHHHHHhhc
Q 028887 151 GMQVTKVARVLAA 163 (202)
Q Consensus 151 a~Q~~~~~~~l~~ 163 (202)
+.|+++.++++..
T Consensus 80 a~q~~~~~~~~~~ 92 (737)
T PRK02362 80 ASEKFEEFERFEE 92 (737)
T ss_pred HHHHHHHHHHhhc
Confidence 9999999998753
No 37
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.65 E-value=2.6e-16 Score=137.65 Aligned_cols=105 Identities=30% Similarity=0.399 Sum_probs=85.8
Q ss_pred HHHHHHCCCCCCcHHHHHHHHhHH---------cCCcEEEeccCCCchHHHHHHHHHHHHHhc-CCccEEEEecCCHHhH
Q 028887 82 LRRMEETGYVLPTDIQREALPVLF---------SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-RSAVQAVIVVPTRELG 151 (202)
Q Consensus 82 ~~~l~~~g~~~~t~~Q~~~i~~i~---------~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-~~~~~~Lil~Ptr~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 344788999999999999999874 257999999999999999999999998765 3457999999999999
Q ss_pred HHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 152 MQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 152 ~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
.|+++.|.+++... ++.|....|-.+...+.+.|.
T Consensus 229 ~QV~~~f~~~~~~t--------gL~V~~~sgq~sl~~E~~qL~ 263 (620)
T KOG0350|consen 229 LQVYDTFKRLNSGT--------GLAVCSLSGQNSLEDEARQLA 263 (620)
T ss_pred HHHHHHHHHhccCC--------ceEEEecccccchHHHHHHHh
Confidence 99999999999987 566544444455555555443
No 38
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.65 E-value=8e-17 Score=144.44 Aligned_cols=120 Identities=30% Similarity=0.434 Sum_probs=106.6
Q ss_pred HHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH
Q 028887 70 RELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 70 ~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~ 149 (202)
..|+++-+...++..|++.+|..||++|..|||.++.+.|+|+++.+|+|||++|.+.+++.+......++++|++||||
T Consensus 25 ~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTRE 104 (980)
T KOG4284|consen 25 PGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTRE 104 (980)
T ss_pred CCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchh
Confidence 34455578899999999999999999999999999999999999999999999999999999988888899999999999
Q ss_pred hHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 150 LGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 150 La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+|.|+.+.+..++.... ++++-..+||+.....+..|+..
T Consensus 105 iaVQI~~tv~~v~~sf~-------g~~csvfIGGT~~~~d~~rlk~~ 144 (980)
T KOG4284|consen 105 IAVQIKETVRKVAPSFT-------GARCSVFIGGTAHKLDLIRLKQT 144 (980)
T ss_pred hhhHHHHHHHHhccccc-------CcceEEEecCchhhhhhhhhhhc
Confidence 99999999999998653 57888889998887777666653
No 39
>PRK00254 ski2-like helicase; Provisional
Probab=99.64 E-value=2.1e-15 Score=141.44 Aligned_cols=89 Identities=24% Similarity=0.265 Sum_probs=80.4
Q ss_pred HHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 72 LCQGHVPEHVLRRMEETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 45668999999999999999999999999986 78999999999999999999999999987642 3489999999999
Q ss_pred HHHHHHHHHHhh
Q 028887 151 GMQVTKVARVLA 162 (202)
Q Consensus 151 a~Q~~~~~~~l~ 162 (202)
+.|+++.++.+.
T Consensus 81 a~q~~~~~~~~~ 92 (720)
T PRK00254 81 AEEKYREFKDWE 92 (720)
T ss_pred HHHHHHHHHHHh
Confidence 999999998764
No 40
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.64 E-value=3.5e-16 Score=148.05 Aligned_cols=124 Identities=28% Similarity=0.345 Sum_probs=96.1
Q ss_pred CHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHH
Q 028887 78 PEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 78 ~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~ 157 (202)
...+..++.+.|+..++.+|.+|+..+.+|++++|.++||||||++|++||++.+.++... +||+|.||++||+++.++
T Consensus 56 ~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a-~AL~lYPtnALa~DQ~~r 134 (851)
T COG1205 56 DESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA-RALLLYPTNALANDQAER 134 (851)
T ss_pred hhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc-cEEEEechhhhHhhHHHH
Confidence 3345677778899999999999999999999999999999999999999999999877655 789999999999999999
Q ss_pred HHHhhcCCC----------Cccc----------ccccceEEEEEeCCccHHHHHHHHHhcCCCCC
Q 028887 158 ARVLAAKPL----------DTDL----------EHKLCTVMALLDGGMLRRHKSWLKVLYSLTSY 202 (202)
Q Consensus 158 ~~~l~~~~~----------~~~~----------~~~~~~~~~~~~g~~~~~~~~~l~~l~~~~~~ 202 (202)
++++....+ |... +..-+++..|+|-..++.+.+|++.+++|+||
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~l 199 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYL 199 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEE
Confidence 999988654 1110 00133444444444455555677777776654
No 41
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.61 E-value=3.9e-15 Score=138.84 Aligned_cols=107 Identities=21% Similarity=0.240 Sum_probs=92.5
Q ss_pred CCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-----CCccEEEEecCCHHh
Q 028887 76 HVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQAVIVVPTREL 150 (202)
Q Consensus 76 gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-----~~~~~~Lil~Ptr~L 150 (202)
-+++.+.+.+.+. |..||+.|.++||.+..|+++++.||||||||++.++|++..+... ..++.+||++|.|+|
T Consensus 7 ~l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkAL 85 (814)
T COG1201 7 ILDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKAL 85 (814)
T ss_pred hcCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHH
Confidence 3778888888877 9999999999999999999999999999999999999999998765 346899999999999
Q ss_pred HHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHH
Q 028887 151 GMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSW 192 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 192 (202)
.+++.++++..+... ++.+ .+-||...+.+++.
T Consensus 86 n~Di~~rL~~~~~~~--------G~~v-~vRhGDT~~~er~r 118 (814)
T COG1201 86 NNDIRRRLEEPLREL--------GIEV-AVRHGDTPQSEKQK 118 (814)
T ss_pred HHHHHHHHHHHHHHc--------CCcc-ceecCCCChHHhhh
Confidence 999999999999876 3444 77888766665443
No 42
>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=99.60 E-value=1.3e-14 Score=111.79 Aligned_cols=91 Identities=30% Similarity=0.461 Sum_probs=76.3
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccc
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHK 173 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 789999999999999999999999999999999999999876 44589999999999999999999999873
Q ss_pred cceEEEEEeCCccH-HHHHHH
Q 028887 174 LCTVMALLDGGMLR-RHKSWL 193 (202)
Q Consensus 174 ~~~~~~~~~g~~~~-~~~~~l 193 (202)
++.+..++++.... .+..++
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~ 92 (169)
T PF00270_consen 72 NVRVVLLHGGQSISEDQREVL 92 (169)
T ss_dssp TSSEEEESTTSCHHHHHHHHH
T ss_pred ccccccccccccccccccccc
Confidence 35666666666544 444555
No 43
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.59 E-value=9.6e-15 Score=139.36 Aligned_cols=82 Identities=26% Similarity=0.351 Sum_probs=70.8
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc------CCccEEEEecCCHHh
Q 028887 77 VPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ------RSAVQAVIVVPTREL 150 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~------~~~~~~Lil~Ptr~L 150 (202)
+++.+.+.+.+ +|..||++|.++|+.+++|+|++++||||||||++|++|+++.+... ..++++||++|+|+|
T Consensus 18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL 96 (876)
T PRK13767 18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96 (876)
T ss_pred cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence 56666665554 78999999999999999999999999999999999999999987642 235789999999999
Q ss_pred HHHHHHHHH
Q 028887 151 GMQVTKVAR 159 (202)
Q Consensus 151 a~Q~~~~~~ 159 (202)
+.|+++.+.
T Consensus 97 a~di~~~L~ 105 (876)
T PRK13767 97 NNDIHRNLE 105 (876)
T ss_pred HHHHHHHHH
Confidence 999988765
No 44
>PRK01172 ski2-like helicase; Provisional
Probab=99.59 E-value=1.2e-14 Score=135.34 Aligned_cols=88 Identities=23% Similarity=0.270 Sum_probs=80.4
Q ss_pred HHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhH
Q 028887 72 LCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 72 l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 44568999999999999996 99999999999999999999999999999999999999887655 899999999999
Q ss_pred HHHHHHHHHhhc
Q 028887 152 MQVTKVARVLAA 163 (202)
Q Consensus 152 ~Q~~~~~~~l~~ 163 (202)
.|+++.++++..
T Consensus 79 ~q~~~~~~~l~~ 90 (674)
T PRK01172 79 MEKYEELSRLRS 90 (674)
T ss_pred HHHHHHHHHHhh
Confidence 999999987653
No 45
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.59 E-value=3.1e-15 Score=132.93 Aligned_cols=89 Identities=35% Similarity=0.568 Sum_probs=81.9
Q ss_pred CCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-----CCccEEEEecCCHH
Q 028887 75 GHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-----RSAVQAVIVVPTRE 149 (202)
Q Consensus 75 ~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-----~~~~~~Lil~Ptr~ 149 (202)
..++..+++.+...||..|+++|.+++|.++.++|++.|+|||||||++|++|+++++... ..+.+++|+.|||+
T Consensus 141 ~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptre 220 (593)
T KOG0344|consen 141 YSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRE 220 (593)
T ss_pred hhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHH
Confidence 3577889999999999999999999999999999999999999999999999999988643 35689999999999
Q ss_pred hHHHHHHHHHHhhc
Q 028887 150 LGMQVTKVARVLAA 163 (202)
Q Consensus 150 La~Q~~~~~~~l~~ 163 (202)
|+.|++.+++++..
T Consensus 221 La~Qi~re~~k~~~ 234 (593)
T KOG0344|consen 221 LAAQIYREMRKYSI 234 (593)
T ss_pred HHHHHHHHHHhcCC
Confidence 99999999999983
No 46
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.58 E-value=1.9e-14 Score=133.07 Aligned_cols=103 Identities=23% Similarity=0.257 Sum_probs=82.9
Q ss_pred HHHHHHCCCCCCcHHHHHHHHhHHcC------CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 82 LRRMEETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 82 ~~~l~~~g~~~~t~~Q~~~i~~i~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 344567888 6999999999999876 35899999999999999999999987655 8999999999999999
Q ss_pred HHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 156 KVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+.+++++... ++++..++||....+....++.+
T Consensus 302 ~~~~~l~~~~--------gi~v~lltg~~~~~~r~~~~~~i 334 (630)
T TIGR00643 302 NSLRNLLAPL--------GIEVALLTGSLKGKRRKELLETI 334 (630)
T ss_pred HHHHHHhccc--------CcEEEEEecCCCHHHHHHHHHHH
Confidence 9999998765 46666666665555444444433
No 47
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.57 E-value=2.9e-14 Score=132.94 Aligned_cols=98 Identities=20% Similarity=0.215 Sum_probs=79.0
Q ss_pred HHCCCCCCcHHHHHHHHhHHcC------CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 86 EETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~i~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 45677 6999999999999876 47999999999999999999999887655 99999999999999999999
Q ss_pred HhhcCCCCcccccccceEEEEEeCCccHHHHHHHHH
Q 028887 160 VLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
+++... ++++..++||....+..+.+..
T Consensus 332 ~l~~~~--------~i~v~ll~G~~~~~~r~~~~~~ 359 (681)
T PRK10917 332 KLLEPL--------GIRVALLTGSLKGKERREILEA 359 (681)
T ss_pred HHHhhc--------CcEEEEEcCCCCHHHHHHHHHH
Confidence 998765 3565555555554444444433
No 48
>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=99.57 E-value=4e-14 Score=135.02 Aligned_cols=107 Identities=21% Similarity=0.143 Sum_probs=84.2
Q ss_pred CHHHHHHHH-HCCCCCCcHHHHHHHHhHHcC------CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 78 PEHVLRRME-ETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 78 ~~~l~~~l~-~~g~~~~t~~Q~~~i~~i~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~L 150 (202)
...+.+.+. ..+| .||++|..||+.++++ +|.+++|+||+|||++|+.|++..+..+. +++||+||++|
T Consensus 437 ~~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~---qvlvLvPT~~L 512 (926)
T TIGR00580 437 DLEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGK---QVAVLVPTTLL 512 (926)
T ss_pred CHHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCC---eEEEEeCcHHH
Confidence 345555554 4688 5999999999999875 79999999999999999999999987765 99999999999
Q ss_pred HHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 151 GMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
|.|+++.+++++... ++++..+.++....++.+.++.+
T Consensus 513 A~Q~~~~f~~~~~~~--------~i~v~~Lsg~~~~~e~~~~~~~l 550 (926)
T TIGR00580 513 AQQHFETFKERFANF--------PVTIELLSRFRSAKEQNEILKEL 550 (926)
T ss_pred HHHHHHHHHHHhccC--------CcEEEEEeccccHHHHHHHHHHH
Confidence 999999999988764 34555555555555555555544
No 49
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.56 E-value=3.8e-14 Score=133.05 Aligned_cols=108 Identities=21% Similarity=0.205 Sum_probs=95.3
Q ss_pred CCCCHHHHHHHH-----HCCCCCC---cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 75 GHVPEHVLRRME-----ETGYVLP---TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 75 ~gl~~~l~~~l~-----~~g~~~~---t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
.++.+++.+.+. .+||..| +|+|.++++.+..+++++++++||+|||++|++|++..+..+. .++||+|
T Consensus 67 fal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~---~v~IVTp 143 (970)
T PRK12899 67 YGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK---PVHLVTV 143 (970)
T ss_pred hCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC---CeEEEeC
Confidence 378888888776 6799988 9999999999999999999999999999999999998876554 4899999
Q ss_pred CHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHH
Q 028887 147 TRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 147 tr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l 193 (202)
|++||.|+.+++..+.... ++++.+++||.+..+|++.+
T Consensus 144 TrELA~Qdae~m~~L~k~l--------GLsV~~i~GG~~~~eq~~~y 182 (970)
T PRK12899 144 NDYLAQRDCEWVGSVLRWL--------GLTTGVLVSGSPLEKRKEIY 182 (970)
T ss_pred CHHHHHHHHHHHHHHHhhc--------CCeEEEEeCCCCHHHHHHHc
Confidence 9999999999999999876 58888999998888876553
No 50
>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=99.53 E-value=5.7e-14 Score=125.88 Aligned_cols=70 Identities=21% Similarity=0.313 Sum_probs=62.9
Q ss_pred HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+||..|+|+|.++|+.++.|+|+++.+|||+|||++|++|++. .+. .+||++|+++|+.|+.+.++.++
T Consensus 6 ~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~---~~~---~~lVi~P~~~L~~dq~~~l~~~g 75 (470)
T TIGR00614 6 VFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC---SDG---ITLVISPLISLMEDQVLQLKASG 75 (470)
T ss_pred hcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH---cCC---cEEEEecHHHHHHHHHHHHHHcC
Confidence 46999999999999999999999999999999999999999875 233 69999999999999998887653
No 51
>PRK14701 reverse gyrase; Provisional
Probab=99.51 E-value=1.9e-13 Score=136.20 Aligned_cols=106 Identities=17% Similarity=0.157 Sum_probs=79.5
Q ss_pred HHHHHHH-CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 81 VLRRMEE-TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 81 l~~~l~~-~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~ 159 (202)
+.+.+++ .|| .|+++|+.+++.++.|+|+++.||||+|||++++++.+..... +.++|||+||++|+.|+.+.++
T Consensus 68 ~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~---g~~aLVl~PTreLa~Qi~~~l~ 143 (1638)
T PRK14701 68 FEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALK---GKKCYIILPTTLLVKQTVEKIE 143 (1638)
T ss_pred HHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhc---CCeEEEEECHHHHHHHHHHHHH
Confidence 3444544 799 6999999999999999999999999999999766665544333 3489999999999999999999
Q ss_pred HhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 160 VLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
.++...+ .++.+..++||.+..++.+.++.+
T Consensus 144 ~l~~~~~------~~v~v~~~~g~~s~~e~~~~~~~l 174 (1638)
T PRK14701 144 SFCEKAN------LDVRLVYYHSNLRKKEKEEFLERI 174 (1638)
T ss_pred HHHhhcC------CceeEEEEeCCCCHHHHHHHHHHH
Confidence 9987541 124445555555555555544444
No 52
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.50 E-value=2.3e-13 Score=132.41 Aligned_cols=103 Identities=20% Similarity=0.129 Sum_probs=82.8
Q ss_pred HHHHHHCCCCCCcHHHHHHHHhHHcC------CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 82 LRRMEETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 82 ~~~l~~~g~~~~t~~Q~~~i~~i~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
.+.....+| .||++|.++|+.++.+ +|++++|+||+|||++|+.+++..+..+. +++||+||++||.|++
T Consensus 591 ~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~---qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 591 QLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHK---QVAVLVPTTLLAQQHY 666 (1147)
T ss_pred HHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHH
Confidence 333466788 6999999999999887 89999999999999999999888776554 9999999999999999
Q ss_pred HHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 156 KVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 156 ~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+.+++.+... .+.+..+.++.+..++.+.++.+
T Consensus 667 ~~f~~~~~~~--------~v~i~~l~g~~s~~e~~~il~~l 699 (1147)
T PRK10689 667 DNFRDRFANW--------PVRIEMLSRFRSAKEQTQILAEA 699 (1147)
T ss_pred HHHHHhhccC--------CceEEEEECCCCHHHHHHHHHHH
Confidence 9999876653 35555566666666666555544
No 53
>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=99.48 E-value=3.6e-13 Score=131.31 Aligned_cols=82 Identities=23% Similarity=0.223 Sum_probs=67.0
Q ss_pred HHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHH
Q 028887 81 VLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 81 l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 334444433347999999999999999999999999999997 66677666543 246899999999999999999999
Q ss_pred hhcCC
Q 028887 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 98754
No 54
>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=99.46 E-value=1.8e-13 Score=128.46 Aligned_cols=105 Identities=18% Similarity=0.133 Sum_probs=80.4
Q ss_pred CCCCCCcHHHHHHHHhHHcCC-cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEE-ecCCHHhHHHHHHHHHHhhcCC
Q 028887 88 TGYVLPTDIQREALPVLFSSR-DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI-VVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~-~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Li-l~Ptr~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 5897 9999999999999998 6888899999999976654442 233444566776 5699999999999999999754
Q ss_pred CC---------------cccccccceEEEEEeCCccHHHHHHHH
Q 028887 166 LD---------------TDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 166 ~~---------------~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
.. .......+++..++||.....|.+.++
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~ 133 (844)
T TIGR02621 90 PDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDP 133 (844)
T ss_pred cccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcC
Confidence 21 011222588999999999888866554
No 55
>PRK09401 reverse gyrase; Reviewed
Probab=99.45 E-value=6.8e-13 Score=129.36 Aligned_cols=87 Identities=29% Similarity=0.302 Sum_probs=71.4
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 477 7999999999999999999999999999996 55555555543 35689999999999999999999998865
Q ss_pred cccccccceEEEEEeCCcc
Q 028887 168 TDLEHKLCTVMALLDGGML 186 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~ 186 (202)
++.+..+++|+..
T Consensus 151 ------~~~~~~~~g~~~~ 163 (1176)
T PRK09401 151 ------GCGVKILYYHSSL 163 (1176)
T ss_pred ------CceEEEEEccCCc
Confidence 4555666666553
No 56
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.43 E-value=1.4e-12 Score=120.27 Aligned_cols=69 Identities=26% Similarity=0.365 Sum_probs=62.7
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
+||..++++|.++|+.+++|+|+++.+|||+|||++|++|++.. ++ .+||++|+++|+.|+.+.++.++
T Consensus 21 fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~---~g---~tlVisPl~sL~~dqv~~l~~~g 89 (607)
T PRK11057 21 FGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL---DG---LTLVVSPLISLMKDQVDQLLANG 89 (607)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc---CC---CEEEEecHHHHHHHHHHHHHHcC
Confidence 69999999999999999999999999999999999999998742 23 69999999999999999888753
No 57
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.41 E-value=1.1e-12 Score=125.68 Aligned_cols=109 Identities=19% Similarity=0.141 Sum_probs=81.6
Q ss_pred HHHhCCCC--HHHHHHHH-HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 71 ELCQGHVP--EHVLRRME-ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 71 ~l~~~gl~--~~l~~~l~-~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 34444444 33444443 469999999999999999999999999999999999999999753 23 69999999
Q ss_pred HHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHhc
Q 028887 148 RELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVLY 197 (202)
Q Consensus 148 r~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l~ 197 (202)
++|+.++...+... ++....+.++....++.+.++.+.
T Consensus 510 iSLmqDQV~~L~~~------------GI~Aa~L~s~~s~~eq~~ilr~l~ 547 (1195)
T PLN03137 510 VSLIQDQIMNLLQA------------NIPAASLSAGMEWAEQLEILQELS 547 (1195)
T ss_pred HHHHHHHHHHHHhC------------CCeEEEEECCCCHHHHHHHHHHHH
Confidence 99998655555432 245566777777777766666543
No 58
>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=99.41 E-value=2e-12 Score=118.98 Aligned_cols=70 Identities=23% Similarity=0.284 Sum_probs=63.0
Q ss_pred HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+||..++++|.++|+.+++|+|+++.+|||+|||++|++|++. .++ .++|++|+++|+.|+.+.++.++
T Consensus 8 ~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~---~~g---~~lVisPl~sL~~dq~~~l~~~g 77 (591)
T TIGR01389 8 TFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALL---LKG---LTVVISPLISLMKDQVDQLRAAG 77 (591)
T ss_pred hcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHH---cCC---cEEEEcCCHHHHHHHHHHHHHcC
Confidence 37999999999999999999999999999999999999999874 233 68999999999999999988764
No 59
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.38 E-value=3e-12 Score=117.72 Aligned_cols=84 Identities=25% Similarity=0.158 Sum_probs=75.3
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|..+++.++.|+ ++++.||+|||++|.+|++.....+. +++|++||++||.|.++++..++...
T Consensus 100 lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G~---~v~VvTptreLA~qdae~~~~l~~~l-- 171 (656)
T PRK12898 100 LGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAGL---PVHVITVNDYLAERDAELMRPLYEAL-- 171 (656)
T ss_pred hCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcCC---eEEEEcCcHHHHHHHHHHHHHHHhhc--
Confidence 465 69999999999999999 99999999999999999998876655 99999999999999999999999876
Q ss_pred cccccccceEEEEEeCCc
Q 028887 168 TDLEHKLCTVMALLDGGM 185 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~ 185 (202)
++++.+++||.+
T Consensus 172 ------Glsv~~i~gg~~ 183 (656)
T PRK12898 172 ------GLTVGCVVEDQS 183 (656)
T ss_pred ------CCEEEEEeCCCC
Confidence 688888888754
No 60
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.35 E-value=1.1e-12 Score=118.58 Aligned_cols=152 Identities=16% Similarity=0.056 Sum_probs=94.2
Q ss_pred ceecccCCCCceeeeccCCCCCCCCccccccccCCCCCCchHHHHHhccCCCCHHHHHcccCCCcchHHHHHhCC-----
Q 028887 2 AAIAISAAHPILVTRVNHKLSSPNSIDFTNRAFLPVSISLKPLRAVLSSSAVSTEELAAGTGNNSLTLRELCQGH----- 76 (202)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g----- 76 (202)
+++.++. ++.+..+.+..++++|+..+..++... +. +..+-++++....- ..|.......-+.+.|
T Consensus 12 ~~~~~~~-~~~~~~~l~~~~~f~np~~~~~~~~r~-~~-~~~~i~~~~~~~~~------prG~~~~~~~~~~~~g~~~~~ 82 (501)
T PHA02558 12 SHVRIEC-EPSIFYELRDYFSFEVPGYKFNPKFKY-GG-WDGKIRLLDYNGLL------PYGLVGQLKKFAKNRGYSIWV 82 (501)
T ss_pred eEEEEEe-cchHHHHHHhhcceeCCCceecccccC-CC-CCceEEEeccCCCc------ccchHHHHHHHHHhcCCeEec
Confidence 4556666 888889999999999999999887622 11 11122222211100 0011111111111122
Q ss_pred ---------CCH-H----HHHHHHHCC--CCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccE
Q 028887 77 ---------VPE-H----VLRRMEETG--YVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQ 140 (202)
Q Consensus 77 ---------l~~-~----l~~~l~~~g--~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~ 140 (202)
+.+ . +.......| ...|++.|.++++.++.+++.++++|||+|||+++...+...+.. ...+
T Consensus 83 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~--~~~~ 160 (501)
T PHA02558 83 DPRIEENEDISREDFDEWVSSLEIYSGNKKIEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLEN--YEGK 160 (501)
T ss_pred CcccccCCCCCHHHHHhHhhhcccccCCCcCCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhc--CCCe
Confidence 111 1 111111111 347999999999999999999999999999999876543222332 2348
Q ss_pred EEEecCCHHhHHHHHHHHHHhhcC
Q 028887 141 AVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 141 ~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
+|||+||++|+.|+.+++++++..
T Consensus 161 vLilvpt~eL~~Q~~~~l~~~~~~ 184 (501)
T PHA02558 161 VLIIVPTTSLVTQMIDDFVDYRLF 184 (501)
T ss_pred EEEEECcHHHHHHHHHHHHHhccc
Confidence 999999999999999999988753
No 61
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.33 E-value=1.3e-11 Score=115.15 Aligned_cols=92 Identities=27% Similarity=0.351 Sum_probs=74.3
Q ss_pred CCcHHHHHHHHhHHcC---CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCc
Q 028887 92 LPTDIQREALPVLFSS---RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDT 168 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g---~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~ 168 (202)
.+++.|+++++.+.++ ++++++|+||||||++|+.++.+.+..++ ++|||+||++|+.|+.+++++.++..
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~---~vLvLvPt~~L~~Q~~~~l~~~fg~~--- 217 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGK---QALVLVPEIALTPQMLARFRARFGAP--- 217 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHHHHHHHHhCCC---
Confidence 5899999999999874 78999999999999999999988887765 89999999999999999999876432
Q ss_pred ccccccceEEEEEeCCccHH--HHHHHHHhcC
Q 028887 169 DLEHKLCTVMALLDGGMLRR--HKSWLKVLYS 198 (202)
Q Consensus 169 ~~~~~~~~~~~~~~g~~~~~--~~~~l~~l~~ 198 (202)
+.++||+.... ...|.+...+
T Consensus 218 ---------v~~~~s~~s~~~r~~~~~~~~~g 240 (679)
T PRK05580 218 ---------VAVLHSGLSDGERLDEWRKAKRG 240 (679)
T ss_pred ---------EEEEECCCCHHHHHHHHHHHHcC
Confidence 55666654333 3456655544
No 62
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.31 E-value=1.1e-11 Score=115.16 Aligned_cols=136 Identities=22% Similarity=0.286 Sum_probs=108.5
Q ss_pred hccCCCCHHHHHcccCCCcchHHHHHhCCCCHHHHHHHHH-------CC---CCCCcHHHHHHHHhHHcC----CcEEEe
Q 028887 48 LSSSAVSTEELAAGTGNNSLTLRELCQGHVPEHVLRRMEE-------TG---YVLPTDIQREALPVLFSS----RDCILH 113 (202)
Q Consensus 48 ~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~~l~~~l~~-------~g---~~~~t~~Q~~~i~~i~~g----~~~l~~ 113 (202)
..........+....+.+...++.|++.|+.+.. ..... .. ...+++.|+.++..+... ...++.
T Consensus 145 ~~~~~~~~~~l~~~~~~s~~~~~~l~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~ 223 (730)
T COG1198 145 LQGGEWTRSALAHAAGVSLSVLKGLEKKGLIEII-ELEPPLVVAPPDPSLSEWLALNQEQQAAVEAILSSLGGFAPFLLD 223 (730)
T ss_pred HcCCccchhhhhhhcchhHHHHHHHHhcCceeee-cccCCCcccccccccccccccCHHHHHHHHHHHHhcccccceeEe
Confidence 3334455666777788888999999999988654 22111 11 236789999999998655 679999
Q ss_pred ccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHH--HH
Q 028887 114 AQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRH--KS 191 (202)
Q Consensus 114 a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~--~~ 191 (202)
|.||||||++|+-.+.+.+..|+ ++|+|+|+++|..|+.++|+..++.. ++++|.+-.+.+ ..
T Consensus 224 GvTGSGKTEvYl~~i~~~L~~Gk---qvLvLVPEI~Ltpq~~~rf~~rFg~~------------v~vlHS~Ls~~er~~~ 288 (730)
T COG1198 224 GVTGSGKTEVYLEAIAKVLAQGK---QVLVLVPEIALTPQLLARFKARFGAK------------VAVLHSGLSPGERYRV 288 (730)
T ss_pred CCCCCcHHHHHHHHHHHHHHcCC---EEEEEeccccchHHHHHHHHHHhCCC------------hhhhcccCChHHHHHH
Confidence 99999999999999999999998 99999999999999999999999854 778888655544 78
Q ss_pred HHHHhcCC
Q 028887 192 WLKVLYSL 199 (202)
Q Consensus 192 ~l~~l~~~ 199 (202)
|++..++-
T Consensus 289 W~~~~~G~ 296 (730)
T COG1198 289 WRRARRGE 296 (730)
T ss_pred HHHHhcCC
Confidence 99988764
No 63
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.18 E-value=1e-10 Score=109.93 Aligned_cols=86 Identities=29% Similarity=0.341 Sum_probs=72.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 77 VPEHVLRRMEETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 666777777778887888878777766 45579999999999999999999999999875 237999999999999999
Q ss_pred HHHHHhhcC
Q 028887 156 KVARVLAAK 164 (202)
Q Consensus 156 ~~~~~l~~~ 164 (202)
+.|.++...
T Consensus 94 ~~~~~~~~~ 102 (766)
T COG1204 94 EEFSRLEEL 102 (766)
T ss_pred HHhhhHHhc
Confidence 999955544
No 64
>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=99.13 E-value=2.8e-10 Score=105.70 Aligned_cols=89 Identities=21% Similarity=0.150 Sum_probs=74.4
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
+|. .|+++|..+.+.+..|+ ++.++||+|||++|.+|++-....++ ++.|++||++||.|..+++..+....
T Consensus 53 lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~G~---~V~VvTpt~~LA~qdae~~~~l~~~L-- 124 (745)
T TIGR00963 53 LGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALTGK---GVHVVTVNDYLAQRDAEWMGQVYRFL-- 124 (745)
T ss_pred hCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHhCC---CEEEEcCCHHHHHHHHHHHHHHhccC--
Confidence 476 69999999999888886 89999999999999999954444455 79999999999999999999999886
Q ss_pred cccccccceEEEEEeCCccHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
++++.++++|.....++
T Consensus 125 ------GLsv~~i~g~~~~~~r~ 141 (745)
T TIGR00963 125 ------GLSVGLILSGMSPEERR 141 (745)
T ss_pred ------CCeEEEEeCCCCHHHHH
Confidence 57888787776654433
No 65
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.13 E-value=8.8e-10 Score=85.41 Aligned_cols=77 Identities=36% Similarity=0.486 Sum_probs=68.0
Q ss_pred CCCCCCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 88 TGYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
.++..+++.|.++++.+..+ +.+++.++||+|||.+++.+++..+.... ..++++++|+++++.|+.+.+..++...
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSL 81 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence 46678999999999999998 99999999999999999999999887652 2379999999999999999999888653
No 66
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.13 E-value=3.4e-10 Score=106.28 Aligned_cols=90 Identities=21% Similarity=0.108 Sum_probs=76.6
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 476 79999999999988887 99999999999999999986666566 89999999999999999999999886
Q ss_pred cccccccceEEEEEeCCccHHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHKS 191 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~~ 191 (202)
++++..++||.+..++++
T Consensus 147 ------Gl~v~~i~g~~~~~~~r~ 164 (790)
T PRK09200 147 ------GLTVGLNFSDIDDASEKK 164 (790)
T ss_pred ------CCeEEEEeCCCCcHHHHH
Confidence 578777777766444443
No 67
>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=99.09 E-value=1.1e-09 Score=104.78 Aligned_cols=101 Identities=20% Similarity=0.156 Sum_probs=76.2
Q ss_pred HHHHHHHHHCCCCCCcHHHHHHHH----hHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 79 EHVLRRMEETGYVLPTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 79 ~~l~~~l~~~g~~~~t~~Q~~~i~----~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
+.+.+.+...||+ +++.|.+.+. .+.+|+++++.|+||+|||++|++|++.....++ +++|.+||++|..|+
T Consensus 233 ~~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~---~vvi~t~t~~Lq~Ql 308 (850)
T TIGR01407 233 SLFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEK---PVVISTNTKVLQSQL 308 (850)
T ss_pred HHHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCC---eEEEEeCcHHHHHHH
Confidence 3556677778985 7899998666 4557899999999999999999999988765333 899999999999998
Q ss_pred HH-HHHHhhcCCCCcccccccceEEEEEeCCccHHH
Q 028887 155 TK-VARVLAAKPLDTDLEHKLCTVMALLDGGMLRRH 189 (202)
Q Consensus 155 ~~-~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 189 (202)
.. .+..+....+ ..+++..+.|+.+.--.
T Consensus 309 ~~~~~~~l~~~~~------~~~~~~~~kG~~~ylcl 338 (850)
T TIGR01407 309 LEKDIPLLNEILN------FKINAALIKGKSNYLSL 338 (850)
T ss_pred HHHHHHHHHHHcC------CCceEEEEEcchhhccH
Confidence 65 4555543321 03677777877766433
No 68
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.04 E-value=1.8e-10 Score=100.17 Aligned_cols=62 Identities=34% Similarity=0.521 Sum_probs=59.0
Q ss_pred HHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 71 ELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 71 ~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 57778999999999999999999999999999999999999999999999999999999865
No 69
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.03 E-value=1.6e-09 Score=94.08 Aligned_cols=63 Identities=24% Similarity=0.290 Sum_probs=54.9
Q ss_pred HHHHHHHhHHcCCc--EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 96 IQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 96 ~Q~~~i~~i~~g~~--~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
+|.++++.+.++.+ +++++|||||||++|++|++. .+ .++++++|+++|+.|+++++++++..
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~---~~---~~~~~~~P~~aL~~~~~~~~~~~~~~ 65 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH---GE---NDTIALYPTNALIEDQTEAIKEFVDV 65 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH---cC---CCEEEEeChHHHHHHHHHHHHHHHHh
Confidence 59999999998875 788999999999999999874 22 26899999999999999999998753
No 70
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.01 E-value=1.1e-09 Score=103.22 Aligned_cols=76 Identities=24% Similarity=0.364 Sum_probs=65.2
Q ss_pred CCCCCCcHHHHHHHHhHHc-CCcEEEeccCCCchHHHHHHHHHHHHHhc-------CCccEEEEecCCHHhHHHHHHHHH
Q 028887 88 TGYVLPTDIQREALPVLFS-SRDCILHAQTGSGKTLTYLLLIFSLVNAQ-------RSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~-g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-------~~~~~~Lil~Ptr~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 4677899999999999876 57899999999999999999999998752 356799999999999999887765
Q ss_pred Hhhc
Q 028887 160 VLAA 163 (202)
Q Consensus 160 ~l~~ 163 (202)
+-+.
T Consensus 186 kkl~ 189 (1230)
T KOG0952|consen 186 KKLA 189 (1230)
T ss_pred hhcc
Confidence 5444
No 71
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.00 E-value=1.7e-09 Score=100.62 Aligned_cols=87 Identities=17% Similarity=0.093 Sum_probs=64.9
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHH---------HHHHHHHHHHh---cCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLT---------YLLLIFSLVNA---QRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~---------~l~~~l~~l~~---~~~~~~~Lil~Ptr~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 359999999999999999999999999997 55555555432 334568999999999999999998876
Q ss_pred hcCCCCcccccccceEEEEEeCCc
Q 028887 162 AAKPLDTDLEHKLCTVMALLDGGM 185 (202)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~g~~ 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 11234455566654
No 72
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.97 E-value=1.6e-09 Score=97.13 Aligned_cols=90 Identities=21% Similarity=0.186 Sum_probs=79.5
Q ss_pred HhCCCCHHHHHHHHHCCCCCCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHh
Q 028887 73 CQGHVPEHVLRRMEETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTREL 150 (202)
Q Consensus 73 ~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~L 150 (202)
.+..+++.+.+.++..|++.+.|+|..++.. ++.|.|.++.++|+||||++.-++-+..+.. ++ +.|+|+|..+|
T Consensus 197 deLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~---KmlfLvPLVAL 273 (830)
T COG1202 197 DELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGK---KMLFLVPLVAL 273 (830)
T ss_pred cccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCC---eEEEEehhHHh
Confidence 4458999999999999999999999999987 7899999999999999999999888887765 55 79999999999
Q ss_pred HHHHHHHHHHhhcCC
Q 028887 151 GMQVTKVARVLAAKP 165 (202)
Q Consensus 151 a~Q~~~~~~~l~~~~ 165 (202)
|+|-++.|++--...
T Consensus 274 ANQKy~dF~~rYs~L 288 (830)
T COG1202 274 ANQKYEDFKERYSKL 288 (830)
T ss_pred hcchHHHHHHHhhcc
Confidence 999999997654443
No 73
>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=98.97 E-value=2.9e-09 Score=99.52 Aligned_cols=82 Identities=23% Similarity=0.178 Sum_probs=66.8
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|......+..| .+++++||+|||++|++|++.....++ .++|++|+++||.|+.+++..+....
T Consensus 67 lgl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~g~---~V~VVTpn~yLA~Rdae~m~~l~~~L-- 138 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNALTGK---GAMLVTTNDYLAKRDAEEMGPVYEWL-- 138 (762)
T ss_pred cCC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhhcCC---ceEEeCCCHHHHHHHHHHHHHHHhhc--
Confidence 465 6788887777766666 699999999999999999877666555 79999999999999999999988776
Q ss_pred cccccccceEEEEEeC
Q 028887 168 TDLEHKLCTVMALLDG 183 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g 183 (202)
++++..++++
T Consensus 139 ------GLsv~~~~~~ 148 (762)
T TIGR03714 139 ------GLTVSLGVVD 148 (762)
T ss_pred ------CCcEEEEECC
Confidence 5666666665
No 74
>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=98.96 E-value=2.3e-09 Score=92.57 Aligned_cols=55 Identities=29% Similarity=0.333 Sum_probs=48.3
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
++++.||||||||++|+.++++.+... ...+++|++|+++|+.|++++++.+++.
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~-~~~~ii~v~P~~~L~~q~~~~l~~~f~~ 55 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQ-KADRVIIALPTRATINAMYRRAKELFGS 55 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhC-CCCeEEEEeehHHHHHHHHHHHHHHhCc
Confidence 589999999999999999999887543 3458999999999999999999998653
No 75
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.95 E-value=6e-09 Score=99.16 Aligned_cols=93 Identities=20% Similarity=0.250 Sum_probs=71.2
Q ss_pred CCCCCcHHHHHHHHh----HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH-HHHHHhhc
Q 028887 89 GYVLPTDIQREALPV----LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT-KVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~----i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 55 578899885444 34678899999999999999999988754 2348999999999999994 66777776
Q ss_pred CCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 164 KPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
.. ++.+..+.||.+.--..++-.
T Consensus 318 ~~--------~~~~~~~kg~~~ylcl~k~~~ 340 (820)
T PRK07246 318 VF--------HIDCHSLKGPQNYLKLDAFYD 340 (820)
T ss_pred hc--------CCcEEEEECCcccccHHHHHH
Confidence 54 456677888877665554433
No 76
>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=98.94 E-value=3.8e-09 Score=95.65 Aligned_cols=73 Identities=27% Similarity=0.401 Sum_probs=57.1
Q ss_pred EEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHH--
Q 028887 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRR-- 188 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~-- 188 (202)
+++|+||||||++|+..+.+.+..++ ++|||+|+++|+.|+++++++.++.. +.++|+.....
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~---~vLvlvP~i~L~~Q~~~~l~~~f~~~------------v~vlhs~~~~~er 65 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK---SVLVLVPEIALTPQMIQRFKYRFGSQ------------VAVLHSGLSDSEK 65 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC---eEEEEeCcHHHHHHHHHHHHHHhCCc------------EEEEECCCCHHHH
Confidence 47899999999999988877777766 89999999999999999999876542 55677755443
Q ss_pred HHHHHHHhcC
Q 028887 189 HKSWLKVLYS 198 (202)
Q Consensus 189 ~~~~l~~l~~ 198 (202)
...|.+...+
T Consensus 66 ~~~~~~~~~g 75 (505)
T TIGR00595 66 LQAWRKVKNG 75 (505)
T ss_pred HHHHHHHHcC
Confidence 3556655443
No 77
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.91 E-value=7e-09 Score=97.99 Aligned_cols=91 Identities=21% Similarity=0.096 Sum_probs=72.6
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|-..--.+..| -++.++||+|||++|.+|++.....++ .++|++||++||.|..+++..+....
T Consensus 79 lg~-~~ydvQliGg~~Lh~G--~Iaem~TGeGKTL~a~Lpa~~~al~G~---~V~VvTpn~yLA~qd~e~m~~l~~~l-- 150 (896)
T PRK13104 79 LGL-RHFDVQLIGGMVLHEG--NIAEMRTGEGKTLVATLPAYLNAISGR---GVHIVTVNDYLAKRDSQWMKPIYEFL-- 150 (896)
T ss_pred cCC-CcchHHHhhhhhhccC--ccccccCCCCchHHHHHHHHHHHhcCC---CEEEEcCCHHHHHHHHHHHHHHhccc--
Confidence 354 6889996655555555 478999999999999999998776665 69999999999999999999999876
Q ss_pred cccccccceEEEEEeCCccHHHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHKSW 192 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~~~ 192 (202)
++++.+++||.+...++..
T Consensus 151 ------GLtv~~i~gg~~~~~r~~~ 169 (896)
T PRK13104 151 ------GLTVGVIYPDMSHKEKQEA 169 (896)
T ss_pred ------CceEEEEeCCCCHHHHHHH
Confidence 5787777777665555443
No 78
>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=98.90 E-value=1.4e-08 Score=93.79 Aligned_cols=84 Identities=20% Similarity=0.167 Sum_probs=63.7
Q ss_pred HhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh-cCCCCcccccccceEEEE
Q 028887 102 PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA-AKPLDTDLEHKLCTVMAL 180 (202)
Q Consensus 102 ~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~-~~~~~~~~~~~~~~~~~~ 180 (202)
..+.+++.+++.|+||+|||++|++|++..+... .+.++||++||++|+.|+.+.+..+. .... ..++++.+
T Consensus 11 ~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~-~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~------~~i~~~~l 83 (636)
T TIGR03117 11 TSLRQKRIGMLEASTGVGKTLAMIMAALTMLKER-PDQKIAIAVPTLALMGQLWSELERLTAEGLA------GPVQAGFF 83 (636)
T ss_pred HHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhc-cCceEEEECCcHHHHHHHHHHHHHHHHhhcC------CCeeEEEE
Confidence 3445678899999999999999999999877632 13489999999999999999988887 3221 13667777
Q ss_pred EeCCccHHHHHH
Q 028887 181 LDGGMLRRHKSW 192 (202)
Q Consensus 181 ~~g~~~~~~~~~ 192 (202)
.|+.++--..++
T Consensus 84 kGr~nYlCl~rl 95 (636)
T TIGR03117 84 PGSQEFVSPGAL 95 (636)
T ss_pred ECCcccccHHHH
Confidence 777776544333
No 79
>PRK13766 Hef nuclease; Provisional
Probab=98.89 E-value=1.9e-08 Score=95.39 Aligned_cols=89 Identities=19% Similarity=0.238 Sum_probs=69.5
Q ss_pred CCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCccc
Q 028887 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDL 170 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 36889999999888877 89999999999999999999887742 33489999999999999999999887542
Q ss_pred ccccceEEEEEeCCccHHHHH
Q 028887 171 EHKLCTVMALLDGGMLRRHKS 191 (202)
Q Consensus 171 ~~~~~~~~~~~~g~~~~~~~~ 191 (202)
... +.+++|.....++.
T Consensus 86 ---~~~-v~~~~g~~~~~~r~ 102 (773)
T PRK13766 86 ---EEK-IVVFTGEVSPEKRA 102 (773)
T ss_pred ---Cce-EEEEeCCCCHHHHH
Confidence 123 44555655444433
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=98.86 E-value=8.1e-09 Score=79.91 Aligned_cols=67 Identities=31% Similarity=0.381 Sum_probs=55.8
Q ss_pred CCcHHHHHHHHhHHc-------CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFS-------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~-------g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 478999999998863 588999999999999999876555443 7999999999999999999766654
No 81
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.80 E-value=1.4e-08 Score=100.68 Aligned_cols=49 Identities=29% Similarity=0.472 Sum_probs=42.8
Q ss_pred EeccCCCchHHHHHHHHHHHHHhc----------CCccEEEEecCCHHhHHHHHHHHHH
Q 028887 112 LHAQTGSGKTLTYLLLIFSLVNAQ----------RSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 112 ~~a~TGsGKT~~~l~~~l~~l~~~----------~~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
|++|||||||++|++|+++.+... ..++++|||+|+|+|+.|+.+.++.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 479999999999999999988643 1357999999999999999999875
No 82
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.75 E-value=3e-08 Score=94.85 Aligned_cols=75 Identities=20% Similarity=0.195 Sum_probs=68.0
Q ss_pred HHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 85 MEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
..+.|| .+.+.|++++-.+..|..++++||||+|||++.-.++...+..+. +++|.+|.++|.+|.++.+...++
T Consensus 113 ~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~q---rviYTsPIKALsNQKyrdl~~~fg 187 (1041)
T COG4581 113 AREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQ---RVIYTSPIKALSNQKYRDLLAKFG 187 (1041)
T ss_pred HHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCC---ceEeccchhhhhhhHHHHHHHHhh
Confidence 345677 589999999999999999999999999999999999988888777 799999999999999999887766
No 83
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.74 E-value=8.5e-08 Score=87.78 Aligned_cols=100 Identities=23% Similarity=0.259 Sum_probs=79.8
Q ss_pred HHHCCCCCCcHHHHHHHHhHHcC------CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHH
Q 028887 85 MEETGYVLPTDIQREALPVLFSS------RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~i~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 366777 6999999999999765 35689999999999999999999999888 9999999999999999999
Q ss_pred HHhhcCCCCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 159 RVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 159 ~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
.++++.. ++.|..+.|.......++.+..+
T Consensus 332 ~~~l~~~--------~i~V~lLtG~~kgk~r~~~l~~l 361 (677)
T COG1200 332 RKWLEPL--------GIRVALLTGSLKGKARKEILEQL 361 (677)
T ss_pred HHHhhhc--------CCeEEEeecccchhHHHHHHHHH
Confidence 9999876 46654444444433334444433
No 84
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.74 E-value=3.7e-08 Score=87.91 Aligned_cols=67 Identities=30% Similarity=0.320 Sum_probs=57.7
Q ss_pred CCcHHHHHHHHhHHc----CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFS----SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~----g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+.+.|++++..+.+ ++..++..|||+|||.+++..+.... . .+|||||+++|+.|+.+.+......
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~---~---~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK---R---STLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc---C---CEEEEECcHHHHHHHHHHHHHhcCC
Confidence 689999999999988 89999999999999999988774422 1 3999999999999999888777664
No 85
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.71 E-value=2.4e-07 Score=87.87 Aligned_cols=99 Identities=25% Similarity=0.287 Sum_probs=78.3
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|+ .|+..|+.....+..|+.+-+.||||.|||..-++..+-...+++ ++++++||..|+.|+++++.+++....
T Consensus 79 ~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kgk---r~yii~PT~~Lv~Q~~~kl~~~~e~~~- 153 (1187)
T COG1110 79 TGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGK---RVYIIVPTTTLVRQVYERLKKFAEDAG- 153 (1187)
T ss_pred hCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcCC---eEEEEecCHHHHHHHHHHHHHHHhhcC-
Confidence 366 899999999999999999999999999999877666555555555 899999999999999999999997653
Q ss_pred cccccccceEEEEEeCCccHHH-HHHHHHhc
Q 028887 168 TDLEHKLCTVMALLDGGMLRRH-KSWLKVLY 197 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~-~~~l~~l~ 197 (202)
...+..+||+....++ .+.++.+.
T Consensus 154 ------~~~~~~~yh~~l~~~ekee~le~i~ 178 (1187)
T COG1110 154 ------SLDVLVVYHSALPTKEKEEALERIE 178 (1187)
T ss_pred ------CcceeeeeccccchHHHHHHHHHHh
Confidence 2344444999865555 45555544
No 86
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.71 E-value=7.1e-08 Score=81.54 Aligned_cols=73 Identities=27% Similarity=0.287 Sum_probs=58.9
Q ss_pred CCCCCcHHHHHHHH----hHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCC---ccEEEEecCCHHhHHHHHHHHHHh
Q 028887 89 GYVLPTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS---AVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 89 g~~~~t~~Q~~~i~----~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~---~~~~Lil~Ptr~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 PY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 44 46999999554 45678999999999999999999999877654332 237999999999999988888776
Q ss_pred h
Q 028887 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 87
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.71 E-value=7.1e-08 Score=81.54 Aligned_cols=73 Identities=27% Similarity=0.287 Sum_probs=58.9
Q ss_pred CCCCCcHHHHHHHH----hHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCC---ccEEEEecCCHHhHHHHHHHHHHh
Q 028887 89 GYVLPTDIQREALP----VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS---AVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 89 g~~~~t~~Q~~~i~----~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~---~~~~Lil~Ptr~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 PY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 44 46999999554 45678999999999999999999999877654332 237999999999999988888776
Q ss_pred h
Q 028887 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 88
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.66 E-value=8.2e-08 Score=88.95 Aligned_cols=71 Identities=21% Similarity=0.236 Sum_probs=63.1
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+...|.+.....+ |+++++++|||+|||.+...-+.++++.-.. .++++++|++-|+.|+..++..++..
T Consensus 62 ~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a~~~~~~~~ 132 (746)
T KOG0354|consen 62 ELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIACFSIYLIP 132 (746)
T ss_pred cccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHHHHhhccCc
Confidence 57889999998888 9999999999999999999999998875433 48999999999999999888888765
No 89
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.63 E-value=1.5e-07 Score=89.51 Aligned_cols=62 Identities=21% Similarity=0.233 Sum_probs=51.1
Q ss_pred HHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 98 REALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 98 ~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+.+..+.++++++++|+||||||.+|.+++++....+ .+++|+.|+|++|.|+.+++.+..
T Consensus 11 ~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~~---~~ilvlqPrR~aA~qia~rva~~l 72 (812)
T PRK11664 11 PELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGIN---GKIIMLEPRRLAARNVAQRLAEQL 72 (812)
T ss_pred HHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCcC---CeEEEECChHHHHHHHHHHHHHHh
Confidence 34455667789999999999999999999998764322 389999999999999999986543
No 90
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.61 E-value=3.7e-07 Score=80.98 Aligned_cols=93 Identities=20% Similarity=0.234 Sum_probs=73.5
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccc
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLE 171 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.+...|.......+.+ ++++..|||-|||.+.++-+...+...+. ++|+|+||+-|+.|..+.+++..+-+.++
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~--kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~--- 88 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGG--KVLFLAPTKPLVLQHAEFCRKVTGIPEDE--- 88 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCC--eEEEecCCchHHHHHHHHHHHHhCCChhh---
Confidence 4566777666665555 89999999999999999999888865443 79999999999999999999999875432
Q ss_pred cccceEEEEEeCCccHHHHHHHHHh
Q 028887 172 HKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 172 ~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
++.++|...++.++.++.-
T Consensus 89 ------i~~ltGev~p~~R~~~w~~ 107 (542)
T COG1111 89 ------IAALTGEVRPEEREELWAK 107 (542)
T ss_pred ------eeeecCCCChHHHHHHHhh
Confidence 6678887777766665543
No 91
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.59 E-value=2.1e-07 Score=84.82 Aligned_cols=69 Identities=25% Similarity=0.333 Sum_probs=62.7
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
+||..+.+.|.++|..+++|+|+++.-|||.||+++|.+|.+-. .+ -+||++|..+|..++.+.++..+
T Consensus 13 fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~---~G---~TLVVSPLiSLM~DQV~~l~~~G 81 (590)
T COG0514 13 FGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL---EG---LTLVVSPLISLMKDQVDQLEAAG 81 (590)
T ss_pred hCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc---CC---CEEEECchHHHHHHHHHHHHHcC
Confidence 58999999999999999999999999999999999999998553 22 58999999999999999998776
No 92
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.58 E-value=1.9e-07 Score=88.08 Aligned_cols=90 Identities=21% Similarity=0.155 Sum_probs=72.2
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHH-HHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIF-SLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPL 166 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l-~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~ 166 (202)
.|. .|+++|-...-.+..|+ +..+.||+|||+++.+|++ ..+ .++ ++-|++||..||.|..+.+..+....
T Consensus 78 lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL-~G~---~V~IvTpn~yLA~rd~e~~~~l~~~L- 149 (830)
T PRK12904 78 LGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNAL-TGK---GVHVVTVNDYLAKRDAEWMGPLYEFL- 149 (830)
T ss_pred hCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHH-cCC---CEEEEecCHHHHHHHHHHHHHHHhhc-
Confidence 465 68999988776666664 8899999999999999996 555 344 57799999999999999999999876
Q ss_pred CcccccccceEEEEEeCCccHHHHHH
Q 028887 167 DTDLEHKLCTVMALLDGGMLRRHKSW 192 (202)
Q Consensus 167 ~~~~~~~~~~~~~~~~g~~~~~~~~~ 192 (202)
++++.++++|.+...+++.
T Consensus 150 -------Glsv~~i~~~~~~~er~~~ 168 (830)
T PRK12904 150 -------GLSVGVILSGMSPEERREA 168 (830)
T ss_pred -------CCeEEEEcCCCCHHHHHHh
Confidence 6787777777666665544
No 93
>PRK09694 helicase Cas3; Provisional
Probab=98.57 E-value=3.1e-07 Score=87.78 Aligned_cols=71 Identities=24% Similarity=0.286 Sum_probs=56.9
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.|+|.|+.+......+.-+++.+|||+|||++.+......+..++ ..+++|..||+++++|++++++++..
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~-~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGL-ADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCC-CCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 799999988654445667899999999999999887765554432 34799999999999999999987554
No 94
>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=98.52 E-value=6.6e-07 Score=85.19 Aligned_cols=62 Identities=15% Similarity=0.175 Sum_probs=51.9
Q ss_pred HHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 98 REALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 98 ~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+.+..+.++.+++++|+||||||.+|.+++++.... +.+++|+.|+|++|.|+.+++.+..
T Consensus 8 ~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~---~~~ilvlqPrR~aA~qiA~rva~~~ 69 (819)
T TIGR01970 8 PALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGI---GGKIIMLEPRRLAARSAAQRLASQL 69 (819)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhcc---CCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 3455566778999999999999999999999987643 3489999999999999999986443
No 95
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.50 E-value=1.3e-06 Score=84.59 Aligned_cols=87 Identities=22% Similarity=0.215 Sum_probs=64.9
Q ss_pred CCCCCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHH-hcCCccEEEEecCCHHhHHHHHHH----HH
Q 028887 89 GYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVTKV----AR 159 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~-~~~~~~~~Lil~Ptr~La~Q~~~~----~~ 159 (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 55 5799998866544 46788999999999999999999976554 334 799999999999998763 55
Q ss_pred HhhcCCCCcccccccceEEEEEeCCccHH
Q 028887 160 VLAAKPLDTDLEHKLCTVMALLDGGMLRR 188 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~~~~~~~g~~~~~ 188 (202)
++.+. .++++.+-|.++.--
T Consensus 331 ~~~~~---------~~~~~~lKGr~nYlc 350 (928)
T PRK08074 331 KIFPF---------PVEAALLKGRSHYLC 350 (928)
T ss_pred HHcCC---------CceEEEEEccccccc
Confidence 55543 255666666665443
No 96
>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=98.45 E-value=1.1e-06 Score=82.27 Aligned_cols=66 Identities=17% Similarity=0.240 Sum_probs=55.1
Q ss_pred CCcHHHHHHHHhHHc-C--CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 92 LPTDIQREALPVLFS-S--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~-g--~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.+.+.|.+++..++. | +..++..|||+|||++.+..+.. + ++ ++|||||+.+|+.||.+.|.+++.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~-l--~k---~tLILvps~~Lv~QW~~ef~~~~~ 323 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACT-V--KK---SCLVLCTSAVSVEQWKQQFKMWST 323 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHH-h--CC---CEEEEeCcHHHHHHHHHHHHHhcC
Confidence 578999999998873 4 36899999999999998866533 2 23 699999999999999999999864
No 97
>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=98.44 E-value=1.7e-06 Score=63.01 Aligned_cols=55 Identities=44% Similarity=0.596 Sum_probs=46.8
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
+++++.++||+|||..++..+......+ ...++++++|++.++.|+.+.+.....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-cCCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 4689999999999999999988877642 234799999999999999998888775
No 98
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.44 E-value=9.2e-07 Score=76.37 Aligned_cols=106 Identities=17% Similarity=0.224 Sum_probs=78.7
Q ss_pred HHHHhCCCC--HHHHHHHH-HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 70 RELCQGHVP--EHVLRRME-ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 70 ~~l~~~gl~--~~l~~~l~-~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
..|.+.+++ .+..+.|. ....+++.|.|..+|...+.|.|.++.-|||.||+++|.+|.+- .++ -+||++|
T Consensus 69 aawdkd~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~---adg---~alvi~p 142 (695)
T KOG0353|consen 69 AAWDKDDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC---ADG---FALVICP 142 (695)
T ss_pred cccccCCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh---cCC---ceEeech
Confidence 345555544 33334442 23456889999999999999999999999999999999999854 233 6999999
Q ss_pred CHHhHHHHHHHHHHhhcCCCCcccccccceEEEEEeCCccHHHHHHHH
Q 028887 147 TRELGMQVTKVARVLAAKPLDTDLEHKLCTVMALLDGGMLRRHKSWLK 194 (202)
Q Consensus 147 tr~La~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~l~ 194 (202)
.++|..++.-+++.++-. ..++......++.+|..
T Consensus 143 lislmedqil~lkqlgi~-------------as~lnansske~~k~v~ 177 (695)
T KOG0353|consen 143 LISLMEDQILQLKQLGID-------------ASMLNANSSKEEAKRVE 177 (695)
T ss_pred hHHHHHHHHHHHHHhCcc-------------hhhccCcccHHHHHHHH
Confidence 999999988899988754 23444555555555553
No 99
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.39 E-value=4e-06 Score=80.91 Aligned_cols=97 Identities=24% Similarity=0.185 Sum_probs=78.8
Q ss_pred CCCCCCcHHHHHHHHhHHc----C--CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 88 TGYVLPTDIQREALPVLFS----S--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~----g--~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
.+| .-|+.|..||..+.. + .|=++||--|-|||++.+=+++..+..++ |+.|||||--||.|.++.|++-
T Consensus 591 FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GK---QVAvLVPTTlLA~QHy~tFkeR 666 (1139)
T COG1197 591 FPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGK---QVAVLVPTTLLAQQHYETFKER 666 (1139)
T ss_pred CCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCC---eEEEEcccHHhHHHHHHHHHHH
Confidence 455 459999999999864 3 58899999999999999999999999887 9999999999999999999988
Q ss_pred hcCCCCcccccccceEEEEEeC-CccHHHHHHHHHhc
Q 028887 162 AAKPLDTDLEHKLCTVMALLDG-GMLRRHKSWLKVLY 197 (202)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~l~~l~ 197 (202)
+.+.+ ++ +.+... .+..+|++.++.+.
T Consensus 667 F~~fP--------V~-I~~LSRF~s~kE~~~il~~la 694 (1139)
T COG1197 667 FAGFP--------VR-IEVLSRFRSAKEQKEILKGLA 694 (1139)
T ss_pred hcCCC--------ee-EEEecccCCHHHHHHHHHHHh
Confidence 87752 44 344444 55666677777664
No 100
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.39 E-value=1.5e-06 Score=83.93 Aligned_cols=89 Identities=21% Similarity=0.216 Sum_probs=71.6
Q ss_pred CCCCCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCC--------ccEEEEecCCHHhHHHHHHHHH
Q 028887 89 GYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRS--------AVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~--------~~~~Lil~Ptr~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 5567899999999998876 579999999999999999999999876432 3589999999999999887765
Q ss_pred HhhcCCCCcccccccceEEEEEeCCc
Q 028887 160 VLAAKPLDTDLEHKLCTVMALLDGGM 185 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~~~~~~~g~~ 185 (202)
+-.... +++|.-+.|.+.
T Consensus 386 kRla~~--------GI~V~ElTgD~~ 403 (1674)
T KOG0951|consen 386 KRLAPL--------GITVLELTGDSQ 403 (1674)
T ss_pred hhcccc--------CcEEEEeccccc
Confidence 554443 577766666544
No 101
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.36 E-value=1.4e-06 Score=82.59 Aligned_cols=85 Identities=24% Similarity=0.054 Sum_probs=68.3
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|-..--.+..| -+...+||+|||++|.+|++.....++ .+.|++|+.+||.|..+++..+....
T Consensus 79 lgm-~~ydVQliGgl~L~~G--~IaEm~TGEGKTL~a~lp~~l~al~g~---~VhIvT~ndyLA~RD~e~m~~l~~~l-- 150 (908)
T PRK13107 79 FEM-RHFDVQLLGGMVLDSN--RIAEMRTGEGKTLTATLPAYLNALTGK---GVHVITVNDYLARRDAENNRPLFEFL-- 150 (908)
T ss_pred hCC-CcCchHHhcchHhcCC--ccccccCCCCchHHHHHHHHHHHhcCC---CEEEEeCCHHHHHHHHHHHHHHHHhc--
Confidence 355 5788986554444444 578999999999999999988776666 69999999999999999999999886
Q ss_pred cccccccceEEEEEeCCcc
Q 028887 168 TDLEHKLCTVMALLDGGML 186 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~ 186 (202)
++++-++++|.+.
T Consensus 151 ------Glsv~~i~~~~~~ 163 (908)
T PRK13107 151 ------GLTVGINVAGLGQ 163 (908)
T ss_pred ------CCeEEEecCCCCH
Confidence 6777777776554
No 102
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.31 E-value=2e-06 Score=80.20 Aligned_cols=73 Identities=23% Similarity=0.294 Sum_probs=60.9
Q ss_pred EeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc-CCCCcccccccceEEEEEeCCccHHH-
Q 028887 112 LHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA-KPLDTDLEHKLCTVMALLDGGMLRRH- 189 (202)
Q Consensus 112 ~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~-~~~~~~~~~~~~~~~~~~~g~~~~~~- 189 (202)
..+.+|||||.+|+-.+.+.+..++ ++|||+|++.|+.|+.++|+..++ .. +.++|......+
T Consensus 165 ~~~~~GSGKTevyl~~i~~~l~~Gk---~vLvLvPEi~lt~q~~~rl~~~f~~~~------------v~~lhS~l~~~~R 229 (665)
T PRK14873 165 WQALPGEDWARRLAAAAAATLRAGR---GALVVVPDQRDVDRLEAALRALLGAGD------------VAVLSAGLGPADR 229 (665)
T ss_pred hhcCCCCcHHHHHHHHHHHHHHcCC---eEEEEecchhhHHHHHHHHHHHcCCCc------------EEEECCCCCHHHH
Confidence 3444699999999999999999888 999999999999999999998886 32 777888665554
Q ss_pred -HHHHHHhcCC
Q 028887 190 -KSWLKVLYSL 199 (202)
Q Consensus 190 -~~~l~~l~~~ 199 (202)
..|++...+-
T Consensus 230 ~~~w~~~~~G~ 240 (665)
T PRK14873 230 YRRWLAVLRGQ 240 (665)
T ss_pred HHHHHHHhCCC
Confidence 6888887763
No 103
>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=98.25 E-value=4.2e-06 Score=78.85 Aligned_cols=74 Identities=24% Similarity=0.238 Sum_probs=63.4
Q ss_pred CCCCCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 89 GYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 4666799999988764 4678999999999999999999999987654444689999999999999999999864
No 104
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.24 E-value=4.2e-06 Score=82.12 Aligned_cols=70 Identities=21% Similarity=0.226 Sum_probs=55.3
Q ss_pred CCcHHHHHHHHhHH----cC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 92 LPTDIQREALPVLF----SS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~----~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALM-YRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHH-HHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 58999999998764 33 678999999999998855444 444433334589999999999999999998774
No 105
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.22 E-value=1.3e-05 Score=75.50 Aligned_cols=65 Identities=31% Similarity=0.490 Sum_probs=51.9
Q ss_pred CCCCCcHHHHHHHHhH---HcC------CcEEEeccCCCchHHHHHHHHHHHHH-hcCCccEEEEecCCHHhHHHHHHH
Q 028887 89 GYVLPTDIQREALPVL---FSS------RDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i---~~g------~~~l~~a~TGsGKT~~~l~~~l~~l~-~~~~~~~~Lil~Ptr~La~Q~~~~ 157 (202)
|| ++.+.|.+-+..+ +.+ +.+++.|+||+|||++||+|.+.... .++ +++|-+.|+.|-.|+.+.
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k---~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKK---KLVISTATVALQEQLVSK 97 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCC---eEEEEcCCHHHHHHHHhh
Confidence 66 5799998866554 333 67899999999999999999976544 445 799999999999998643
No 106
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.19 E-value=5.9e-06 Score=72.39 Aligned_cols=69 Identities=20% Similarity=0.272 Sum_probs=57.0
Q ss_pred CCCCC-CcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 88 TGYVL-PTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 88 ~g~~~-~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.|+.. -++.|+.++..+..+ .||.|+.|||+||+++|.+|.+- .++ ..||++|.++|..++.+.+..+-
T Consensus 15 FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~---~~g---ITIV~SPLiALIkDQiDHL~~LK 85 (641)
T KOG0352|consen 15 FGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALV---HGG---ITIVISPLIALIKDQIDHLKRLK 85 (641)
T ss_pred hCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHH---hCC---eEEEehHHHHHHHHHHHHHHhcC
Confidence 46654 389999999987654 79999999999999999999754 233 68999999999999888887664
No 107
>PF13245 AAA_19: Part of AAA domain
Probab=98.17 E-value=1.1e-05 Score=54.64 Aligned_cols=52 Identities=23% Similarity=0.317 Sum_probs=40.8
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
+.-+++.|+.|||||...+-.+...+.. ...+.++++++|++..+..+.+++
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 3446669999999998887777777753 111348999999999999998888
No 108
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.11 E-value=1.3e-05 Score=74.76 Aligned_cols=71 Identities=25% Similarity=0.319 Sum_probs=58.3
Q ss_pred CCCCCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 89 GYVLPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
....+++.|.+.+..+ .+++.+++.||||+|||++|+.|.+......+ .+++|.++|+.|-.|+.++...+
T Consensus 12 ~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~--~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 12 PGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG--KKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcC--CcEEEECCCHHHHHHHHHhhcch
Confidence 3347999999988664 34566999999999999999999988765433 37999999999999999887665
No 109
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.07 E-value=1.1e-05 Score=64.46 Aligned_cols=69 Identities=22% Similarity=0.311 Sum_probs=51.1
Q ss_pred CCcHHHHHHHHhHHcCCc-EEEeccCCCchHHHHHHHHHHHH-----HhcCCccEEEEecCCHHhHHHHHHHHHH
Q 028887 92 LPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLV-----NAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~-~l~~a~TGsGKT~~~l~~~l~~l-----~~~~~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
++++.|..|+..++.... .++.||.|||||.+....+...+ .....+.++|+++|+..-+.++.+.+.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 367899999999998888 99999999999966554444432 1234455899999999999999999887
No 110
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=98.05 E-value=1.2e-05 Score=74.65 Aligned_cols=70 Identities=16% Similarity=0.149 Sum_probs=64.0
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+.|.|..+|-.+-++..++|.|.|.+|||.+.-.+|...+.... +++|-+|-++|.+|-++.+..-+++
T Consensus 129 ~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~kQ---RVIYTSPIKALSNQKYREl~~EF~D 198 (1041)
T KOG0948|consen 129 TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREKQ---RVIYTSPIKALSNQKYRELLEEFKD 198 (1041)
T ss_pred ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhcC---eEEeeChhhhhcchhHHHHHHHhcc
Confidence 468899999999999999999999999999999999999998877 9999999999999999888766554
No 111
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.03 E-value=9.3e-06 Score=78.03 Aligned_cols=93 Identities=23% Similarity=0.180 Sum_probs=69.2
Q ss_pred HHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 86 EETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 86 ~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
...|...+.+.|.++|...+.|+|+++-.|||.||.++|.+|.+- .++ -.||++|.++|...+...+....
T Consensus 258 ~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l---~~g---itvVISPL~SLm~DQv~~L~~~~--- 328 (941)
T KOG0351|consen 258 EVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALL---LGG---VTVVISPLISLMQDQVTHLSKKG--- 328 (941)
T ss_pred HHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeeccccc---cCC---ceEEeccHHHHHHHHHHhhhhcC---
Confidence 456888999999999999999999999999999999999998733 223 68999999999987766553222
Q ss_pred CCcccccccceEEEEEeCCccHHHHHHHHHh
Q 028887 166 LDTDLEHKLCTVMALLDGGMLRRHKSWLKVL 196 (202)
Q Consensus 166 ~~~~~~~~~~~~~~~~~g~~~~~~~~~l~~l 196 (202)
+....+-++.....+...+..+
T Consensus 329 ---------I~a~~L~s~q~~~~~~~i~q~l 350 (941)
T KOG0351|consen 329 ---------IPACFLSSIQTAAERLAILQKL 350 (941)
T ss_pred ---------cceeeccccccHHHHHHHHHHH
Confidence 3334444445555554444444
No 112
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.00 E-value=2.2e-05 Score=74.41 Aligned_cols=74 Identities=18% Similarity=0.127 Sum_probs=63.0
Q ss_pred HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
..+| .+...|++||-.+..|..++|.|+|-+|||++.-.++.-....+ .+++|-+|-++|.+|-++.|++-++.
T Consensus 293 ~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq~h~---TR~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 293 IYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQKHM---TRTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred hCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHHhhc---cceEecchhhhhccchHHHHHHhccc
Confidence 3466 58999999999999999999999999999999776664444333 38999999999999999999988765
No 113
>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=97.99 E-value=2.8e-05 Score=65.12 Aligned_cols=70 Identities=24% Similarity=0.243 Sum_probs=56.6
Q ss_pred CcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-CCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-RSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-~~~~~~Lil~Ptr~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 57889998877 677899999999999999888888777765 34557999999999999999999887654
No 114
>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=97.91 E-value=3e-05 Score=72.66 Aligned_cols=70 Identities=27% Similarity=0.305 Sum_probs=55.6
Q ss_pred CcHHHHHHHHhHH----c------CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 93 PTDIQREALPVLF----S------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 93 ~t~~Q~~~i~~i~----~------g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 6778999997752 2 256899999999999987776655443 3345689999999999999999999887
Q ss_pred c
Q 028887 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 115
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.83 E-value=9.6e-05 Score=69.92 Aligned_cols=88 Identities=26% Similarity=0.152 Sum_probs=70.9
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|-..--.+..|+ +..-.||+|||++..+|++-....|. ++-+++|+--||.|-++.+..+....
T Consensus 77 ~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~G~---~v~vvT~neyLA~Rd~e~~~~~~~~L-- 148 (796)
T PRK12906 77 LGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALTGK---GVHVVTVNEYLSSRDATEMGELYRWL-- 148 (796)
T ss_pred hCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHcCC---CeEEEeccHHHHHhhHHHHHHHHHhc--
Confidence 465 68999988877776776 88999999999999999988888777 89999999999999999999998876
Q ss_pred cccccccceEEEEEeCCccHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
++++. ++.|....+++
T Consensus 149 ------Gl~vg-~i~~~~~~~~r 164 (796)
T PRK12906 149 ------GLTVG-LNLNSMSPDEK 164 (796)
T ss_pred ------CCeEE-EeCCCCCHHHH
Confidence 46654 44444444433
No 116
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.82 E-value=9.4e-05 Score=63.36 Aligned_cols=70 Identities=20% Similarity=0.179 Sum_probs=60.8
Q ss_pred CCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+|+.|+.+-..+ .+..+.+++|.||+|||+...-.+...+..|. ++.+.+|-.+.+..++.+++.-+..
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~---~vciASPRvDVclEl~~Rlk~aF~~ 170 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG---RVCIASPRVDVCLELYPRLKQAFSN 170 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC---eEEEecCcccchHHHHHHHHHhhcc
Confidence 6899998876654 46689999999999999998888888888777 8999999999999999999988874
No 117
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.80 E-value=0.00016 Score=67.54 Aligned_cols=88 Identities=18% Similarity=0.130 Sum_probs=70.9
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|-...-.++.|+ ++.-.||+|||++..+|+......|+ ++-+++|+--||.|-++++..+....
T Consensus 75 lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~G~---~VhvvT~NdyLA~RDae~m~~ly~~L-- 146 (764)
T PRK12326 75 LGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQGR---RVHVITVNDYLARRDAEWMGPLYEAL-- 146 (764)
T ss_pred cCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHcCC---CeEEEcCCHHHHHHHHHHHHHHHHhc--
Confidence 465 68999999998888874 67899999999999999988777777 89999999999999999999998876
Q ss_pred cccccccceEEEEEeCCccHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
++++-.+ .+....+++
T Consensus 147 ------GLsvg~i-~~~~~~~er 162 (764)
T PRK12326 147 ------GLTVGWI-TEESTPEER 162 (764)
T ss_pred ------CCEEEEE-CCCCCHHHH
Confidence 4665544 444444443
No 118
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.79 E-value=8.4e-05 Score=70.41 Aligned_cols=73 Identities=23% Similarity=0.325 Sum_probs=62.1
Q ss_pred CcHHHHHHHHhHHcC---C-cEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 93 PTDIQREALPVLFSS---R-DCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g---~-~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
..+.|..++..+..+ . .+++.||||.|||++.+.+....... .....+.+++.|++.+..+++++++..++..
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~ 273 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF 273 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhccc
Confidence 478888888877643 4 78999999999999999999888876 3456689999999999999999999887754
No 119
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.67 E-value=5.5e-05 Score=67.99 Aligned_cols=67 Identities=28% Similarity=0.350 Sum_probs=52.5
Q ss_pred CCcHHHHHHHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVI-AKV--QR---PTLVLAHNKTLAAQLYSEFKEFFPE 83 (663)
T ss_pred CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHH-HHh--CC---CeEEEecchhHHHHHHHHHHHhCcC
Confidence 6888999999887544 567889999999996643322 222 22 4899999999999999999999984
No 120
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.61 E-value=0.00032 Score=66.97 Aligned_cols=88 Identities=20% Similarity=0.073 Sum_probs=67.6
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
.|. .|+++|-..--.+..| -+....||+|||++..+|++-....|+ ++-+++|+--||.|-++++..+....
T Consensus 79 lGm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al~G~---~VhvvT~ndyLA~RD~e~m~~l~~~l-- 150 (913)
T PRK13103 79 MGM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNALSGK---GVHVVTVNDYLARRDANWMRPLYEFL-- 150 (913)
T ss_pred hCC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHHcCC---CEEEEeCCHHHHHHHHHHHHHHhccc--
Confidence 464 6899997655444444 567899999999999999987777777 89999999999999999999999876
Q ss_pred cccccccceEEEEEeCCccHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
++++.+ +.+.....++
T Consensus 151 ------Gl~v~~-i~~~~~~~er 166 (913)
T PRK13103 151 ------GLSVGI-VTPFQPPEEK 166 (913)
T ss_pred ------CCEEEE-ECCCCCHHHH
Confidence 466554 4444444433
No 121
>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=97.59 E-value=0.00031 Score=65.55 Aligned_cols=66 Identities=24% Similarity=0.290 Sum_probs=55.6
Q ss_pred CCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHH
Q 028887 92 LPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
.+++.|..++..++.. ..++++||+|+|||......+.+.+..+. ++|+++||..-+.++.+.+..
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~---~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL---RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC---CEEEEcCcHHHHHHHHHHHHh
Confidence 5799999999998876 67889999999999877666666665555 899999999999999888876
No 122
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.51 E-value=0.0003 Score=64.09 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=56.3
Q ss_pred CCcHHHHHHHHhHHcCCc-EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 92 LPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~-~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 467899999988887744 789999999999999988888888887 99999999998888888644
No 123
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.41 E-value=0.00086 Score=53.45 Aligned_cols=63 Identities=22% Similarity=0.326 Sum_probs=45.6
Q ss_pred CCcHHHHHHHHhHHcCC--cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHH
Q 028887 92 LPTDIQREALPVLFSSR--DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~--~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTL-LKALAEALEAA--GKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHH-HHHHHHHHHHT--T--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHH-HHHHHHHHHhC--CCeEEEECCcHHHHHHHHHh
Confidence 36899999999987543 578899999999975 34455555442 34899999998888876666
No 124
>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=97.26 E-value=0.00076 Score=54.30 Aligned_cols=59 Identities=25% Similarity=0.299 Sum_probs=42.5
Q ss_pred CCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKE-GEYDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCcEEEEEecCCCC
Confidence 34688999999999988889999999999999999999998876 334467777787653
No 125
>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=97.13 E-value=0.0033 Score=52.29 Aligned_cols=57 Identities=30% Similarity=0.300 Sum_probs=38.1
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCc--cEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA--VQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~--~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+.+++.-..|+|||...+..+.......... ..+||++|. .+..||.+.+.+++..
T Consensus 25 ~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~ 83 (299)
T PF00176_consen 25 PRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDP 83 (299)
T ss_dssp T-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT
T ss_pred CCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcccccc
Confidence 35789999999999988766655333322211 249999999 8889999999999854
No 126
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.07 E-value=0.0023 Score=61.04 Aligned_cols=72 Identities=22% Similarity=0.088 Sum_probs=56.5
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
.|. .|+++|-...-.+. +.-++...||.|||+++.+|+.-....|+ .+-|++++..||.+-.+++..+....
T Consensus 73 lG~-r~ydvQlig~l~L~--~G~IaEm~TGEGKTL~a~l~ayl~aL~G~---~VhVvT~NdyLA~RD~e~m~pvy~~L 144 (870)
T CHL00122 73 LGL-RHFDVQLIGGLVLN--DGKIAEMKTGEGKTLVATLPAYLNALTGK---GVHIVTVNDYLAKRDQEWMGQIYRFL 144 (870)
T ss_pred hCC-CCCchHhhhhHhhc--CCccccccCCCCchHHHHHHHHHHHhcCC---ceEEEeCCHHHHHHHHHHHHHHHHHc
Confidence 476 58999977654443 44788999999999999999854443455 78999999999999888888777765
No 127
>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=96.93 E-value=0.018 Score=48.26 Aligned_cols=85 Identities=20% Similarity=0.113 Sum_probs=60.6
Q ss_pred HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCC
Q 028887 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPL 166 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~ 166 (202)
..|+ .|+++|..++=.+..|+ ++.-.||-|||++..+|..-....|+ .+=|++..--||..=.+++..+....
T Consensus 73 ~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G~---~V~vvT~NdyLA~RD~~~~~~~y~~L- 145 (266)
T PF07517_consen 73 TLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQGK---GVHVVTSNDYLAKRDAEEMRPFYEFL- 145 (266)
T ss_dssp HTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTSS----EEEEESSHHHHHHHHHHHHHHHHHT-
T ss_pred HcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhcC---CcEEEeccHHHhhccHHHHHHHHHHh-
Confidence 3465 69999999997777776 89999999999998887766555555 78889999999998888887777765
Q ss_pred CcccccccceEEEEEeCCc
Q 028887 167 DTDLEHKLCTVMALLDGGM 185 (202)
Q Consensus 167 ~~~~~~~~~~~~~~~~g~~ 185 (202)
++++-.++.+..
T Consensus 146 -------Glsv~~~~~~~~ 157 (266)
T PF07517_consen 146 -------GLSVGIITSDMS 157 (266)
T ss_dssp -------T--EEEEETTTE
T ss_pred -------hhccccCccccC
Confidence 456555554444
No 128
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.91 E-value=0.0028 Score=59.39 Aligned_cols=67 Identities=24% Similarity=0.336 Sum_probs=52.9
Q ss_pred CCcHHHHHHHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.|+..|..+|..+.++ +..++.|.||||||....- +++.+ ++ .+|||+|.+.+|.|+++.++.+++.
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~-~~~~~--~~---p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMAN-VIAQV--NR---PTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHH-HHHHh--CC---CEEEEECCHHHHHHHHHHHHHhCCC
Confidence 6899999999887543 3567999999999977543 33322 22 5899999999999999999999864
No 129
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.87 E-value=0.004 Score=58.64 Aligned_cols=70 Identities=20% Similarity=0.164 Sum_probs=56.6
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~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 378999998865 24568889999999999988877777764 33344799999999999999999988765
No 130
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=96.84 E-value=0.0035 Score=60.18 Aligned_cols=70 Identities=26% Similarity=0.296 Sum_probs=60.0
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 58899999999988899999999999999999777887777665544 58999999999999987776665
No 131
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.81 E-value=0.0042 Score=57.51 Aligned_cols=75 Identities=15% Similarity=0.195 Sum_probs=61.1
Q ss_pred HHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 85 MEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
+...|..+++.-|..|...+++..-.+++||+|+|||.+-.--+.+.+.. ....+|+.+|..--+.|+.+.+.+-
T Consensus 403 ~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~--~~~~VLvcApSNiAVDqLaeKIh~t 477 (935)
T KOG1802|consen 403 FSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ--HAGPVLVCAPSNIAVDQLAEKIHKT 477 (935)
T ss_pred hcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHh--cCCceEEEcccchhHHHHHHHHHhc
Confidence 33457778999999999999999999999999999998876666666554 2336999999998888888877654
No 132
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.69 E-value=0.013 Score=57.13 Aligned_cols=70 Identities=20% Similarity=0.099 Sum_probs=53.8
Q ss_pred CCcHHHHHHHHhHHc--CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 92 LPTDIQREALPVLFS--SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~--g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.|.|+|....-.++. ...+++.-..|.|||.-..+-+-+.+..+. .-++||+||. .|..||..++.+.+.
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~-~~rvLIVvP~-sL~~QW~~El~~kF~ 223 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGR-AERVLILVPE-TLQHQWLVEMLRRFN 223 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCC-CCcEEEEcCH-HHHHHHHHHHHHHhC
Confidence 589999998877654 346899999999999888666555554443 2379999997 899999998865443
No 133
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.68 E-value=0.005 Score=61.37 Aligned_cols=61 Identities=21% Similarity=0.311 Sum_probs=40.1
Q ss_pred HHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHH-HHhcCCccEEEEe--cC----CHHhHHHHHHHHHH
Q 028887 95 DIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSL-VNAQRSAVQAVIV--VP----TRELGMQVTKVARV 160 (202)
Q Consensus 95 ~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~-l~~~~~~~~~Lil--~P----tr~La~Q~~~~~~~ 160 (202)
..-.+.+..+.+++.++++|+||||||. .+|.+-. ...+. .+.|+ -| +++||.|+.+++..
T Consensus 77 ~~r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle~g~g~---~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 77 QKKQDILEAIRDHQVVIVAGETGSGKTT--QLPKICLELGRGV---KGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHHcCCCC---CCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 3444555666677788999999999999 4674322 22221 22333 25 67999999988875
No 134
>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=96.68 E-value=0.0023 Score=48.61 Aligned_cols=53 Identities=21% Similarity=0.323 Sum_probs=38.4
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHH-HHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFS-LVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~-~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
.|+-.++.-.+|+|||--.+--++. .+.++. ++|||.|||.++..+.+.++..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~---rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRRL---RVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT-----EEEEESSHHHHHHHHHHTTTS
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHccC---eEEEecccHHHHHHHHHHHhcC
Confidence 3555678889999999977765554 555555 8999999999999988887644
No 135
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.66 E-value=0.0081 Score=58.23 Aligned_cols=51 Identities=25% Similarity=0.408 Sum_probs=40.2
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~ 159 (202)
.++.+..+||+|||.+|+-.|++.... .+..+.||+||+.+.-..+.+.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~-~~~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQK-YGLFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHH-cCCcEEEEEeCCHHHHHHHHHHhh
Confidence 368899999999999999998776544 234579999999888777665543
No 136
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.65 E-value=0.023 Score=55.78 Aligned_cols=72 Identities=22% Similarity=0.160 Sum_probs=53.0
Q ss_pred CCcHHHHHHHHhHH----cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLF----SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~----~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 57899999998764 578899999999999987644433222222222258999996 7778899999999864
No 137
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.63 E-value=0.0085 Score=56.16 Aligned_cols=70 Identities=23% Similarity=0.191 Sum_probs=56.6
Q ss_pred CcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~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 68899998754 34679999999999999988888777754 334457899999999999999999877653
No 138
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.59 E-value=0.0077 Score=57.07 Aligned_cols=72 Identities=24% Similarity=0.189 Sum_probs=57.9
Q ss_pred CCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc-CCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-RSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
..+++.|.+++.. ....++|.|..|||||.+...=+...+... -..-++|+|+.|+.-|..+.+++.++.+.
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~ 75 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT 75 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 3589999998854 245799999999999999877776666543 23447999999999999999999988764
No 139
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.58 E-value=0.018 Score=54.30 Aligned_cols=71 Identities=17% Similarity=0.096 Sum_probs=55.6
Q ss_pred CCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-CccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 91 VLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~-~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
..+++.|++++-. ...+++|.|..|||||.+.+.-+...+..+. ..-++|+|+.|+..|..+.+++....+
T Consensus 195 ~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 195 SPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred CCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 3689999998853 3356899999999999998777666665443 234799999999999999998877654
No 140
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.51 E-value=0.0074 Score=57.08 Aligned_cols=72 Identities=18% Similarity=0.087 Sum_probs=57.2
Q ss_pred CCcHHHHHHHHhH----HcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVL----FSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+...|..||..+ ..| +.+++...||+|||-..+ .++.++.+.+..-++|+|+=.++|..|.+..|..+.+.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAi-aii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~ 241 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAI-AIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPF 241 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHH-HHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCC
Confidence 5788999999764 345 348999999999998874 45556655555558999999999999999999888775
No 141
>PRK10536 hypothetical protein; Provisional
Probab=96.51 E-value=0.012 Score=49.05 Aligned_cols=60 Identities=13% Similarity=0.109 Sum_probs=45.8
Q ss_pred CCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH
Q 028887 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~ 149 (202)
++...+..|...+..+..+..+++.|++|+|||...+...++.+..+. ..++++.-|+.+
T Consensus 56 ~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~-~~kIiI~RP~v~ 115 (262)
T PRK10536 56 PILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKD-VDRIIVTRPVLQ 115 (262)
T ss_pred cccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-eeEEEEeCCCCC
Confidence 445568899999999888888999999999999998888887764433 334555556644
No 142
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.45 E-value=0.012 Score=55.88 Aligned_cols=71 Identities=24% Similarity=0.206 Sum_probs=57.1
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~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 SLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT 80 (721)
T ss_pred hcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 5899999988642 4578999999999999987777666653 323447999999999999999999888764
No 143
>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=96.31 E-value=0.015 Score=58.46 Aligned_cols=69 Identities=19% Similarity=0.140 Sum_probs=56.8
Q ss_pred CcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.|+.|.++|. ..|.+++|.|..|||||.+.+--++..+..+..--+.|+++=|+.-|..+.+++++...
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~ 70 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQ 70 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHH
Confidence 5899999996 36889999999999999999888888776553333699999999999998888876554
No 144
>COG4889 Predicted helicase [General function prediction only]
Probab=96.26 E-value=0.017 Score=55.42 Aligned_cols=82 Identities=20% Similarity=0.163 Sum_probs=55.6
Q ss_pred CCCCCcHHHHHHHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 89 GYVLPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.-.+|.|+|+.||...+.| +.-++. .-|+|||...+--+ +.+.. .++|+|+|+++|..|..+....-..
T Consensus 158 ~~kk~R~hQq~Aid~a~~~F~~n~RGkLIM-AcGTGKTfTsLkis-Eala~----~~iL~LvPSIsLLsQTlrew~~~~~ 231 (1518)
T COG4889 158 KPKKPRPHQQTAIDAAKEGFSDNDRGKLIM-ACGTGKTFTSLKIS-EALAA----ARILFLVPSISLLSQTLREWTAQKE 231 (1518)
T ss_pred CCCCCChhHHHHHHHHHhhcccccCCcEEE-ecCCCccchHHHHH-HHHhh----hheEeecchHHHHHHHHHHHhhccC
Confidence 3458999999999998765 223333 46899998876543 33433 3799999999999998776653332
Q ss_pred CCCCcccccccceEEEEEeCCc
Q 028887 164 KPLDTDLEHKLCTVMALLDGGM 185 (202)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~g~~ 185 (202)
- .++..++|....
T Consensus 232 l---------~~~a~aVcSD~k 244 (1518)
T COG4889 232 L---------DFRASAVCSDDK 244 (1518)
T ss_pred c---------cceeEEEecCcc
Confidence 2 255566665533
No 145
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.21 E-value=0.025 Score=48.56 Aligned_cols=47 Identities=34% Similarity=0.403 Sum_probs=32.5
Q ss_pred HHHHHCCCCCCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 83 RRMEETGYVLPTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 83 ~~l~~~g~~~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
..+.+.|+ +++.|...+.. +..++++++.|+|||||| .++-.++..+
T Consensus 125 ~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 125 DQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 33444454 56677777764 567789999999999999 5555555543
No 146
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.21 E-value=0.027 Score=54.18 Aligned_cols=72 Identities=21% Similarity=0.101 Sum_probs=56.0
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
.|. .|+++|-..--.+..| -+....||.|||+++.+|+.-....|+ .+-|+++.--||..=.+++..+....
T Consensus 82 lG~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL~Gk---gVhVVTvNdYLA~RDae~m~~vy~~L 153 (939)
T PRK12902 82 LGM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNALTGK---GVHVVTVNDYLARRDAEWMGQVHRFL 153 (939)
T ss_pred hCC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhhcCC---CeEEEeCCHHHHHhHHHHHHHHHHHh
Confidence 465 6899997665555444 578999999999999998876655566 78999999999998777777666655
No 147
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=96.07 E-value=0.017 Score=55.46 Aligned_cols=87 Identities=21% Similarity=0.318 Sum_probs=64.7
Q ss_pred CCCHHHHH-HHHHCCCCCCcHHHHHHH--HhHHcCCcEEEeccCCCchHHHHHHHHHHHHH-hcCCccEEEEecCCHHhH
Q 028887 76 HVPEHVLR-RMEETGYVLPTDIQREAL--PVLFSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 76 gl~~~l~~-~l~~~g~~~~t~~Q~~~i--~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~-~~~~~~~~Lil~Ptr~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 34444433 345678889999999999 56889999999999999999999888877653 333 578888887777
Q ss_pred HHHHHHHHHhhcCC
Q 028887 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 66656565555443
No 148
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=96.02 E-value=0.019 Score=53.87 Aligned_cols=67 Identities=24% Similarity=0.320 Sum_probs=52.9
Q ss_pred CCcHHHHHHHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.|++.|..++..+.++ +..++.|.+|+||++.... +++.. ++ .+|||+|+.+.|.|+++.++.+.+.
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~-l~~~~--~r---~vLIVt~~~~~A~~l~~dL~~~~~~ 83 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMAN-VIARL--QR---PTLVLAHNKTLAAQLYSEFKEFFPE 83 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHH-HHHHh--CC---CEEEEECCHHHHHHHHHHHHHhcCC
Confidence 6999999999887533 2567999999999988542 33322 23 6999999999999999999999764
No 149
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.98 E-value=0.0067 Score=59.66 Aligned_cols=69 Identities=20% Similarity=0.272 Sum_probs=54.1
Q ss_pred CCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHH-HHhhcC
Q 028887 92 LPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA-RVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~-~~l~~~ 164 (202)
..+++|.++++.+.+. .++++.+|+|||||.+.-++++. .....+++++.|.-+.+..+++.+ +++...
T Consensus 1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~ 1213 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKL 1213 (1674)
T ss_pred ccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhccc
Confidence 4489999999887764 56999999999999999998877 233457999999999988776554 444443
No 150
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=95.96 E-value=0.028 Score=53.37 Aligned_cols=71 Identities=20% Similarity=0.179 Sum_probs=57.4
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC-CccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~-~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.+++.|.+++... ...++|.|..|||||.+...=+...+..++ ..-++|+++-|+.-|..+.+++.++.+.
T Consensus 4 ~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~ 75 (726)
T TIGR01073 4 HLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGP 75 (726)
T ss_pred ccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhcc
Confidence 5899999988642 457899999999999998887777776432 3347899999999999999999888653
No 151
>PRK05973 replicative DNA helicase; Provisional
Probab=95.90 E-value=0.028 Score=46.27 Aligned_cols=66 Identities=26% Similarity=0.250 Sum_probs=43.7
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+||.. +...-+..|.-+++.|++|+|||...+--+.+....+. .++|++-+-. ..|+.+++..++
T Consensus 50 ~~~p~~-~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge---~vlyfSlEes-~~~i~~R~~s~g 115 (237)
T PRK05973 50 ATTPAE-ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGR---TGVFFTLEYT-EQDVRDRLRALG 115 (237)
T ss_pred CCCCHH-HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCC---eEEEEEEeCC-HHHHHHHHHHcC
Confidence 455533 23344556678999999999999887766666655544 6777754432 566777776664
No 152
>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=95.75 E-value=0.028 Score=43.54 Aligned_cols=49 Identities=20% Similarity=0.265 Sum_probs=35.7
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
+++.|++|+|||...+--+...+..+. .+++++. -+-..++.+++..++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~---~v~~~s~-e~~~~~~~~~~~~~g 50 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGE---PGLYVTL-EESPEELIENAESLG 50 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCC---cEEEEEC-CCCHHHHHHHHHHcC
Confidence 689999999999877666666565555 6787754 466777777777664
No 153
>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=95.73 E-value=0.094 Score=49.91 Aligned_cols=67 Identities=19% Similarity=0.212 Sum_probs=49.0
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHH
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~ 156 (202)
.++ .+++.|++++..+..++.+++.|+.|+|||.+. -.+++.+...+....+++++||-.-|..+.+
T Consensus 320 ~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 320 LRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred cCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 454 689999999999988889999999999999754 3444444432212468888999766665543
No 154
>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=95.70 E-value=0.023 Score=44.62 Aligned_cols=46 Identities=15% Similarity=0.204 Sum_probs=29.6
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
..+.++++.|++|+|||.....-.-+.+..+. .++++ ...+|...+
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~---~v~f~-~~~~L~~~l 90 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGY---SVLFI-TASDLLDEL 90 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT-----EEEE-EHHHHHHHH
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCc---ceeEe-ecCceeccc
Confidence 45788999999999999887666555555444 55554 555665544
No 155
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.70 E-value=0.065 Score=46.14 Aligned_cols=39 Identities=23% Similarity=0.256 Sum_probs=28.8
Q ss_pred CcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 93 PTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 93 ~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 456789999999999999653 5555554
No 156
>PRK08181 transposase; Validated
Probab=95.64 E-value=0.16 Score=42.60 Aligned_cols=58 Identities=17% Similarity=0.241 Sum_probs=37.0
Q ss_pred CcHHHHHHHHh----HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 93 PTDIQREALPV----LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 93 ~t~~Q~~~i~~----i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
+...|..++.. +-.+.++++.||+|+|||........+.+..+. .++++ +..+|..++
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~---~v~f~-~~~~L~~~l 149 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGW---RVLFT-RTTDLVQKL 149 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCC---ceeee-eHHHHHHHH
Confidence 34566665532 346789999999999999766544444444433 45443 556676654
No 157
>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=95.63 E-value=0.11 Score=49.63 Aligned_cols=75 Identities=13% Similarity=0.123 Sum_probs=50.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHHhHHcC-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 77 VPEHVLRRMEETGYVLPTDIQREALPVLFSS-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
+++..+...-..++ .+++.|..++..++.+ +-+++.|+.|+|||... -.+.+.+.. .+.+++.++||---+..+.
T Consensus 338 ~~~~~~~~~l~~~~-~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll-~~i~~~~~~--~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 338 VSPPIVDAAIDQHY-RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTML-KAAREAWEA--AGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred CCHHHHHHHHhccC-CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHH-HHHHHHHHh--CCCeEEEEeCcHHHHHHHH
Confidence 44443333322344 5899999999998874 66899999999999663 334444433 2347889999966655543
No 158
>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=95.52 E-value=0.03 Score=45.77 Aligned_cols=53 Identities=15% Similarity=0.239 Sum_probs=39.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.|..+++.|++|+|||...+--+.+.+..+. .+++++ +-+-..|+.+.+..++
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge---~~lyvs-~ee~~~~i~~~~~~~g 72 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGE---PGIYVA-LEEHPVQVRRNMAQFG 72 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCC---cEEEEE-eeCCHHHHHHHHHHhC
Confidence 3567999999999999877666666665555 788877 4466777777777655
No 159
>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=95.45 E-value=0.076 Score=49.34 Aligned_cols=65 Identities=18% Similarity=0.307 Sum_probs=45.7
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHHHH--HHHHHHHHhcCCccEEEEecCCHHhHHHHHHHH
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYL--LLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l--~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
.+.|+.++..++.++.+++.|+.|+|||.... +..+..........++++.+||--=+..+.+.+
T Consensus 147 ~~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 147 QNWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred cHHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 37899999999999999999999999998643 333332222212247889999966665555444
No 160
>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=95.43 E-value=0.1 Score=44.36 Aligned_cols=40 Identities=25% Similarity=0.347 Sum_probs=28.0
Q ss_pred CcHHHHHHHHh-HHcCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 93 PTDIQREALPV-LFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 93 ~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+++.|...+.. +..+.+++++|+||||||... -.++..+.
T Consensus 117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~ 157 (299)
T TIGR02782 117 MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIA 157 (299)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhh
Confidence 55666666654 456789999999999999653 44555553
No 161
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.42 E-value=0.56 Score=39.47 Aligned_cols=65 Identities=26% Similarity=0.200 Sum_probs=38.2
Q ss_pred hHHHHHhCCCCHHHHHHHHHC--CCCCCcHHHHHHHHhH---H-----------cCCcEEEeccCCCchHHHHHHHHHHH
Q 028887 68 TLRELCQGHVPEHVLRRMEET--GYVLPTDIQREALPVL---F-----------SSRDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~--g~~~~t~~Q~~~i~~i---~-----------~g~~~l~~a~TGsGKT~~~l~~~l~~ 131 (202)
-.+.|.+.|+++.+.+.+.+. +..............+ + .++.+++.||||+|||.....-....
T Consensus 139 l~~~L~~~gv~~~la~~L~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~vi~~vGptGvGKTTt~~kLa~~~ 218 (282)
T TIGR03499 139 LLERLLRAGVSPELARELLEKLPERADAEDAWRWLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARF 218 (282)
T ss_pred HHHHHHHCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHhccCCccccccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence 456777888988887776442 2222222222222222 1 23468899999999998766544443
Q ss_pred H
Q 028887 132 V 132 (202)
Q Consensus 132 l 132 (202)
.
T Consensus 219 ~ 219 (282)
T TIGR03499 219 V 219 (282)
T ss_pred H
Confidence 3
No 162
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.40 E-value=0.086 Score=48.72 Aligned_cols=86 Identities=21% Similarity=0.225 Sum_probs=58.2
Q ss_pred HHHHHHHHHCCCCCC-------cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCC---ccEEEEecCCH
Q 028887 79 EHVLRRMEETGYVLP-------TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS---AVQAVIVVPTR 148 (202)
Q Consensus 79 ~~l~~~l~~~g~~~~-------t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~---~~~~Lil~Ptr 148 (202)
+.|...|.+.--.++ .+.|.+.|.. -.++-++|+|..|||||.+.+.=+.-.+..-+. ...+||+.|.+
T Consensus 192 EvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~-ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~ 270 (747)
T COG3973 192 EVLQRVLEKNSSAKMRDIVETIQKEQNEIIRF-EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNR 270 (747)
T ss_pred HHHHHHHHhccchhHHHHHHHhhHhHHHHHhc-cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcH
Confidence 344555655433333 3444444321 245668999999999999988766555543221 22499999999
Q ss_pred HhHHHHHHHHHHhhcCC
Q 028887 149 ELGMQVTKVARVLAAKP 165 (202)
Q Consensus 149 ~La~Q~~~~~~~l~~~~ 165 (202)
-....+.+++-+++...
T Consensus 271 vFleYis~VLPeLGe~~ 287 (747)
T COG3973 271 VFLEYISRVLPELGEEG 287 (747)
T ss_pred HHHHHHHHhchhhccCc
Confidence 99999999999998764
No 163
>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=95.34 E-value=0.04 Score=44.46 Aligned_cols=53 Identities=15% Similarity=0.231 Sum_probs=37.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.|..+++.|++|+|||...+--+.+.+.. +. .+++++ +.+-..++.+.++.++
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge---~vlyvs-~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGE---KVLYVS-FEEPPEELIENMKSFG 71 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT-----EEEEE-SSS-HHHHHHHHHTTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC---cEEEEE-ecCCHHHHHHHHHHcC
Confidence 34679999999999998877777777776 66 677776 3444567777777654
No 164
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=95.33 E-value=0.14 Score=50.32 Aligned_cols=63 Identities=17% Similarity=0.163 Sum_probs=47.2
Q ss_pred CCCCCCcHHHHHHHHhHHcCCc-EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 88 TGYVLPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~-~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
.|+ .+++.|.+++..++.+++ +++.|..|+|||.. +-.+.+.+.. .+.+++.++||---+..+
T Consensus 343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~--~G~~V~~~ApTGkAA~~L 406 (988)
T PRK13889 343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEA--AGYEVRGAALSGIAAENL 406 (988)
T ss_pred cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHH--cCCeEEEecCcHHHHHHH
Confidence 455 689999999999998654 78999999999986 4555555543 234789999996655444
No 165
>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=95.32 E-value=0.036 Score=48.04 Aligned_cols=52 Identities=15% Similarity=0.173 Sum_probs=38.3
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
-++|.|..|||||++.+--+... .....+..++++++...|...+.+.+..-
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l-~~~~~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKEL-QNSEEGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHh-hccccCCceEEEEecchHHHHHHHHHhhh
Confidence 47899999999998877665554 11223337999999999998777776543
No 166
>PRK06526 transposase; Provisional
Probab=95.30 E-value=0.094 Score=43.57 Aligned_cols=47 Identities=13% Similarity=0.189 Sum_probs=30.3
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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---RVLFA-TAAQWVARL 141 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC---chhhh-hHHHHHHHH
Confidence 345679999999999999877655555554443 45443 334454444
No 167
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=95.26 E-value=0.12 Score=48.30 Aligned_cols=66 Identities=23% Similarity=0.320 Sum_probs=47.1
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHH
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~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 58999999999999999999999999997743322222221 1223578888999777776665543
No 168
>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=95.15 E-value=0.049 Score=47.53 Aligned_cols=69 Identities=12% Similarity=0.234 Sum_probs=48.0
Q ss_pred CCcHHHHHHHHhH------HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH--HHHHHHhhc
Q 028887 92 LPTDIQREALPVL------FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV--TKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i------~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 3678899998887 6778899999999999976532 2333322 233788899997666666 344555554
No 169
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.11 E-value=0.06 Score=44.72 Aligned_cols=67 Identities=18% Similarity=0.246 Sum_probs=44.8
Q ss_pred CCCCCcHHHHHHHHhHH-------cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 89 GYVLPTDIQREALPVLF-------SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i~-------~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 44445556666665442 567999999999999987655555545 322 24455688888888766544
No 170
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.92 E-value=0.043 Score=47.64 Aligned_cols=30 Identities=27% Similarity=0.313 Sum_probs=22.5
Q ss_pred hHHcCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 103 VLFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 103 ~i~~g~~~l~~a~TGsGKT~~~l~~~l~~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 356789999999999999954 455555553
No 171
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.79 E-value=0.036 Score=47.15 Aligned_cols=26 Identities=31% Similarity=0.556 Sum_probs=20.1
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcC
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~ 136 (202)
++|.|||||||+.. +.++++.+.+..
T Consensus 128 ILVTGpTGSGKSTT-lAamId~iN~~~ 153 (353)
T COG2805 128 ILVTGPTGSGKSTT-LAAMIDYINKHK 153 (353)
T ss_pred EEEeCCCCCcHHHH-HHHHHHHHhccC
Confidence 88999999999965 466777776543
No 172
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.77 E-value=0.46 Score=41.75 Aligned_cols=68 Identities=22% Similarity=0.156 Sum_probs=41.3
Q ss_pred cchHHHHHhCCCCHHHHHHHHH-CC----CCCCcHHH---HHHHH----hH-------HcCCcEEEeccCCCchHHHHHH
Q 028887 66 SLTLRELCQGHVPEHVLRRMEE-TG----YVLPTDIQ---REALP----VL-------FSSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~-~g----~~~~t~~Q---~~~i~----~i-------~~g~~~l~~a~TGsGKT~~~l~ 126 (202)
..-.+.|.+.|+.+.+.+.+-+ .. ...+...+ ...+. .+ ..|..+++.||||+|||.....
T Consensus 77 ~~l~~~L~~~g~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTTtiak 156 (374)
T PRK14722 77 GALTKYLFAAGFSAQLVRMIVDNLPEGEGYDTLDAAADWAQSVLAANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAK 156 (374)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHhhhhhcccCCHHHHHHHHHHHHHhcchhhcCCCccccCCcEEEEECCCCCCHHHHHHH
Confidence 3455888899999988888743 21 11221211 11111 11 2356799999999999998776
Q ss_pred HHHHHHH
Q 028887 127 LIFSLVN 133 (202)
Q Consensus 127 ~~l~~l~ 133 (202)
-....+.
T Consensus 157 LA~~~~~ 163 (374)
T PRK14722 157 LAARCVM 163 (374)
T ss_pred HHHHHHH
Confidence 6555443
No 173
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.66 E-value=0.64 Score=41.52 Aligned_cols=62 Identities=21% Similarity=0.204 Sum_probs=35.7
Q ss_pred hHHHHHhCCCCHHHHHHHHHC--CCCCCcH--HHHHHHHhH------------HcCCcEEEeccCCCchHHHHHHHHH
Q 028887 68 TLRELCQGHVPEHVLRRMEET--GYVLPTD--IQREALPVL------------FSSRDCILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~~--g~~~~t~--~Q~~~i~~i------------~~g~~~l~~a~TGsGKT~~~l~~~l 129 (202)
-...|.+.|+.+.+.+.+.+. +...... ........+ ..|+.+++.||||+|||.....-..
T Consensus 166 ~~~~L~~~gv~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~i~~vGptGvGKTTt~~kLA~ 243 (424)
T PRK05703 166 LYKRLKRSGLSPEIAEKLLKLLLEHMPPRERTAWRYLLELLANMIPVRVEDILKQGGVVALVGPTGVGKTTTLAKLAA 243 (424)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhCccccccccCCcEEEEECCCCCCHHHHHHHHHH
Confidence 356777888888777776432 0001111 222222222 1245788999999999987654433
No 174
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.57 E-value=0.081 Score=46.20 Aligned_cols=64 Identities=27% Similarity=0.280 Sum_probs=50.3
Q ss_pred CCCCCCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhH
Q 028887 88 TGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La 151 (202)
.|+..-+..|..|+..++.. .-|.+.|+.|||||+..+.+.+++....+...+.++--|+..+.
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG 289 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVG 289 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcc
Confidence 36666677889999888765 34788899999999999998888877666666788877876654
No 175
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=94.50 E-value=0.073 Score=45.99 Aligned_cols=77 Identities=18% Similarity=0.223 Sum_probs=48.3
Q ss_pred CcchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCC-cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEE
Q 028887 65 NSLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSR-DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI 143 (202)
Q Consensus 65 ~~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~-~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Li 143 (202)
+..+++.|.+.-+.-. .+- .|..+++.|...+-.+..++ +++++|.||||||.. +-++...+.... +++.
T Consensus 135 p~lsIRKf~k~~ltl~---dli--~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl-LNal~~~i~~~e---RvIt 205 (355)
T COG4962 135 PTLSIRKFPKIKLTLL---DLI--IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL-LNALSGFIDSDE---RVIT 205 (355)
T ss_pred CcccccccccccccHH---HHH--HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH-HHHHHhcCCCcc---cEEE
Confidence 4456777766555422 222 35679999999998877665 999999999999964 233333333333 4555
Q ss_pred ecCCHHh
Q 028887 144 VVPTREL 150 (202)
Q Consensus 144 l~Ptr~L 150 (202)
+==|.||
T Consensus 206 iEDtaEL 212 (355)
T COG4962 206 IEDTAEL 212 (355)
T ss_pred Eeehhhh
Confidence 4444444
No 176
>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=94.38 E-value=0.2 Score=50.36 Aligned_cols=73 Identities=19% Similarity=0.111 Sum_probs=41.1
Q ss_pred CCCCCCcHHHH---HHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 88 TGYVLPTDIQR---EALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 88 ~g~~~~t~~Q~---~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
..|...-|+.+ +.+..+.++..++++|+||||||.. +|.+-.-........+++.-|-|--|..+.+++.+..
T Consensus 60 ~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTq--lPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~el 135 (1283)
T TIGR01967 60 IRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQ--LPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEEL 135 (1283)
T ss_pred ccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHH--HHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHh
Confidence 34554444443 4455566677889999999999994 4543322111112234444476666666665554433
No 177
>PRK06921 hypothetical protein; Provisional
Probab=94.26 E-value=0.77 Score=38.34 Aligned_cols=47 Identities=21% Similarity=0.122 Sum_probs=28.8
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
.+..+++.|++|+|||.... ++...+... .+..++++ +..++..++.
T Consensus 116 ~~~~l~l~G~~G~GKThLa~-aia~~l~~~-~g~~v~y~-~~~~l~~~l~ 162 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLT-AAANELMRK-KGVPVLYF-PFVEGFGDLK 162 (266)
T ss_pred CCCeEEEECCCCCcHHHHHH-HHHHHHhhh-cCceEEEE-EHHHHHHHHH
Confidence 35779999999999996553 444444332 12356665 4456555543
No 178
>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=94.19 E-value=0.21 Score=39.55 Aligned_cols=38 Identities=18% Similarity=0.239 Sum_probs=28.9
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~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 466899999999999888766666555444 67887765
No 179
>PRK04328 hypothetical protein; Provisional
Probab=94.14 E-value=0.13 Score=42.53 Aligned_cols=53 Identities=19% Similarity=0.274 Sum_probs=37.9
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.|..+++.|++|+|||...+--+.+.+..+. .+++++ +-+-..++.+.++.++
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge---~~lyis-~ee~~~~i~~~~~~~g 74 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGE---PGVYVA-LEEHPVQVRRNMRQFG 74 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCC---cEEEEE-eeCCHHHHHHHHHHcC
Confidence 3567899999999999876666666666655 677776 4455566777766664
No 180
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.11 E-value=0.07 Score=46.09 Aligned_cols=29 Identities=21% Similarity=0.267 Sum_probs=22.3
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+..+.+++++|+||||||.. +-+++..+.
T Consensus 157 v~~~~nili~G~tgSGKTTl-l~aL~~~ip 185 (332)
T PRK13900 157 VISKKNIIISGGTSTGKTTF-TNAALREIP 185 (332)
T ss_pred HHcCCcEEEECCCCCCHHHH-HHHHHhhCC
Confidence 45789999999999999955 455556554
No 181
>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=94.07 E-value=0.1 Score=41.00 Aligned_cols=33 Identities=24% Similarity=0.281 Sum_probs=26.3
Q ss_pred CCcHHHHHHHHh-HHcCCcEEEeccCCCchHHHH
Q 028887 92 LPTDIQREALPV-LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 92 ~~t~~Q~~~i~~-i~~g~~~l~~a~TGsGKT~~~ 124 (202)
..++.|...+.. +..|..+++.|+||||||...
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 367777777765 456889999999999999764
No 182
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.03 E-value=0.42 Score=41.29 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=28.7
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 3578999999999999754433333333333 56554 4566655543
No 183
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.99 E-value=0.17 Score=45.76 Aligned_cols=40 Identities=33% Similarity=0.385 Sum_probs=28.4
Q ss_pred cHHHHHHHHhHHcCCc--EEEeccCCCchHHHHHHHHHHHHHh
Q 028887 94 TDIQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~--~l~~a~TGsGKT~~~l~~~l~~l~~ 134 (202)
++.|...+..+++... +++.||||||||.. +..++..+..
T Consensus 243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 6777777766665543 78999999999965 4555565544
No 184
>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=93.87 E-value=0.16 Score=40.93 Aligned_cols=53 Identities=15% Similarity=0.203 Sum_probs=34.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.|..+++.|++|+|||...+.-+.+.+.++. .++++.- -+...++.++.+.++
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~---~~~~is~-e~~~~~i~~~~~~~g 71 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGD---PVIYVTT-EESRESIIRQAAQFG 71 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHhcCC---eEEEEEc-cCCHHHHHHHHHHhC
Confidence 3577999999999999876654555555444 6677654 334456655555443
No 185
>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=93.79 E-value=0.25 Score=43.38 Aligned_cols=26 Identities=23% Similarity=0.295 Sum_probs=19.2
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+..++++|+||||||... ..+++.+.
T Consensus 149 ~GlilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHHH
Confidence 346899999999999654 55666554
No 186
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=93.74 E-value=0.37 Score=46.57 Aligned_cols=71 Identities=17% Similarity=0.145 Sum_probs=50.9
Q ss_pred CCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 88 TGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 88 ~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.|. .|+++|-..--.+..|+ +..-.||-|||++..+|+.-....|+ .+-|++..--||..=.+++..+...
T Consensus 75 lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~Gk---gVhVVTvNdYLA~RDae~mg~vy~f 145 (925)
T PRK12903 75 LGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALTGK---GVIVSTVNEYLAERDAEEMGKVFNF 145 (925)
T ss_pred hCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhcCC---ceEEEecchhhhhhhHHHHHHHHHH
Confidence 465 68999988776666663 68999999999999998865444455 5777777778887545555444443
No 187
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.68 E-value=0.12 Score=48.29 Aligned_cols=42 Identities=26% Similarity=0.431 Sum_probs=35.8
Q ss_pred CCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 92 LPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+|+.+|.+.+..+ -.|+-.|+.+|||+|||+..+-+.+..+.
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~ 60 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLR 60 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHH
Confidence 6899999988764 46898899999999999998888877664
No 188
>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=93.58 E-value=0.085 Score=43.73 Aligned_cols=31 Identities=19% Similarity=0.300 Sum_probs=23.5
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHHhc
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~ 135 (202)
+..+.++++.|+||||||... ..++..+...
T Consensus 124 v~~~~~ili~G~tGSGKTT~l-~all~~i~~~ 154 (270)
T PF00437_consen 124 VRGRGNILISGPTGSGKTTLL-NALLEEIPPE 154 (270)
T ss_dssp HHTTEEEEEEESTTSSHHHHH-HHHHHHCHTT
T ss_pred cccceEEEEECCCccccchHH-HHHhhhcccc
Confidence 356789999999999999665 5556666544
No 189
>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=93.56 E-value=0.19 Score=41.74 Aligned_cols=39 Identities=10% Similarity=0.097 Sum_probs=28.9
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Pt 147 (202)
.|.-+++.|++|+|||...+--+.+.+..+. +++|++-+
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge---~vlyis~E 73 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASRGN---PVLFVTVE 73 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCC---cEEEEEec
Confidence 3567999999999999877665555555444 68888754
No 190
>PRK12377 putative replication protein; Provisional
Probab=93.55 E-value=0.31 Score=40.40 Aligned_cols=45 Identities=11% Similarity=0.207 Sum_probs=27.7
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~ 156 (202)
..+++.|++|+|||...... ...+...+ ..+++ ++..+|..++..
T Consensus 102 ~~l~l~G~~GtGKThLa~AI-a~~l~~~g--~~v~~-i~~~~l~~~l~~ 146 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAI-GNRLLAKG--RSVIV-VTVPDVMSRLHE 146 (248)
T ss_pred CeEEEECCCCCCHHHHHHHH-HHHHHHcC--CCeEE-EEHHHHHHHHHH
Confidence 57999999999999655433 33433322 13443 455677766543
No 191
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=93.54 E-value=0.077 Score=48.10 Aligned_cols=70 Identities=17% Similarity=0.209 Sum_probs=55.5
Q ss_pred CCcHHHHHHHHhHHcC---CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 92 LPTDIQREALPVLFSS---RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g---~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 4678999999998853 57888899999999987655421 1 23 7999999988999999999988875444
No 192
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=93.53 E-value=1.9 Score=37.52 Aligned_cols=54 Identities=11% Similarity=-0.029 Sum_probs=31.6
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHH---hcCCccEEEEecCCHHh-HHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVN---AQRSAVQAVIVVPTREL-GMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~---~~~~~~~~Lil~Ptr~L-a~Q~~~~~~~l 161 (202)
.-+.+.|++|+|||...+-..+.... .+....+++|+..+-.. ..++.+....+
T Consensus 127 ~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~ 184 (344)
T PLN03187 127 CITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERF 184 (344)
T ss_pred eEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHc
Confidence 34679999999999876544443322 22223478998875432 33333434443
No 193
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=93.50 E-value=0.61 Score=44.54 Aligned_cols=94 Identities=21% Similarity=0.288 Sum_probs=62.7
Q ss_pred CCcHHHHHHHHhHH---cCC-------cEEEeccCCCchHHHHHHHHHHHHHhcCCc-----cEEEEecCCHHhHHHHHH
Q 028887 92 LPTDIQREALPVLF---SSR-------DCILHAQTGSGKTLTYLLLIFSLVNAQRSA-----VQAVIVVPTRELGMQVTK 156 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~---~g~-------~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~-----~~~Lil~Ptr~La~Q~~~ 156 (202)
.+.|+|++.+.-+. .|. .+|+.-..|+|||+-.+.-+-..+.. ... .++||++|. .|..-|.+
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq-~P~~~~~~~k~lVV~P~-sLv~nWkk 315 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQ-FPQAKPLINKPLVVAPS-SLVNNWKK 315 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHh-CcCccccccccEEEccH-HHHHHHHH
Confidence 57899999998763 232 35666678999998754444333333 222 478999995 78999999
Q ss_pred HHHHhhcCCCCcccccccceEEEEEeCCcc--HHHHHHHHH
Q 028887 157 VARVLAAKPLDTDLEHKLCTVMALLDGGML--RRHKSWLKV 195 (202)
Q Consensus 157 ~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~--~~~~~~l~~ 195 (202)
+|.++.... .+....++++... .++..|+..
T Consensus 316 EF~KWl~~~--------~i~~l~~~~~~~~~w~~~~sil~~ 348 (776)
T KOG0390|consen 316 EFGKWLGNH--------RINPLDFYSTKKSSWIKLKSILFL 348 (776)
T ss_pred HHHHhcccc--------ccceeeeecccchhhhhhHHHHHh
Confidence 999988742 2555666666653 344455533
No 194
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.48 E-value=1.2 Score=39.62 Aligned_cols=65 Identities=22% Similarity=0.277 Sum_probs=36.7
Q ss_pred hHHHHHhCCCCHHHHHHHHH-C--CCC-----CCcHHHHHHHHhH---H--------cCCcEEEeccCCCchHHHHHHHH
Q 028887 68 TLRELCQGHVPEHVLRRMEE-T--GYV-----LPTDIQREALPVL---F--------SSRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 68 ~~~~l~~~gl~~~l~~~l~~-~--g~~-----~~t~~Q~~~i~~i---~--------~g~~~l~~a~TGsGKT~~~l~~~ 128 (202)
-.+.|.+.++.+.+.+.+-+ . .+. .+..+....+..+ + .++.+.+.|+||+|||.....-.
T Consensus 183 i~~~L~~~dV~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~~vI~LVGptGvGKTTTiaKLA 262 (436)
T PRK11889 183 VIRMLEQNDVEQYFIHAYAEKLKVKFENATMITEEEVIEYILEDMRSHFNTENVFEKEVQTIALIGPTGVGKTTTLAKMA 262 (436)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHhhhcccccCCHHHHHHHHHHHHHHHhccccccccCCcEEEEECCCCCcHHHHHHHHH
Confidence 35667788888877766522 1 111 1112222222221 1 12468899999999998866554
Q ss_pred HHHH
Q 028887 129 FSLV 132 (202)
Q Consensus 129 l~~l 132 (202)
....
T Consensus 263 ~~L~ 266 (436)
T PRK11889 263 WQFH 266 (436)
T ss_pred HHHH
Confidence 4433
No 195
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.39 E-value=0.25 Score=40.34 Aligned_cols=54 Identities=11% Similarity=0.114 Sum_probs=34.9
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
..|..+++.|++|+|||...+-.+...+..+. ++++++.+ +-..+..+.+.+++
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~---~~~yi~~e-~~~~~~~~~~~~~g 75 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQNGY---SVSYVSTQ-LTTTEFIKQMMSLG 75 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhCCC---cEEEEeCC-CCHHHHHHHHHHhC
Confidence 34678999999999999886555555444444 67887743 33345555554443
No 196
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.36 E-value=2.1 Score=39.51 Aligned_cols=64 Identities=19% Similarity=0.011 Sum_probs=39.1
Q ss_pred chHHHHHhCCCCHHHHHHHHH-CCC-CCCcHHHHHHHHh------------HHcCCcEEEeccCCCchHHHHHHHHHH
Q 028887 67 LTLRELCQGHVPEHVLRRMEE-TGY-VLPTDIQREALPV------------LFSSRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~-~g~-~~~t~~Q~~~i~~------------i~~g~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
.-++.|.+.|+.+.+.+.|-+ +.- ............. +..|..+.+.|++|+|||.........
T Consensus 296 ~l~~~L~~~Gvs~~la~~L~~~l~~~~~~~~~~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~ 373 (559)
T PRK12727 296 QALELMDDYGFDAGLTRDVAMQIPADTELHRGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQR 373 (559)
T ss_pred HHHHHHHHCCCCHHHHHHHHHhhhcccchhhHHHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 456888899999988888743 211 1111111111111 234677889999999999887554443
No 197
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.31 E-value=0.34 Score=46.48 Aligned_cols=73 Identities=19% Similarity=0.215 Sum_probs=51.6
Q ss_pred CCcHHHHHHHHhHHc----CCcEEEeccCCCchHHHHHHHHHHHHHhc------------C-------------------
Q 028887 92 LPTDIQREALPVLFS----SRDCILHAQTGSGKTLTYLLLIFSLVNAQ------------R------------------- 136 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~----g~~~l~~a~TGsGKT~~~l~~~l~~l~~~------------~------------------- 136 (202)
.|++.|..-+..++. ..+.++..|||+|||++.+-..+.-.... +
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e~ 100 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEEA 100 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhhh
Confidence 689999988877653 47899999999999999887665433110 0
Q ss_pred --------CccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 137 --------SAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 137 --------~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.-++..|-+-|.....|+.+++++....
T Consensus 101 ~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~ 136 (945)
T KOG1132|consen 101 GEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYR 136 (945)
T ss_pred cCccccccCCceEEEecchHHHHHHHHHHHhhcCCC
Confidence 1245666667777777777777766544
No 198
>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=93.27 E-value=0.16 Score=48.56 Aligned_cols=52 Identities=13% Similarity=0.204 Sum_probs=41.4
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
.-.++.+|-|||||.+..-++-+.+.. ...++|+++..++|+.+..++++..
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~~--~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALKN--PDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhccC--CCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 347899999999998887766555422 2338999999999999999999754
No 199
>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=93.25 E-value=0.077 Score=47.59 Aligned_cols=51 Identities=20% Similarity=0.257 Sum_probs=39.4
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.++++.|+||||||..+++|.+- .... .++|.=|--||........++.+.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll--~~~~---s~iV~D~KgEl~~~t~~~r~~~G~ 95 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL--NYPG---SMIVTDPKGELYEKTAGYRKKRGY 95 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH--hccC---CEEEEECCCcHHHHHHHHHHHCCC
Confidence 46999999999999999999763 2222 577778999998887776666553
No 200
>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=93.19 E-value=0.28 Score=39.45 Aligned_cols=52 Identities=15% Similarity=0.204 Sum_probs=35.9
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+--+...+..+. .++++.-. +-..++.+.+..+.
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~---~~~y~s~e-~~~~~l~~~~~~~~ 67 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGE---KAMYISLE-EREERILGYAKSKG 67 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC---eEEEEECC-CCHHHHHHHHHHcC
Confidence 467899999999999876555555565554 67776544 34667666666654
No 201
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=93.02 E-value=0.95 Score=45.08 Aligned_cols=76 Identities=20% Similarity=0.099 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHHhHHc-CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 77 VPEHVLRRMEETGYVLPTDIQREALPVLFS-SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~-g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
+.+..+......++ .+++.|..++..+.. ++-+++.|..|+|||.+.- ++.+.+.. .+.+++.++||---+..+.
T Consensus 367 v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~--~G~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 367 VREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AAREAWEA--AGYRVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHHHHHH--cCCeEEEEcCcHHHHHHHH
Confidence 44444444444444 689999999998764 4668999999999996543 34444433 2337888999966665544
Q ss_pred H
Q 028887 156 K 156 (202)
Q Consensus 156 ~ 156 (202)
+
T Consensus 443 e 443 (1102)
T PRK13826 443 K 443 (1102)
T ss_pred H
Confidence 3
No 202
>PF12846 AAA_10: AAA-like domain
Probab=92.88 E-value=0.23 Score=41.02 Aligned_cols=42 Identities=26% Similarity=0.336 Sum_probs=29.2
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 57899999999999877755555555443 6666666655444
No 203
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.86 E-value=3 Score=36.87 Aligned_cols=21 Identities=48% Similarity=0.447 Sum_probs=17.1
Q ss_pred CcEEEeccCCCchHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~ 128 (202)
..+++.||||+|||.+..--.
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA 195 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLA 195 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 468899999999998875444
No 204
>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=92.85 E-value=0.21 Score=45.32 Aligned_cols=54 Identities=22% Similarity=0.316 Sum_probs=39.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.|+.+++.|++|+|||...+--+.+.+.+ +. .+++++-. |-..++.+.+..++-
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge---~~lyvs~e-E~~~~l~~~~~~~G~ 74 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDE---PGVFVTFE-ESPQDIIKNARSFGW 74 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCC---CEEEEEEe-cCHHHHHHHHHHcCC
Confidence 35779999999999998877666666655 45 67777754 666777777776653
No 205
>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=92.85 E-value=0.33 Score=45.56 Aligned_cols=54 Identities=20% Similarity=0.242 Sum_probs=40.6
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH--hHHHHHHHHHHhhcC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE--LGMQVTKVARVLAAK 164 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~--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 57999999999999888666666676554 6777777754 777777777776543
No 206
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=92.81 E-value=0.23 Score=41.00 Aligned_cols=54 Identities=19% Similarity=0.257 Sum_probs=40.1
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.|+.+++.|++|||||...+--+.+.+..+. .++++ -+.+...++.+.+..++-
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge---~vlyv-s~~e~~~~l~~~~~~~g~ 75 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGE---PVLYV-STEESPEELLENARSFGW 75 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCC---cEEEE-EecCCHHHHHHHHHHcCC
Confidence 4578999999999999877766666666644 56654 567777788887776543
No 207
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=92.79 E-value=0.43 Score=42.19 Aligned_cols=57 Identities=26% Similarity=0.187 Sum_probs=33.6
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC-HHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT-RELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Pt-r~La~Q~~~~~~~l~ 162 (202)
.++.+.+.||||.|||....-.........+...-+||-.=| |-=|..+.+.+-++.
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im 259 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIM 259 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHh
Confidence 367899999999999988765554444223333245555443 444444444444443
No 208
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=92.78 E-value=0.42 Score=37.19 Aligned_cols=58 Identities=19% Similarity=0.223 Sum_probs=37.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhc-------CCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ-------RSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~-------~~~~~~Lil~Ptr~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 566789999999999987665555554311 13447888877766 56777888777654
No 209
>PRK10436 hypothetical protein; Provisional
Probab=92.77 E-value=0.28 Score=44.29 Aligned_cols=39 Identities=26% Similarity=0.276 Sum_probs=25.5
Q ss_pred cHHHHHHHHhHHc--CCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 94 TDIQREALPVLFS--SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 94 t~~Q~~~i~~i~~--g~~~l~~a~TGsGKT~~~l~~~l~~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 4555555655443 345899999999999765 34555553
No 210
>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=92.76 E-value=0.27 Score=45.53 Aligned_cols=45 Identities=20% Similarity=0.376 Sum_probs=29.3
Q ss_pred HHHCCCCCCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 85 MEETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+.++|+ .+.|.+.+..+... --++++||||||||... ..++..+.
T Consensus 295 l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 295 IDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 344554 45666666655442 35789999999999774 45556554
No 211
>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=92.73 E-value=0.14 Score=42.37 Aligned_cols=51 Identities=20% Similarity=0.127 Sum_probs=32.7
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
+..|.-+++.|++|+|||...+.-+.+.... +. .+++++-+- -..++.+++
T Consensus 27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~---~vl~iS~E~-~~~~~~~r~ 78 (271)
T cd01122 27 LRKGELIILTAGTGVGKTTFLREYALDLITQHGV---RVGTISLEE-PVVRTARRL 78 (271)
T ss_pred EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCc---eEEEEEccc-CHHHHHHHH
Confidence 4556789999999999997766555554443 33 677776432 233444444
No 212
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=92.70 E-value=1.1 Score=41.20 Aligned_cols=75 Identities=20% Similarity=0.167 Sum_probs=47.1
Q ss_pred CCCCCcHHHHHHHHhHH----cCCcEEEeccCCCchHHHHHHHHHHHHHhcC-CccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 89 GYVLPTDIQREALPVLF----SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR-SAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 89 g~~~~t~~Q~~~i~~i~----~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~-~~~~~Lil~Ptr~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 45677899988776653 3567999999999999998877766543322 223455544444434444444444433
No 213
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.68 E-value=0.63 Score=38.44 Aligned_cols=57 Identities=16% Similarity=0.191 Sum_probs=33.1
Q ss_pred cHHHHHHHHhHHc-------C-CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 94 TDIQREALPVLFS-------S-RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 94 t~~Q~~~i~~i~~-------g-~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
+..|..++..+.. + ..+++.|++|+|||.....-.-+....+. .++++ +..++...+
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~---~v~~i-t~~~l~~~l 142 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK---SVLII-TVADIMSAM 142 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEE-EHHHHHHHH
Confidence 4556556544321 1 46899999999999766544333333333 55554 455555443
No 214
>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=92.68 E-value=0.35 Score=41.92 Aligned_cols=47 Identities=21% Similarity=0.233 Sum_probs=30.7
Q ss_pred HHHHHCCCCCCcHHHHHHHHhH-HcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 83 RRMEETGYVLPTDIQREALPVL-FSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 83 ~~l~~~g~~~~t~~Q~~~i~~i-~~g~~~l~~a~TGsGKT~~~l~~~l~~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 34445554 456666666554 45689999999999998654 3334333
No 215
>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=92.68 E-value=0.12 Score=36.88 Aligned_cols=39 Identities=15% Similarity=0.101 Sum_probs=24.0
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
+..+++.||+|+|||.....-+ ..+.... ..++++.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~-~~~~~~~--~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALA-RELGPPG--GGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHH-hccCCCC--CCEEEECCEE
Confidence 4678999999999997764443 2222111 1366666553
No 216
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=92.55 E-value=0.51 Score=42.96 Aligned_cols=86 Identities=23% Similarity=0.263 Sum_probs=59.1
Q ss_pred CcHHHHHHHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCCC
Q 028887 93 PTDIQREALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~ 167 (202)
+-|.|.+.+--+... ...++.-.-|.|||.-.+..++..+.. -..||++|+.+|. ||.+++..+..+.
T Consensus 185 LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~~r----a~tLVvaP~VAlm-QW~nEI~~~T~gs-- 257 (791)
T KOG1002|consen 185 LLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLAEVDR----APTLVVAPTVALM-QWKNEIERHTSGS-- 257 (791)
T ss_pred chhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHhcccc----CCeeEEccHHHHH-HHHHHHHHhccCc--
Confidence 456777766544322 235677789999998876666653332 2489999999875 7788887777653
Q ss_pred cccccccceEEEEEeCCccHHHHHHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRRHKSWL 193 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~~~~~l 193 (202)
..+.+|||.......+.|
T Consensus 258 --------lkv~~YhG~~R~~nikel 275 (791)
T KOG1002|consen 258 --------LKVYIYHGAKRDKNIKEL 275 (791)
T ss_pred --------eEEEEEecccccCCHHHh
Confidence 447889997766655544
No 217
>PRK08727 hypothetical protein; Validated
Probab=92.38 E-value=0.65 Score=37.84 Aligned_cols=52 Identities=19% Similarity=0.176 Sum_probs=31.4
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
..+++.|++|+|||.......-+....+ .+++++ |..++.....+.++.+..
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~---~~~~y~-~~~~~~~~~~~~~~~l~~ 93 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAG---RSSAYL-PLQAAAGRLRDALEALEG 93 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcC---CcEEEE-eHHHhhhhHHHHHHHHhc
Confidence 3499999999999966543333333333 256665 455555555555555544
No 218
>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=92.36 E-value=0.2 Score=44.11 Aligned_cols=47 Identities=23% Similarity=0.345 Sum_probs=29.8
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHH-hcCCccEEEEecCCHHhHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~-~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
...+++++.|.||||||.+ +..++..+. ++. +++|.=|.-+.....+
T Consensus 13 ~e~~~~li~G~~GsGKT~~-i~~ll~~~~~~g~---~~iI~D~kg~~~~~f~ 60 (386)
T PF10412_consen 13 SENRHILIIGATGSGKTQA-IRHLLDQIRARGD---RAIIYDPKGEFTERFY 60 (386)
T ss_dssp GGGG-EEEEE-TTSSHHHH-HHHHHHHHHHTT----EEEEEEETTHHHHHH-
T ss_pred hhhCcEEEECCCCCCHHHH-HHHHHHHHHHcCC---EEEEEECCchHHHHhc
Confidence 4567899999999999974 455665553 333 6777777766654433
No 219
>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=92.31 E-value=0.79 Score=32.81 Aligned_cols=18 Identities=28% Similarity=0.453 Sum_probs=15.5
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 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 678999999999999643
No 220
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=92.28 E-value=0.5 Score=44.31 Aligned_cols=71 Identities=23% Similarity=0.112 Sum_probs=57.7
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCC-ccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS-AVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~-~~~~Lil~Ptr~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 5788999988665 4568888999999999988888888776533 335788888999999999999999874
No 221
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.28 E-value=0.82 Score=41.88 Aligned_cols=75 Identities=21% Similarity=0.316 Sum_probs=56.7
Q ss_pred CCCcHHHHHHHHhHHcCCcEEEeccC-CCch--HHHHHHHHHHHHHh----------------------------cCCcc
Q 028887 91 VLPTDIQREALPVLFSSRDCILHAQT-GSGK--TLTYLLLIFSLVNA----------------------------QRSAV 139 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~~l~~a~T-GsGK--T~~~l~~~l~~l~~----------------------------~~~~~ 139 (202)
..+|+.|.+.+-.+.+-+|++.-..| +.|+ +-+|++-+++++.+ |-..|
T Consensus 215 ~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRp 294 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRP 294 (698)
T ss_pred CcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCc
Confidence 36799999999999999998654433 3454 55688888877631 11358
Q ss_pred EEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 140 QAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 140 ~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
++||+||+|+-|..+.+.+..+..+.
T Consensus 295 kVLivvpfRe~A~riVn~lis~l~G~ 320 (698)
T KOG2340|consen 295 KVLIVVPFRESAYRIVNLLISLLSGD 320 (698)
T ss_pred eEEEEecchHHHHHHHHHHHHHhcCc
Confidence 99999999999999999998885543
No 222
>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=92.26 E-value=0.93 Score=44.75 Aligned_cols=74 Identities=19% Similarity=0.147 Sum_probs=55.0
Q ss_pred CcHHHHHHHHhHHc--------CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 93 PTDIQREALPVLFS--------SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~--------g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
-+..|..|+..+.. |--++-.|.||+|||.+=.-- +..+...+.+++..|-.-.|.|..|..+.+++-.+-
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARI-myaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L 487 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARA-MYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNL 487 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHH-HHHhCCCCCCceEEEEccccceeccchHHHHHhcCC
Confidence 36689999987643 335777899999999884333 233445566778888889999999999999988765
Q ss_pred CCC
Q 028887 165 PLD 167 (202)
Q Consensus 165 ~~~ 167 (202)
..|
T Consensus 488 ~~d 490 (1110)
T TIGR02562 488 SDD 490 (1110)
T ss_pred Ccc
Confidence 433
No 223
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=92.26 E-value=0.47 Score=38.41 Aligned_cols=52 Identities=8% Similarity=0.229 Sum_probs=35.7
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+.-+...+..+. +++++.-. +-..++.+.+.++.
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~---~~~y~~~e-~~~~~~~~~~~~~g 76 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGK---KVYVITTE-NTSKSYLKQMESVK 76 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCC---EEEEEEcC-CCHHHHHHHHHHCC
Confidence 466899999999999877666666665555 67777654 33455666666554
No 224
>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=92.26 E-value=0.29 Score=44.42 Aligned_cols=52 Identities=19% Similarity=0.198 Sum_probs=38.1
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+--+...+.++. +++|++ .-|-..|+.++++.++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge---~~~y~s-~eEs~~~i~~~~~~lg 314 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKE---RAILFA-YEESRAQLLRNAYSWG 314 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCC---eEEEEE-eeCCHHHHHHHHHHcC
Confidence 357999999999999876666655555554 678766 4566677777777765
No 225
>PRK08116 hypothetical protein; Validated
Probab=92.23 E-value=1.4 Score=36.81 Aligned_cols=44 Identities=20% Similarity=0.209 Sum_probs=27.9
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
..+++.|++|+|||.... ++.+.+.... ..+++ .+..++...+.
T Consensus 115 ~gl~l~G~~GtGKThLa~-aia~~l~~~~--~~v~~-~~~~~ll~~i~ 158 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAA-CIANELIEKG--VPVIF-VNFPQLLNRIK 158 (268)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHHcC--CeEEE-EEHHHHHHHHH
Confidence 349999999999997655 4555554332 24444 45566665554
No 226
>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=92.21 E-value=0.35 Score=43.99 Aligned_cols=45 Identities=27% Similarity=0.299 Sum_probs=28.8
Q ss_pred HHHCCCCCCcHHHHHHHHhHHcC-C-cEEEeccCCCchHHHHHHHHHHHHH
Q 028887 85 MEETGYVLPTDIQREALPVLFSS-R-DCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 85 l~~~g~~~~t~~Q~~~i~~i~~g-~-~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+.++|+ .+.|.+.+..+... . -+++.||||||||... ..++..+.
T Consensus 221 l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 221 LETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred HHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 344554 56666666665543 3 3789999999999764 33455554
No 227
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=92.21 E-value=0.69 Score=44.99 Aligned_cols=66 Identities=17% Similarity=0.233 Sum_probs=51.7
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHH
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~ 159 (202)
+..+++.+..+.+...+++.|.||+|||.-.---+++.....+..++.++-=|-|--|.-+.+++.
T Consensus 175 ~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa 240 (924)
T KOG0920|consen 175 YKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVA 240 (924)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHH
Confidence 667788888899999999999999999988766666665444466676666698888888877764
No 228
>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=92.16 E-value=0.17 Score=42.11 Aligned_cols=28 Identities=32% Similarity=0.304 Sum_probs=22.0
Q ss_pred HHHHhHHcCCcEEEeccCCCchHHHHHH
Q 028887 99 EALPVLFSSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 99 ~~i~~i~~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.++..+..|.++++.|++|+|||.....
T Consensus 13 ~~l~~l~~g~~vLL~G~~GtGKT~lA~~ 40 (262)
T TIGR02640 13 RALRYLKSGYPVHLRGPAGTGKTTLAMH 40 (262)
T ss_pred HHHHHHhcCCeEEEEcCCCCCHHHHHHH
Confidence 3344456789999999999999988643
No 229
>PRK09183 transposase/IS protein; Provisional
Probab=92.14 E-value=0.3 Score=40.64 Aligned_cols=46 Identities=22% Similarity=0.270 Sum_probs=30.3
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
+..|.++++.||+|+|||.....-.......+. .++++ +..+|..+
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~---~v~~~-~~~~l~~~ 144 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEAVRAGI---KVRFT-TAADLLLQ 144 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCC---eEEEE-eHHHHHHH
Confidence 456789999999999999776554444344343 56554 44555544
No 230
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=92.06 E-value=1.4 Score=35.35 Aligned_cols=38 Identities=18% Similarity=0.205 Sum_probs=28.4
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~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 456899999999999887766666655444 67777655
No 231
>PRK13764 ATPase; Provisional
Probab=91.96 E-value=0.44 Score=44.44 Aligned_cols=28 Identities=11% Similarity=0.216 Sum_probs=21.3
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~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 457799999999999964 4566666654
No 232
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=91.93 E-value=0.5 Score=34.98 Aligned_cols=39 Identities=28% Similarity=0.344 Sum_probs=25.0
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhH
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La 151 (202)
+++.|++|+|||.....-+......+. .++++.......
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~---~v~~~~~e~~~~ 40 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGG---KVVYVDIEEEIE 40 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCC---EEEEEECCcchH
Confidence 678999999999876555444433333 566666554433
No 233
>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=91.89 E-value=0.58 Score=40.34 Aligned_cols=41 Identities=20% Similarity=0.102 Sum_probs=28.8
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~L 150 (202)
|+-+.+.||+|+|||...+..+.+....+. .++++..+..+
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~---~~vyId~E~~~ 95 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGG---TVAFIDAEHAL 95 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC---CEEEECccccH
Confidence 456889999999999887776666555444 56666554433
No 234
>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=91.77 E-value=1.1 Score=35.63 Aligned_cols=36 Identities=14% Similarity=0.151 Sum_probs=26.4
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~ 145 (202)
|.-+++.|++|+|||...+.-+.+....+. .++++.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~---~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGK---KVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEEE
Confidence 456899999999999887666655554444 677774
No 235
>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=91.77 E-value=0.6 Score=38.95 Aligned_cols=39 Identities=28% Similarity=0.267 Sum_probs=24.8
Q ss_pred cHHHHHHHHhHHc--CCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 94 TDIQREALPVLFS--SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 94 t~~Q~~~i~~i~~--g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
.+.|.+.+..++. +..+++.|+||||||... ..++..+.
T Consensus 65 ~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~ 105 (264)
T cd01129 65 KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELN 105 (264)
T ss_pred CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhC
Confidence 4445555554443 345899999999999764 44444443
No 236
>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=91.75 E-value=0.97 Score=37.02 Aligned_cols=83 Identities=23% Similarity=0.344 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHHhHHc---CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 77 VPEHVLRRMEETGYVLPTDIQREALPVLFS---SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 77 l~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~---g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
.++.++=.+. .++ -..+.|.+....+.+ |.+.+.+.-.|.|||.+.+ |++..+..++.. -+.+++| ++|..|
T Consensus 10 ~P~wLl~E~e-~~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~-Pmla~~LAdg~~-LvrviVp-k~Ll~q 84 (229)
T PF12340_consen 10 YPDWLLFEIE-SNI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIV-PMLALALADGSR-LVRVIVP-KALLEQ 84 (229)
T ss_pred ChHHHHHHHH-cCc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHH-HHHHHHHcCCCc-EEEEEcC-HHHHHH
Confidence 4444444432 344 579999999988765 5789999999999997764 554444333322 3445555 468888
Q ss_pred HHHHHHHhhcC
Q 028887 154 VTKVARVLAAK 164 (202)
Q Consensus 154 ~~~~~~~l~~~ 164 (202)
..+.++.-.+.
T Consensus 85 ~~~~L~~~lg~ 95 (229)
T PF12340_consen 85 MRQMLRSRLGG 95 (229)
T ss_pred HHHHHHHHHHH
Confidence 88887655543
No 237
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.11 Score=44.72 Aligned_cols=21 Identities=43% Similarity=0.518 Sum_probs=17.0
Q ss_pred HcCCcEEEeccCCCchHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l 125 (202)
+...++++.||||||||+..-
T Consensus 95 L~KSNILLiGPTGsGKTlLAq 115 (408)
T COG1219 95 LSKSNILLIGPTGSGKTLLAQ 115 (408)
T ss_pred eeeccEEEECCCCCcHHHHHH
Confidence 344689999999999998653
No 238
>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=91.65 E-value=0.076 Score=46.50 Aligned_cols=49 Identities=20% Similarity=0.228 Sum_probs=37.1
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
++++.|+||||||..+++|-+-.. .. .++|.=|--|+........+..+
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~~--~~---s~vv~D~Kge~~~~t~~~r~~~G 49 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLTW--PG---SVVVLDPKGENFELTSEHRRALG 49 (384)
T ss_pred CeeEecCCCCCCccEEEccchhcC--CC---CEEEEccchhHHHHHHHHHHHcC
Confidence 478999999999999998876532 22 57888888888877766655543
No 239
>PRK04296 thymidine kinase; Provisional
Probab=91.63 E-value=0.33 Score=38.32 Aligned_cols=37 Identities=14% Similarity=0.220 Sum_probs=26.4
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~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 445788999999999777665555544444 7777766
No 240
>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=91.58 E-value=0.55 Score=37.97 Aligned_cols=40 Identities=15% Similarity=0.110 Sum_probs=28.6
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCC
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPT 147 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Pt 147 (202)
..|.-+++.|++|+|||...+--+.+.... +. .+++++.+
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~---~vly~s~E 51 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQGK---PVLFFSLE 51 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCC---ceEEEeCC
Confidence 345678999999999997766555555554 44 67887743
No 241
>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=91.48 E-value=0.71 Score=39.52 Aligned_cols=60 Identities=22% Similarity=0.284 Sum_probs=37.2
Q ss_pred chHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHH-HhHHcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 67 LTLRELCQGHVPEHVLRRMEETGYVLPTDIQREAL-PVLFSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i-~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
.+++.+....+...- +.+.| .+++.|..-+ -.+.++++++++|+||||||.. +.+++..+
T Consensus 107 ~~IRk~~~~~~t~~~---l~~~g--t~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~I 167 (312)
T COG0630 107 FTIRKFSDEPITPED---LIEYG--TISPEQAAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFI 167 (312)
T ss_pred EEEEcCCCCCCCHHH---HhhcC--CCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC
Confidence 455555544454432 22233 4666665554 4567889999999999999954 44554443
No 242
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.35 E-value=1.3 Score=39.15 Aligned_cols=67 Identities=24% Similarity=0.197 Sum_probs=40.0
Q ss_pred chHHHHHhCCCCHHHHHHHHHC--------CCCCCcHHHHHHHHhH------------HcCCcEEEeccCCCchHHHHHH
Q 028887 67 LTLRELCQGHVPEHVLRRMEET--------GYVLPTDIQREALPVL------------FSSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~--------g~~~~t~~Q~~~i~~i------------~~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 3466777888888776665321 1112233344444333 1245688999999999987665
Q ss_pred HHHHHHH
Q 028887 127 LIFSLVN 133 (202)
Q Consensus 127 ~~l~~l~ 133 (202)
-......
T Consensus 226 LA~~l~~ 232 (407)
T PRK12726 226 LGWQLLK 232 (407)
T ss_pred HHHHHHH
Confidence 5544333
No 243
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=91.33 E-value=0.43 Score=43.35 Aligned_cols=70 Identities=13% Similarity=-0.002 Sum_probs=48.4
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.+...|..+.-..-.|+- .++|-.|||||.....-..+ +...+..-+.++-+=|+.|+.++.+.+.+++-
T Consensus 162 nfD~~Q~kaa~~~~~G~q-rIrGLAGSGKT~~La~Kaa~-lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f 231 (660)
T COG3972 162 NFDTDQTKAAFQSGFGKQ-RIRGLAGSGKTELLAHKAAE-LHSKNPDSRIAFTFFTKILASTMRTLVPEFFF 231 (660)
T ss_pred cccchhheeeeecCCchh-hhhcccCCCchhHHHHHHHH-HhcCCCCceEEEEeehHHHHHHHHHHHHHHHH
Confidence 344455554433344544 57889999999886654433 33344445899999999999999999888874
No 244
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=91.32 E-value=0.79 Score=43.71 Aligned_cols=69 Identities=25% Similarity=0.253 Sum_probs=50.2
Q ss_pred CCcHHHHHHHHhHH----cCCcEEEeccCCCchHHH---HHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLF----SSRDCILHAQTGSGKTLT---YLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~----~g~~~l~~a~TGsGKT~~---~l~~~l~~l~~~~~~~~~Lil~Ptr~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 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHS---GKLTKPALIVCPA-TIIHQWMKEFQTWWPP 280 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhc---ccccCceEEEccH-HHHHHHHHHHHHhCcc
Confidence 46899999998763 455677888899999965 44343332 1222369999996 6778999999999875
No 245
>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=91.31 E-value=0.53 Score=40.53 Aligned_cols=37 Identities=24% Similarity=0.126 Sum_probs=26.2
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
|+-+.+.|++|+|||...+..+.+....+. .++++-.
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~---~v~yId~ 91 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGG---TAAFIDA 91 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC---cEEEEcc
Confidence 366889999999999887776666655443 4554433
No 246
>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=91.20 E-value=0.23 Score=42.32 Aligned_cols=21 Identities=38% Similarity=0.517 Sum_probs=18.1
Q ss_pred HHcCCcEEEeccCCCchHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 i~~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 457889999999999999764
No 247
>PRK09354 recA recombinase A; Provisional
Probab=91.13 E-value=0.78 Score=39.94 Aligned_cols=39 Identities=23% Similarity=0.133 Sum_probs=27.9
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
|+-+.+.|++|+|||...+..+.+....+. .++++-.+.
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~---~~~yId~E~ 98 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGG---TAAFIDAEH 98 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC---cEEEECCcc
Confidence 356889999999999988877776665544 455554443
No 248
>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=91.13 E-value=0.57 Score=40.92 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=20.2
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~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 4567999999999999764 55555553
No 249
>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=91.11 E-value=0.76 Score=43.16 Aligned_cols=53 Identities=19% Similarity=0.154 Sum_probs=41.2
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH--HhHHHHHHHHHHhhc
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR--ELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr--~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 57899999999999998888888887655 677777875 566666666666655
No 250
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=91.00 E-value=0.77 Score=44.70 Aligned_cols=68 Identities=24% Similarity=0.245 Sum_probs=51.5
Q ss_pred CCCcHHHHHHHHhHHcCCc-EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 91 VLPTDIQREALPVLFSSRD-CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~~g~~-~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
..++..|++|+-.++..+| .++.|=+|+|||...+..+--.+..++ ++|+.+=|..-+.-+.-.++.+
T Consensus 668 ~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~gk---kVLLtsyThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 668 LRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALGK---KVLLTSYTHSAVDNILIKLKGF 736 (1100)
T ss_pred hhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcCC---eEEEEehhhHHHHHHHHHHhcc
Confidence 3689999999999888766 688999999999988777655566666 7887777766555555555444
No 251
>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=90.87 E-value=1.1 Score=35.57 Aligned_cols=50 Identities=22% Similarity=0.143 Sum_probs=28.5
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec--CCHHhHHHHHHHHHHh
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGMQVTKVARVL 161 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~--Ptr~La~Q~~~~~~~l 161 (202)
-+++.||||+|||....--.......++ ++.+++ ..|.=+.++.+.+-+.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~---~v~lis~D~~R~ga~eQL~~~a~~ 54 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGK---KVALISADTYRIGAVEQLKTYAEI 54 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT-----EEEEEESTSSTHHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccc---cceeecCCCCCccHHHHHHHHHHH
Confidence 3688999999999987665544444422 333333 3454454444444333
No 252
>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=90.76 E-value=0.29 Score=43.41 Aligned_cols=49 Identities=18% Similarity=0.285 Sum_probs=31.4
Q ss_pred HHhHHcCCcEEEeccCCCchHHHHHHHHHHHHH-hcCCccEEEEecCCHHhHHH
Q 028887 101 LPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 101 i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~-~~~~~~~~Lil~Ptr~La~Q 153 (202)
++.-...+++++.|+||+|||.+ +..++..+. .+. +++|+=|..++...
T Consensus 36 ~~~~~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~~~~---~~vi~D~kg~~~~~ 85 (410)
T cd01127 36 FPKDAEEAHTMIIGTTGTGKTTQ-IRELLASIRARGD---RAIIYDPNGGFVSK 85 (410)
T ss_pred CCcchhhccEEEEcCCCCCHHHH-HHHHHHHHHhcCC---CEEEEeCCcchhHh
Confidence 33344567899999999999976 333444333 233 56777777666543
No 253
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.69 E-value=1.2 Score=42.12 Aligned_cols=85 Identities=25% Similarity=0.241 Sum_probs=58.6
Q ss_pred CCcHHHHHHHHhHH-----cCCcEEEeccCCCchHHHHHHHHHHHHH-----hcC--CccEEEEecCCHHhHHHHHHHHH
Q 028887 92 LPTDIQREALPVLF-----SSRDCILHAQTGSGKTLTYLLLIFSLVN-----AQR--SAVQAVIVVPTRELGMQVTKVAR 159 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~-----~g~~~l~~a~TGsGKT~~~l~~~l~~l~-----~~~--~~~~~Lil~Ptr~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 35689999887764 2345777888899999977666655422 111 11248999995 78889998886
Q ss_pred HhhcCCCCcccccccceEEEEEeCCcc
Q 028887 160 VLAAKPLDTDLEHKLCTVMALLDGGML 186 (202)
Q Consensus 160 ~l~~~~~~~~~~~~~~~~~~~~~g~~~ 186 (202)
+-.... ...+++|||.+.
T Consensus 404 ~rl~~n---------~LsV~~~HG~n~ 421 (901)
T KOG4439|consen 404 RRLEQN---------ALSVYLYHGPNK 421 (901)
T ss_pred HHHhhc---------ceEEEEecCCcc
Confidence 655542 455789999874
No 254
>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=90.59 E-value=0.87 Score=45.63 Aligned_cols=57 Identities=14% Similarity=0.112 Sum_probs=45.8
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.++++|.|.-|||||.+..--++..+..+...-..++|+-|+.=|..+.+++.+...
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L~ 66 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRLG 66 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHHH
Confidence 467999999999999998888877776655455899999999988888877665543
No 255
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=90.58 E-value=0.36 Score=46.29 Aligned_cols=44 Identities=32% Similarity=0.479 Sum_probs=32.8
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
++=|...||+|||.+|+-.|.+.-. .-.-.+-+|+||+.+.-.-
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk-~YG~~KFIivVPs~AIkeG 119 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHK-KYGLFKFIIVVPSLAIKEG 119 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHH-HhCceeEEEEeccHHHHhh
Confidence 5667899999999999988876432 2233478999999876443
No 256
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=90.51 E-value=0.4 Score=44.01 Aligned_cols=48 Identities=23% Similarity=0.241 Sum_probs=39.1
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
++-+|||.||||.-. ++++...+ .+++--|.|-||..++++++..+-.
T Consensus 194 i~H~GPTNSGKTy~A----Lqrl~~ak---sGvycGPLrLLA~EV~~r~na~gip 241 (700)
T KOG0953|consen 194 IMHVGPTNSGKTYRA----LQRLKSAK---SGVYCGPLRLLAHEVYDRLNALGIP 241 (700)
T ss_pred EEEeCCCCCchhHHH----HHHHhhhc---cceecchHHHHHHHHHHHhhhcCCC
Confidence 566789999999655 56666666 6889899999999999999987653
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=90.32 E-value=0.49 Score=38.26 Aligned_cols=37 Identities=24% Similarity=0.241 Sum_probs=26.2
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~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 48999999999998 46666666655444557887753
No 258
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=90.15 E-value=1.4 Score=45.60 Aligned_cols=61 Identities=20% Similarity=0.245 Sum_probs=44.0
Q ss_pred CCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHH--HHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTY--LLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~--l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
.+++.|.+++..++.+ +.++++|..|+|||... ++.++..+.. ..+.+++.++||---+..
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e-~~g~~V~glAPTgkAa~~ 899 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPE-SERPRVVGLGPTHRAVGE 899 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhh-ccCceEEEEechHHHHHH
Confidence 6899999999999865 67999999999999774 2333333322 223468889999655544
No 259
>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=90.09 E-value=2.3 Score=37.40 Aligned_cols=52 Identities=19% Similarity=0.171 Sum_probs=35.2
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 466899999999999876655444443333 68888755 34567766666654
No 260
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.82 E-value=0.67 Score=42.19 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=37.0
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
|..+++.|++|+|||...+--+.+.+..+. ++++++-+ +-..++.+.+..++
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~---~~~yis~e-~~~~~i~~~~~~~g 324 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGE---RCLLFAFE-ESRAQLIRNARSWG 324 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC---cEEEEEec-CCHHHHHHHHHHcC
Confidence 466889999999999887666666665555 67777544 44667777766654
No 261
>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=89.66 E-value=0.24 Score=41.53 Aligned_cols=22 Identities=32% Similarity=0.422 Sum_probs=18.6
Q ss_pred HHcCCcEEEeccCCCchHHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l 125 (202)
+.+++.+++.|++|+|||...-
T Consensus 30 ~~~~~pvLl~G~~GtGKT~li~ 51 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSLIQ 51 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHHHH
T ss_pred HHcCCcEEEECCCCCchhHHHH
Confidence 4578899999999999997643
No 262
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=89.63 E-value=0.27 Score=45.89 Aligned_cols=50 Identities=18% Similarity=0.151 Sum_probs=40.1
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 4789999999999999999987653 22 47778899999888777776654
No 263
>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=89.62 E-value=0.71 Score=36.61 Aligned_cols=23 Identities=30% Similarity=0.535 Sum_probs=17.1
Q ss_pred EEEeccCCCchHHHHHHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+++.||||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 689999999999774 44455554
No 264
>PRK05642 DNA replication initiation factor; Validated
Probab=89.57 E-value=1.4 Score=35.98 Aligned_cols=50 Identities=18% Similarity=0.092 Sum_probs=29.2
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
..++++|++|+|||-. +.++.+.+... +.+++++. ..++.....+..+.+
T Consensus 46 ~~l~l~G~~G~GKTHL-l~a~~~~~~~~--~~~v~y~~-~~~~~~~~~~~~~~~ 95 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL-LQAACLRFEQR--GEPAVYLP-LAELLDRGPELLDNL 95 (234)
T ss_pred CeEEEECCCCCCHHHH-HHHHHHHHHhC--CCcEEEee-HHHHHhhhHHHHHhh
Confidence 4588999999999976 33444444322 23667654 455554433333333
No 265
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=89.51 E-value=0.54 Score=44.61 Aligned_cols=45 Identities=18% Similarity=0.169 Sum_probs=29.9
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHH-HhcCCccEEEEecCCHHhHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLV-NAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l-~~~~~~~~~Lil~Ptr~La~Q 153 (202)
...+++++.|.||||||.+. .-++..+ .++. +++|.=|.-+.+..
T Consensus 183 ~E~~H~li~GttGSGKS~~i-~~LL~~ir~RGd---rAIIyD~~GeFv~~ 228 (732)
T PRK13700 183 SEIQNFCLHGTVGAGKSEVI-RRLANYARQRGD---MVVIYDRSGEFVKS 228 (732)
T ss_pred hhhcceEEeCCCCCCHHHHH-HHHHHHHHHcCC---eEEEEeCCCchHHH
Confidence 45578999999999999866 4444444 3344 56666666555543
No 266
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=89.44 E-value=0.33 Score=31.42 Aligned_cols=18 Identities=22% Similarity=0.377 Sum_probs=15.3
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 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 456999999999999764
No 267
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.34 E-value=5.5 Score=38.33 Aligned_cols=62 Identities=21% Similarity=0.037 Sum_probs=35.5
Q ss_pred HHHHHhCCCCHHHHHHHHH-CC-CCCCcHHHHHHHHhH------H--------cCCcEEEeccCCCchHHHHHHHHHH
Q 028887 69 LRELCQGHVPEHVLRRMEE-TG-YVLPTDIQREALPVL------F--------SSRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~-~g-~~~~t~~Q~~~i~~i------~--------~g~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
.+.|.+.|+.+.+.+.+-+ .. -..+..........+ + .|+-+.+.||||+|||.....-.-.
T Consensus 131 ~~~Ll~~dv~~~la~~l~~~l~~~~~~~~~~~~l~~~L~~~l~il~~~~~~~~~g~Vi~lVGpnGvGKTTTiaKLA~~ 208 (767)
T PRK14723 131 FRWLLGAGFSGQLARALLERLPVGYDRPAAMAWIRNELATHLPVLRDEDALLAQGGVLALVGPTGVGKTTTTAKLAAR 208 (767)
T ss_pred HHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhccCCCcccCCCeEEEEECCCCCcHHHHHHHHHhh
Confidence 4667788888877777633 11 012222222222221 1 2445789999999999886654433
No 268
>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=89.33 E-value=2.1 Score=38.39 Aligned_cols=34 Identities=21% Similarity=0.258 Sum_probs=25.2
Q ss_pred HhHHcCCcEEEeccCCCchHHHHHHHHHH-HHHhc
Q 028887 102 PVLFSSRDCILHAQTGSGKTLTYLLLIFS-LVNAQ 135 (202)
Q Consensus 102 ~~i~~g~~~l~~a~TGsGKT~~~l~~~l~-~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 55667899999999999999887754434 44444
No 269
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=89.33 E-value=0.87 Score=45.69 Aligned_cols=57 Identities=16% Similarity=0.236 Sum_probs=44.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcC--CccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR--SAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~--~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.+.+++|.|..|||||.+-..-++..+..+. .-.+.|+++-|+.=+..+..++.+-.
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~L 73 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDRL 73 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHHH
Confidence 4578999999999999998888888877642 34478999999888777776655433
No 270
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=89.30 E-value=1.9 Score=45.06 Aligned_cols=62 Identities=26% Similarity=0.270 Sum_probs=43.7
Q ss_pred CCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHHHHHHHHHHh--cCCccEEEEecCCHHhHHHH
Q 028887 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNA--QRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l~~~l~~l~~--~~~~~~~Lil~Ptr~La~Q~ 154 (202)
.+++.|.+++..++.+ +-+++.|..|+|||... -.++..+.. ...+.+++.++||---+..+
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l-~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQF-RAVMSAVNTLPESERPRVVGLGPTHRAVGEM 1032 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHH-HHHHHHHHHhhcccCceEEEECCcHHHHHHH
Confidence 6899999999999875 56899999999999764 233333321 12234688899997555443
No 271
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=89.29 E-value=1.6 Score=42.29 Aligned_cols=67 Identities=21% Similarity=0.157 Sum_probs=42.6
Q ss_pred cHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 94 TDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 94 t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
+....+.+..+.+..-+++.|+||||||...-.-+++.-..+ .....+.=|-|-=|.-+.+++.+-.
T Consensus 52 ~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~--~g~I~~tQPRRlAArsvA~RvAeel 118 (845)
T COG1643 52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGI--AGKIGCTQPRRLAARSVAERVAEEL 118 (845)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhccc--CCeEEecCchHHHHHHHHHHHHHHh
Confidence 455566666777888899999999999987655555443311 1134444477655566666654433
No 272
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=89.28 E-value=5.9 Score=33.25 Aligned_cols=23 Identities=30% Similarity=0.375 Sum_probs=18.5
Q ss_pred CcEEEeccCCCchHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
..+.+.|++|+|||..+..-...
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~ 98 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQ 98 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHH
Confidence 57899999999999987655444
No 273
>PRK11823 DNA repair protein RadA; Provisional
Probab=89.11 E-value=0.91 Score=40.82 Aligned_cols=52 Identities=21% Similarity=0.211 Sum_probs=35.3
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
|.-+++.|++|+|||...+.-.......+. +++|+.-+ +-..|+..+.+++.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~---~vlYvs~E-es~~qi~~ra~rlg 131 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGG---KVLYVSGE-ESASQIKLRAERLG 131 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCC---eEEEEEcc-ccHHHHHHHHHHcC
Confidence 456899999999999876655544443333 78887754 44567766666654
No 274
>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=89.00 E-value=1.6 Score=46.17 Aligned_cols=61 Identities=21% Similarity=0.254 Sum_probs=44.7
Q ss_pred CCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHH---HHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYL---LLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l---~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
.+++.|+.++..++.+ +-+++.|..|+|||...- -++.+.+.. .+.+++.++||-.-+..+
T Consensus 1019 ~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~--~g~~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1019 RLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES--EQLQVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh--cCCeEEEEeChHHHHHHH
Confidence 6899999999998875 557889999999997762 344444432 234788899996666544
No 275
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=88.86 E-value=0.85 Score=32.85 Aligned_cols=23 Identities=35% Similarity=0.358 Sum_probs=14.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~ 128 (202)
.++.+++.|++|+|||...-.-.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~ 25 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLA 25 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHH
Confidence 34668999999999998754433
No 276
>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=88.81 E-value=0.91 Score=40.92 Aligned_cols=52 Identities=21% Similarity=0.176 Sum_probs=35.2
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 466899999999999877665544443333 68888765 34566666665553
No 277
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=88.75 E-value=0.99 Score=34.46 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=16.7
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhc
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~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 467999999999999663 3455555544
No 278
>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=88.70 E-value=0.71 Score=37.11 Aligned_cols=26 Identities=35% Similarity=0.474 Sum_probs=20.0
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
++++.+.|.||||||...-.-+.+.+
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ll~~l~ 48 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKVLLEELL 48 (229)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHHH
Confidence 57899999999999977655554444
No 279
>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=88.64 E-value=0.88 Score=36.27 Aligned_cols=21 Identities=29% Similarity=0.317 Sum_probs=17.0
Q ss_pred cCCcEEEeccCCCchHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.+..+++.|++|+|||.....
T Consensus 37 ~~~~lll~G~~G~GKT~la~~ 57 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQA 57 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHH
Confidence 356799999999999976544
No 280
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=88.63 E-value=0.45 Score=46.60 Aligned_cols=69 Identities=25% Similarity=0.286 Sum_probs=49.3
Q ss_pred CCcHHHHHHHHhHHc-CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 92 LPTDIQREALPVLFS-SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~-g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
...|+|.+.+-...+ ..++++-+|||+|||++|.+++...+.... +.++.+++|-++|+....+.....
T Consensus 927 ~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p-~~kvvyIap~kalvker~~Dw~~r 996 (1230)
T KOG0952|consen 927 YFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYP-GSKVVYIAPDKALVKERSDDWSKR 996 (1230)
T ss_pred ccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCC-CccEEEEcCCchhhcccccchhhh
Confidence 345555554433322 356888999999999999999988776433 358999999999987766555433
No 281
>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=88.51 E-value=2.5 Score=33.68 Aligned_cols=43 Identities=21% Similarity=0.119 Sum_probs=28.8
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhc---CCccEEEEecCCHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQ---RSAVQAVIVVPTRE 149 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~---~~~~~~Lil~Ptr~ 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 46789999999999987776555544333 01136788876543
No 282
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.49 E-value=12 Score=33.42 Aligned_cols=81 Identities=20% Similarity=0.077 Sum_probs=42.6
Q ss_pred chHHHHHhCCCCHHHHHHHHHC--CCCCCcHHH-------HHHHHh------HHcCCcEEEeccCCCchHHHHHHHHHHH
Q 028887 67 LTLRELCQGHVPEHVLRRMEET--GYVLPTDIQ-------REALPV------LFSSRDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 67 ~~~~~l~~~gl~~~l~~~l~~~--g~~~~t~~Q-------~~~i~~------i~~g~~~l~~a~TGsGKT~~~l~~~l~~ 131 (202)
.-++.|.+.|+.+.+.+.+-+. +........ ...++. +..|.-+.+.|+||+|||.......-..
T Consensus 136 ~~~~~L~~~~v~~~la~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~vi~lvGpnG~GKTTtlakLA~~~ 215 (420)
T PRK14721 136 KVLRTLLSAGFSPLLSRHLLEKLPADRDFEQSLKKTISLLTLNLRTIGGDEIIEQGGVYALIGPTGVGKTTTTAKLAARA 215 (420)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcCCccccCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 3457888889888877776331 000111111 111111 1235568999999999998876444333
Q ss_pred HHhcCCccEEEEecCC
Q 028887 132 VNAQRSAVQAVIVVPT 147 (202)
Q Consensus 132 l~~~~~~~~~Lil~Pt 147 (202)
+.......-+++...+
T Consensus 216 ~~~~~~~~v~~i~~d~ 231 (420)
T PRK14721 216 VIRHGADKVALLTTDS 231 (420)
T ss_pred HHhcCCCeEEEEecCC
Confidence 2221111235555555
No 283
>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=88.47 E-value=0.35 Score=34.78 Aligned_cols=17 Identities=35% Similarity=0.477 Sum_probs=13.9
Q ss_pred EEEeccCCCchHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
++++||.|+|||...-.
T Consensus 1 ill~G~~G~GKT~l~~~ 17 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARA 17 (132)
T ss_dssp EEEESSTTSSHHHHHHH
T ss_pred CEEECcCCCCeeHHHHH
Confidence 58999999999976543
No 284
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=88.38 E-value=1.5 Score=43.28 Aligned_cols=57 Identities=23% Similarity=0.280 Sum_probs=45.3
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
+..++.=-+|||||+.-+...-..+.. ...+.+++++=.++|-.|+.+.|..+....
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~-~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~ 330 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLEL-PKNPKVLFVVDRKDLDDQTSDEFQSFGKVA 330 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhc-cCCCeEEEEechHHHHHHHHHHHHHHHHhh
Confidence 457888889999999865554333333 566799999999999999999999988764
No 285
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.27 E-value=1.1 Score=40.72 Aligned_cols=52 Identities=19% Similarity=0.302 Sum_probs=36.8
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~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 5679999999999998776656666655 44 577764 4455666667776664
No 286
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=88.24 E-value=0.34 Score=45.80 Aligned_cols=49 Identities=12% Similarity=0.126 Sum_probs=36.1
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l 161 (202)
.++++.|+||||||..|++|-+-.. .. .++|+=|--|+........++.
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~--~g---S~VV~DpKGE~~~~Ta~~R~~~ 188 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF--KG---SVIALDVKGELFELTSRARKAS 188 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC--CC---CEEEEeCCchHHHHHHHHHHhC
Confidence 4799999999999999999986543 12 4677777777776665555444
No 287
>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=88.19 E-value=1 Score=35.61 Aligned_cols=27 Identities=30% Similarity=0.404 Sum_probs=17.7
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
..++++.|.||||||.+....+...+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 358999999999999876654444443
No 288
>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=87.92 E-value=1.2 Score=37.59 Aligned_cols=19 Identities=26% Similarity=0.368 Sum_probs=16.2
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
+.++++.|++|+|||.+..
T Consensus 58 ~~~vll~G~pGTGKT~lA~ 76 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVAL 76 (284)
T ss_pred CceEEEEcCCCCCHHHHHH
Confidence 4579999999999998763
No 289
>PRK08084 DNA replication initiation factor; Provisional
Probab=87.85 E-value=1.1 Score=36.53 Aligned_cols=20 Identities=20% Similarity=0.243 Sum_probs=16.0
Q ss_pred CCcEEEeccCCCchHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~ 126 (202)
+..++++||+|+|||.....
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a 64 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHA 64 (235)
T ss_pred CCeEEEECCCCCCHHHHHHH
Confidence 35789999999999966543
No 290
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=87.79 E-value=1.8 Score=38.93 Aligned_cols=46 Identities=15% Similarity=0.191 Sum_probs=30.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVT 155 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~ 155 (202)
..++++|++|+|||.. +.++.+.+.....+.+++++.. .++..++.
T Consensus 142 npl~i~G~~G~GKTHL-l~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~ 187 (450)
T PRK14087 142 NPLFIYGESGMGKTHL-LKAAKNYIESNFSDLKVSYMSG-DEFARKAV 187 (450)
T ss_pred CceEEECCCCCcHHHH-HHHHHHHHHHhCCCCeEEEEEH-HHHHHHHH
Confidence 4589999999999944 3566666654444457777654 45554443
No 291
>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=87.74 E-value=0.37 Score=35.52 Aligned_cols=17 Identities=29% Similarity=0.352 Sum_probs=14.4
Q ss_pred cEEEeccCCCchHHHHH
Q 028887 109 DCILHAQTGSGKTLTYL 125 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l 125 (202)
++++.|++|+|||...-
T Consensus 1 ~vlL~G~~G~GKt~l~~ 17 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLAR 17 (139)
T ss_dssp EEEEEESSSSSHHHHHH
T ss_pred CEEEECCCCCCHHHHHH
Confidence 47999999999997743
No 292
>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=87.74 E-value=0.83 Score=42.85 Aligned_cols=50 Identities=20% Similarity=0.154 Sum_probs=36.7
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.++++.||||+|||..+++|.+- .-+. .++|+=|.-|+...+...-++.+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL--~~~g---S~VV~DpKgE~~~~Ta~~R~~~G 261 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTAL--KYGG---PLVCLDPSTEVAPMVCEHRRQAG 261 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhh--cCCC---CEEEEEChHHHHHHHHHHHHHcC
Confidence 57999999999999999999743 2222 46777788888776665555444
No 293
>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=87.65 E-value=1.1 Score=38.78 Aligned_cols=27 Identities=26% Similarity=0.373 Sum_probs=19.7
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
.+..++++||||||||... ..++..+.
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i~ 147 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYIN 147 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhhC
Confidence 3567899999999999765 44455554
No 294
>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=87.44 E-value=0.42 Score=34.14 Aligned_cols=17 Identities=29% Similarity=0.321 Sum_probs=14.0
Q ss_pred EEEeccCCCchHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
+++.|++|||||...-.
T Consensus 2 I~I~G~~gsGKST~a~~ 18 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKE 18 (121)
T ss_dssp EEEEESTTSSHHHHHHH
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999976543
No 295
>PRK06893 DNA replication initiation factor; Validated
Probab=87.36 E-value=0.97 Score=36.69 Aligned_cols=21 Identities=14% Similarity=0.036 Sum_probs=15.8
Q ss_pred CcEEEeccCCCchHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~ 128 (202)
..++++|++|+|||.......
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~ 60 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVS 60 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 347899999999996554433
No 296
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=87.31 E-value=1.2 Score=35.85 Aligned_cols=19 Identities=26% Similarity=0.352 Sum_probs=15.7
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 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 4579999999999996544
No 297
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=87.28 E-value=1.9 Score=42.39 Aligned_cols=69 Identities=26% Similarity=0.171 Sum_probs=45.8
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (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 4778886554444444 467899999999999998865555455 45566666667775555555554444
No 298
>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=87.25 E-value=2.1 Score=43.02 Aligned_cols=52 Identities=13% Similarity=0.189 Sum_probs=40.3
Q ss_pred EEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
++.|+.|||||.+.+--+.+.+..+..+++.+++||+.. ..+..+++....+
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~l~~~~~~~~~illVPeq~-TF~~e~rl~~~~~ 56 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQKIKENPLGKPIILIVPDQM-TFQMEQALLNDIE 56 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHHHhhCCCCCcEEEEcCCcc-cHHHHHHHHHhcc
Confidence 578999999999988888888876666778999999873 5566666655443
No 299
>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=87.21 E-value=1.2 Score=34.52 Aligned_cols=44 Identities=30% Similarity=0.452 Sum_probs=32.5
Q ss_pred HHHHHHHHCCCCC-----CcHHHHHHHHhHHcCCcEEEeccCCCchHHH
Q 028887 80 HVLRRMEETGYVL-----PTDIQREALPVLFSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 80 ~l~~~l~~~g~~~-----~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~ 123 (202)
++++...+.||.- -+......+...+.++.+++.|++|.||+..
T Consensus 3 ~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSSL 51 (161)
T PF03193_consen 3 ELLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSSL 51 (161)
T ss_dssp HHHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHHH
T ss_pred HHHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 4556667777752 2445556666778889999999999999965
No 300
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.14 E-value=0.3 Score=45.15 Aligned_cols=98 Identities=11% Similarity=-0.108 Sum_probs=66.2
Q ss_pred HCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcCCC
Q 028887 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAKPL 166 (202)
Q Consensus 87 ~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~ 166 (202)
.+.-+....+|.+++..+-.|+++++...|-+||.++|.......+.... ....+++.|+.+++....+-++......
T Consensus 281 ~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~-~s~~~~~~~~~~~~~~~~~~~~V~~~~I- 358 (1034)
T KOG4150|consen 281 KNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLCH-ATNSLLPSEMVEHLRNGSKGQVVHVEVI- 358 (1034)
T ss_pred cccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcCc-ccceecchhHHHHhhccCCceEEEEEeh-
Confidence 34445678899999999999999999999999999999988877654332 3367888999999876444333222111
Q ss_pred CcccccccceEEEEEeCCccHHHH
Q 028887 167 DTDLEHKLCTVMALLDGGMLRRHK 190 (202)
Q Consensus 167 ~~~~~~~~~~~~~~~~g~~~~~~~ 190 (202)
+.....++.++.|.......
T Consensus 359 ----~~~K~A~V~~~D~~sE~~~~ 378 (1034)
T KOG4150|consen 359 ----KARKSAYVEMSDKLSETTKS 378 (1034)
T ss_pred ----hhhhcceeecccCCCchhHH
Confidence 11123446666665555443
No 301
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=86.92 E-value=0.87 Score=41.02 Aligned_cols=33 Identities=27% Similarity=0.354 Sum_probs=26.1
Q ss_pred CcHHHHHHHHhHHcCCcEEEeccCCCchHHHHH
Q 028887 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~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 344555666677789999999999999997764
No 302
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=86.70 E-value=1.9 Score=38.65 Aligned_cols=44 Identities=16% Similarity=0.169 Sum_probs=26.9
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
..++++|++|+|||... .++...+.....+.+++++ +..++..+
T Consensus 149 ~~l~l~G~~G~GKThL~-~ai~~~~~~~~~~~~v~yi-~~~~~~~~ 192 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL-HAIGNYILEKNPNAKVVYV-TSEKFTND 192 (450)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHHhCCCCeEEEE-EHHHHHHH
Confidence 45899999999999664 3444444433234466666 33444443
No 303
>CHL00181 cbbX CbbX; Provisional
Probab=86.68 E-value=1.5 Score=37.10 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=17.8
Q ss_pred CCcEEEeccCCCchHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~ 128 (202)
|.++++.|++|+|||.+.-.-.
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la 80 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMA 80 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHH
Confidence 4568999999999998865543
No 304
>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=86.64 E-value=0.5 Score=33.79 Aligned_cols=17 Identities=29% Similarity=0.155 Sum_probs=14.2
Q ss_pred EEEeccCCCchHHHHHH
Q 028887 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 305
>PRK08939 primosomal protein DnaI; Reviewed
Probab=86.61 E-value=1.8 Score=37.00 Aligned_cols=26 Identities=19% Similarity=0.220 Sum_probs=19.1
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
++.+++.|++|+|||.......-+..
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~ 181 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELA 181 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 46799999999999976654433333
No 306
>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=86.53 E-value=5.4 Score=34.16 Aligned_cols=63 Identities=11% Similarity=0.043 Sum_probs=38.1
Q ss_pred HHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHh---cCCccEEEEecCCHHh-HHHHHHHHHHhh
Q 028887 100 ALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPTREL-GMQVTKVARVLA 162 (202)
Q Consensus 100 ~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~---~~~~~~~Lil~Ptr~L-a~Q~~~~~~~l~ 162 (202)
.+..++.| .-+.+.|++|+|||...+......... +..+.+++|+.-+-.. ..++.+.+..+.
T Consensus 84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~g 155 (313)
T TIGR02238 84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFG 155 (313)
T ss_pred HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHcC
Confidence 34455554 457899999999998776544433221 2233479999866543 444555554443
No 307
>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=86.48 E-value=1.6 Score=37.25 Aligned_cols=41 Identities=22% Similarity=0.331 Sum_probs=31.3
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec--CCHHhHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGM 152 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~--Ptr~La~ 152 (202)
-+++.|+-|.|||.+.....+.....|+ ++|+++ |..+|..
T Consensus 3 ~~~~~GKGGVGKTT~aaA~A~~~A~~G~---rtLlvS~Dpa~~L~d 45 (305)
T PF02374_consen 3 ILFFGGKGGVGKTTVAAALALALARRGK---RTLLVSTDPAHSLSD 45 (305)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTTS----EEEEESSTTTHHHH
T ss_pred EEEEecCCCCCcHHHHHHHHHHHhhCCC---CeeEeecCCCccHHH
Confidence 4688999999999998887777776666 778775 7666654
No 308
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=86.46 E-value=0.69 Score=43.49 Aligned_cols=46 Identities=20% Similarity=0.083 Sum_probs=35.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
.++++.|+||||||..+++|.+-.. +. .++|+=|--|+........
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~~--~~---S~VV~D~KGE~~~~Tag~R 221 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLSW--GH---SSVITDLKGELWALTAGWR 221 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhhC--CC---CEEEEeCcHHHHHHHHHHH
Confidence 5799999999999999999986532 22 5788888888876554443
No 309
>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=86.37 E-value=3.3 Score=43.94 Aligned_cols=63 Identities=19% Similarity=0.273 Sum_probs=45.5
Q ss_pred CCcHHHHHHHHhHHcC--CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHH
Q 028887 92 LPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g--~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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-QLLLHLASE--QGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHH-HHHHHHHHh--cCCeEEEEeCCHHHHHHHHHH
Confidence 5789999999998875 56899999999999663 333344433 233799999997665554443
No 310
>PF05729 NACHT: NACHT domain
Probab=86.29 E-value=1.6 Score=32.45 Aligned_cols=25 Identities=16% Similarity=0.169 Sum_probs=17.6
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHh
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~ 134 (202)
-+++.|+.|+|||.... -+...+..
T Consensus 2 ~l~I~G~~G~GKStll~-~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLR-KLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHH-HHHHHHHh
Confidence 47899999999997654 44444443
No 311
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=86.08 E-value=3.8 Score=39.35 Aligned_cols=68 Identities=18% Similarity=0.077 Sum_probs=52.9
Q ss_pred CcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcC---CccEEEEecCCHHhHHHHHHHHHH
Q 028887 93 PTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQR---SAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~---~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
+..-|+.|....+.-+-.+++||+|+|||.+-+..+-..+.... .....|+.|=|..-..|....+..
T Consensus 379 ldsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~ 449 (1025)
T KOG1807|consen 379 LDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYY 449 (1025)
T ss_pred ecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHh
Confidence 34468888888888888999999999999999888766665431 123478899998888888777765
No 312
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.07 E-value=0.56 Score=44.97 Aligned_cols=25 Identities=28% Similarity=0.388 Sum_probs=19.4
Q ss_pred HHHHhHHcCCcEEEeccCCCchHHH
Q 028887 99 EALPVLFSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 99 ~~i~~i~~g~~~l~~a~TGsGKT~~ 123 (202)
+.+.+|..+.-+|+||.||||||.-
T Consensus 263 ~IMEaIn~n~vvIIcGeTGsGKTTQ 287 (1172)
T KOG0926|consen 263 RIMEAINENPVVIICGETGSGKTTQ 287 (1172)
T ss_pred HHHHHhhcCCeEEEecCCCCCcccc
Confidence 3445556667799999999999975
No 313
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=86.04 E-value=0.71 Score=43.44 Aligned_cols=50 Identities=18% Similarity=0.160 Sum_probs=36.5
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~ 162 (202)
.++++.|+||+|||..+++|-+- ..+. .++|+=|--|+...+....++.+
T Consensus 225 ~H~Lv~ApTgsGKt~g~VIPnLL--~~~g---S~VV~DpKgEl~~~Ta~~R~~~G 274 (641)
T PRK13822 225 THGLVFAGSGGFKTTSVVVPTAL--KWGG---PLVVLDPSTEVAPMVSEHRRDAG 274 (641)
T ss_pred ceEEEEeCCCCCccceEehhhhh--cCCC---CEEEEeCcHHHHHHHHHHHHHCC
Confidence 57899999999999999999753 2222 46666688888776666555543
No 314
>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=85.96 E-value=2.3 Score=37.52 Aligned_cols=44 Identities=16% Similarity=0.125 Sum_probs=27.3
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
..++++|++|+|||... ..+.+.+.....+..++++.. .++..+
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~~~~~v~yi~~-~~~~~~ 180 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENNPNAKVVYVSS-EKFTND 180 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhCCCCcEEEEEH-HHHHHH
Confidence 35899999999999765 445555544333346777643 344433
No 315
>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=85.95 E-value=0.56 Score=34.47 Aligned_cols=15 Identities=40% Similarity=0.474 Sum_probs=13.2
Q ss_pred EEEeccCCCchHHHH
Q 028887 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 689999999999774
No 316
>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=85.82 E-value=0.6 Score=36.63 Aligned_cols=25 Identities=36% Similarity=0.388 Sum_probs=19.7
Q ss_pred HHHHhHHcCCc--EEEeccCCCchHHH
Q 028887 99 EALPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 99 ~~i~~i~~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 55666778865 78899999999955
No 317
>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=85.74 E-value=1.7 Score=33.80 Aligned_cols=45 Identities=9% Similarity=0.018 Sum_probs=29.7
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
+++.|++|||||.....-+.. .+ .+++|+......-..+.+++..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~---~~---~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE---LG---GPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh---cC---CCeEEEEccCcCCHHHHHHHHH
Confidence 578999999999776543322 22 2688888777765555555433
No 318
>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=85.73 E-value=2.9 Score=36.59 Aligned_cols=54 Identities=17% Similarity=0.159 Sum_probs=38.8
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH-hHHHHHHHHHHhh
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE-LGMQVTKVARVLA 162 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~-La~Q~~~~~~~l~ 162 (202)
-.++.|..|||||.+...-++..+.....+.+++++-++.. +-.-++..+....
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i 57 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLL 57 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHH
Confidence 36789999999999988877777665423458898888866 5555555555443
No 319
>PHA02533 17 large terminase protein; Provisional
Probab=85.61 E-value=6.7 Score=36.20 Aligned_cols=72 Identities=14% Similarity=0.145 Sum_probs=54.2
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCF-NKDKNVGILAHKASMAAEVLDRTKQAIEL 130 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHh-CCCCEEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 5789999998877666767788888899999877544433322 22348999999999999999888866553
No 320
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=85.52 E-value=7.8 Score=37.27 Aligned_cols=83 Identities=19% Similarity=0.237 Sum_probs=56.5
Q ss_pred CCcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHH--hcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 92 LPTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVN--AQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 92 ~~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~--~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
.+.+.|-+.+.-+ .+|-+.|+.-.-|-|||+--+ +++..+. .+..+| -||++|---|. .|.++|+++++..
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~~~GP-fLVi~P~StL~-NW~~Ef~rf~P~l 243 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKGIPGP-FLVIAPKSTLD-NWMNEFKRFTPSL 243 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcCCCCC-eEEEeeHhhHH-HHHHHHHHhCCCc
Confidence 5778887776654 468889999999999997643 2333332 222343 78999976664 5788899998764
Q ss_pred CCcccccccceEEEEEeCCccHH
Q 028887 166 LDTDLEHKLCTVMALLDGGMLRR 188 (202)
Q Consensus 166 ~~~~~~~~~~~~~~~~~g~~~~~ 188 (202)
. +.+|+|....+
T Consensus 244 ----------~-~~~~~Gdk~eR 255 (971)
T KOG0385|consen 244 ----------N-VVVYHGDKEER 255 (971)
T ss_pred ----------c-eEEEeCCHHHH
Confidence 3 55677765443
No 321
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.52 E-value=2.7 Score=39.88 Aligned_cols=61 Identities=23% Similarity=0.286 Sum_probs=38.2
Q ss_pred HHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec--CCHHhHHHHHHHHH
Q 028887 95 DIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGMQVTKVAR 159 (202)
Q Consensus 95 ~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~--Ptr~La~Q~~~~~~ 159 (202)
..+.+.+..+..++.+++.|.||||||.-. -+.+...+-+...+|-| |-|--|.-+.+++.
T Consensus 359 ~~R~~ll~~ir~n~vvvivgETGSGKTTQl----~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa 421 (1042)
T KOG0924|consen 359 ACRDQLLSVIRENQVVVIVGETGSGKTTQL----AQYLYEDGYADNGMIGCTQPRRVAAISVAKRVA 421 (1042)
T ss_pred HHHHHHHHHHhhCcEEEEEecCCCCchhhh----HHHHHhcccccCCeeeecCchHHHHHHHHHHHH
Confidence 344455555566788999999999999753 23333333222334444 77877777776654
No 322
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=85.52 E-value=3.4 Score=35.23 Aligned_cols=54 Identities=19% Similarity=0.129 Sum_probs=33.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHh---cCCccEEEEecCCHHh-HHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPTREL-GMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~---~~~~~~~Lil~Ptr~L-a~Q~~~~~~~l 161 (202)
.-+.+.|++|+|||...+-.+.....+ +..+.+++|+.-.-.. ..++.+.+..+
T Consensus 103 ~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~~ 160 (317)
T PRK04301 103 SITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEAL 160 (317)
T ss_pred cEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHHc
Confidence 567899999999998776665554332 1123378888755432 34444444444
No 323
>PTZ00035 Rad51 protein; Provisional
Probab=85.31 E-value=4.8 Score=34.81 Aligned_cols=39 Identities=13% Similarity=-0.003 Sum_probs=23.7
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHH---hcCCccEEEEecC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVN---AQRSAVQAVIVVP 146 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~---~~~~~~~~Lil~P 146 (202)
.-+.+.|++|+|||............ .+..+-+++++.-
T Consensus 119 ~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdt 160 (337)
T PTZ00035 119 SITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDT 160 (337)
T ss_pred eEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEc
Confidence 45789999999999876544433221 1222336777653
No 324
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=85.28 E-value=0.62 Score=43.98 Aligned_cols=45 Identities=16% Similarity=0.053 Sum_probs=31.7
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKV 157 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 5799999999999999999986643 11 355555666655544443
No 325
>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=85.20 E-value=1.2 Score=41.44 Aligned_cols=42 Identities=19% Similarity=0.392 Sum_probs=26.1
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHh
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTREL 150 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~L 150 (202)
..+++++.|+||||||.+ +-.++..+... +-+++|+=|.-+.
T Consensus 175 e~~h~li~G~tGsGKs~~-i~~ll~~~~~~--g~~~ii~D~~g~~ 216 (566)
T TIGR02759 175 ETQHILIHGTTGSGKSVA-IRKLLRWIRQR--GDRAIIYDKGCTF 216 (566)
T ss_pred cccceEEEcCCCCCHHHH-HHHHHHHHHhc--CCeEEEEECCCCe
Confidence 346899999999999964 44455554322 1245555555443
No 326
>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=85.19 E-value=1.8 Score=32.22 Aligned_cols=52 Identities=15% Similarity=0.112 Sum_probs=29.0
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEe-----cCCHHhHHHHHHHHHHh
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIV-----VPTRELGMQVTKVARVL 161 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil-----~Ptr~La~Q~~~~~~~l 161 (202)
+-++|+||+||+.+.-+-.-+....+-....+... .|..+.+.+-.+.++..
T Consensus 56 lSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~ 112 (127)
T PF06309_consen 56 LSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSW 112 (127)
T ss_pred EEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHH
Confidence 44899999999988766554434433333333332 35555555444444433
No 327
>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=85.01 E-value=0.81 Score=36.11 Aligned_cols=24 Identities=29% Similarity=0.416 Sum_probs=17.4
Q ss_pred CCcEEEeccCCCchHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
...+++.||.|||||..|....-.
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~L~~~ 26 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQLVNG 26 (181)
T ss_dssp --EEEEE-STTSSHHHHHHHHHHS
T ss_pred CceEEEEcCCCCCHHHHHHHHhcC
Confidence 456899999999999988765543
No 328
>PRK14974 cell division protein FtsY; Provisional
Probab=84.87 E-value=3.7 Score=35.60 Aligned_cols=51 Identities=24% Similarity=0.243 Sum_probs=28.3
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC--H-HhHHHHHHHHHHh
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT--R-ELGMQVTKVARVL 161 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Pt--r-~La~Q~~~~~~~l 161 (202)
.-+++.|++|+|||........ .+... +.+++++... | .-..|+......+
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~-~l~~~--g~~V~li~~Dt~R~~a~eqL~~~a~~l 194 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAY-YLKKN--GFSVVIAAGDTFRAGAIEQLEEHAERL 194 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHH-HHHHc--CCeEEEecCCcCcHHHHHHHHHHHHHc
Confidence 3588999999999987554443 23322 2245555432 3 3344554444443
No 329
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=84.70 E-value=2.8 Score=41.51 Aligned_cols=68 Identities=22% Similarity=0.130 Sum_probs=44.2
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
.|+++|-..--.+..| -+....||-|||++..+|+.-....|+ .+-|++..=-||..=.+++..+...
T Consensus 169 ~~yDVQliGgivLh~G--~IAEM~TGEGKTLvAtlp~yLnAL~Gk---gVHvVTVNDYLA~RDaewmgply~f 236 (1112)
T PRK12901 169 VHYDVQLIGGVVLHQG--KIAEMATGEGKTLVATLPVYLNALTGN---GVHVVTVNDYLAKRDSEWMGPLYEF 236 (1112)
T ss_pred cccchHHhhhhhhcCC--ceeeecCCCCchhHHHHHHHHHHHcCC---CcEEEEechhhhhccHHHHHHHHHH
Confidence 4677775443333333 578899999999999998866555555 4666666667776444444444433
No 330
>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=84.42 E-value=1.3 Score=36.21 Aligned_cols=35 Identities=20% Similarity=0.265 Sum_probs=24.3
Q ss_pred CCcHHHHHHHHhHH----cCC-cEEEeccCCCchHHHHHH
Q 028887 92 LPTDIQREALPVLF----SSR-DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~----~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 35666666766543 233 588999999999976543
No 331
>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=84.41 E-value=4.1 Score=34.12 Aligned_cols=35 Identities=20% Similarity=0.227 Sum_probs=22.8
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~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 45778899999999876655544333333 555554
No 332
>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=84.39 E-value=2 Score=32.85 Aligned_cols=20 Identities=35% Similarity=0.358 Sum_probs=15.5
Q ss_pred EEEeccCCCchHHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l 129 (202)
+++.|++|+|||.....-..
T Consensus 3 ~~~~G~~G~GKTt~~~~la~ 22 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLAL 22 (173)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57889999999988654443
No 333
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=84.36 E-value=1.2 Score=36.83 Aligned_cols=36 Identities=28% Similarity=0.342 Sum_probs=23.7
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
-++.||+||||| .|+..+.+.+..-++...++=|=|
T Consensus 5 qvVIGPPgSGKs-TYc~g~~~fls~~gr~~~vVNLDP 40 (290)
T KOG1533|consen 5 QVVIGPPGSGKS-TYCNGMSQFLSAIGRPVAVVNLDP 40 (290)
T ss_pred eEEEcCCCCCcc-chhhhHHHHHHHhCCceEEEecCC
Confidence 478899999999 677777776655443333333333
No 334
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=84.27 E-value=3.7 Score=36.78 Aligned_cols=24 Identities=29% Similarity=0.306 Sum_probs=18.2
Q ss_pred CcEEEeccCCCchHHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSL 131 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~ 131 (202)
.-+++.||+|+|||.....-....
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~ 247 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKY 247 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 347889999999998876655443
No 335
>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=84.14 E-value=1.2 Score=38.19 Aligned_cols=42 Identities=21% Similarity=0.316 Sum_probs=26.1
Q ss_pred EEEeccCCCchHHHHHHHHH-HHHHhcCCccEEEEecCCHHhHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIF-SLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l-~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
.+|.||||+||+-..--.+- +.+. ...-.+++++|++....-
T Consensus 90 ~~VYGPTG~GKSqLlRNLis~~lI~--P~PETVfFItP~~~mIpp 132 (369)
T PF02456_consen 90 GVVYGPTGSGKSQLLRNLISCQLIQ--PPPETVFFITPQKDMIPP 132 (369)
T ss_pred EEEECCCCCCHHHHHHHhhhcCccc--CCCCceEEECCCCCCCCH
Confidence 68899999999954321111 1111 122368999999887653
No 336
>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=84.12 E-value=1.8 Score=35.70 Aligned_cols=19 Identities=26% Similarity=0.399 Sum_probs=15.9
Q ss_pred CcEEEeccCCCchHHHHHH
Q 028887 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 4689999999999987533
No 337
>PHA02244 ATPase-like protein
Probab=84.12 E-value=1.5 Score=38.64 Aligned_cols=22 Identities=23% Similarity=0.317 Sum_probs=18.5
Q ss_pred hHHcCCcEEEeccCCCchHHHH
Q 028887 103 VLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 103 ~i~~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 3456889999999999999664
No 338
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=84.01 E-value=0.69 Score=39.45 Aligned_cols=20 Identities=15% Similarity=0.247 Sum_probs=16.3
Q ss_pred CcEEEeccCCCchHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~ 127 (202)
+-+++.||||||||...+-.
T Consensus 5 ~ii~I~GpTasGKS~LAl~L 24 (300)
T PRK14729 5 KIVFIFGPTAVGKSNILFHF 24 (300)
T ss_pred cEEEEECCCccCHHHHHHHH
Confidence 45899999999999876643
No 339
>PRK13531 regulatory ATPase RavA; Provisional
Probab=83.98 E-value=1.1 Score=40.79 Aligned_cols=28 Identities=25% Similarity=0.252 Sum_probs=22.3
Q ss_pred HHHHHhHHcCCcEEEeccCCCchHHHHH
Q 028887 98 REALPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 98 ~~~i~~i~~g~~~l~~a~TGsGKT~~~l 125 (202)
..++-.++.|.++++.|++|+|||...-
T Consensus 30 ~lll~aalag~hVLL~GpPGTGKT~LAr 57 (498)
T PRK13531 30 RLCLLAALSGESVFLLGPPGIAKSLIAR 57 (498)
T ss_pred HHHHHHHccCCCEEEECCCChhHHHHHH
Confidence 3344456789999999999999998763
No 340
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=83.91 E-value=28 Score=30.24 Aligned_cols=42 Identities=12% Similarity=0.019 Sum_probs=26.9
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHH---HhcCCccEEEEecCCHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLV---NAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l---~~~~~~~~~Lil~Ptr~ 149 (202)
.-+.+.|++|+|||...+....... ..+....+++|+.-+-.
T Consensus 124 ~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~ 168 (342)
T PLN03186 124 SITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGT 168 (342)
T ss_pred eEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCC
Confidence 3478999999999987754443322 12222337888876654
No 341
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=83.75 E-value=1.7 Score=32.17 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=16.7
Q ss_pred HHcCCcEEEeccCCCchHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~ 124 (202)
...+..+++.|+.|+||+.+.
T Consensus 18 a~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 18 AKSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp HCSSS-EEEECCTTSSHHHHH
T ss_pred hCCCCcEEEEcCCCCCHHHHH
Confidence 345678999999999999864
No 342
>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=83.50 E-value=3.1 Score=35.77 Aligned_cols=24 Identities=21% Similarity=0.378 Sum_probs=17.6
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
..++++||+|+|||...- .+++.+
T Consensus 41 ~~i~I~G~~GtGKT~l~~-~~~~~l 64 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTK-YVMKEL 64 (365)
T ss_pred CcEEEECCCCCCHHHHHH-HHHHHH
Confidence 579999999999997643 333333
No 343
>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=83.47 E-value=1.5 Score=35.34 Aligned_cols=27 Identities=26% Similarity=0.416 Sum_probs=17.5
Q ss_pred HHHHHh-HHcCCcEEEeccCCCchHHHH
Q 028887 98 REALPV-LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 98 ~~~i~~-i~~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 344443 345689999999999999875
No 344
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=83.46 E-value=0.89 Score=35.49 Aligned_cols=20 Identities=25% Similarity=0.227 Sum_probs=16.5
Q ss_pred CCcEEEeccCCCchHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~ 126 (202)
|..+++.||+|+|||...-.
T Consensus 2 g~~i~l~G~sGsGKsTl~~~ 21 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLAA 21 (186)
T ss_pred CcEEEEECCCCCCHHHHHHH
Confidence 56789999999999987543
No 345
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=83.41 E-value=0.85 Score=38.43 Aligned_cols=18 Identities=22% Similarity=0.532 Sum_probs=15.9
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.++++..||+|+|||+..
T Consensus 151 PknVLFyGppGTGKTm~A 168 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMA 168 (368)
T ss_pred cceeEEECCCCccHHHHH
Confidence 379999999999999865
No 346
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=83.29 E-value=0.8 Score=40.04 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=15.3
Q ss_pred CcEEEeccCCCchHHHH
Q 028887 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 67999999999999865
No 347
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.03 E-value=0.93 Score=40.14 Aligned_cols=23 Identities=30% Similarity=0.622 Sum_probs=18.2
Q ss_pred HhHHcC-----CcEEEeccCCCchHHHH
Q 028887 102 PVLFSS-----RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~i~~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 344555 67999999999999764
No 348
>PRK00131 aroK shikimate kinase; Reviewed
Probab=82.93 E-value=0.84 Score=34.58 Aligned_cols=21 Identities=19% Similarity=0.253 Sum_probs=17.4
Q ss_pred HcCCcEEEeccCCCchHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 105 ~~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 356789999999999998754
No 349
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=82.72 E-value=7 Score=33.67 Aligned_cols=70 Identities=20% Similarity=0.163 Sum_probs=42.4
Q ss_pred CcHHHHHHHHhHHcC-C---cEEEeccCCCchHHHHHHHHHHHHHh------------------cCCccEEEEecCCH--
Q 028887 93 PTDIQREALPVLFSS-R---DCILHAQTGSGKTLTYLLLIFSLVNA------------------QRSAVQAVIVVPTR-- 148 (202)
Q Consensus 93 ~t~~Q~~~i~~i~~g-~---~~l~~a~TGsGKT~~~l~~~l~~l~~------------------~~~~~~~Lil~Ptr-- 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 468888888777643 2 48899999999997654422222211 12245677787852
Q ss_pred --HhHHHHHHHHHHhh
Q 028887 149 --ELGMQVTKVARVLA 162 (202)
Q Consensus 149 --~La~Q~~~~~~~l~ 162 (202)
--+.|+.+....+.
T Consensus 84 ~~i~id~iR~l~~~~~ 99 (328)
T PRK05707 84 KTIKVDQVRELVSFVV 99 (328)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 23556665544444
No 350
>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=82.70 E-value=2.1 Score=35.30 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=16.6
Q ss_pred cEEEeccCCCchHHHHHHHHHHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
.+++.|++|||||.. +.-++..+
T Consensus 15 r~viIG~sGSGKT~l-i~~lL~~~ 37 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTL-IKSLLYYL 37 (241)
T ss_pred eEEEECCCCCCHHHH-HHHHHHhh
Confidence 688999999999954 44444433
No 351
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=82.69 E-value=1.8 Score=36.70 Aligned_cols=18 Identities=28% Similarity=0.392 Sum_probs=15.3
Q ss_pred cEEEeccCCCchHHHHHH
Q 028887 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 352
>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=82.59 E-value=0.92 Score=35.31 Aligned_cols=16 Identities=31% Similarity=0.434 Sum_probs=13.7
Q ss_pred cEEEeccCCCchHHHH
Q 028887 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 5789999999999754
No 353
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=82.50 E-value=0.84 Score=40.97 Aligned_cols=19 Identities=42% Similarity=0.555 Sum_probs=15.8
Q ss_pred cCCcEEEeccCCCchHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
...++++.||||||||+..
T Consensus 225 eKSNvLllGPtGsGKTlla 243 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTLLA 243 (564)
T ss_pred ecccEEEECCCCCchhHHH
Confidence 3457999999999999764
No 354
>PRK08506 replicative DNA helicase; Provisional
Probab=82.16 E-value=4 Score=37.01 Aligned_cols=49 Identities=16% Similarity=0.114 Sum_probs=30.8
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
.|.-+++.|.+|.|||...+--+.+....+. .+++++.+ .-..|+..++
T Consensus 191 ~G~LivIaarpg~GKT~fal~ia~~~~~~g~---~V~~fSlE-Ms~~ql~~Rl 239 (472)
T PRK08506 191 KGDLIIIAARPSMGKTTLCLNMALKALNQDK---GVAFFSLE-MPAEQLMLRM 239 (472)
T ss_pred CCceEEEEcCCCCChHHHHHHHHHHHHhcCC---cEEEEeCc-CCHHHHHHHH
Confidence 3456888999999999776666555544333 56777644 2334444443
No 355
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=82.15 E-value=1.4 Score=39.74 Aligned_cols=27 Identities=26% Similarity=0.441 Sum_probs=20.4
Q ss_pred HHHHHh-HHcCCcEEEeccCCCchHHHH
Q 028887 98 REALPV-LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 98 ~~~i~~-i~~g~~~l~~a~TGsGKT~~~ 124 (202)
++++.. ...|.++++.||.|||||+..
T Consensus 188 KrAleiAAAGgHnLl~~GpPGtGKTmla 215 (490)
T COG0606 188 KRALEIAAAGGHNLLLVGPPGTGKTMLA 215 (490)
T ss_pred HHHHHHHHhcCCcEEEecCCCCchHHhh
Confidence 334433 346799999999999999874
No 356
>PRK10867 signal recognition particle protein; Provisional
Probab=82.09 E-value=4.6 Score=36.25 Aligned_cols=41 Identities=22% Similarity=0.226 Sum_probs=25.1
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEec--CCHHhHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVV--PTRELGM 152 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~--Ptr~La~ 152 (202)
-+++.|++|+|||....--....... +. +++++. +.|.-+.
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~---kV~lV~~D~~R~aa~ 145 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKK---KVLLVAADVYRPAAI 145 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCC---cEEEEEccccchHHH
Confidence 37889999999998765554433333 33 455544 3454443
No 357
>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=82.08 E-value=2.4 Score=40.65 Aligned_cols=38 Identities=16% Similarity=0.204 Sum_probs=26.2
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~ 149 (202)
++++.|+||+|||...-.-+.+.+..+ .+++|+=|..+
T Consensus 432 n~~I~G~tGsGKS~~~~~l~~~~~~~g---~~v~iiD~~~s 469 (797)
T TIGR02746 432 NIAVVGGSGAGKSFFMQELIVDNLSRG---GKVWVIDVGRS 469 (797)
T ss_pred ceEEEcCCCCCHHHHHHHHHHHHHhCC---CEEEEEeCCCC
Confidence 689999999999987655444444433 36666666544
No 358
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=82.01 E-value=2.6 Score=37.82 Aligned_cols=38 Identities=16% Similarity=0.167 Sum_probs=25.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~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 35899999999999654 344455544333446777653
No 359
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=81.99 E-value=1.7 Score=37.24 Aligned_cols=23 Identities=30% Similarity=0.446 Sum_probs=19.9
Q ss_pred HhHHcCCcEEEeccCCCchHHHH
Q 028887 102 PVLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~i~~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 35678999999999999999765
No 360
>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=81.88 E-value=1.7 Score=37.56 Aligned_cols=26 Identities=15% Similarity=0.203 Sum_probs=20.6
Q ss_pred HHHhHHcCCcEEEeccCCCchHHHHH
Q 028887 100 ALPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 100 ~i~~i~~g~~~l~~a~TGsGKT~~~l 125 (202)
.+-.+..++++++.|++|+|||...-
T Consensus 57 vl~~l~~~~~ilL~G~pGtGKTtla~ 82 (327)
T TIGR01650 57 ICAGFAYDRRVMVQGYHGTGKSTHIE 82 (327)
T ss_pred HHHHHhcCCcEEEEeCCCChHHHHHH
Confidence 33445668899999999999998754
No 361
>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=81.53 E-value=1.5 Score=35.15 Aligned_cols=42 Identities=19% Similarity=0.101 Sum_probs=27.0
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhc---CCccEEEEecCC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ---RSAVQAVIVVPT 147 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~---~~~~~~Lil~Pt 147 (202)
.|.-+.+.|++|+|||...+.-+......+ ...-.++++.-.
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e 62 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTE 62 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCC
Confidence 346689999999999988766555433221 112357777643
No 362
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=81.52 E-value=2.8 Score=35.99 Aligned_cols=21 Identities=29% Similarity=0.161 Sum_probs=16.2
Q ss_pred CcEEEeccCCCchHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~ 128 (202)
.-+.+.||+|+|||.....-.
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA 135 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLA 135 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHH
Confidence 457889999999998765433
No 363
>PLN02165 adenylate isopentenyltransferase
Probab=81.15 E-value=1.3 Score=38.44 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=17.4
Q ss_pred cCCcEEEeccCCCchHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~ 126 (202)
.|..+++.||||||||.....
T Consensus 42 ~g~iivIiGPTGSGKStLA~~ 62 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRLSVD 62 (334)
T ss_pred CCCEEEEECCCCCcHHHHHHH
Confidence 356689999999999988754
No 364
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=81.02 E-value=6.4 Score=33.87 Aligned_cols=23 Identities=26% Similarity=0.327 Sum_probs=19.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
.+++.+||.|+|||-+.++..-+
T Consensus 58 p~~LFyGPpGTGKTStalafar~ 80 (346)
T KOG0989|consen 58 PHYLFYGPPGTGKTSTALAFARA 80 (346)
T ss_pred ceEEeeCCCCCcHhHHHHHHHHH
Confidence 56899999999999988765544
No 365
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=80.95 E-value=3.7 Score=35.08 Aligned_cols=85 Identities=14% Similarity=0.057 Sum_probs=47.4
Q ss_pred CCCCCchHHHHHhccCCCCHHHHHcccCCCcchHHHHHhCC--------CCHHHHHHHHHCCCCCCcHHHHHHHHhHHcC
Q 028887 36 PVSISLKPLRAVLSSSAVSTEELAAGTGNNSLTLRELCQGH--------VPEHVLRRMEETGYVLPTDIQREALPVLFSS 107 (202)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g--------l~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g 107 (202)
..+++.-.+.+.+...+..+++..+- ...-.+.|.+.| +.+.+.+.|.+.++..+.+- -..+..+...
T Consensus 14 ~~pfSrgiL~rsL~~~g~~~~~A~~i---A~~i~~~L~~~g~~~i~~~el~~~V~~~L~~~~~~~~~~~-y~~~~~i~~~ 89 (301)
T PRK04220 14 EMPFSKGILARSLTAAGMKPSIAYEI---ASEIEEELKKEGIKEITKEELRRRVYYKLIEKDYEEVAEK-YLLWRRIRKS 89 (301)
T ss_pred cCCCcHHHHHHHHHHcCCChhHHHHH---HHHHHHHHHHcCCEEeeHHHHHHHHHHHHHHhCcHhHHHH-HHHHHHHhcC
Confidence 34566666777777666665543221 122334444444 22345566666676654432 2333333332
Q ss_pred ---CcEEEeccCCCchHHHH
Q 028887 108 ---RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ---~~~l~~a~TGsGKT~~~ 124 (202)
.-+++.|++|+|||...
T Consensus 90 ~~p~iIlI~G~sgsGKStlA 109 (301)
T PRK04220 90 KEPIIILIGGASGVGTSTIA 109 (301)
T ss_pred CCCEEEEEECCCCCCHHHHH
Confidence 24889999999999854
No 366
>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=80.84 E-value=1.3 Score=37.96 Aligned_cols=24 Identities=50% Similarity=0.740 Sum_probs=18.2
Q ss_pred HhHHcCCc--EEEeccCCCchHHHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLTYL 125 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~~l 125 (202)
..++.|.+ ++..|+||||||....
T Consensus 78 ~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 78 PHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred HHHhCCCceEEEeccCCCCCCceEec
Confidence 34567765 7888999999997754
No 367
>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=80.79 E-value=1.2 Score=34.27 Aligned_cols=18 Identities=22% Similarity=0.213 Sum_probs=15.2
Q ss_pred CcEEEeccCCCchHHHHH
Q 028887 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 457899999999998764
No 368
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=80.79 E-value=4.9 Score=38.77 Aligned_cols=30 Identities=23% Similarity=0.120 Sum_probs=22.3
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~ 136 (202)
|.-+.+.|++|+|||...+..+......+.
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~ 89 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGG 89 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 456889999999999887766665554433
No 369
>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=80.72 E-value=1.7 Score=37.54 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=17.5
Q ss_pred hHHcCCc--EEEeccCCCchHHHH
Q 028887 103 VLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 103 ~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
.++.|.+ ++.+|+||||||...
T Consensus 82 ~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 82 GVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred HHHCCCCceEEeeCCCCCCCeEEE
Confidence 3467755 788999999999874
No 370
>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=80.71 E-value=1.3 Score=38.30 Aligned_cols=23 Identities=30% Similarity=0.335 Sum_probs=17.5
Q ss_pred HhHHcCCc--EEEeccCCCchHHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
..++.|.+ ++.+|+||||||...
T Consensus 82 ~~~l~G~n~ti~aYGqtGSGKTyTm 106 (345)
T cd01368 82 QDLLKGKNSLLFTYGVTNSGKTYTM 106 (345)
T ss_pred HHHhCCCceEEEEeCCCCCCCeEEe
Confidence 33467755 788999999999763
No 371
>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=80.71 E-value=1.3 Score=34.12 Aligned_cols=19 Identities=26% Similarity=0.284 Sum_probs=16.4
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 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 5678999999999998754
No 372
>PTZ00301 uridine kinase; Provisional
Probab=80.62 E-value=3.6 Score=33.13 Aligned_cols=15 Identities=27% Similarity=0.304 Sum_probs=12.8
Q ss_pred EEEeccCCCchHHHH
Q 028887 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 373
>PRK00300 gmk guanylate kinase; Provisional
Probab=80.37 E-value=1.4 Score=34.73 Aligned_cols=18 Identities=22% Similarity=0.335 Sum_probs=15.7
Q ss_pred cCCcEEEeccCCCchHHH
Q 028887 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 567799999999999964
No 374
>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=80.23 E-value=1.3 Score=38.18 Aligned_cols=21 Identities=43% Similarity=0.420 Sum_probs=16.4
Q ss_pred hHHcCCc--EEEeccCCCchHHH
Q 028887 103 VLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 103 ~i~~g~~--~l~~a~TGsGKT~~ 123 (202)
.++.|.+ ++.+|.||||||..
T Consensus 69 ~~~~G~n~ti~aYGqTGSGKTyT 91 (337)
T cd01373 69 DCLSGYNGSIFAYGQTGSGKTYT 91 (337)
T ss_pred HHhCCCceeEEEeCCCCCCceEE
Confidence 3467765 78899999999954
No 375
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=80.20 E-value=2.9 Score=36.70 Aligned_cols=46 Identities=22% Similarity=0.250 Sum_probs=30.9
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
.-.++.||||||||....--.++...+|-+...+=+=.|..-|+.-
T Consensus 274 ElTvlTGpTGsGKTTFlsEYsLDL~~QGVnTLwgSFEi~n~rla~~ 319 (514)
T KOG2373|consen 274 ELTVLTGPTGSGKTTFLSEYSLDLFTQGVNTLWGSFEIPNKRLAHW 319 (514)
T ss_pred ceEEEecCCCCCceeEehHhhHHHHhhhhhheeeeeecchHHHHHH
Confidence 4589999999999987666666666555543344444577666654
No 376
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=80.14 E-value=11 Score=32.15 Aligned_cols=84 Identities=21% Similarity=0.235 Sum_probs=50.8
Q ss_pred HHHHHhccCCCCHHHHHcccCCCcchHHHHHhCCCCH--HHHHHH-HHCCC-----------------------CCCcHH
Q 028887 43 PLRAVLSSSAVSTEELAAGTGNNSLTLRELCQGHVPE--HVLRRM-EETGY-----------------------VLPTDI 96 (202)
Q Consensus 43 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~gl~~--~l~~~l-~~~g~-----------------------~~~t~~ 96 (202)
.++.+......+.+++.+..+.+...+..|+...-.+ ..+..+ ..+|. ..+++.
T Consensus 32 rl~~~R~~~gltq~~lA~~~gvs~~~i~~~E~g~~~ps~~~l~~ia~~l~v~~~~l~~~~~~~~~~~~~l~~~l~~l~~~ 111 (309)
T PRK08154 32 RVRTLRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVDTSSPDWLLIRELLEQASPA 111 (309)
T ss_pred HHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCCCCCCCHHHHHHHHHHhCCCHHHHhCCCCCCChHHHHHHHHHhcCCHH
Confidence 4555666777788888887777777777776554222 222222 11121 134555
Q ss_pred HHHHHHhHH-----------cCCcEEEeccCCCchHHHHHH
Q 028887 97 QREALPVLF-----------SSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 97 Q~~~i~~i~-----------~g~~~l~~a~TGsGKT~~~l~ 126 (202)
|.+.+-.++ .+..+++.|..|+|||.+.-.
T Consensus 112 ~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~ 152 (309)
T PRK08154 112 QLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRM 152 (309)
T ss_pred HHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHH
Confidence 555544332 235799999999999988654
No 377
>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=80.12 E-value=1.8 Score=36.98 Aligned_cols=25 Identities=32% Similarity=0.356 Sum_probs=18.1
Q ss_pred HhHHcCCc--EEEeccCCCchHHHHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~~l~ 126 (202)
..++.|.+ ++..|+||||||....-
T Consensus 68 ~~~l~G~n~~i~ayG~tgSGKT~Tm~G 94 (335)
T PF00225_consen 68 DSVLDGYNATIFAYGQTGSGKTYTMFG 94 (335)
T ss_dssp HHHHTT-EEEEEEEESTTSSHHHHHTB
T ss_pred HHhhcCCceEEEeeccccccccccccc
Confidence 34567865 78899999999976543
No 378
>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=80.06 E-value=10 Score=31.08 Aligned_cols=40 Identities=15% Similarity=0.132 Sum_probs=29.1
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPT 147 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Pt 147 (202)
.|.-+++.|.+|.|||...+--+.+....++ ..+++++.+
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~--~~vly~SlE 57 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALNGG--YPVLYFSLE 57 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHTTS--SEEEEEESS
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHhcC--CeEEEEcCC
Confidence 3456889999999999877777766665532 378888865
No 379
>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=80.05 E-value=1.6 Score=37.28 Aligned_cols=24 Identities=38% Similarity=0.569 Sum_probs=18.3
Q ss_pred HHhHHcCCc--EEEeccCCCchHHHH
Q 028887 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~i~~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 334577765 788899999999854
No 380
>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=79.99 E-value=1.4 Score=33.87 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=14.9
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 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 456889999999999753
No 381
>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=79.93 E-value=1.5 Score=37.51 Aligned_cols=23 Identities=35% Similarity=0.429 Sum_probs=17.9
Q ss_pred HHhHHcCCc--EEEeccCCCchHHH
Q 028887 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~i~~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 344567765 78999999999977
No 382
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=79.91 E-value=1.3 Score=39.46 Aligned_cols=18 Identities=44% Similarity=0.556 Sum_probs=15.7
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 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 467999999999999875
No 383
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=79.91 E-value=5.2 Score=37.52 Aligned_cols=45 Identities=16% Similarity=0.129 Sum_probs=27.3
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQV 154 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~ 154 (202)
..++++|++|+|||... .++.+.+.....+.+++++. ..+++.+.
T Consensus 315 NpL~LyG~sGsGKTHLL-~AIa~~a~~~~~g~~V~Yit-aeef~~el 359 (617)
T PRK14086 315 NPLFIYGESGLGKTHLL-HAIGHYARRLYPGTRVRYVS-SEEFTNEF 359 (617)
T ss_pred CcEEEECCCCCCHHHHH-HHHHHHHHHhCCCCeEEEee-HHHHHHHH
Confidence 34899999999999654 34444444322334666654 44555443
No 384
>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=79.89 E-value=1.2 Score=39.56 Aligned_cols=37 Identities=14% Similarity=0.319 Sum_probs=25.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
.|+.+++.|.+|+|||+.. +-++..+.... -+++|++
T Consensus 9 ~G~TLLIKG~PGTGKTtfa-LelL~~l~~~~---~v~YIST 45 (484)
T PF07088_consen 9 PGQTLLIKGEPGTGKTTFA-LELLNSLKDHG---NVMYIST 45 (484)
T ss_pred CCcEEEEecCCCCCceeee-hhhHHHHhccC---CeEEEEe
Confidence 5788999999999999654 44555554433 3566654
No 385
>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=79.76 E-value=2.5 Score=31.17 Aligned_cols=43 Identities=23% Similarity=0.305 Sum_probs=24.5
Q ss_pred hHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhH
Q 028887 103 VLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151 (202)
Q Consensus 103 ~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La 151 (202)
.+..|.-+++.|+-|+||| .|.-.++..+.. ..-|-+||=.++
T Consensus 11 ~l~~g~vi~L~GdLGaGKT-tf~r~l~~~lg~-----~~~V~SPTF~l~ 53 (123)
T PF02367_consen 11 ILKPGDVILLSGDLGAGKT-TFVRGLARALGI-----DEEVTSPTFSLV 53 (123)
T ss_dssp HHSS-EEEEEEESTTSSHH-HHHHHHHHHTT-------S----TTTTSE
T ss_pred hCCCCCEEEEECCCCCCHH-HHHHHHHHHcCC-----CCCcCCCCeEEE
Confidence 3445667899999999999 455555555522 235567775554
No 386
>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=79.62 E-value=1.5 Score=38.01 Aligned_cols=22 Identities=36% Similarity=0.433 Sum_probs=17.2
Q ss_pred HhHHcCCc--EEEeccCCCchHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~ 123 (202)
+.++.|.+ ++.+|+||||||..
T Consensus 82 ~~~l~G~n~~i~ayGqtGSGKT~T 105 (356)
T cd01365 82 DHAFEGYNVCLFAYGQTGSGKSYT 105 (356)
T ss_pred HHHhCCCceEEEEecCCCCCCeEE
Confidence 34567765 78899999999984
No 387
>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=79.59 E-value=1.3 Score=39.40 Aligned_cols=19 Identities=42% Similarity=0.499 Sum_probs=16.1
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
..++++.||||+|||...-
T Consensus 116 ~~~iLL~GP~GsGKT~lAr 134 (413)
T TIGR00382 116 KSNILLIGPTGSGKTLLAQ 134 (413)
T ss_pred CceEEEECCCCcCHHHHHH
Confidence 3579999999999998753
No 388
>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=79.56 E-value=1.5 Score=37.73 Aligned_cols=23 Identities=30% Similarity=0.391 Sum_probs=17.5
Q ss_pred HhHHcCCc--EEEeccCCCchHHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
..++.|.+ ++.+|+||||||..-
T Consensus 74 ~~~~~G~n~~i~ayG~tgSGKTyTm 98 (334)
T cd01375 74 DSALDGYNGTIFAYGQTGAGKTFTM 98 (334)
T ss_pred HHHhCCCccceeeecCCCCCCeEEc
Confidence 33567754 889999999999653
No 389
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=79.45 E-value=1.1 Score=36.57 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=16.2
Q ss_pred HcCCcEEEeccCCCchHHH
Q 028887 105 FSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~ 123 (202)
..|.-++++||+|||||..
T Consensus 26 ~~Gevv~iiGpSGSGKSTl 44 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTL 44 (240)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 4677899999999999964
No 390
>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=79.24 E-value=6.2 Score=32.40 Aligned_cols=51 Identities=14% Similarity=0.110 Sum_probs=26.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
.+++++||+|.|||...-+-. +. -+.. -...-.|..+-+.++...+..+..
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA-~e---~~~~-~~~~sg~~i~k~~dl~~il~~l~~ 101 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIA-NE---LGVN-FKITSGPAIEKAGDLAAILTNLKE 101 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHH-HH---CT---EEEEECCC--SCHHHHHHHHT--T
T ss_pred ceEEEECCCccchhHHHHHHH-hc---cCCC-eEeccchhhhhHHHHHHHHHhcCC
Confidence 368999999999997654322 11 1111 223334655555555555555543
No 391
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=79.17 E-value=7.7 Score=33.70 Aligned_cols=20 Identities=25% Similarity=0.366 Sum_probs=16.3
Q ss_pred CcEEEeccCCCchHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~ 127 (202)
.+++++|++|+|||...-..
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v 75 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKV 75 (394)
T ss_pred CeEEEECCCCCCHHHHHHHH
Confidence 56999999999999775443
No 392
>PRK07261 topology modulation protein; Provisional
Probab=79.16 E-value=1.5 Score=33.96 Aligned_cols=18 Identities=22% Similarity=0.196 Sum_probs=14.9
Q ss_pred cEEEeccCCCchHHHHHH
Q 028887 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 478999999999987643
No 393
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=79.04 E-value=7.5 Score=34.97 Aligned_cols=21 Identities=38% Similarity=0.305 Sum_probs=16.7
Q ss_pred cEEEeccCCCchHHHHHHHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIF 129 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l 129 (202)
.+++.|++|+|||.+......
T Consensus 97 vI~lvG~~GsGKTTtaakLA~ 117 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLAR 117 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHH
Confidence 578899999999988655443
No 394
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=78.94 E-value=10 Score=33.26 Aligned_cols=23 Identities=30% Similarity=0.427 Sum_probs=17.8
Q ss_pred CcEEEeccCCCchHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
.++++.|+||+|||.+.-.-+-+
T Consensus 43 ~n~~iyG~~GTGKT~~~~~v~~~ 65 (366)
T COG1474 43 SNIIIYGPTGTGKTATVKFVMEE 65 (366)
T ss_pred ccEEEECCCCCCHhHHHHHHHHH
Confidence 46999999999999886554433
No 395
>PRK13909 putative recombination protein RecB; Provisional
Probab=78.92 E-value=5 Score=39.37 Aligned_cols=52 Identities=17% Similarity=0.198 Sum_probs=40.1
Q ss_pred EEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhh
Q 028887 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~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 5789999999999777777777666544588999999888888777765443
No 396
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=78.85 E-value=7.4 Score=35.65 Aligned_cols=89 Identities=16% Similarity=0.180 Sum_probs=52.1
Q ss_pred HHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 69 LRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 69 ~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
++.|......+...+.+++..--.-...+.+.+..+.+++-+++.|.||||||.-.--..+....... ..+..--|-|
T Consensus 24 ~Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~--~~v~CTQprr 101 (699)
T KOG0925|consen 24 INPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHL--TGVACTQPRR 101 (699)
T ss_pred cCCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhc--cceeecCchH
Confidence 55555556666666666543211224445555566677888999999999999753322222222211 1344445777
Q ss_pred HhHHHHHHHHH
Q 028887 149 ELGMQVTKVAR 159 (202)
Q Consensus 149 ~La~Q~~~~~~ 159 (202)
--|.++..+..
T Consensus 102 vaamsva~RVa 112 (699)
T KOG0925|consen 102 VAAMSVAQRVA 112 (699)
T ss_pred HHHHHHHHHHH
Confidence 77777766554
No 397
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=78.77 E-value=1.4 Score=38.81 Aligned_cols=17 Identities=35% Similarity=0.563 Sum_probs=15.0
Q ss_pred CcEEEeccCCCchHHHH
Q 028887 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 56999999999999764
No 398
>PRK05748 replicative DNA helicase; Provisional
Probab=78.76 E-value=5.4 Score=35.72 Aligned_cols=49 Identities=14% Similarity=0.067 Sum_probs=29.4
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
.|.-+++.|++|.|||...+--+.+.... +. .+++++.+ .-..|+..++
T Consensus 202 ~G~livIaarpg~GKT~~al~ia~~~a~~~g~---~v~~fSlE-ms~~~l~~R~ 251 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAFALNIAQNVATKTDK---NVAIFSLE-MGAESLVMRM 251 (448)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHhCCC---eEEEEeCC-CCHHHHHHHH
Confidence 34568999999999997665544443322 33 56666543 2334555544
No 399
>PRK08118 topology modulation protein; Reviewed
Probab=78.75 E-value=1.5 Score=33.80 Aligned_cols=16 Identities=38% Similarity=0.420 Sum_probs=13.7
Q ss_pred cEEEeccCCCchHHHH
Q 028887 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 5889999999999754
No 400
>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=78.71 E-value=2.1 Score=31.87 Aligned_cols=15 Identities=27% Similarity=0.488 Sum_probs=12.6
Q ss_pred EEEeccCCCchHHHH
Q 028887 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 401
>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=78.67 E-value=2.2 Score=33.06 Aligned_cols=20 Identities=30% Similarity=0.423 Sum_probs=15.7
Q ss_pred HcCCcEEEeccCCCchHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~ 124 (202)
.....+++.|++|+||++..
T Consensus 20 ~~~~pVlI~GE~GtGK~~lA 39 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELLA 39 (168)
T ss_dssp TSTS-EEEECSTTSSHHHHH
T ss_pred CCCCCEEEEcCCCCcHHHHH
Confidence 34467999999999999764
No 402
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=78.57 E-value=1.2 Score=36.37 Aligned_cols=19 Identities=21% Similarity=0.226 Sum_probs=16.4
Q ss_pred HcCCcEEEeccCCCchHHH
Q 028887 105 FSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 105 ~~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 5678899999999999964
No 403
>PRK14530 adenylate kinase; Provisional
Probab=78.48 E-value=1.5 Score=35.12 Aligned_cols=20 Identities=25% Similarity=0.277 Sum_probs=16.5
Q ss_pred cCCcEEEeccCCCchHHHHH
Q 028887 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 35679999999999997754
No 404
>PLN03025 replication factor C subunit; Provisional
Probab=78.44 E-value=17 Score=30.93 Aligned_cols=19 Identities=37% Similarity=0.539 Sum_probs=15.5
Q ss_pred CcEEEeccCCCchHHHHHH
Q 028887 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 4689999999999966544
No 405
>PRK06620 hypothetical protein; Validated
Probab=78.43 E-value=1.3 Score=35.73 Aligned_cols=18 Identities=22% Similarity=0.241 Sum_probs=15.1
Q ss_pred CcEEEeccCCCchHHHHH
Q 028887 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 458999999999997654
No 406
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=78.43 E-value=18 Score=33.00 Aligned_cols=24 Identities=33% Similarity=0.210 Sum_probs=18.5
Q ss_pred CCcEEEeccCCCchHHHHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
|.-+.+.||||+|||.......-.
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~ 279 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAAR 279 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHH
Confidence 456889999999999987655433
No 407
>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=78.38 E-value=6.9 Score=34.77 Aligned_cols=39 Identities=21% Similarity=0.081 Sum_probs=25.4
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPT 147 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Pt 147 (202)
.|.-+++.|++|+|||...+--+.+.... +. .+++++.+
T Consensus 194 ~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~---~vl~~SlE 233 (434)
T TIGR00665 194 PSDLIILAARPSMGKTAFALNIAENAAIKEGK---PVAFFSLE 233 (434)
T ss_pred CCeEEEEEeCCCCChHHHHHHHHHHHHHhCCC---eEEEEeCc
Confidence 34568999999999996665444443332 33 56776644
No 408
>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=78.36 E-value=1.3 Score=33.47 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=12.7
Q ss_pred EEEeccCCCchHHHHH
Q 028887 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|+|||...-
T Consensus 1 i~l~G~~GsGKSTla~ 16 (163)
T TIGR01313 1 FVLMGVAGSGKSTIAS 16 (163)
T ss_pred CEEECCCCCCHHHHHH
Confidence 4688999999996643
No 409
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=78.33 E-value=1.6 Score=37.38 Aligned_cols=19 Identities=26% Similarity=0.277 Sum_probs=15.8
Q ss_pred CcEEEeccCCCchHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~ 126 (202)
+-+++.||||||||....-
T Consensus 5 ~~i~i~GptgsGKt~la~~ 23 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIE 23 (307)
T ss_pred eEEEEECCCCcCHHHHHHH
Confidence 4588999999999987664
No 410
>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=78.33 E-value=8.4 Score=34.12 Aligned_cols=41 Identities=15% Similarity=0.144 Sum_probs=26.8
Q ss_pred HHcCCcEEEeccCCCchHHHHHHHHHHHH-HhcCCccEEEEecCC
Q 028887 104 LFSSRDCILHAQTGSGKTLTYLLLIFSLV-NAQRSAVQAVIVVPT 147 (202)
Q Consensus 104 i~~g~~~l~~a~TGsGKT~~~l~~~l~~l-~~~~~~~~~Lil~Pt 147 (202)
+..|.-+++.|++|+|||...+--+.+.. ..+. .+++++.+
T Consensus 191 ~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~---~v~~fSlE 232 (421)
T TIGR03600 191 LVKGDLIVIGARPSMGKTTLALNIAENVALREGK---PVLFFSLE 232 (421)
T ss_pred CCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCC---cEEEEECC
Confidence 34456789999999999976655544443 2333 57777643
No 411
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=78.31 E-value=11 Score=31.89 Aligned_cols=43 Identities=21% Similarity=0.175 Sum_probs=32.8
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
+-+=++||.|||||...+..+......+. .++|+--+..|-.+
T Consensus 61 ~ItEiyG~~gsGKT~lal~~~~~aq~~g~---~a~fIDtE~~l~p~ 103 (279)
T COG0468 61 RITEIYGPESSGKTTLALQLVANAQKPGG---KAAFIDTEHALDPE 103 (279)
T ss_pred eEEEEecCCCcchhhHHHHHHHHhhcCCC---eEEEEeCCCCCCHH
Confidence 34567899999999999988888776665 77887766655443
No 412
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=78.22 E-value=5.3 Score=31.83 Aligned_cols=31 Identities=19% Similarity=0.278 Sum_probs=25.7
Q ss_pred cCCcEEEeccCCCchHHHHHHHHHHHHHhcC
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLIFSLVNAQR 136 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~l~~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 4457999999999999999888888776554
No 413
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=78.19 E-value=11 Score=36.45 Aligned_cols=70 Identities=19% Similarity=0.209 Sum_probs=45.4
Q ss_pred CcHHHHHHHHhH----HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 93 PTDIQREALPVL----FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~i----~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
+-+.|...+..+ ..+-+.|+.-.-|-|||.-. ++.+..+.+.+...--||+||.--|- -|.++|.++|+.
T Consensus 400 LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQv-IaFlayLkq~g~~gpHLVVvPsSTle-NWlrEf~kwCPs 473 (941)
T KOG0389|consen 400 LKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQV-IAFLAYLKQIGNPGPHLVVVPSSTLE-NWLREFAKWCPS 473 (941)
T ss_pred ccchhhhhHHHHHHHHHccccceehhhccCcchhHH-HHHHHHHHHcCCCCCcEEEecchhHH-HHHHHHHHhCCc
Confidence 455666666543 24556788999999999653 34444444332222468999986654 577888888876
No 414
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=78.17 E-value=6.3 Score=35.13 Aligned_cols=41 Identities=17% Similarity=0.088 Sum_probs=27.0
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
...++++|++|+|||-.. -++-+.........+++++....
T Consensus 113 ~nplfi~G~~GlGKTHLl-~Aign~~~~~~~~a~v~y~~se~ 153 (408)
T COG0593 113 YNPLFIYGGVGLGKTHLL-QAIGNEALANGPNARVVYLTSED 153 (408)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHHHhhCCCceEEeccHHH
Confidence 356999999999999653 34444444444445677776644
No 415
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=78.06 E-value=2.6 Score=38.41 Aligned_cols=32 Identities=28% Similarity=0.276 Sum_probs=24.8
Q ss_pred cHHHHHHHHhH-------HcCCcEEEeccCCCchHHHHH
Q 028887 94 TDIQREALPVL-------FSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 94 t~~Q~~~i~~i-------~~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 67787666554 357789999999999997654
No 416
>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=78.05 E-value=1.8 Score=31.51 Aligned_cols=20 Identities=20% Similarity=0.209 Sum_probs=16.8
Q ss_pred HcCCcEEEeccCCCchHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~ 124 (202)
..|.-+.+.|++|+|||...
T Consensus 9 ~~g~~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKSTLL 28 (137)
T ss_dssp ETTSEEEEEESTTSSHHHHH
T ss_pred cCCCEEEEEccCCCccccce
Confidence 35778999999999999765
No 417
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=77.94 E-value=1.6 Score=39.23 Aligned_cols=20 Identities=35% Similarity=0.478 Sum_probs=16.5
Q ss_pred cCCcEEEeccCCCchHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l 125 (202)
.++.++++||+|+|||+..-
T Consensus 216 ~p~gVLL~GPPGTGKT~LAr 235 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLLAK 235 (438)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 34679999999999998753
No 418
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=77.91 E-value=7.8 Score=34.74 Aligned_cols=22 Identities=32% Similarity=0.308 Sum_probs=17.3
Q ss_pred cEEEeccCCCchHHHHHHHHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~ 130 (202)
-+++.|++|+|||....--...
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~ 122 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYY 122 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 4789999999999886555444
No 419
>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=77.80 E-value=5.2 Score=30.86 Aligned_cols=31 Identities=19% Similarity=0.176 Sum_probs=24.7
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEE
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVI 143 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~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 567888899999999888888777655 5655
No 420
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=77.78 E-value=3.6 Score=39.83 Aligned_cols=38 Identities=21% Similarity=0.259 Sum_probs=23.7
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
+.+|+|+||+|||...-+-+.+....+. ++++++=+-+
T Consensus 438 hT~I~G~tGaGKTvLl~~llaq~~k~~~--~~iv~fDk~~ 475 (796)
T COG3451 438 HTLIIGPTGAGKTVLLSFLLAQALKYGN--PQIVAFDKDN 475 (796)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHHhcC--CcEEEEcCCC
Confidence 6899999999999765444444443331 2445544443
No 421
>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=77.61 E-value=5.7 Score=39.80 Aligned_cols=52 Identities=21% Similarity=0.261 Sum_probs=39.4
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhc--CCccEEEEecCCHHhHHHHHHHHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQ--RSAVQAVIVVPTRELGMQVTKVARV 160 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~--~~~~~~Lil~Ptr~La~Q~~~~~~~ 160 (202)
..+|.|..|||||.+-..-++..+..+ -...++|+++=|+.=+..+.+++++
T Consensus 11 ~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 11 TFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHH
Confidence 567899999999998777777776654 1234789999888777777777665
No 422
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=77.34 E-value=9.1 Score=36.92 Aligned_cols=28 Identities=14% Similarity=0.075 Sum_probs=22.3
Q ss_pred CccEEEEecCCHHhHH-HHHHHHHHhhcC
Q 028887 137 SAVQAVIVVPTRELGM-QVTKVARVLAAK 164 (202)
Q Consensus 137 ~~~~~Lil~Ptr~La~-Q~~~~~~~l~~~ 164 (202)
+.|.++||.=++|-|. ++++.|-+.++.
T Consensus 591 r~PySViLlDEIEKAHpdV~nilLQVlDd 619 (786)
T COG0542 591 RKPYSVILLDEIEKAHPDVFNLLLQVLDD 619 (786)
T ss_pred cCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence 4578999999999987 677877777764
No 423
>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=77.32 E-value=1.9 Score=33.44 Aligned_cols=20 Identities=30% Similarity=0.345 Sum_probs=16.6
Q ss_pred CCcEEEeccCCCchHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~ 126 (202)
++-+++.||+|+||+...-.
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~ 21 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKR 21 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHH
T ss_pred CCEEEEECCCCCCHHHHHHH
Confidence 56789999999999977543
No 424
>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=77.32 E-value=4.3 Score=32.78 Aligned_cols=22 Identities=18% Similarity=0.208 Sum_probs=15.0
Q ss_pred EEEeccCCCchHHHHHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
+-+.|++|||||... -.+...+
T Consensus 2 igI~G~sGSGKTTla-~~L~~~l 23 (220)
T cd02025 2 IGIAGSVAVGKSTTA-RVLQALL 23 (220)
T ss_pred EEeeCCCCCCHHHHH-HHHHHHH
Confidence 457899999999765 3333444
No 425
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=77.28 E-value=2.1 Score=37.14 Aligned_cols=24 Identities=29% Similarity=0.422 Sum_probs=19.0
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
+-++++||+|+||| ..+-++.+.+
T Consensus 178 RliLlhGPPGTGKT-SLCKaLaQkL 201 (423)
T KOG0744|consen 178 RLILLHGPPGTGKT-SLCKALAQKL 201 (423)
T ss_pred eEEEEeCCCCCChh-HHHHHHHHhh
Confidence 55899999999999 4566666665
No 426
>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=77.20 E-value=7.4 Score=34.92 Aligned_cols=43 Identities=21% Similarity=0.189 Sum_probs=24.8
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEec--CCHHhHHHH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV--PTRELGMQV 154 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~--Ptr~La~Q~ 154 (202)
-+++.|++|+|||....--.......+. +++++. +.|.-|.++
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~---kV~lV~~D~~R~aA~eQ 146 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGF---KPCLVCADTFRAGAFDQ 146 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC---CEEEEcCcccchhHHHH
Confidence 4789999999999775543332222222 555554 345444433
No 427
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=77.18 E-value=2.6 Score=35.66 Aligned_cols=55 Identities=33% Similarity=0.487 Sum_probs=31.3
Q ss_pred cchHHHHHhCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHc-----CC-cEEEeccCCCchHHHH
Q 028887 66 SLTLRELCQGHVPEHVLRRMEETGYVLPTDIQREALPVLFS-----SR-DCILHAQTGSGKTLTY 124 (202)
Q Consensus 66 ~~~~~~l~~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~-----g~-~~l~~a~TGsGKT~~~ 124 (202)
.-..+.|-+.|..--+++.+... + |+ .++--+|.+++ .+ -+++.|+|||||+...
T Consensus 84 RfRvnAf~qr~~~g~VlRrI~~~-I--Pt-~eeL~LPevlk~la~~kRGLviiVGaTGSGKSTtm 144 (375)
T COG5008 84 RFRVNAFYQRGLAGLVLRRIETK-I--PT-FEELKLPEVLKDLALAKRGLVIIVGATGSGKSTTM 144 (375)
T ss_pred eEEeehhhhcCcchhhhhhhhcc-C--Cc-HHhcCCcHHHHHhhcccCceEEEECCCCCCchhhH
Confidence 34556666667666666655421 1 11 23333344332 23 3788999999998654
No 428
>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]
Probab=77.11 E-value=1.6 Score=40.47 Aligned_cols=21 Identities=24% Similarity=0.406 Sum_probs=18.1
Q ss_pred HHcCCcEEEeccCCCchHHHH
Q 028887 104 LFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 104 i~~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 457899999999999999654
No 429
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.06 E-value=0.85 Score=35.55 Aligned_cols=21 Identities=29% Similarity=0.406 Sum_probs=16.8
Q ss_pred EEEeccCCCchHHHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLIFS 130 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~ 130 (202)
.++.|+.|||||.+|......
T Consensus 5 ~IvaG~NGsGKstv~~~~~~~ 25 (187)
T COG4185 5 DIVAGPNGSGKSTVYASTLAP 25 (187)
T ss_pred EEEecCCCCCceeeeeccchh
Confidence 578899999999998765433
No 430
>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=77.04 E-value=17 Score=27.66 Aligned_cols=75 Identities=19% Similarity=0.299 Sum_probs=41.0
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhc-----------------CCccEEEEecCCHH----hHHHHHHHHHHhhcCCCC
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQ-----------------RSAVQAVIVVPTRE----LGMQVTKVARVLAAKPLD 167 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~-----------------~~~~~~Lil~Ptr~----La~Q~~~~~~~l~~~~~~ 167 (202)
.++++|+.|+||+.....-+-..+... ...+...++-|... -..|+.+....+......
T Consensus 21 a~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~~~ 100 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSPSE 100 (162)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS-TT
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHHHhc
Confidence 479999999999877554433322211 23456777777754 456666444444332211
Q ss_pred cccccccceEEEEEeCCccHH
Q 028887 168 TDLEHKLCTVMALLDGGMLRR 188 (202)
Q Consensus 168 ~~~~~~~~~~~~~~~g~~~~~ 188 (202)
...+++.+.....+..
T Consensus 101 -----~~~KviiI~~ad~l~~ 116 (162)
T PF13177_consen 101 -----GKYKVIIIDEADKLTE 116 (162)
T ss_dssp -----SSSEEEEEETGGGS-H
T ss_pred -----CCceEEEeehHhhhhH
Confidence 2355555555554443
No 431
>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=76.97 E-value=2.1 Score=36.61 Aligned_cols=24 Identities=29% Similarity=0.268 Sum_probs=18.2
Q ss_pred HhHHcCCc--EEEeccCCCchHHHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLTYL 125 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~~l 125 (202)
+.++.|.+ ++.+|+||||||....
T Consensus 67 ~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 67 RSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred HHHHCCCceeEEeecCCCCCCceecc
Confidence 34567754 7889999999997753
No 432
>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=76.90 E-value=9.3 Score=30.96 Aligned_cols=54 Identities=15% Similarity=0.187 Sum_probs=32.4
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHH---------hcCCccEEEEecCCHHhHHHHHHHHHHhhc
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVN---------AQRSAVQAVIVVPTRELGMQVTKVARVLAA 163 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~---------~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~ 163 (202)
-.++.|+.|+|||...+--.+.... ......++||+.-+-. ..++.+++..++.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i~~ 65 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAILQ 65 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHHHh
Confidence 4688999999999887655544321 0012346888874422 2345556665554
No 433
>PRK14737 gmk guanylate kinase; Provisional
Probab=76.90 E-value=1.7 Score=34.17 Aligned_cols=19 Identities=21% Similarity=0.338 Sum_probs=15.8
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
++-+++.||+|+|||...-
T Consensus 4 ~~~ivl~GpsG~GK~tl~~ 22 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQ 22 (186)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4568999999999998743
No 434
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=76.82 E-value=1.8 Score=38.33 Aligned_cols=19 Identities=32% Similarity=0.532 Sum_probs=16.4
Q ss_pred cCCcEEEeccCCCchHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~ 124 (202)
.++.++++||+|+|||...
T Consensus 178 ~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 178 PPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCceEEEECCCCCCHHHHH
Confidence 3577999999999999875
No 435
>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=76.67 E-value=1.9 Score=37.98 Aligned_cols=27 Identities=22% Similarity=0.373 Sum_probs=17.9
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
++|+.+++.||+|+|||.. .+++.+.+
T Consensus 48 ~aGr~iLiaGppGtGKTAl-A~~ia~eL 74 (398)
T PF06068_consen 48 IAGRAILIAGPPGTGKTAL-AMAIAKEL 74 (398)
T ss_dssp -TT-EEEEEE-TTSSHHHH-HHHHHHHC
T ss_pred ccCcEEEEeCCCCCCchHH-HHHHHHHh
Confidence 3578999999999999944 34554544
No 436
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=76.50 E-value=1.9 Score=37.50 Aligned_cols=18 Identities=33% Similarity=0.540 Sum_probs=15.4
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.+.++++||+|+|||...
T Consensus 156 p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 156 PKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 356999999999999765
No 437
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=76.42 E-value=1.9 Score=37.80 Aligned_cols=27 Identities=22% Similarity=0.315 Sum_probs=20.3
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLV 132 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l 132 (202)
+.|+-+++.||+|||||... +.+.+.+
T Consensus 63 ~aGrgiLi~GppgTGKTAlA-~gIa~eL 89 (450)
T COG1224 63 MAGRGILIVGPPGTGKTALA-MGIAREL 89 (450)
T ss_pred ccccEEEEECCCCCcHHHHH-HHHHHHh
Confidence 46788999999999999544 4454544
No 438
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=76.28 E-value=1.9 Score=33.16 Aligned_cols=16 Identities=25% Similarity=0.353 Sum_probs=13.8
Q ss_pred cEEEeccCCCchHHHH
Q 028887 109 DCILHAQTGSGKTLTY 124 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~ 124 (202)
-.++.|++|+|||..+
T Consensus 21 ~~vi~G~Ng~GKStil 36 (202)
T PF13476_consen 21 LNVIYGPNGSGKSTIL 36 (202)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred cEEEECCCCCCHHHHH
Confidence 4688999999999775
No 439
>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=76.22 E-value=1.9 Score=31.05 Aligned_cols=21 Identities=24% Similarity=0.300 Sum_probs=17.4
Q ss_pred cCCcEEEeccCCCchHHHHHH
Q 028887 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 456789999999999987655
No 440
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=76.06 E-value=18 Score=30.00 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=18.5
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
.++++.|..|+|||.. +-+++....
T Consensus 53 nnvLL~G~rGtGKSSl-Vkall~~y~ 77 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSL-VKALLNEYA 77 (249)
T ss_pred cceEEecCCCCCHHHH-HHHHHHHHh
Confidence 6899999999999854 344555443
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=76.01 E-value=4.7 Score=39.53 Aligned_cols=40 Identities=20% Similarity=0.310 Sum_probs=28.6
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHH
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~ 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 4689999999999987666655555431 236777777765
No 442
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=75.99 E-value=3.9 Score=33.42 Aligned_cols=37 Identities=24% Similarity=0.396 Sum_probs=28.2
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
-.++.||.||||+ .|+-.+.++...-++..+++-|=|
T Consensus 5 a~lV~GpAgSGKS-TyC~~~~~h~e~~gRs~~vVNLDP 41 (273)
T KOG1534|consen 5 AQLVMGPAGSGKS-TYCSSMYEHCETVGRSVHVVNLDP 41 (273)
T ss_pred eEEEEccCCCCcc-hHHHHHHHHHHhhCceeEEeecCH
Confidence 4689999999998 788888888876665555555544
No 443
>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=75.97 E-value=5.5 Score=30.99 Aligned_cols=15 Identities=33% Similarity=0.328 Sum_probs=12.8
Q ss_pred EEEeccCCCchHHHH
Q 028887 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 578999999999764
No 444
>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=75.25 E-value=3.7 Score=33.69 Aligned_cols=34 Identities=26% Similarity=0.312 Sum_probs=21.0
Q ss_pred EeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 112 LHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 112 ~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
|.||.||||| .|+-.+-+.+...++.+..+=|=|
T Consensus 1 ViGpaGSGKT-T~~~~~~~~~~~~~~~~~~vNLDP 34 (238)
T PF03029_consen 1 VIGPAGSGKT-TFCKGLSEWLESNGRDVYIVNLDP 34 (238)
T ss_dssp -EESTTSSHH-HHHHHHHHHHTTT-S-EEEEE--T
T ss_pred CCCCCCCCHH-HHHHHHHHHHHhccCCceEEEcch
Confidence 4699999999 778888777765554444444434
No 445
>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=75.24 E-value=8.1 Score=25.46 Aligned_cols=19 Identities=26% Similarity=0.291 Sum_probs=13.8
Q ss_pred EEEeccCCCchHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~ 128 (202)
+++.+..|+|||.....-.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~ 20 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLA 20 (99)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4677888999997754443
No 446
>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=75.18 E-value=2.8 Score=32.05 Aligned_cols=23 Identities=26% Similarity=0.358 Sum_probs=18.5
Q ss_pred cCCcEEEeccCCCchHHHHHHHH
Q 028887 106 SSRDCILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 106 ~g~~~l~~a~TGsGKT~~~l~~~ 128 (202)
.|+-+++.|++|+|||...+..+
T Consensus 13 ~g~gvLi~G~sG~GKStlal~L~ 35 (149)
T cd01918 13 GGIGVLITGPSGIGKSELALELI 35 (149)
T ss_pred CCEEEEEEcCCCCCHHHHHHHHH
Confidence 46789999999999997775443
No 447
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=75.02 E-value=3.3 Score=35.58 Aligned_cols=28 Identities=14% Similarity=0.224 Sum_probs=20.5
Q ss_pred HHHHHhHHcCCcEEEeccCCCchHHHHH
Q 028887 98 REALPVLFSSRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 98 ~~~i~~i~~g~~~l~~a~TGsGKT~~~l 125 (202)
+++-.....+..|++.|.+|+||+.+.-
T Consensus 20 ~~i~~~a~~~~pVlI~GE~GtGK~~lA~ 47 (326)
T PRK11608 20 EQVSRLAPLDKPVLIIGERGTGKELIAS 47 (326)
T ss_pred HHHHHHhCCCCCEEEECCCCCcHHHHHH
Confidence 3333344567789999999999997753
No 448
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=74.87 E-value=1.7 Score=38.90 Aligned_cols=19 Identities=26% Similarity=0.398 Sum_probs=16.6
Q ss_pred CcEEEeccCCCchHHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~ 126 (202)
++++.+||+|+|||++.--
T Consensus 385 RNilfyGPPGTGKTm~Are 403 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMFARE 403 (630)
T ss_pred hheeeeCCCCCCchHHHHH
Confidence 6899999999999988643
No 449
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=74.87 E-value=8.2 Score=34.74 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=23.4
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~P 146 (202)
+.++++|++|+|||.... ++...+... +.+++++..
T Consensus 142 npl~L~G~~G~GKTHLl~-Ai~~~l~~~--~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQ-AAVHALRES--GGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHH-HHHHHHHHc--CCCEEEeeH
Confidence 458999999999996544 444444332 235676653
No 450
>PRK05541 adenylylsulfate kinase; Provisional
Probab=74.78 E-value=6.7 Score=30.02 Aligned_cols=20 Identities=25% Similarity=0.150 Sum_probs=16.8
Q ss_pred HcCCcEEEeccCCCchHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~ 124 (202)
..|..+++.|++|||||...
T Consensus 5 ~~~~~I~i~G~~GsGKst~a 24 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIA 24 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHH
Confidence 35677999999999999765
No 451
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=74.60 E-value=7.1 Score=30.58 Aligned_cols=32 Identities=19% Similarity=0.363 Sum_probs=24.9
Q ss_pred EEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEe
Q 028887 110 CILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIV 144 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~l~~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 677888999999999888888776655 55544
No 452
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=74.55 E-value=3.4 Score=35.60 Aligned_cols=23 Identities=22% Similarity=0.330 Sum_probs=18.4
Q ss_pred HhHHcCCcEEEeccCCCchHHHH
Q 028887 102 PVLFSSRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 102 ~~i~~g~~~l~~a~TGsGKT~~~ 124 (202)
.....+..|++.|++|+||+.+.
T Consensus 17 ~~a~~~~pVLI~GE~GtGK~~lA 39 (329)
T TIGR02974 17 RLAPLDRPVLIIGERGTGKELIA 39 (329)
T ss_pred HHhCCCCCEEEECCCCChHHHHH
Confidence 33445678999999999999864
No 453
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=74.54 E-value=3.5 Score=35.43 Aligned_cols=28 Identities=29% Similarity=0.408 Sum_probs=21.6
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVN 133 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~ 133 (202)
+.|+-+++.||.|+|||.. .+++-+.+.
T Consensus 62 maGravLlaGppgtGKTAl-AlaisqELG 89 (456)
T KOG1942|consen 62 MAGRAVLLAGPPGTGKTAL-ALAISQELG 89 (456)
T ss_pred ccCcEEEEecCCCCchhHH-HHHHHHHhC
Confidence 5789999999999999954 455555554
No 454
>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=74.52 E-value=7.4 Score=29.35 Aligned_cols=19 Identities=26% Similarity=0.256 Sum_probs=14.4
Q ss_pred EEEeccCCCchHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~ 128 (202)
+.+.|+.|+|||.......
T Consensus 2 i~~~G~~GsGKTt~~~~l~ 20 (148)
T cd03114 2 IGITGVPGAGKSTLIDALI 20 (148)
T ss_pred EEEECCCCCcHHHHHHHHH
Confidence 5678999999997654443
No 455
>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=74.51 E-value=2.5 Score=36.37 Aligned_cols=22 Identities=45% Similarity=0.564 Sum_probs=17.6
Q ss_pred hHHcCCc--EEEeccCCCchHHHH
Q 028887 103 VLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 103 ~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
.++.|.+ ++.+|.||||||...
T Consensus 68 ~~~~G~n~~i~ayG~tgSGKT~Tm 91 (341)
T cd01372 68 GLFEGYNATVLAYGQTGSGKTYTM 91 (341)
T ss_pred HHhCCCccceeeecCCCCCCcEEe
Confidence 3467754 789999999999875
No 456
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=74.50 E-value=2.4 Score=39.68 Aligned_cols=29 Identities=24% Similarity=0.305 Sum_probs=22.4
Q ss_pred HHHHHHHHhHHcCCcEEEeccCCCchHHH
Q 028887 95 DIQREALPVLFSSRDCILHAQTGSGKTLT 123 (202)
Q Consensus 95 ~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~ 123 (202)
..-.+.+..+...+.+++.|.||||||.-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQ 82 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKSTQ 82 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCcccc
Confidence 34445556667788899999999999965
No 457
>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=74.47 E-value=12 Score=31.39 Aligned_cols=42 Identities=17% Similarity=0.235 Sum_probs=25.1
Q ss_pred EEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHH
Q 028887 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153 (202)
Q Consensus 111 l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q 153 (202)
++.++.|+|||......++..+........+++. ++...+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~ 42 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARD 42 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHH
Confidence 4678999999999888777776544433455655 66444444
No 458
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=74.47 E-value=2.4 Score=33.03 Aligned_cols=19 Identities=37% Similarity=0.503 Sum_probs=16.2
Q ss_pred cCCcEEEeccCCCchHHHH
Q 028887 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 4677899999999999865
No 459
>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=74.42 E-value=3.1 Score=35.44 Aligned_cols=23 Identities=35% Similarity=0.449 Sum_probs=17.3
Q ss_pred HHhHHcCCc--EEEeccCCCchHHH
Q 028887 101 LPVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 101 i~~i~~g~~--~l~~a~TGsGKT~~ 123 (202)
+..++.|.+ ++.+|+||||||..
T Consensus 71 v~~~~~G~~~~i~~yG~tgSGKT~t 95 (328)
T cd00106 71 VESVLEGYNGTIFAYGQTGSGKTYT 95 (328)
T ss_pred HHHHhCCCceeEEEecCCCCCCeEE
Confidence 344567765 78899999999954
No 460
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=74.37 E-value=2.2 Score=36.16 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=16.0
Q ss_pred CcEEEeccCCCchHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
+.+++.||.|+|||++.-
T Consensus 212 kgvllygppgtgktl~ar 229 (435)
T KOG0729|consen 212 KGVLLYGPPGTGKTLCAR 229 (435)
T ss_pred CceEEeCCCCCchhHHHH
Confidence 579999999999998864
No 461
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=74.28 E-value=27 Score=30.01 Aligned_cols=33 Identities=18% Similarity=0.207 Sum_probs=24.1
Q ss_pred cHHHHHHHHhHHc--CC---cEEEeccCCCchHHHHHH
Q 028887 94 TDIQREALPVLFS--SR---DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 94 t~~Q~~~i~~i~~--g~---~~l~~a~TGsGKT~~~l~ 126 (202)
+|.|+..+..+.. |+ -+++.||.|.|||.....
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~ 40 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARF 40 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHH
Confidence 5667777776652 32 489999999999977544
No 462
>PHA02535 P terminase ATPase subunit; Provisional
Probab=73.94 E-value=15 Score=34.26 Aligned_cols=87 Identities=9% Similarity=0.059 Sum_probs=56.6
Q ss_pred hCCCCHHHHHHHHHCCCCCCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHH-HHHHHHHhcCCccEEEEecCCHHhHH
Q 028887 74 QGHVPEHVLRRMEETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLL-LIFSLVNAQRSAVQAVIVVPTRELGM 152 (202)
Q Consensus 74 ~~gl~~~l~~~l~~~g~~~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~-~~l~~l~~~~~~~~~Lil~Ptr~La~ 152 (202)
+..+.+.....+.+.-...+.+.|+..+..-...+.-++.-.-=.|||..|.. ++...+..|. ..++|+|+++.+.
T Consensus 120 kn~~s~~~~~~l~~~~~~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~~G~---nqiflSas~~QA~ 196 (581)
T PHA02535 120 KNDISDEQTEKLIEAFLDSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALLTGR---NQIFLSASKAQAH 196 (581)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHhcCC---ceEEECCCHHHHH
Confidence 34466665666655444578899999885422233333333344799999875 4455565554 6799999999999
Q ss_pred HHHHHHHHhhc
Q 028887 153 QVTKVARVLAA 163 (202)
Q Consensus 153 Q~~~~~~~l~~ 163 (202)
+..+.+..++.
T Consensus 197 ~f~~yi~~~a~ 207 (581)
T PHA02535 197 VFKQYIIAFAR 207 (581)
T ss_pred HHHHHHHHHHH
Confidence 87777776644
No 463
>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=73.92 E-value=2.6 Score=36.26 Aligned_cols=22 Identities=32% Similarity=0.459 Sum_probs=16.6
Q ss_pred HhHHcCCc--EEEeccCCCchHHH
Q 028887 102 PVLFSSRD--CILHAQTGSGKTLT 123 (202)
Q Consensus 102 ~~i~~g~~--~l~~a~TGsGKT~~ 123 (202)
+.++.|.+ ++.+|.||||||..
T Consensus 75 ~~~~~G~n~~i~ayG~tgSGKTyT 98 (333)
T cd01371 75 DSVLEGYNGTIFAYGQTGTGKTFT 98 (333)
T ss_pred HHHhCCCceeEEecCCCCCCCcEe
Confidence 34467755 78899999999943
No 464
>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=73.91 E-value=8.5 Score=33.20 Aligned_cols=28 Identities=25% Similarity=0.124 Sum_probs=21.2
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHh
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA 134 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~ 134 (202)
|+-+-+.|++++|||...+..+.+....
T Consensus 53 G~ivEi~G~~ssGKttLaL~~ia~~q~~ 80 (322)
T PF00154_consen 53 GRIVEIYGPESSGKTTLALHAIAEAQKQ 80 (322)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred CceEEEeCCCCCchhhhHHHHHHhhhcc
Confidence 3557799999999998888766655443
No 465
>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=73.83 E-value=2.6 Score=36.45 Aligned_cols=22 Identities=32% Similarity=0.398 Sum_probs=16.8
Q ss_pred hHHcCCc--EEEeccCCCchHHHH
Q 028887 103 VLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 103 ~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
.++.|.+ ++..|.||||||...
T Consensus 76 ~~~~G~n~~i~ayG~tgSGKTyTl 99 (352)
T cd01364 76 EVLMGYNCTIFAYGQTGTGKTYTM 99 (352)
T ss_pred HHhCCCeEEEEECCCCCCCCcEEe
Confidence 3467765 788899999999553
No 466
>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=73.78 E-value=3.5 Score=35.32 Aligned_cols=24 Identities=33% Similarity=0.425 Sum_probs=17.7
Q ss_pred HHhHHcCCc--EEEeccCCCchHHHH
Q 028887 101 LPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 101 i~~i~~g~~--~l~~a~TGsGKT~~~ 124 (202)
+..++.|.+ ++.+|+||||||...
T Consensus 72 v~~~~~G~~~~i~~yG~tgSGKT~tl 97 (335)
T smart00129 72 VDSVLEGYNATIFAYGQTGSGKTYTM 97 (335)
T ss_pred HHHHhcCCceeEEEeCCCCCCCceEe
Confidence 344567765 678999999999554
No 467
>PRK06762 hypothetical protein; Provisional
Probab=73.73 E-value=2.5 Score=32.02 Aligned_cols=17 Identities=35% Similarity=0.391 Sum_probs=14.1
Q ss_pred cEEEeccCCCchHHHHH
Q 028887 109 DCILHAQTGSGKTLTYL 125 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l 125 (202)
-++++|++|||||...-
T Consensus 4 li~i~G~~GsGKST~A~ 20 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAK 20 (166)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 47889999999997653
No 468
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=73.56 E-value=2.5 Score=36.19 Aligned_cols=17 Identities=29% Similarity=0.313 Sum_probs=14.1
Q ss_pred cEEEeccCCCchHHHHH
Q 028887 109 DCILHAQTGSGKTLTYL 125 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l 125 (202)
-+++.|||+||||-..+
T Consensus 5 ~i~I~GPTAsGKT~lai 21 (308)
T COG0324 5 LIVIAGPTASGKTALAI 21 (308)
T ss_pred EEEEECCCCcCHHHHHH
Confidence 37899999999996654
No 469
>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=73.52 E-value=7.9 Score=27.99 Aligned_cols=19 Identities=32% Similarity=0.375 Sum_probs=15.1
Q ss_pred EEEeccCCCchHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~ 128 (202)
+++.|..|+|||.....-.
T Consensus 2 i~~~GkgG~GKTt~a~~la 20 (116)
T cd02034 2 IAITGKGGVGKTTIAALLA 20 (116)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6789999999998755443
No 470
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=73.46 E-value=44 Score=28.71 Aligned_cols=36 Identities=19% Similarity=0.182 Sum_probs=27.2
Q ss_pred CCCcHHHHHHHHhHH----cCC---cEEEeccCCCchHHHHHH
Q 028887 91 VLPTDIQREALPVLF----SSR---DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 91 ~~~t~~Q~~~i~~i~----~g~---~~l~~a~TGsGKT~~~l~ 126 (202)
..++|.|..++..+. .|+ -++++|+.|+||+.....
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 45 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA 45 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH
Confidence 457888888887754 343 489999999999876543
No 471
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=73.43 E-value=2.6 Score=35.73 Aligned_cols=19 Identities=21% Similarity=0.253 Sum_probs=15.3
Q ss_pred EEEeccCCCchHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~ 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 6889999999998765443
No 472
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=73.23 E-value=7.7 Score=32.13 Aligned_cols=91 Identities=15% Similarity=0.085 Sum_probs=46.4
Q ss_pred HHHhHHcC-----CcEEEeccCCCchHHHHHHHHHHHHHh---cCCccEEEEecCCHHhHHHHHHHHHHhhcCCCCcccc
Q 028887 100 ALPVLFSS-----RDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPTRELGMQVTKVARVLAAKPLDTDLE 171 (202)
Q Consensus 100 ~i~~i~~g-----~~~l~~a~TGsGKT~~~l~~~l~~l~~---~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~~~~~~~ 171 (202)
.+..++.| .-+=++|+.|+|||-..+-..+..... ++.+.+++|+--+.....+....+-+-.+ .+.
T Consensus 26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~~~--~~~--- 100 (256)
T PF08423_consen 26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAERFG--LDP--- 100 (256)
T ss_dssp HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHHTT--S-H---
T ss_pred HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhhccc--ccc---
Confidence 45555554 335678999999998766554443322 23345899997665544332222211111 111
Q ss_pred cccceEEEEEeCCccHHHHHHHHH
Q 028887 172 HKLCTVMALLDGGMLRRHKSWLKV 195 (202)
Q Consensus 172 ~~~~~~~~~~~g~~~~~~~~~l~~ 195 (202)
...+..+.++.-.+...+.+-+..
T Consensus 101 ~~~l~~I~v~~~~~~~~l~~~L~~ 124 (256)
T PF08423_consen 101 EEILDNIFVIRVFDLEELLELLEQ 124 (256)
T ss_dssp HHHHHTEEEEE-SSHHHHHHHHHH
T ss_pred chhhhceeeeecCCHHHHHHHHHH
Confidence 112334555565566665554443
No 473
>PRK06547 hypothetical protein; Provisional
Probab=73.18 E-value=2.6 Score=32.76 Aligned_cols=16 Identities=31% Similarity=0.538 Sum_probs=13.2
Q ss_pred cEEEeccCCCchHHHH
Q 028887 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 3677799999999875
No 474
>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=73.03 E-value=4.8 Score=34.03 Aligned_cols=41 Identities=20% Similarity=0.091 Sum_probs=25.7
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHHHh---cCCccEEEEecCC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLVNA---QRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l~~---~~~~~~~Lil~Pt 147 (202)
|.-+.+.|++|+|||...+-........ +.....++++.-+
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te 138 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTE 138 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECC
Confidence 3557899999999998766555443321 1112267777644
No 475
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=73.02 E-value=2.6 Score=36.85 Aligned_cols=18 Identities=28% Similarity=0.422 Sum_probs=16.0
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.++++..||||.|||...
T Consensus 50 PKNILMIGpTGVGKTEIA 67 (444)
T COG1220 50 PKNILMIGPTGVGKTEIA 67 (444)
T ss_pred ccceEEECCCCCcHHHHH
Confidence 368999999999999875
No 476
>PRK05595 replicative DNA helicase; Provisional
Probab=72.96 E-value=14 Score=33.03 Aligned_cols=38 Identities=16% Similarity=0.086 Sum_probs=24.9
Q ss_pred CCcEEEeccCCCchHHHHHHHHHHHH-HhcCCccEEEEecCC
Q 028887 107 SRDCILHAQTGSGKTLTYLLLIFSLV-NAQRSAVQAVIVVPT 147 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~~l~~l-~~~~~~~~~Lil~Pt 147 (202)
|.-+++.|.||.|||...+--+.+.. ..+. .+++++.+
T Consensus 201 g~liviaarpg~GKT~~al~ia~~~a~~~g~---~vl~fSlE 239 (444)
T PRK05595 201 GDMILIAARPSMGKTTFALNIAEYAALREGK---SVAIFSLE 239 (444)
T ss_pred CcEEEEEecCCCChHHHHHHHHHHHHHHcCC---cEEEEecC
Confidence 45578899999999976654444322 3333 57777654
No 477
>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=72.83 E-value=2.9 Score=27.13 Aligned_cols=15 Identities=27% Similarity=0.406 Sum_probs=12.5
Q ss_pred EEEeccCCCchHHHH
Q 028887 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 568899999999664
No 478
>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=72.75 E-value=2.8 Score=30.68 Aligned_cols=16 Identities=25% Similarity=0.349 Sum_probs=13.5
Q ss_pred EEEeccCCCchHHHHH
Q 028887 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 5789999999998754
No 479
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=72.64 E-value=3 Score=35.65 Aligned_cols=18 Identities=28% Similarity=0.263 Sum_probs=15.6
Q ss_pred CcEEEeccCCCchHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
..++++||+|+|||....
T Consensus 52 ~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcEEEECCCCccHHHHHH
Confidence 469999999999997765
No 480
>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=72.52 E-value=3 Score=34.07 Aligned_cols=19 Identities=32% Similarity=0.464 Sum_probs=14.0
Q ss_pred EEEeccCCCchHHHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLLLI 128 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~~ 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 5789999999997765433
No 481
>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=72.49 E-value=3.9 Score=32.13 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=16.5
Q ss_pred EEEeccCCCchHHHHHHH-HHHHHHhc
Q 028887 110 CILHAQTGSGKTLTYLLL-IFSLVNAQ 135 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~~-~l~~l~~~ 135 (202)
.+++|..|||||.-.+.- ++..+..+
T Consensus 3 ~~~~G~pGsGKS~~av~~~i~~~l~~g 29 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSYVIIPALKKG 29 (193)
T ss_dssp EEEE--TTSSHHHHHHHHHHH-GGGS-
T ss_pred EEEEcCCCCcHhHHHHHHHHHHHHhCC
Confidence 578999999999877666 55555543
No 482
>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=72.34 E-value=8.7 Score=29.24 Aligned_cols=15 Identities=27% Similarity=0.211 Sum_probs=12.3
Q ss_pred EEEeccCCCchHHHH
Q 028887 110 CILHAQTGSGKTLTY 124 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~ 124 (202)
+.+.|++|+|||...
T Consensus 2 i~i~G~~gsGKTtl~ 16 (155)
T TIGR00176 2 LQIVGPKNSGKTTLI 16 (155)
T ss_pred EEEECCCCCCHHHHH
Confidence 467899999999754
No 483
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=72.30 E-value=3 Score=38.33 Aligned_cols=19 Identities=26% Similarity=0.356 Sum_probs=16.2
Q ss_pred CCcEEEeccCCCchHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l 125 (202)
..++++.|++|+|||.+.-
T Consensus 86 ~~~vLi~Ge~GtGKt~lAr 104 (531)
T TIGR02902 86 PQHVIIYGPPGVGKTAAAR 104 (531)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 3679999999999998754
No 484
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=72.25 E-value=2.8 Score=35.17 Aligned_cols=18 Identities=28% Similarity=0.255 Sum_probs=15.1
Q ss_pred CcEEEeccCCCchHHHHH
Q 028887 108 RDCILHAQTGSGKTLTYL 125 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l 125 (202)
..++++||+|+|||....
T Consensus 31 ~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 468999999999996654
No 485
>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=72.15 E-value=2.6 Score=38.67 Aligned_cols=18 Identities=33% Similarity=0.527 Sum_probs=15.3
Q ss_pred CCcEEEeccCCCchHHHH
Q 028887 107 SRDCILHAQTGSGKTLTY 124 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~ 124 (202)
.+.++++||+|+|||...
T Consensus 216 p~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CcceEEECCCCCcHHHHH
Confidence 367999999999999753
No 486
>CHL00195 ycf46 Ycf46; Provisional
Probab=72.15 E-value=2.7 Score=38.36 Aligned_cols=17 Identities=41% Similarity=0.597 Sum_probs=15.1
Q ss_pred CcEEEeccCCCchHHHH
Q 028887 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
+.++++||+|+|||+..
T Consensus 260 kGILL~GPpGTGKTllA 276 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA 276 (489)
T ss_pred ceEEEECCCCCcHHHHH
Confidence 56999999999999765
No 487
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=72.11 E-value=5.3 Score=38.45 Aligned_cols=17 Identities=35% Similarity=0.485 Sum_probs=15.0
Q ss_pred CcEEEeccCCCchHHHH
Q 028887 108 RDCILHAQTGSGKTLTY 124 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~ 124 (202)
..++++||+|+|||+..
T Consensus 706 SGILLYGPPGTGKTLlA 722 (953)
T KOG0736|consen 706 SGILLYGPPGTGKTLLA 722 (953)
T ss_pred ceeEEECCCCCchHHHH
Confidence 45999999999999875
No 488
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=72.02 E-value=16 Score=33.09 Aligned_cols=58 Identities=14% Similarity=0.158 Sum_probs=44.6
Q ss_pred CcEEEeccCCCchHHHHHHHHHHHH-HhcCCccEEEEecCCHHhHHHHHHHHHHhhcCC
Q 028887 108 RDCILHAQTGSGKTLTYLLLIFSLV-NAQRSAVQAVIVVPTRELGMQVTKVARVLAAKP 165 (202)
Q Consensus 108 ~~~l~~a~TGsGKT~~~l~~~l~~l-~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~~ 165 (202)
+.+++.-+-|.|||.....-.+..+ ..+..+.++++.+++++.|..+++.++.+....
T Consensus 23 ~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~~ 81 (477)
T PF03354_consen 23 REVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEAS 81 (477)
T ss_pred EEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHhC
Confidence 3578888999999987655444333 334456689999999999999999999888764
No 489
>PRK06904 replicative DNA helicase; Validated
Probab=71.97 E-value=19 Score=32.73 Aligned_cols=50 Identities=18% Similarity=0.064 Sum_probs=29.1
Q ss_pred HcCCcEEEeccCCCchHHHHHHHHHHHHHh-cCCccEEEEecCCHHhHHHHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLLLIFSLVNA-QRSAVQAVIVVPTRELGMQVTKVA 158 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~-~~~~~~~Lil~Ptr~La~Q~~~~~ 158 (202)
..|.-+++.|.+|.|||...+--+.+.... +. .+++.+.+ .-..|+..++
T Consensus 219 ~~G~LiiIaarPg~GKTafalnia~~~a~~~g~---~Vl~fSlE-Ms~~ql~~Rl 269 (472)
T PRK06904 219 QPSDLIIVAARPSMGKTTFAMNLCENAAMASEK---PVLVFSLE-MPAEQIMMRM 269 (472)
T ss_pred CCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCC---eEEEEecc-CCHHHHHHHH
Confidence 345568889999999997554333333322 33 57777654 3344444443
No 490
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=71.97 E-value=2.7 Score=32.85 Aligned_cols=22 Identities=18% Similarity=0.074 Sum_probs=18.0
Q ss_pred HcCCcEEEeccCCCchHHHHHH
Q 028887 105 FSSRDCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 105 ~~g~~~l~~a~TGsGKT~~~l~ 126 (202)
..|.-+.+.||+|+|||..+-+
T Consensus 19 ~~G~~~~l~G~nG~GKSTLl~~ 40 (176)
T cd03238 19 PLNVLVVVTGVSGSGKSTLVNE 40 (176)
T ss_pred cCCCEEEEECCCCCCHHHHHHH
Confidence 4567789999999999987643
No 491
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=71.82 E-value=2.6 Score=29.84 Aligned_cols=17 Identities=18% Similarity=0.091 Sum_probs=13.9
Q ss_pred EEEeccCCCchHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
+.+.|++|.|||...-.
T Consensus 1 I~i~G~~G~GKS~l~~~ 17 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKE 17 (107)
T ss_pred CEEECCCCCCHHHHHHH
Confidence 46899999999987544
No 492
>PRK12608 transcription termination factor Rho; Provisional
Probab=71.80 E-value=6.7 Score=34.61 Aligned_cols=40 Identities=20% Similarity=0.268 Sum_probs=27.8
Q ss_pred HHHHHHHHhHH---cCCcEEEeccCCCchHHHHHHHHHHHHHhc
Q 028887 95 DIQREALPVLF---SSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 95 ~~Q~~~i~~i~---~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~ 135 (202)
.+-.++|+.+. .|+..++.|+.|+|||.... -+++.+..+
T Consensus 118 ~~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~-~la~~i~~~ 160 (380)
T PRK12608 118 DLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQ-QIAAAVAAN 160 (380)
T ss_pred chhHhhhhheeecCCCceEEEECCCCCCHHHHHH-HHHHHHHhc
Confidence 45555776654 67899999999999997643 344555443
No 493
>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=71.65 E-value=3.5 Score=35.25 Aligned_cols=25 Identities=32% Similarity=0.363 Sum_probs=18.9
Q ss_pred HHHhHHcCCc--EEEeccCCCchHHHH
Q 028887 100 ALPVLFSSRD--CILHAQTGSGKTLTY 124 (202)
Q Consensus 100 ~i~~i~~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 3445567765 788999999999765
No 494
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=71.46 E-value=6.1 Score=38.25 Aligned_cols=38 Identities=16% Similarity=0.215 Sum_probs=23.1
Q ss_pred cEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCH
Q 028887 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTR 148 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr 148 (202)
+.+|.|+||+|||..--.-+.+.... .+.+++++=+.+
T Consensus 443 n~~I~G~tGsGKS~l~~~l~~~~~~~--~g~~v~i~D~~~ 480 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLALMALQFRRY--PGAQVFAFDFGG 480 (811)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhhc--CCCeEEEEeCCC
Confidence 68899999999997765533333321 122455554544
No 495
>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=71.31 E-value=3.1 Score=30.89 Aligned_cols=17 Identities=24% Similarity=0.286 Sum_probs=14.0
Q ss_pred EEEeccCCCchHHHHHH
Q 028887 110 CILHAQTGSGKTLTYLL 126 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l~ 126 (202)
+++.|++|+|||...-.
T Consensus 2 i~l~G~~GsGKST~a~~ 18 (150)
T cd02021 2 IVVMGVSGSGKSTVGKA 18 (150)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 57899999999977543
No 496
>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=71.28 E-value=3.1 Score=32.01 Aligned_cols=16 Identities=25% Similarity=0.314 Sum_probs=13.5
Q ss_pred EEEeccCCCchHHHHH
Q 028887 110 CILHAQTGSGKTLTYL 125 (202)
Q Consensus 110 ~l~~a~TGsGKT~~~l 125 (202)
+++.|++|||||...-
T Consensus 2 i~i~G~pGsGKst~a~ 17 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCA 17 (183)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6889999999998643
No 497
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=71.26 E-value=8.2 Score=33.54 Aligned_cols=44 Identities=16% Similarity=-0.011 Sum_probs=37.1
Q ss_pred CCcHHHHHHHHhHHcCCcEEEeccCCCchHHHHHHHHHHHHHhc
Q 028887 92 LPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135 (202)
Q Consensus 92 ~~t~~Q~~~i~~i~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~ 135 (202)
--|+.|..-+..+....-++..||-|+|||........+.+..+
T Consensus 128 ~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~ 171 (348)
T COG1702 128 PKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAG 171 (348)
T ss_pred ecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhhc
Confidence 45899999998888888889999999999988887777777654
No 498
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=71.25 E-value=57 Score=31.32 Aligned_cols=70 Identities=7% Similarity=0.175 Sum_probs=50.4
Q ss_pred CcHHHHHHHHhH---HcCCcEEEeccCCCchHHHHHHHHHHHHHhcCCccEEEEecCCHHhHHHHHHHHHHhhcC
Q 028887 93 PTDIQREALPVL---FSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLAAK 164 (202)
Q Consensus 93 ~t~~Q~~~i~~i---~~g~~~l~~a~TGsGKT~~~l~~~l~~l~~~~~~~~~Lil~Ptr~La~Q~~~~~~~l~~~ 164 (202)
|+|.=.+=|..+ +..+-.++.+|-|.|||.+..+.+...+.. .+.+++|.+|...-+.++++++......
T Consensus 170 ~~~~~~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f--~Gi~IlvTAH~~~ts~evF~rv~~~le~ 242 (752)
T PHA03333 170 PSPRTLREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISF--LEIDIVVQAQRKTMCLTLYNRVETVVHA 242 (752)
T ss_pred CChhhHHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHh--cCCeEEEECCChhhHHHHHHHHHHHHHH
Confidence 444433444443 456778889999999999876655544432 2358999999999999999998887763
No 499
>PHA00729 NTP-binding motif containing protein
Probab=71.17 E-value=3.1 Score=34.02 Aligned_cols=18 Identities=33% Similarity=0.490 Sum_probs=15.2
Q ss_pred cEEEeccCCCchHHHHHH
Q 028887 109 DCILHAQTGSGKTLTYLL 126 (202)
Q Consensus 109 ~~l~~a~TGsGKT~~~l~ 126 (202)
++++.|++|+|||.....
T Consensus 19 nIlItG~pGvGKT~LA~a 36 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALK 36 (226)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 699999999999966544
No 500
>PLN02748 tRNA dimethylallyltransferase
Probab=71.15 E-value=3.3 Score=37.55 Aligned_cols=21 Identities=29% Similarity=0.376 Sum_probs=16.8
Q ss_pred CCcEEEeccCCCchHHHHHHH
Q 028887 107 SRDCILHAQTGSGKTLTYLLL 127 (202)
Q Consensus 107 g~~~l~~a~TGsGKT~~~l~~ 127 (202)
++-+++.||||+|||...+..
T Consensus 22 ~~~i~i~GptgsGKs~la~~l 42 (468)
T PLN02748 22 AKVVVVMGPTGSGKSKLAVDL 42 (468)
T ss_pred CCEEEEECCCCCCHHHHHHHH
Confidence 345899999999999877643
Done!