Query psy3462
Match_columns 795
No_of_seqs 665 out of 2859
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 17:20:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3462.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3462hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1131|consensus 100.0 4.2E-56 9E-61 487.7 15.6 355 235-693 1-726 (755)
2 KOG1133|consensus 100.0 3.1E-54 6.6E-59 485.0 19.8 153 535-690 641-818 (821)
3 TIGR00604 rad3 DNA repair heli 100.0 1.8E-48 4E-53 453.3 21.2 130 551-680 550-703 (705)
4 KOG1132|consensus 100.0 1.4E-47 3E-52 440.1 16.7 206 237-528 8-219 (945)
5 COG1199 DinG Rad3-related DNA 100.0 1.9E-26 4.1E-31 265.9 29.0 139 533-679 489-645 (654)
6 PTZ00193 60S ribosomal protein 99.9 1.4E-27 3E-32 233.8 7.0 79 116-194 76-154 (188)
7 PRK11747 dinG ATP-dependent DN 99.9 2E-25 4.2E-30 260.9 19.0 102 242-361 17-129 (697)
8 PF01198 Ribosomal_L31e: Ribos 99.9 1.2E-26 2.6E-31 205.5 6.2 74 121-195 1-74 (83)
9 PRK08074 bifunctional ATP-depe 99.9 1.7E-24 3.7E-29 259.8 26.1 130 557-686 782-928 (928)
10 PRK01192 50S ribosomal protein 99.9 6.6E-26 1.4E-30 203.1 7.5 73 121-194 3-77 (89)
11 smart00488 DEXDc2 DEAD-like he 99.9 4.7E-25 1E-29 233.5 10.9 195 243-528 2-208 (289)
12 smart00489 DEXDc3 DEAD-like he 99.9 4.7E-25 1E-29 233.5 10.9 195 243-528 2-208 (289)
13 TIGR01407 dinG_rel DnaQ family 99.9 9.7E-24 2.1E-28 251.3 20.3 130 556-686 703-850 (850)
14 KOG0893|consensus 99.9 2E-25 4.3E-30 210.6 4.4 82 113-194 9-90 (125)
15 COG2097 RPL31A Ribosomal prote 99.9 2.1E-23 4.6E-28 185.7 7.7 72 122-194 5-76 (89)
16 smart00491 HELICc2 helicase su 99.9 3.8E-23 8.3E-28 198.9 8.9 118 534-654 2-142 (142)
17 PRK07246 bifunctional ATP-depe 99.9 1.4E-21 3E-26 232.3 20.5 99 588-686 714-819 (820)
18 PF13307 Helicase_C_2: Helicas 99.9 4.9E-22 1.1E-26 194.4 6.2 129 534-668 20-167 (167)
19 smart00492 HELICc3 helicase su 99.8 1.8E-21 3.9E-26 187.3 9.0 120 534-653 2-140 (141)
20 smart00488 DEXDc2 DEAD-like he 99.5 6.9E-15 1.5E-19 156.3 8.0 54 16-69 4-57 (289)
21 smart00489 DEXDc3 DEAD-like he 99.5 6.9E-15 1.5E-19 156.3 8.0 54 16-69 4-57 (289)
22 TIGR00604 rad3 DNA repair heli 99.5 1.3E-14 2.8E-19 170.6 7.5 68 17-99 6-74 (705)
23 KOG1133|consensus 99.5 6.5E-14 1.4E-18 160.5 8.8 54 14-67 9-62 (821)
24 KOG1132|consensus 99.4 4.2E-13 9.2E-18 157.1 5.7 154 535-689 573-759 (945)
25 COG1199 DinG Rad3-related DNA 99.3 2.7E-12 5.8E-17 149.1 5.6 91 242-355 7-108 (654)
26 PRK11747 dinG ATP-dependent DN 99.2 7.1E-12 1.5E-16 147.7 7.0 67 4-70 9-80 (697)
27 TIGR03117 cas_csf4 CRISPR-asso 99.1 2E-10 4.3E-15 134.1 8.7 84 253-360 1-96 (636)
28 PRK08074 bifunctional ATP-depe 99.0 2.7E-10 5.9E-15 138.2 6.4 58 11-68 248-305 (928)
29 TIGR01407 dinG_rel DnaQ family 98.8 7.6E-09 1.6E-13 124.7 7.2 57 8-65 234-290 (850)
30 KOG1131|consensus 98.7 1E-08 2.2E-13 115.7 5.6 71 12-96 4-78 (755)
31 PF06733 DEAD_2: DEAD_2; Inte 98.6 4.7E-09 1E-13 103.2 -0.2 115 365-534 1-122 (174)
32 PRK07246 bifunctional ATP-depe 98.6 3.2E-08 7E-13 119.1 6.6 50 15-64 240-289 (820)
33 TIGR03117 cas_csf4 CRISPR-asso 98.6 7.3E-08 1.6E-12 113.0 7.1 103 556-661 496-625 (636)
34 cd00268 DEADc DEAD-box helicas 98.2 4.2E-06 9.2E-11 82.6 9.2 72 7-96 9-80 (203)
35 PRK11192 ATP-dependent RNA hel 98.2 4.1E-06 8.9E-11 93.2 8.9 71 10-95 13-83 (434)
36 PRK04837 ATP-dependent RNA hel 98.1 4.8E-06 1E-10 92.5 7.4 53 9-66 20-72 (423)
37 PRK10590 ATP-dependent RNA hel 98.1 6.5E-06 1.4E-10 92.8 7.5 52 11-66 14-65 (456)
38 PTZ00110 helicase; Provisional 98.1 9.1E-06 2E-10 94.0 8.6 52 11-66 143-194 (545)
39 PLN00206 DEAD-box ATP-dependen 98.1 6.2E-06 1.3E-10 94.7 6.9 49 13-65 136-184 (518)
40 PRK11776 ATP-dependent RNA hel 98.0 7.3E-06 1.6E-10 92.1 6.2 49 13-65 19-67 (460)
41 PRK04537 ATP-dependent RNA hel 98.0 1.6E-05 3.4E-10 92.7 8.7 52 11-66 22-73 (572)
42 TIGR03817 DECH_helic helicase/ 98.0 1.1E-05 2.4E-10 96.6 7.6 53 10-66 26-78 (742)
43 PRK01297 ATP-dependent RNA hel 98.0 1.3E-05 2.7E-10 90.7 7.5 53 10-66 99-151 (475)
44 PTZ00424 helicase 45; Provisio 98.0 1.5E-05 3.2E-10 87.1 7.5 54 7-65 38-91 (401)
45 KOG0345|consensus 97.9 1.1E-05 2.3E-10 91.1 5.7 58 7-68 15-72 (567)
46 COG0513 SrmB Superfamily II DN 97.9 2.5E-05 5.4E-10 90.0 7.6 57 5-66 37-93 (513)
47 TIGR00614 recQ_fam ATP-depende 97.8 1.9E-05 4.2E-10 89.4 6.0 43 16-62 7-49 (470)
48 PF00270 DEAD: DEAD/DEAH box h 97.8 2.5E-05 5.5E-10 74.2 5.6 42 22-67 1-42 (169)
49 PRK11634 ATP-dependent RNA hel 97.8 3.2E-05 6.8E-10 91.3 6.8 54 7-65 16-69 (629)
50 KOG0348|consensus 97.8 1.9E-05 4E-10 90.4 4.3 58 11-72 150-207 (708)
51 PF04851 ResIII: Type III rest 97.7 5E-05 1.1E-09 72.4 5.5 45 19-63 2-49 (184)
52 TIGR01389 recQ ATP-dependent D 97.7 5.8E-05 1.3E-09 87.8 6.3 43 16-62 9-51 (591)
53 PRK11057 ATP-dependent DNA hel 97.6 8.2E-05 1.8E-09 87.3 6.7 42 17-62 22-63 (607)
54 PRK13767 ATP-dependent helicas 97.5 0.00013 2.9E-09 89.0 7.4 45 18-66 30-74 (876)
55 COG1201 Lhr Lhr-like helicases 97.5 0.00014 2.9E-09 87.8 6.9 47 18-68 20-66 (814)
56 KOG0331|consensus 97.5 6.7E-05 1.5E-09 86.4 4.1 49 15-67 108-156 (519)
57 PRK02362 ski2-like helicase; P 97.5 0.0002 4.2E-09 85.8 8.1 51 11-64 14-64 (737)
58 KOG0342|consensus 97.5 7.6E-05 1.7E-09 84.8 3.4 72 7-94 92-163 (543)
59 PRK10917 ATP-dependent DNA hel 97.5 0.00024 5.3E-09 84.5 7.8 86 242-352 254-348 (681)
60 PF04851 ResIII: Type III rest 97.4 0.00014 3.1E-09 69.3 4.7 44 248-311 2-45 (184)
61 cd00268 DEADc DEAD-box helicas 97.4 0.00026 5.7E-09 70.0 6.2 47 246-319 17-64 (203)
62 PRK04837 ATP-dependent RNA hel 97.4 0.0002 4.4E-09 79.7 5.9 45 246-317 26-71 (423)
63 PLN03137 ATP-dependent DNA hel 97.4 0.0002 4.4E-09 88.7 6.3 48 11-62 450-498 (1195)
64 PF00270 DEAD: DEAD/DEAH box h 97.4 0.0002 4.3E-09 68.1 4.4 29 291-319 14-42 (169)
65 COG1205 Distinct helicase fami 97.3 0.00026 5.6E-09 86.3 6.4 56 10-70 61-116 (851)
66 KOG0348|consensus 97.3 9.7E-05 2.1E-09 84.7 2.5 40 282-321 165-204 (708)
67 PLN00206 DEAD-box ATP-dependen 97.3 0.00026 5.5E-09 81.6 5.6 45 246-317 139-184 (518)
68 TIGR00614 recQ_fam ATP-depende 97.3 0.00024 5.3E-09 80.6 5.3 44 244-314 5-49 (470)
69 smart00487 DEXDc DEAD-like hel 97.3 0.00036 7.7E-09 65.9 5.5 48 16-66 4-51 (201)
70 TIGR00643 recG ATP-dependent D 97.3 0.00074 1.6E-08 79.7 9.3 83 244-351 230-321 (630)
71 KOG0335|consensus 97.3 0.00012 2.5E-09 83.6 2.4 54 13-70 89-142 (482)
72 PTZ00424 helicase 45; Provisio 97.3 0.00031 6.7E-09 76.8 5.6 46 245-317 45-91 (401)
73 KOG0345|consensus 97.2 0.00053 1.1E-08 77.9 6.7 56 283-338 35-106 (567)
74 PRK00254 ski2-like helicase; P 97.2 0.00053 1.2E-08 81.9 7.2 56 7-65 10-65 (720)
75 TIGR00643 recG ATP-dependent D 97.2 0.00068 1.5E-08 80.0 8.0 58 7-65 223-282 (630)
76 TIGR03817 DECH_helic helicase/ 97.2 0.00068 1.5E-08 81.6 8.1 47 246-319 32-79 (742)
77 PRK10917 ATP-dependent DNA hel 97.2 0.0007 1.5E-08 80.7 8.0 58 7-65 249-308 (681)
78 TIGR00580 mfd transcription-re 97.2 0.001 2.2E-08 81.9 9.5 56 245-321 447-502 (926)
79 PRK10590 ATP-dependent RNA hel 97.2 0.00038 8.3E-09 78.6 5.5 46 246-318 19-65 (456)
80 PRK01172 ski2-like helicase; P 97.2 0.0005 1.1E-08 81.4 6.4 49 11-64 14-62 (674)
81 PRK11192 ATP-dependent RNA hel 97.1 0.00053 1.1E-08 76.5 5.6 46 246-318 19-65 (434)
82 PRK01297 ATP-dependent RNA hel 97.1 0.00068 1.5E-08 76.9 5.9 46 246-318 105-151 (475)
83 TIGR01389 recQ ATP-dependent D 97.1 0.00057 1.2E-08 79.7 5.3 43 245-314 8-51 (591)
84 PRK11776 ATP-dependent RNA hel 97.1 0.00069 1.5E-08 76.3 5.5 45 246-317 22-67 (460)
85 PRK11057 ATP-dependent DNA hel 97.0 0.00071 1.5E-08 79.5 5.2 43 245-314 20-63 (607)
86 PRK04537 ATP-dependent RNA hel 97.0 0.00085 1.8E-08 78.5 5.7 45 246-317 27-72 (572)
87 PTZ00110 helicase; Provisional 97.0 0.00088 1.9E-08 77.9 5.5 45 246-317 148-193 (545)
88 KOG0344|consensus 96.9 0.00076 1.6E-08 78.2 4.7 52 13-68 151-202 (593)
89 KOG0331|consensus 96.9 0.00042 9.2E-09 80.0 2.2 35 285-319 122-156 (519)
90 TIGR00580 mfd transcription-re 96.9 0.0019 4.2E-08 79.5 7.9 58 6-64 438-497 (926)
91 KOG0330|consensus 96.9 0.00078 1.7E-08 75.2 3.6 48 15-66 78-125 (476)
92 PRK11634 ATP-dependent RNA hel 96.8 0.0019 4.2E-08 76.5 7.0 46 246-318 24-70 (629)
93 PRK12899 secA preprotein trans 96.8 0.0018 4E-08 79.1 6.7 46 16-65 85-133 (970)
94 KOG0346|consensus 96.8 0.0016 3.5E-08 73.7 5.5 54 10-68 32-85 (569)
95 TIGR02621 cas3_GSU0051 CRISPR- 96.7 0.0014 3E-08 79.7 4.5 50 9-62 4-54 (844)
96 PLN03137 ATP-dependent DNA hel 96.7 0.0019 4E-08 80.5 5.3 33 282-314 466-498 (1195)
97 PRK09694 helicase Cas3; Provis 96.7 0.0023 5.1E-08 78.4 6.1 58 18-95 284-341 (878)
98 KOG0333|consensus 96.7 0.0015 3.3E-08 75.2 4.1 57 7-68 255-311 (673)
99 smart00487 DEXDc DEAD-like hel 96.6 0.003 6.6E-08 59.7 5.5 47 246-318 5-51 (201)
100 PRK13767 ATP-dependent helicas 96.6 0.0026 5.5E-08 78.1 5.8 42 249-317 32-73 (876)
101 PRK09401 reverse gyrase; Revie 96.5 0.0043 9.2E-08 78.3 7.0 50 11-65 71-120 (1176)
102 PRK01172 ski2-like helicase; P 96.5 0.005 1.1E-07 73.1 7.1 49 246-321 19-67 (674)
103 PRK02362 ski2-like helicase; P 96.4 0.0072 1.6E-07 72.6 8.3 72 249-350 23-102 (737)
104 KOG0350|consensus 96.4 0.0023 4.9E-08 73.4 3.7 51 16-66 155-210 (620)
105 PRK14701 reverse gyrase; Provi 96.4 0.0048 1E-07 79.9 6.7 52 9-64 68-119 (1638)
106 COG1201 Lhr Lhr-like helicases 96.4 0.0043 9.3E-08 75.3 5.7 44 249-319 22-65 (814)
107 TIGR01054 rgy reverse gyrase. 96.3 0.0047 1E-07 78.0 5.9 52 9-65 67-118 (1171)
108 KOG0330|consensus 96.3 0.005 1.1E-07 69.0 5.5 47 284-330 91-148 (476)
109 KOG0338|consensus 96.3 0.0032 6.9E-08 72.5 3.7 54 5-63 189-242 (691)
110 KOG0336|consensus 96.2 0.0019 4.2E-08 72.5 1.8 62 17-91 239-300 (629)
111 COG0513 SrmB Superfamily II DN 96.2 0.004 8.6E-08 72.1 4.3 35 283-317 58-92 (513)
112 PRK10689 transcription-repair 96.2 0.0092 2E-07 75.3 7.6 56 244-320 595-650 (1147)
113 KOG0340|consensus 96.1 0.0041 8.9E-08 69.0 3.4 61 6-70 15-75 (442)
114 TIGR03158 cas3_cyano CRISPR-as 96.0 0.0063 1.4E-07 67.1 4.5 32 30-61 3-36 (357)
115 PRK10689 transcription-repair 96.0 0.012 2.6E-07 74.2 7.5 57 6-63 587-645 (1147)
116 COG1204 Superfamily II helicas 96.0 0.0084 1.8E-07 72.7 5.9 60 5-67 16-75 (766)
117 PRK12899 secA preprotein trans 96.0 0.0075 1.6E-07 74.0 5.2 47 244-317 87-133 (970)
118 KOG0343|consensus 95.9 0.0037 8E-08 72.5 2.2 57 6-67 78-134 (758)
119 KOG0347|consensus 95.9 0.0034 7.4E-08 72.7 1.9 59 6-69 190-249 (731)
120 KOG0350|consensus 95.9 0.0062 1.3E-07 70.0 3.9 29 291-319 183-211 (620)
121 PRK12898 secA preprotein trans 95.9 0.0082 1.8E-07 71.6 5.0 44 16-65 99-142 (656)
122 COG1205 Distinct helicase fami 95.9 0.019 4.1E-07 70.5 8.1 73 250-351 71-154 (851)
123 KOG0335|consensus 95.9 0.0057 1.2E-07 70.2 3.3 36 285-320 105-140 (482)
124 PRK09694 helicase Cas3; Provis 95.8 0.022 4.8E-07 70.1 8.2 79 247-353 284-372 (878)
125 PRK00254 ski2-like helicase; P 95.8 0.022 4.7E-07 68.4 8.0 47 246-318 19-66 (720)
126 KOG0334|consensus 95.8 0.0064 1.4E-07 74.5 3.4 55 6-65 374-428 (997)
127 PHA02653 RNA helicase NPH-II; 95.8 0.011 2.3E-07 71.0 5.1 54 12-65 149-214 (675)
128 COG0514 RecQ Superfamily II DN 95.7 0.0092 2E-07 70.3 4.3 42 18-63 15-56 (590)
129 TIGR03714 secA2 accessory Sec 95.7 0.011 2.3E-07 71.6 4.9 42 18-65 68-109 (762)
130 PRK14701 reverse gyrase; Provi 95.7 0.026 5.7E-07 73.4 8.3 78 246-351 76-161 (1638)
131 KOG0334|consensus 95.6 0.77 1.7E-05 57.1 19.9 32 282-313 393-424 (997)
132 PRK11664 ATP-dependent RNA hel 95.5 0.015 3.3E-07 71.1 5.2 37 27-63 8-44 (812)
133 KOG0344|consensus 95.5 0.018 3.8E-07 67.3 5.3 38 283-320 165-202 (593)
134 PRK09200 preprotein translocas 95.5 0.017 3.6E-07 70.4 5.3 42 18-65 76-117 (790)
135 TIGR01587 cas3_core CRISPR-ass 95.4 0.013 2.7E-07 63.6 3.7 23 41-63 1-23 (358)
136 PRK05580 primosome assembly pr 95.4 0.024 5.2E-07 68.0 6.2 46 18-64 142-187 (679)
137 KOG0339|consensus 95.3 0.012 2.7E-07 67.8 3.5 73 7-94 233-305 (731)
138 TIGR00963 secA preprotein tran 95.3 0.016 3.5E-07 69.9 4.5 43 17-65 53-95 (745)
139 cd00046 DEXDc DEAD-like helica 95.2 0.03 6.5E-07 49.7 4.9 26 40-65 1-26 (144)
140 KOG0342|consensus 95.2 0.0091 2E-07 68.5 1.8 36 285-320 113-148 (543)
141 PRK05580 primosome assembly pr 95.0 0.042 9.2E-07 65.9 6.9 61 245-329 140-208 (679)
142 PRK09401 reverse gyrase; Revie 95.0 0.039 8.5E-07 69.9 6.8 57 246-330 77-142 (1176)
143 TIGR01970 DEAH_box_HrpB ATP-de 94.9 0.029 6.3E-07 68.7 5.2 38 27-64 5-42 (819)
144 KOG0333|consensus 94.9 0.041 9E-07 63.9 6.1 30 291-320 282-311 (673)
145 TIGR02621 cas3_GSU0051 CRISPR- 94.9 0.022 4.8E-07 69.7 4.1 40 247-313 13-53 (844)
146 TIGR03158 cas3_cyano CRISPR-as 94.7 0.026 5.6E-07 62.4 3.8 23 292-314 15-37 (357)
147 KOG0346|consensus 94.7 0.023 5.1E-07 64.7 3.3 38 284-321 49-86 (569)
148 PRK11448 hsdR type I restricti 94.5 0.069 1.5E-06 67.5 7.2 45 245-311 409-453 (1123)
149 PHA02558 uvsW UvsW helicase; P 94.5 0.054 1.2E-06 62.5 5.8 36 18-57 112-147 (501)
150 TIGR02640 gas_vesic_GvpN gas v 94.5 0.052 1.1E-06 57.5 5.1 36 19-54 1-36 (262)
151 TIGR01587 cas3_core CRISPR-ass 94.4 0.041 8.9E-07 59.7 4.3 25 294-318 2-26 (358)
152 PF13086 AAA_11: AAA domain; P 94.3 0.085 1.8E-06 52.2 6.0 59 31-99 9-67 (236)
153 KOG0326|consensus 94.3 0.0056 1.2E-07 67.3 -2.5 53 17-73 104-156 (459)
154 PRK13766 Hef nuclease; Provisi 94.3 0.043 9.3E-07 66.1 4.6 43 17-64 12-54 (773)
155 PRK12898 secA preprotein trans 94.1 0.064 1.4E-06 64.2 5.5 46 245-319 99-144 (656)
156 KOG0337|consensus 94.1 0.032 7E-07 63.3 2.7 56 8-68 32-87 (529)
157 PRK12904 preprotein translocas 94.0 0.041 8.8E-07 67.3 3.7 42 17-64 78-119 (830)
158 cd00046 DEXDc DEAD-like helica 94.0 0.052 1.1E-06 48.1 3.5 24 293-316 2-25 (144)
159 TIGR01054 rgy reverse gyrase. 94.0 0.09 1.9E-06 66.8 6.6 44 247-318 76-119 (1171)
160 PRK13104 secA preprotein trans 93.9 0.046 1E-06 67.2 3.9 43 17-65 79-121 (896)
161 PHA02558 uvsW UvsW helicase; P 93.9 0.12 2.6E-06 59.8 6.8 37 247-310 112-148 (501)
162 COG1061 SSL2 DNA or RNA helica 93.6 0.096 2.1E-06 59.8 5.5 41 17-57 33-73 (442)
163 PRK11448 hsdR type I restricti 93.5 0.11 2.5E-06 65.6 6.4 39 19-57 412-451 (1123)
164 PF02562 PhoH: PhoH-like prote 93.4 0.11 2.3E-06 54.2 5.0 39 23-65 7-45 (205)
165 KOG0352|consensus 93.3 0.084 1.8E-06 60.2 4.4 55 4-63 6-60 (641)
166 TIGR03714 secA2 accessory Sec 93.1 0.06 1.3E-06 65.4 3.1 25 294-318 86-110 (762)
167 PRK11664 ATP-dependent RNA hel 93.1 0.071 1.5E-06 65.4 3.6 32 284-315 13-44 (812)
168 KOG0343|consensus 93.1 0.056 1.2E-06 63.2 2.6 35 285-319 100-134 (758)
169 KOG0952|consensus 93.1 0.098 2.1E-06 64.8 4.6 57 30-94 116-173 (1230)
170 COG0514 RecQ Superfamily II DN 93.0 0.078 1.7E-06 62.8 3.7 46 243-315 10-56 (590)
171 PRK13766 Hef nuclease; Provisi 92.6 0.23 5.1E-06 59.9 7.0 44 246-317 12-55 (773)
172 KOG0327|consensus 92.5 0.12 2.6E-06 58.2 4.1 53 17-73 45-97 (397)
173 TIGR01970 DEAH_box_HrpB ATP-de 91.9 0.13 2.8E-06 63.2 3.8 33 284-316 10-42 (819)
174 PRK13107 preprotein translocas 91.9 0.12 2.5E-06 63.8 3.4 43 17-65 79-121 (908)
175 cd00009 AAA The AAA+ (ATPases 91.9 0.16 3.5E-06 45.5 3.5 30 24-53 2-33 (151)
176 PHA02653 RNA helicase NPH-II; 91.9 0.1 2.2E-06 62.8 2.8 44 250-316 161-213 (675)
177 TIGR00348 hsdR type I site-spe 91.6 0.21 4.6E-06 59.9 5.0 41 20-60 238-284 (667)
178 TIGR00348 hsdR type I site-spe 91.6 0.27 5.9E-06 59.0 5.9 64 250-330 239-312 (667)
179 COG1203 CRISPR-associated heli 91.1 0.24 5.2E-06 60.1 4.9 46 21-66 196-241 (733)
180 PF13604 AAA_30: AAA domain; P 91.1 0.59 1.3E-05 47.6 6.9 57 22-99 3-60 (196)
181 COG1061 SSL2 DNA or RNA helica 91.0 0.32 6.9E-06 55.6 5.5 45 244-311 31-75 (442)
182 PRK15483 type III restriction- 91.0 0.35 7.5E-06 60.4 6.1 72 246-319 3-87 (986)
183 PRK09751 putative ATP-dependen 90.9 0.13 2.8E-06 66.7 2.4 23 44-66 1-23 (1490)
184 PF13245 AAA_19: Part of AAA d 90.6 0.37 8.1E-06 42.4 4.3 55 31-99 2-56 (76)
185 TIGR00963 secA preprotein tran 90.6 0.29 6.3E-06 59.5 4.8 57 295-351 73-134 (745)
186 PRK09200 preprotein translocas 90.3 0.31 6.6E-06 59.8 4.8 25 295-319 95-119 (790)
187 TIGR02640 gas_vesic_GvpN gas v 90.3 0.34 7.4E-06 51.4 4.6 18 290-307 20-37 (262)
188 PRK13104 secA preprotein trans 90.0 0.29 6.2E-06 60.5 4.2 26 294-319 98-123 (896)
189 COG1204 Superfamily II helicas 89.9 0.47 1E-05 58.1 5.9 58 291-352 47-113 (766)
190 PF13086 AAA_11: AAA domain; P 89.9 0.4 8.6E-06 47.4 4.4 23 293-316 19-41 (236)
191 PF13245 AAA_19: Part of AAA d 89.8 0.41 9E-06 42.1 4.0 29 288-316 7-35 (76)
192 KOG0354|consensus 89.6 0.4 8.8E-06 58.1 4.9 46 17-67 59-104 (746)
193 PF02562 PhoH: PhoH-like prote 89.5 0.58 1.3E-05 48.8 5.4 28 291-318 19-46 (205)
194 KOG0349|consensus 89.1 0.19 4.1E-06 57.5 1.6 80 13-103 17-96 (725)
195 PF01695 IstB_IS21: IstB-like 88.9 0.39 8.4E-06 48.4 3.5 38 23-62 29-68 (178)
196 PRK10536 hypothetical protein; 88.7 0.84 1.8E-05 49.4 6.1 38 20-61 58-96 (262)
197 PRK13531 regulatory ATPase Rav 88.7 0.34 7.4E-06 56.5 3.4 47 6-54 8-54 (498)
198 PF01695 IstB_IS21: IstB-like 88.4 0.49 1.1E-05 47.7 3.9 25 288-314 44-68 (178)
199 cd00009 AAA The AAA+ (ATPases 88.3 0.47 1E-05 42.5 3.4 16 291-306 19-34 (151)
200 KOG0341|consensus 88.3 0.13 2.8E-06 58.1 -0.3 51 16-70 188-238 (610)
201 COG0714 MoxR-like ATPases [Gen 88.0 0.47 1E-05 51.7 3.8 30 24-53 28-57 (329)
202 PRK15483 type III restriction- 87.6 0.8 1.7E-05 57.3 5.8 28 40-67 60-87 (986)
203 KOG0351|consensus 87.5 0.2 4.3E-06 62.3 0.6 41 20-64 264-304 (941)
204 KOG0354|consensus 87.4 0.58 1.3E-05 56.8 4.3 46 248-321 61-106 (746)
205 PRK13894 conjugal transfer ATP 87.1 0.88 1.9E-05 50.2 5.2 33 29-62 138-170 (319)
206 PRK12906 secA preprotein trans 86.7 0.7 1.5E-05 56.7 4.5 45 16-66 76-120 (796)
207 TIGR00603 rad25 DNA repair hel 86.3 0.95 2.1E-05 55.2 5.3 39 18-59 253-293 (732)
208 KOG0353|consensus 86.2 0.68 1.5E-05 52.4 3.7 38 21-62 95-132 (695)
209 KOG0328|consensus 86.1 0.14 3E-06 56.0 -1.5 60 9-73 39-98 (400)
210 smart00382 AAA ATPases associa 86.0 0.68 1.5E-05 40.8 3.0 18 291-308 2-19 (148)
211 PRK06835 DNA replication prote 85.9 1.2 2.5E-05 49.6 5.4 17 38-54 182-198 (329)
212 COG4581 Superfamily II RNA hel 85.8 0.92 2E-05 57.0 4.9 140 17-191 116-265 (1041)
213 COG1474 CDC6 Cdc6-related prot 85.7 1.1 2.3E-05 50.5 5.0 33 22-54 22-57 (366)
214 KOG0340|consensus 85.7 0.41 9E-06 53.8 1.8 35 285-319 38-72 (442)
215 COG4096 HsdR Type I site-speci 85.6 0.69 1.5E-05 56.6 3.7 37 19-55 164-201 (875)
216 TIGR00376 DNA helicase, putati 85.4 1.2 2.5E-05 53.6 5.5 64 22-106 159-222 (637)
217 KOG4284|consensus 85.4 0.15 3.3E-06 60.7 -1.9 62 4-69 28-92 (980)
218 PRK13833 conjugal transfer pro 85.3 1.3 2.8E-05 49.1 5.4 25 29-53 134-158 (323)
219 PRK13900 type IV secretion sys 85.2 1.2 2.7E-05 49.3 5.2 27 27-53 148-174 (332)
220 PHA02244 ATPase-like protein 85.1 1.3 2.8E-05 50.3 5.3 31 23-53 103-133 (383)
221 PRK12904 preprotein translocas 85.1 0.71 1.5E-05 56.9 3.5 56 294-350 97-158 (830)
222 COG1484 DnaC DNA replication p 85.1 1.6 3.4E-05 46.6 5.7 34 31-66 97-130 (254)
223 KOG0952|consensus 85.1 1.2 2.6E-05 55.8 5.3 47 289-335 124-188 (1230)
224 TIGR03015 pepcterm_ATPase puta 85.0 1.2 2.6E-05 46.2 4.7 36 18-53 21-57 (269)
225 TIGR00595 priA primosomal prot 84.8 0.7 1.5E-05 53.9 3.2 35 295-329 1-43 (505)
226 PRK09751 putative ATP-dependen 84.6 0.5 1.1E-05 61.4 2.1 22 296-317 1-22 (1490)
227 PRK08939 primosomal protein Dn 84.6 1.7 3.7E-05 47.7 5.8 39 24-64 135-179 (306)
228 smart00382 AAA ATPases associa 84.2 0.86 1.9E-05 40.2 2.8 15 39-53 2-16 (148)
229 PLN03025 replication factor C 84.0 1.2 2.7E-05 48.3 4.5 30 24-53 17-48 (319)
230 PHA02244 ATPase-like protein 83.9 2.1 4.5E-05 48.8 6.2 41 243-306 93-134 (383)
231 PF00437 T2SE: Type II/IV secr 83.6 0.99 2.1E-05 47.5 3.4 37 28-65 116-152 (270)
232 PRK12402 replication factor C 83.4 0.98 2.1E-05 48.3 3.4 30 24-53 19-50 (337)
233 COG4889 Predicted helicase [Ge 83.2 1.1 2.5E-05 55.2 4.0 60 226-310 140-199 (1518)
234 PF00580 UvrD-helicase: UvrD/R 83.2 1.4 3E-05 45.9 4.3 24 38-61 12-35 (315)
235 PRK08181 transposase; Validate 83.1 2.6 5.6E-05 45.6 6.4 20 34-53 101-120 (269)
236 KOG0920|consensus 82.8 2.1 4.5E-05 53.4 6.2 97 6-134 159-259 (924)
237 PRK09183 transposase/IS protei 82.8 1.4 3E-05 47.1 4.1 18 36-53 99-116 (259)
238 PRK13407 bchI magnesium chelat 82.6 1.5 3.2E-05 48.9 4.5 35 19-53 7-43 (334)
239 COG1203 CRISPR-associated heli 82.4 1.4 3.1E-05 53.6 4.6 46 249-318 195-241 (733)
240 cd01130 VirB11-like_ATPase Typ 82.3 1.4 3E-05 44.2 3.7 26 28-53 14-39 (186)
241 TIGR02782 TrbB_P P-type conjug 82.3 1.3 2.8E-05 48.4 3.7 26 28-53 121-146 (299)
242 COG4581 Superfamily II RNA hel 82.2 2.1 4.5E-05 54.0 5.9 47 239-312 109-155 (1041)
243 PRK08181 transposase; Validate 82.0 2.9 6.2E-05 45.3 6.2 17 290-306 105-121 (269)
244 KOG0347|consensus 82.0 0.42 9.1E-06 56.2 -0.1 34 281-314 209-242 (731)
245 TIGR00603 rad25 DNA repair hel 82.0 1.8 4E-05 52.8 5.2 41 247-311 253-293 (732)
246 TIGR02688 conserved hypothetic 81.7 3.4 7.3E-05 47.9 6.9 31 23-53 193-223 (449)
247 COG0714 MoxR-like ATPases [Gen 81.6 1.1 2.3E-05 49.1 2.8 18 289-306 41-58 (329)
248 PRK13107 preprotein translocas 81.6 0.97 2.1E-05 56.1 2.7 25 294-318 98-122 (908)
249 PF01078 Mg_chelatase: Magnesi 81.4 1.4 3.1E-05 46.1 3.6 32 23-54 6-37 (206)
250 PRK10536 hypothetical protein; 81.4 1.7 3.7E-05 47.1 4.2 23 291-313 74-96 (262)
251 PRK06526 transposase; Provisio 81.4 1.3 2.9E-05 47.3 3.4 18 289-306 96-113 (254)
252 COG0630 VirB11 Type IV secreto 81.3 2.1 4.5E-05 47.2 4.9 39 27-66 131-169 (312)
253 PRK11131 ATP-dependent RNA hel 81.2 2.2 4.8E-05 55.0 5.7 35 27-63 77-111 (1294)
254 PRK06526 transposase; Provisio 81.1 1.7 3.8E-05 46.4 4.1 21 33-53 92-112 (254)
255 KOG0336|consensus 81.0 0.59 1.3E-05 53.4 0.7 35 284-318 250-284 (629)
256 KOG0349|consensus 81.0 0.94 2E-05 52.2 2.2 37 282-318 30-66 (725)
257 PF13191 AAA_16: AAA ATPase do 81.0 1.2 2.7E-05 42.9 2.8 17 290-306 23-39 (185)
258 PF00158 Sigma54_activat: Sigm 80.6 1.9 4.2E-05 43.2 4.1 28 26-53 9-36 (168)
259 PRK13851 type IV secretion sys 80.3 1.6 3.4E-05 48.8 3.7 26 28-53 151-176 (344)
260 PRK05201 hslU ATP-dependent pr 80.2 2.3 5E-05 49.2 4.9 37 23-59 18-71 (443)
261 COG1110 Reverse gyrase [DNA re 80.1 6.4 0.00014 49.7 8.8 55 8-66 70-124 (1187)
262 PRK13531 regulatory ATPase Rav 79.8 1.3 2.9E-05 51.8 2.9 21 287-307 35-55 (498)
263 PF13191 AAA_16: AAA ATPase do 79.7 2.7 5.9E-05 40.5 4.7 32 22-53 5-38 (185)
264 COG1200 RecG RecG-like helicas 79.5 4.3 9.2E-05 49.2 7.0 301 245-652 258-592 (677)
265 COG1643 HrpA HrpA-like helicas 79.5 1.5 3.2E-05 54.4 3.3 27 27-53 53-79 (845)
266 PRK12377 putative replication 79.3 4 8.7E-05 43.7 6.1 31 23-53 81-115 (248)
267 PF07728 AAA_5: AAA domain (dy 79.1 1.7 3.6E-05 40.9 2.9 14 293-306 1-14 (139)
268 TIGR00595 priA primosomal prot 79.1 1.1 2.3E-05 52.5 1.8 23 623-646 353-375 (505)
269 PRK08116 hypothetical protein; 79.0 3.9 8.3E-05 44.0 5.9 35 19-53 87-128 (268)
270 PRK13407 bchI magnesium chelat 78.8 1.5 3.2E-05 48.9 2.8 40 245-306 4-44 (334)
271 TIGR03420 DnaA_homol_Hda DnaA 78.8 1.9 4.1E-05 43.6 3.4 16 291-306 38-53 (226)
272 COG1219 ClpX ATP-dependent pro 78.5 1.2 2.6E-05 49.8 2.0 15 40-54 98-112 (408)
273 PF13604 AAA_30: AAA domain; P 78.3 4.2 9.1E-05 41.4 5.7 27 291-318 18-44 (196)
274 COG1223 Predicted ATPase (AAA+ 78.2 1.3 2.9E-05 48.5 2.1 16 291-306 151-166 (368)
275 COG1198 PriA Primosomal protei 78.1 5.3 0.00012 49.0 7.4 107 252-409 201-316 (730)
276 COG2804 PulE Type II secretory 77.8 2.3 5E-05 49.8 4.1 30 291-321 258-287 (500)
277 CHL00122 secA preprotein trans 77.6 2.1 4.5E-05 53.1 3.8 43 17-65 73-115 (870)
278 TIGR02030 BchI-ChlI magnesium 77.4 3.7 8E-05 45.9 5.4 42 246-308 1-42 (337)
279 PF02534 T4SS-DNA_transf: Type 77.4 0.89 1.9E-05 51.6 0.6 32 504-536 318-349 (469)
280 COG1474 CDC6 Cdc6-related prot 77.2 3.2 6.9E-05 46.8 4.9 40 248-308 19-59 (366)
281 KOG0332|consensus 77.0 1.2 2.6E-05 50.6 1.5 54 16-73 108-163 (477)
282 PRK12326 preprotein translocas 77.0 3.9 8.4E-05 50.1 5.8 78 245-351 74-156 (764)
283 PF01580 FtsK_SpoIIIE: FtsK/Sp 76.9 6.5 0.00014 39.6 6.6 28 290-317 37-64 (205)
284 KOG0352|consensus 76.9 1.7 3.7E-05 50.1 2.6 25 290-314 35-59 (641)
285 PHA00729 NTP-binding motif con 76.8 3.2 6.9E-05 44.1 4.5 26 28-53 4-31 (226)
286 PF13401 AAA_22: AAA domain; P 76.8 1.5 3.2E-05 40.3 1.7 19 290-308 3-21 (131)
287 TIGR01967 DEAH_box_HrpA ATP-de 76.7 4.1 8.8E-05 52.8 6.1 39 22-63 66-104 (1283)
288 COG4096 HsdR Type I site-speci 76.6 2.2 4.8E-05 52.5 3.6 40 249-310 165-204 (875)
289 KOG0351|consensus 76.5 1 2.3E-05 56.3 0.9 33 284-316 272-304 (941)
290 PRK06835 DNA replication prote 76.3 3.9 8.4E-05 45.5 5.2 16 291-306 183-198 (329)
291 COG4889 Predicted helicase [Ge 76.2 3.3 7.2E-05 51.4 4.8 38 18-55 159-196 (1518)
292 COG1219 ClpX ATP-dependent pro 76.1 1.5 3.2E-05 49.2 1.8 17 290-306 96-112 (408)
293 PF12775 AAA_7: P-loop contain 76.0 3.2 6.9E-05 44.8 4.3 23 32-54 26-48 (272)
294 PF06309 Torsin: Torsin; Inte 75.9 3.8 8.3E-05 40.1 4.4 28 27-54 36-68 (127)
295 PRK09183 transposase/IS protei 75.7 2.5 5.5E-05 45.1 3.4 18 289-306 100-117 (259)
296 cd01126 TraG_VirD4 The TraG/Tr 75.7 0.71 1.5E-05 51.3 -0.7 55 504-565 278-332 (384)
297 PRK05342 clpX ATP-dependent pr 75.7 3.1 6.6E-05 47.7 4.3 16 291-306 108-123 (412)
298 PF07728 AAA_5: AAA domain (dy 75.6 1.5 3.2E-05 41.2 1.4 13 41-53 1-13 (139)
299 KOG0951|consensus 75.6 3.7 8E-05 52.6 5.1 40 30-69 315-355 (1674)
300 PRK13894 conjugal transfer ATP 75.4 2.8 6.1E-05 46.4 3.8 25 290-315 147-171 (319)
301 COG1202 Superfamily II helicas 75.3 2.5 5.4E-05 50.4 3.4 57 7-66 203-259 (830)
302 PF07724 AAA_2: AAA domain (Cd 75.3 2.4 5.3E-05 42.6 3.0 14 40-53 4-17 (171)
303 PF00580 UvrD-helicase: UvrD/R 74.9 3.2 6.9E-05 43.3 3.9 23 291-313 13-35 (315)
304 TIGR01650 PD_CobS cobaltochela 74.9 2.8 6E-05 46.8 3.5 25 29-53 54-78 (327)
305 PRK11331 5-methylcytosine-spec 74.9 3 6.6E-05 48.5 4.0 26 28-53 183-208 (459)
306 COG1419 FlhF Flagellar GTP-bin 74.7 4.6 9.9E-05 46.4 5.3 20 290-309 202-221 (407)
307 PRK00411 cdc6 cell division co 74.7 4.6 0.0001 44.6 5.3 32 23-54 36-70 (394)
308 KOG0989|consensus 74.7 4.3 9.3E-05 45.3 4.9 33 23-55 39-73 (346)
309 TIGR02880 cbbX_cfxQ probable R 74.2 3 6.4E-05 45.1 3.5 15 40-54 59-73 (284)
310 PF14532 Sigma54_activ_2: Sigm 74.2 4.3 9.3E-05 38.6 4.3 28 27-54 9-36 (138)
311 PRK12402 replication factor C 73.7 4 8.6E-05 43.8 4.3 16 293-308 38-53 (337)
312 KOG0989|consensus 73.6 4.4 9.6E-05 45.2 4.6 39 252-311 39-77 (346)
313 PF12775 AAA_7: P-loop contain 73.5 1.8 3.8E-05 46.7 1.6 18 289-306 31-48 (272)
314 CHL00081 chlI Mg-protoporyphyr 73.5 2.3 5E-05 47.8 2.6 43 243-306 11-53 (350)
315 KOG0327|consensus 73.4 2.2 4.8E-05 48.4 2.3 28 289-316 61-88 (397)
316 PRK13103 secA preprotein trans 73.3 3.3 7.1E-05 51.7 4.0 42 18-65 80-121 (913)
317 PLN03025 replication factor C 73.1 4.1 8.9E-05 44.3 4.3 17 292-308 35-51 (319)
318 PF00158 Sigma54_activat: Sigm 73.1 4.9 0.00011 40.3 4.5 16 291-306 22-37 (168)
319 PF13401 AAA_22: AAA domain; P 72.8 2.3 5E-05 39.0 2.0 16 38-53 3-18 (131)
320 TIGR00390 hslU ATP-dependent p 72.7 3.4 7.3E-05 47.9 3.6 31 23-53 15-61 (441)
321 PF12846 AAA_10: AAA-like doma 72.7 3.6 7.7E-05 42.6 3.6 19 292-310 2-20 (304)
322 PRK06921 hypothetical protein; 72.7 6.9 0.00015 42.1 5.8 15 39-53 117-131 (266)
323 TIGR00382 clpX endopeptidase C 72.5 3.7 8E-05 47.2 3.9 14 40-53 117-130 (413)
324 KOG0353|consensus 72.3 7 0.00015 44.7 5.9 33 282-314 100-132 (695)
325 PF00004 AAA: ATPase family as 72.3 3.8 8.3E-05 37.2 3.3 13 294-306 1-13 (132)
326 TIGR03420 DnaA_homol_Hda DnaA 72.1 3.5 7.7E-05 41.6 3.3 30 24-53 21-52 (226)
327 PRK05342 clpX ATP-dependent pr 72.1 3.9 8.4E-05 46.9 4.0 14 40-53 109-122 (412)
328 PF02534 T4SS-DNA_transf: Type 72.0 1.5 3.3E-05 49.8 0.7 22 292-313 45-66 (469)
329 COG1484 DnaC DNA replication p 71.7 7.1 0.00015 41.8 5.6 24 290-315 104-127 (254)
330 PRK12902 secA preprotein trans 71.5 4.4 9.5E-05 50.6 4.4 43 17-65 82-124 (939)
331 COG1222 RPT1 ATP-dependent 26S 71.5 3.9 8.5E-05 46.5 3.7 39 258-306 160-200 (406)
332 PRK13850 type IV secretion sys 71.3 1.6 3.6E-05 52.8 0.8 24 39-62 139-162 (670)
333 TIGR02928 orc1/cdc6 family rep 71.1 7.2 0.00016 42.5 5.6 33 22-54 20-55 (365)
334 TIGR01650 PD_CobS cobaltochela 71.1 2.8 6.2E-05 46.7 2.5 16 291-306 64-79 (327)
335 COG4962 CpaF Flp pilus assembl 71.0 3.7 7.9E-05 46.3 3.4 26 28-53 162-187 (355)
336 PRK08939 primosomal protein Dn 70.9 3.4 7.4E-05 45.4 3.1 22 291-314 156-177 (306)
337 COG2805 PilT Tfp pilus assembl 70.9 3.9 8.4E-05 45.7 3.4 29 291-320 125-153 (353)
338 TIGR00635 ruvB Holliday juncti 70.7 4.3 9.2E-05 43.3 3.7 14 40-53 31-44 (305)
339 TIGR02788 VirB11 P-type DNA tr 70.7 4.1 8.8E-05 44.4 3.6 24 30-53 135-158 (308)
340 COG2804 PulE Type II secretory 70.5 4.2 9E-05 47.8 3.8 37 32-69 250-287 (500)
341 cd01129 PulE-GspE PulE/GspE Th 70.5 6.6 0.00014 42.1 5.1 24 30-53 70-94 (264)
342 PF00004 AAA: ATPase family as 70.4 2.7 6E-05 38.1 1.9 12 42-53 1-12 (132)
343 PRK11131 ATP-dependent RNA hel 70.2 3.8 8.2E-05 53.1 3.6 25 288-314 86-110 (1294)
344 PRK10436 hypothetical protein; 69.8 5.7 0.00012 46.3 4.7 26 291-317 218-243 (462)
345 TIGR00764 lon_rel lon-related 69.6 4.9 0.00011 48.2 4.3 31 23-53 21-51 (608)
346 PRK12326 preprotein translocas 69.5 4.8 0.0001 49.3 4.2 44 16-65 74-117 (764)
347 KOG1803|consensus 69.3 5.7 0.00012 47.6 4.6 56 23-99 188-243 (649)
348 PF07517 SecA_DEAD: SecA DEAD- 69.1 7.3 0.00016 42.3 5.1 44 16-65 73-116 (266)
349 PRK13897 type IV secretion sys 69.1 1.7 3.6E-05 52.2 0.2 55 504-565 421-475 (606)
350 COG1111 MPH1 ERCC4-like helica 69.0 6.7 0.00015 46.2 5.0 60 292-351 30-95 (542)
351 PRK00440 rfc replication facto 68.9 5.1 0.00011 42.5 3.8 35 253-308 21-55 (319)
352 KOG0735|consensus 68.7 12 0.00026 46.0 7.0 67 288-392 698-764 (952)
353 PF12846 AAA_10: AAA-like doma 68.7 5.2 0.00011 41.4 3.7 18 40-57 2-19 (304)
354 PRK14961 DNA polymerase III su 68.2 6.5 0.00014 43.8 4.6 31 23-53 19-52 (363)
355 cd01126 TraG_VirD4 The TraG/Tr 68.2 1.4 3E-05 49.1 -0.7 21 293-313 1-21 (384)
356 TIGR01967 DEAH_box_HrpA ATP-de 68.1 4.2 9.1E-05 52.6 3.5 24 290-315 81-104 (1283)
357 COG1110 Reverse gyrase [DNA re 68.1 9.7 0.00021 48.2 6.3 57 247-330 80-144 (1187)
358 COG1643 HrpA HrpA-like helicas 68.0 3 6.6E-05 51.8 2.1 22 287-308 61-82 (845)
359 KOG0326|consensus 67.9 0.83 1.8E-05 51.0 -2.4 32 290-321 121-152 (459)
360 PRK08116 hypothetical protein; 67.9 10 0.00022 40.8 5.9 15 292-306 115-129 (268)
361 PRK13876 conjugal transfer cou 67.8 2 4.4E-05 52.0 0.6 64 488-565 404-467 (663)
362 PF07724 AAA_2: AAA domain (Cd 67.8 4.4 9.6E-05 40.7 2.9 15 292-306 4-18 (171)
363 KOG0338|consensus 67.5 2.7 5.8E-05 49.5 1.4 30 289-318 216-245 (691)
364 PF12340 DUF3638: Protein of u 67.4 4 8.6E-05 43.6 2.6 115 18-172 21-141 (229)
365 TIGR03015 pepcterm_ATPase puta 67.3 8.3 0.00018 40.0 4.9 18 291-308 43-60 (269)
366 PRK08727 hypothetical protein; 67.2 7.6 0.00017 40.6 4.6 15 292-306 42-56 (233)
367 PF06309 Torsin: Torsin; Inte 67.2 7.9 0.00017 38.0 4.4 14 293-306 55-68 (127)
368 TIGR02538 type_IV_pilB type IV 67.1 6.6 0.00014 46.6 4.6 25 291-316 316-340 (564)
369 PRK00440 rfc replication facto 67.1 7.1 0.00015 41.4 4.5 31 24-54 21-53 (319)
370 COG0606 Predicted ATPase with 66.9 5.1 0.00011 46.8 3.5 45 23-67 182-231 (490)
371 TIGR02902 spore_lonB ATP-depen 66.8 5.4 0.00012 47.0 3.8 32 23-54 68-101 (531)
372 KOG4284|consensus 66.8 2.6 5.6E-05 50.8 1.2 67 247-317 22-88 (980)
373 TIGR00382 clpX endopeptidase C 66.8 6.3 0.00014 45.3 4.2 16 291-306 116-131 (413)
374 PRK14955 DNA polymerase III su 66.8 7 0.00015 44.2 4.5 32 23-54 19-53 (397)
375 PRK11331 5-methylcytosine-spec 66.7 4.1 9E-05 47.4 2.7 19 288-306 191-209 (459)
376 PRK13850 type IV secretion sys 66.6 2.5 5.5E-05 51.2 1.1 23 291-313 139-161 (670)
377 KOG0328|consensus 66.0 0.66 1.4E-05 51.0 -3.5 32 288-319 61-92 (400)
378 KOG0922|consensus 65.9 5.2 0.00011 48.3 3.4 27 27-53 54-80 (674)
379 TIGR02902 spore_lonB ATP-depen 65.9 5.4 0.00012 47.0 3.6 34 252-306 68-101 (531)
380 PF13476 AAA_23: AAA domain; P 65.8 5.2 0.00011 38.9 2.9 26 291-318 19-44 (202)
381 KOG0745|consensus 65.8 3.6 7.7E-05 47.9 2.0 15 40-54 227-241 (564)
382 PTZ00112 origin recognition co 65.8 9.5 0.0002 48.1 5.6 35 23-57 761-799 (1164)
383 KOG0337|consensus 65.8 3.9 8.4E-05 47.3 2.2 33 288-320 55-87 (529)
384 cd01124 KaiC KaiC is a circadi 65.6 5.4 0.00012 38.9 3.0 15 294-308 2-16 (187)
385 TIGR02974 phageshock_pspF psp 65.5 6.9 0.00015 43.3 4.1 27 27-53 10-36 (329)
386 PRK13103 secA preprotein trans 65.5 6.1 0.00013 49.4 4.0 58 294-351 98-160 (913)
387 PRK13880 conjugal transfer cou 65.3 1.7 3.6E-05 52.4 -0.8 66 489-565 448-513 (636)
388 TIGR02881 spore_V_K stage V sp 65.3 3.5 7.5E-05 43.6 1.7 14 40-53 43-56 (261)
389 PRK12377 putative replication 65.2 8.7 0.00019 41.1 4.7 16 291-306 101-116 (248)
390 COG1111 MPH1 ERCC4-like helica 65.2 7 0.00015 46.1 4.1 49 16-69 11-59 (542)
391 COG1223 Predicted ATPase (AAA+ 65.0 3.8 8.2E-05 45.1 1.9 15 40-54 152-166 (368)
392 KOG1802|consensus 65.0 13 0.00029 45.2 6.4 35 274-308 406-442 (935)
393 PF06745 KaiC: KaiC; InterPro 65.0 7.2 0.00016 39.9 3.9 20 288-307 16-35 (226)
394 PRK00411 cdc6 cell division co 64.5 12 0.00026 41.3 5.8 18 291-308 55-72 (394)
395 COG1197 Mfd Transcription-repa 64.3 18 0.00039 46.4 7.7 122 244-410 589-720 (1139)
396 PF01580 FtsK_SpoIIIE: FtsK/Sp 64.3 8 0.00017 39.0 4.0 27 37-63 36-62 (205)
397 PRK08903 DnaA regulatory inact 64.3 6.6 0.00014 40.2 3.5 16 38-53 41-56 (227)
398 cd01130 VirB11-like_ATPase Typ 64.3 6.7 0.00014 39.3 3.4 19 289-307 23-41 (186)
399 PF05970 PIF1: PIF1-like helic 64.3 8.3 0.00018 43.1 4.5 32 22-53 3-36 (364)
400 TIGR01817 nifA Nif-specific re 64.1 7.1 0.00015 45.6 4.1 27 27-53 207-233 (534)
401 PRK13342 recombination factor 64.0 4.6 9.9E-05 45.7 2.4 31 23-53 15-50 (413)
402 PRK11608 pspF phage shock prot 64.0 9 0.00019 42.2 4.6 31 23-53 13-43 (326)
403 KOG0745|consensus 63.9 3.9 8.4E-05 47.6 1.8 18 289-306 224-241 (564)
404 PRK10436 hypothetical protein; 63.8 10 0.00022 44.2 5.2 32 31-63 209-241 (462)
405 TIGR02881 spore_V_K stage V sp 63.8 3.9 8.4E-05 43.2 1.7 16 291-306 42-57 (261)
406 cd00984 DnaB_C DnaB helicase C 63.6 8.1 0.00018 39.6 4.0 33 286-318 8-40 (242)
407 TIGR02538 type_IV_pilB type IV 63.6 9.9 0.00021 45.2 5.2 25 31-55 307-332 (564)
408 PRK13851 type IV secretion sys 63.5 4.4 9.6E-05 45.4 2.1 18 289-306 160-177 (344)
409 PRK12906 secA preprotein trans 63.4 5.8 0.00013 49.1 3.3 57 295-351 97-158 (796)
410 TIGR00635 ruvB Holliday juncti 63.2 6.7 0.00015 41.8 3.4 15 292-306 31-45 (305)
411 PF12774 AAA_6: Hydrolytic ATP 63.2 9.6 0.00021 40.4 4.5 37 17-53 10-46 (231)
412 PRK13897 type IV secretion sys 63.0 2.8 6E-05 50.4 0.5 24 291-314 158-181 (606)
413 TIGR02639 ClpA ATP-dependent C 62.9 5.7 0.00012 48.4 3.1 30 24-53 458-498 (731)
414 COG0542 clpA ATP-binding subun 62.9 5.6 0.00012 49.1 3.0 31 23-53 494-535 (786)
415 TIGR02880 cbbX_cfxQ probable R 62.9 4.5 9.8E-05 43.7 2.0 17 291-307 58-74 (284)
416 TIGR02767 TraG-Ti Ti-type conj 62.8 3.1 6.8E-05 50.1 0.9 22 39-60 211-232 (623)
417 TIGR03819 heli_sec_ATPase heli 62.8 7.4 0.00016 43.5 3.7 26 28-53 167-192 (340)
418 KOG0744|consensus 62.7 5.5 0.00012 45.0 2.6 24 289-314 175-198 (423)
419 PRK13900 type IV secretion sys 62.6 7.4 0.00016 43.3 3.7 26 290-316 159-184 (332)
420 PF00437 T2SE: Type II/IV secr 62.5 4 8.6E-05 43.0 1.5 25 290-315 126-150 (270)
421 TIGR03263 guanyl_kin guanylate 62.4 4.6 0.0001 39.5 1.8 16 291-306 1-16 (180)
422 PRK07952 DNA replication prote 62.4 14 0.00029 39.6 5.5 31 23-53 79-113 (244)
423 TIGR02533 type_II_gspE general 62.4 7.8 0.00017 45.3 3.9 18 291-308 242-259 (486)
424 PRK06645 DNA polymerase III su 62.1 8.9 0.00019 45.2 4.4 31 23-53 24-57 (507)
425 TIGR02782 TrbB_P P-type conjug 62.1 5.9 0.00013 43.3 2.8 16 291-306 132-147 (299)
426 TIGR03346 chaperone_ClpB ATP-d 61.9 6.2 0.00013 49.0 3.2 31 23-53 568-609 (852)
427 cd01129 PulE-GspE PulE/GspE Th 61.8 8.8 0.00019 41.2 4.0 25 291-316 80-104 (264)
428 PRK11054 helD DNA helicase IV; 61.8 17 0.00036 44.5 6.7 53 6-65 182-234 (684)
429 PRK13822 conjugal transfer cou 61.7 3 6.5E-05 50.3 0.5 23 39-61 224-246 (641)
430 TIGR02442 Cob-chelat-sub cobal 61.6 7.5 0.00016 46.7 3.8 41 246-307 1-41 (633)
431 TIGR02688 conserved hypothetic 61.5 7.1 0.00015 45.4 3.3 24 285-308 203-226 (449)
432 cd01127 TrwB Bacterial conjuga 61.4 6.8 0.00015 44.4 3.2 28 290-318 41-68 (410)
433 PRK00080 ruvB Holliday junctio 61.4 5.8 0.00013 43.3 2.6 32 23-54 28-66 (328)
434 PRK14961 DNA polymerase III su 61.4 9.8 0.00021 42.4 4.4 35 253-308 20-55 (363)
435 PRK15429 formate hydrogenlyase 61.4 9.4 0.0002 46.1 4.5 28 27-54 387-414 (686)
436 PTZ00361 26 proteosome regulat 61.4 8.5 0.00018 44.6 4.0 19 289-307 215-233 (438)
437 PRK13876 conjugal transfer cou 61.3 3.4 7.3E-05 50.1 0.8 24 291-314 144-167 (663)
438 COG1419 FlhF Flagellar GTP-bin 61.3 5.2 0.00011 46.0 2.2 15 39-53 203-217 (407)
439 cd01131 PilT Pilus retraction 61.1 5.7 0.00012 40.4 2.3 17 292-308 2-18 (198)
440 PRK11034 clpA ATP-dependent Cl 61.1 6.6 0.00014 48.4 3.2 31 23-53 461-502 (758)
441 TIGR02524 dot_icm_DotB Dot/Icm 61.0 7 0.00015 44.0 3.2 21 33-53 127-148 (358)
442 PRK13833 conjugal transfer pro 61.0 5.4 0.00012 44.4 2.2 16 291-306 144-159 (323)
443 PF01745 IPT: Isopentenyl tran 60.9 8.1 0.00018 41.3 3.4 64 123-190 55-121 (233)
444 PRK06893 DNA replication initi 60.8 11 0.00023 39.3 4.3 28 26-53 24-53 (229)
445 PRK14962 DNA polymerase III su 60.8 10 0.00022 44.3 4.5 31 23-53 17-50 (472)
446 PF13476 AAA_23: AAA domain; P 60.7 7.3 0.00016 37.8 2.9 24 40-65 20-43 (202)
447 PF05729 NACHT: NACHT domain 60.7 9.2 0.0002 35.9 3.5 16 293-308 2-17 (166)
448 PRK13765 ATP-dependent proteas 60.6 12 0.00027 45.3 5.3 31 23-53 34-64 (637)
449 KOG0923|consensus 60.5 4.9 0.00011 48.7 1.9 24 283-306 272-295 (902)
450 PF00308 Bac_DnaA: Bacterial d 60.5 8.8 0.00019 39.9 3.6 38 280-318 18-60 (219)
451 PRK06921 hypothetical protein; 60.3 7.3 0.00016 41.9 3.0 16 291-306 117-132 (266)
452 PF02367 UPF0079: Uncharacteri 59.9 8.2 0.00018 37.4 3.0 27 27-53 3-29 (123)
453 PF01078 Mg_chelatase: Magnesi 59.9 6.3 0.00014 41.4 2.4 18 290-307 21-38 (206)
454 PRK14722 flhF flagellar biosyn 59.8 9.4 0.0002 43.4 3.9 23 288-310 134-156 (374)
455 KOG0949|consensus 59.8 6.7 0.00014 49.4 2.9 93 18-131 509-602 (1330)
456 TIGR02030 BchI-ChlI magnesium 59.8 11 0.00025 42.1 4.5 32 23-54 7-40 (337)
457 PF07726 AAA_3: ATPase family 59.8 4.2 9.1E-05 40.1 1.0 14 41-54 1-14 (131)
458 PRK14729 miaA tRNA delta(2)-is 59.7 5.1 0.00011 44.2 1.8 16 291-306 4-19 (300)
459 TIGR00150 HI0065_YjeE ATPase, 59.6 9.2 0.0002 37.5 3.3 27 27-53 10-36 (133)
460 PRK00300 gmk guanylate kinase; 59.3 5.8 0.00013 39.7 2.0 17 290-306 4-20 (205)
461 COG0556 UvrB Helicase subunit 59.1 7.2 0.00016 46.4 2.9 63 245-330 8-76 (663)
462 TIGR02928 orc1/cdc6 family rep 59.1 13 0.00028 40.5 4.8 17 291-307 40-56 (365)
463 PF13238 AAA_18: AAA domain; P 59.0 5.5 0.00012 36.0 1.6 12 42-53 1-12 (129)
464 COG4098 comFA Superfamily II D 58.9 11 0.00025 42.8 4.2 46 21-67 98-143 (441)
465 COG0556 UvrB Helicase subunit 58.7 8.1 0.00018 46.0 3.2 38 18-55 10-48 (663)
466 TIGR02525 plasmid_TraJ plasmid 58.7 12 0.00026 42.5 4.5 16 38-53 148-163 (372)
467 PRK05022 anaerobic nitric oxid 58.7 11 0.00023 44.2 4.2 27 27-53 198-224 (509)
468 PF13481 AAA_25: AAA domain; P 58.5 10 0.00022 37.3 3.5 27 290-316 31-57 (193)
469 PRK10865 protein disaggregatio 58.5 6.3 0.00014 49.1 2.5 32 23-54 571-613 (857)
470 PHA00729 NTP-binding motif con 58.5 7.3 0.00016 41.5 2.6 15 292-306 18-32 (226)
471 cd01127 TrwB Bacterial conjuga 58.5 7.3 0.00016 44.2 2.8 29 505-534 286-314 (410)
472 TIGR00150 HI0065_YjeE ATPase, 58.4 9.4 0.0002 37.5 3.2 23 284-306 15-37 (133)
473 TIGR00376 DNA helicase, putati 58.4 9.7 0.00021 46.0 3.9 27 291-317 173-199 (637)
474 PRK08084 DNA replication initi 58.3 11 0.00024 39.5 3.9 30 24-53 28-59 (235)
475 PF05872 DUF853: Bacterial pro 58.3 4.2 9.1E-05 47.5 0.8 21 290-310 18-38 (502)
476 KOG0991|consensus 58.3 10 0.00022 41.3 3.7 25 291-315 48-72 (333)
477 PF14532 Sigma54_activ_2: Sigm 58.2 16 0.00035 34.7 4.6 17 290-306 20-36 (138)
478 PRK13880 conjugal transfer cou 58.2 2.8 6.1E-05 50.5 -0.6 23 291-313 175-197 (636)
479 PRK09111 DNA polymerase III su 58.1 12 0.00025 45.2 4.5 31 23-53 27-60 (598)
480 PF13238 AAA_18: AAA domain; P 58.0 5.5 0.00012 36.0 1.4 13 294-306 1-13 (129)
481 PF13207 AAA_17: AAA domain; P 58.0 5.5 0.00012 36.2 1.4 13 294-306 2-14 (121)
482 PF07726 AAA_3: ATPase family 57.9 3.8 8.2E-05 40.4 0.3 16 293-308 1-16 (131)
483 COG2805 PilT Tfp pilus assembl 57.8 13 0.00029 41.6 4.5 27 40-67 126-152 (353)
484 cd00984 DnaB_C DnaB helicase C 57.8 7.5 0.00016 39.9 2.5 22 32-53 6-27 (242)
485 PRK08903 DnaA regulatory inact 57.8 12 0.00026 38.3 4.0 16 291-306 42-57 (227)
486 PF13555 AAA_29: P-loop contai 57.7 13 0.00027 32.2 3.5 26 40-67 24-49 (62)
487 TIGR02524 dot_icm_DotB Dot/Icm 57.4 8.2 0.00018 43.4 2.9 25 291-316 134-158 (358)
488 TIGR02759 TraD_Ftype type IV c 57.3 9.6 0.00021 45.4 3.6 28 291-319 176-203 (566)
489 COG1221 PspF Transcriptional r 57.1 9.3 0.0002 43.9 3.3 25 30-54 92-116 (403)
490 KOG0951|consensus 57.1 9.2 0.0002 49.3 3.5 32 288-319 322-353 (1674)
491 CHL00095 clpC Clp protease ATP 57.1 7.9 0.00017 47.9 3.0 31 23-53 512-553 (821)
492 TIGR03499 FlhF flagellar biosy 57.1 30 0.00065 37.5 7.0 62 5-66 149-221 (282)
493 PRK14954 DNA polymerase III su 57.0 12 0.00026 45.2 4.4 31 23-53 19-52 (620)
494 cd01124 KaiC KaiC is a circadi 57.0 9.9 0.00022 37.1 3.1 13 42-54 2-14 (187)
495 PRK05201 hslU ATP-dependent pr 56.8 11 0.00023 43.9 3.8 15 291-305 50-64 (443)
496 PF13177 DNA_pol3_delta2: DNA 56.8 17 0.00036 36.1 4.7 30 24-53 1-33 (162)
497 TIGR02768 TraA_Ti Ti-type conj 56.8 20 0.00044 44.1 6.4 58 19-97 351-408 (744)
498 TIGR03263 guanyl_kin guanylate 56.8 6.8 0.00015 38.3 1.9 15 39-53 1-15 (180)
499 KOG0744|consensus 56.8 7.2 0.00016 44.1 2.3 19 41-61 179-197 (423)
500 PF05970 PIF1: PIF1-like helic 56.8 13 0.00029 41.5 4.4 36 252-308 4-39 (364)
No 1
>KOG1131|consensus
Probab=100.00 E-value=4.2e-56 Score=487.71 Aligned_cols=355 Identities=22% Similarity=0.349 Sum_probs=309.9
Q ss_pred cceeeCCeeeccCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHH
Q psy3462 235 TSYTIGGVKVEFPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 235 ~~~~~~~~~~~fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l 313 (795)
|+|.|+++.|.|||. .||.|+.+|.+++++|++ ++|+++|+|+|||||.|+|.-++
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDa-----------------------kGh~llEMPSGTGKTvsLLSli~ 57 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDA-----------------------KGHCLLEMPSGTGKTVSLLSLII 57 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhcc-----------------------CCcEEEECCCCCCcchHHHHHHH
Confidence 679999999999997 699999999999999986 58999999999999999999999
Q ss_pred HHHHHhhHHHHHHHHhhhhhhhhhcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeeec
Q psy3462 314 AWQRKEKELVQQKMFEQRTQDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVLN 393 (795)
Q Consensus 314 ~~~~~~~k~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l~ 393 (795)
+|+..++. ...+|+||+||+.++|+.|.+++. ++.
T Consensus 58 aYq~~~p~-------------------------------------~~~KliYCSRTvpEieK~l~El~~--------l~~ 92 (755)
T KOG1131|consen 58 AYQLHYPD-------------------------------------EHRKLIYCSRTVPEIEKALEELKR--------LMD 92 (755)
T ss_pred HHHHhCCc-------------------------------------ccceEEEecCcchHHHHHHHHHHH--------HHH
Confidence 99988753 467899999999999999999997 899
Q ss_pred ccccccccchhhh-hhccccccceeecccchhhHHhhh-hhcccccccccccccccccccchhhhHhhhcccC---CCCc
Q psy3462 394 GRSKNLVSSIDFI-LGLLYKGIQTCITTINQQEDELRQ-STKKTKVDKLKVLNGRSKNLVSSIDFILGLLYKG---VNCE 468 (795)
Q Consensus 394 sR~~~~~~~~~~~-~~~~~~~~~lCi~~~~~~v~~~~~-~~~~~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~---~~C~ 468 (795)
.|.|++|..++|+ |||++| ||||| ||+|..+|. ++||++||+| +++ |+++++..+ ..|+
T Consensus 93 y~~k~~g~~~~flglglssR-KNlCi---~~~v~~~r~g~~VD~~Cr~l--tas----------~vr~~~~ed~~~~~C~ 156 (755)
T KOG1131|consen 93 YREKHLGYPEPFLGLGLSSR-KNLCI---HPEVLKERNGNVVDAACRKL--TAS----------YVRAKLAEDPNVELCD 156 (755)
T ss_pred HHHHhcCCCCceeeeeeccc-ccccc---CHHHHHHhcCCchhHHHHHH--hHH----------HHHHHHhcCCCcchhh
Confidence 9999999999999 999999 99999 779999999 5889999888 444 455555544 3599
Q ss_pred cchhcccchhhhhhhhhhhhhcccccCccccccCCCCChhHHHHHhhhCCccccchhhhhh-----------HH------
Q psy3462 469 DYHVCMESSVAFDQLIQLDLMLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQLD-----------LM------ 531 (795)
Q Consensus 469 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~~-----------~~------ 531 (795)
||||+++ ....+|+|| |++|||++||++++|||||++|+-= +.
T Consensus 157 -f~en~~~-------------~~~~lp~gv------y~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYllDPkIa 216 (755)
T KOG1131|consen 157 -FFENLED-------------KESLLPVGV------YTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYLLDPKIA 216 (755)
T ss_pred -HHhhhhc-------------ccccCCccc------ccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhhcChHHH
Confidence 7788777 123588887 9999999999999999999986410 00
Q ss_pred --------------------------------------------------------------HH----------------
Q psy3462 532 --------------------------------------------------------------LD---------------- 533 (795)
Q Consensus 532 --------------------------------------------------------------~~---------------- 533 (795)
|+
T Consensus 217 ~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k~~d~~kl~~eY~klvegL~~~~~~ 296 (755)
T KOG1131|consen 217 ELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRRTLERASRNLNSLEQLVNRVKETDSQKLQDEYEKLVEGLKDASAE 296 (755)
T ss_pred HHHHHhhCcCcEEEecccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhcchhHHHHHHHHHHHHhhccccc
Confidence 00
Q ss_pred --------------------------------------------------------------------------------
Q psy3462 534 -------------------------------------------------------------------------------- 533 (795)
Q Consensus 534 -------------------------------------------------------------------------------- 533 (795)
T Consensus 297 ~~~d~~lanPvLP~dvl~EavPGniR~aeHFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~i~~~~~IerKplrFCaeR 376 (755)
T KOG1131|consen 297 RDEDQFLANPVLPDDVLKEAVPGNIRRAEHFVSFLKRLLEYLKTRLKVHHVIQESPASFLKSIKSLTFIERKPLRFCAER 376 (755)
T ss_pred cCccchhcCCCCchhhhhhhCCcchhhHHHHHHHHHHHHHHHHHhhhheeeeccCcHHHHHHHHHhhhhhccchHHHHHH
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy3462 534 -------------------------------------------------------------------------------- 533 (795)
Q Consensus 534 -------------------------------------------------------------------------------- 533 (795)
T Consensus 377 L~~L~~tLeitd~~df~~l~~v~~faTlVstY~kGF~iIiEPfd~~~~tv~npil~~sClDaSiAikPVf~RFqsViITS 456 (755)
T KOG1131|consen 377 LSSLVRTLEITDVEDFGALKTVADFATLVSTYSKGFSIIIEPFDDRNPTVPNPILRFSCLDASIAIKPVFERFQSVIITS 456 (755)
T ss_pred HHHHHHHhccCchhhhhHHHHHHHHHHHHHHHhcCcEEEEcccccCCCCCCCCeeEEeecccchhhhHHHHhhheEEEec
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy3462 534 -------------------------------------------------------------------------------- 533 (795)
Q Consensus 534 -------------------------------------------------------------------------------- 533 (795)
T Consensus 457 GTlspldmyPk~lnf~pv~~~s~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~f 536 (755)
T KOG1131|consen 457 GTLSPLDMYPKILNFGPVVGASFTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCF 536 (755)
T ss_pred CcccccccCchhhccCcccchhhheecccccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEE
Confidence
Q ss_pred ----HhhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhcccce--------eEeecCc---------cccceE
Q psy3462 534 ----EHLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRDSV--------KQVMGKG---------NLELCK 592 (795)
Q Consensus 534 ----~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~ai--------fAV~GGK---------nl~rcV 592 (795)
-|||+++++|+++||+++++++|++|+|++|..++.-+|++|+.+| |+|+||| ++||||
T Consensus 537 f~sylYmesiv~~w~~~gil~ei~k~KL~fIetpD~~ETs~al~ny~~aC~~gRGavl~sVargkVsEgidF~hhyGR~V 616 (755)
T KOG1131|consen 537 FPSYLYMESIVSRWYEQGILDEIMKYKLLFIETPDFRETSLALANYRYACDNGRGAVLLSVARGKVSEGIDFDHHYGREV 616 (755)
T ss_pred EehHHHHHHHHHHHHHHhHHHHHhhCceEEEeCCchhhhHHHHHHHHHHhcCCCCceEEEEecCccccCcccccccCceE
Confidence 1556666666677999999999999999999999999999998887 8999998 599999
Q ss_pred EEEecCCCCCCCccccc------ccccCCcccchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHH
Q psy3462 593 GVFWTRFPNTCQYSVVY------PTGLLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVR 666 (795)
Q Consensus 593 iVVGIPYPn~~d~~Lk~------~~~~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr 666 (795)
+|.||||.++.+..+++ ....+..++|.+++|||...||+||++|.++|||.+||.|+||...+.+.+||+|++
T Consensus 617 iM~gIP~qytesriLkarle~Lrd~~~irE~dflTFDAmRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~klp~wi~ 696 (755)
T KOG1131|consen 617 IMEGIPYQYTESRILKARLEYLRDQFQIRENDFLTFDAMRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSKLPKWIR 696 (755)
T ss_pred EEEeccchhhHHHHHHHHHHHHHHHhcccccceechHhHHHHHHHHHHHHhccccceeeEeeehhhccccchhhhhHHHH
Confidence 99999999999888773 345677899999999999999999999999999999999999999999999999999
Q ss_pred hhcccc---CChhHHHHHHHHHHHHHHHhh
Q psy3462 667 NQVQNT---SSHNTFMENLRNFVRRRMEIQ 693 (795)
Q Consensus 667 ~~l~~~---~sfe~~~~~l~~Ffk~~k~~~ 693 (795)
+++... -+.+.+....+.|++.|.+..
T Consensus 697 ~~l~~~~~nlstd~a~~varrflR~maQp~ 726 (755)
T KOG1131|consen 697 NHLFDAKLNLSTDMANQVARRFLRLMAQPF 726 (755)
T ss_pred hhhhhhccCCCcchhHHHHHHHHHHhcCCC
Confidence 998654 378889999999999998865
No 2
>KOG1133|consensus
Probab=100.00 E-value=3.1e-54 Score=485.02 Aligned_cols=153 Identities=24% Similarity=0.379 Sum_probs=133.5
Q ss_pred hhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhcccce--------eEeecCc---------cccceEEEEec
Q psy3462 535 HLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRDSV--------KQVMGKG---------NLELCKGVFWT 597 (795)
Q Consensus 535 ~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~ai--------fAV~GGK---------nl~rcViVVGI 597 (795)
|+..++..|+..|++.+|..+|+||+|+++. ++++|+.|+.++ |||+||| +++|||+|||+
T Consensus 641 yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGl 718 (821)
T KOG1133|consen 641 YLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VEDVLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDLGRAVVVVGL 718 (821)
T ss_pred HHHHHHHHHHhcchHHHhhccchhhccCccc--HHHHHHHHHHHhhcCCCeEEEEEeccccccccccccccccEEEEeec
Confidence 3334455677778999999999999999985 889999997654 9999998 59999999999
Q ss_pred CCCCCCCcccccc--------cccCCcccchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhhc
Q psy3462 598 RFPNTCQYSVVYP--------TGLLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQV 669 (795)
Q Consensus 598 PYPn~~d~~Lk~~--------~~~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~l 669 (795)
||||+.|.++++. ...++|++||++.||+||||+|||+|||.+|||+|+|+|.||+.+. ..+||.||+.++
T Consensus 719 PyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~-~RKLp~WI~~~v 797 (821)
T KOG1133|consen 719 PYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCMKAVNQSIGRAIRHRKDYASIYLLDKRYARPL-SRKLPKWIRKRV 797 (821)
T ss_pred CCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHHHHHHHHHHHHHhhhccceeEEEehhhhcCch-hhhccHHHHhHh
Confidence 9999999998831 1245689999999999999999999999999999999999999554 459999999988
Q ss_pred cccCChhHHHHHHHHHHHHHH
Q psy3462 670 QNTSSHNTFMENLRNFVRRRM 690 (795)
Q Consensus 670 ~~~~sfe~~~~~l~~Ffk~~k 690 (795)
....+|++++..++.||+...
T Consensus 798 ~s~~~~G~~ir~~~~ff~~k~ 818 (821)
T KOG1133|consen 798 HSKAGFGPAIRATRKFFRAKS 818 (821)
T ss_pred ccccCccHHHHHHHHHHHHhc
Confidence 888899999999999998764
No 3
>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=100.00 E-value=1.8e-48 Score=453.31 Aligned_cols=130 Identities=25% Similarity=0.433 Sum_probs=112.6
Q ss_pred HhhccCcEEEcCCCcchhhHHhhhccc-------ce-eEeecCc---------cccceEEEEecCCCCCCCcccccc---
Q psy3462 551 DLVLKRNIFYDTLMLCDVQTKETKHRD-------SV-KQVMGKG---------NLELCKGVFWTRFPNTCQYSVVYP--- 610 (795)
Q Consensus 551 ~I~~~K~IFiE~kd~~e~~~~L~~Y~~-------ai-fAV~GGK---------nl~rcViVVGIPYPn~~d~~Lk~~--- 610 (795)
+|...|+||+|++++.+.+.+|++|++ +| |||+||+ +.+|||||||||||++.|+.++..
T Consensus 550 ~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~ 629 (705)
T TIGR00604 550 NIEKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEF 629 (705)
T ss_pred HHhcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHH
Confidence 455578999999988788899999953 34 9999997 589999999999999999988731
Q ss_pred ---cccCCcc-cchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhhccccCChhHHHH
Q psy3462 611 ---TGLLKGG-DWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQVQNTSSHNTFME 680 (795)
Q Consensus 611 ---~~~~~G~-ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~l~~~~sfe~~~~ 680 (795)
.....|+ .||.++||++||||+||+|||++|||+|+|+|+||.+.++++.||+|+++++...+++++++.
T Consensus 630 ~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~~~~~~~~~~~i~ 703 (705)
T TIGR00604 630 LRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSDLNGMAIS 703 (705)
T ss_pred HHhhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhhccccCCCcchhc
Confidence 1123566 899999999999999999999999999999999999999999999999999998888876653
No 4
>KOG1132|consensus
Probab=100.00 E-value=1.4e-47 Score=440.13 Aligned_cols=206 Identities=30% Similarity=0.445 Sum_probs=152.4
Q ss_pred eeeC-CeeeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 237 YTIG-GVKVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 237 ~~~~-~~~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
..|+ |++|.|||+|||.|..||..|.++|++ +.++++|+||||||||++||++|+|
T Consensus 8 ~~i~~Gv~V~fP~qpY~~Q~a~M~rvl~~L~~-----------------------~q~~llESPTGTGKSLsLLCS~LAW 64 (945)
T KOG1132|consen 8 IVINIGVPVEFPFQPYPTQLAFMTRVLSCLDR-----------------------KQNGLLESPTGTGKSLSLLCSTLAW 64 (945)
T ss_pred eEeccCceeeccCCcchHHHHHHHHHHHHHHH-----------------------hhhhhccCCCCCCccHHHHHHHHHH
Confidence 4455 999999999999999999999999986 4679999999999999999999999
Q ss_pred HHHhhHHHHHHHHhhhh----hhhhhcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceee
Q psy3462 316 QRKEKELVQQKMFEQRT----QDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKV 391 (795)
Q Consensus 316 ~~~~~k~LQ~Ql~~kdi----p~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~ 391 (795)
++..+...+.+.+..+. |.-....+.+. ...++..-.+.- -.-+++|++|||+|+.|..+++++..++++.+|
T Consensus 65 ~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~--s~e~~e~~~~~~-~ipkIyyaSRTHsQltQvvrElrrT~Y~vkmtV 141 (945)
T KOG1132|consen 65 QQHLKSRKPKGKISERKAGFIPTQPSDSGGEK--SEEAGEPIACYT-GIPKIYYASRTHSQLTQVVRELRRTGYRVKMTV 141 (945)
T ss_pred HHHhhccccccchhhhhccccCCCCccCCCCc--hhhhcCcccccc-CCceEEEecchHHHHHHHHHHHhhcCCCCceEE
Confidence 99887666666554433 21111111111 111111100001 145799999999999999999999977799999
Q ss_pred ecccccccccchhhhhhccccccceeecccchhhHHhhhh-hcccccccccccccccccccchhhhHhhhcccCCCCccc
Q psy3462 392 LNGRSKNLVSSIDFILGLLYKGIQTCITTINQQEDELRQS-TKKTKVDKLKVLNGRSKNLVSSIDFILGLLYKGVNCEDY 470 (795)
Q Consensus 392 l~sR~~~~~~~~~~~~~~~~~~~~lCi~~~~~~v~~~~~~-~~~~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~~y 470 (795)
||||. |+|| ||+|.+++++ ...+.|+++. ....|.||
T Consensus 142 LgSRe------------------q~Ci---npev~k~~~~~~~~~~C~k~~---------------------~~~~C~f~ 179 (945)
T KOG1132|consen 142 LGSRE------------------QLCI---NPEVKKLEGNALQNHVCKKLV---------------------KSRSCHFY 179 (945)
T ss_pred eecch------------------hhcc---CHHHhhhhcchhhhhHHHhhc---------------------cccccccc
Confidence 99999 9999 8899999984 5677787761 11349987
Q ss_pred hhcccchhhhhhhhhhhhhcccccCccccccCCCCChhHHHHHhhhCCccccchhhhh
Q psy3462 471 HVCMESSVAFDQLIQLDLMLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQL 528 (795)
Q Consensus 471 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~ 528 (795)
+-+-+.+ ++|-. ...++|||||+..|++...||||.+|++
T Consensus 180 ~~~~~~s----------------l~~~l--~~~i~DIEDLVk~Gk~~~~CPYfaSR~l 219 (945)
T KOG1132|consen 180 KIVEEKS----------------LQPRL--HDEIFDIEDLVKIGKKSRGCPYFASREL 219 (945)
T ss_pred ccccccc----------------ccccc--CCCcccHHHHHHhCccCcCCcchhhhhh
Confidence 6333331 12211 1125999999999999999999998875
No 5
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.95 E-value=1.9e-26 Score=265.88 Aligned_cols=139 Identities=21% Similarity=0.123 Sum_probs=111.5
Q ss_pred HHhhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhcccc---eeEeecCc---------cccceEEEEecCCC
Q psy3462 533 DEHLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRDS---VKQVMGKG---------NLELCKGVFWTRFP 600 (795)
Q Consensus 533 ~~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~a---ifAV~GGK---------nl~rcViVVGIPYP 600 (795)
.+||+.++..|...... +.++..+..+.+..|++|... .++|+||+ +.+++|+|+|||||
T Consensus 489 y~~l~~~~~~~~~~~~~--------~~v~~q~~~~~~~~l~~f~~~~~~~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp 560 (654)
T COG1199 489 YEYLKRVAERLKDERST--------LPVLTQGEDEREELLEKFKASGEGLILVGGGSFWEGVDFPGDALRLVVIVGLPFP 560 (654)
T ss_pred HHHHHHHHHHHhhcCcc--------ceeeecCCCcHHHHHHHHHHhcCCeEEEeeccccCcccCCCCCeeEEEEEecCCC
Confidence 47888888888776554 445555555677899999766 48999996 58899999999999
Q ss_pred CCCCcccccc-----cccCCc-ccchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhhccccCC
Q psy3462 601 NTCQYSVVYP-----TGLLKG-GDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQVQNTSS 674 (795)
Q Consensus 601 n~~d~~Lk~~-----~~~~~G-~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~l~~~~s 674 (795)
+++|+.++.. +...++ ..||.++||++|+||+||+|||++|||+|+|+|.||.+.+++..||+|+.........
T Consensus 561 ~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~~y~~~l~~~l~~~~~~~~~ 640 (654)
T COG1199 561 NPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATKRYGKLLLDSLPPFPKSKDL 640 (654)
T ss_pred CCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEecccchhhhHHHHHHHhCCCCcccccc
Confidence 9999988732 112223 4568999999999999999999999999999999999999999999999987766554
Q ss_pred hhHHH
Q psy3462 675 HNTFM 679 (795)
Q Consensus 675 fe~~~ 679 (795)
.....
T Consensus 641 ~~~~~ 645 (654)
T COG1199 641 NPSAI 645 (654)
T ss_pred hhhHH
Confidence 44443
No 6
>PTZ00193 60S ribosomal protein L31; Provisional
Probab=99.94 E-value=1.4e-27 Score=233.82 Aligned_cols=79 Identities=37% Similarity=0.517 Sum_probs=75.2
Q ss_pred CCCCCcccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEeCccchHHHHhcCCCCCCCceEEEeccc
Q psy3462 116 KKKPLNEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRIDTRLNKHIWSKGINNHTLGTAYFDSAA 194 (795)
Q Consensus 116 ~~s~~~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrID~~LNk~IWsrGirnpP~rirV~~s~~ 194 (795)
.++++.|++||||||||||++||++|+||||+||++||+||+|||||+||+|||+||++||++||+|||++|||+.+..
T Consensus 76 ~~~~~~e~VTREyTINLHKriHgv~fKKRAPrAIKeIRkFA~K~MgT~DVRIDtrLNkaIWsrGIRnvP~RIRVRlsRK 154 (188)
T PTZ00193 76 RTGRKPDNISMEATIHLSKLLKKKTFHKRAPIAIKRIKAFVGRLMKTKDNRIDASLNTYIWHKGVKGVPGRVRVLVERK 154 (188)
T ss_pred hhccCCCcceeEEEEeeeehhcCCCccccCHHHHHHHHHHHHHhcCCCcEEECHHHHHHHHHccCcCCCceEEEEEEee
Confidence 3456789999999999999999999999999999999999999999999999999999999999999999999998765
No 7
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.93 E-value=2e-25 Score=260.94 Aligned_cols=102 Identities=21% Similarity=0.299 Sum_probs=86.8
Q ss_pred eeeccC-CCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 242 VKVEFP-VKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 242 ~~~~fp-y~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
+.-.+| |++||.|.+||.+|+++|.+.. ...++++++|||||||||+|||+|++.|+...+
T Consensus 17 l~~~~~~~e~R~~Q~~M~~~V~~al~~~~------------------~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~ 78 (697)
T PRK11747 17 LQEQLPGFIPRAGQRQMIAEVAKTLAGEY------------------LKDGRILVIEAGTGVGKTLSYLLAGIPIARAEK 78 (697)
T ss_pred HHHhCCCCCcCHHHHHHHHHHHHHHhccc------------------ccccceEEEECCCCcchhHHHHHHHHHHHHHcC
Confidence 444567 9999999999999999997510 012478999999999999999999999988654
Q ss_pred H---------HHHHHHHhhhhhhhhhcCCCCceEEEecccc-cccccchhh
Q psy3462 321 E---------LVQQKMFEQRTQDLQKIPFRKLKISRLKAKD-FSTNNGMEQ 361 (795)
Q Consensus 321 k---------~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~-~~~~~~~~~ 361 (795)
+ .||+||+.||+|.|+++++.+++++++|||. |.|.+...+
T Consensus 79 k~vVIST~T~~LQeQL~~kDlP~l~~~l~~~~~~~llKGr~nYlCl~r~~~ 129 (697)
T PRK11747 79 KKLVISTATVALQEQLVSKDLPLLLKISGLDFKFTLAKGRGRYVCPRKLAA 129 (697)
T ss_pred CeEEEEcCCHHHHHHHHhhhhhHHHHHcCCCceEEEEcCccccccHHHHHH
Confidence 4 7999999999999999999999999999997 777666554
No 8
>PF01198 Ribosomal_L31e: Ribosomal protein L31e; InterPro: IPR000054 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. These proteins have 87 to 128 amino-acid residues. This family consists of: Yeast L34 Archaeal L31 [] Plants L31 Mammalian L31 [] ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3G6E_X 3I56_X 1YIT_X 1NJI_Y 3CC4_X 1VQM_X 1KC8_Y 1VQ9_X 1VQN_X 1M1K_Y ....
Probab=99.93 E-value=1.2e-26 Score=205.54 Aligned_cols=74 Identities=53% Similarity=0.775 Sum_probs=67.9
Q ss_pred cccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEeCccchHHHHhcCCCCCCCceEEEecccc
Q psy3462 121 NEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRIDTRLNKHIWSKGINNHTLGTAYFDSAAK 195 (795)
Q Consensus 121 ~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrID~~LNk~IWsrGirnpP~rirV~~s~~~ 195 (795)
.+++||||||||||+ |+++|++|||+||++||+||+|||||+||+|||+||++||++|++|||++|+|+++...
T Consensus 1 ~~~v~re~TInL~k~-~~~~~~kRA~rAvk~Ir~f~~k~mkt~dV~iD~~lN~~IWsrGi~~pP~rIRVr~~r~~ 74 (83)
T PF01198_consen 1 KEVVTREYTINLRKV-HGVPFKKRAPRAVKEIRKFAQKHMKTEDVKIDPELNKAIWSRGIRKPPRRIRVRVSRKE 74 (83)
T ss_dssp TSSEEEEEEEECHHH-CCSSGGGHHHHHHHHHHHHHHHHHTTSCEEE-HHHHHHHHTTTSSS--SEEEEEEEEET
T ss_pred CCceeEEEEEechhh-cCCCCcccCHHHHHHHHHHHHHHhCCCceEEchHHHHHHHhcccCCCCceEEEEEEEcc
Confidence 378999999999997 99999999999999999999999999999999999999999999999999999987764
No 9
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.93 E-value=1.7e-24 Score=259.83 Aligned_cols=130 Identities=12% Similarity=0.136 Sum_probs=93.1
Q ss_pred cEEEcCCCcchhhHHhhhcc---cce-eEeec---Cc----cccceEEEEecCCCCCCCcccccccc---cCCcccchH-
Q psy3462 557 NIFYDTLMLCDVQTKETKHR---DSV-KQVMG---KG----NLELCKGVFWTRFPNTCQYSVVYPTG---LLKGGDWYQ- 621 (795)
Q Consensus 557 ~IFiE~kd~~e~~~~L~~Y~---~ai-fAV~G---GK----nl~rcViVVGIPYPn~~d~~Lk~~~~---~~~G~ewY~- 621 (795)
.++....+..+...+++.|+ ++| |++.. |- +..+||||+++|||++.|+.++.... ...++.||.
T Consensus 782 ~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~ 861 (928)
T PRK08074 782 VLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQEL 861 (928)
T ss_pred eEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhh
Confidence 45554322234456666664 345 44311 21 57899999999999999998873211 112455644
Q ss_pred --HHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhhccccCChhHHHHHHHHHH
Q psy3462 622 --IQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQVQNTSSHNTFMENLRNFV 686 (795)
Q Consensus 622 --~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~l~~~~sfe~~~~~l~~Ff 686 (795)
..|+.+++|++||.||+++|+|+|+++|+|+..++|...+...+-..-....+++++...+..|+
T Consensus 862 ~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 862 SLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVPVYEGTLEELLEEVEEFL 928 (928)
T ss_pred hhHHHHHHHHhhhhhhcccCCceEEEEEecCccccchHHHHHHHhCCCCCcccCCHHHHHHHHHhhC
Confidence 36999999999999999999999999999999999999988877652223458888888888874
No 10
>PRK01192 50S ribosomal protein L31e; Reviewed
Probab=99.92 E-value=6.6e-26 Score=203.06 Aligned_cols=73 Identities=33% Similarity=0.513 Sum_probs=69.1
Q ss_pred cccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCC--CeEeCccchHHHHhcCCCCCCCceEEEeccc
Q psy3462 121 NEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTE--DVRIDTRLNKHIWSKGINNHTLGTAYFDSAA 194 (795)
Q Consensus 121 ~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~--dVrID~~LNk~IWsrGirnpP~rirV~~s~~ 194 (795)
.+++||+|||||||+ |+++|+||||+||++||+||+|||||+ ||+|||+||++||++|++|||++|||+++..
T Consensus 3 ~~~~~r~yTInLrk~-~~~~~~kRA~rAik~Ir~f~~k~mkt~~~~V~iD~~lN~~IW~rGi~~~P~riRVr~~rk 77 (89)
T PRK01192 3 KEVEERIYTIPLRDV-KKVPRTKRADRAVKLVREFLARHFKADEDKVKIDPSINEKIWERGREKPPSKVRVRVAKK 77 (89)
T ss_pred CcceEEEEEEeCeec-cCCCccccCHHHHHHHHHHHHHHhCCCCCcEEEChHHHHHHHHccCCCCCceEEEEEEEe
Confidence 467899999999996 999999999999999999999999998 9999999999999999999999999997554
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.92 E-value=4.7e-25 Score=233.46 Aligned_cols=195 Identities=26% Similarity=0.352 Sum_probs=135.6
Q ss_pred eeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH-
Q psy3462 243 KVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE- 321 (795)
Q Consensus 243 ~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k- 321 (795)
.|.|||+|||+|.+||+.|++++++ ++++++|||||||||+|||+|+|+|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~-----------------------~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~ 58 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDR-----------------------GKIGILESPTGTGKTLSLLCLTLTWLRSFPER 58 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHc-----------------------CCcEEEECCCCcchhHHHHHHHHHHHHhCccc
Confidence 5789999999999999999999975 5799999999999999999999999876432
Q ss_pred ----HH-----HHHHHhhhhhhhhhcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeee
Q psy3462 322 ----LV-----QQKMFEQRTQDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVL 392 (795)
Q Consensus 322 ----~L-----Q~Ql~~kdip~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l 392 (795)
.+ ...+.++.+|.++++.. ..++++.||++|+.|-++++++.....+..++
T Consensus 59 ~~~~kvi~~t~T~~~~~q~i~~l~~~~~--------------------~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l 118 (289)
T smart00488 59 IQKIKLIYLSRTVSEIEKRLEELRKLMQ--------------------KVEYESDEESEKQAQLLHELGREKPKVLGLSL 118 (289)
T ss_pred ccccceeEEeccHHHHHHHHHHHHhccc--------------------ccceecccchhHHHHHHHHHhccCCCcceeEe
Confidence 10 11123333555554321 12678999999999999999864445667888
Q ss_pred cccccccccchhhhhhccccccceeecccchhhHHhhhh--hcccccccccccccccccccchhhhHhhhcccCCCCccc
Q psy3462 393 NGRSKNLVSSIDFILGLLYKGIQTCITTINQQEDELRQS--TKKTKVDKLKVLNGRSKNLVSSIDFILGLLYKGVNCEDY 470 (795)
Q Consensus 393 ~sR~~~~~~~~~~~~~~~~~~~~lCi~~~~~~v~~~~~~--~~~~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~~y 470 (795)
+||+ |+|| |+.|..+... ..+..|++|.. .+++..-... .+...|+||
T Consensus 119 ~sR~------------------~lCi---n~~v~~~~~~~~~~~~~C~~l~~-~~~~~~~~~~--------~~~~~c~~~ 168 (289)
T smart00488 119 TSRK------------------NLCL---NPEVRTLKQNGLVVDEVCRSLTA-SKARKYRYEN--------PKVERCPFY 168 (289)
T ss_pred echh------------------hcCC---ChHHhhcccccchHHHHHHHHHh-hccccccccc--------cCCCCCCcc
Confidence 9999 8999 7788865542 34578988742 2222110000 112359965
Q ss_pred hhcccchhhhhhhhhhhhhcccccCccccccCCCCChhHHHHHhhhCCccccchhhhh
Q psy3462 471 HVCMESSVAFDQLIQLDLMLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQL 528 (795)
Q Consensus 471 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~ 528 (795)
. +... ......+..+ ++++|||..+|++++.||||.++..
T Consensus 169 ~-~~~~-----------~~~~~~~~~~------~~d~e~l~~~~~~~~~CpY~~~r~~ 208 (289)
T smart00488 169 E-NTEF-----------LLVRDLLPAE------VYDIEDLLELGKRLGGCPYFASRKA 208 (289)
T ss_pred c-hhhh-----------hhhhhhcccC------CCCHHHHHHhcccCCCChhHHHHHH
Confidence 4 2211 0001123333 4999999999999999999999754
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.92 E-value=4.7e-25 Score=233.46 Aligned_cols=195 Identities=26% Similarity=0.352 Sum_probs=135.6
Q ss_pred eeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH-
Q psy3462 243 KVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE- 321 (795)
Q Consensus 243 ~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k- 321 (795)
.|.|||+|||+|.+||+.|++++++ ++++++|||||||||+|||+|+|+|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~-----------------------~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~ 58 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDR-----------------------GKIGILESPTGTGKTLSLLCLTLTWLRSFPER 58 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHc-----------------------CCcEEEECCCCcchhHHHHHHHHHHHHhCccc
Confidence 5789999999999999999999975 5799999999999999999999999876432
Q ss_pred ----HH-----HHHHHhhhhhhhhhcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeee
Q psy3462 322 ----LV-----QQKMFEQRTQDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVL 392 (795)
Q Consensus 322 ----~L-----Q~Ql~~kdip~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l 392 (795)
.+ ...+.++.+|.++++.. ..++++.||++|+.|-++++++.....+..++
T Consensus 59 ~~~~kvi~~t~T~~~~~q~i~~l~~~~~--------------------~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l 118 (289)
T smart00489 59 IQKIKLIYLSRTVSEIEKRLEELRKLMQ--------------------KVEYESDEESEKQAQLLHELGREKPKVLGLSL 118 (289)
T ss_pred ccccceeEEeccHHHHHHHHHHHHhccc--------------------ccceecccchhHHHHHHHHHhccCCCcceeEe
Confidence 10 11123333555554321 12678999999999999999864445667888
Q ss_pred cccccccccchhhhhhccccccceeecccchhhHHhhhh--hcccccccccccccccccccchhhhHhhhcccCCCCccc
Q psy3462 393 NGRSKNLVSSIDFILGLLYKGIQTCITTINQQEDELRQS--TKKTKVDKLKVLNGRSKNLVSSIDFILGLLYKGVNCEDY 470 (795)
Q Consensus 393 ~sR~~~~~~~~~~~~~~~~~~~~lCi~~~~~~v~~~~~~--~~~~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~~y 470 (795)
+||+ |+|| |+.|..+... ..+..|++|.. .+++..-... .+...|+||
T Consensus 119 ~sR~------------------~lCi---n~~v~~~~~~~~~~~~~C~~l~~-~~~~~~~~~~--------~~~~~c~~~ 168 (289)
T smart00489 119 TSRK------------------NLCL---NPEVRTLKQNGLVVDEVCRSLTA-SKARKYRYEN--------PKVERCPFY 168 (289)
T ss_pred echh------------------hcCC---ChHHhhcccccchHHHHHHHHHh-hccccccccc--------cCCCCCCcc
Confidence 9999 8999 7788865542 34578988742 2222110000 112359965
Q ss_pred hhcccchhhhhhhhhhhhhcccccCccccccCCCCChhHHHHHhhhCCccccchhhhh
Q psy3462 471 HVCMESSVAFDQLIQLDLMLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQL 528 (795)
Q Consensus 471 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~ 528 (795)
. +... ......+..+ ++++|||..+|++++.||||.++..
T Consensus 169 ~-~~~~-----------~~~~~~~~~~------~~d~e~l~~~~~~~~~CpY~~~r~~ 208 (289)
T smart00489 169 E-NTEF-----------LLVRDLLPAE------VYDIEDLLELGKRLGGCPYFASRKA 208 (289)
T ss_pred c-hhhh-----------hhhhhhcccC------CCCHHHHHHhcccCCCChhHHHHHH
Confidence 4 2211 0001123333 4999999999999999999999754
No 13
>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=99.91 E-value=9.7e-24 Score=251.29 Aligned_cols=130 Identities=18% Similarity=0.213 Sum_probs=96.8
Q ss_pred CcEEEcCCCcchhhHHhhhccc---ce-eEe---ecCc----cccceEEEEecCCCCCCCcccccccc---cCCcccchH
Q psy3462 556 RNIFYDTLMLCDVQTKETKHRD---SV-KQV---MGKG----NLELCKGVFWTRFPNTCQYSVVYPTG---LLKGGDWYQ 621 (795)
Q Consensus 556 K~IFiE~kd~~e~~~~L~~Y~~---ai-fAV---~GGK----nl~rcViVVGIPYPn~~d~~Lk~~~~---~~~G~ewY~ 621 (795)
.+++.+..+ .+...+++.|+. +| +++ ..|- +..++|||+|+|||++.|+.++.... ...++.||.
T Consensus 703 ~~~l~q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~ 781 (850)
T TIGR01407 703 YEVLAQGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYD 781 (850)
T ss_pred ceEEecCCC-ccHHHHHHHHHhCCCeEEEEcceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHH
Confidence 467777655 355667777753 34 332 1121 57789999999999999998873211 112344543
Q ss_pred ---HHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhhcccc-CChhHHHHHHHHHH
Q psy3462 622 ---IQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQVQNT-SSHNTFMENLRNFV 686 (795)
Q Consensus 622 ---~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~l~~~-~sfe~~~~~l~~Ff 686 (795)
.+|+.+++|++||+||+++|+|+|+++|.||...+|...+++++.+..... .+++++...+..|+
T Consensus 782 ~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~~~~~~~~~~~~~~~~~~~ 850 (850)
T TIGR01407 782 YVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVKGDILGELLEAIKEFL 850 (850)
T ss_pred hhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCccccccCCHHHHHHHHHhhC
Confidence 469999999999999999999999999999999999999999987654433 35889999888875
No 14
>KOG0893|consensus
Probab=99.91 E-value=2e-25 Score=210.55 Aligned_cols=82 Identities=52% Similarity=0.803 Sum_probs=79.3
Q ss_pred CCCCCCCCcccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEeCccchHHHHhcCCCCCCCceEEEec
Q psy3462 113 PATKKKPLNEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRIDTRLNKHIWSKGINNHTLGTAYFDS 192 (795)
Q Consensus 113 ~k~~~s~~~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrID~~LNk~IWsrGirnpP~rirV~~s 192 (795)
+++++|+++|+||||||||+||++|+++|+|+||+|++||++||+|+|||+||++|++||++||+|||+|+|++++|+.+
T Consensus 9 ~~k~~s~ine~vtre~tinihk~~h~v~fkK~ap~alkeI~kFA~keMgt~dv~~Dt~lnkavwakgirnv~~~irvrls 88 (125)
T KOG0893|consen 9 KKKGHSAINEVVTREYTINIHKRIHGVGFKKRAPRALKEIWKFAMKEMGTPDVHVDTRLNKAVWEKGIRNVPYRIRVRLS 88 (125)
T ss_pred cccCccchhhhhhhheecccccchhccchhhhhHHHHHHHHHHHHHHhCCccceecchhhHHHHHhcccCCcchhhcccc
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cc
Q psy3462 193 AA 194 (795)
Q Consensus 193 ~~ 194 (795)
..
T Consensus 89 rk 90 (125)
T KOG0893|consen 89 RK 90 (125)
T ss_pred cc
Confidence 66
No 15
>COG2097 RPL31A Ribosomal protein L31E [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=2.1e-23 Score=185.73 Aligned_cols=72 Identities=43% Similarity=0.639 Sum_probs=69.1
Q ss_pred ccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEeCccchHHHHhcCCCCCCCceEEEeccc
Q psy3462 122 EVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRIDTRLNKHIWSKGINNHTLGTAYFDSAA 194 (795)
Q Consensus 122 e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrID~~LNk~IWsrGirnpP~rirV~~s~~ 194 (795)
++.|++||||||+ ++++++++|||+||++||+|++|||++++|+|||+||++||+||+++||++|||++++-
T Consensus 5 ~~~er~ytI~LR~-~~~v~r~kRA~rAVk~ir~fv~rHmk~e~V~id~~lNe~iW~rG~ekpP~klRVrv~k~ 76 (89)
T COG2097 5 VVVERIYTIPLRR-AKKVPRTKRAPRAVKIIRKFVARHMKAEEVRIDPSLNEKIWERGIEKPPSKLRVRVSKF 76 (89)
T ss_pred ccceEEEEEEchh-hccCCccccchHHHHHHHHHHHHHhCCceEEECHHHhHHHHHhhccCCCceEEEEEEEe
Confidence 5689999999995 89999999999999999999999999999999999999999999999999999998775
No 16
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.88 E-value=3.8e-23 Score=198.86 Aligned_cols=118 Identities=24% Similarity=0.313 Sum_probs=100.7
Q ss_pred HhhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhccc------ce-eEeecCc---------cccceEEEEec
Q psy3462 534 EHLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRD------SV-KQVMGKG---------NLELCKGVFWT 597 (795)
Q Consensus 534 ~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~------ai-fAV~GGK---------nl~rcViVVGI 597 (795)
++|+.++..|++++.+ ...|+||+|++++.+.+.++++|++ +| |+|+||+ +.++||+|+|+
T Consensus 2 ~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~gl 78 (142)
T smart00491 2 RYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGI 78 (142)
T ss_pred hHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEec
Confidence 5899999999998887 5578999999998778899999965 34 9999997 57899999999
Q ss_pred CCCCCCCcccccc------cc-cCCcccchHHHHHHHHHhccCccccccCceeEEEEeecccCC
Q psy3462 598 RFPNTCQYSVVYP------TG-LLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYS 654 (795)
Q Consensus 598 PYPn~~d~~Lk~~------~~-~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~ 654 (795)
|||++.|+.++.. .. ......||..+|+++++||+||+|||++|||+|+|+|+||.+
T Consensus 79 Pfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~Qa~GR~iR~~~D~g~i~l~D~R~~~ 142 (142)
T smart00491 79 PFPNPDSPILRARLEYLDEKGGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYAR 142 (142)
T ss_pred CCCCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHhCccccCccceEEEEEEeccccC
Confidence 9999999886621 11 223456799999999999999999999999999999999964
No 17
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.88 E-value=1.4e-21 Score=232.29 Aligned_cols=99 Identities=16% Similarity=0.212 Sum_probs=81.3
Q ss_pred ccceEEEEecCCCCCCCcccccccc---cCCcccchH---HHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhH
Q psy3462 588 LELCKGVFWTRFPNTCQYSVVYPTG---LLKGGDWYQ---IQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGL 661 (795)
Q Consensus 588 l~rcViVVGIPYPn~~d~~Lk~~~~---~~~G~ewY~---~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~L 661 (795)
...+|||++||||+|.||.++.... ...++.||. ..|+.++.|++||.||+++|+|+|+++|+|+.+++|.+.+
T Consensus 714 ~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~ 793 (820)
T PRK07246 714 DRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQI 793 (820)
T ss_pred CeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHH
Confidence 4567889999999999998773211 112345543 5599999999999999999999999999999999999999
Q ss_pred hHHHHhhcc-ccCChhHHHHHHHHHH
Q psy3462 662 SKWVRNQVQ-NTSSHNTFMENLRNFV 686 (795)
Q Consensus 662 P~WIr~~l~-~~~sfe~~~~~l~~Ff 686 (795)
.+|+-+.+. ...+++++.+.++.||
T Consensus 794 l~sLP~~~~~~~~~~~~~~~~~~~f~ 819 (820)
T PRK07246 794 LASLAEEFLISQQNFSDVLVEIDRFL 819 (820)
T ss_pred HHhCCCCCccccCCHHHHHHHHHHhh
Confidence 999987543 2468999999999998
No 18
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=99.85 E-value=4.9e-22 Score=194.43 Aligned_cols=129 Identities=26% Similarity=0.329 Sum_probs=92.1
Q ss_pred HhhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhccc---ce-eEeecCc---------cccceEEEEecCCC
Q psy3462 534 EHLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRD---SV-KQVMGKG---------NLELCKGVFWTRFP 600 (795)
Q Consensus 534 ~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~---ai-fAV~GGK---------nl~rcViVVGIPYP 600 (795)
++|+.+...|+..+. ...+++|.|. ..+...++++|++ +| +||+||+ +..+||+|+|+|||
T Consensus 20 ~~l~~~~~~~~~~~~----~~~~~v~~q~--~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~~~~r~vii~glPfp 93 (167)
T PF13307_consen 20 RRLEKVYERLKERLE----EKGIPVFVQG--SKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFP 93 (167)
T ss_dssp HHHHHHHTT-TSS-E-----ETSCEEEST--CCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--ECESEEEEEEES----
T ss_pred HHHHHHHHHHHhhcc----cccceeeecC--cchHHHHHHHHHhccCeEEEEEecccEEEeecCCCchhheeeecCCCCC
Confidence 578888889988763 3345899995 3467888888854 34 8999997 47889999999999
Q ss_pred CCCCcccccc------cccCCcccchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhHhHHHHhh
Q psy3462 601 NTCQYSVVYP------TGLLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGLSKWVRNQ 668 (795)
Q Consensus 601 n~~d~~Lk~~------~~~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~LP~WIr~~ 668 (795)
++.|+.++.. .....+..||..+|+++++||+||+|||++|||+|+|+|+||..+.+...||+|++++
T Consensus 94 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~llD~R~~~~~y~~~l~~~l~~~ 167 (167)
T PF13307_consen 94 PPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILLDSRFLSKRYGKYLPKWLPPY 167 (167)
T ss_dssp -TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEESGGGGGHHHHHH-T------
T ss_pred CCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEEcCccccchhhhcCccccccC
Confidence 9999987621 2334457889999999999999999999999999999999999999999999999863
No 19
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.85 E-value=1.8e-21 Score=187.25 Aligned_cols=120 Identities=17% Similarity=0.133 Sum_probs=100.5
Q ss_pred HhhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhcccc----e-eEeec---Cc----cccceEEEEecCCCC
Q psy3462 534 EHLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRDS----V-KQVMG---KG----NLELCKGVFWTRFPN 601 (795)
Q Consensus 534 ~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~a----i-fAV~G---GK----nl~rcViVVGIPYPn 601 (795)
.||+.++..|+.+|.+++|.++|+||+|+++..+.+.++++|++. | |||++ |- +..+||+|+|||||+
T Consensus 2 ~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~ 81 (141)
T smart00492 2 QYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPY 81 (141)
T ss_pred HHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCCCC
Confidence 589999999999999999999999999999887889999999643 4 66665 32 688999999999999
Q ss_pred CCCcccccc----ccc--CCccc-chHHHHHHHHHhccCccccccCceeEEEEeecccC
Q psy3462 602 TCQYSVVYP----TGL--LKGGD-WYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFY 653 (795)
Q Consensus 602 ~~d~~Lk~~----~~~--~~G~e-wY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~ 653 (795)
+.|+.++.. +.. ..+.. +|..+|+++++||+||+|||++|||+|+|+|.||.
T Consensus 82 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l~D~R~~ 140 (141)
T smart00492 82 PDSPILKARLELLRDKGQIRPFDFVSLPDAMRTLAQCVGRLIRGANDYGVVVIADKRFA 140 (141)
T ss_pred CCCHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHhCccccCcCceEEEEEEecccc
Confidence 999987731 111 12222 35689999999999999999999999999999986
No 20
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.55 E-value=6.9e-15 Score=156.32 Aligned_cols=54 Identities=35% Similarity=0.483 Sum_probs=50.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
.++|.|||+|.+||+.|++++.++.++++|||||||||+|||+|+|.|+...+.
T Consensus 4 ~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00488 4 YFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 467789999999999999999999999999999999999999999999886554
No 21
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.55 E-value=6.9e-15 Score=156.32 Aligned_cols=54 Identities=35% Similarity=0.483 Sum_probs=50.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
.++|.|||+|.+||+.|++++.++.++++|||||||||+|||+|+|.|+...+.
T Consensus 4 ~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00489 4 YFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 467789999999999999999999999999999999999999999999886554
No 22
>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=99.52 E-value=1.3e-14 Score=170.58 Aligned_cols=68 Identities=24% Similarity=0.449 Sum_probs=60.8
Q ss_pred CCCCC-CHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccc
Q psy3462 17 NYFLK-YSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSD 95 (795)
Q Consensus 17 ~~~~p-~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth 95 (795)
++|.| ||+|.+||+.|++++.+++++++|||||||||+|.|+|+|+|+...+ ..+++|||||||
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~---------------~~~kIiy~sRTh 70 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP---------------EVRKIIYASRTH 70 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc---------------ccccEEEEcccc
Confidence 34445 89999999999999999999999999999999999999999987643 347999999999
Q ss_pred cccc
Q psy3462 96 FFLL 99 (795)
Q Consensus 96 ~~l~ 99 (795)
+|+.
T Consensus 71 sQl~ 74 (705)
T TIGR00604 71 SQLE 74 (705)
T ss_pred hHHH
Confidence 9996
No 23
>KOG1133|consensus
Probab=99.47 E-value=6.5e-14 Score=160.51 Aligned_cols=54 Identities=31% Similarity=0.540 Sum_probs=51.3
Q ss_pred hCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 14 NEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 14 ~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
.++++|.||.+|.++|+++++.|+.|+.+|+||||||||||+++|++|.|+.+.
T Consensus 9 ~F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~ 62 (821)
T KOG1133|consen 9 EFPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDF 62 (821)
T ss_pred ccCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHh
Confidence 456688999999999999999999999999999999999999999999999877
No 24
>KOG1132|consensus
Probab=99.36 E-value=4.2e-13 Score=157.08 Aligned_cols=154 Identities=25% Similarity=0.384 Sum_probs=129.0
Q ss_pred hhhHHHHHhccccchHHhhccCcEEEcCCCcchhhHHhhhcccce----------eEeecCc---------cccceEEEE
Q psy3462 535 HLNPYVLKVKDTPCIEDLVLKRNIFYDTLMLCDVQTKETKHRDSV----------KQVMGKG---------NLELCKGVF 595 (795)
Q Consensus 535 ~me~iv~~W~~tgil~~I~~~K~IFiE~kd~~e~~~~L~~Y~~ai----------fAV~GGK---------nl~rcViVV 595 (795)
-|+.++..|...|.|+++...|++++||+...+...++..|..+| |||+||| +.+|+||++
T Consensus 573 vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~t 652 (945)
T KOG1132|consen 573 VMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLDFSDDNGRAVIIT 652 (945)
T ss_pred HHHHHHHHHHcchHHHHhhcccCceeccCCccchHHHHHHHHHHhhCccccceEEEEEecccccCCCCccccCCceeEEe
Confidence 578889999999999999999999999998778888888886554 8999998 589999999
Q ss_pred ecCCCCCCCccccc-------cc-------ccCCcccchHHHHHHHHHhccCccccccCceeEEEEeecccCChhhhhhH
Q psy3462 596 WTRFPNTCQYSVVY-------PT-------GLLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRFYSKNSQQGL 661 (795)
Q Consensus 596 GIPYPn~~d~~Lk~-------~~-------~~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf~~~~~~~~L 661 (795)
|||||+..|+.|+. .+ ....|.+||+.+|+|||||||||||||++|||+++|+|.||...+-+..+
T Consensus 653 GlPyP~~~D~~V~lK~~y~D~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~~~~~l 732 (945)
T KOG1132|consen 653 GLPYPPVMDPRVKLKKQYLDENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENADARSQL 732 (945)
T ss_pred cCCCCCCCCHHHHHHHHhhhhhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCcccccc
Confidence 99999999999882 11 14568999999999999999999999999999999999999999888889
Q ss_pred hHHHHhhccccCChhHHHHHHHHHHHHH
Q psy3462 662 SKWVRNQVQNTSSHNTFMENLRNFVRRR 689 (795)
Q Consensus 662 P~WIr~~l~~~~sfe~~~~~l~~Ffk~~ 689 (795)
|+|++... .....-+.+..+..+++.+
T Consensus 733 skw~r~~~-~~~~~~~~~~~~~r~~r~~ 759 (945)
T KOG1132|consen 733 SKWIRSVK-CDSRYCEVISSLARKFRTH 759 (945)
T ss_pred chhhhccc-cccccccccchhhhhhhcc
Confidence 99999832 2233334444555555544
No 25
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.28 E-value=2.7e-12 Score=149.09 Aligned_cols=91 Identities=30% Similarity=0.464 Sum_probs=74.6
Q ss_pred eeeccC-CCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 242 VKVEFP-VKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 242 ~~~~fp-y~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
....|| |+|||.|.+||..|..++++ ++++++|||||||||+|||+|++.|++..+
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~-----------------------~~~~~iEapTGtGKTl~yL~~al~~~~~~~ 63 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKG-----------------------GEGLLIEAPTGTGKTLAYLLPALAYAREEG 63 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcC-----------------------CCcEEEECCCCccHHHHHHHHHHHHHHHcC
Confidence 345677 79999999999999988875 467999999999999999999999998764
Q ss_pred H---------HHHHHHHhhhhhhhhhcCCCCceEEEecccc-ccc
Q psy3462 321 E---------LVQQKMFEQRTQDLQKIPFRKLKISRLKAKD-FST 355 (795)
Q Consensus 321 k---------~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~-~~~ 355 (795)
+ .+|+|++++|.|..........++..+|||. |.+
T Consensus 64 ~~viist~t~~lq~q~~~~~~~~~~~~~~~~~~~~~~kgr~n~~~ 108 (654)
T COG1199 64 KKVIISTRTKALQEQLLEEDLPIHKLLKKLGGKFALLKGRSNYLC 108 (654)
T ss_pred CcEEEECCCHHHHHHHHHhhcchhhhhhhhhhHHHHHhccccccc
Confidence 3 7999999999998444433333778889996 444
No 26
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.24 E-value=7.1e-12 Score=147.70 Aligned_cols=67 Identities=21% Similarity=0.273 Sum_probs=61.1
Q ss_pred hhHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhc-----CCcEEEECCCCCchHHHHHHHHHHHHHHhhHH
Q psy3462 4 KSSDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNK-----AKNCLLESPTGSGKTLALLCSVLAWQRKEKEL 70 (795)
Q Consensus 4 ~~~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~-----~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~ 70 (795)
..++.|..+...++.|.+|++|.+||.+|+++|.+ ++++++|||||||||||||+|++.|+...++.
T Consensus 9 ~i~~~~~~l~~~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~ 80 (697)
T PRK11747 9 QIRQAYKALQEQLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKK 80 (697)
T ss_pred HHHHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCe
Confidence 36788999999999999999999999999999988 47899999999999999999999999866543
No 27
>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=99.08 E-value=2e-10 Score=134.11 Aligned_cols=84 Identities=17% Similarity=0.255 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh--h--------HH
Q psy3462 253 SQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE--K--------EL 322 (795)
Q Consensus 253 ~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~--~--------k~ 322 (795)
.|.+||..|+++|++ ++++++|||||||||+|||+|++.|+... + +.
T Consensus 1 ~Q~~~~~~i~~al~~-----------------------~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~ 57 (636)
T TIGR03117 1 EQALFYLNCLTSLRQ-----------------------KRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLA 57 (636)
T ss_pred CHHHHHHHHHHHHhc-----------------------CCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHH
Confidence 499999999999974 57899999999999999999999998742 2 27
Q ss_pred HHHHHHhhhhhhhh-hcCCCCceEEEecccc-cccccchh
Q psy3462 323 VQQKMFEQRTQDLQ-KIPFRKLKISRLKAKD-FSTNNGME 360 (795)
Q Consensus 323 LQ~Ql~~kdip~l~-~i~~~~l~~~~~KGr~-~~~~~~~~ 360 (795)
||+|+++ |+|.+. +.++.+++++++||+. |.|.+...
T Consensus 58 Lq~Ql~~-~l~~l~~~~l~~~i~~~~lkGr~nYlCl~rl~ 96 (636)
T TIGR03117 58 LMGQLWS-ELERLTAEGLAGPVQAGFFPGSQEFVSPGALQ 96 (636)
T ss_pred HHHHHHH-HHHHHHHhhcCCCeeEEEEECCcccccHHHHH
Confidence 9999996 999999 7888999999999996 76644443
No 28
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.01 E-value=2.7e-10 Score=138.25 Aligned_cols=58 Identities=21% Similarity=0.274 Sum_probs=53.2
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
.+...++.|.+||+|.+||++|++++.++.++++|||||||||+|||+|++.|+...+
T Consensus 248 ~l~~~~~~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~ 305 (928)
T PRK08074 248 KLSLAMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKE 305 (928)
T ss_pred HHHHhCCCCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccC
Confidence 3667788999999999999999999999999999999999999999999999987543
No 29
>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=98.78 E-value=7.6e-09 Score=124.72 Aligned_cols=57 Identities=25% Similarity=0.334 Sum_probs=50.7
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 8 IFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 8 ~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.|+..+.. ++|.+||+|.+||++|++++.+++++++|||||||||+|||+|++.++.
T Consensus 234 ~~~~~~~~-~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~ 290 (850)
T TIGR01407 234 LFSKNIDR-LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI 290 (850)
T ss_pred HHHHhhhh-cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc
Confidence 44555544 6789999999999999999999999999999999999999999999875
No 30
>KOG1131|consensus
Probab=98.73 E-value=1e-08 Score=115.70 Aligned_cols=71 Identities=24% Similarity=0.533 Sum_probs=61.7
Q ss_pred HHhCCCCCCCC----HHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCce
Q psy3462 12 YLNEPNYFLKY----SSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTS 87 (795)
Q Consensus 12 ~~~~~~~~~p~----~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~ 87 (795)
++++++.+||| |.|.++|.++.++|..+.|+++|.|+|||||.|+|.-.++|...... .-.+
T Consensus 4 ~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~--------------~~~K 69 (755)
T KOG1131|consen 4 YIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPD--------------EHRK 69 (755)
T ss_pred eecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCc--------------ccce
Confidence 34666777776 99999999999999999999999999999999999999999877654 2468
Q ss_pred eEEeccccc
Q psy3462 88 FVFCGRSDF 96 (795)
Q Consensus 88 ~~yc~rth~ 96 (795)
++||+||-.
T Consensus 70 liYCSRTvp 78 (755)
T KOG1131|consen 70 LIYCSRTVP 78 (755)
T ss_pred EEEecCcch
Confidence 999999954
No 31
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=98.64 E-value=4.7e-09 Score=103.20 Aligned_cols=115 Identities=23% Similarity=0.262 Sum_probs=73.7
Q ss_pred HHHhHHHHHHHHHHHHhhccc------ccceeeecccccccccchhhhhhccccccceeecccchhhHHhhh-hhccccc
Q psy3462 365 TCITTINQQEDELRQSTKKTR------VDKLKVLNGRSKNLVSSIDFILGLLYKGIQTCITTINQQEDELRQ-STKKTKV 437 (795)
Q Consensus 365 ~~~rt~~q~e~el~~~~~~~~------~~~~~~l~sR~~~~~~~~~~~~~~~~~~~~lCi~~~~~~v~~~~~-~~~~~~c 437 (795)
||+||++|+++-++++++-.. ..+..+|+||+ ++|+ |+.|..+.. ...+..|
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~~~~~~~~~l~gR~------------------~~C~---~~~v~~~~~~~~~~~~C 59 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPKGESIKAVILKGRQ------------------NLCI---NSKVKRLANNEDINEFC 59 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-------EEEE--CC------------------CC-T---TCHHHTT-SHHHHHHHH
T ss_pred CCCcCHHHHHHHHHHHHHHHhhcccccceeeeEecccc------------------cccc---CchhhhhhhhhhHHHHH
Confidence 588999999999999997633 24789999999 9999 778887765 4667778
Q ss_pred ccccccccccccccchhhhHhhhcccCCCCccchhcccchhhhhhhhhhhhhcccccCccccccCCCCChhHHHHHhhhC
Q psy3462 438 DKLKVLNGRSKNLVSSIDFILGLLYKGVNCEDYHVCMESSVAFDQLIQLDLMLDEHLNPYVLKVKDTPCIEDLEQFSTRA 517 (795)
Q Consensus 438 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~ 517 (795)
+.+. +.. .....|+||. +..... .. .....+.+ +++|||.++|.++
T Consensus 60 ~~l~----------~~~-------~~~~~C~~~~-~~~~~~------~~----~~~~~~~~------~d~~~l~~~~~~~ 105 (174)
T PF06733_consen 60 RELR----------KSG-------KRKESCPYYN-NFDEIE------EL----SDLSNEEV------WDIEELVEIGKKH 105 (174)
T ss_dssp HHHH----------HHH-------HCTCCSTTTT-GGGG-H------HH----HHHHCHCH------HHHHHHHHHHHHC
T ss_pred HHhh----------ccc-------ccccccchhH-HHHhHH------Hh----hhhccccc------ccHHHHHHhcCCC
Confidence 7761 110 0113699665 321100 00 22344455 9999999999999
Q ss_pred CccccchhhhhhHHHHH
Q psy3462 518 LVSPCFQLIQLDLMLDE 534 (795)
Q Consensus 518 ~~cpyf~~~q~~~~~~~ 534 (795)
+.||||.++..-...|.
T Consensus 106 ~~CPY~~~r~~~~~adi 122 (174)
T PF06733_consen 106 GVCPYYLARELAKNADI 122 (174)
T ss_dssp T--HHHHHHHCGGG-SE
T ss_pred CCChhHHHHHhcccCCE
Confidence 99999999887766654
No 32
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.63 E-value=3.2e-08 Score=119.08 Aligned_cols=50 Identities=20% Similarity=0.159 Sum_probs=46.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 15 EPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 15 ~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
..+.|++|+.|.+||++|++++.++.++++|||||||||+|||+|++.++
T Consensus 240 ~~~~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~ 289 (820)
T PRK07246 240 ALLGLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS 289 (820)
T ss_pred ccCCCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc
Confidence 45678999999999999999999999999999999999999999988764
No 33
>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=98.57 E-value=7.3e-08 Score=113.00 Aligned_cols=103 Identities=17% Similarity=0.081 Sum_probs=69.2
Q ss_pred CcEEEcCCCcchhhHHhhhcccc-------e-eEeec---Cc------------cccceEEEEecCCCCCCCccccccc-
Q psy3462 556 RNIFYDTLMLCDVQTKETKHRDS-------V-KQVMG---KG------------NLELCKGVFWTRFPNTCQYSVVYPT- 611 (795)
Q Consensus 556 K~IFiE~kd~~e~~~~L~~Y~~a-------i-fAV~G---GK------------nl~rcViVVGIPYPn~~d~~Lk~~~- 611 (795)
-+++++... .....+++.|++. | |+..+ |- +...||||.=+|||. .|+......
T Consensus 496 ~~~l~qg~~-~~~~~l~~~f~~~~~~~~~~vL~gt~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~a~~~~~ 573 (636)
T TIGR03117 496 AEIVIQSEK-NRLASAEQQFLALYANGIQPVLIAAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGL-NRSLSMLKRI 573 (636)
T ss_pred CCEEEeCCC-ccHHHHHHHHHHhhcCCCCcEEEeCCccccccccCCccCCCCCCCcccEEEEEeCCCCc-CChHHHHHHH
Confidence 568887643 2345677777643 3 43322 21 347788888899996 577533211
Q ss_pred ccCCcccc-hHHHHHHHHHhccCccccccCc--eeEEEEeecccCChhhhhhH
Q psy3462 612 GLLKGGDW-YQIQAYRALNQALGRCIRHRYD--WGAILLVDQRFYSKNSQQGL 661 (795)
Q Consensus 612 ~~~~G~ew-Y~~~AmRaVNQAIGRvIRHknD--yGaIiLlD~Rf~~~~~~~~L 661 (795)
....++.| ....|..++.|.+||.||+++| +|+|.++|+| ....|...+
T Consensus 574 ~~~g~~~f~~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ilD~R-~~~~yg~~~ 625 (636)
T TIGR03117 574 RKTSVRPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGR-IHWPYMESW 625 (636)
T ss_pred HhcCCChHhhhHHHHHHHHHhcCceeecCCCcCceEEEEEeCC-CCchhHHHH
Confidence 11123444 4588999999999999999999 9999999999 555555443
No 34
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.24 E-value=4.2e-06 Score=82.64 Aligned_cols=72 Identities=14% Similarity=0.139 Sum_probs=52.9
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCc
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKT 86 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~ 86 (795)
..++.+.. .++..|++.|. ++++.+.++++++++||||+|||++|++|++..+.... ..+++
T Consensus 9 ~i~~~l~~-~~~~~~~~~Q~----~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~-------------~~~~~ 70 (203)
T cd00268 9 ELLRGIYA-LGFEKPTPIQA----RAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSP-------------KKDGP 70 (203)
T ss_pred HHHHHHHH-cCCCCCCHHHH----HHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhc-------------ccCCc
Confidence 45555555 46667999995 44555555899999999999999999999987665442 12467
Q ss_pred eeEEeccccc
Q psy3462 87 SFVFCGRSDF 96 (795)
Q Consensus 87 ~~~yc~rth~ 96 (795)
++++.+.|..
T Consensus 71 ~viii~p~~~ 80 (203)
T cd00268 71 QALILAPTRE 80 (203)
T ss_pred eEEEEcCCHH
Confidence 7888886643
No 35
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.19 E-value=4.1e-06 Score=93.15 Aligned_cols=71 Identities=18% Similarity=0.188 Sum_probs=52.9
Q ss_pred HHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeE
Q psy3462 10 KTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFV 89 (795)
Q Consensus 10 ~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~ 89 (795)
.+.++..++..|++.| .+++.++.+++++++.||||+|||+||++|+|.++..... ...+.++++
T Consensus 13 ~~~l~~~g~~~p~~iQ----~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~-----------~~~~~~~~l 77 (434)
T PRK11192 13 LEALQDKGYTRPTAIQ----AEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPR-----------RKSGPPRIL 77 (434)
T ss_pred HHHHHHCCCCCCCHHH----HHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccc-----------cCCCCceEE
Confidence 3445556888999999 5566666678899999999999999999999988764211 122456788
Q ss_pred Eecccc
Q psy3462 90 FCGRSD 95 (795)
Q Consensus 90 yc~rth 95 (795)
+++.|.
T Consensus 78 il~Pt~ 83 (434)
T PRK11192 78 ILTPTR 83 (434)
T ss_pred EECCcH
Confidence 887553
No 36
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.11 E-value=4.8e-06 Score=92.52 Aligned_cols=53 Identities=13% Similarity=0.152 Sum_probs=43.9
Q ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 9 FKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 9 ~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.+.+. ..++..|+|+| .+++..+.+++++++.||||||||+||++|++..+..
T Consensus 20 ~~~l~-~~g~~~pt~iQ----~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~ 72 (423)
T PRK04837 20 VEALE-KKGFHNCTPIQ----ALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLS 72 (423)
T ss_pred HHHHH-HCCCCCCCHHH----HHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHh
Confidence 34443 45788999999 6667778889999999999999999999999987753
No 37
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.07 E-value=6.5e-06 Score=92.77 Aligned_cols=52 Identities=19% Similarity=0.203 Sum_probs=42.7
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+.+....+..|+|.| .+++.++.+++++|+.||||||||+||++|++..+..
T Consensus 14 ~~l~~~g~~~pt~iQ----~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~ 65 (456)
T PRK10590 14 RAVAEQGYREPTPIQ----QQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLIT 65 (456)
T ss_pred HHHHHCCCCCCCHHH----HHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 334455888999999 5556667778999999999999999999999887643
No 38
>PTZ00110 helicase; Provisional
Probab=98.06 E-value=9.1e-06 Score=94.03 Aligned_cols=52 Identities=21% Similarity=0.172 Sum_probs=43.4
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+.+....+..|+|+| .+++..+.+++++|+.||||||||+||++|++..+..
T Consensus 143 ~~l~~~g~~~pt~iQ----~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~ 194 (545)
T PTZ00110 143 KSLKNAGFTEPTPIQ----VQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINA 194 (545)
T ss_pred HHHHHCCCCCCCHHH----HHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHh
Confidence 344455778899999 6677778889999999999999999999999887653
No 39
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.05 E-value=6.2e-06 Score=94.68 Aligned_cols=49 Identities=24% Similarity=0.357 Sum_probs=40.8
Q ss_pred HhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 13 LNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 13 ~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+...++..|+|+| ..++.++..++++++.||||||||+||++|+|..+.
T Consensus 136 L~~~g~~~ptpiQ----~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~ 184 (518)
T PLN00206 136 LETAGYEFPTPIQ----MQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCC 184 (518)
T ss_pred HHHcCCCCCCHHH----HHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHH
Confidence 3445778999999 455566668899999999999999999999988765
No 40
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.00 E-value=7.3e-06 Score=92.07 Aligned_cols=49 Identities=29% Similarity=0.243 Sum_probs=41.8
Q ss_pred HhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 13 LNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 13 ~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+...++-.|+|.| .+++..+.+++++++.||||||||+||++|++..+.
T Consensus 19 l~~~g~~~~t~iQ----~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~ 67 (460)
T PRK11776 19 LNELGYTEMTPIQ----AQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLD 67 (460)
T ss_pred HHHCCCCCCCHHH----HHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhh
Confidence 3445777899999 666677778999999999999999999999998764
No 41
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.98 E-value=1.6e-05 Score=92.68 Aligned_cols=52 Identities=19% Similarity=0.153 Sum_probs=43.7
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+.+...++..|+|+| ..++..+.+++++|+.||||||||+|||+|++..+..
T Consensus 22 ~~L~~~g~~~ptpiQ----~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~ 73 (572)
T PRK04537 22 AGLESAGFTRCTPIQ----ALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLS 73 (572)
T ss_pred HHHHHCCCCCCCHHH----HHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 344555888999999 6666777889999999999999999999999987654
No 42
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=97.98 E-value=1.1e-05 Score=96.61 Aligned_cols=53 Identities=17% Similarity=0.190 Sum_probs=45.4
Q ss_pred HHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 10 KTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 10 ~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.+.+...++..||++| .+++.++.+|+++|+.||||||||+||++|+|..+..
T Consensus 26 ~~~L~~~g~~~p~~~Q----~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~ 78 (742)
T TIGR03817 26 VAALEAAGIHRPWQHQ----ARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALAD 78 (742)
T ss_pred HHHHHHcCCCcCCHHH----HHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhh
Confidence 4445556777899999 7777788899999999999999999999999988754
No 43
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.98 E-value=1.3e-05 Score=90.71 Aligned_cols=53 Identities=19% Similarity=0.177 Sum_probs=44.3
Q ss_pred HHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 10 KTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 10 ~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.+.+...++-.|+++| .+++..+.+|+++|+.||||||||+||++|++..+..
T Consensus 99 ~~~l~~~g~~~~~~iQ----~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~ 151 (475)
T PRK01297 99 MHAIHDLGFPYCTPIQ----AQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQ 151 (475)
T ss_pred HHHHHHCCCCCCCHHH----HHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHh
Confidence 3445556788899999 6677778889999999999999999999999887653
No 44
>PTZ00424 helicase 45; Provisional
Probab=97.96 E-value=1.5e-05 Score=87.05 Aligned_cols=54 Identities=13% Similarity=0.166 Sum_probs=43.5
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
..++.+... ++..|+|.| .+++..+.++.++++.||||||||++|++|++..+.
T Consensus 38 ~~~~~l~~~-~~~~~~~~Q----~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~ 91 (401)
T PTZ00424 38 DLLRGIYSY-GFEKPSAIQ----QRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLID 91 (401)
T ss_pred HHHHHHHHc-CCCCCCHHH----HHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhc
Confidence 344555443 667899999 677777788899999999999999999999987653
No 45
>KOG0345|consensus
Probab=97.93 E-value=1.1e-05 Score=91.13 Aligned_cols=58 Identities=28% Similarity=0.267 Sum_probs=49.6
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
.+..+.++..+|-..+|.| .+.+..|.+++++++|||||||||||||+|.|..+....
T Consensus 15 ~~l~~~l~~~GF~~mTpVQ----a~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~ 72 (567)
T KOG0345|consen 15 PWLLEALDESGFEKMTPVQ----AATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRRE 72 (567)
T ss_pred HHHHHHHHhcCCcccCHHH----HhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhc
Confidence 4556667776777888999 889999999999999999999999999999999884433
No 46
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.87 E-value=2.5e-05 Score=89.96 Aligned_cols=57 Identities=23% Similarity=0.230 Sum_probs=47.9
Q ss_pred hHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 5 SSDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+..+.+++.+ .+|-.|.|+| ..++..+..+.+++..|+||||||+||++|+|..+..
T Consensus 37 ~~~ll~~l~~-~gf~~pt~IQ----~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~ 93 (513)
T COG0513 37 SPELLQALKD-LGFEEPTPIQ----LAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILK 93 (513)
T ss_pred CHHHHHHHHH-cCCCCCCHHH----HHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhc
Confidence 3455556666 6888999999 7778888888999999999999999999999988653
No 47
>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=97.84 E-value=1.9e-05 Score=89.38 Aligned_cols=43 Identities=26% Similarity=0.350 Sum_probs=36.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
.++..|+|.| .+++.++.+++++++.||||+|||++|++|++.
T Consensus 7 ~g~~~~r~~Q----~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~ 49 (470)
T TIGR00614 7 FGLSSFRPVQ----LEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC 49 (470)
T ss_pred cCCCCCCHHH----HHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH
Confidence 4566899999 666667777889999999999999999999873
No 48
>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=97.83 E-value=2.5e-05 Score=74.17 Aligned_cols=42 Identities=31% Similarity=0.325 Sum_probs=33.0
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 22 YSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
.|.|.+.+. .+.+++++++.||||+|||++|++|++..+...
T Consensus 1 t~~Q~~~~~----~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~ 42 (169)
T PF00270_consen 1 TPLQQEAIE----AIISGKNVLISAPTGSGKTLAYILPALNRLQEG 42 (169)
T ss_dssp -HHHHHHHH----HHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHH----HHHcCCCEEEECCCCCccHHHHHHHHHhhhccC
Confidence 367855544 444778999999999999999999999876554
No 49
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=97.79 E-value=3.2e-05 Score=91.27 Aligned_cols=54 Identities=24% Similarity=0.208 Sum_probs=43.7
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
...+++ ...++..|+|.| .+++..+..++++|+.||||||||+||++|++..+.
T Consensus 16 ~ll~al-~~~G~~~ptpiQ----~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~ 69 (629)
T PRK11634 16 PILEAL-NDLGYEKPSPIQ----AECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLD 69 (629)
T ss_pred HHHHHH-HHCCCCCCCHHH----HHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhh
Confidence 344444 445888999999 556677778899999999999999999999987754
No 50
>KOG0348|consensus
Probab=97.77 E-value=1.9e-05 Score=90.35 Aligned_cols=58 Identities=24% Similarity=0.206 Sum_probs=47.3
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQ 72 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq 72 (795)
.+.+-+..-.|..+| ...+..|.++++++++|+||||||||||+|++..++.....+|
T Consensus 150 ~L~~~m~i~~pTsVQ----kq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~ 207 (708)
T KOG0348|consen 150 HLNTKMKISAPTSVQ----KQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQ 207 (708)
T ss_pred HHHHHhccCccchHh----hcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCcccc
Confidence 344455566799999 5566677779999999999999999999999999887776655
No 51
>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=97.71 E-value=5e-05 Score=72.44 Aligned_cols=45 Identities=27% Similarity=0.392 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CcEEEECCCCCchHHHHHHHHHHH
Q psy3462 19 FLKYSSCKILHLQVIQGCNKA---KNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~~~---~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
+.+|+.|.+.++.+.+.+... .++++.+|||+|||..++..+...
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l 49 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILEL 49 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcc
Confidence 568999999999999999876 889999999999998888543333
No 52
>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=97.66 E-value=5.8e-05 Score=87.81 Aligned_cols=43 Identities=23% Similarity=0.265 Sum_probs=36.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
.++-.++|.| .+++.++.+++++++.||||+|||++|++|++.
T Consensus 9 fg~~~fr~~Q----~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~ 51 (591)
T TIGR01389 9 FGYDDFRPGQ----EEIISHVLDGRDVLVVMPTGGGKSLCYQVPALL 51 (591)
T ss_pred cCCCCCCHHH----HHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHH
Confidence 4455789999 666667778899999999999999999999873
No 53
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.62 E-value=8.2e-05 Score=87.26 Aligned_cols=42 Identities=26% Similarity=0.455 Sum_probs=35.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
++-.++|.| .+++.++.+++++++.+|||+|||++|++|+|.
T Consensus 22 G~~~~r~~Q----~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~ 63 (607)
T PRK11057 22 GYQQFRPGQ----QEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALV 63 (607)
T ss_pred CCCCCCHHH----HHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHH
Confidence 445799999 566666678899999999999999999999874
No 54
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.55 E-value=0.00013 Score=88.95 Aligned_cols=45 Identities=31% Similarity=0.317 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+..|+|.| .++++.+.+++++++.||||||||+||++|++..+..
T Consensus 30 ~~~~tpiQ----~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~ 74 (876)
T PRK13767 30 FGTFTPPQ----RYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFR 74 (876)
T ss_pred cCCCCHHH----HHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 44699999 5556667788999999999999999999999987653
No 55
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=97.52 E-value=0.00014 Score=87.85 Aligned_cols=47 Identities=26% Similarity=0.213 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
+-.|+|.| ..++..+.+|+|+++.||||+|||+|.++|+|.-+...+
T Consensus 20 ~~~~t~~Q----~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~ 66 (814)
T COG1201 20 FTSLTPPQ----RYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLG 66 (814)
T ss_pred cCCCCHHH----HHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhcc
Confidence 66799999 666677779999999999999999999999999888773
No 56
>KOG0331|consensus
Probab=97.52 E-value=6.7e-05 Score=86.42 Aligned_cols=49 Identities=24% Similarity=0.158 Sum_probs=44.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 15 EPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 15 ~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
.-.+-.|.|+| ...+..+..|+++|..|-||||||||||+|++.++...
T Consensus 108 ~~g~~~PtpIQ----aq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~ 156 (519)
T KOG0331|consen 108 EQGFEKPTPIQ----AQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNE 156 (519)
T ss_pred hcCCCCCchhh----hcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhc
Confidence 34777899999 77888888999999999999999999999999998764
No 57
>PRK02362 ski2-like helicase; Provisional
Probab=97.51 E-value=0.0002 Score=85.77 Aligned_cols=51 Identities=25% Similarity=0.174 Sum_probs=39.9
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
+.....++..|||.|.+.+.. .+.+++++++.||||+|||++|++|++..+
T Consensus 14 ~~l~~~g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l 64 (737)
T PRK02362 14 EFYEAEGIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAI 64 (737)
T ss_pred HHHHhCCCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHH
Confidence 334445677899999544432 267789999999999999999999988765
No 58
>KOG0342|consensus
Probab=97.46 E-value=7.6e-05 Score=84.80 Aligned_cols=72 Identities=24% Similarity=0.181 Sum_probs=57.0
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCc
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKT 86 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~ 86 (795)
..++++. .+++....+.| +..+..+..+++++.-|-||||||||||+|++.+....... ..+++
T Consensus 92 ~t~kAi~-~~GF~~MT~VQ----~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~-----------~r~~~ 155 (543)
T KOG0342|consen 92 LTLKAIK-EMGFETMTPVQ----QKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFK-----------PRNGT 155 (543)
T ss_pred HHHHHHH-hcCccchhHHH----HhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccC-----------CCCCe
Confidence 3444544 44777888999 78888888899999999999999999999999998876532 22677
Q ss_pred eeEEeccc
Q psy3462 87 SFVFCGRS 94 (795)
Q Consensus 87 ~~~yc~rt 94 (795)
+++-||.|
T Consensus 156 ~vlIi~PT 163 (543)
T KOG0342|consen 156 GVLIICPT 163 (543)
T ss_pred eEEEeccc
Confidence 77777754
No 59
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.45 E-value=0.00024 Score=84.50 Aligned_cols=86 Identities=21% Similarity=0.297 Sum_probs=61.8
Q ss_pred eeeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 242 VKVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 242 ~~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
....+||++++.|...+..|.+-++++ ...+.|+.||||||||++|++|++..+....+
T Consensus 254 ~~~~l~f~lt~~Q~~ai~~I~~d~~~~---------------------~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q 312 (681)
T PRK10917 254 FLASLPFELTGAQKRVVAEILADLASP---------------------KPMNRLLQGDVGSGKTVVAALAALAAIEAGYQ 312 (681)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHhhhcc---------------------CCceEEEECCCCCcHHHHHHHHHHHHHHcCCe
Confidence 334689999999999999998877642 23579999999999999999999887765433
Q ss_pred --------HHHHHHHhhhhhhhhhcC-CCCceEEEecccc
Q psy3462 322 --------LVQQKMFEQRTQDLQKIP-FRKLKISRLKAKD 352 (795)
Q Consensus 322 --------~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KGr~ 352 (795)
.|-.|..+. +++.. +..+++.++-|..
T Consensus 313 ~lilaPT~~LA~Q~~~~----l~~l~~~~~i~v~ll~G~~ 348 (681)
T PRK10917 313 AALMAPTEILAEQHYEN----LKKLLEPLGIRVALLTGSL 348 (681)
T ss_pred EEEEeccHHHHHHHHHH----HHHHHhhcCcEEEEEcCCC
Confidence 455555543 33322 2346677776653
No 60
>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=97.44 E-value=0.00014 Score=69.33 Aligned_cols=44 Identities=34% Similarity=0.508 Sum_probs=35.4
Q ss_pred CCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHH
Q psy3462 248 VKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCS 311 (795)
Q Consensus 248 y~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~ 311 (795)
|++||.|.+.+..+.+.++.. ...+++++.+|||||||+.++..
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~--------------------~~~~~~ll~~~tGsGKT~~~~~~ 45 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENK--------------------KEERRVLLNAPTGSGKTIIALAL 45 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTT--------------------SGCSEEEEEESTTSSHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhc--------------------CCCCCEEEEECCCCCcChhhhhh
Confidence 678999999999999998751 12578999999999999988753
No 61
>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=97.41 E-value=0.00026 Score=69.98 Aligned_cols=47 Identities=23% Similarity=0.333 Sum_probs=38.1
Q ss_pred cCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 246 FPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 246 fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
++|+ |++.|.+.+..+.+ ++++++++|||+|||++|+++++..+...
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~---------------------------~~~~li~~~TG~GKT~~~~~~~l~~~~~~ 64 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS---------------------------GRDVIGQAQTGSGKTAAFLIPILEKLDPS 64 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc---------------------------CCcEEEECCCCCcHHHHHHHHHHHHHHhh
Confidence 4554 89999999888653 47899999999999999999988765543
No 62
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.40 E-value=0.0002 Score=79.74 Aligned_cols=45 Identities=20% Similarity=0.268 Sum_probs=36.3
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
+.| .|.|+|.+.+..+. +++++++.||||||||++|++|++..+.
T Consensus 26 ~g~~~pt~iQ~~aip~il---------------------------~g~dvi~~ApTGsGKTla~llp~l~~l~ 71 (423)
T PRK04837 26 KGFHNCTPIQALALPLTL---------------------------AGRDVAGQAQTGTGKTMAFLTATFHYLL 71 (423)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------CCCcEEEECCCCchHHHHHHHHHHHHHH
Confidence 566 47888887766542 3678999999999999999999987664
No 63
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=97.40 E-value=0.0002 Score=88.68 Aligned_cols=48 Identities=17% Similarity=0.154 Sum_probs=38.6
Q ss_pred HHHhCCC-CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 11 TYLNEPN-YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 11 ~~~~~~~-~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
.++...+ +..+||.| .+++.++..++++++.+|||+||||||++|+|.
T Consensus 450 ~~lk~~FG~~sFRp~Q----~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 450 VNNKKVFGNHSFRPNQ----REIINATMSGYDVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred HHHHHHcCCCCCCHHH----HHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHH
Confidence 3444444 55789999 556667778999999999999999999999975
No 64
>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=97.35 E-value=0.0002 Score=68.09 Aligned_cols=29 Identities=45% Similarity=0.660 Sum_probs=25.5
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
++++++.||||+|||++|+.+++..+...
T Consensus 14 ~~~~li~aptGsGKT~~~~~~~l~~~~~~ 42 (169)
T PF00270_consen 14 GKNVLISAPTGSGKTLAYILPALNRLQEG 42 (169)
T ss_dssp TSEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred CCCEEEECCCCCccHHHHHHHHHhhhccC
Confidence 57899999999999999999998877554
No 65
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=97.35 E-value=0.00026 Score=86.33 Aligned_cols=56 Identities=20% Similarity=0.273 Sum_probs=47.2
Q ss_pred HHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHH
Q psy3462 10 KTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKEL 70 (795)
Q Consensus 10 ~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~ 70 (795)
..+.+..+. .+|++| .++++.+.+|+++|+-+|||+|||+||++|+|..+......
T Consensus 61 ~~l~~~g~~-~lY~HQ----~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a 116 (851)
T COG1205 61 SALVKAGIE-RLYSHQ----VDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA 116 (851)
T ss_pred HHHHHhccc-cccHHH----HHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc
Confidence 344444333 499999 88999999999999999999999999999999998877665
No 66
>KOG0348|consensus
Probab=97.34 E-value=9.7e-05 Score=84.73 Aligned_cols=40 Identities=30% Similarity=0.363 Sum_probs=34.4
Q ss_pred HHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 282 LQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 282 ~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
.+.||.+.+++.++++|+||||||||||+|++.-+.....
T Consensus 165 kq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ 204 (708)
T KOG0348|consen 165 KQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEP 204 (708)
T ss_pred hcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCc
Confidence 3567788889999999999999999999999988876543
No 67
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.31 E-value=0.00026 Score=81.58 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=37.1
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
..| .|+|+|.+.+..+. .++++++.||||||||++|++|+|..+.
T Consensus 139 ~g~~~ptpiQ~~aip~il---------------------------~g~dviv~ApTGSGKTlayllPil~~l~ 184 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAAL---------------------------SGRSLLVSADTGSGKTASFLVPIISRCC 184 (518)
T ss_pred cCCCCCCHHHHHHHHHHh---------------------------cCCCEEEEecCCCCccHHHHHHHHHHHH
Confidence 456 58999988876643 2578999999999999999999987664
No 68
>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=97.31 E-value=0.00024 Score=80.60 Aligned_cols=44 Identities=30% Similarity=0.551 Sum_probs=36.4
Q ss_pred eccCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 244 VEFPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 244 ~~fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
-.|.| .+||.|.+.+..+. +++++++.||||+|||++|++|++.
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l---------------------------~g~dvlv~apTGsGKTl~y~lp~l~ 49 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVL---------------------------LGRDCFVVMPTGGGKSLCYQLPALC 49 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHH---------------------------cCCCEEEEcCCCCcHhHHHHHHHHH
Confidence 35787 48999998877753 2568999999999999999999874
No 69
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.30 E-value=0.00036 Score=65.95 Aligned_cols=48 Identities=29% Similarity=0.335 Sum_probs=37.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.++..|++.|.+++..+.... .++++.+|||||||.+++.+++.....
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~ 51 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKR 51 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcc
Confidence 356789999976665544332 899999999999999999887776543
No 70
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.30 E-value=0.00074 Score=79.72 Aligned_cols=83 Identities=19% Similarity=0.289 Sum_probs=59.5
Q ss_pred eccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH--
Q psy3462 244 VEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE-- 321 (795)
Q Consensus 244 ~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k-- 321 (795)
..+||++++.|...+.+|.+-+..+ ...+.++.||||||||++|++|++..+....+
T Consensus 230 ~~lpf~lt~~Q~~ai~~I~~~~~~~---------------------~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvl 288 (630)
T TIGR00643 230 ASLPFKLTRAQKRVVKEILQDLKSD---------------------VPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVA 288 (630)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhccC---------------------CCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEE
Confidence 3689999999999999998877532 13468999999999999999998877665433
Q ss_pred ------HHHHHHHhhhhhhhhhcC-CCCceEEEeccc
Q psy3462 322 ------LVQQKMFEQRTQDLQKIP-FRKLKISRLKAK 351 (795)
Q Consensus 322 ------~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KGr 351 (795)
.|-+|..+. +++.+ +..++++++-|.
T Consensus 289 ilaPT~~LA~Q~~~~----~~~l~~~~gi~v~lltg~ 321 (630)
T TIGR00643 289 LMAPTEILAEQHYNS----LRNLLAPLGIEVALLTGS 321 (630)
T ss_pred EECCHHHHHHHHHHH----HHHHhcccCcEEEEEecC
Confidence 455555433 22322 235667777665
No 71
>KOG0335|consensus
Probab=97.29 E-value=0.00012 Score=83.60 Aligned_cols=54 Identities=20% Similarity=0.227 Sum_probs=47.4
Q ss_pred HhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHH
Q psy3462 13 LNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKEL 70 (795)
Q Consensus 13 ~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~ 70 (795)
.+-..+-.|.|+| +..+..+.++.+++..|+||+|||.|||+|++.++.+.+..
T Consensus 89 i~~~~~~~ptpvQ----k~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~ 142 (482)
T KOG0335|consen 89 IKRSGYTKPTPVQ----KYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPE 142 (482)
T ss_pred cccccccCCCcce----eeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcc
Confidence 3444577899999 88889999999999999999999999999999999887653
No 72
>PTZ00424 helicase 45; Provisional
Probab=97.29 E-value=0.00031 Score=76.84 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=37.5
Q ss_pred ccCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 245 EFPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 245 ~fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
.+.| .|+|.|.+.+..+. ++.++++.||||||||++|++|++..+.
T Consensus 45 ~~~~~~~~~~Q~~ai~~i~---------------------------~~~d~ii~apTGsGKT~~~~l~~l~~~~ 91 (401)
T PTZ00424 45 SYGFEKPSAIQQRGIKPIL---------------------------DGYDTIGQAQSGTGKTATFVIAALQLID 91 (401)
T ss_pred HcCCCCCCHHHHHHHHHHh---------------------------CCCCEEEECCCCChHHHHHHHHHHHHhc
Confidence 3566 48999998887764 2467899999999999999999988764
No 73
>KOG0345|consensus
Probab=97.23 E-value=0.00053 Score=77.95 Aligned_cols=56 Identities=30% Similarity=0.350 Sum_probs=42.5
Q ss_pred HHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH-hhH---------------HHHHHHHhhhhhhhhhc
Q psy3462 283 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK-EKE---------------LVQQKMFEQRTQDLQKI 338 (795)
Q Consensus 283 ~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~-~~k---------------~LQ~Ql~~kdip~l~~i 338 (795)
..||-+.+++.+++|||||||||||||+|++..+.+ +.+ .|-.|+.+--.|+++..
T Consensus 35 ~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~~l 106 (567)
T KOG0345|consen 35 ATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEHL 106 (567)
T ss_pred hhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHHhh
Confidence 345555667899999999999999999999998833 221 57777777666777664
No 74
>PRK00254 ski2-like helicase; Provisional
Probab=97.23 E-value=0.00053 Score=81.93 Aligned_cols=56 Identities=27% Similarity=0.201 Sum_probs=43.3
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+...+.+...++..|+|.|.+-+.. .+.+++++++.||||+|||++|++|++..+.
T Consensus 10 ~~~~~~l~~~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~ 65 (720)
T PRK00254 10 ERIKRVLKERGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLL 65 (720)
T ss_pred HHHHHHHHhCCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHH
Confidence 3445566666778899999544332 3678899999999999999999999886543
No 75
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.23 E-value=0.00068 Score=80.00 Aligned_cols=58 Identities=24% Similarity=0.311 Sum_probs=47.5
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcC--CcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKA--KNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~--~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
....++.+.+|| .|++.|++-+.+|...+... .+.++.||||||||++|++|++....
T Consensus 223 ~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~ 282 (630)
T TIGR00643 223 ELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE 282 (630)
T ss_pred HHHHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH
Confidence 445677777665 89999999999988887654 36899999999999999999887643
No 76
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=97.23 E-value=0.00068 Score=81.64 Aligned_cols=47 Identities=19% Similarity=0.278 Sum_probs=38.2
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
..| +|||.|.+.+..+. +++++++.||||||||+||++|+|..+...
T Consensus 32 ~g~~~p~~~Q~~ai~~il---------------------------~G~nvvv~apTGSGKTla~~LPiL~~l~~~ 79 (742)
T TIGR03817 32 AGIHRPWQHQARAAELAH---------------------------AGRHVVVATGTASGKSLAYQLPVLSALADD 79 (742)
T ss_pred cCCCcCCHHHHHHHHHHH---------------------------CCCCEEEECCCCCcHHHHHHHHHHHHHhhC
Confidence 345 48999988777652 368999999999999999999999887653
No 77
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.22 E-value=0.0007 Score=80.65 Aligned_cols=58 Identities=24% Similarity=0.291 Sum_probs=46.9
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcC--CcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKA--KNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~--~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
...+++.+.+ +|.|++.|++.+.+|..-+..+ .+.|+.||||||||++|++|++..+.
T Consensus 249 ~~~~~~~~~l-~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~ 308 (681)
T PRK10917 249 ELLKKFLASL-PFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE 308 (681)
T ss_pred HHHHHHHHhC-CCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH
Confidence 3445666664 4589999999999888888654 47999999999999999999987653
No 78
>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=97.22 E-value=0.001 Score=81.94 Aligned_cols=56 Identities=21% Similarity=0.366 Sum_probs=47.4
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
.|||+|.|.|...+..|.+.++.+ ...+.++.||||+|||++++.+++..+....+
T Consensus 447 ~~~f~~T~~Q~~aI~~I~~d~~~~---------------------~~~d~Ll~adTGsGKT~val~a~l~al~~g~q 502 (926)
T TIGR00580 447 SFPFEETPDQLKAIEEIKADMESP---------------------RPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQ 502 (926)
T ss_pred hCCCCCCHHHHHHHHHHHhhhccc---------------------CcCCEEEECCCCccHHHHHHHHHHHHHHhCCe
Confidence 689999999999999999888643 24679999999999999999998877765543
No 79
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=97.21 E-value=0.00038 Score=78.64 Aligned_cols=46 Identities=20% Similarity=0.245 Sum_probs=37.2
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
+.| +|+|.|.+.+..+. +++++++.||||||||++|++|++..+..
T Consensus 19 ~g~~~pt~iQ~~ai~~il---------------------------~g~dvlv~apTGsGKTla~~lpil~~l~~ 65 (456)
T PRK10590 19 QGYREPTPIQQQAIPAVL---------------------------EGRDLMASAQTGTGKTAGFTLPLLQHLIT 65 (456)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------CCCCEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 344 58999988877653 35789999999999999999999877643
No 80
>PRK01172 ski2-like helicase; Provisional
Probab=97.19 E-value=0.0005 Score=81.37 Aligned_cols=49 Identities=24% Similarity=0.362 Sum_probs=38.3
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
+.... .+|.+|+.|. ++++++.+++++++.||||+|||++++++++...
T Consensus 14 ~~~~~-~~~~l~~~Q~----~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l 62 (674)
T PRK01172 14 NLFTG-NDFELYDHQR----MAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETF 62 (674)
T ss_pred HHHhh-CCCCCCHHHH----HHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHH
Confidence 33333 3567999994 4555678889999999999999999999987654
No 81
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=97.14 E-value=0.00053 Score=76.51 Aligned_cols=46 Identities=24% Similarity=0.274 Sum_probs=37.6
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..| +|+|.|.+.+..+. +++++++.||||||||++|++|++.++.+
T Consensus 19 ~g~~~p~~iQ~~ai~~~~---------------------------~g~d~l~~apTGsGKT~~~~lp~l~~l~~ 65 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL---------------------------DGRDVLGSAPTGTGKTAAFLLPALQHLLD 65 (434)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------CCCCEEEECCCCChHHHHHHHHHHHHHhh
Confidence 455 48899988877753 25679999999999999999999987754
No 82
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.09 E-value=0.00068 Score=76.89 Aligned_cols=46 Identities=22% Similarity=0.297 Sum_probs=36.4
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
+.| .++|.|.+.+..+. .++++++.||||||||++|++|++.-+..
T Consensus 105 ~g~~~~~~iQ~~ai~~~~---------------------------~G~dvi~~apTGSGKTlay~lpil~~l~~ 151 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYTL---------------------------AGHDAIGRAQTGTGKTAAFLISIINQLLQ 151 (475)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------CCCCEEEECCCCChHHHHHHHHHHHHHHh
Confidence 455 37888887776543 36789999999999999999999876543
No 83
>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=97.08 E-value=0.00057 Score=79.70 Aligned_cols=43 Identities=28% Similarity=0.468 Sum_probs=36.5
Q ss_pred ccCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 245 EFPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 245 ~fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.|+|+ +||.|.+.+..+. +++++++.||||+|||++|++|++.
T Consensus 8 ~fg~~~fr~~Q~~~i~~il---------------------------~g~dvlv~~PTG~GKTl~y~lpal~ 51 (591)
T TIGR01389 8 TFGYDDFRPGQEEIISHVL---------------------------DGRDVLVVMPTGGGKSLCYQVPALL 51 (591)
T ss_pred hcCCCCCCHHHHHHHHHHH---------------------------cCCCEEEEcCCCccHhHHHHHHHHH
Confidence 58885 8999999888764 2568999999999999999999873
No 84
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=97.05 E-value=0.00069 Score=76.34 Aligned_cols=45 Identities=24% Similarity=0.282 Sum_probs=36.6
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
..| +|.|.|.+.+..+. +++++++.||||||||++|++|++..+.
T Consensus 22 ~g~~~~t~iQ~~ai~~~l---------------------------~g~dvi~~a~TGsGKT~a~~lpil~~l~ 67 (460)
T PRK11776 22 LGYTEMTPIQAQSLPAIL---------------------------AGKDVIAQAKTGSGKTAAFGLGLLQKLD 67 (460)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------cCCCEEEECCCCCcHHHHHHHHHHHHhh
Confidence 456 38899987777653 3578999999999999999999987764
No 85
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.00 E-value=0.00071 Score=79.54 Aligned_cols=43 Identities=30% Similarity=0.568 Sum_probs=36.1
Q ss_pred ccCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 245 EFPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 245 ~fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.|.|+ +||.|.+.+..+. +++++++.||||+|||++|++|++.
T Consensus 20 ~fG~~~~r~~Q~~ai~~il---------------------------~g~dvlv~apTGsGKTl~y~lpal~ 63 (607)
T PRK11057 20 TFGYQQFRPGQQEIIDAVL---------------------------SGRDCLVVMPTGGGKSLCYQIPALV 63 (607)
T ss_pred HcCCCCCCHHHHHHHHHHH---------------------------cCCCEEEEcCCCchHHHHHHHHHHH
Confidence 58884 8999998888753 2578999999999999999999874
No 86
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.00 E-value=0.00085 Score=78.51 Aligned_cols=45 Identities=24% Similarity=0.267 Sum_probs=36.2
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
+.| +|+|+|.+.+..+. +++++++.||||||||++||+|++..+.
T Consensus 27 ~g~~~ptpiQ~~~ip~~l---------------------------~G~Dvi~~ApTGSGKTlafllpil~~l~ 72 (572)
T PRK04537 27 AGFTRCTPIQALTLPVAL---------------------------PGGDVAGQAQTGTGKTLAFLVAVMNRLL 72 (572)
T ss_pred CCCCCCCHHHHHHHHHHh---------------------------CCCCEEEEcCCCCcHHHHHHHHHHHHHH
Confidence 456 48888888776542 3678999999999999999999987654
No 87
>PTZ00110 helicase; Provisional
Probab=96.97 E-value=0.00088 Score=77.87 Aligned_cols=45 Identities=24% Similarity=0.252 Sum_probs=35.7
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
..| +|+|+|.+.+..+ ..++++++.||||||||++|++|++..+.
T Consensus 148 ~g~~~pt~iQ~~aip~~---------------------------l~G~dvI~~ApTGSGKTlaylLP~l~~i~ 193 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPIA---------------------------LSGRDMIGIAETGSGKTLAFLLPAIVHIN 193 (545)
T ss_pred CCCCCCCHHHHHHHHHH---------------------------hcCCCEEEEeCCCChHHHHHHHHHHHHHH
Confidence 456 4899998776553 23678999999999999999999987654
No 88
>KOG0344|consensus
Probab=96.95 E-value=0.00076 Score=78.18 Aligned_cols=52 Identities=29% Similarity=0.273 Sum_probs=44.0
Q ss_pred HhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 13 LNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 13 ~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
+...++-.|.|+| ..++..+....+++..||||+||||||++|.|..+....
T Consensus 151 l~~~~F~~Pt~iq----~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~ 202 (593)
T KOG0344|consen 151 LQELGFDEPTPIQ----KQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLS 202 (593)
T ss_pred HhhCCCCCCCccc----chhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhh
Confidence 3445677899999 477788888999999999999999999999888877654
No 89
>KOG0331|consensus
Probab=96.90 E-value=0.00042 Score=80.01 Aligned_cols=35 Identities=29% Similarity=0.269 Sum_probs=30.2
Q ss_pred HhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
++.+..++.++.-|-||||||||||+|++.++..+
T Consensus 122 wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~ 156 (519)
T KOG0331|consen 122 WPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNE 156 (519)
T ss_pred cceeccCCceEEEeccCCcchhhhhhHHHHHHHhc
Confidence 34456789999999999999999999999988764
No 90
>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=96.90 E-value=0.0019 Score=79.52 Aligned_cols=58 Identities=10% Similarity=0.012 Sum_probs=47.0
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcC--CcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKA--KNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~--~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
..+++++.+.. +|.|++.|.+.+.+|.+.+.++ .+.++.||||+|||++|+.|++..+
T Consensus 438 ~~~~~~~~~~~-~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al 497 (926)
T TIGR00580 438 LEWQQEFEDSF-PFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAV 497 (926)
T ss_pred HHHHHHHHHhC-CCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHH
Confidence 34566666664 4589999999999998888765 5799999999999999999987654
No 91
>KOG0330|consensus
Probab=96.85 E-value=0.00078 Score=75.22 Aligned_cols=48 Identities=21% Similarity=0.115 Sum_probs=41.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 15 EPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 15 ~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
....-.|.++| .+++....+++++|..|-||+|||+||++|+|..+..
T Consensus 78 ~l~~~~PT~IQ----~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~ 125 (476)
T KOG0330|consen 78 ELGWKKPTKIQ----SEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQ 125 (476)
T ss_pred HhCcCCCchhh----hhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHc
Confidence 34567899999 7788889999999999999999999999999887654
No 92
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.84 E-value=0.0019 Score=76.50 Aligned_cols=46 Identities=26% Similarity=0.274 Sum_probs=37.1
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
+.| +|+|.|.+.+..+. +++.+|+.||||||||++|++|++..+..
T Consensus 24 ~G~~~ptpiQ~~ai~~ll---------------------------~g~dvl~~ApTGsGKT~af~lpll~~l~~ 70 (629)
T PRK11634 24 LGYEKPSPIQAECIPHLL---------------------------NGRDVLGMAQTGSGKTAAFSLPLLHNLDP 70 (629)
T ss_pred CCCCCCCHHHHHHHHHHH---------------------------cCCCEEEEcCCCCcHHHHHHHHHHHHhhh
Confidence 456 58999988776653 25789999999999999999999876643
No 93
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.82 E-value=0.0018 Score=79.10 Aligned_cols=46 Identities=20% Similarity=0.169 Sum_probs=34.9
Q ss_pred CCCCCC---CHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 16 PNYFLK---YSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 16 ~~~~~p---~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.++-.| +|.|.|.| ..+..+.++|.+|+||||||+||++|++..+.
T Consensus 85 ~G~~~p~~~tp~qvQ~I----~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL 133 (970)
T PRK12899 85 SGYHQQWDMVPYDVQIL----GAIAMHKGFITEMQTGEGKTLTAVMPLYLNAL 133 (970)
T ss_pred ccccCCCCCChHHHHHh----hhhhcCCCeEEEeCCCCChHHHHHHHHHHHHh
Confidence 345556 67774444 44555678999999999999999999997653
No 94
>KOG0346|consensus
Probab=96.79 E-value=0.0016 Score=73.69 Aligned_cols=54 Identities=26% Similarity=0.164 Sum_probs=43.4
Q ss_pred HHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 10 KTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 10 ~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
+++.+ .+.-.|.-+| ..++.-...++++|.-|-||+|||+|||+|+|+.+...+
T Consensus 32 kAi~~-lG~ekpTlIQ----s~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k 85 (569)
T KOG0346|consen 32 KAITK-LGWEKPTLIQ----SSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEK 85 (569)
T ss_pred HHHHH-hCcCCcchhh----hcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhh
Confidence 34433 4666799999 777777778899999999999999999999988766544
No 95
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.70 E-value=0.0014 Score=79.72 Aligned_cols=50 Identities=20% Similarity=0.204 Sum_probs=34.3
Q ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCC-cEEEECCCCCchHHHHHHHHHH
Q psy3462 9 FKTYLNEPNYFLKYSSCKILHLQVIQGCNKAK-NCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 9 ~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~-~~llEAPTGTGKTLAyL~paL~ 62 (795)
|.+.-.+.-+|.|+|+|.+.+.. +..|+ ++++.||||||||.++.++.+.
T Consensus 4 f~~ff~~~~G~~PtpiQ~~~i~~----il~G~~~v~~~apTGSGKTaa~aafll~ 54 (844)
T TIGR02621 4 FDEWYQGLHGYSPFPWQLSLAER----FVAGQPPESCSTPTGLGKTSIIAAWLLA 54 (844)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHH----HHcCCCcceEecCCCCcccHHHHHhhcc
Confidence 33333343456799999665554 44555 6888999999999977655553
No 96
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.67 E-value=0.0019 Score=80.50 Aligned_cols=33 Identities=24% Similarity=0.395 Sum_probs=27.4
Q ss_pred HHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 282 LQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 282 ~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.++|+++..++++++-||||+|||++|++|+|.
T Consensus 466 ~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 466 REIINATMSGYDVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred HHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHH
Confidence 345555556889999999999999999999874
No 97
>PRK09694 helicase Cas3; Provisional
Probab=96.67 E-value=0.0023 Score=78.39 Aligned_cols=58 Identities=21% Similarity=0.158 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccc
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSD 95 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth 95 (795)
.+.|||.|..+.+ ...+...+|||||||+|||.|.|..+...+. .....++||+..|-
T Consensus 284 ~~~p~p~Q~~~~~----~~~~pgl~ileApTGsGKTEAAL~~A~~l~~----------------~~~~~gi~~aLPT~ 341 (878)
T PRK09694 284 GYQPRQLQTLVDA----LPLQPGLTIIEAPTGSGKTEAALAYAWRLID----------------QGLADSIIFALPTQ 341 (878)
T ss_pred CCCChHHHHHHHh----hccCCCeEEEEeCCCCCHHHHHHHHHHHHHH----------------hCCCCeEEEECcHH
Confidence 6789999965532 2234567999999999999998877553221 12346889987543
No 98
>KOG0333|consensus
Probab=96.66 E-value=0.0015 Score=75.19 Aligned_cols=57 Identities=25% Similarity=0.315 Sum_probs=48.4
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
+.++ ++..++|..|.|+| ..++.......+.|.-|-||+|||+||++|+|.|+....
T Consensus 255 e~l~-~I~~~~y~eptpIq----R~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP 311 (673)
T KOG0333|consen 255 ELLS-VIKKPGYKEPTPIQ----RQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLP 311 (673)
T ss_pred HHHH-HHHhcCCCCCchHH----HhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCC
Confidence 4455 77788999999999 555667777889999999999999999999999987665
No 99
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.65 E-value=0.003 Score=59.66 Aligned_cols=47 Identities=30% Similarity=0.349 Sum_probs=37.2
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.+++++|.|.+++..+.+.. +++++.+|||||||.+++.+++..+..
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~--------------------------~~~~i~~~~GsGKT~~~~~~~~~~~~~ 51 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL--------------------------RDVILAAPTGSGKTLAALLPALEALKR 51 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC--------------------------CcEEEECCCCCchhHHHHHHHHHHhcc
Confidence 45689999999988765211 579999999999999998887766554
No 100
>PRK13767 ATP-dependent helicase; Provisional
Probab=96.60 E-value=0.0026 Score=78.07 Aligned_cols=42 Identities=36% Similarity=0.453 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 249 KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 249 ~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
.|+|.|.+.+..+. +++++++.||||||||++|++|++..+.
T Consensus 32 ~~tpiQ~~Ai~~il---------------------------~g~nvli~APTGSGKTlaa~Lpil~~l~ 73 (876)
T PRK13767 32 TFTPPQRYAIPLIH---------------------------EGKNVLISSPTGSGKTLAAFLAIIDELF 73 (876)
T ss_pred CCCHHHHHHHHHHH---------------------------cCCCEEEECCCCCcHHHHHHHHHHHHHH
Confidence 48999998887652 2578999999999999999999987664
No 101
>PRK09401 reverse gyrase; Reviewed
Probab=96.49 E-value=0.0043 Score=78.33 Aligned_cols=50 Identities=14% Similarity=0.125 Sum_probs=37.0
Q ss_pred HHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 11 TYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 11 ~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
++.....++.|++.|. .+++.+..++++++.||||+|||. |++|++.+..
T Consensus 71 ~~f~~~~G~~pt~iQ~----~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~ 120 (1176)
T PRK09401 71 KFFKKKTGSKPWSLQR----TWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLA 120 (1176)
T ss_pred HHHHHhcCCCCcHHHH----HHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHH
Confidence 3444555679999994 555666688999999999999995 5566555543
No 102
>PRK01172 ski2-like helicase; Provisional
Probab=96.48 E-value=0.005 Score=73.08 Aligned_cols=49 Identities=22% Similarity=0.264 Sum_probs=39.3
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
.+|++||.|.+.+..+ + +++++++.||||+|||++++.+++......++
T Consensus 19 ~~~~l~~~Q~~ai~~l---~------------------------~~~nvlv~apTGSGKTl~a~lail~~l~~~~k 67 (674)
T PRK01172 19 NDFELYDHQRMAIEQL---R------------------------KGENVIVSVPTAAGKTLIAYSAIYETFLAGLK 67 (674)
T ss_pred CCCCCCHHHHHHHHHH---h------------------------cCCcEEEECCCCchHHHHHHHHHHHHHHhCCc
Confidence 4678999999988775 2 25789999999999999999988776655443
No 103
>PRK02362 ski2-like helicase; Provisional
Probab=96.45 E-value=0.0072 Score=72.62 Aligned_cols=72 Identities=22% Similarity=0.300 Sum_probs=48.7
Q ss_pred CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH-------
Q psy3462 249 KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE------- 321 (795)
Q Consensus 249 ~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k------- 321 (795)
++||.|.+.+... +. +++++++.||||+|||++|+++++..+...++
T Consensus 23 ~l~p~Q~~ai~~~---~~-----------------------~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~ 76 (737)
T PRK02362 23 ELYPPQAEAVEAG---LL-----------------------DGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPL 76 (737)
T ss_pred cCCHHHHHHHHHH---Hh-----------------------CCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeCh
Confidence 5899999988652 22 35789999999999999999998877765444
Q ss_pred -HHHHHHHhhhhhhhhhcCCCCceEEEecc
Q psy3462 322 -LVQQKMFEQRTQDLQKIPFRKLKISRLKA 350 (795)
Q Consensus 322 -~LQ~Ql~~kdip~l~~i~~~~l~~~~~KG 350 (795)
.|-+|.... +.+.....+++..+-|
T Consensus 77 raLa~q~~~~----~~~~~~~g~~v~~~tG 102 (737)
T PRK02362 77 RALASEKFEE----FERFEELGVRVGISTG 102 (737)
T ss_pred HHHHHHHHHH----HHHhhcCCCEEEEEeC
Confidence 455565543 2222222455555555
No 104
>KOG0350|consensus
Probab=96.43 E-value=0.0023 Score=73.42 Aligned_cols=51 Identities=18% Similarity=0.255 Sum_probs=41.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhc-----CCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNK-----AKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~-----~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
...-..+|.|.+.+-.+.+.+.. ..++.+-||||+||||||-+|+++-+-.
T Consensus 155 ~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~ 210 (620)
T KOG0350|consen 155 MAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSS 210 (620)
T ss_pred hhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHcc
Confidence 34445679998888888888763 5689999999999999999998776543
No 105
>PRK14701 reverse gyrase; Provisional
Probab=96.40 E-value=0.0048 Score=79.95 Aligned_cols=52 Identities=19% Similarity=0.176 Sum_probs=40.1
Q ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 9 FKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 9 ~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
|.++.....+|.|++.| ..++..+..++++++.||||+|||+.++++++..+
T Consensus 68 ~~~~f~~~~G~~pt~iQ----~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~ 119 (1638)
T PRK14701 68 FEEFFEKITGFEFWSIQ----KTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLA 119 (1638)
T ss_pred HHHHHHHhhCCCCCHHH----HHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHH
Confidence 44455554456899999 66666677789999999999999997777777654
No 106
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.37 E-value=0.0043 Score=75.33 Aligned_cols=44 Identities=30% Similarity=0.345 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 249 KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 249 ~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
+|+|.|...+..|. +|.|+|+-||||+|||+|-++|++.-+...
T Consensus 22 ~~t~~Q~~a~~~i~---------------------------~G~nvLiiAPTGsGKTeAAfLpil~~l~~~ 65 (814)
T COG1201 22 SLTPPQRYAIPEIH---------------------------SGENVLIIAPTGSGKTEAAFLPVINELLSL 65 (814)
T ss_pred CCCHHHHHHHHHHh---------------------------CCCceEEEcCCCCChHHHHHHHHHHHHHhc
Confidence 58888888877764 478999999999999999999999887765
No 107
>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=96.32 E-value=0.0047 Score=77.97 Aligned_cols=52 Identities=15% Similarity=0.166 Sum_probs=39.8
Q ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 9 FKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 9 ~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
|.++.....++.|++.| ...+..+..++++++.||||+|||+ |++|++.+..
T Consensus 67 f~~~f~~~~g~~p~~iQ----~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~ 118 (1171)
T TIGR01054 67 FEEFFKKAVGSEPWSIQ----KMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLA 118 (1171)
T ss_pred HHHHHHHhcCCCCcHHH----HHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHH
Confidence 44444555677899999 5666677788999999999999997 6677666654
No 108
>KOG0330|consensus
Probab=96.32 E-value=0.005 Score=69.03 Aligned_cols=47 Identities=28% Similarity=0.261 Sum_probs=37.5
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH-----------HHHHHHHhh
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE-----------LVQQKMFEQ 330 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k-----------~LQ~Ql~~k 330 (795)
+||....+++++.-|.||+|||+||++|+|.-+-.+.+ .|-+|+-+.
T Consensus 91 aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~ 148 (476)
T KOG0330|consen 91 AIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQ 148 (476)
T ss_pred hcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHH
Confidence 44555678999999999999999999999988776544 577776654
No 109
>KOG0338|consensus
Probab=96.27 E-value=0.0032 Score=72.46 Aligned_cols=54 Identities=24% Similarity=0.187 Sum_probs=44.9
Q ss_pred hHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 5 SSDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
||-..+.+.. ++|-.|.|+| .+.+..-.-|++++..|-||||||.||.+|.|.-
T Consensus 189 SRPlLka~~~-lGy~~PTpIQ----~a~IPvallgkDIca~A~TGsGKTAAF~lPiLER 242 (691)
T KOG0338|consen 189 SRPLLKACST-LGYKKPTPIQ----VATIPVALLGKDICACAATGSGKTAAFALPILER 242 (691)
T ss_pred chHHHHHHHh-cCCCCCCchh----hhcccHHhhcchhhheecccCCchhhhHHHHHHH
Confidence 5666666654 4888999999 6777766778999999999999999999998865
No 110
>KOG0336|consensus
Probab=96.24 E-value=0.0019 Score=72.54 Aligned_cols=62 Identities=16% Similarity=0.103 Sum_probs=49.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEe
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFC 91 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc 91 (795)
++-.|.|+| ..++..+..|.+++.-|-||||||||||+|.+.++..... +..+++.+.++--
T Consensus 239 GFqKPtPIq----SQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~---------~~~qr~~p~~lvl 300 (629)
T KOG0336|consen 239 GFQKPTPIQ----SQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPK---------RREQRNGPGVLVL 300 (629)
T ss_pred cCCCCCcch----hcccceeecCcceEEEEecCCCcCHHHhccceeeeeccch---------hhhccCCCceEEE
Confidence 566899999 6778999999999999999999999999999988776543 2335555555443
No 111
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.23 E-value=0.004 Score=72.12 Aligned_cols=35 Identities=29% Similarity=0.282 Sum_probs=28.8
Q ss_pred HHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 283 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 283 ~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
.+||.+..++.++..|+||||||+||++|+|..+.
T Consensus 58 ~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~ 92 (513)
T COG0513 58 AAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKIL 92 (513)
T ss_pred HHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHh
Confidence 34455556789999999999999999999988754
No 112
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.21 E-value=0.0092 Score=75.25 Aligned_cols=56 Identities=27% Similarity=0.302 Sum_probs=45.3
Q ss_pred eccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 244 VEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 244 ~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
-.|||+|.|.|.+.+..|.+-++.+ ...++++.||||+|||..++.++...+....
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~---------------------~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~ 650 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQP---------------------LAMDRLVCGDVGFGKTEVAMRAAFLAVENHK 650 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcC---------------------CCCCEEEEcCCCcCHHHHHHHHHHHHHHcCC
Confidence 4699999999999999998877642 2467999999999999999888766554443
No 113
>KOG0340|consensus
Probab=96.10 E-value=0.0041 Score=69.05 Aligned_cols=61 Identities=20% Similarity=0.131 Sum_probs=53.4
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKEL 70 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~ 70 (795)
+.|.-+-+..+....|.|+| +.++..+..|.++|-.|-||||||.||-+|.|.-+.++..+
T Consensus 15 ~~Wlve~l~~l~i~~pTpiQ----~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~g 75 (442)
T KOG0340|consen 15 SPWLVEQLKALGIKKPTPIQ----QACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYG 75 (442)
T ss_pred cHHHHHHHHHhcCCCCCchH----hhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCc
Confidence 45777778888999999999 88999999999999999999999999999999887666543
No 114
>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=96.04 E-value=0.0063 Score=67.14 Aligned_cols=32 Identities=31% Similarity=0.478 Sum_probs=26.5
Q ss_pred HHHHHHHhcCC--cEEEECCCCCchHHHHHHHHH
Q psy3462 30 LQVIQGCNKAK--NCLLESPTGSGKTLALLCSVL 61 (795)
Q Consensus 30 ~~i~~al~~~~--~~llEAPTGTGKTLAyL~paL 61 (795)
.++++++.++. ++++.||||+|||++|++|++
T Consensus 3 ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l 36 (357)
T TIGR03158 3 VATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL 36 (357)
T ss_pred HHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH
Confidence 45677776665 488999999999999999987
No 115
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.04 E-value=0.012 Score=74.18 Aligned_cols=57 Identities=11% Similarity=0.091 Sum_probs=46.8
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcC--CcEEEECCCCCchHHHHHHHHHHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKA--KNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~--~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
..++++..+.+|| .|++.|.+-+.++..-+... .+.++.||||+|||.+|+.+++..
T Consensus 587 ~~~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~ 645 (1147)
T PRK10689 587 REQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA 645 (1147)
T ss_pred HHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHH
Confidence 4678888888655 89999988888887777654 679999999999999999887653
No 116
>COG1204 Superfamily II helicase [General function prediction only]
Probab=96.03 E-value=0.0084 Score=72.74 Aligned_cols=60 Identities=25% Similarity=0.241 Sum_probs=47.0
Q ss_pred hHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 5 SSDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
-++.+.++.+..+.-+.++.|++.. ++.+.+++|+|+.||||+|||+-.++.++.-+.+.
T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av---~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~ 75 (766)
T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAV---EKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG 75 (766)
T ss_pred ccHHHHHHhccCChHHhhHHHHHHh---hccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc
Confidence 5677888888877668888876544 44444589999999999999998888888777654
No 117
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=95.98 E-value=0.0075 Score=73.98 Aligned_cols=47 Identities=19% Similarity=0.265 Sum_probs=36.6
Q ss_pred eccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 244 VEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 244 ~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
+..||..+|.|.+.+-.+. .++..+.+|+||||||++|++|++.-+.
T Consensus 87 ~~~p~~~tp~qvQ~I~~i~---------------------------l~~gvIAeaqTGeGKTLAf~LP~l~~aL 133 (970)
T PRK12899 87 YHQQWDMVPYDVQILGAIA---------------------------MHKGFITEMQTGEGKTLTAVMPLYLNAL 133 (970)
T ss_pred ccCCCCCChHHHHHhhhhh---------------------------cCCCeEEEeCCCCChHHHHHHHHHHHHh
Confidence 4567777888887776653 1355899999999999999999986553
No 118
>KOG0343|consensus
Probab=95.94 E-value=0.0037 Score=72.49 Aligned_cols=57 Identities=25% Similarity=0.222 Sum_probs=43.1
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
..+.+.+.++ .|-.|..+| .+++..-..|.++|--|-||||||||||+|+|..+-..
T Consensus 78 ~~t~kgLke~-~fv~~teiQ----~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~ 134 (758)
T KOG0343|consen 78 QKTLKGLKEA-KFVKMTEIQ----RDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRL 134 (758)
T ss_pred hHHHHhHhhc-CCccHHHHH----HhhcchhccCcccccccccCCCceeeehHHHHHHHHHc
Confidence 3444455544 556777888 55556666788999999999999999999999877644
No 119
>KOG0347|consensus
Probab=95.93 E-value=0.0034 Score=72.74 Aligned_cols=59 Identities=19% Similarity=0.200 Sum_probs=45.0
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcC-CcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKA-KNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~-~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
..+++++. +.+|-.|.++| ..++.+.-.| .+++--|-||+||||||-+|.++-+...+.
T Consensus 190 ~~iL~aL~-~~gFs~Pt~IQ----sl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~ 249 (731)
T KOG0347|consen 190 MEILRALS-NLGFSRPTEIQ----SLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSD 249 (731)
T ss_pred HHHHHHHH-hcCCCCCccch----hhcccHhhccchhcccccccCCCceeeecchhhhhhhhccc
Confidence 44555554 44888999999 6666666555 789999999999999999999985544443
No 120
>KOG0350|consensus
Probab=95.92 E-value=0.0062 Score=70.01 Aligned_cols=29 Identities=31% Similarity=0.550 Sum_probs=25.2
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
.+.+.+.||||+||||||-+|++.-+-..
T Consensus 183 ~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R 211 (620)
T KOG0350|consen 183 PRDICVNAPTGSGKTLAYVIPIVQLLSSR 211 (620)
T ss_pred CCceEEecCCCCCceeeehhHHHHHHccC
Confidence 56788999999999999999998877554
No 121
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=95.92 E-value=0.0082 Score=71.57 Aligned_cols=44 Identities=20% Similarity=0.001 Sum_probs=35.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.-+..||+.| ....-++..|+ |.|+.||+|||++|++|++..+.
T Consensus 99 ~lg~~p~~VQ----~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al 142 (656)
T PRK12898 99 VLGQRHFDVQ----LMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAAL 142 (656)
T ss_pred HhCCCCChHH----HHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhh
Confidence 3466899999 44555556666 99999999999999999987654
No 122
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.88 E-value=0.019 Score=70.49 Aligned_cols=73 Identities=21% Similarity=0.335 Sum_probs=50.8
Q ss_pred CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH--------
Q psy3462 250 AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE-------- 321 (795)
Q Consensus 250 ~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k-------- 321 (795)
+|+.|.+.++.+. +|+++|+-.|||||||++|++|++.-+....+
T Consensus 71 lY~HQ~~A~~~~~---------------------------~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYP 123 (851)
T COG1205 71 LYSHQVDALRLIR---------------------------EGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYP 123 (851)
T ss_pred ccHHHHHHHHHHH---------------------------CCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEec
Confidence 7888888777764 47899999999999999999999988766543
Q ss_pred ---HHHHHHHhhhhhhhhhcCCCCceEEEeccc
Q psy3462 322 ---LVQQKMFEQRTQDLQKIPFRKLKISRLKAK 351 (795)
Q Consensus 322 ---~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr 351 (795)
..++|+- + +-.+.+..+.++.+...-|.
T Consensus 124 tnALa~DQ~~-r-l~~~~~~~~~~v~~~~y~Gd 154 (851)
T COG1205 124 TNALANDQAE-R-LRELISDLPGKVTFGRYTGD 154 (851)
T ss_pred hhhhHhhHHH-H-HHHHHHhCCCcceeeeecCC
Confidence 3556653 2 12222233336677665554
No 123
>KOG0335|consensus
Probab=95.86 E-value=0.0057 Score=70.22 Aligned_cols=36 Identities=28% Similarity=0.388 Sum_probs=31.0
Q ss_pred HhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
|+.+..++.++.+||||+|||.|||+|++.++.+.+
T Consensus 105 ip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~ 140 (482)
T KOG0335|consen 105 IPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEG 140 (482)
T ss_pred cceeecCCceEEEccCCCcchHHHHHHHHHHHHhcC
Confidence 344556888999999999999999999999998764
No 124
>PRK09694 helicase Cas3; Provisional
Probab=95.82 E-value=0.022 Score=70.15 Aligned_cols=79 Identities=16% Similarity=0.081 Sum_probs=51.3
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh------
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK------ 320 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~------ 320 (795)
.|.|||.|..+++. .. +.++.+||||||+|||.+.|..+...+...+
T Consensus 284 ~~~p~p~Q~~~~~~-----~~----------------------~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~ 336 (878)
T PRK09694 284 GYQPRQLQTLVDAL-----PL----------------------QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIF 336 (878)
T ss_pred CCCChHHHHHHHhh-----cc----------------------CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEE
Confidence 37899999977432 11 2478999999999999999887665444331
Q ss_pred ----HHHHHHHHhhhhhhhhhcCCCCceEEEeccccc
Q psy3462 321 ----ELVQQKMFEQRTQDLQKIPFRKLKISRLKAKDF 353 (795)
Q Consensus 321 ----k~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~~ 353 (795)
..+-+||.++=...++++.+ +..+.++-|+.+
T Consensus 337 aLPT~Atan~m~~Rl~~~~~~~f~-~~~v~L~Hg~a~ 372 (878)
T PRK09694 337 ALPTQATANAMLSRLEALASKLFP-SPNLILAHGNSR 372 (878)
T ss_pred ECcHHHHHHHHHHHHHHHHHHhcC-CCceEeecCcch
Confidence 14556777653333444444 345667777653
No 125
>PRK00254 ski2-like helicase; Provisional
Probab=95.81 E-value=0.022 Score=68.43 Aligned_cols=47 Identities=28% Similarity=0.327 Sum_probs=36.6
Q ss_pred cCC-CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 246 FPV-KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 246 fpy-~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..| +++|.|.+.+... + .+++++++.||||+|||++|++|++..+..
T Consensus 19 ~g~~~l~~~Q~~ai~~~---~-----------------------~~g~nvlv~apTGsGKT~~~~l~il~~l~~ 66 (720)
T PRK00254 19 RGIEELYPPQAEALKSG---V-----------------------LEGKNLVLAIPTASGKTLVAEIVMVNKLLR 66 (720)
T ss_pred CCCCCCCHHHHHHHHHH---H-----------------------hCCCcEEEECCCCcHHHHHHHHHHHHHHHh
Confidence 345 5899999877652 1 136789999999999999999998876543
No 126
>KOG0334|consensus
Probab=95.77 E-value=0.0064 Score=74.49 Aligned_cols=55 Identities=27% Similarity=0.315 Sum_probs=45.7
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
..+...+ +-+.|-.|+|+| ..++.++..|.++|..|-||+|||+|||+|.+.+..
T Consensus 374 ~~il~tl-kkl~y~k~~~IQ----~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~ 428 (997)
T KOG0334|consen 374 SKILETL-KKLGYEKPTPIQ----AQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIK 428 (997)
T ss_pred HHHHHHH-HHhcCCCCcchh----hhhcchhccCcceEEeeccCCccchhhhcchhhhhh
Confidence 3455555 566788999999 777889999999999999999999999999984443
No 127
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.75 E-value=0.011 Score=70.97 Aligned_cols=54 Identities=24% Similarity=0.223 Sum_probs=41.9
Q ss_pred HHhCCCCCC---CCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHH---------HHHHHHHHHH
Q psy3462 12 YLNEPNYFL---KYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLA---------LLCSVLAWQR 65 (795)
Q Consensus 12 ~~~~~~~~~---p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLA---------yL~paL~~~~ 65 (795)
+..++.+|. .++-|.++=+++.+.+.+++++|+.|+||+|||.+ ||.|++.++.
T Consensus 149 ~~~n~~~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~ 214 (675)
T PHA02653 149 ILGNPEPFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLD 214 (675)
T ss_pred ccCCCCccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhh
Confidence 344444443 23667777789999999999999999999999997 7778877764
No 128
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=95.72 E-value=0.0092 Score=70.31 Aligned_cols=42 Identities=26% Similarity=0.332 Sum_probs=37.0
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
+-.-|++| .+|++++.+++++++-.|||.||||+|-+|+|-.
T Consensus 15 y~~FR~gQ----~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 15 YASFRPGQ----QEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred ccccCCCH----HHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 44567899 6888888899999999999999999999998876
No 129
>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=95.70 E-value=0.011 Score=71.59 Aligned_cols=42 Identities=19% Similarity=0.160 Sum_probs=29.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+.+||+.| ++..+ ++..| .|+|++||+||||+|++|++..+.
T Consensus 68 glrpydVQ--lig~l--~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL 109 (762)
T TIGR03714 68 GMFPYDVQ--VLGAI--VLHQG--NIAEMKTGEGKTLTATMPLYLNAL 109 (762)
T ss_pred CCCccHHH--HHHHH--HhcCC--ceeEecCCcchHHHHHHHHHHHhh
Confidence 34566666 44433 34444 699999999999999999765443
No 130
>PRK14701 reverse gyrase; Provisional
Probab=95.65 E-value=0.026 Score=73.42 Aligned_cols=78 Identities=15% Similarity=0.186 Sum_probs=49.8
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH----
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE---- 321 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k---- 321 (795)
++|+|+|.|.+.+..+. .++.+++-||||||||+.++.+++.......+
T Consensus 76 ~G~~pt~iQ~~~i~~il---------------------------~G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl 128 (1638)
T PRK14701 76 TGFEFWSIQKTWAKRIL---------------------------RGKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYII 128 (1638)
T ss_pred hCCCCCHHHHHHHHHHH---------------------------cCCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 67889999998887754 25678999999999999767666554433322
Q ss_pred ----HHHHHHHhhhhhhhhhcCCCCceEEEeccc
Q psy3462 322 ----LVQQKMFEQRTQDLQKIPFRKLKISRLKAK 351 (795)
Q Consensus 322 ----~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr 351 (795)
.|-.|..++ +..+.+..+..+.+..+-|.
T Consensus 129 ~PTreLa~Qi~~~-l~~l~~~~~~~v~v~~~~g~ 161 (1638)
T PRK14701 129 LPTTLLVKQTVEK-IESFCEKANLDVRLVYYHSN 161 (1638)
T ss_pred ECHHHHHHHHHHH-HHHHHhhcCCceeEEEEeCC
Confidence 455555543 22333334445555554443
No 131
>KOG0334|consensus
Probab=95.61 E-value=0.77 Score=57.13 Aligned_cols=32 Identities=34% Similarity=0.463 Sum_probs=29.8
Q ss_pred HHHHhhccccCcEEEeCCCCCChhHHHHHHHH
Q psy3462 282 LQVIQGCNKAKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 282 ~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l 313 (795)
.++||++..++.+|--|-||+|||+|||+|.+
T Consensus 393 ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmi 424 (997)
T KOG0334|consen 393 AQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMI 424 (997)
T ss_pred hhhcchhccCcceEEeeccCCccchhhhcchh
Confidence 46888999999999999999999999999988
No 132
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=95.50 E-value=0.015 Score=71.06 Aligned_cols=37 Identities=27% Similarity=0.408 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
..+.+|.+++.++.++|+.||||||||.+|.+|+|..
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~ 44 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQH 44 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHc
Confidence 4567899999999999999999999999999998864
No 133
>KOG0344|consensus
Probab=95.47 E-value=0.018 Score=67.29 Aligned_cols=38 Identities=34% Similarity=0.410 Sum_probs=33.2
Q ss_pred HHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 283 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 283 ~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
++++.+.++++++..||||+||||||++|+|..++.+.
T Consensus 165 ~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~ 202 (593)
T KOG0344|consen 165 QAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLS 202 (593)
T ss_pred hhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhh
Confidence 56677778899999999999999999999988887665
No 134
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.45 E-value=0.017 Score=70.35 Aligned_cols=42 Identities=19% Similarity=0.073 Sum_probs=31.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+..||+.|. +. .-++..|. |.|+.||+|||+++++|++..+.
T Consensus 76 g~~p~~vQl--~~--~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al 117 (790)
T PRK09200 76 GMRPYDVQL--IG--ALVLHEGN--IAEMQTGEGKTLTATMPLYLNAL 117 (790)
T ss_pred CCCCchHHH--Hh--HHHHcCCc--eeeecCCCcchHHHHHHHHHHHH
Confidence 568999992 22 22555554 99999999999999999885544
No 135
>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=95.41 E-value=0.013 Score=63.63 Aligned_cols=23 Identities=43% Similarity=0.428 Sum_probs=20.7
Q ss_pred cEEEECCCCCchHHHHHHHHHHH
Q psy3462 41 NCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 41 ~~llEAPTGTGKTLAyL~paL~~ 63 (795)
++++.||||+|||++|++|++..
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~ 23 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHS 23 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHH
Confidence 47999999999999999998854
No 136
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.38 E-value=0.024 Score=68.00 Aligned_cols=46 Identities=20% Similarity=0.047 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
.+.+++.|++.++.+.+.+ ...+.++.||||+|||.+|+.++...+
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l 187 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVL 187 (679)
T ss_pred CCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHH
Confidence 4467899987777776554 457799999999999999988755443
No 137
>KOG0339|consensus
Probab=95.34 E-value=0.012 Score=67.75 Aligned_cols=73 Identities=15% Similarity=0.120 Sum_probs=59.1
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCc
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKT 86 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~ 86 (795)
+.+.++... .|..|||+| ..+..+...+.+++-.|-||+|||-||+.|.+..+.+..+ |.-+++|
T Consensus 233 qLm~airk~-Ey~kptpiq----~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~e----------L~~g~gP 297 (731)
T KOG0339|consen 233 QLMTAIRKS-EYEKPTPIQ----CQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPE----------LKPGEGP 297 (731)
T ss_pred HHHHHHhhh-hcccCCccc----ccccccccccccchheeeccCcchhHHHHHHHHHhcchhh----------hcCCCCC
Confidence 344555554 788999999 6677777888999999999999999999999988876653 5656889
Q ss_pred eeEEeccc
Q psy3462 87 SFVFCGRS 94 (795)
Q Consensus 87 ~~~yc~rt 94 (795)
.-+||+.|
T Consensus 298 i~vilvPT 305 (731)
T KOG0339|consen 298 IGVILVPT 305 (731)
T ss_pred eEEEEecc
Confidence 99999755
No 138
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=95.31 E-value=0.016 Score=69.91 Aligned_cols=43 Identities=21% Similarity=0.050 Sum_probs=31.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
-+..||+.|. ...-++..|. |.|++||+||||++++|++..+.
T Consensus 53 lg~~p~~vQl----ig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL 95 (745)
T TIGR00963 53 LGMRPFDVQL----IGGIALHKGK--IAEMKTGEGKTLTATLPAYLNAL 95 (745)
T ss_pred hCCCccchHH----hhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHH
Confidence 3668899993 2223455554 99999999999999999864443
No 139
>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=95.21 E-value=0.03 Score=49.66 Aligned_cols=26 Identities=50% Similarity=0.741 Sum_probs=21.2
Q ss_pred CcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 40 KNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+++++.+|||+|||..++..+.....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~ 26 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLD 26 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHh
Confidence 46899999999999888888666543
No 140
>KOG0342|consensus
Probab=95.17 E-value=0.0091 Score=68.50 Aligned_cols=36 Identities=39% Similarity=0.475 Sum_probs=31.2
Q ss_pred HhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
|+.+..++.++.-|-||||||+|||+|++.|+...+
T Consensus 113 i~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~ 148 (543)
T KOG0342|consen 113 IPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLK 148 (543)
T ss_pred cCccCCCccceeeeccCCCceeeehhHHHHHHHhcc
Confidence 455667889999999999999999999999987653
No 141
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.04 E-value=0.042 Score=65.91 Aligned_cols=61 Identities=23% Similarity=0.253 Sum_probs=45.8
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH---
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE--- 321 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k--- 321 (795)
.-|++.++.|.+.+..+.+.+ . ....++-||||+|||.+|+.++...+...++
T Consensus 140 ~~~~~Lt~~Q~~ai~~i~~~~-~-----------------------~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLv 195 (679)
T PRK05580 140 FEPPTLNPEQAAAVEAIRAAA-G-----------------------FSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALV 195 (679)
T ss_pred cCCCCCCHHHHHHHHHHHhcc-C-----------------------CCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEE
Confidence 456789999998888886543 1 3568999999999999999887666655433
Q ss_pred -----HHHHHHHh
Q psy3462 322 -----LVQQKMFE 329 (795)
Q Consensus 322 -----~LQ~Ql~~ 329 (795)
.|..|+.+
T Consensus 196 LvPt~~L~~Q~~~ 208 (679)
T PRK05580 196 LVPEIALTPQMLA 208 (679)
T ss_pred EeCcHHHHHHHHH
Confidence 46666654
No 142
>PRK09401 reverse gyrase; Reviewed
Probab=95.01 E-value=0.039 Score=69.94 Aligned_cols=57 Identities=19% Similarity=0.257 Sum_probs=38.8
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh-H---
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK-E--- 321 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~-k--- 321 (795)
+.++|+|.|...+..+. .++++++-||||||||. ++++++.++...+ +
T Consensus 77 ~G~~pt~iQ~~~i~~il---------------------------~g~dv~i~ApTGsGKT~-f~l~~~~~l~~~g~~alI 128 (1176)
T PRK09401 77 TGSKPWSLQRTWAKRLL---------------------------LGESFAIIAPTGVGKTT-FGLVMSLYLAKKGKKSYI 128 (1176)
T ss_pred cCCCCcHHHHHHHHHHH---------------------------CCCcEEEEcCCCCCHHH-HHHHHHHHHHhcCCeEEE
Confidence 45789999987766542 35789999999999996 5555555554322 2
Q ss_pred -----HHHHHHHhh
Q psy3462 322 -----LVQQKMFEQ 330 (795)
Q Consensus 322 -----~LQ~Ql~~k 330 (795)
.|-.|..++
T Consensus 129 L~PTreLa~Qi~~~ 142 (1176)
T PRK09401 129 IFPTRLLVEQVVEK 142 (1176)
T ss_pred EeccHHHHHHHHHH
Confidence 566666543
No 143
>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=94.93 E-value=0.029 Score=68.69 Aligned_cols=38 Identities=21% Similarity=0.296 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
+...+|.++|.++.++|+.||||+|||.+|.+|++...
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~ 42 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP 42 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh
Confidence 45678999999999999999999999999999988654
No 144
>KOG0333|consensus
Probab=94.92 E-value=0.041 Score=63.87 Aligned_cols=30 Identities=33% Similarity=0.473 Sum_probs=27.1
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
.++.|.-|.||+|||+||++|+|.|+....
T Consensus 282 ~rD~igvaETgsGktaaf~ipLl~~IsslP 311 (673)
T KOG0333|consen 282 NRDPIGVAETGSGKTAAFLIPLLIWISSLP 311 (673)
T ss_pred cCCeeeEEeccCCccccchhhHHHHHHcCC
Confidence 577889999999999999999999998765
No 145
>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=94.91 E-value=0.022 Score=69.67 Aligned_cols=40 Identities=25% Similarity=0.361 Sum_probs=30.9
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccC-cEEEeCCCCCChhHHHHHHHH
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAK-NCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~-~~l~EaPTGTGKTlayL~~~l 313 (795)
.|+|+|+|.+.+..+. + ++ ..++.||||||||.++.+..+
T Consensus 13 G~~PtpiQ~~~i~~il---~------------------------G~~~v~~~apTGSGKTaa~aafll 53 (844)
T TIGR02621 13 GYSPFPWQLSLAERFV---A------------------------GQPPESCSTPTGLGKTSIIAAWLL 53 (844)
T ss_pred CCCCCHHHHHHHHHHH---c------------------------CCCcceEecCCCCcccHHHHHhhc
Confidence 5779999999998854 2 33 578899999999997654444
No 146
>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=94.73 E-value=0.026 Score=62.37 Aligned_cols=23 Identities=43% Similarity=0.599 Sum_probs=20.2
Q ss_pred CcEEEeCCCCCChhHHHHHHHHH
Q psy3462 292 KNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.++++.||||+|||+++++|++.
T Consensus 15 ~~~~i~apTGsGKT~~~~~~~l~ 37 (357)
T TIGR03158 15 DIIFNTAPTGAGKTLAWLTPLLH 37 (357)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 35899999999999999998773
No 147
>KOG0346|consensus
Probab=94.67 E-value=0.023 Score=64.70 Aligned_cols=38 Identities=34% Similarity=0.346 Sum_probs=31.7
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
+||-+.+++.++.-|-||+|||.|||+|+|.-+-..++
T Consensus 49 aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~ 86 (569)
T KOG0346|consen 49 AIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKK 86 (569)
T ss_pred ccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhh
Confidence 56666788999999999999999999999877665543
No 148
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=94.52 E-value=0.069 Score=67.55 Aligned_cols=45 Identities=20% Similarity=0.258 Sum_probs=35.3
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHH
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCS 311 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~ 311 (795)
.+.+.+||.|.+.+..+.+++.++ .+.+|+.+|||||||+..+..
T Consensus 409 ~~~~~lR~YQ~~AI~ai~~a~~~g----------------------~r~~Ll~maTGSGKT~tai~l 453 (1123)
T PRK11448 409 DYGLGLRYYQEDAIQAVEKAIVEG----------------------QREILLAMATGTGKTRTAIAL 453 (1123)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHhc----------------------cCCeEEEeCCCCCHHHHHHHH
Confidence 334679999999999998888642 356899999999999875443
No 149
>PHA02558 uvsW UvsW helicase; Provisional
Probab=94.49 E-value=0.054 Score=62.51 Aligned_cols=36 Identities=22% Similarity=0.063 Sum_probs=27.1
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALL 57 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL 57 (795)
.+.||+.|.+.+..+ + .+.++++.||||+|||+.+.
T Consensus 112 ~~~~r~~Q~~av~~~---l-~~~~~il~apTGsGKT~i~~ 147 (501)
T PHA02558 112 KIEPHWYQYDAVYEG---L-KNNRRLLNLPTSAGKSLIQY 147 (501)
T ss_pred cCCCCHHHHHHHHHH---H-hcCceEEEeCCCCCHHHHHH
Confidence 468999996654433 3 35678999999999998653
No 150
>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=94.46 E-value=0.052 Score=57.50 Aligned_cols=36 Identities=22% Similarity=0.371 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 19 FLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
|.+.+..+++.+.+...+..+.++++++|+|||||.
T Consensus 1 ~~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~ 36 (262)
T TIGR02640 1 FIETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTT 36 (262)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHH
Confidence 567788889999999999999999999999999993
No 151
>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=94.41 E-value=0.041 Score=59.69 Aligned_cols=25 Identities=40% Similarity=0.446 Sum_probs=21.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 294 CLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
+++.||||+|||++++.+++..+..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~ 26 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKS 26 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhh
Confidence 6899999999999999999866543
No 152
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=94.33 E-value=0.085 Score=52.16 Aligned_cols=59 Identities=17% Similarity=0.212 Sum_probs=30.8
Q ss_pred HHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccccc
Q psy3462 31 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFFLL 99 (795)
Q Consensus 31 ~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~l~ 99 (795)
++..++......+|.||.||||| ..+..++..+...-. ......+.+++.|+.||..+.
T Consensus 9 Ai~~~~~~~~~~~i~GpPGTGKT-~~l~~~i~~~~~~~~---------~~~~~~~~~il~~~~sN~avd 67 (236)
T PF13086_consen 9 AIQSALSSNGITLIQGPPGTGKT-TTLASIIAQLLQRFK---------SRSADRGKKILVVSPSNAAVD 67 (236)
T ss_dssp HHHHHCTSSE-EEEE-STTSSHH-HHHHHHHHHH----------------HCCCSS-EEEEESSHHHHH
T ss_pred HHHHHHcCCCCEEEECCCCCChH-HHHHHHHHHhccchh---------hhhhhccccceeecCCchhHH
Confidence 33334444334999999999999 222333333311000 123446788888888887764
No 153
>KOG0326|consensus
Probab=94.30 E-value=0.0056 Score=67.34 Aligned_cols=53 Identities=21% Similarity=0.189 Sum_probs=47.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQ 73 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~ 73 (795)
++-+|.|+| ++.+.....|++++.-|-.|||||-||++|+|..++..+..+|+
T Consensus 104 G~ekPSPiQ----eesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~ 156 (459)
T KOG0326|consen 104 GFEKPSPIQ----EESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQA 156 (459)
T ss_pred ccCCCCCcc----ccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeE
Confidence 666899999 77777777889999999999999999999999999988888886
No 154
>PRK13766 Hef nuclease; Provisional
Probab=94.28 E-value=0.043 Score=66.07 Aligned_cols=43 Identities=28% Similarity=0.263 Sum_probs=34.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
+.+.||+.|.++...+. .+ ++++-+|||+|||+.+++++...+
T Consensus 12 ~~~~~r~yQ~~~~~~~l---~~--n~lv~~ptG~GKT~~a~~~i~~~l 54 (773)
T PRK13766 12 NTIEARLYQQLLAATAL---KK--NTLVVLPTGLGKTAIALLVIAERL 54 (773)
T ss_pred CcCCccHHHHHHHHHHh---cC--CeEEEcCCCccHHHHHHHHHHHHH
Confidence 35678999987666543 32 899999999999999998877665
No 155
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=94.13 E-value=0.064 Score=64.23 Aligned_cols=46 Identities=20% Similarity=0.116 Sum_probs=34.5
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
.....|||.|..-.-.+. .|+ +.||.||+|||+++++|++..+...
T Consensus 99 ~lg~~p~~VQ~~~~~~ll---------------------------~G~--Iae~~TGeGKTla~~lp~~~~al~G 144 (656)
T PRK12898 99 VLGQRHFDVQLMGGLALL---------------------------SGR--LAEMQTGEGKTLTATLPAGTAALAG 144 (656)
T ss_pred HhCCCCChHHHHHHHHHh---------------------------CCC--eeeeeCCCCcHHHHHHHHHHHhhcC
Confidence 356778888876544432 344 8999999999999999998766544
No 156
>KOG0337|consensus
Probab=94.05 E-value=0.032 Score=63.33 Aligned_cols=56 Identities=16% Similarity=0.193 Sum_probs=47.0
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhh
Q psy3462 8 IFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 68 (795)
Q Consensus 8 ~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~ 68 (795)
-|+++... .+-.|.|+| .+.+..+.++.+++--|-||+|||.||++|++..+....
T Consensus 32 v~raI~kk-g~~~ptpiq----RKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s 87 (529)
T KOG0337|consen 32 VLRAIHKK-GFNTPTPIQ----RKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS 87 (529)
T ss_pred HHHHHHHh-hcCCCCchh----cccccceeeccccceeeecCCcchhhHHHHHHHHHhhcc
Confidence 34555555 566899999 777888888999999999999999999999999887665
No 157
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=94.05 E-value=0.041 Score=67.30 Aligned_cols=42 Identities=19% Similarity=0.073 Sum_probs=32.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
-+..||+.| ||-.+ +|+.| -|.|+.||+||||++.+|++..+
T Consensus 78 lg~~~~dvQ--lig~l--~L~~G--~Iaem~TGeGKTLva~lpa~l~a 119 (830)
T PRK12904 78 LGMRHFDVQ--LIGGM--VLHEG--KIAEMKTGEGKTLVATLPAYLNA 119 (830)
T ss_pred hCCCCCccH--HHhhH--HhcCC--chhhhhcCCCcHHHHHHHHHHHH
Confidence 356889998 44444 55665 49999999999999999986444
No 158
>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=94.04 E-value=0.052 Score=48.14 Aligned_cols=24 Identities=54% Similarity=0.769 Sum_probs=20.0
Q ss_pred cEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 293 NCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 293 ~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
++++.+|||+|||..++..+....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~ 25 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELL 25 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHH
Confidence 589999999999999888765544
No 159
>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=93.97 E-value=0.09 Score=66.82 Aligned_cols=44 Identities=20% Similarity=0.254 Sum_probs=31.8
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.++|+|.|...+..+. .++.+++.||||||||+ |++|++.++..
T Consensus 76 g~~p~~iQ~~~i~~il---------------------------~G~d~vi~ApTGsGKT~-f~l~~~~~l~~ 119 (1171)
T TIGR01054 76 GSEPWSIQKMWAKRVL---------------------------RGDSFAIIAPTGVGKTT-FGLAMSLFLAK 119 (1171)
T ss_pred CCCCcHHHHHHHHHHh---------------------------CCCeEEEECCCCCCHHH-HHHHHHHHHHh
Confidence 3578888876665532 36789999999999997 65666666543
No 160
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=93.93 E-value=0.046 Score=67.16 Aligned_cols=43 Identities=19% Similarity=0.061 Sum_probs=32.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
-+..||+.| +|-.+ +|+.| -|.|++||+||||+|++|++..+.
T Consensus 79 lg~~~ydvQ--liGg~--~Lh~G--~Iaem~TGeGKTL~a~Lpa~~~al 121 (896)
T PRK13104 79 LGLRHFDVQ--LIGGM--VLHEG--NIAEMRTGEGKTLVATLPAYLNAI 121 (896)
T ss_pred cCCCcchHH--Hhhhh--hhccC--ccccccCCCCchHHHHHHHHHHHh
Confidence 355788888 44433 34554 589999999999999999997764
No 161
>PHA02558 uvsW UvsW helicase; Provisional
Probab=93.85 E-value=0.12 Score=59.76 Aligned_cols=37 Identities=22% Similarity=0.244 Sum_probs=27.9
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHH
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLC 310 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~ 310 (795)
.++|||.|.+.+..+ +. +..+++.+|||+|||+.+..
T Consensus 112 ~~~~r~~Q~~av~~~---l~------------------------~~~~il~apTGsGKT~i~~~ 148 (501)
T PHA02558 112 KIEPHWYQYDAVYEG---LK------------------------NNRRLLNLPTSAGKSLIQYL 148 (501)
T ss_pred cCCCCHHHHHHHHHH---Hh------------------------cCceEEEeCCCCCHHHHHHH
Confidence 478999999866543 32 24579999999999997643
No 162
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=93.64 E-value=0.096 Score=59.78 Aligned_cols=41 Identities=17% Similarity=0.148 Sum_probs=33.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALL 57 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL 57 (795)
+.+.+|+.|.+-++++...+.....+++-+|||+|||+..+
T Consensus 33 ~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~ 73 (442)
T COG1061 33 FEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAA 73 (442)
T ss_pred cCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHH
Confidence 46679999988888888777767889999999999995443
No 163
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=93.53 E-value=0.11 Score=65.65 Aligned_cols=39 Identities=21% Similarity=0.114 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcC-CcEEEECCCCCchHHHHH
Q psy3462 19 FLKYSSCKILHLQVIQGCNKA-KNCLLESPTGSGKTLALL 57 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~~~-~~~llEAPTGTGKTLAyL 57 (795)
+.+|+.|.+.+.++.+++.++ ..+++.+|||||||+..+
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai 451 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAI 451 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHH
Confidence 569999999999999999765 579999999999997643
No 164
>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=93.41 E-value=0.11 Score=54.17 Aligned_cols=39 Identities=21% Similarity=0.359 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+.|..+++++. +...+++.||.|||||+-.+..++....
T Consensus 7 ~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~ 45 (205)
T PF02562_consen 7 EEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVK 45 (205)
T ss_dssp HHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHH
Confidence 78877776666 6678999999999999777766666544
No 165
>KOG0352|consensus
Probab=93.35 E-value=0.084 Score=60.23 Aligned_cols=55 Identities=18% Similarity=0.224 Sum_probs=36.6
Q ss_pred hhHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 4 KSSDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 4 ~~~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
+-|++++.+-..- -|-.+-|.+ ++.-++...+++.+..|||.||+|+|-+|+|-.
T Consensus 6 ~VreaLKK~FGh~--kFKs~LQE~---A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~ 60 (641)
T KOG0352|consen 6 KVREALKKLFGHK--KFKSRLQEQ---AINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH 60 (641)
T ss_pred HHHHHHHHHhCch--hhcChHHHH---HHHHHHhccCcEEEeccCCCchhhhhhchHHHh
Confidence 3455555443331 145577732 333345677899999999999999999998753
No 166
>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=93.14 E-value=0.06 Score=65.36 Aligned_cols=25 Identities=28% Similarity=0.259 Sum_probs=21.2
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 294 CLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.++|++||+|||++|++|++..+..
T Consensus 86 ~Iaem~TGeGKTLta~Lpa~l~aL~ 110 (762)
T TIGR03714 86 NIAEMKTGEGKTLTATMPLYLNALT 110 (762)
T ss_pred ceeEecCCcchHHHHHHHHHHHhhc
Confidence 6999999999999999997655443
No 167
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=93.11 E-value=0.071 Score=65.36 Aligned_cols=32 Identities=31% Similarity=0.487 Sum_probs=25.8
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
+++++.+++++++.||||||||.+|..++|..
T Consensus 13 i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~ 44 (812)
T PRK11664 13 LLTALKTAPQVLLKAPTGAGKSTWLPLQLLQH 44 (812)
T ss_pred HHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHc
Confidence 33444557899999999999999999988753
No 168
>KOG0343|consensus
Probab=93.09 E-value=0.056 Score=63.15 Aligned_cols=35 Identities=37% Similarity=0.376 Sum_probs=28.3
Q ss_pred HhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
|+.-..|+.+|--|-||||||||||+|+|..+-..
T Consensus 100 Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~ 134 (758)
T KOG0343|consen 100 IPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRL 134 (758)
T ss_pred cchhccCcccccccccCCCceeeehHHHHHHHHHc
Confidence 34444678899999999999999999998776543
No 169
>KOG0952|consensus
Probab=93.06 E-value=0.098 Score=64.77 Aligned_cols=57 Identities=25% Similarity=0.291 Sum_probs=42.0
Q ss_pred HHHHHH-HhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEeccc
Q psy3462 30 LQVIQG-CNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRS 94 (795)
Q Consensus 30 ~~i~~a-l~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rt 94 (795)
..++.. .+.+.|+||.||||+|||.-+++.+|.-+.... ++-.-+.+..+++|=+.+
T Consensus 116 S~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~--------~~~~i~k~~fKiVYIaPm 173 (1230)
T KOG0952|consen 116 SEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHE--------EQGDIAKDDFKIVYIAPM 173 (1230)
T ss_pred HHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhc--------cccccccCCceEEEEech
Confidence 455544 466889999999999999999999998887621 123445577788887644
No 170
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=93.03 E-value=0.078 Score=62.76 Aligned_cols=46 Identities=28% Similarity=0.401 Sum_probs=35.5
Q ss_pred eeccCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 243 KVEFPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 243 ~~~fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
.-.|.|. .||.|.+.++.+ .++++++.-.|||.||||.|-+|++-.
T Consensus 10 ~~~fGy~~FR~gQ~evI~~~---------------------------l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 10 KQVFGYASFRPGQQEIIDAL---------------------------LSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred HHHhCccccCCCHHHHHHHH---------------------------HcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 3357774 688887665554 246889999999999999999998765
No 171
>PRK13766 Hef nuclease; Provisional
Probab=92.62 E-value=0.23 Score=59.89 Aligned_cols=44 Identities=27% Similarity=0.262 Sum_probs=34.3
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
.++++|+-|.++...+ ++ +++++-+|||+|||+.+++++...+.
T Consensus 12 ~~~~~r~yQ~~~~~~~---l~-------------------------~n~lv~~ptG~GKT~~a~~~i~~~l~ 55 (773)
T PRK13766 12 NTIEARLYQQLLAATA---LK-------------------------KNTLVVLPTGLGKTAIALLVIAERLH 55 (773)
T ss_pred CcCCccHHHHHHHHHH---hc-------------------------CCeEEEcCCCccHHHHHHHHHHHHHH
Confidence 3468999999877653 32 37899999999999999888766654
No 172
>KOG0327|consensus
Probab=92.54 E-value=0.12 Score=58.17 Aligned_cols=53 Identities=23% Similarity=0.280 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQ 73 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~ 73 (795)
+|-.|..+| +.++-.+-.|.++++.|.+|||||.||++++|...+......|+
T Consensus 45 GFekPSaIQ----qraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qa 97 (397)
T KOG0327|consen 45 GFEKPSAIQ----QRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQA 97 (397)
T ss_pred ccCCchHHH----hccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHH
Confidence 445789999 55556666779999999999999999999999997666655555
No 173
>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=91.94 E-value=0.13 Score=63.19 Aligned_cols=33 Identities=24% Similarity=0.375 Sum_probs=27.1
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
+++++.+++++++.||||||||.+|..+++...
T Consensus 10 i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~ 42 (819)
T TIGR01970 10 LRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP 42 (819)
T ss_pred HHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh
Confidence 444555678999999999999999999987654
No 174
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=91.93 E-value=0.12 Score=63.77 Aligned_cols=43 Identities=19% Similarity=0.050 Sum_probs=31.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
-+..||+.|. |-.+ +|+. .-|.|++||+||||++.+|++..+.
T Consensus 79 lgm~~ydVQl--iGgl--~L~~--G~IaEm~TGEGKTL~a~lp~~l~al 121 (908)
T PRK13107 79 FEMRHFDVQL--LGGM--VLDS--NRIAEMRTGEGKTLTATLPAYLNAL 121 (908)
T ss_pred hCCCcCchHH--hcch--HhcC--CccccccCCCCchHHHHHHHHHHHh
Confidence 3557888883 3322 2343 4689999999999999999987664
No 175
>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=91.93 E-value=0.16 Score=45.54 Aligned_cols=30 Identities=30% Similarity=0.319 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNK--AKNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~--~~~~llEAPTGTGKT 53 (795)
.+...+..+...+.. +.++++.||+|||||
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT 33 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKT 33 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHH
Confidence 355667778888766 678999999999999
No 176
>PHA02653 RNA helicase NPH-II; Provisional
Probab=91.89 E-value=0.1 Score=62.82 Aligned_cols=44 Identities=20% Similarity=0.129 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHH---------HHHHHHHHH
Q psy3462 250 AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLA---------LLCSVLAWQ 316 (795)
Q Consensus 250 ~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTla---------yL~~~l~~~ 316 (795)
-++-|.+.=+++...+. +++++++.|+||||||.+ ||.|.+.++
T Consensus 161 l~~~~~~iQ~qil~~i~-----------------------~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l 213 (675)
T PHA02653 161 LASLQPDVQLKIFEAWI-----------------------SRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNL 213 (675)
T ss_pred CCchhHHHHHHHHHHHH-----------------------hCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhh
Confidence 36677776666665554 468999999999999997 666666655
No 177
>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=91.60 E-value=0.21 Score=59.91 Aligned_cols=41 Identities=20% Similarity=0.266 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHHhc------CCcEEEECCCCCchHHHHHHHH
Q psy3462 20 LKYSSCKILHLQVIQGCNK------AKNCLLESPTGSGKTLALLCSV 60 (795)
Q Consensus 20 ~p~~~Q~~mm~~i~~al~~------~~~~llEAPTGTGKTLAyL~pa 60 (795)
.||..|...++++.+.+.+ .+.+++..|||||||+..+.-+
T Consensus 238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la 284 (667)
T TIGR00348 238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAA 284 (667)
T ss_pred ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHH
Confidence 3788999999999999865 3579999999999997665544
No 178
>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=91.58 E-value=0.27 Score=59.04 Aligned_cols=64 Identities=16% Similarity=0.209 Sum_probs=42.8
Q ss_pred CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh---------
Q psy3462 250 AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK--------- 320 (795)
Q Consensus 250 ~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~--------- 320 (795)
+|+.|...++++...+.+.. . -...+.+++.+|||||||+.-+..+...++..+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~----~-------------~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvd 301 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKT----W-------------GKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVD 301 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcc----c-------------CCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEEC
Confidence 79999999999988775310 0 001357999999999999877665543332221
Q ss_pred -HHHHHHHHhh
Q psy3462 321 -ELVQQKMFEQ 330 (795)
Q Consensus 321 -k~LQ~Ql~~k 330 (795)
..|-+|+.+.
T Consensus 302 R~~L~~Q~~~~ 312 (667)
T TIGR00348 302 RRELDYQLMKE 312 (667)
T ss_pred cHHHHHHHHHH
Confidence 1577777654
No 179
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=91.12 E-value=0.24 Score=60.09 Aligned_cols=46 Identities=28% Similarity=0.252 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 21 KYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 21 p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+++-|...++.+...-..+..++++||||.|||.|.|.+++.-+..
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~ 241 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDE 241 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhc
Confidence 4567755555555544444489999999999999999997766544
No 180
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=91.05 E-value=0.59 Score=47.60 Aligned_cols=57 Identities=12% Similarity=0.118 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHHHHHhcC-CcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccccc
Q psy3462 22 YSSCKILHLQVIQGCNKA-KNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFFLL 99 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~~-~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~l~ 99 (795)
.+.|.+++..+. .++ ...++.+|.|||||-. |-.+...... .+.+|+.|+.||.+..
T Consensus 3 ~~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~-----------------~g~~v~~~apT~~Aa~ 60 (196)
T PF13604_consen 3 NEEQREAVRAIL---TSGDRVSVLQGPAGTGKTTL-LKALAEALEA-----------------AGKRVIGLAPTNKAAK 60 (196)
T ss_dssp -HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHH-HHHHHHHHHH-----------------TT--EEEEESSHHHHH
T ss_pred CHHHHHHHHHHH---hcCCeEEEEEECCCCCHHHH-HHHHHHHHHh-----------------CCCeEEEECCcHHHHH
Confidence 467877666653 343 4688999999999942 2222221111 3478999999998765
No 181
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=91.05 E-value=0.32 Score=55.60 Aligned_cols=45 Identities=22% Similarity=0.322 Sum_probs=36.7
Q ss_pred eccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHH
Q psy3462 244 VEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCS 311 (795)
Q Consensus 244 ~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~ 311 (795)
+.+.+++||.|.+.++++.+.+.+ ++-+++-+|||+|||+..+-.
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~-----------------------~~~gvivlpTGaGKT~va~~~ 75 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRT-----------------------ERRGVIVLPTGAGKTVVAAEA 75 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhccc-----------------------CCceEEEeCCCCCHHHHHHHH
Confidence 566688999999999999887763 356899999999999866544
No 182
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=91.04 E-value=0.35 Score=60.37 Aligned_cols=72 Identities=15% Similarity=0.143 Sum_probs=44.2
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhh-------------ccccCcEEEeCCCCCChhHHHHHHH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQG-------------CNKAKNCLLESPTGSGKTLALLCSV 312 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~a-------------l~~~~~~l~EaPTGTGKTlayL~~~ 312 (795)
|-|+-=|.|.+.+.+|..+|+.-.. ..+....-+-.+++. +...-+..++++||||||..||..+
T Consensus 3 ~~~e~l~hQ~~av~ai~~~F~~~~~--~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i 80 (986)
T PRK15483 3 ILLEELPHQEQALAAILAAFTGIDI--ASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLM 80 (986)
T ss_pred cccccChhHHHHHHHHHHHhcCCCc--cCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHH
Confidence 4566689999999999999985210 000000000000000 1223578999999999999999887
Q ss_pred HHHHHHh
Q psy3462 313 LAWQRKE 319 (795)
Q Consensus 313 l~~~~~~ 319 (795)
+...+..
T Consensus 81 ~~l~~~~ 87 (986)
T PRK15483 81 YELHQKY 87 (986)
T ss_pred HHHHHHc
Confidence 6665553
No 183
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=90.92 E-value=0.13 Score=66.65 Aligned_cols=23 Identities=43% Similarity=0.512 Sum_probs=20.3
Q ss_pred EECCCCCchHHHHHHHHHHHHHH
Q psy3462 44 LESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 44 lEAPTGTGKTLAyL~paL~~~~~ 66 (795)
|.||||||||+||++|+|..+..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~ 23 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFR 23 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHh
Confidence 46999999999999999988764
No 184
>PF13245 AAA_19: Part of AAA domain
Probab=90.59 E-value=0.37 Score=42.39 Aligned_cols=55 Identities=15% Similarity=0.157 Sum_probs=31.7
Q ss_pred HHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccccc
Q psy3462 31 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFFLL 99 (795)
Q Consensus 31 ~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~l~ 99 (795)
+|..++.++..+++.||.|||||-..+--+..+.. .... ++.++++++-|+....
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~-------------~~~~-~~~~vlv~a~t~~aa~ 56 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLA-------------ARAD-PGKRVLVLAPTRAAAD 56 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHH-------------HhcC-CCCeEEEECCCHHHHH
Confidence 45557774455777999999999443333222221 0111 2567777776665544
No 185
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=90.59 E-value=0.29 Score=59.53 Aligned_cols=57 Identities=19% Similarity=0.210 Sum_probs=33.2
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHHhhH----HHHHHHHhhhhhhhhhcC-CCCceEEEeccc
Q psy3462 295 LLESPTGSGKTLALLCSVLAWQRKEKE----LVQQKMFEQRTQDLQKIP-FRKLKISRLKAK 351 (795)
Q Consensus 295 l~EaPTGTGKTlayL~~~l~~~~~~~k----~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KGr 351 (795)
+.|++||+|||+++++|++..+..... ..-+.|..+|...+..+. ...+++.++-|.
T Consensus 73 Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~ 134 (745)
T TIGR00963 73 IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSG 134 (745)
T ss_pred eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCC
Confidence 899999999999999998533333322 222334444444444332 233566555543
No 186
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=90.33 E-value=0.31 Score=59.80 Aligned_cols=25 Identities=28% Similarity=0.292 Sum_probs=21.4
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 295 LLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 295 l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
+.|+.||+|||+++++|++..+...
T Consensus 95 Iaem~TGeGKTL~a~lp~~l~al~G 119 (790)
T PRK09200 95 IAEMQTGEGKTLTATMPLYLNALEG 119 (790)
T ss_pred eeeecCCCcchHHHHHHHHHHHHcC
Confidence 9999999999999999987555444
No 187
>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=90.26 E-value=0.34 Score=51.35 Aligned_cols=18 Identities=33% Similarity=0.494 Sum_probs=15.5
Q ss_pred ccCcEEEeCCCCCChhHH
Q psy3462 290 KAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTla 307 (795)
.+.+++++||+|||||..
T Consensus 20 ~g~~vLL~G~~GtGKT~l 37 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTL 37 (262)
T ss_pred cCCeEEEEcCCCCCHHHH
Confidence 367899999999999963
No 188
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=90.04 E-value=0.29 Score=60.53 Aligned_cols=26 Identities=27% Similarity=0.197 Sum_probs=21.6
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 294 CLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
-+.||+||+|||+++++|++..+...
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al~G 123 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAISG 123 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcC
Confidence 37899999999999999998665443
No 189
>COG1204 Superfamily II helicase [General function prediction only]
Probab=89.94 E-value=0.47 Score=58.13 Aligned_cols=58 Identities=22% Similarity=0.359 Sum_probs=41.8
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHh-hH--------HHHHHHHhhhhhhhhhcCCCCceEEEecccc
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKE-KE--------LVQQKMFEQRTQDLQKIPFRKLKISRLKAKD 352 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~-~k--------~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~ 352 (795)
++|+|+.+|||+|||+-.++.++.-+.++ .+ +|.+|...+-- +.-...+++.+.-|--
T Consensus 47 ~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~----~~~~~GirV~~~TgD~ 113 (766)
T COG1204 47 DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS----RLEELGIRVGISTGDY 113 (766)
T ss_pred CCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh----hHHhcCCEEEEecCCc
Confidence 68999999999999999888888877765 22 78888876632 2223445666666653
No 190
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=89.87 E-value=0.4 Score=47.41 Aligned_cols=23 Identities=39% Similarity=0.606 Sum_probs=14.9
Q ss_pred cEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 293 NCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 293 ~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
+.++.||.|||||- .++.++..+
T Consensus 19 ~~~i~GpPGTGKT~-~l~~~i~~~ 41 (236)
T PF13086_consen 19 ITLIQGPPGTGKTT-TLASIIAQL 41 (236)
T ss_dssp -EEEE-STTSSHHH-HHHHHHHHH
T ss_pred CEEEECCCCCChHH-HHHHHHHHh
Confidence 59999999999994 334444443
No 191
>PF13245 AAA_19: Part of AAA domain
Probab=89.84 E-value=0.41 Score=42.11 Aligned_cols=29 Identities=21% Similarity=0.342 Sum_probs=19.6
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
+.+++.+++.||.|||||-..+--+..+.
T Consensus 7 l~~~~~~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 7 LAGSPLFVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred HhhCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 33356778899999999965544443433
No 192
>KOG0354|consensus
Probab=89.60 E-value=0.4 Score=58.10 Aligned_cols=46 Identities=22% Similarity=0.151 Sum_probs=33.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
..+.+|..|.++.+ .|| ++|.|+-+|||.|||.....-++.|.+..
T Consensus 59 ~~~~lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~ 104 (746)
T KOG0354|consen 59 TNLELRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWR 104 (746)
T ss_pred CcccccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcC
Confidence 35678899954433 445 89999999999999977666666665433
No 193
>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=89.55 E-value=0.58 Score=48.82 Aligned_cols=28 Identities=25% Similarity=0.509 Sum_probs=20.2
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..++++.||.|||||+--+..++..+.+
T Consensus 19 ~~~v~~~G~AGTGKT~LA~a~Al~~v~~ 46 (205)
T PF02562_consen 19 NDLVIVNGPAGTGKTFLALAAALELVKE 46 (205)
T ss_dssp -SEEEEE--TTSSTTHHHHHHHHHHHHT
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 4689999999999998777777666554
No 194
>KOG0349|consensus
Probab=89.10 E-value=0.19 Score=57.51 Aligned_cols=80 Identities=18% Similarity=0.148 Sum_probs=58.5
Q ss_pred HhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEec
Q psy3462 13 LNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCG 92 (795)
Q Consensus 13 ~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~ 92 (795)
.++++-..|...| .+.+..+..+.+++.-|.||+|||=||.+|+|+..-++-+-.+. -..++++....+
T Consensus 17 ~~e~dw~lptdvq----aeaiplilgggdvlmaaetgsgktgaf~lpilqiv~etlrd~~e-------gk~gk~~~~~ga 85 (725)
T KOG0349|consen 17 TDELDWTLPTDVQ----AEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWETLRDLEE-------GKAGKGGMADGA 85 (725)
T ss_pred hhhhccccccccc----cccccEEecCCcEEEEeccCCCCccceehhhHHHHHHHHHhHhh-------cccCCCcccCCC
Confidence 4566777899999 77778888999999999999999999999999876655432221 112456666666
Q ss_pred ccccccccccc
Q psy3462 93 RSDFFLLFRER 103 (795)
Q Consensus 93 rth~~l~~rer 103 (795)
.+.|++.+-.|
T Consensus 86 ~~~w~mn~~Dr 96 (725)
T KOG0349|consen 86 PREWKMNKQDR 96 (725)
T ss_pred ccccccCcccc
Confidence 66676665444
No 195
>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=88.87 E-value=0.39 Score=48.43 Aligned_cols=38 Identities=29% Similarity=0.358 Sum_probs=19.7
Q ss_pred HHHHHHHHHH--HHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 23 SSCKILHLQV--IQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 23 ~~Q~~mm~~i--~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
..+.+.+..+ .+-+.++.++++.|||||||| +|.-++.
T Consensus 29 ~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKT--hLa~ai~ 68 (178)
T PF01695_consen 29 GIDKAQIAQLAALEFIENGENLILYGPPGTGKT--HLAVAIA 68 (178)
T ss_dssp -----HHHHHHHH-S-SC--EEEEEESTTSSHH--HHHHHHH
T ss_pred hHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHH--HHHHHHH
Confidence 3444444433 223455788999999999999 4444443
No 196
>PRK10536 hypothetical protein; Provisional
Probab=88.75 E-value=0.84 Score=49.41 Aligned_cols=38 Identities=13% Similarity=0.059 Sum_probs=26.1
Q ss_pred CCC-HHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHH
Q psy3462 20 LKY-SSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVL 61 (795)
Q Consensus 20 ~p~-~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL 61 (795)
.|+ ..|..++. ++.+...+++.||+|||||+-.+.-++
T Consensus 58 ~p~n~~Q~~~l~----al~~~~lV~i~G~aGTGKT~La~a~a~ 96 (262)
T PRK10536 58 LARNEAQAHYLK----AIESKQLIFATGEAGCGKTWISAAKAA 96 (262)
T ss_pred cCCCHHHHHHHH----HHhcCCeEEEECCCCCCHHHHHHHHHH
Confidence 445 66756665 445567899999999999954444433
No 197
>PRK13531 regulatory ATPase RavA; Provisional
Probab=88.74 E-value=0.34 Score=56.48 Aligned_cols=47 Identities=11% Similarity=0.077 Sum_probs=36.6
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
++.+..+.+++.- -.-+|.+.++.+..++..+.++++++|+|||||+
T Consensus 8 ~~~i~~l~~~l~~--~i~gre~vI~lll~aalag~hVLL~GpPGTGKT~ 54 (498)
T PRK13531 8 AERISRLSSALEK--GLYERSHAIRLCLLAALSGESVFLLGPPGIAKSL 54 (498)
T ss_pred HHHHHHHHHHHhh--hccCcHHHHHHHHHHHccCCCEEEECCCChhHHH
Confidence 3445555555543 2346778999999999999999999999999993
No 198
>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=88.43 E-value=0.49 Score=47.74 Aligned_cols=25 Identities=36% Similarity=0.589 Sum_probs=16.8
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
+.++.++++-||+|||||. |+.+++
T Consensus 44 ~~~~~~l~l~G~~G~GKTh--La~ai~ 68 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTH--LAVAIA 68 (178)
T ss_dssp -SC--EEEEEESTTSSHHH--HHHHHH
T ss_pred cccCeEEEEEhhHhHHHHH--HHHHHH
Confidence 3457889999999999995 444443
No 199
>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=88.34 E-value=0.47 Score=42.55 Aligned_cols=16 Identities=56% Similarity=0.798 Sum_probs=14.4
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+.++++-||+|||||.
T Consensus 19 ~~~v~i~G~~G~GKT~ 34 (151)
T cd00009 19 PKNLLLYGPPGTGKTT 34 (151)
T ss_pred CCeEEEECCCCCCHHH
Confidence 5789999999999994
No 200
>KOG0341|consensus
Probab=88.32 E-value=0.13 Score=58.14 Aligned_cols=51 Identities=18% Similarity=0.163 Sum_probs=39.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKEL 70 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~ 70 (795)
.+.-.|.|+|. .=+.++..|.+.|-.|-||+||||.|.+|++-++......
T Consensus 188 KGI~~PTpIQv----QGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~ 238 (610)
T KOG0341|consen 188 KGIVHPTPIQV----QGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMM 238 (610)
T ss_pred cCCCCCCceee----cCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhc
Confidence 35556777772 2345566788999999999999999999999988766543
No 201
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=88.01 E-value=0.47 Score=51.73 Aligned_cols=30 Identities=27% Similarity=0.290 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+.+..+..++..+.++++++|+|||||
T Consensus 28 g~~~~~~~~l~a~~~~~~vll~G~PG~gKT 57 (329)
T COG0714 28 GDEEVIELALLALLAGGHVLLEGPPGVGKT 57 (329)
T ss_pred ccHHHHHHHHHHHHcCCCEEEECCCCccHH
Confidence 377889999999999999999999999999
No 202
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=87.65 E-value=0.8 Score=57.29 Aligned_cols=28 Identities=25% Similarity=0.262 Sum_probs=23.6
Q ss_pred CcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 40 KNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
.++.++.+||||||..||-.++......
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~ 87 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKY 87 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHc
Confidence 3699999999999999998887776553
No 203
>KOG0351|consensus
Probab=87.55 E-value=0.2 Score=62.35 Aligned_cols=41 Identities=24% Similarity=0.275 Sum_probs=33.4
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 20 LKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 20 ~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
--|+.|+++ +.+...|++.+++.|||-||+|+|-+|++.+-
T Consensus 264 ~FR~~Q~ea----I~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~~ 304 (941)
T KOG0351|consen 264 GFRPNQLEA----INATLSGKDCFVLMPTGGGKSLCYQLPALLLG 304 (941)
T ss_pred cCChhHHHH----HHHHHcCCceEEEeecCCceeeEeeccccccC
Confidence 346888544 44788899999999999999999999987664
No 204
>KOG0354|consensus
Probab=87.41 E-value=0.58 Score=56.82 Aligned_cols=46 Identities=22% Similarity=0.246 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 248 VKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 248 y~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
+..|+-|.++.+. || +++.++.+|||.|||+....-++.|.+..++
T Consensus 61 ~~lR~YQ~eivq~--------------------------AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~ 106 (746)
T KOG0354|consen 61 LELRNYQEELVQP--------------------------AL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK 106 (746)
T ss_pred ccccHHHHHHhHH--------------------------hh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc
Confidence 6789999887654 23 5899999999999999888888888876654
No 205
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=87.06 E-value=0.88 Score=50.25 Aligned_cols=33 Identities=30% Similarity=0.469 Sum_probs=24.2
Q ss_pred HHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 29 HLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 29 m~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
.+.+..++..+.++++-||||+||| .+|-.++.
T Consensus 138 ~~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~ 170 (319)
T PRK13894 138 REAIIAAVRAHRNILVIGGTGSGKT-TLVNAIIN 170 (319)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHH
Confidence 3445566678899999999999999 44444443
No 206
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=86.71 E-value=0.7 Score=56.72 Aligned_cols=45 Identities=18% Similarity=0.090 Sum_probs=34.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.-+..||+.| +|..+ +|+.|. |.|..||.||||...+|++..+..
T Consensus 76 ~~g~~~~dvQ--lig~l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~ 120 (796)
T PRK12906 76 VLGLRPFDVQ--IIGGI--VLHEGN--IAEMKTGEGKTLTATLPVYLNALT 120 (796)
T ss_pred HhCCCCchhH--HHHHH--HHhcCC--cccccCCCCCcHHHHHHHHHHHHc
Confidence 3467899999 44444 456654 999999999999999998776653
No 207
>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=86.26 E-value=0.95 Score=55.24 Aligned_cols=39 Identities=13% Similarity=0.129 Sum_probs=28.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcC--CcEEEECCCCCchHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKA--KNCLLESPTGSGKTLALLCS 59 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~--~~~llEAPTGTGKTLAyL~p 59 (795)
.+.+||.|.+-+.+. +.++ ..++|..|||+|||+.-+..
T Consensus 253 ~~~LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~a 293 (732)
T TIGR00603 253 TTQIRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTA 293 (732)
T ss_pred CCCcCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHH
Confidence 467899998755544 3344 46999999999999776543
No 208
>KOG0353|consensus
Probab=86.16 E-value=0.68 Score=52.38 Aligned_cols=38 Identities=26% Similarity=0.328 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHH
Q psy3462 21 KYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 21 p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
-||-| .+.+.+...++++++.-|||-||+|+|-+|+|-
T Consensus 95 frplq----~~ain~~ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 95 FRPLQ----LAAINATMAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred cChhH----HHHhhhhhccCceEEEEeCCCccchhhhhhHHh
Confidence 45778 566677788899999999999999999999874
No 209
>KOG0328|consensus
Probab=86.14 E-value=0.14 Score=56.04 Aligned_cols=60 Identities=17% Similarity=0.147 Sum_probs=46.8
Q ss_pred HHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHH
Q psy3462 9 FKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQ 73 (795)
Q Consensus 9 ~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~ 73 (795)
.+.+.+- +|-.|..+| +.++..+-.|.++|..|-.|||||.+|-|.+|.-.+-..+.+|+
T Consensus 39 LrgiY~y-GfekPS~IQ----qrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~ 98 (400)
T KOG0328|consen 39 LRGIYAY-GFEKPSAIQ----QRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQA 98 (400)
T ss_pred HHHHHHh-ccCCchHHH----hhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeE
Confidence 3344433 566799999 66667777889999999999999999999999888766665554
No 210
>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=86.00 E-value=0.68 Score=40.79 Aligned_cols=18 Identities=39% Similarity=0.534 Sum_probs=15.3
Q ss_pred cCcEEEeCCCCCChhHHH
Q psy3462 291 AKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlay 308 (795)
+.++++.||+|||||...
T Consensus 2 ~~~~~l~G~~G~GKTtl~ 19 (148)
T smart00382 2 GEVILIVGPPGSGKTTLA 19 (148)
T ss_pred CCEEEEECCCCCcHHHHH
Confidence 467999999999999654
No 211
>PRK06835 DNA replication protein DnaC; Validated
Probab=85.95 E-value=1.2 Score=49.56 Aligned_cols=17 Identities=41% Similarity=0.622 Sum_probs=14.7
Q ss_pred cCCcEEEECCCCCchHH
Q psy3462 38 KAKNCLLESPTGSGKTL 54 (795)
Q Consensus 38 ~~~~~llEAPTGTGKTL 54 (795)
...+++|.||||||||-
T Consensus 182 ~~~~Lll~G~~GtGKTh 198 (329)
T PRK06835 182 NNENLLFYGNTGTGKTF 198 (329)
T ss_pred cCCcEEEECCCCCcHHH
Confidence 35789999999999993
No 212
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=85.83 E-value=0.92 Score=57.04 Aligned_cols=140 Identities=16% Similarity=0.172 Sum_probs=81.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEeccccc
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDF 96 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~ 96 (795)
.+|.+.+.| +....+|+.+..++++||||+|||+.--.+ ++++ + ++++++||=+..
T Consensus 116 ~~F~LD~fQ----~~a~~~Ler~esVlV~ApTssGKTvVaeyA-i~~a---------------l--~~~qrviYTsPI-- 171 (1041)
T COG4581 116 YPFELDPFQ----QEAIAILERGESVLVCAPTSSGKTVVAEYA-IALA---------------L--RDGQRVIYTSPI-- 171 (1041)
T ss_pred CCCCcCHHH----HHHHHHHhCCCcEEEEccCCCCcchHHHHH-HHHH---------------H--HcCCceEeccch--
Confidence 356888999 788889999999999999999999543222 1111 1 245667776533
Q ss_pred cccccccccccccccCCCCCCCCCcccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhC----CC-----CeE-
Q psy3462 97 FLLFRERRISDTMVKKPATKKKPLNEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMG----TE-----DVR- 166 (795)
Q Consensus 97 ~l~~rerr~SDt~~~~~k~~~s~~~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mk----t~-----dVr- 166 (795)
.|.=-+..-|...+.-+- ...-...|+.++||-.-.+--+. . ..+|.++-+.-. ++ .|+
T Consensus 172 -KALsNQKyrdl~~~fgdv--~~~vGL~TGDv~IN~~A~clvMT-----T---EILRnMlyrg~~~~~~i~~ViFDEvHy 240 (1041)
T COG4581 172 -KALSNQKYRDLLAKFGDV--ADMVGLMTGDVSINPDAPCLVMT-----T---EILRNMLYRGSESLRDIEWVVFDEVHY 240 (1041)
T ss_pred -hhhhhhHHHHHHHHhhhh--hhhccceecceeeCCCCceEEee-----H---HHHHHHhccCcccccccceEEEEeeee
Confidence 222222222443322211 22234579999999654332211 1 556666655411 11 222
Q ss_pred eCccchHHHHhcCCCCCCCceEEEe
Q psy3462 167 IDTRLNKHIWSKGINNHTLGTAYFD 191 (795)
Q Consensus 167 ID~~LNk~IWsrGirnpP~rirV~~ 191 (795)
|...-==.||+-=|-..|..|++-.
T Consensus 241 i~D~eRG~VWEE~Ii~lP~~v~~v~ 265 (1041)
T COG4581 241 IGDRERGVVWEEVIILLPDHVRFVF 265 (1041)
T ss_pred ccccccchhHHHHHHhcCCCCcEEE
Confidence 2222233579999999999887765
No 213
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=85.71 E-value=1.1 Score=50.54 Aligned_cols=33 Identities=24% Similarity=0.249 Sum_probs=25.9
Q ss_pred CHHHH-HHHHHHHHHHhcC--CcEEEECCCCCchHH
Q psy3462 22 YSSCK-ILHLQVIQGCNKA--KNCLLESPTGSGKTL 54 (795)
Q Consensus 22 ~~~Q~-~mm~~i~~al~~~--~~~llEAPTGTGKTL 54 (795)
|..|. +++..+..++.++ .++++.+|||||||.
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~ 57 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTA 57 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhH
Confidence 46776 7777777777665 469999999999993
No 214
>KOG0340|consensus
Probab=85.71 E-value=0.41 Score=53.81 Aligned_cols=35 Identities=29% Similarity=0.424 Sum_probs=28.8
Q ss_pred HhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
||+|.+|+.|+-.|-||||||.||-+|.|.-+..+
T Consensus 38 IpkILeGrdcig~AkTGsGKT~AFaLPil~rLsed 72 (442)
T KOG0340|consen 38 IPKILEGRDCIGCAKTGSGKTAAFALPILNRLSED 72 (442)
T ss_pred hHHHhcccccccccccCCCcchhhhHHHHHhhccC
Confidence 34445688999999999999999999998777654
No 215
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=85.64 E-value=0.69 Score=56.61 Aligned_cols=37 Identities=32% Similarity=0.284 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCc-EEEECCCCCchHHH
Q psy3462 19 FLKYSSCKILHLQVIQGCNKAKN-CLLESPTGSGKTLA 55 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~~~~~-~llEAPTGTGKTLA 55 (795)
-.||..|..-+..+.++++++.+ +++-..||||||-.
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrT 201 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRT 201 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCccee
Confidence 45889999999999999998754 99999999999943
No 216
>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=85.42 E-value=1.2 Score=53.60 Aligned_cols=64 Identities=19% Similarity=0.187 Sum_probs=39.7
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccccccc
Q psy3462 22 YSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFFLLFR 101 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~l~~r 101 (795)
-+.|.+ ++..++.+....+|.||+|||||-. +..++..+ .. .+.+|+.|+.|+..+.-=
T Consensus 159 n~~Q~~---Av~~~l~~~~~~lI~GpPGTGKT~t-~~~ii~~~---------------~~--~g~~VLv~a~sn~Avd~l 217 (637)
T TIGR00376 159 NESQKE---AVSFALSSKDLFLIHGPPGTGKTRT-LVELIRQL---------------VK--RGLRVLVTAPSNIAVDNL 217 (637)
T ss_pred CHHHHH---HHHHHhcCCCeEEEEcCCCCCHHHH-HHHHHHHH---------------HH--cCCCEEEEcCcHHHHHHH
Confidence 367754 4455666667899999999999922 22222111 11 234899999999887544
Q ss_pred ccccc
Q psy3462 102 ERRIS 106 (795)
Q Consensus 102 err~S 106 (795)
-.++.
T Consensus 218 ~e~l~ 222 (637)
T TIGR00376 218 LERLA 222 (637)
T ss_pred HHHHH
Confidence 33343
No 217
>KOG4284|consensus
Probab=85.37 E-value=0.15 Score=60.69 Aligned_cols=62 Identities=13% Similarity=0.170 Sum_probs=50.0
Q ss_pred hhHHHHHHHHhCCC---CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 4 KSSDIFKTYLNEPN---YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 4 ~~~~~~~~~~~~~~---~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
.+...|+.++.++. +-.|.++| .+++.+...+-++|+.|-.||||||.|-+.++.-+.....
T Consensus 28 e~l~l~r~vl~glrrn~f~~ptkiQ----aaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~ 92 (980)
T KOG4284|consen 28 EQLALWREVLLGLRRNAFALPTKIQ----AAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSS 92 (980)
T ss_pred HHHHHHHHHHHHHHhhcccCCCchh----hhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccC
Confidence 34567788887776 44799999 7888888888899999999999999999888877654433
No 218
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=85.29 E-value=1.3 Score=49.13 Aligned_cols=25 Identities=28% Similarity=0.340 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 29 HLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 29 m~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+..++..+.++|+-+|||+|||
T Consensus 134 ~~~L~~~v~~~~nilI~G~tGSGKT 158 (323)
T PRK13833 134 ASVIRSAIDSRLNIVISGGTGSGKT 158 (323)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHH
Confidence 3445667777889999999999999
No 219
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=85.24 E-value=1.2 Score=49.33 Aligned_cols=27 Identities=22% Similarity=0.259 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
.+.+-+..++..+.++++-+|||+|||
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKT 174 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKT 174 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHH
Confidence 556667777888999999999999999
No 220
>PHA02244 ATPase-like protein
Probab=85.13 E-value=1.3 Score=50.35 Aligned_cols=31 Identities=19% Similarity=0.246 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
|........+.+.+..+.+++|.+|||||||
T Consensus 103 p~~~~~~~ri~r~l~~~~PVLL~GppGtGKT 133 (383)
T PHA02244 103 PTFHYETADIAKIVNANIPVFLKGGAGSGKN 133 (383)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEECCCCCCHH
Confidence 4444455577888899999999999999999
No 221
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=85.12 E-value=0.71 Score=56.93 Aligned_cols=56 Identities=20% Similarity=0.193 Sum_probs=35.1
Q ss_pred EEEeCCCCCChhHHHHHHHH-HHHHHhhH----HHHHHHHhhhhhhhhhcC-CCCceEEEecc
Q psy3462 294 CLLESPTGSGKTLALLCSVL-AWQRKEKE----LVQQKMFEQRTQDLQKIP-FRKLKISRLKA 350 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l-~~~~~~~k----~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KG 350 (795)
-+.|+.||+|||+++.+|++ .++. ... ..-+.|..+|...+..+. ...+++.++-|
T Consensus 97 ~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~ 158 (830)
T PRK12904 97 KIAEMKTGEGKTLVATLPAYLNALT-GKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILS 158 (830)
T ss_pred chhhhhcCCCcHHHHHHHHHHHHHc-CCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcC
Confidence 48899999999999999995 4443 222 233455555555555543 23455555544
No 222
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=85.11 E-value=1.6 Score=46.65 Aligned_cols=34 Identities=24% Similarity=0.348 Sum_probs=25.8
Q ss_pred HHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 31 QVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 31 ~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
...+.+.+++++++-||+||||| +|..|+.....
T Consensus 97 ~~~~~~~~~~nl~l~G~~G~GKT--hLa~Ai~~~l~ 130 (254)
T COG1484 97 SLVEFFERGENLVLLGPPGVGKT--HLAIAIGNELL 130 (254)
T ss_pred HHHHHhccCCcEEEECCCCCcHH--HHHHHHHHHHH
Confidence 44456677889999999999999 66666665444
No 223
>KOG0952|consensus
Probab=85.08 E-value=1.2 Score=55.77 Aligned_cols=47 Identities=26% Similarity=0.395 Sum_probs=36.1
Q ss_pred cccCcEEEeCCCCCChhHHHHHHHHHHHHHh------------------hHHHHHHHHhhhhhhh
Q psy3462 289 NKAKNCLLESPTGSGKTLALLCSVLAWQRKE------------------KELVQQKMFEQRTQDL 335 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~------------------~k~LQ~Ql~~kdip~l 335 (795)
..+.|+||.||||+|||.-+++.+|.-++.+ .++|-.++.++--+.|
T Consensus 124 ~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl 188 (1230)
T KOG0952|consen 124 KSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKL 188 (1230)
T ss_pred cCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhc
Confidence 4578999999999999999998888877752 1267777777655544
No 224
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=85.05 E-value=1.2 Score=46.24 Aligned_cols=36 Identities=22% Similarity=0.299 Sum_probs=27.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCC-cEEEECCCCCchH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAK-NCLLESPTGSGKT 53 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~-~~llEAPTGTGKT 53 (795)
+|++.+.+.+.+..+...+..+. .+++.||+|+|||
T Consensus 21 ~~~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKT 57 (269)
T TIGR03015 21 FFYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKT 57 (269)
T ss_pred HhCCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHH
Confidence 44566777777777777776655 6899999999999
No 225
>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=84.78 E-value=0.7 Score=53.91 Aligned_cols=35 Identities=31% Similarity=0.295 Sum_probs=23.9
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHHhhH--------HHHHHHHh
Q psy3462 295 LLESPTGSGKTLALLCSVLAWQRKEKE--------LVQQKMFE 329 (795)
Q Consensus 295 l~EaPTGTGKTlayL~~~l~~~~~~~k--------~LQ~Ql~~ 329 (795)
|+.||||+|||..|+-.+...+...++ .|..|+.+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~ 43 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQ 43 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHH
Confidence 578999999999998765444444333 46666653
No 226
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=84.62 E-value=0.5 Score=61.42 Aligned_cols=22 Identities=45% Similarity=0.495 Sum_probs=19.2
Q ss_pred EeCCCCCChhHHHHHHHHHHHH
Q psy3462 296 LESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 296 ~EaPTGTGKTlayL~~~l~~~~ 317 (795)
+.||||||||++|++|+|.-+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll 22 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLF 22 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHH
Confidence 4689999999999999987764
No 227
>PRK08939 primosomal protein DnaI; Reviewed
Probab=84.62 E-value=1.7 Score=47.72 Aligned_cols=39 Identities=21% Similarity=0.156 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHh------cCCcEEEECCCCCchHHHHHHHHHHHH
Q psy3462 24 SCKILHLQVIQGCN------KAKNCLLESPTGSGKTLALLCSVLAWQ 64 (795)
Q Consensus 24 ~Q~~mm~~i~~al~------~~~~~llEAPTGTGKTLAyL~paL~~~ 64 (795)
.+.+++..+.+-+. .+++++|.||+||||| ||+.++...
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKT--hLa~Aia~~ 179 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKS--YLLAAIANE 179 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHH--HHHHHHHHH
Confidence 45455555555554 2457999999999999 666665543
No 228
>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=84.25 E-value=0.86 Score=40.16 Aligned_cols=15 Identities=47% Similarity=0.722 Sum_probs=13.6
Q ss_pred CCcEEEECCCCCchH
Q psy3462 39 AKNCLLESPTGSGKT 53 (795)
Q Consensus 39 ~~~~llEAPTGTGKT 53 (795)
+.+++|.||+|||||
T Consensus 2 ~~~~~l~G~~G~GKT 16 (148)
T smart00382 2 GEVILIVGPPGSGKT 16 (148)
T ss_pred CCEEEEECCCCCcHH
Confidence 467999999999999
No 229
>PLN03025 replication factor C subunit; Provisional
Probab=84.04 E-value=1.2 Score=48.32 Aligned_cols=30 Identities=23% Similarity=0.281 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHhcC--CcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNKA--KNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~~--~~~llEAPTGTGKT 53 (795)
+|.+.++.+...+.++ .+++|.||.|||||
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKT 48 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKT 48 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHH
Confidence 4555566666656554 47999999999999
No 230
>PHA02244 ATPase-like protein
Probab=83.95 E-value=2.1 Score=48.78 Aligned_cols=41 Identities=15% Similarity=0.229 Sum_probs=27.5
Q ss_pred eeccCCC-CCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhH
Q psy3462 243 KVEFPVK-AYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 243 ~~~fpy~-~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTl 306 (795)
.+.+||. .-|.+......+.+.+.. +.+++|.||||||||.
T Consensus 93 ~~d~~~ig~sp~~~~~~~ri~r~l~~-----------------------~~PVLL~GppGtGKTt 134 (383)
T PHA02244 93 GIDTTKIASNPTFHYETADIAKIVNA-----------------------NIPVFLKGGAGSGKNH 134 (383)
T ss_pred hCCCcccCCCHHHHHHHHHHHHHHhc-----------------------CCCEEEECCCCCCHHH
Confidence 4567763 445444444555555543 5789999999999994
No 231
>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=83.59 E-value=0.99 Score=47.48 Aligned_cols=37 Identities=32% Similarity=0.381 Sum_probs=24.4
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+.+.+..++..+.++++-||||+||| .+|...+.+..
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKT-T~l~all~~i~ 152 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKT-TLLNALLEEIP 152 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHH-HHHHHHHHHCH
T ss_pred HHHHHhhccccceEEEEECCCccccc-hHHHHHhhhcc
Confidence 33444455566789999999999999 33344444433
No 232
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=83.42 E-value=0.98 Score=48.33 Aligned_cols=30 Identities=23% Similarity=0.402 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhcCC--cEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNKAK--NCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~~~--~~llEAPTGTGKT 53 (795)
+|.+..+.+.+++.++. ++++.||+|||||
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT 50 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKT 50 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHH
Confidence 46667777888888877 8999999999999
No 233
>COG4889 Predicted helicase [General function prediction only]
Probab=83.21 E-value=1.1 Score=55.21 Aligned_cols=60 Identities=20% Similarity=0.170 Sum_probs=40.1
Q ss_pred ccccCCCCCcceeeCCeeeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChh
Q psy3462 226 KDKLKPSAATSYTIGGVKVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKT 305 (795)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKT 305 (795)
.||.+-- ..-...++.+.-|++|||.|...++...+.|... .-+-+-+..|||||
T Consensus 140 IDW~~f~--p~e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n-----------------------~RGkLIMAcGTGKT 194 (1518)
T COG4889 140 IDWDIFD--PTELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDN-----------------------DRGKLIMACGTGKT 194 (1518)
T ss_pred CChhhcC--ccccccccccCCCCCCChhHHHHHHHHHhhcccc-----------------------cCCcEEEecCCCcc
Confidence 3888621 1112235566678999999999999988887641 22334467899999
Q ss_pred HHHHH
Q psy3462 306 LALLC 310 (795)
Q Consensus 306 layL~ 310 (795)
+.-|=
T Consensus 195 fTsLk 199 (1518)
T COG4889 195 FTSLK 199 (1518)
T ss_pred chHHH
Confidence 87553
No 234
>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=83.17 E-value=1.4 Score=45.92 Aligned_cols=24 Identities=33% Similarity=0.425 Sum_probs=17.3
Q ss_pred cCCcEEEECCCCCchHHHHHHHHH
Q psy3462 38 KAKNCLLESPTGSGKTLALLCSVL 61 (795)
Q Consensus 38 ~~~~~llEAPTGTGKTLAyL~paL 61 (795)
...+++|.|+.|||||.+.+-=++
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~~ri~ 35 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLLERIA 35 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHHHHHH
T ss_pred CCCCEEEEeCCCCCchHHHHHHHH
Confidence 467899999999999976554433
No 235
>PRK08181 transposase; Validated
Probab=83.08 E-value=2.6 Score=45.58 Aligned_cols=20 Identities=40% Similarity=0.509 Sum_probs=17.4
Q ss_pred HHHhcCCcEEEECCCCCchH
Q psy3462 34 QGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 34 ~al~~~~~~llEAPTGTGKT 53 (795)
+-+..+.+++|.||+|||||
T Consensus 101 ~~~~~~~nlll~Gp~GtGKT 120 (269)
T PRK08181 101 SWLAKGANLLLFGPPGGGKS 120 (269)
T ss_pred HHHhcCceEEEEecCCCcHH
Confidence 34567889999999999999
No 236
>KOG0920|consensus
Probab=82.84 E-value=2.1 Score=53.44 Aligned_cols=97 Identities=19% Similarity=0.321 Sum_probs=59.3
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCC
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQK 85 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~ 85 (795)
.+.|+.....-.-..-+ .|-+.|.+++.+...++|-|.||+|||- -+| +++.+. .... +.
T Consensus 159 s~~~~~~~~~R~~LPa~----~~r~~Il~~i~~~qVvvIsGeTGcGKTT--Qvp--QfiLd~-----------~~~~-~~ 218 (924)
T KOG0920|consen 159 SESYKEMLRFRESLPAY----KMRDTILDAIEENQVVVISGETGCGKTT--QVP--QFILDE-----------AIES-GA 218 (924)
T ss_pred hhHHHHHHHHHHhCccH----HHHHHHHHHHHhCceEEEeCCCCCCchh--hhh--HHHHHH-----------HHhc-CC
Confidence 45555555543222222 3337899999999999999999999992 122 222211 1112 24
Q ss_pred ceeEEeccccccccccccccccccccC----CCCCCCCCcccceeEEEEecCc
Q psy3462 86 TSFVFCGRSDFFLLFRERRISDTMVKK----PATKKKPLNEVVTRDYTIHMHK 134 (795)
Q Consensus 86 ~~~~yc~rth~~l~~rerr~SDt~~~~----~k~~~s~~~e~vtreyTInL~K 134 (795)
..-|+|| -+||||-.-+-+ ++ +.+ +. .+--|-|.|++
T Consensus 219 ~~~IicT--------QPRRIsAIsvAeRVa~ER-~~~-~g--~~VGYqvrl~~ 259 (924)
T KOG0920|consen 219 ACNIICT--------QPRRISAISVAERVAKER-GES-LG--EEVGYQVRLES 259 (924)
T ss_pred CCeEEec--------CCchHHHHHHHHHHHHHh-ccc-cC--CeeeEEEeeec
Confidence 5559999 799999865532 22 211 11 46689999887
No 237
>PRK09183 transposase/IS protein; Provisional
Probab=82.80 E-value=1.4 Score=47.08 Aligned_cols=18 Identities=39% Similarity=0.676 Sum_probs=16.7
Q ss_pred HhcCCcEEEECCCCCchH
Q psy3462 36 CNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 36 l~~~~~~llEAPTGTGKT 53 (795)
+..+.+++|.||+|||||
T Consensus 99 i~~~~~v~l~Gp~GtGKT 116 (259)
T PRK09183 99 IERNENIVLLGPSGVGKT 116 (259)
T ss_pred hhcCCeEEEEeCCCCCHH
Confidence 677889999999999999
No 238
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=82.61 E-value=1.5 Score=48.85 Aligned_cols=35 Identities=14% Similarity=0.246 Sum_probs=26.4
Q ss_pred CCCCHHHHHHHHHHHH-HHhcC-CcEEEECCCCCchH
Q psy3462 19 FLKYSSCKILHLQVIQ-GCNKA-KNCLLESPTGSGKT 53 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~-al~~~-~~~llEAPTGTGKT 53 (795)
|.-.-+|.+.++.+.- ++..+ .++++++|.|||||
T Consensus 7 f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT 43 (334)
T PRK13407 7 FSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKS 43 (334)
T ss_pred HHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHH
Confidence 3334678888886664 44355 68999999999999
No 239
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=82.40 E-value=1.4 Score=53.58 Aligned_cols=46 Identities=33% Similarity=0.353 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccC-cEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 249 KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAK-NCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 249 ~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~-~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..++.|...++.+.+.-. .+ ..+++||||.|||.+-+.+++.-+..
T Consensus 195 ~~~~~~~~~~~~~~~~~~------------------------~~~~~vl~aPTG~GKT~asl~~a~~~~~~ 241 (733)
T COG1203 195 EGYELQEKALELILRLEK------------------------RSLLVVLEAPTGYGKTEASLILALALLDE 241 (733)
T ss_pred hhhHHHHHHHHHHHhccc------------------------ccccEEEEeCCCCChHHHHHHHHHHHhhc
Confidence 457888877777654332 23 89999999999999998887665544
No 240
>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=82.34 E-value=1.4 Score=44.24 Aligned_cols=26 Identities=35% Similarity=0.371 Sum_probs=21.2
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+.+..++..+..++|-+|||+|||
T Consensus 14 ~~~~l~~~v~~g~~i~I~G~tGSGKT 39 (186)
T cd01130 14 QAAYLWLAVEARKNILISGGTGSGKT 39 (186)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHH
Confidence 34455566777899999999999999
No 241
>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=82.30 E-value=1.3 Score=48.41 Aligned_cols=26 Identities=35% Similarity=0.300 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+.+..++..+.++++-+|||+|||
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKT 146 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKT 146 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHH
Confidence 34455566677889999999999999
No 242
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=82.21 E-value=2.1 Score=54.04 Aligned_cols=47 Identities=26% Similarity=0.410 Sum_probs=35.9
Q ss_pred eCCeeeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHH
Q psy3462 239 IGGVKVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSV 312 (795)
Q Consensus 239 ~~~~~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~ 312 (795)
..+....|||++.|.|.+.+..| + .+.-++++||||+|||+.--.++
T Consensus 109 ~~~~~~~~~F~LD~fQ~~a~~~L----e-----------------------r~esVlV~ApTssGKTvVaeyAi 155 (1041)
T COG4581 109 LAPPAREYPFELDPFQQEAIAIL----E-----------------------RGESVLVCAPTSSGKTVVAEYAI 155 (1041)
T ss_pred cCcHHHhCCCCcCHHHHHHHHHH----h-----------------------CCCcEEEEccCCCCcchHHHHHH
Confidence 34455579999999998776654 2 35679999999999998765553
No 243
>PRK08181 transposase; Validated
Probab=82.01 E-value=2.9 Score=45.27 Aligned_cols=17 Identities=47% Similarity=0.671 Sum_probs=15.0
Q ss_pred ccCcEEEeCCCCCChhH
Q psy3462 290 KAKNCLLESPTGSGKTL 306 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTl 306 (795)
++.++++-||+|||||.
T Consensus 105 ~~~nlll~Gp~GtGKTH 121 (269)
T PRK08181 105 KGANLLLFGPPGGGKSH 121 (269)
T ss_pred cCceEEEEecCCCcHHH
Confidence 46789999999999994
No 244
>KOG0347|consensus
Probab=82.00 E-value=0.42 Score=56.25 Aligned_cols=34 Identities=29% Similarity=0.305 Sum_probs=26.4
Q ss_pred HHHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 281 HLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 281 ~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
++.+-+|+.....++--|.||+||||||-+|+++
T Consensus 209 sl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~ 242 (731)
T KOG0347|consen 209 SLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVE 242 (731)
T ss_pred hhcccHhhccchhcccccccCCCceeeecchhhh
Confidence 3333344444577899999999999999999998
No 245
>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=81.98 E-value=1.8 Score=52.85 Aligned_cols=41 Identities=20% Similarity=0.344 Sum_probs=30.0
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHH
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCS 311 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~ 311 (795)
.++.||-|.+.+.... .+. ..+.+++.+|||+|||+.-+..
T Consensus 253 ~~~LRpYQ~eAl~~~~---~~g---------------------r~r~GIIvLPtGaGKTlvai~a 293 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMF---GNG---------------------RARSGIIVLPCGAGKSLVGVTA 293 (732)
T ss_pred CCCcCHHHHHHHHHHH---hcC---------------------CCCCcEEEeCCCCChHHHHHHH
Confidence 4789999998776553 221 1246899999999999987654
No 246
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=81.70 E-value=3.4 Score=47.90 Aligned_cols=31 Identities=19% Similarity=0.273 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+...+.....-++++.|+++.||+|||||
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKT 223 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKS 223 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHH
Confidence 4444555566677899999999999999999
No 247
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=81.58 E-value=1.1 Score=49.06 Aligned_cols=18 Identities=50% Similarity=0.719 Sum_probs=16.0
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
..++++++|+|+|||||+
T Consensus 41 ~~~~~vll~G~PG~gKT~ 58 (329)
T COG0714 41 LAGGHVLLEGPPGVGKTL 58 (329)
T ss_pred HcCCCEEEECCCCccHHH
Confidence 357899999999999995
No 248
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=81.57 E-value=0.97 Score=56.09 Aligned_cols=25 Identities=28% Similarity=0.219 Sum_probs=21.2
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 294 CLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
-+.|++||+||||++++|++..+..
T Consensus 98 ~IaEm~TGEGKTL~a~lp~~l~al~ 122 (908)
T PRK13107 98 RIAEMRTGEGKTLTATLPAYLNALT 122 (908)
T ss_pred ccccccCCCCchHHHHHHHHHHHhc
Confidence 4789999999999999998765543
No 249
>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=81.44 E-value=1.4 Score=46.11 Aligned_cols=32 Identities=22% Similarity=0.280 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
.+|.+.-.++.=|...+.++++.+|.|||||+
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTm 37 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTM 37 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHH
Confidence 46777777777777788899999999999994
No 250
>PRK10536 hypothetical protein; Provisional
Probab=81.37 E-value=1.7 Score=47.14 Aligned_cols=23 Identities=17% Similarity=0.174 Sum_probs=17.8
Q ss_pred cCcEEEeCCCCCChhHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l 313 (795)
..++++.||+|||||+-.+..++
T Consensus 74 ~~lV~i~G~aGTGKT~La~a~a~ 96 (262)
T PRK10536 74 KQLIFATGEAGCGKTWISAAKAA 96 (262)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 35899999999999975555444
No 251
>PRK06526 transposase; Provisional
Probab=81.37 E-value=1.3 Score=47.26 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=15.7
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
..+.++++-||+|||||.
T Consensus 96 ~~~~nlll~Gp~GtGKTh 113 (254)
T PRK06526 96 TGKENVVFLGPPGTGKTH 113 (254)
T ss_pred hcCceEEEEeCCCCchHH
Confidence 356789999999999995
No 252
>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=81.25 E-value=2.1 Score=47.15 Aligned_cols=39 Identities=23% Similarity=0.217 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.+++.++.+++.++++++.+|||+||| .+|.+++...-.
T Consensus 131 ~~~ayL~~~ie~~~siii~G~t~sGKT-t~lnall~~Ip~ 169 (312)
T COG0630 131 EQAAYLWLAIEARKSIIICGGTASGKT-TLLNALLDFIPP 169 (312)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHH-HHHHHHHHhCCc
Confidence 345668999999999999999999999 455555555443
No 253
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=81.22 E-value=2.2 Score=55.03 Aligned_cols=35 Identities=17% Similarity=0.261 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
+.-++|.+++.++..+|+.|+||||||. .+|.+.+
T Consensus 77 ~~r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 77 QKKQDILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 4447889999998999999999999998 5784443
No 254
>PRK06526 transposase; Provisional
Probab=81.06 E-value=1.7 Score=46.37 Aligned_cols=21 Identities=29% Similarity=0.509 Sum_probs=17.5
Q ss_pred HHHHhcCCcEEEECCCCCchH
Q psy3462 33 IQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 33 ~~al~~~~~~llEAPTGTGKT 53 (795)
.+-+.++.++++.||+|||||
T Consensus 92 ~~fi~~~~nlll~Gp~GtGKT 112 (254)
T PRK06526 92 LDFVTGKENVVFLGPPGTGKT 112 (254)
T ss_pred CchhhcCceEEEEeCCCCchH
Confidence 344566789999999999999
No 255
>KOG0336|consensus
Probab=81.04 E-value=0.59 Score=53.42 Aligned_cols=35 Identities=23% Similarity=0.152 Sum_probs=28.9
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
+-|-+..+..++--|.|||||||+||.|.+..+..
T Consensus 250 aWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~a 284 (629)
T KOG0336|consen 250 AWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDA 284 (629)
T ss_pred ccceeecCcceEEEEecCCCcCHHHhccceeeeec
Confidence 44446788899999999999999999998776544
No 256
>KOG0349|consensus
Probab=80.98 E-value=0.94 Score=52.15 Aligned_cols=37 Identities=27% Similarity=0.254 Sum_probs=31.0
Q ss_pred HHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 282 LQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 282 ~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
++.||-|..++.++..|.||+|||=||.+|+|...-.
T Consensus 30 aeaiplilgggdvlmaaetgsgktgaf~lpilqiv~e 66 (725)
T KOG0349|consen 30 AEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWE 66 (725)
T ss_pred cccccEEecCCcEEEEeccCCCCccceehhhHHHHHH
Confidence 3556777889999999999999999999999766543
No 257
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=80.97 E-value=1.2 Score=42.87 Aligned_cols=17 Identities=47% Similarity=0.661 Sum_probs=10.4
Q ss_pred ccCcEEEeCCCCCChhH
Q psy3462 290 KAKNCLLESPTGSGKTL 306 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTl 306 (795)
.+.++++.||.|+|||-
T Consensus 23 ~~~~~ll~G~~G~GKT~ 39 (185)
T PF13191_consen 23 SPRNLLLTGESGSGKTS 39 (185)
T ss_dssp ----EEE-B-TTSSHHH
T ss_pred CCcEEEEECCCCCCHHH
Confidence 35789999999999995
No 258
>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=80.65 E-value=1.9 Score=43.18 Aligned_cols=28 Identities=29% Similarity=0.363 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 26 KILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 26 ~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+++++.+.++.....+++|++++||||+
T Consensus 9 ~~~~~~~~~~a~~~~pVlI~GE~GtGK~ 36 (168)
T PF00158_consen 9 KRLREQAKRAASSDLPVLITGETGTGKE 36 (168)
T ss_dssp HHHHHHHHHHTTSTS-EEEECSTTSSHH
T ss_pred HHHHHHHHHHhCCCCCEEEEcCCCCcHH
Confidence 3666777777777889999999999999
No 259
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=80.34 E-value=1.6 Score=48.85 Aligned_cols=26 Identities=38% Similarity=0.363 Sum_probs=21.8
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+-+..++..+.++++-+|||+|||
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKT 176 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKT 176 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHH
Confidence 44556667778899999999999999
No 260
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=80.18 E-value=2.3 Score=49.17 Aligned_cols=37 Identities=30% Similarity=0.270 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHhc----------------CCcEEEECCCCCchH-HHHHHH
Q psy3462 23 SSCKILHLQVIQGCNK----------------AKNCLLESPTGSGKT-LALLCS 59 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~----------------~~~~llEAPTGTGKT-LAyL~p 59 (795)
-+|.+....+..++.+ ..++++.+|||+||| +|-.++
T Consensus 18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LA 71 (443)
T PRK05201 18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLA 71 (443)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHH
Confidence 4677777777766643 368999999999999 444333
No 261
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=80.13 E-value=6.4 Score=49.70 Aligned_cols=55 Identities=24% Similarity=0.323 Sum_probs=40.0
Q ss_pred HHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 8 IFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 8 ~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
.|.++-....+|.|...|+- =.+-+-.|+.--+.||||+|||-=-++-++..+.+
T Consensus 70 ~~~~fF~k~~G~~~ws~QR~----WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~k 124 (1187)
T COG1110 70 EFEEFFKKATGFRPWSAQRV----WAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKK 124 (1187)
T ss_pred HHHHHHHHhhCCCchHHHHH----HHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhc
Confidence 34455555667899999944 44556677888889999999997666667777653
No 262
>PRK13531 regulatory ATPase RavA; Provisional
Probab=79.80 E-value=1.3 Score=51.82 Aligned_cols=21 Identities=24% Similarity=0.401 Sum_probs=17.7
Q ss_pred hccccCcEEEeCCCCCChhHH
Q psy3462 287 GCNKAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 287 al~~~~~~l~EaPTGTGKTla 307 (795)
++..+++++++||+|||||+.
T Consensus 35 aalag~hVLL~GpPGTGKT~L 55 (498)
T PRK13531 35 AALSGESVFLLGPPGIAKSLI 55 (498)
T ss_pred HHccCCCEEEECCCChhHHHH
Confidence 345689999999999999963
No 263
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=79.71 E-value=2.7 Score=40.53 Aligned_cols=32 Identities=25% Similarity=0.297 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHHHHhc--CCcEEEECCCCCchH
Q psy3462 22 YSSCKILHLQVIQGCNK--AKNCLLESPTGSGKT 53 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKT 53 (795)
|..|.+.+....++... ...++|.||.|+|||
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT 38 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKT 38 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHH
Confidence 45555444444432222 356999999999999
No 264
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=79.55 E-value=4.3 Score=49.15 Aligned_cols=301 Identities=19% Similarity=0.205 Sum_probs=156.6
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH---
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE--- 321 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k--- 321 (795)
..||+.-..|...+.+|..-+.++ ..-+-|+.|.-|||||+..++++++-.....+
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~---------------------~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~AL 316 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASP---------------------VPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAAL 316 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCc---------------------hhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEE
Confidence 579999999999999999888753 23568999999999999999998887777544
Q ss_pred -----HHHHHHHhhhhhhhhhcC-CCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeeeccc
Q psy3462 322 -----LVQQKMFEQRTQDLQKIP-FRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVLNGR 395 (795)
Q Consensus 322 -----~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l~sR 395 (795)
.|-+|-... +.+.+ +..++++++-|+- +-.+.++.+.++....- -.|+|-=
T Consensus 317 MAPTEILA~QH~~~----~~~~l~~~~i~V~lLtG~~----------------kgk~r~~~l~~l~~G~~---~ivVGTH 373 (677)
T COG1200 317 MAPTEILAEQHYES----LRKWLEPLGIRVALLTGSL----------------KGKARKEILEQLASGEI---DIVVGTH 373 (677)
T ss_pred eccHHHHHHHHHHH----HHHHhhhcCCeEEEeeccc----------------chhHHHHHHHHHhCCCC---CEEEEcc
Confidence 455555544 44432 2446677776662 33445555666664311 1233322
Q ss_pred ccccccchhhh-hhccccccceeecccchhhHHhhhhhcccccccccccccccccccchhhhHhhhcccCCCCccchhcc
Q psy3462 396 SKNLVSSIDFI-LGLLYKGIQTCITTINQQEDELRQSTKKTKVDKLKVLNGRSKNLVSSIDFILGLLYKGVNCEDYHVCM 474 (795)
Q Consensus 396 ~~~~~~~~~~~-~~~~~~~~~lCi~~~~~~v~~~~~~~~~~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~C~~y~~~~ 474 (795)
+ -.-.+-+|. |||.--.-| -|.|+.-. + .+..++..++ |.-+
T Consensus 374 A-LiQd~V~F~~LgLVIiDEQ------------HRFGV~QR----~------------------~L~~KG~~~P--h~Lv 416 (677)
T COG1200 374 A-LIQDKVEFHNLGLVIIDEQ------------HRFGVHQR----L------------------ALREKGEQNP--HVLV 416 (677)
T ss_pred h-hhhcceeecceeEEEEecc------------ccccHHHH----H------------------HHHHhCCCCC--cEEE
Confidence 2 111112333 443321101 11121000 0 0011111011 1110
Q ss_pred cch------hhhhhhhhhhhhcccccCccccccCCCCC-----hhHHHHHhhh-----C---Cccccchhhh-hhHHHHH
Q psy3462 475 ESS------VAFDQLIQLDLMLDEHLNPYVLKVKDTPC-----IEDLEQFSTR-----A---LVSPCFQLIQ-LDLMLDE 534 (795)
Q Consensus 475 ~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~dL~~~~~~-----~---~~cpyf~~~q-~~~~~~~ 534 (795)
-++ .+-..++.+|+.-=..+|||. +...|+. .+++.++-++ + =+||----.+ ++++.-+
T Consensus 417 MTATPIPRTLAlt~fgDldvS~IdElP~GR-kpI~T~~i~~~~~~~v~e~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~ 495 (677)
T COG1200 417 MTATPIPRTLALTAFGDLDVSIIDELPPGR-KPITTVVIPHERRPEVYERIREEIAKGRQAYVVCPLIEESEKLELQAAE 495 (677)
T ss_pred EeCCCchHHHHHHHhccccchhhccCCCCC-CceEEEEeccccHHHHHHHHHHHHHcCCEEEEEeccccccccchhhhHH
Confidence 000 122234567775555678875 2222222 2333332221 1 1577766554 4444332
Q ss_pred hhhHHHHHhccccchHHhhcc-CcEEEcCCCcchhhHHhhhcccceeEeecCc-c--ccceEEEEecCCCCCCCcccccc
Q psy3462 535 HLNPYVLKVKDTPCIEDLVLK-RNIFYDTLMLCDVQTKETKHRDSVKQVMGKG-N--LELCKGVFWTRFPNTCQYSVVYP 610 (795)
Q Consensus 535 ~me~iv~~W~~tgil~~I~~~-K~IFiE~kd~~e~~~~L~~Y~~aifAV~GGK-n--l~rcViVVGIPYPn~~d~~Lk~~ 610 (795)
.+-..++.+ +... .-+.--.=.+.+.+++++.|+. |. + -.-+||=|||--||. +..|.+.
T Consensus 496 ~~~~~L~~~--------~~~~~vgL~HGrm~~~eKd~vM~~Fk~-------~e~~ILVaTTVIEVGVdVPnA-TvMVIe~ 559 (677)
T COG1200 496 ELYEELKSF--------LPELKVGLVHGRMKPAEKDAVMEAFKE-------GEIDILVATTVIEVGVDVPNA-TVMVIEN 559 (677)
T ss_pred HHHHHHHHH--------cccceeEEEecCCChHHHHHHHHHHHc-------CCCcEEEEeeEEEecccCCCC-eEEEEec
Confidence 222221111 0111 1122222223457777777754 21 2 234577799999998 5555543
Q ss_pred cccCCcccchHHHHHHHHHhccCccccccCceeEEEEeeccc
Q psy3462 611 TGLLKGGDWYQIQAYRALNQALGRCIRHRYDWGAILLVDQRF 652 (795)
Q Consensus 611 ~~~~~G~ewY~~~AmRaVNQAIGRvIRHknDyGaIiLlD~Rf 652 (795)
..+. ++-++.|-=|||=|....--|+++.+..-
T Consensus 560 AERF---------GLaQLHQLRGRVGRG~~qSyC~Ll~~~~~ 592 (677)
T COG1200 560 AERF---------GLAQLHQLRGRVGRGDLQSYCVLLYKPPL 592 (677)
T ss_pred hhhh---------hHHHHHHhccccCCCCcceEEEEEeCCCC
Confidence 2221 26788999999999988877888877655
No 265
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=79.54 E-value=1.5 Score=54.42 Aligned_cols=27 Identities=22% Similarity=0.430 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+...+|.+++.+...+||.||||+|||
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKT 79 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKT 79 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChH
Confidence 567899999999999999999999999
No 266
>PRK12377 putative replication protein; Provisional
Probab=79.33 E-value=4 Score=43.69 Aligned_cols=31 Identities=16% Similarity=0.200 Sum_probs=20.5
Q ss_pred HHHHHHHHHHH---HHHhc-CCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVI---QGCNK-AKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~---~al~~-~~~~llEAPTGTGKT 53 (795)
+.|...+..+. +.+.. ..+++|.||+|||||
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKT 115 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKN 115 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHH
Confidence 56654444333 33333 357999999999999
No 267
>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=79.11 E-value=1.7 Score=40.86 Aligned_cols=14 Identities=50% Similarity=0.771 Sum_probs=12.4
Q ss_pred cEEEeCCCCCChhH
Q psy3462 293 NCLLESPTGSGKTL 306 (795)
Q Consensus 293 ~~l~EaPTGTGKTl 306 (795)
++++.||+|||||.
T Consensus 1 ~vlL~G~~G~GKt~ 14 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT 14 (139)
T ss_dssp EEEEEESSSSSHHH
T ss_pred CEEEECCCCCCHHH
Confidence 47899999999994
No 268
>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=79.06 E-value=1.1 Score=52.49 Aligned_cols=23 Identities=26% Similarity=0.492 Sum_probs=17.2
Q ss_pred HHHHHHHhccCccccccCceeEEE
Q psy3462 623 QAYRALNQALGRCIRHRYDWGAIL 646 (795)
Q Consensus 623 ~AmRaVNQAIGRvIRHknDyGaIi 646 (795)
.++..+.|.+||+=|.... |-++
T Consensus 353 ~~~~ll~q~~GRagR~~~~-g~vi 375 (505)
T TIGR00595 353 RGFQLLTQVAGRAGRAEDP-GQVI 375 (505)
T ss_pred HHHHHHHHHHhccCCCCCC-CEEE
Confidence 4788899999999996553 4443
No 269
>PRK08116 hypothetical protein; Validated
Probab=79.02 E-value=3.9 Score=43.98 Aligned_cols=35 Identities=26% Similarity=0.215 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHh---c--CCc--EEEECCCCCchH
Q psy3462 19 FLKYSSCKILHLQVIQGCN---K--AKN--CLLESPTGSGKT 53 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~---~--~~~--~llEAPTGTGKT 53 (795)
|.+.+.+...+..+.+.+. . ..+ ++|.||+|||||
T Consensus 87 f~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKT 128 (268)
T PRK08116 87 FLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKT 128 (268)
T ss_pred ccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHH
Confidence 3345666555444443333 2 233 999999999999
No 270
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=78.85 E-value=1.5 Score=48.93 Aligned_cols=40 Identities=23% Similarity=0.293 Sum_probs=29.3
Q ss_pred ccCCCCCHHHHHHHHHHHH-HhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhH
Q psy3462 245 EFPVKAYPSQISMMNQVSN-LFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~-~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTl 306 (795)
.|||...-+|...+..+.- +++. ..+++|++||.|||||.
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~~~----------------------~~~~vLl~G~pG~gKT~ 44 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAIDP----------------------GIGGVLVFGDRGTGKST 44 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHhcc----------------------CCCcEEEEcCCCCCHHH
Confidence 4666667789888887753 3332 13689999999999994
No 271
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=78.77 E-value=1.9 Score=43.56 Aligned_cols=16 Identities=31% Similarity=0.358 Sum_probs=14.4
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
..++++.||+|||||.
T Consensus 38 ~~~lll~G~~G~GKT~ 53 (226)
T TIGR03420 38 DRFLYLWGESGSGKSH 53 (226)
T ss_pred CCeEEEECCCCCCHHH
Confidence 5789999999999995
No 272
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=78.46 E-value=1.2 Score=49.84 Aligned_cols=15 Identities=73% Similarity=0.970 Sum_probs=13.4
Q ss_pred CcEEEECCCCCchHH
Q psy3462 40 KNCLLESPTGSGKTL 54 (795)
Q Consensus 40 ~~~llEAPTGTGKTL 54 (795)
.|+++.+||||||||
T Consensus 98 SNILLiGPTGsGKTl 112 (408)
T COG1219 98 SNILLIGPTGSGKTL 112 (408)
T ss_pred ccEEEECCCCCcHHH
Confidence 479999999999994
No 273
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=78.30 E-value=4.2 Score=41.45 Aligned_cols=27 Identities=26% Similarity=0.396 Sum_probs=18.6
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
++..++.||.|||||..+ ..+...+..
T Consensus 18 ~~~~~l~G~aGtGKT~~l-~~~~~~~~~ 44 (196)
T PF13604_consen 18 DRVSVLQGPAGTGKTTLL-KALAEALEA 44 (196)
T ss_dssp CSEEEEEESTTSTHHHHH-HHHHHHHHH
T ss_pred CeEEEEEECCCCCHHHHH-HHHHHHHHh
Confidence 468999999999999643 334444333
No 274
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=78.22 E-value=1.3 Score=48.47 Aligned_cols=16 Identities=50% Similarity=0.872 Sum_probs=14.7
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
.+++|+-||+|||||+
T Consensus 151 PknVLFyGppGTGKTm 166 (368)
T COG1223 151 PKNVLFYGPPGTGKTM 166 (368)
T ss_pred cceeEEECCCCccHHH
Confidence 3899999999999997
No 275
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=78.06 E-value=5.3 Score=48.98 Aligned_cols=107 Identities=20% Similarity=0.249 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH--------HH
Q psy3462 252 PSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE--------LV 323 (795)
Q Consensus 252 p~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k--------~L 323 (795)
+.|......|...+ .. ....|+.+-||+|||-.||=.+-..+...+. .|
T Consensus 201 ~~Q~~a~~~i~~~~-~~----------------------~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~L 257 (730)
T COG1198 201 QEQQAAVEAILSSL-GG----------------------FAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIAL 257 (730)
T ss_pred HHHHHHHHHHHHhc-cc----------------------ccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccc
Q ss_pred HHHHHhhhhhhhhhcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeeecccccccccch
Q psy3462 324 QQKMFEQRTQDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVLNGRSKNLVSSI 403 (795)
Q Consensus 324 Q~Ql~~kdip~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l~sR~~~~~~~~ 403 (795)
-.|+++. ++.-+|.++-+ +..+| .-.+..++.+++... -.-.|+|.|+ ----
T Consensus 258 tpq~~~r----f~~rFg~~v~v-------------lHS~L-----s~~er~~~W~~~~~G---~~~vVIGtRS---AlF~ 309 (730)
T COG1198 258 TPQLLAR----FKARFGAKVAV-------------LHSGL-----SPGERYRVWRRARRG---EARVVIGTRS---ALFL 309 (730)
T ss_pred hHHHHHH----HHHHhCCChhh-------------hcccC-----ChHHHHHHHHHHhcC---CceEEEEech---hhcC
Q ss_pred hhh-hhc
Q psy3462 404 DFI-LGL 409 (795)
Q Consensus 404 ~~~-~~~ 409 (795)
+|- |||
T Consensus 310 Pf~~LGL 316 (730)
T COG1198 310 PFKNLGL 316 (730)
T ss_pred chhhccE
No 276
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=77.81 E-value=2.3 Score=49.79 Aligned_cols=30 Identities=33% Similarity=0.408 Sum_probs=23.4
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
.+.+|+-||||+|||.++ .++|.++....+
T Consensus 258 ~GliLvTGPTGSGKTTTL-Y~~L~~ln~~~~ 287 (500)
T COG2804 258 QGLILVTGPTGSGKTTTL-YAALSELNTPER 287 (500)
T ss_pred CeEEEEeCCCCCCHHHHH-HHHHHHhcCCCc
Confidence 478999999999999864 566777766543
No 277
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=77.62 E-value=2.1 Score=53.08 Aligned_cols=43 Identities=21% Similarity=0.073 Sum_probs=31.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
-+..||+.| +|..+ +++ +.-|.|..||-||||+..+|+...+.
T Consensus 73 lG~r~ydvQ--lig~l--~L~--~G~IaEm~TGEGKTL~a~l~ayl~aL 115 (870)
T CHL00122 73 LGLRHFDVQ--LIGGL--VLN--DGKIAEMKTGEGKTLVATLPAYLNAL 115 (870)
T ss_pred hCCCCCchH--hhhhH--hhc--CCccccccCCCCchHHHHHHHHHHHh
Confidence 356788988 33322 233 45899999999999999999865443
No 278
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=77.45 E-value=3.7 Score=45.87 Aligned_cols=42 Identities=26% Similarity=0.316 Sum_probs=32.0
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlay 308 (795)
|||..--+|..+...+.-++-++ ..++++++||+|||||..+
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~---------------------~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDP---------------------KIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCC---------------------CCCeEEEEcCCCCCHHHHH
Confidence 78888889999988875444332 1467999999999999644
No 279
>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=77.40 E-value=0.89 Score=51.61 Aligned_cols=32 Identities=16% Similarity=0.056 Sum_probs=24.0
Q ss_pred CCChhHHHHHhhhCCccccchhhhhhHHHHHhh
Q psy3462 504 TPCIEDLEQFSTRALVSPCFQLIQLDLMLDEHL 536 (795)
Q Consensus 504 ~~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~~m 536 (795)
+++|++...+++..+++..+.. |=--||++.|
T Consensus 318 i~~~~~~l~~~Rs~gi~~~~i~-Qs~~QL~~~Y 349 (469)
T PF02534_consen 318 IPNFEEALSTGRSYGIRFWLIV-QSLAQLEEKY 349 (469)
T ss_pred HHHHHHHHHHHhhCCcEEEEEE-EcHHHHHHHh
Confidence 4789999999999999988776 4344555444
No 280
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=77.23 E-value=3.2 Score=46.83 Aligned_cols=40 Identities=20% Similarity=0.396 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHH-HHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHH
Q psy3462 248 VKAYPSQISMMNQV-SNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 248 y~~yp~Q~~mm~~i-~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlay 308 (795)
+..|..|..-+..+ ..++... ...++++.||||||||...
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~---------------------~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGE---------------------RPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCC---------------------CCccEEEECCCCCCHhHHH
Confidence 45688887655544 4444432 2356999999999999754
No 281
>KOG0332|consensus
Probab=77.03 E-value=1.2 Score=50.57 Aligned_cols=54 Identities=17% Similarity=0.133 Sum_probs=42.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhc--CCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNK--AKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQ 73 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~ 73 (795)
+.|-+|..+| +.+..-+.. -+|+|..|-.|||||.||.+..|...+..-..-|+
T Consensus 108 M~F~kPskIQ----e~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~ 163 (477)
T KOG0332|consen 108 MKFQKPSKIQ----ETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQC 163 (477)
T ss_pred hccCCcchHH----HhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCc
Confidence 6677899999 656666644 47899999999999999999999887766555444
No 282
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=76.99 E-value=3.9 Score=50.10 Aligned_cols=78 Identities=14% Similarity=0.187 Sum_probs=51.3
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH---
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE--- 321 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k--- 321 (795)
.....||+.|.-=|..+. .| -+.|+.||.||||...+|+...+...+.
T Consensus 74 ~lg~r~ydvQlig~l~Ll---------------------------~G--~VaEM~TGEGKTLvA~l~a~l~AL~G~~Vhv 124 (764)
T PRK12326 74 TLGLRPFDVQLLGALRLL---------------------------AG--DVIEMATGEGKTLAGAIAAAGYALQGRRVHV 124 (764)
T ss_pred HcCCCcchHHHHHHHHHh---------------------------CC--CcccccCCCCHHHHHHHHHHHHHHcCCCeEE
Confidence 466788898877665542 12 3779999999999999998776655443
Q ss_pred -HHHHHHHhhhhhhhhhcC-CCCceEEEeccc
Q psy3462 322 -LVQQKMFEQRTQDLQKIP-FRKLKISRLKAK 351 (795)
Q Consensus 322 -~LQ~Ql~~kdip~l~~i~-~~~l~~~~~KGr 351 (795)
..-+.|..+|...+..+. .+.+++..+.+.
T Consensus 125 vT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~ 156 (764)
T PRK12326 125 ITVNDYLARRDAEWMGPLYEALGLTVGWITEE 156 (764)
T ss_pred EcCCHHHHHHHHHHHHHHHHhcCCEEEEECCC
Confidence 344556666666655543 234565555443
No 283
>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=76.89 E-value=6.5 Score=39.58 Aligned_cols=28 Identities=32% Similarity=0.389 Sum_probs=18.7
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
...|+++-|+||+|||..+-.-+...+.
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 3468999999999999877665444443
No 284
>KOG0352|consensus
Probab=76.85 E-value=1.7 Score=50.14 Aligned_cols=25 Identities=28% Similarity=0.500 Sum_probs=22.0
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.+..+.+.+|||+||||.|-+|+|.
T Consensus 35 ~k~DVyVsMPTGaGKSLCyQLPaL~ 59 (641)
T KOG0352|consen 35 RKCDVYVSMPTGAGKSLCYQLPALV 59 (641)
T ss_pred ccCcEEEeccCCCchhhhhhchHHH
Confidence 3577999999999999999999864
No 285
>PHA00729 NTP-binding motif containing protein
Probab=76.79 E-value=3.2 Score=44.12 Aligned_cols=26 Identities=27% Similarity=0.445 Sum_probs=19.6
Q ss_pred HHHHHHHHHhcC--CcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKA--KNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~--~~~llEAPTGTGKT 53 (795)
+...+.+.+..+ .+++|.|++|||||
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT 31 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKT 31 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHH
Confidence 345566666554 36999999999999
No 286
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=76.77 E-value=1.5 Score=40.25 Aligned_cols=19 Identities=32% Similarity=0.573 Sum_probs=12.3
Q ss_pred ccCcEEEeCCCCCChhHHH
Q psy3462 290 KAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlay 308 (795)
+++++++.||+|+|||...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ----EEEEE-TTSSHHHHH
T ss_pred CCcccEEEcCCCCCHHHHH
Confidence 4578999999999999643
No 287
>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=76.69 E-value=4.1 Score=52.78 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 22 YSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
-|+. +..++|.++|.++..+||.|+||+|||- .+|.+.+
T Consensus 66 LPi~-~~~~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 66 LPVS-AKREDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred CCHH-HHHHHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 4555 3348899999999999999999999997 5685544
No 288
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=76.57 E-value=2.2 Score=52.48 Aligned_cols=40 Identities=28% Similarity=0.327 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHH
Q psy3462 249 KAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLC 310 (795)
Q Consensus 249 ~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~ 310 (795)
.+|+-|...+.+|.+++.++ ..-+|+-+.||||||.....
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g----------------------~~raLlvMATGTGKTrTAia 204 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKG----------------------QNRALLVMATGTGKTRTAIA 204 (875)
T ss_pred cchHHHHHHHHHHHHHHhcC----------------------CceEEEEEecCCCcceeHHH
Confidence 58999999999999999864 22399999999999976543
No 289
>KOG0351|consensus
Probab=76.50 E-value=1 Score=56.28 Aligned_cols=33 Identities=30% Similarity=0.509 Sum_probs=26.1
Q ss_pred HHhhccccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
+|-+...|+.+++.+|||-||||.|-+|++.+-
T Consensus 272 aI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~~ 304 (941)
T KOG0351|consen 272 AINATLSGKDCFVLMPTGGGKSLCYQLPALLLG 304 (941)
T ss_pred HHHHHHcCCceEEEeecCCceeeEeeccccccC
Confidence 333344578899999999999999999986554
No 290
>PRK06835 DNA replication protein DnaC; Validated
Probab=76.30 E-value=3.9 Score=45.49 Aligned_cols=16 Identities=44% Similarity=0.644 Sum_probs=14.4
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+.++++-||||||||.
T Consensus 183 ~~~Lll~G~~GtGKTh 198 (329)
T PRK06835 183 NENLLFYGNTGTGKTF 198 (329)
T ss_pred CCcEEEECCCCCcHHH
Confidence 4779999999999996
No 291
>COG4889 Predicted helicase [General function prediction only]
Probab=76.15 E-value=3.3 Score=51.43 Aligned_cols=38 Identities=16% Similarity=0.057 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLA 55 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLA 55 (795)
...|||.|++-++++.+.+.....+=+....|||||..
T Consensus 159 ~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfT 196 (1518)
T COG4889 159 PKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFT 196 (1518)
T ss_pred CCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccch
Confidence 56789999999999999998877777888899999965
No 292
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=76.12 E-value=1.5 Score=49.25 Aligned_cols=17 Identities=65% Similarity=0.851 Sum_probs=14.9
Q ss_pred ccCcEEEeCCCCCChhH
Q psy3462 290 KAKNCLLESPTGSGKTL 306 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTl 306 (795)
.+.|+++-+||||||||
T Consensus 96 ~KSNILLiGPTGsGKTl 112 (408)
T COG1219 96 SKSNILLIGPTGSGKTL 112 (408)
T ss_pred eeccEEEECCCCCcHHH
Confidence 45789999999999995
No 293
>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=76.01 E-value=3.2 Score=44.78 Aligned_cols=23 Identities=30% Similarity=0.413 Sum_probs=18.4
Q ss_pred HHHHHhcCCcEEEECCCCCchHH
Q psy3462 32 VIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 32 i~~al~~~~~~llEAPTGTGKTL 54 (795)
+-..+.++.++++-||||||||.
T Consensus 26 l~~l~~~~~pvLl~G~~GtGKT~ 48 (272)
T PF12775_consen 26 LDLLLSNGRPVLLVGPSGTGKTS 48 (272)
T ss_dssp HHHHHHCTEEEEEESSTTSSHHH
T ss_pred HHHHHHcCCcEEEECCCCCchhH
Confidence 33345678899999999999993
No 294
>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=75.86 E-value=3.8 Score=40.09 Aligned_cols=28 Identities=18% Similarity=0.204 Sum_probs=18.6
Q ss_pred HHHHHHHHHHhcC---Cc--EEEECCCCCchHH
Q psy3462 27 ILHLQVIQGCNKA---KN--CLLESPTGSGKTL 54 (795)
Q Consensus 27 ~mm~~i~~al~~~---~~--~llEAPTGTGKTL 54 (795)
.++.++..-+.+. +. +-+.+|||||||.
T Consensus 36 ~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~ 68 (127)
T PF06309_consen 36 VVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNF 68 (127)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHH
Confidence 4555555555442 33 4489999999993
No 295
>PRK09183 transposase/IS protein; Provisional
Probab=75.71 E-value=2.5 Score=45.10 Aligned_cols=18 Identities=39% Similarity=0.662 Sum_probs=15.4
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
..+.++++-||+|||||.
T Consensus 100 ~~~~~v~l~Gp~GtGKTh 117 (259)
T PRK09183 100 ERNENIVLLGPSGVGKTH 117 (259)
T ss_pred hcCCeEEEEeCCCCCHHH
Confidence 346789999999999994
No 296
>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=75.71 E-value=0.71 Score=51.32 Aligned_cols=55 Identities=5% Similarity=-0.038 Sum_probs=32.9
Q ss_pred CCChhHHHHHhhhCCccccchhhhhhHHHHHhhhHHHHHhccccchHHhhccCcEEEcCCCc
Q psy3462 504 TPCIEDLEQFSTRALVSPCFQLIQLDLMLDEHLNPYVLKVKDTPCIEDLVLKRNIFYDTLML 565 (795)
Q Consensus 504 ~~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~ 565 (795)
++.|+++...++..++|-....-.++-+-+.|=+.- | ..|++... -.+|.-..|.
T Consensus 278 i~~l~~~~~~~r~~gi~~~~~~Q~~~Ql~~~Yg~~~---a--~~i~~n~~--~~~~~~~~d~ 332 (384)
T cd01126 278 LETFEKAIAIMAGYGIRLLLIFQSLAQLEGTYGDAG---A--SSFLSNCG--VRLFFAVNDY 332 (384)
T ss_pred hHHHHHHHHHhcCCCCEEEEEEEcHHHHHHHhCHhH---H--HHHHhhCc--eEEEecCCCH
Confidence 478999999999999998877644543333333322 2 22333333 3456666653
No 297
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=75.68 E-value=3.1 Score=47.68 Aligned_cols=16 Identities=69% Similarity=0.902 Sum_probs=14.4
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+.++++.||||||||.
T Consensus 108 ~~~iLl~Gp~GtGKT~ 123 (412)
T PRK05342 108 KSNILLIGPTGSGKTL 123 (412)
T ss_pred CceEEEEcCCCCCHHH
Confidence 5789999999999995
No 298
>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=75.57 E-value=1.5 Score=41.24 Aligned_cols=13 Identities=54% Similarity=0.864 Sum_probs=12.1
Q ss_pred cEEEECCCCCchH
Q psy3462 41 NCLLESPTGSGKT 53 (795)
Q Consensus 41 ~~llEAPTGTGKT 53 (795)
+++|.+|+|||||
T Consensus 1 ~vlL~G~~G~GKt 13 (139)
T PF07728_consen 1 PVLLVGPPGTGKT 13 (139)
T ss_dssp EEEEEESSSSSHH
T ss_pred CEEEECCCCCCHH
Confidence 4899999999999
No 299
>KOG0951|consensus
Probab=75.55 E-value=3.7 Score=52.62 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=31.6
Q ss_pred HHHHHHH-hcCCcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 30 LQVIQGC-NKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 30 ~~i~~al-~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
.+++++. ..+.|+++.||||+|||...++-+|.-+.....
T Consensus 315 S~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r 355 (1674)
T KOG0951|consen 315 SKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLR 355 (1674)
T ss_pred HHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccc
Confidence 4666654 456899999999999999998888887765544
No 300
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=75.44 E-value=2.8 Score=46.37 Aligned_cols=25 Identities=36% Similarity=0.490 Sum_probs=18.8
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
.++++++-||||+||| +++-.++.+
T Consensus 147 ~~~~ilI~G~tGSGKT-Tll~aL~~~ 171 (319)
T PRK13894 147 AHRNILVIGGTGSGKT-TLVNAIINE 171 (319)
T ss_pred cCCeEEEECCCCCCHH-HHHHHHHHh
Confidence 3578999999999999 555554443
No 301
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=75.34 E-value=2.5 Score=50.44 Aligned_cols=57 Identities=26% Similarity=0.158 Sum_probs=44.5
Q ss_pred HHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 7 DIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 7 ~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+-|+.++...++-...|.| .-+|...|.+|.|+++-|+|+|||||--=++.+.-+..
T Consensus 203 e~fk~~lk~~G~~eLlPVQ---~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~ 259 (830)
T COG1202 203 EKFKRMLKREGIEELLPVQ---VLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS 259 (830)
T ss_pred HHHHHHHHhcCcceecchh---hhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh
Confidence 3577788877777888999 34777788999999999999999997665555555544
No 302
>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=75.30 E-value=2.4 Score=42.60 Aligned_cols=14 Identities=57% Similarity=0.916 Sum_probs=12.7
Q ss_pred CcEEEECCCCCchH
Q psy3462 40 KNCLLESPTGSGKT 53 (795)
Q Consensus 40 ~~~llEAPTGTGKT 53 (795)
.++++-+|||+|||
T Consensus 4 ~~~ll~GpsGvGKT 17 (171)
T PF07724_consen 4 SNFLLAGPSGVGKT 17 (171)
T ss_dssp EEEEEESSTTSSHH
T ss_pred EEEEEECCCCCCHH
Confidence 36899999999999
No 303
>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=74.86 E-value=3.2 Score=43.27 Aligned_cols=23 Identities=35% Similarity=0.442 Sum_probs=18.1
Q ss_pred cCcEEEeCCCCCChhHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l 313 (795)
.+++++.|+.|||||.+++-=++
T Consensus 13 ~~~~lV~a~AGSGKT~~l~~ri~ 35 (315)
T PF00580_consen 13 EGPLLVNAGAGSGKTTTLLERIA 35 (315)
T ss_dssp SSEEEEEE-TTSSHHHHHHHHHH
T ss_pred CCCEEEEeCCCCCchHHHHHHHH
Confidence 57899999999999997765543
No 304
>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=74.86 E-value=2.8 Score=46.85 Aligned_cols=25 Identities=16% Similarity=0.375 Sum_probs=21.6
Q ss_pred HHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 29 HLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 29 m~~i~~al~~~~~~llEAPTGTGKT 53 (795)
...+..++..+++++|++|+|||||
T Consensus 54 ~~~vl~~l~~~~~ilL~G~pGtGKT 78 (327)
T TIGR01650 54 TKAICAGFAYDRRVMVQGYHGTGKS 78 (327)
T ss_pred HHHHHHHHhcCCcEEEEeCCCChHH
Confidence 4567777877899999999999999
No 305
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=74.86 E-value=3 Score=48.50 Aligned_cols=26 Identities=31% Similarity=0.475 Sum_probs=22.9
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
..+.+..++..++++++.+|+|||||
T Consensus 183 ~le~l~~~L~~~~~iil~GppGtGKT 208 (459)
T PRK11331 183 TIETILKRLTIKKNIILQGPPGVGKT 208 (459)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHH
Confidence 44677888888999999999999999
No 306
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=74.75 E-value=4.6 Score=46.39 Aligned_cols=20 Identities=40% Similarity=0.532 Sum_probs=17.0
Q ss_pred ccCcEEEeCCCCCChhHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALL 309 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL 309 (795)
.+++++|-||||.|||-.+-
T Consensus 202 ~~~vi~LVGPTGVGKTTTlA 221 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLA 221 (407)
T ss_pred cCcEEEEECCCCCcHHHHHH
Confidence 37899999999999987653
No 307
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=74.70 E-value=4.6 Score=44.56 Aligned_cols=32 Identities=25% Similarity=0.311 Sum_probs=22.3
Q ss_pred HHHH-HHHHHHHHHHhcC--CcEEEECCCCCchHH
Q psy3462 23 SSCK-ILHLQVIQGCNKA--KNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~-~mm~~i~~al~~~--~~~llEAPTGTGKTL 54 (795)
..|. ++...+..++.++ .+++|.||+|||||.
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~ 70 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTT 70 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHH
Confidence 4443 5555555666533 569999999999994
No 308
>KOG0989|consensus
Probab=74.68 E-value=4.3 Score=45.33 Aligned_cols=33 Identities=18% Similarity=0.235 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHhc--CCcEEEECCCCCchHHH
Q psy3462 23 SSCKILHLQVIQGCNK--AKNCLLESPTGSGKTLA 55 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKTLA 55 (795)
-+|....+.+..++.+ .-+.++.+|.|||||-+
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTSt 73 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTST 73 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHH
Confidence 6888888888888876 34799999999999933
No 309
>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=74.25 E-value=3 Score=45.10 Aligned_cols=15 Identities=27% Similarity=0.372 Sum_probs=13.3
Q ss_pred CcEEEECCCCCchHH
Q psy3462 40 KNCLLESPTGSGKTL 54 (795)
Q Consensus 40 ~~~llEAPTGTGKTL 54 (795)
.+++|.+|+|||||.
T Consensus 59 ~~vll~G~pGTGKT~ 73 (284)
T TIGR02880 59 LHMSFTGNPGTGKTT 73 (284)
T ss_pred ceEEEEcCCCCCHHH
Confidence 379999999999993
No 310
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=74.23 E-value=4.3 Score=38.62 Aligned_cols=28 Identities=25% Similarity=0.367 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
++.+.+.+....+..++|.++.||||+.
T Consensus 9 ~l~~~l~~~a~~~~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 9 RLRRQLERLAKSSSPVLITGEPGTGKSL 36 (138)
T ss_dssp HHHHHHHHHHCSSS-EEEECCTTSSHHH
T ss_pred HHHHHHHHHhCCCCcEEEEcCCCCCHHH
Confidence 4555666666778899999999999993
No 311
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=73.72 E-value=4 Score=43.75 Aligned_cols=16 Identities=50% Similarity=0.821 Sum_probs=14.0
Q ss_pred cEEEeCCCCCChhHHH
Q psy3462 293 NCLLESPTGSGKTLAL 308 (795)
Q Consensus 293 ~~l~EaPTGTGKTlay 308 (795)
++++.||+|||||...
T Consensus 38 ~lll~Gp~GtGKT~la 53 (337)
T PRK12402 38 HLLVQGPPGSGKTAAV 53 (337)
T ss_pred eEEEECCCCCCHHHHH
Confidence 7899999999999643
No 312
>KOG0989|consensus
Probab=73.57 E-value=4.4 Score=45.23 Aligned_cols=39 Identities=23% Similarity=0.299 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHH
Q psy3462 252 PSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCS 311 (795)
Q Consensus 252 p~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~ 311 (795)
-+|....+.+.+++.+. ...|.|+-||.|||||-+.++.
T Consensus 39 ~gQe~vV~~L~~a~~~~---------------------~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRR---------------------ILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred cchHHHHHHHHHHHhhc---------------------CCceEEeeCCCCCcHhHHHHHH
Confidence 47888888888888642 3568999999999999776554
No 313
>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=73.54 E-value=1.8 Score=46.71 Aligned_cols=18 Identities=39% Similarity=0.702 Sum_probs=15.9
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
..++++++.||||||||.
T Consensus 31 ~~~~pvLl~G~~GtGKT~ 48 (272)
T PF12775_consen 31 SNGRPVLLVGPSGTGKTS 48 (272)
T ss_dssp HCTEEEEEESSTTSSHHH
T ss_pred HcCCcEEEECCCCCchhH
Confidence 346889999999999997
No 314
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=73.50 E-value=2.3 Score=47.75 Aligned_cols=43 Identities=21% Similarity=0.251 Sum_probs=34.6
Q ss_pred eeccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhH
Q psy3462 243 KVEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 243 ~~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTl 306 (795)
...|||..=-+|.++..++..++.++ .+ +.+++.||+|||||.
T Consensus 11 ~~~~pf~~ivGq~~~k~al~~~~~~p------------------~~---~~vli~G~~GtGKs~ 53 (350)
T CHL00081 11 RPVFPFTAIVGQEEMKLALILNVIDP------------------KI---GGVMIMGDRGTGKST 53 (350)
T ss_pred CCCCCHHHHhChHHHHHHHHHhccCC------------------CC---CeEEEEcCCCCCHHH
Confidence 33689998889999999998877664 12 468899999999994
No 315
>KOG0327|consensus
Probab=73.44 E-value=2.2 Score=48.43 Aligned_cols=28 Identities=32% Similarity=0.482 Sum_probs=24.6
Q ss_pred cccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 289 NKAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
-.|.++.+.|++|||||.+|+++++.-+
T Consensus 61 i~G~dv~~qaqsgTgKt~af~i~iLq~i 88 (397)
T KOG0327|consen 61 IKGHDVIAQAQSGTGKTAAFLISILQQI 88 (397)
T ss_pred ccCCceeEeeeccccchhhhHHHHHhhc
Confidence 4678999999999999999999987665
No 316
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=73.34 E-value=3.3 Score=51.71 Aligned_cols=42 Identities=21% Similarity=0.100 Sum_probs=31.1
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
+..||+.| +|-.+ +|+. .-|.|..||.||||...+|++..+.
T Consensus 80 Gm~~ydVQ--liGg~--~Lh~--G~iaEM~TGEGKTLvA~l~a~l~al 121 (913)
T PRK13103 80 GMRHFDVQ--LIGGM--TLHE--GKIAEMRTGEGKTLVGTLAVYLNAL 121 (913)
T ss_pred CCCcchhH--HHhhh--Hhcc--CccccccCCCCChHHHHHHHHHHHH
Confidence 46788988 33332 2344 4689999999999999999876654
No 317
>PLN03025 replication factor C subunit; Provisional
Probab=73.12 E-value=4.1 Score=44.33 Aligned_cols=17 Identities=41% Similarity=0.780 Sum_probs=14.3
Q ss_pred CcEEEeCCCCCChhHHH
Q psy3462 292 KNCLLESPTGSGKTLAL 308 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlay 308 (795)
.+.++.||.|||||...
T Consensus 35 ~~lll~Gp~G~GKTtla 51 (319)
T PLN03025 35 PNLILSGPPGTGKTTSI 51 (319)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 57899999999999543
No 318
>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=73.07 E-value=4.9 Score=40.35 Aligned_cols=16 Identities=38% Similarity=0.576 Sum_probs=13.6
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
...++|+|++||||++
T Consensus 22 ~~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 22 DLPVLITGETGTGKEL 37 (168)
T ss_dssp TS-EEEECSTTSSHHH
T ss_pred CCCEEEEcCCCCcHHH
Confidence 4689999999999996
No 319
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=72.78 E-value=2.3 Score=38.97 Aligned_cols=16 Identities=38% Similarity=0.673 Sum_probs=10.8
Q ss_pred cCCcEEEECCCCCchH
Q psy3462 38 KAKNCLLESPTGSGKT 53 (795)
Q Consensus 38 ~~~~~llEAPTGTGKT 53 (795)
++..+++.||+|+|||
T Consensus 3 ~~~~~~i~G~~G~GKT 18 (131)
T PF13401_consen 3 SQRILVISGPPGSGKT 18 (131)
T ss_dssp ----EEEEE-TTSSHH
T ss_pred CCcccEEEcCCCCCHH
Confidence 4567999999999999
No 320
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=72.67 E-value=3.4 Score=47.86 Aligned_cols=31 Identities=32% Similarity=0.324 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhcC----------------CcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKA----------------KNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~----------------~~~llEAPTGTGKT 53 (795)
-+|.+....+.-++.++ .++++.+|||+|||
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT 61 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKT 61 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHH
Confidence 46777777776666542 58999999999999
No 321
>PF12846 AAA_10: AAA-like domain
Probab=72.66 E-value=3.6 Score=42.57 Aligned_cols=19 Identities=42% Similarity=0.441 Sum_probs=16.2
Q ss_pred CcEEEeCCCCCChhHHHHH
Q psy3462 292 KNCLLESPTGSGKTLALLC 310 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlayL~ 310 (795)
.|+++-|+||+|||.....
T Consensus 2 ~h~~i~G~tGsGKT~~~~~ 20 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKN 20 (304)
T ss_pred CeEEEECCCCCcHHHHHHH
Confidence 5899999999999976653
No 322
>PRK06921 hypothetical protein; Provisional
Probab=72.66 E-value=6.9 Score=42.10 Aligned_cols=15 Identities=40% Similarity=0.481 Sum_probs=13.8
Q ss_pred CCcEEEECCCCCchH
Q psy3462 39 AKNCLLESPTGSGKT 53 (795)
Q Consensus 39 ~~~~llEAPTGTGKT 53 (795)
+.+++|.||||||||
T Consensus 117 ~~~l~l~G~~G~GKT 131 (266)
T PRK06921 117 KNSIALLGQPGSGKT 131 (266)
T ss_pred CCeEEEECCCCCcHH
Confidence 567999999999999
No 323
>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=72.54 E-value=3.7 Score=47.18 Aligned_cols=14 Identities=71% Similarity=0.945 Sum_probs=13.0
Q ss_pred CcEEEECCCCCchH
Q psy3462 40 KNCLLESPTGSGKT 53 (795)
Q Consensus 40 ~~~llEAPTGTGKT 53 (795)
.+++|.+|||||||
T Consensus 117 ~~iLL~GP~GsGKT 130 (413)
T TIGR00382 117 SNILLIGPTGSGKT 130 (413)
T ss_pred ceEEEECCCCcCHH
Confidence 46999999999999
No 324
>KOG0353|consensus
Probab=72.32 E-value=7 Score=44.65 Aligned_cols=33 Identities=30% Similarity=0.470 Sum_probs=25.9
Q ss_pred HHHHhhccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 282 LQVIQGCNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 282 ~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
+.+|.+-..+..+++-.|||-||||.|-+|+|-
T Consensus 100 ~~ain~~ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 100 LAAINATMAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred HHHhhhhhccCceEEEEeCCCccchhhhhhHHh
Confidence 344444556788899999999999999999763
No 325
>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=72.26 E-value=3.8 Score=37.17 Aligned_cols=13 Identities=54% Similarity=0.884 Sum_probs=11.5
Q ss_pred EEEeCCCCCChhH
Q psy3462 294 CLLESPTGSGKTL 306 (795)
Q Consensus 294 ~l~EaPTGTGKTl 306 (795)
+++.||.|||||.
T Consensus 1 ill~G~~G~GKT~ 13 (132)
T PF00004_consen 1 ILLHGPPGTGKTT 13 (132)
T ss_dssp EEEESSTTSSHHH
T ss_pred CEEECcCCCCeeH
Confidence 4789999999994
No 326
>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=72.14 E-value=3.5 Score=41.63 Aligned_cols=30 Identities=23% Similarity=0.148 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHH--hcCCcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGC--NKAKNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al--~~~~~~llEAPTGTGKT 53 (795)
.+.+.++.+.+.+ ....+++|.||+|||||
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT 52 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKS 52 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHH
Confidence 4445556555543 23457999999999999
No 327
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=72.10 E-value=3.9 Score=46.86 Aligned_cols=14 Identities=71% Similarity=0.945 Sum_probs=13.1
Q ss_pred CcEEEECCCCCchH
Q psy3462 40 KNCLLESPTGSGKT 53 (795)
Q Consensus 40 ~~~llEAPTGTGKT 53 (795)
.+++|.+|||||||
T Consensus 109 ~~iLl~Gp~GtGKT 122 (412)
T PRK05342 109 SNILLIGPTGSGKT 122 (412)
T ss_pred ceEEEEcCCCCCHH
Confidence 57999999999999
No 328
>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=71.97 E-value=1.5 Score=49.76 Aligned_cols=22 Identities=41% Similarity=0.617 Sum_probs=19.9
Q ss_pred CcEEEeCCCCCChhHHHHHHHH
Q psy3462 292 KNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlayL~~~l 313 (795)
.|+++-||||+|||.++++|.|
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l 66 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL 66 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH
Confidence 4799999999999999998865
No 329
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=71.71 E-value=7.1 Score=41.76 Aligned_cols=24 Identities=33% Similarity=0.505 Sum_probs=18.6
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
.+.++++-||+||||| +|..+++.
T Consensus 104 ~~~nl~l~G~~G~GKT--hLa~Ai~~ 127 (254)
T COG1484 104 RGENLVLLGPPGVGKT--HLAIAIGN 127 (254)
T ss_pred cCCcEEEECCCCCcHH--HHHHHHHH
Confidence 4678999999999999 55555443
No 330
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=71.46 E-value=4.4 Score=50.63 Aligned_cols=43 Identities=19% Similarity=0.048 Sum_probs=31.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
-+..||+.| +|-.+ +|+. .-|.|..||-||||+..+|+...+.
T Consensus 82 lG~r~ydVQ--liGgl--~Lh~--G~IAEM~TGEGKTL~atlpaylnAL 124 (939)
T PRK12902 82 LGMRHFDVQ--LIGGM--VLHE--GQIAEMKTGEGKTLVATLPSYLNAL 124 (939)
T ss_pred hCCCcchhH--HHhhh--hhcC--CceeeecCCCChhHHHHHHHHHHhh
Confidence 356788888 33332 2343 4789999999999999999876554
No 331
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=71.45 E-value=3.9 Score=46.48 Aligned_cols=39 Identities=28% Similarity=0.573 Sum_probs=27.3
Q ss_pred HHHHHHHhcCCccccccchhhhhHHHHHhhc--cccCcEEEeCCCCCChhH
Q psy3462 258 MNQVSNLFEQPNHFLKYSSCKILHLQVIQGC--NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 258 m~~i~~~l~~~~~~~~~~~~~~~~~~~i~al--~~~~~~l~EaPTGTGKTl 306 (795)
+++|..+.+-| ++|-+..+.+ .-.+-+|+-||.||||||
T Consensus 160 i~EirE~VELP----------L~~PElF~~~GI~PPKGVLLYGPPGTGKTL 200 (406)
T COG1222 160 IQEIREVVELP----------LKNPELFEELGIDPPKGVLLYGPPGTGKTL 200 (406)
T ss_pred HHHHHHHhccc----------ccCHHHHHHcCCCCCCceEeeCCCCCcHHH
Confidence 45666666654 4455566654 445668999999999996
No 332
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=71.30 E-value=1.6 Score=52.78 Aligned_cols=24 Identities=25% Similarity=0.451 Sum_probs=20.9
Q ss_pred CCcEEEECCCCCchHHHHHHHHHH
Q psy3462 39 AKNCLLESPTGSGKTLALLCSVLA 62 (795)
Q Consensus 39 ~~~~llEAPTGTGKTLAyL~paL~ 62 (795)
..|+++-||||+|||.+|.+|.|-
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHh
Confidence 358999999999999999999543
No 333
>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=71.10 E-value=7.2 Score=42.55 Aligned_cols=33 Identities=21% Similarity=0.139 Sum_probs=21.0
Q ss_pred CHHHH-HHHHHHHHHHhcC--CcEEEECCCCCchHH
Q psy3462 22 YSSCK-ILHLQVIQGCNKA--KNCLLESPTGSGKTL 54 (795)
Q Consensus 22 ~~~Q~-~mm~~i~~al~~~--~~~llEAPTGTGKTL 54 (795)
|..|. ++...+..++.++ .+++|.||+|||||.
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~ 55 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTA 55 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHH
Confidence 34454 3334444444432 479999999999993
No 334
>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=71.08 E-value=2.8 Score=46.75 Aligned_cols=16 Identities=19% Similarity=0.503 Sum_probs=14.6
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+++++++||+|||||.
T Consensus 64 ~~~ilL~G~pGtGKTt 79 (327)
T TIGR01650 64 DRRVMVQGYHGTGKST 79 (327)
T ss_pred CCcEEEEeCCCChHHH
Confidence 5789999999999995
No 335
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=71.03 E-value=3.7 Score=46.32 Aligned_cols=26 Identities=31% Similarity=0.280 Sum_probs=20.9
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+.++.++....++|+-++||||||
T Consensus 162 ~a~~L~~av~~r~NILisGGTGSGKT 187 (355)
T COG4962 162 AAKFLRRAVGIRCNILISGGTGSGKT 187 (355)
T ss_pred HHHHHHHHHhhceeEEEeCCCCCCHH
Confidence 34555666666789999999999999
No 336
>PRK08939 primosomal protein DnaI; Reviewed
Probab=70.93 E-value=3.4 Score=45.38 Aligned_cols=22 Identities=32% Similarity=0.407 Sum_probs=17.1
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
++.++|-||+||||| ||+.+++
T Consensus 156 ~~gl~L~G~~G~GKT--hLa~Aia 177 (306)
T PRK08939 156 VKGLYLYGDFGVGKS--YLLAAIA 177 (306)
T ss_pred CCeEEEECCCCCCHH--HHHHHHH
Confidence 457899999999999 5555544
No 337
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.86 E-value=3.9 Score=45.67 Aligned_cols=29 Identities=34% Similarity=0.562 Sum_probs=23.0
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
.+.+|+-||||+|||-. |.+.+.|+..+.
T Consensus 125 ~GLILVTGpTGSGKSTT-lAamId~iN~~~ 153 (353)
T COG2805 125 RGLILVTGPTGSGKSTT-LAAMIDYINKHK 153 (353)
T ss_pred CceEEEeCCCCCcHHHH-HHHHHHHHhccC
Confidence 57899999999999975 456677876653
No 338
>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=70.66 E-value=4.3 Score=43.30 Aligned_cols=14 Identities=50% Similarity=0.724 Sum_probs=12.9
Q ss_pred CcEEEECCCCCchH
Q psy3462 40 KNCLLESPTGSGKT 53 (795)
Q Consensus 40 ~~~llEAPTGTGKT 53 (795)
.++++.+|.|||||
T Consensus 31 ~~~ll~Gp~G~GKT 44 (305)
T TIGR00635 31 DHLLLYGPPGLGKT 44 (305)
T ss_pred CeEEEECCCCCCHH
Confidence 46999999999999
No 339
>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=70.66 E-value=4.1 Score=44.45 Aligned_cols=24 Identities=33% Similarity=0.350 Sum_probs=20.1
Q ss_pred HHHHHHHhcCCcEEEECCCCCchH
Q psy3462 30 LQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 30 ~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+-+.-++..+.++++-+|||+|||
T Consensus 135 ~~l~~~v~~~~~ili~G~tGsGKT 158 (308)
T TIGR02788 135 EFLRLAIASRKNIIISGGTGSGKT 158 (308)
T ss_pred HHHHHHhhCCCEEEEECCCCCCHH
Confidence 344556778899999999999999
No 340
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.51 E-value=4.2 Score=47.79 Aligned_cols=37 Identities=30% Similarity=0.396 Sum_probs=23.6
Q ss_pred HHHHHhcC-CcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 32 VIQGCNKA-KNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 32 i~~al~~~-~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
+.+.+... .-+++-+|||+||| ..|..+|.++.....
T Consensus 250 ~~~~~~~p~GliLvTGPTGSGKT-TTLY~~L~~ln~~~~ 287 (500)
T COG2804 250 LLRLLNRPQGLILVTGPTGSGKT-TTLYAALSELNTPER 287 (500)
T ss_pred HHHHHhCCCeEEEEeCCCCCCHH-HHHHHHHHHhcCCCc
Confidence 33444432 45889999999999 345566666554443
No 341
>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=70.47 E-value=6.6 Score=42.12 Aligned_cols=24 Identities=38% Similarity=0.338 Sum_probs=17.5
Q ss_pred HHHHHHHhc-CCcEEEECCCCCchH
Q psy3462 30 LQVIQGCNK-AKNCLLESPTGSGKT 53 (795)
Q Consensus 30 ~~i~~al~~-~~~~llEAPTGTGKT 53 (795)
+.+.+.+.. +..++|-+|||+|||
T Consensus 70 ~~l~~~~~~~~GlilisG~tGSGKT 94 (264)
T cd01129 70 EIFRKLLEKPHGIILVTGPTGSGKT 94 (264)
T ss_pred HHHHHHHhcCCCEEEEECCCCCcHH
Confidence 334455544 456899999999999
No 342
>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=70.35 E-value=2.7 Score=38.09 Aligned_cols=12 Identities=58% Similarity=0.994 Sum_probs=11.3
Q ss_pred EEEECCCCCchH
Q psy3462 42 CLLESPTGSGKT 53 (795)
Q Consensus 42 ~llEAPTGTGKT 53 (795)
+++.||.|||||
T Consensus 1 ill~G~~G~GKT 12 (132)
T PF00004_consen 1 ILLHGPPGTGKT 12 (132)
T ss_dssp EEEESSTTSSHH
T ss_pred CEEECcCCCCee
Confidence 589999999999
No 343
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=70.19 E-value=3.8 Score=53.05 Aligned_cols=25 Identities=24% Similarity=0.320 Sum_probs=19.4
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
+.+++++++.|+||||||. .+|-+.
T Consensus 86 i~~~~VviI~GeTGSGKTT--qlPq~l 110 (1294)
T PRK11131 86 IRDHQVVIVAGETGSGKTT--QLPKIC 110 (1294)
T ss_pred HHhCCeEEEECCCCCCHHH--HHHHHH
Confidence 3456889999999999998 467443
No 344
>PRK10436 hypothetical protein; Provisional
Probab=69.82 E-value=5.7 Score=46.26 Aligned_cols=26 Identities=42% Similarity=0.502 Sum_probs=20.2
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
++.+++-||||+|||-.+ .++|.++.
T Consensus 218 ~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 218 QGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred CCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 578999999999999865 44566553
No 345
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=69.57 E-value=4.9 Score=48.20 Aligned_cols=31 Identities=19% Similarity=0.227 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
-+|.+.+..+..++..+.++++.+|+|||||
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT 51 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKS 51 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHH
Confidence 5788899999999999999999999999999
No 346
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=69.47 E-value=4.8 Score=49.33 Aligned_cols=44 Identities=20% Similarity=0.123 Sum_probs=32.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.-+..||+.|.-=|- +|..| -|.|..||.||||...+|+...+.
T Consensus 74 ~lg~r~ydvQlig~l----~Ll~G--~VaEM~TGEGKTLvA~l~a~l~AL 117 (764)
T PRK12326 74 TLGLRPFDVQLLGAL----RLLAG--DVIEMATGEGKTLAGAIAAAGYAL 117 (764)
T ss_pred HcCCCcchHHHHHHH----HHhCC--CcccccCCCCHHHHHHHHHHHHHH
Confidence 346689999942222 23344 578999999999999999887764
No 347
>KOG1803|consensus
Probab=69.31 E-value=5.7 Score=47.61 Aligned_cols=56 Identities=29% Similarity=0.361 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccccc
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFFLL 99 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~l~ 99 (795)
+.|. +++.-+++.....++.+|.|||||-....= +++ .+. .+.+|+-|+.||-.+.
T Consensus 188 ~SQk---~Av~~~~~~k~l~~I~GPPGTGKT~TlvEi-----------I~q-----lvk--~~k~VLVcaPSn~AVd 243 (649)
T KOG1803|consen 188 SSQK---AAVSFAINNKDLLIIHGPPGTGKTRTLVEI-----------ISQ-----LVK--QKKRVLVCAPSNVAVD 243 (649)
T ss_pred HHHH---HHHHHHhccCCceEeeCCCCCCceeeHHHH-----------HHH-----HHH--cCCeEEEEcCchHHHH
Confidence 6673 233334445577999999999999332111 111 122 2478999999998775
No 348
>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=69.15 E-value=7.3 Score=42.32 Aligned_cols=44 Identities=23% Similarity=0.074 Sum_probs=28.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.-++.||+.|. |..+ +|..| -|+|..||=||||...+|+...+.
T Consensus 73 ~~g~~p~~vQl--l~~l--~L~~G--~laEm~TGEGKTli~~l~a~~~AL 116 (266)
T PF07517_consen 73 TLGLRPYDVQL--LGAL--ALHKG--RLAEMKTGEGKTLIAALPAALNAL 116 (266)
T ss_dssp HTS----HHHH--HHHH--HHHTT--SEEEESTTSHHHHHHHHHHHHHHT
T ss_pred HcCCcccHHHH--hhhh--hcccc--eeEEecCCCCcHHHHHHHHHHHHH
Confidence 34778999993 2222 33444 499999999999999998766654
No 349
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=69.14 E-value=1.7 Score=52.19 Aligned_cols=55 Identities=5% Similarity=-0.048 Sum_probs=33.5
Q ss_pred CCChhHHHHHhhhCCccccchhhhhhHHHHHhhhHHHHHhccccchHHhhccCcEEEcCCCc
Q psy3462 504 TPCIEDLEQFSTRALVSPCFQLIQLDLMLDEHLNPYVLKVKDTPCIEDLVLKRNIFYDTLML 565 (795)
Q Consensus 504 ~~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~ 565 (795)
+++|++...+++..++|.+...-.+ -||++-|..= .| ..|++... -.+|+-++|.
T Consensus 421 ip~l~~~ls~~RgyGi~~~~I~Qsi-sQL~~~YG~~--~a--~tIl~Nc~--~~i~~~~~d~ 475 (606)
T PRK13897 421 MEQFKTGIAYFRGYRVRLFLIIQDT-EQLKGIYEEA--GM--NSFLSNST--YRITFAANNI 475 (606)
T ss_pred hHHHHHHHHHhCcCCCEEEEEEEcH-HHHHHHhCHh--HH--HHHHhcCc--eEEEEecCCH
Confidence 4789999999999999988776333 3444433321 13 22333332 4577766654
No 350
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=68.97 E-value=6.7 Score=46.17 Aligned_cols=60 Identities=23% Similarity=0.173 Sum_probs=39.7
Q ss_pred CcEEEeCCCCCChhHHHHHHHHHHHHHhhH-----HHHHHHHhhhhhhhhhcCCCC-ceEEEeccc
Q psy3462 292 KNCLLESPTGSGKTLALLCSVLAWQRKEKE-----LVQQKMFEQRTQDLQKIPFRK-LKISRLKAK 351 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlayL~~~l~~~~~~~k-----~LQ~Ql~~kdip~l~~i~~~~-l~~~~~KGr 351 (795)
+|.|+-.|||-|||+-.++-+..+++..+. +--.=|+.++.-.+.++++.+ -+++.+-|.
T Consensus 30 ~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGe 95 (542)
T COG1111 30 KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGE 95 (542)
T ss_pred cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCC
Confidence 588999999999998777766777776654 111123333445677777765 456666666
No 351
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=68.90 E-value=5.1 Score=42.49 Aligned_cols=35 Identities=23% Similarity=0.438 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHH
Q psy3462 253 SQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 253 ~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlay 308 (795)
+|.+.+..+.+.+..+ ...++++.||+|||||...
T Consensus 21 g~~~~~~~l~~~i~~~---------------------~~~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 21 GQEEIVERLKSYVKEK---------------------NMPHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CcHHHHHHHHHHHhCC---------------------CCCeEEEECCCCCCHHHHH
Confidence 4566667776666542 1246899999999999654
No 352
>KOG0735|consensus
Probab=68.72 E-value=12 Score=46.01 Aligned_cols=67 Identities=27% Similarity=0.369 Sum_probs=45.7
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhHHHHHHHHhhhhhhhhhcCCCCceEEEecccccccccchhhHHHHHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKIPFRKLKISRLKAKDFSTNNGMEQQLLTCI 367 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k~LQ~Ql~~kdip~l~~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~ 367 (795)
+.....+++-||.|+||| ||.++++- ...+++..+||.. ...+
T Consensus 698 lr~~~giLLyGppGcGKT--~la~a~a~------------------------~~~~~fisvKGPE------lL~K----- 740 (952)
T KOG0735|consen 698 LRLRTGILLYGPPGCGKT--LLASAIAS------------------------NSNLRFISVKGPE------LLSK----- 740 (952)
T ss_pred cccccceEEECCCCCcHH--HHHHHHHh------------------------hCCeeEEEecCHH------HHHH-----
Confidence 344556899999999999 56665432 2457888899984 2222
Q ss_pred hHHHHHHHHHHHHhhcccccceeee
Q psy3462 368 TTINQQEDELRQSTKKTRVDKLKVL 392 (795)
Q Consensus 368 rt~~q~e~el~~~~~~~~~~~~~~l 392 (795)
=|-+-||..|.+..+.+-.+-|+|
T Consensus 741 -yIGaSEq~vR~lF~rA~~a~PCiL 764 (952)
T KOG0735|consen 741 -YIGASEQNVRDLFERAQSAKPCIL 764 (952)
T ss_pred -HhcccHHHHHHHHHHhhccCCeEE
Confidence 245567888999888776555544
No 353
>PF12846 AAA_10: AAA-like domain
Probab=68.67 E-value=5.2 Score=41.40 Aligned_cols=18 Identities=44% Similarity=0.499 Sum_probs=15.4
Q ss_pred CcEEEECCCCCchHHHHH
Q psy3462 40 KNCLLESPTGSGKTLALL 57 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL 57 (795)
.|+++-|+||+|||....
T Consensus 2 ~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CeEEEECCCCCcHHHHHH
Confidence 589999999999995555
No 354
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.22 E-value=6.5 Score=43.84 Aligned_cols=31 Identities=26% Similarity=0.348 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAK--N-CLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~--~-~llEAPTGTGKT 53 (795)
=+|...++.+..++..++ | +++.||.|||||
T Consensus 19 iGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKT 52 (363)
T PRK14961 19 IGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKT 52 (363)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHH
Confidence 488888888888888764 4 489999999999
No 355
>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=68.22 E-value=1.4 Score=49.11 Aligned_cols=21 Identities=33% Similarity=0.499 Sum_probs=18.3
Q ss_pred cEEEeCCCCCChhHHHHHHHH
Q psy3462 293 NCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 293 ~~l~EaPTGTGKTlayL~~~l 313 (795)
|+++-||||+|||.++++|.+
T Consensus 1 H~lv~g~tGsGKt~~~viP~l 21 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNL 21 (384)
T ss_pred CeeEecCCCCCCccEEEccch
Confidence 578999999999999988854
No 356
>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=68.13 E-value=4.2 Score=52.65 Aligned_cols=24 Identities=25% Similarity=0.365 Sum_probs=18.8
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
+++++++.||||+|||- .+|.+.+
T Consensus 81 ~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 81 ENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred hCceEEEeCCCCCCcHH--HHHHHHH
Confidence 46799999999999998 4565443
No 357
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=68.09 E-value=9.7 Score=48.20 Aligned_cols=57 Identities=23% Similarity=0.325 Sum_probs=40.7
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH-----
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE----- 321 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k----- 321 (795)
.|+|+..|..-..++.+ ++--.+-||||+|||---++-++-++...++
T Consensus 80 G~~~ws~QR~WakR~~r---------------------------g~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~ 132 (1187)
T COG1110 80 GFRPWSAQRVWAKRLVR---------------------------GKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIV 132 (1187)
T ss_pred CCCchHHHHHHHHHHHc---------------------------CCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEe
Confidence 56788888887777642 4455678999999998777766666665544
Q ss_pred ---HHHHHHHhh
Q psy3462 322 ---LVQQKMFEQ 330 (795)
Q Consensus 322 ---~LQ~Ql~~k 330 (795)
.|-.|..++
T Consensus 133 PT~~Lv~Q~~~k 144 (1187)
T COG1110 133 PTTTLVRQVYER 144 (1187)
T ss_pred cCHHHHHHHHHH
Confidence 577777665
No 358
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=67.95 E-value=3 Score=51.77 Aligned_cols=22 Identities=32% Similarity=0.463 Sum_probs=17.7
Q ss_pred hccccCcEEEeCCCCCChhHHH
Q psy3462 287 GCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 287 al~~~~~~l~EaPTGTGKTlay 308 (795)
++.+.++++|.||||+|||-..
T Consensus 61 ai~~~~vvii~getGsGKTTql 82 (845)
T COG1643 61 AIEQNQVVIIVGETGSGKTTQL 82 (845)
T ss_pred HHHhCCEEEEeCCCCCChHHHH
Confidence 3445789999999999999653
No 359
>KOG0326|consensus
Probab=67.89 E-value=0.83 Score=50.96 Aligned_cols=32 Identities=28% Similarity=0.360 Sum_probs=27.0
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 321 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k 321 (795)
.++.+|.-|-.|||||-||++|+|.-+...+.
T Consensus 121 tGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~ 152 (459)
T KOG0326|consen 121 TGRDILARAKNGTGKTAAYCIPVLEKIDPKKN 152 (459)
T ss_pred cchhhhhhccCCCCCccceechhhhhcCcccc
Confidence 57889999999999999999999877655443
No 360
>PRK08116 hypothetical protein; Validated
Probab=67.89 E-value=10 Score=40.77 Aligned_cols=15 Identities=40% Similarity=0.492 Sum_probs=12.9
Q ss_pred CcEEEeCCCCCChhH
Q psy3462 292 KNCLLESPTGSGKTL 306 (795)
Q Consensus 292 ~~~l~EaPTGTGKTl 306 (795)
..++|-||+|||||.
T Consensus 115 ~gl~l~G~~GtGKTh 129 (268)
T PRK08116 115 VGLLLWGSVGTGKTY 129 (268)
T ss_pred ceEEEECCCCCCHHH
Confidence 348999999999995
No 361
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=67.84 E-value=2 Score=51.97 Aligned_cols=64 Identities=14% Similarity=0.032 Sum_probs=40.9
Q ss_pred hhcccccCccccccCCCCChhHHHHHhhhCCccccchhhhhhHHHHHhhhHHHHHhccccchHHhhccCcEEEcCCCc
Q psy3462 488 LMLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQLDLMLDEHLNPYVLKVKDTPCIEDLVLKRNIFYDTLML 565 (795)
Q Consensus 488 ~~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~ 565 (795)
+++||.-+-|. +..|++...+++..++|.++.. |=--||++-|.. . ..|++... -.||+-+.|.
T Consensus 404 ~lLDEF~~LG~-----l~~l~~ala~~rgyGi~~~lI~-Qsl~QL~~~YG~----~--~tIl~Nc~--~~v~f~~nD~ 467 (663)
T PRK13876 404 LMLDEFPALGR-----LDFFESALAFMAGYGIKSFLIA-QSLNQIEKAYGQ----N--NSILDNCH--VRVSFATNDE 467 (663)
T ss_pred EEEEcccccCC-----chHHHHHHHHHHhcCCEEEEEE-EcHHHHHHHhCC----c--cHHHhcCc--cEEEEecCCH
Confidence 35566655554 5789999999999999988776 544455554432 1 23555543 4567767664
No 362
>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=67.81 E-value=4.4 Score=40.74 Aligned_cols=15 Identities=53% Similarity=0.793 Sum_probs=13.3
Q ss_pred CcEEEeCCCCCChhH
Q psy3462 292 KNCLLESPTGSGKTL 306 (795)
Q Consensus 292 ~~~l~EaPTGTGKTl 306 (795)
.+.++-||||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 578999999999993
No 363
>KOG0338|consensus
Probab=67.47 E-value=2.7 Score=49.51 Aligned_cols=30 Identities=30% Similarity=0.219 Sum_probs=24.2
Q ss_pred cccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 289 NKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.-++.+...|-||||||-||.+|+|.-+.-
T Consensus 216 llgkDIca~A~TGsGKTAAF~lPiLERLlY 245 (691)
T KOG0338|consen 216 LLGKDICACAATGSGKTAAFALPILERLLY 245 (691)
T ss_pred hhcchhhheecccCCchhhhHHHHHHHHhc
Confidence 346777889999999999999998765543
No 364
>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=67.36 E-value=4 Score=43.58 Aligned_cols=115 Identities=17% Similarity=0.301 Sum_probs=74.2
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHH-----HHHHHhhhccCCceeEEec
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQ-----KMFEQRTQDLQKTSFVFCG 92 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~-----~~~~~~~~~~~~~~~~yc~ 92 (795)
...-|+.|.+++.++.+. .++.+.+.+.-.|-||| +-++|.+.++.+++..+-. ..+++..+
T Consensus 21 ~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKT-sVI~Pmla~~LAdg~~LvrviVpk~Ll~q~~~----------- 87 (229)
T PF12340_consen 21 NILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKT-SVIVPMLALALADGSRLVRVIVPKALLEQMRQ----------- 87 (229)
T ss_pred CceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCcc-chHHHHHHHHHcCCCcEEEEEcCHHHHHHHHH-----------
Confidence 456789999888888764 56789999999999999 7789999998888765222 11111111
Q ss_pred cccccccccccccccccccCCCCCCCCCcccceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEe-Cccc
Q psy3462 93 RSDFFLLFRERRISDTMVKKPATKKKPLNEVVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRI-DTRL 171 (795)
Q Consensus 93 rth~~l~~rerr~SDt~~~~~k~~~s~~~e~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrI-D~~L 171 (795)
..++ +++.... -++|++|.++.+ +-.+..++.|++-....|.+..|-+ .|+-
T Consensus 88 ------~L~~-~lg~l~~--------------r~i~~lpFsR~~------~~~~~~~~~~~~l~~~~~~~~gill~~PEh 140 (229)
T PF12340_consen 88 ------MLRS-RLGGLLN--------------RRIYHLPFSRST------PLTPETLEKIRQLLEECMRSGGILLATPEH 140 (229)
T ss_pred ------HHHH-HHHHHhC--------------CeeEEecccCCC------CCCHHHHHHHHHHHHHHHHcCCEEEeChHH
Confidence 1121 2233322 378999888743 2334556777777766666665543 5543
Q ss_pred h
Q psy3462 172 N 172 (795)
Q Consensus 172 N 172 (795)
=
T Consensus 141 i 141 (229)
T PF12340_consen 141 I 141 (229)
T ss_pred H
Confidence 3
No 365
>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=67.26 E-value=8.3 Score=40.02 Aligned_cols=18 Identities=28% Similarity=0.401 Sum_probs=14.8
Q ss_pred cCcEEEeCCCCCChhHHH
Q psy3462 291 AKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlay 308 (795)
.+.+++-||+|+|||...
T Consensus 43 ~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLI 60 (269)
T ss_pred CCEEEEEcCCCCCHHHHH
Confidence 357899999999999643
No 366
>PRK08727 hypothetical protein; Validated
Probab=67.20 E-value=7.6 Score=40.57 Aligned_cols=15 Identities=40% Similarity=0.594 Sum_probs=13.2
Q ss_pred CcEEEeCCCCCChhH
Q psy3462 292 KNCLLESPTGSGKTL 306 (795)
Q Consensus 292 ~~~l~EaPTGTGKTl 306 (795)
..+++-||+|||||.
T Consensus 42 ~~l~l~G~~G~GKTh 56 (233)
T PRK08727 42 DWLYLSGPAGTGKTH 56 (233)
T ss_pred CeEEEECCCCCCHHH
Confidence 458999999999995
No 367
>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=67.19 E-value=7.9 Score=37.95 Aligned_cols=14 Identities=29% Similarity=0.356 Sum_probs=11.6
Q ss_pred cEEEeCCCCCChhH
Q psy3462 293 NCLLESPTGSGKTL 306 (795)
Q Consensus 293 ~~l~EaPTGTGKTl 306 (795)
++.+-||||||||.
T Consensus 55 VlSfHG~tGtGKn~ 68 (127)
T PF06309_consen 55 VLSFHGWTGTGKNF 68 (127)
T ss_pred EEEeecCCCCcHHH
Confidence 34589999999995
No 368
>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=67.15 E-value=6.6 Score=46.61 Aligned_cols=25 Identities=40% Similarity=0.562 Sum_probs=19.8
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
.+++++-||||+|||-.+ .++|.++
T Consensus 316 ~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 316 QGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 578999999999999764 5556655
No 369
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=67.09 E-value=7.1 Score=41.40 Aligned_cols=31 Identities=19% Similarity=0.294 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHhcCC--cEEEECCCCCchHH
Q psy3462 24 SCKILHLQVIQGCNKAK--NCLLESPTGSGKTL 54 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~~~--~~llEAPTGTGKTL 54 (795)
+|.+.++.+...+.++. +++|.||.|||||.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~ 53 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTT 53 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 56677777888777653 59999999999993
No 370
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=66.88 E-value=5.1 Score=46.85 Aligned_cols=45 Identities=22% Similarity=0.219 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchHH-----HHHHHHHHHHHHh
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKTL-----ALLCSVLAWQRKE 67 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTL-----AyL~paL~~~~~~ 67 (795)
.+|.+-=.++.-+...+.|+++.+|.|||||+ ..|+|-|......
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~l 231 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLPGLLPPLSIPEAL 231 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhcccCCCCChHHHH
Confidence 45654445556666778899999999999995 3566655544433
No 371
>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=66.78 E-value=5.4 Score=47.01 Aligned_cols=32 Identities=16% Similarity=0.128 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHhc--CCcEEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNK--AKNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKTL 54 (795)
-+|...|+.+..++.. ..+++|.+|+|||||.
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~ 101 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTA 101 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHH
Confidence 5677788888777654 3679999999999993
No 372
>KOG4284|consensus
Probab=66.78 E-value=2.6 Score=50.83 Aligned_cols=67 Identities=15% Similarity=0.173 Sum_probs=51.5
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 247 PVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 247 py~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
.-.|-+.|..+-..|...|.+ +.|..-++ ..+.+||++..+-.+++.|-+|||||+.|-+.++.-+.
T Consensus 22 ~~~~~fe~l~l~r~vl~glrr-n~f~~ptk---iQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~ 88 (980)
T KOG4284|consen 22 NCTPGFEQLALWREVLLGLRR-NAFALPTK---IQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLD 88 (980)
T ss_pred CCCCCHHHHHHHHHHHHHHHh-hcccCCCc---hhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcC
Confidence 346789999999999888864 24544443 23567888888888999999999999999887776554
No 373
>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=66.77 E-value=6.3 Score=45.31 Aligned_cols=16 Identities=69% Similarity=0.902 Sum_probs=14.2
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+.++++.||||||||.
T Consensus 116 ~~~iLL~GP~GsGKT~ 131 (413)
T TIGR00382 116 KSNILLIGPTGSGKTL 131 (413)
T ss_pred CceEEEECCCCcCHHH
Confidence 4689999999999995
No 374
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.77 E-value=7 Score=44.17 Aligned_cols=32 Identities=13% Similarity=0.237 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNKAK--N-CLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~--~-~llEAPTGTGKTL 54 (795)
-+|....+.+..++.+++ | .||.||.|+|||.
T Consensus 19 iGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt 53 (397)
T PRK14955 19 TAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTT 53 (397)
T ss_pred cChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHH
Confidence 578888888888888764 4 7899999999993
No 375
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=66.68 E-value=4.1 Score=47.41 Aligned_cols=19 Identities=42% Similarity=0.683 Sum_probs=16.0
Q ss_pred ccccCcEEEeCCCCCChhH
Q psy3462 288 CNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTl 306 (795)
+..++++++.||+|||||.
T Consensus 191 L~~~~~iil~GppGtGKT~ 209 (459)
T PRK11331 191 LTIKKNIILQGPPGVGKTF 209 (459)
T ss_pred HhcCCCEEEECCCCCCHHH
Confidence 3346899999999999994
No 376
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=66.63 E-value=2.5 Score=51.22 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=20.8
Q ss_pred cCcEEEeCCCCCChhHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l 313 (795)
.+|+++-||||+|||.++.+|.|
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnL 161 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTL 161 (670)
T ss_pred CceEEEEecCCCCceeeehHhHH
Confidence 46899999999999999999974
No 377
>KOG0328|consensus
Probab=66.00 E-value=0.66 Score=51.00 Aligned_cols=32 Identities=25% Similarity=0.325 Sum_probs=26.4
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
+..+++++..|.+|||||.+|-|++|.-+.-.
T Consensus 61 IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~ 92 (400)
T KOG0328|consen 61 ILKGRDVIAQAQSGTGKTATFSISVLQSLDIS 92 (400)
T ss_pred hhcccceEEEecCCCCceEEEEeeeeeecccc
Confidence 34578999999999999999999987665443
No 378
>KOG0922|consensus
Probab=65.93 E-value=5.2 Score=48.29 Aligned_cols=27 Identities=22% Similarity=0.313 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.++|..++++.+.+|+.+.||+|||
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKS 80 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKS 80 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCcc
Confidence 677899999999999999999999999
No 379
>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=65.88 E-value=5.4 Score=46.98 Aligned_cols=34 Identities=21% Similarity=0.346 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhH
Q psy3462 252 PSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 252 p~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTl 306 (795)
-+|-..|+.+..++..+ ...+++|.||+|||||.
T Consensus 68 iGqs~~i~~l~~al~~~---------------------~~~~vLi~Ge~GtGKt~ 101 (531)
T TIGR02902 68 IGQEEGIKALKAALCGP---------------------NPQHVIIYGPPGVGKTA 101 (531)
T ss_pred eCcHHHHHHHHHHHhCC---------------------CCceEEEECCCCCCHHH
Confidence 35667777777665432 34789999999999985
No 380
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=65.85 E-value=5.2 Score=38.87 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=19.7
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.++.+|-||+|||||- ++-+|.|+-.
T Consensus 19 ~g~~vi~G~Ng~GKSt--il~ai~~~L~ 44 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKST--ILEAIRYALG 44 (202)
T ss_dssp SEEEEEEESTTSSHHH--HHHHHHHHHH
T ss_pred CCcEEEECCCCCCHHH--HHHHHHHHHc
Confidence 4688999999999995 3455677654
No 381
>KOG0745|consensus
Probab=65.80 E-value=3.6 Score=47.85 Aligned_cols=15 Identities=73% Similarity=0.993 Sum_probs=13.5
Q ss_pred CcEEEECCCCCchHH
Q psy3462 40 KNCLLESPTGSGKTL 54 (795)
Q Consensus 40 ~~~llEAPTGTGKTL 54 (795)
.|+|+.+|||+||||
T Consensus 227 SNvLllGPtGsGKTl 241 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTL 241 (564)
T ss_pred ccEEEECCCCCchhH
Confidence 479999999999993
No 382
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=65.79 E-value=9.5 Score=48.13 Aligned_cols=35 Identities=17% Similarity=0.236 Sum_probs=23.4
Q ss_pred HHHH-HHHHHHHHHHhcC--CcE-EEECCCCCchHHHHH
Q psy3462 23 SSCK-ILHLQVIQGCNKA--KNC-LLESPTGSGKTLALL 57 (795)
Q Consensus 23 ~~Q~-~mm~~i~~al~~~--~~~-llEAPTGTGKTLAyL 57 (795)
..|. ++...+..++.+. .++ .|.||||||||+...
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK 799 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVY 799 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHH
Confidence 4444 5666666777643 234 599999999995543
No 383
>KOG0337|consensus
Probab=65.76 E-value=3.9 Score=47.25 Aligned_cols=33 Identities=24% Similarity=0.313 Sum_probs=28.6
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHHHHHHhh
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLAWQRKEK 320 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~ 320 (795)
+.+++.++--|-||+|||.||++|++.-++.+.
T Consensus 55 iLe~~dvv~martgsgktaaf~ipm~e~Lk~~s 87 (529)
T KOG0337|consen 55 ILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS 87 (529)
T ss_pred eeeccccceeeecCCcchhhHHHHHHHHHhhcc
Confidence 455677888999999999999999999888765
No 384
>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=65.64 E-value=5.4 Score=38.92 Aligned_cols=15 Identities=40% Similarity=0.494 Sum_probs=12.7
Q ss_pred EEEeCCCCCChhHHH
Q psy3462 294 CLLESPTGSGKTLAL 308 (795)
Q Consensus 294 ~l~EaPTGTGKTlay 308 (795)
.++.||+|||||.--
T Consensus 2 ~li~G~~G~GKT~l~ 16 (187)
T cd01124 2 TLLSGGPGTGKTTFA 16 (187)
T ss_pred EEEEcCCCCCHHHHH
Confidence 689999999999733
No 385
>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=65.50 E-value=6.9 Score=43.28 Aligned_cols=27 Identities=22% Similarity=0.204 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+.+.++...+..++|.++|||||+
T Consensus 10 ~~~~~~~~~a~~~~pVLI~GE~GtGK~ 36 (329)
T TIGR02974 10 EVLEQVSRLAPLDRPVLIIGERGTGKE 36 (329)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCChHH
Confidence 455666666677889999999999999
No 386
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=65.46 E-value=6.1 Score=49.42 Aligned_cols=58 Identities=19% Similarity=0.104 Sum_probs=38.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHHhhH----HHHHHHHhhhhhhhhhcCC-CCceEEEeccc
Q psy3462 294 CLLESPTGSGKTLALLCSVLAWQRKEKE----LVQQKMFEQRTQDLQKIPF-RKLKISRLKAK 351 (795)
Q Consensus 294 ~l~EaPTGTGKTlayL~~~l~~~~~~~k----~LQ~Ql~~kdip~l~~i~~-~~l~~~~~KGr 351 (795)
-+.|+.||.||||...+|++..+...+. ..-+-|..+|...+..+.. ..+++.++.|.
T Consensus 98 ~iaEM~TGEGKTLvA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i~~~ 160 (913)
T PRK13103 98 KIAEMRTGEGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPF 160 (913)
T ss_pred ccccccCCCCChHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEECCC
Confidence 4779999999999999988665554433 3445566666666665432 34566555543
No 387
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=65.33 E-value=1.7 Score=52.38 Aligned_cols=66 Identities=14% Similarity=-0.036 Sum_probs=40.0
Q ss_pred hcccccCccccccCCCCChhHHHHHhhhCCccccchhhhhhHHHHHhhhHHHHHhccccchHHhhccCcEEEcCCCc
Q psy3462 489 MLDEHLNPYVLKVKDTPCIEDLEQFSTRALVSPCFQLIQLDLMLDEHLNPYVLKVKDTPCIEDLVLKRNIFYDTLML 565 (795)
Q Consensus 489 ~~~~~~~~~~~~~~~~~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~~me~iv~~W~~tgil~~I~~~K~IFiE~kd~ 565 (795)
++||.-.-|- +..|++...+++..++|.+... |==-||++.+..+ ..| ..|++.+. -.+|+-+.|.
T Consensus 448 lLDEF~~LGr-----l~~l~~~la~~rgyGI~~~lI~-Qsl~QL~~~y~~Y-G~~--~tIl~Nc~--~~i~~~~nd~ 513 (636)
T PRK13880 448 MLDEFPSLGK-----LEILQESLAFVAGYGIKCYLIC-QDINQLKSRETGY-GHD--ESITSNCH--VQNAYPPNRV 513 (636)
T ss_pred EeechhccCC-----hHHHHHHHHHHhhcCcEEEEEE-ecHHHHHHHhccc-chh--hHHHhcCc--eeEeecCCCH
Confidence 4555555443 4789999999999999998875 4334454432211 122 23554443 3577777763
No 388
>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=65.27 E-value=3.5 Score=43.56 Aligned_cols=14 Identities=29% Similarity=0.577 Sum_probs=12.9
Q ss_pred CcEEEECCCCCchH
Q psy3462 40 KNCLLESPTGSGKT 53 (795)
Q Consensus 40 ~~~llEAPTGTGKT 53 (795)
.+++|.+|+|||||
T Consensus 43 ~~vll~GppGtGKT 56 (261)
T TIGR02881 43 LHMIFKGNPGTGKT 56 (261)
T ss_pred ceEEEEcCCCCCHH
Confidence 46899999999999
No 389
>PRK12377 putative replication protein; Provisional
Probab=65.22 E-value=8.7 Score=41.15 Aligned_cols=16 Identities=25% Similarity=0.501 Sum_probs=13.8
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
...++|-||+|||||.
T Consensus 101 ~~~l~l~G~~GtGKTh 116 (248)
T PRK12377 101 CTNFVFSGKPGTGKNH 116 (248)
T ss_pred CCeEEEECCCCCCHHH
Confidence 3578999999999994
No 390
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=65.16 E-value=7 Score=46.06 Aligned_cols=49 Identities=24% Similarity=0.152 Sum_probs=33.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhH
Q psy3462 16 PNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE 69 (795)
Q Consensus 16 ~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~ 69 (795)
+....||..|..+.+.+. . +|.++-.|||-|||.-.++-+..++...+.
T Consensus 11 p~~ie~R~YQ~~i~a~al---~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~ 59 (542)
T COG1111 11 PNTIEPRLYQLNIAAKAL---F--KNTLVVLPTGLGKTFIAAMVIANRLRWFGG 59 (542)
T ss_pred cccccHHHHHHHHHHHHh---h--cCeEEEecCCccHHHHHHHHHHHHHHhcCC
Confidence 345678888865555443 3 389999999999997666655555554443
No 391
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=65.01 E-value=3.8 Score=45.10 Aligned_cols=15 Identities=53% Similarity=0.924 Sum_probs=13.7
Q ss_pred CcEEEECCCCCchHH
Q psy3462 40 KNCLLESPTGSGKTL 54 (795)
Q Consensus 40 ~~~llEAPTGTGKTL 54 (795)
+++++-+|+|||||+
T Consensus 152 knVLFyGppGTGKTm 166 (368)
T COG1223 152 KNVLFYGPPGTGKTM 166 (368)
T ss_pred ceeEEECCCCccHHH
Confidence 589999999999994
No 392
>KOG1802|consensus
Probab=64.97 E-value=13 Score=45.23 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=23.7
Q ss_pred cchhhhhHHH--HHhhccccCcEEEeCCCCCChhHHH
Q psy3462 274 YSSCKILHLQ--VIQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 274 ~~~~~~~~~~--~i~al~~~~~~l~EaPTGTGKTlay 308 (795)
...-+++|-+ +.+......+-||.||.|||||..-
T Consensus 406 ~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvts 442 (935)
T KOG1802|consen 406 PNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTS 442 (935)
T ss_pred CCchhhchHHHHHHHHHHcCCceeeecCCCCCceehh
Confidence 3333444433 3444566788999999999999764
No 393
>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=64.97 E-value=7.2 Score=39.89 Aligned_cols=20 Identities=40% Similarity=0.556 Sum_probs=16.9
Q ss_pred ccccCcEEEeCCCCCChhHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTla 307 (795)
+-.+...+++||+|||||+=
T Consensus 16 ip~gs~~li~G~~GsGKT~l 35 (226)
T PF06745_consen 16 IPKGSVVLISGPPGSGKTTL 35 (226)
T ss_dssp EETTSEEEEEESTTSSHHHH
T ss_pred CCCCcEEEEEeCCCCCcHHH
Confidence 44578899999999999963
No 394
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=64.46 E-value=12 Score=41.33 Aligned_cols=18 Identities=39% Similarity=0.661 Sum_probs=15.2
Q ss_pred cCcEEEeCCCCCChhHHH
Q psy3462 291 AKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlay 308 (795)
..++++-||+|||||...
T Consensus 55 ~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 467899999999999753
No 395
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=64.33 E-value=18 Score=46.43 Aligned_cols=122 Identities=23% Similarity=0.373 Sum_probs=81.5
Q ss_pred eccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHHHhhH--
Q psy3462 244 VEFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKE-- 321 (795)
Q Consensus 244 ~~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~~k-- 321 (795)
-.|||+.-|-|...+++|.+-++.+ .--.-|+.|--|-|||=..+=++..-..++++
T Consensus 589 ~~FPyeET~DQl~AI~eVk~DM~~~---------------------kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVA 647 (1139)
T COG1197 589 ASFPYEETPDQLKAIEEVKRDMESG---------------------KPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVA 647 (1139)
T ss_pred hcCCCcCCHHHHHHHHHHHHHhccC---------------------CcchheeecCcCCcHHHHHHHHHHHHhcCCCeEE
Confidence 3699999999999999999999864 13458999999999999888887777777665
Q ss_pred ------HHHHHHHhhhhhhhh-hcCCCCceEEEecccccccccchhhHHHHHHhHHHHHHHHHHHHhhcccccceeeecc
Q psy3462 322 ------LVQQKMFEQRTQDLQ-KIPFRKLKISRLKAKDFSTNNGMEQQLLTCITTINQQEDELRQSTKKTRVDKLKVLNG 394 (795)
Q Consensus 322 ------~LQ~Ql~~kdip~l~-~i~~~~l~~~~~KGr~~~~~~~~~~~L~~~~rt~~q~e~el~~~~~~~~~~~~~~l~s 394 (795)
.|-+|=.+ .+. +..|.++++.++ .=-++-+++.+.|+.++.. ++-++=+
T Consensus 648 vLVPTTlLA~QHy~----tFkeRF~~fPV~I~~L----------------SRF~s~kE~~~il~~la~G----~vDIvIG 703 (1139)
T COG1197 648 VLVPTTLLAQQHYE----TFKERFAGFPVRIEVL----------------SRFRSAKEQKEILKGLAEG----KVDIVIG 703 (1139)
T ss_pred EEcccHHhHHHHHH----HHHHHhcCCCeeEEEe----------------cccCCHHHHHHHHHHHhcC----CccEEEe
Confidence 34444443 333 367888887554 1112445566666777653 3322222
Q ss_pred cccccccchhhh-hhcc
Q psy3462 395 RSKNLVSSIDFI-LGLL 410 (795)
Q Consensus 395 R~~~~~~~~~~~-~~~~ 410 (795)
=-+-|...+.|- |||+
T Consensus 704 THrLL~kdv~FkdLGLl 720 (1139)
T COG1197 704 THRLLSKDVKFKDLGLL 720 (1139)
T ss_pred chHhhCCCcEEecCCeE
Confidence 233455566666 7765
No 396
>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=64.33 E-value=8 Score=38.97 Aligned_cols=27 Identities=33% Similarity=0.443 Sum_probs=17.2
Q ss_pred hcCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 37 NKAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 37 ~~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
....|+++-++||+|||...-.-++..
T Consensus 36 ~~~~h~li~G~tgsGKS~~l~~ll~~l 62 (205)
T PF01580_consen 36 KKNPHLLIAGATGSGKSTLLRTLLLSL 62 (205)
T ss_dssp GGS-SEEEE--TTSSHHHHHHHHHHHH
T ss_pred CCCceEEEEcCCCCCccHHHHHHHHHH
Confidence 345589999999999996665544433
No 397
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=64.32 E-value=6.6 Score=40.19 Aligned_cols=16 Identities=25% Similarity=0.374 Sum_probs=14.0
Q ss_pred cCCcEEEECCCCCchH
Q psy3462 38 KAKNCLLESPTGSGKT 53 (795)
Q Consensus 38 ~~~~~llEAPTGTGKT 53 (795)
....++|.||+|||||
T Consensus 41 ~~~~~~l~G~~G~GKT 56 (227)
T PRK08903 41 ADRFFYLWGEAGSGRS 56 (227)
T ss_pred CCCeEEEECCCCCCHH
Confidence 3457999999999999
No 398
>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=64.29 E-value=6.7 Score=39.35 Aligned_cols=19 Identities=47% Similarity=0.574 Sum_probs=16.0
Q ss_pred cccCcEEEeCCCCCChhHH
Q psy3462 289 NKAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTla 307 (795)
..+.++++-||||+|||-.
T Consensus 23 ~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 23 EARKNILISGGTGSGKTTL 41 (186)
T ss_pred hCCCEEEEECCCCCCHHHH
Confidence 3468899999999999953
No 399
>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=64.28 E-value=8.3 Score=43.07 Aligned_cols=32 Identities=22% Similarity=0.396 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHHHHhc--CCcEEEECCCCCchH
Q psy3462 22 YSSCKILHLQVIQGCNK--AKNCLLESPTGSGKT 53 (795)
Q Consensus 22 ~~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKT 53 (795)
-+.|++.++.|.+++.. +.++.+.+|-|||||
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs 36 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKS 36 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChh
Confidence 36788888888888844 567999999999999
No 400
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=64.11 E-value=7.1 Score=45.63 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++++.+..+...+..++|.++||||||
T Consensus 207 ~~~~~~~~~a~~~~pvli~Ge~GtGK~ 233 (534)
T TIGR01817 207 QVVDQARVVARSNSTVLLRGESGTGKE 233 (534)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCccHH
Confidence 555566666667789999999999999
No 401
>PRK13342 recombination factor protein RarA; Reviewed
Probab=64.05 E-value=4.6 Score=45.73 Aligned_cols=31 Identities=23% Similarity=0.265 Sum_probs=23.7
Q ss_pred HHHHHHHHH---HHHHHhcCC--cEEEECCCCCchH
Q psy3462 23 SSCKILHLQ---VIQGCNKAK--NCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~---i~~al~~~~--~~llEAPTGTGKT 53 (795)
-+|...+.. +.+.+.++. +++|.||+|||||
T Consensus 15 vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKT 50 (413)
T PRK13342 15 VGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKT 50 (413)
T ss_pred cCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHH
Confidence 456666554 777776654 6999999999999
No 402
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=64.01 E-value=9 Score=42.21 Aligned_cols=31 Identities=26% Similarity=0.186 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.-+++.+.+.++...+.+++|.|++||||+
T Consensus 13 ~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~ 43 (326)
T PRK11608 13 NSFLEVLEQVSRLAPLDKPVLIIGERGTGKE 43 (326)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCCcHH
Confidence 4445677777788888899999999999999
No 403
>KOG0745|consensus
Probab=63.88 E-value=3.9 Score=47.57 Aligned_cols=18 Identities=61% Similarity=0.787 Sum_probs=15.7
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
.++.|+|+-+|||+||||
T Consensus 224 LeKSNvLllGPtGsGKTl 241 (564)
T KOG0745|consen 224 LEKSNVLLLGPTGSGKTL 241 (564)
T ss_pred eecccEEEECCCCCchhH
Confidence 356799999999999996
No 404
>PRK10436 hypothetical protein; Provisional
Probab=63.83 E-value=10 Score=44.25 Aligned_cols=32 Identities=41% Similarity=0.445 Sum_probs=20.2
Q ss_pred HHHHHHh-cCCcEEEECCCCCchHHHHHHHHHHH
Q psy3462 31 QVIQGCN-KAKNCLLESPTGSGKTLALLCSVLAW 63 (795)
Q Consensus 31 ~i~~al~-~~~~~llEAPTGTGKTLAyL~paL~~ 63 (795)
.+.+.+. ....+++-+|||+|||-.. ..+|.+
T Consensus 209 ~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~ 241 (462)
T PRK10436 209 QFRQALQQPQGLILVTGPTGSGKTVTL-YSALQT 241 (462)
T ss_pred HHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHh
Confidence 3334443 3457999999999999432 334444
No 405
>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=63.80 E-value=3.9 Score=43.21 Aligned_cols=16 Identities=25% Similarity=0.480 Sum_probs=14.0
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
..++++.||+|||||.
T Consensus 42 ~~~vll~GppGtGKTt 57 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTT 57 (261)
T ss_pred cceEEEEcCCCCCHHH
Confidence 4578999999999995
No 406
>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=63.64 E-value=8.1 Score=39.62 Aligned_cols=33 Identities=18% Similarity=0.153 Sum_probs=23.0
Q ss_pred hhccccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 286 QGCNKAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 286 ~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..+..+...++-||+|+|||.-.+--+..++..
T Consensus 8 ~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~ 40 (242)
T cd00984 8 GGLQPGDLIIIAARPSMGKTAFALNIAENIAKK 40 (242)
T ss_pred cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 356678899999999999996444333444443
No 407
>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=63.63 E-value=9.9 Score=45.17 Aligned_cols=25 Identities=36% Similarity=0.581 Sum_probs=17.7
Q ss_pred HHHHHHhc-CCcEEEECCCCCchHHH
Q psy3462 31 QVIQGCNK-AKNCLLESPTGSGKTLA 55 (795)
Q Consensus 31 ~i~~al~~-~~~~llEAPTGTGKTLA 55 (795)
.+.+.+.. ...+++-+|||+|||-.
T Consensus 307 ~l~~~~~~~~Glilv~G~tGSGKTTt 332 (564)
T TIGR02538 307 LFLEAIHKPQGMVLVTGPTGSGKTVS 332 (564)
T ss_pred HHHHHHHhcCCeEEEECCCCCCHHHH
Confidence 44444443 45688999999999943
No 408
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=63.46 E-value=4.4 Score=45.39 Aligned_cols=18 Identities=50% Similarity=0.536 Sum_probs=15.9
Q ss_pred cccCcEEEeCCCCCChhH
Q psy3462 289 NKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTl 306 (795)
..++++++-||||+|||-
T Consensus 160 ~~~~nilI~G~tGSGKTT 177 (344)
T PRK13851 160 VGRLTMLLCGPTGSGKTT 177 (344)
T ss_pred HcCCeEEEECCCCccHHH
Confidence 457899999999999995
No 409
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=63.45 E-value=5.8 Score=49.07 Aligned_cols=57 Identities=19% Similarity=0.161 Sum_probs=37.9
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHHhhH----HHHHHHHhhhhhhhhhcCC-CCceEEEeccc
Q psy3462 295 LLESPTGSGKTLALLCSVLAWQRKEKE----LVQQKMFEQRTQDLQKIPF-RKLKISRLKAK 351 (795)
Q Consensus 295 l~EaPTGTGKTlayL~~~l~~~~~~~k----~LQ~Ql~~kdip~l~~i~~-~~l~~~~~KGr 351 (795)
+.|+.||.||||...+|++..+..... ..-+-|..+|...+..+.. ..+++.++-|.
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl~vg~i~~~ 158 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATEMGELYRWLGLTVGLNLNS 158 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHHHHHHhcCCeEEEeCCC
Confidence 889999999999999888666655443 3445566666666655322 34555566553
No 410
>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=63.23 E-value=6.7 Score=41.80 Aligned_cols=15 Identities=47% Similarity=0.647 Sum_probs=13.5
Q ss_pred CcEEEeCCCCCChhH
Q psy3462 292 KNCLLESPTGSGKTL 306 (795)
Q Consensus 292 ~~~l~EaPTGTGKTl 306 (795)
.++++.||.|||||.
T Consensus 31 ~~~ll~Gp~G~GKT~ 45 (305)
T TIGR00635 31 DHLLLYGPPGLGKTT 45 (305)
T ss_pred CeEEEECCCCCCHHH
Confidence 569999999999995
No 411
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=63.18 E-value=9.6 Score=40.39 Aligned_cols=37 Identities=22% Similarity=0.228 Sum_probs=25.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 17 NYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 17 ~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+--.|-=......+..|++....+.+.+|+|||||
T Consensus 10 ~rlv~Tplt~r~~~~l~~al~~~~~~~~~GpagtGKt 46 (231)
T PF12774_consen 10 PRLVITPLTDRCFLTLTQALSLNLGGALSGPAGTGKT 46 (231)
T ss_dssp ------HHHHHHHHHHHHHHCTTTEEEEESSTTSSHH
T ss_pred CCceechHHHHHHHHHHHHhccCCCCCCcCCCCCCch
Confidence 3333345445566678888888888999999999999
No 412
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=63.00 E-value=2.8 Score=50.37 Aligned_cols=24 Identities=38% Similarity=0.552 Sum_probs=21.1
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.+|+++-||||+|||.++.+|.|.
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHH
Confidence 468999999999999999999643
No 413
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=62.91 E-value=5.7 Score=48.43 Aligned_cols=30 Identities=23% Similarity=0.334 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhc-----------CCcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNK-----------AKNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~-----------~~~~llEAPTGTGKT 53 (795)
+|.+.++.+.+++.. ...+++.+|||||||
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT 498 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKT 498 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHH
No 414
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=62.90 E-value=5.6 Score=49.09 Aligned_cols=31 Identities=29% Similarity=0.319 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHhcCC-----------cEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAK-----------NCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~-----------~~llEAPTGTGKT 53 (795)
=+|.+-+.+|.+++.... ..++.+|||+|||
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKT 535 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKT 535 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHH
Confidence 468888888888886622 3788999999999
No 415
>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=62.88 E-value=4.5 Score=43.70 Aligned_cols=17 Identities=24% Similarity=0.343 Sum_probs=14.3
Q ss_pred cCcEEEeCCCCCChhHH
Q psy3462 291 AKNCLLESPTGSGKTLA 307 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTla 307 (795)
+.++++.||+|||||..
T Consensus 58 ~~~vll~G~pGTGKT~l 74 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTV 74 (284)
T ss_pred CceEEEEcCCCCCHHHH
Confidence 34799999999999953
No 416
>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=62.84 E-value=3.1 Score=50.08 Aligned_cols=22 Identities=14% Similarity=0.224 Sum_probs=20.2
Q ss_pred CCcEEEECCCCCchHHHHHHHH
Q psy3462 39 AKNCLLESPTGSGKTLALLCSV 60 (795)
Q Consensus 39 ~~~~llEAPTGTGKTLAyL~pa 60 (795)
..|+++-||||+|||.++.+|.
T Consensus 211 ~~H~lv~ApTgsGKgvg~VIPn 232 (623)
T TIGR02767 211 STHMIFFAGSGGFKTTSVVVPT 232 (623)
T ss_pred CceEEEEeCCCCCccceeehhh
Confidence 3689999999999999999994
No 417
>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=62.79 E-value=7.4 Score=43.46 Aligned_cols=26 Identities=27% Similarity=0.217 Sum_probs=20.1
Q ss_pred HHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 28 LHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 28 mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
+.+-+..++..+.++++.+|||+|||
T Consensus 167 ~~~~L~~~v~~~~~ili~G~tGsGKT 192 (340)
T TIGR03819 167 VARLLRAIVAARLAFLISGGTGSGKT 192 (340)
T ss_pred HHHHHHHHHhCCCeEEEECCCCCCHH
Confidence 33444455667889999999999998
No 418
>KOG0744|consensus
Probab=62.69 E-value=5.5 Score=44.98 Aligned_cols=24 Identities=46% Similarity=0.725 Sum_probs=19.3
Q ss_pred cccCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 289 NKAKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
.-++.+++-||.||||| -||-+|+
T Consensus 175 t~NRliLlhGPPGTGKT--SLCKaLa 198 (423)
T KOG0744|consen 175 TWNRLILLHGPPGTGKT--SLCKALA 198 (423)
T ss_pred eeeeEEEEeCCCCCChh--HHHHHHH
Confidence 44688999999999999 4676654
No 419
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=62.62 E-value=7.4 Score=43.34 Aligned_cols=26 Identities=27% Similarity=0.295 Sum_probs=18.8
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
.++++++-||||+|||- +|-+++.++
T Consensus 159 ~~~nili~G~tgSGKTT-ll~aL~~~i 184 (332)
T PRK13900 159 SKKNIIISGGTSTGKTT-FTNAALREI 184 (332)
T ss_pred cCCcEEEECCCCCCHHH-HHHHHHhhC
Confidence 46899999999999995 333334443
No 420
>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=62.50 E-value=4 Score=42.97 Aligned_cols=25 Identities=44% Similarity=0.545 Sum_probs=18.7
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
.++++++-||||+|||-.+ ...+.+
T Consensus 126 ~~~~ili~G~tGSGKTT~l-~all~~ 150 (270)
T PF00437_consen 126 GRGNILISGPTGSGKTTLL-NALLEE 150 (270)
T ss_dssp TTEEEEEEESTTSSHHHHH-HHHHHH
T ss_pred cceEEEEECCCccccchHH-HHHhhh
Confidence 4689999999999999644 444443
No 421
>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=62.44 E-value=4.6 Score=39.51 Aligned_cols=16 Identities=25% Similarity=0.505 Sum_probs=13.8
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
++.+++.||+|+|||-
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 3578999999999995
No 422
>PRK07952 DNA replication protein DnaC; Validated
Probab=62.44 E-value=14 Score=39.64 Aligned_cols=31 Identities=13% Similarity=0.126 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHhc---C-CcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNK---A-KNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~---~-~~~llEAPTGTGKT 53 (795)
+.|...+..+.+...+ + ..+++.+|+|||||
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKT 113 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKN 113 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHH
Confidence 4565555544444332 2 46999999999999
No 423
>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=62.37 E-value=7.8 Score=45.34 Aligned_cols=18 Identities=50% Similarity=0.645 Sum_probs=15.5
Q ss_pred cCcEEEeCCCCCChhHHH
Q psy3462 291 AKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlay 308 (795)
.+.+++-||||+|||-.+
T Consensus 242 ~GlilitGptGSGKTTtL 259 (486)
T TIGR02533 242 HGIILVTGPTGSGKTTTL 259 (486)
T ss_pred CCEEEEEcCCCCCHHHHH
Confidence 468899999999999755
No 424
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=62.12 E-value=8.9 Score=45.20 Aligned_cols=31 Identities=23% Similarity=0.222 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAK---NCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~---~~llEAPTGTGKT 53 (795)
-+|..++..+..++.+++ ..|+.||.|||||
T Consensus 24 iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKT 57 (507)
T PRK06645 24 QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKT 57 (507)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence 689889988888888876 4899999999999
No 425
>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=62.08 E-value=5.9 Score=43.31 Aligned_cols=16 Identities=56% Similarity=0.632 Sum_probs=14.5
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
++++++-||||+|||-
T Consensus 132 ~~~ilI~G~tGSGKTT 147 (299)
T TIGR02782 132 RKNILVVGGTGSGKTT 147 (299)
T ss_pred CCeEEEECCCCCCHHH
Confidence 5789999999999995
No 426
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=61.90 E-value=6.2 Score=49.03 Aligned_cols=31 Identities=26% Similarity=0.273 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKA-----------KNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~-----------~~~llEAPTGTGKT 53 (795)
-+|.+.|+.+.+++... ..++|.||||||||
T Consensus 568 ~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt 609 (852)
T TIGR03346 568 VGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKT 609 (852)
T ss_pred CCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHH
Confidence 57888888888888652 24889999999999
No 427
>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=61.80 E-value=8.8 Score=41.18 Aligned_cols=25 Identities=44% Similarity=0.478 Sum_probs=18.3
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
++++++-||||+|||-.+ -.++.++
T Consensus 80 ~GlilisG~tGSGKTT~l-~all~~i 104 (264)
T cd01129 80 HGIILVTGPTGSGKTTTL-YSALSEL 104 (264)
T ss_pred CCEEEEECCCCCcHHHHH-HHHHhhh
Confidence 568999999999999644 3344443
No 428
>PRK11054 helD DNA helicase IV; Provisional
Probab=61.80 E-value=17 Score=44.45 Aligned_cols=53 Identities=19% Similarity=0.230 Sum_probs=34.0
Q ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 6 SDIFKTYLNEPNYFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 6 ~~~~~~~~~~~~~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
.+.|....+.++.+...+.|++.+. ....++++.|+.|||||-..+ .-+.|+.
T Consensus 182 l~~~~~~f~~~e~~~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~-~r~ayLl 234 (684)
T PRK11054 182 LEEYADFFSQVESSPLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLV-ARAGWLL 234 (684)
T ss_pred HHHHHHHHHhccCCCCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHH-HHHHHHH
Confidence 4455666666666667788843321 334678999999999995443 3344443
No 429
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=61.74 E-value=3 Score=50.35 Aligned_cols=23 Identities=17% Similarity=0.196 Sum_probs=20.8
Q ss_pred CCcEEEECCCCCchHHHHHHHHH
Q psy3462 39 AKNCLLESPTGSGKTLALLCSVL 61 (795)
Q Consensus 39 ~~~~llEAPTGTGKTLAyL~paL 61 (795)
..|+++-||||+|||.++.+|.|
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnL 246 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTA 246 (641)
T ss_pred CceEEEEeCCCCCccceEehhhh
Confidence 46899999999999999999954
No 430
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=61.59 E-value=7.5 Score=46.75 Aligned_cols=41 Identities=22% Similarity=0.283 Sum_probs=30.1
Q ss_pred cCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHH
Q psy3462 246 FPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 246 fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTla 307 (795)
|||..--+|..+...+.-++-++ ..+.+||+||.|||||..
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~---------------------~~g~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDP---------------------RIGGVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCC---------------------CCCeEEEEcCCCCcHHHH
Confidence 78877777888887775544432 125699999999999964
No 431
>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=61.54 E-value=7.1 Score=45.39 Aligned_cols=24 Identities=21% Similarity=0.311 Sum_probs=20.4
Q ss_pred HhhccccCcEEEeCCCCCChhHHH
Q psy3462 285 IQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 285 i~al~~~~~~l~EaPTGTGKTlay 308 (795)
++-+.++.|+++-||+|||||.-|
T Consensus 203 ~~fve~~~Nli~lGp~GTGKThla 226 (449)
T TIGR02688 203 LPLVEPNYNLIELGPKGTGKSYIY 226 (449)
T ss_pred HHHHhcCCcEEEECCCCCCHHHHH
Confidence 377788999999999999999544
No 432
>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=61.44 E-value=6.8 Score=44.44 Aligned_cols=28 Identities=29% Similarity=0.411 Sum_probs=20.3
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
..+|+++-|+||+|||.. +-.++.++..
T Consensus 41 ~~~h~~i~g~tGsGKt~~-i~~l~~~~~~ 68 (410)
T cd01127 41 EEAHTMIIGTTGTGKTTQ-IRELLASIRA 68 (410)
T ss_pred hhccEEEEcCCCCCHHHH-HHHHHHHHHh
Confidence 357999999999999975 4444555443
No 433
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=61.42 E-value=5.8 Score=43.30 Aligned_cols=32 Identities=22% Similarity=0.179 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHhc-------CCcEEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNK-------AKNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~-------~~~~llEAPTGTGKTL 54 (795)
-+|.+.++.+...+.. ..+++|.+|+|||||.
T Consensus 28 vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~ 66 (328)
T PRK00080 28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTT 66 (328)
T ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHH
Confidence 4555555544444432 2469999999999993
No 434
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.40 E-value=9.8 Score=42.44 Aligned_cols=35 Identities=26% Similarity=0.332 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCc-EEEeCCCCCChhHHH
Q psy3462 253 SQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKN-CLLESPTGSGKTLAL 308 (795)
Q Consensus 253 ~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~-~l~EaPTGTGKTlay 308 (795)
+|......+.+++..+ .-.| .++.||.|||||...
T Consensus 20 Gq~~~~~~l~~~~~~~---------------------~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 20 GQKHIVTAISNGLSLG---------------------RIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred ChHHHHHHHHHHHHcC---------------------CCCeEEEEecCCCCCHHHHH
Confidence 7888888888877642 1134 589999999999644
No 435
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=61.39 E-value=9.4 Score=46.11 Aligned_cols=28 Identities=29% Similarity=0.298 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
.+.+.+..+...+.+++|.|+||||||+
T Consensus 387 ~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 387 SVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 4555556666667899999999999994
No 436
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=61.36 E-value=8.5 Score=44.57 Aligned_cols=19 Identities=42% Similarity=0.693 Sum_probs=15.3
Q ss_pred cccCcEEEeCCCCCChhHH
Q psy3462 289 NKAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 289 ~~~~~~l~EaPTGTGKTla 307 (795)
.....++|.||+|||||+.
T Consensus 215 ~~p~gVLL~GPPGTGKT~L 233 (438)
T PTZ00361 215 KPPKGVILYGPPGTGKTLL 233 (438)
T ss_pred CCCcEEEEECCCCCCHHHH
Confidence 3456789999999999963
No 437
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=61.34 E-value=3.4 Score=50.15 Aligned_cols=24 Identities=33% Similarity=0.469 Sum_probs=21.5
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLA 314 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~ 314 (795)
..|+++-||||+|||.++.+|.|.
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHH
Confidence 478999999999999999999743
No 438
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=61.31 E-value=5.2 Score=45.98 Aligned_cols=15 Identities=47% Similarity=0.629 Sum_probs=14.0
Q ss_pred CCcEEEECCCCCchH
Q psy3462 39 AKNCLLESPTGSGKT 53 (795)
Q Consensus 39 ~~~~llEAPTGTGKT 53 (795)
++.++|-||||+|||
T Consensus 203 ~~vi~LVGPTGVGKT 217 (407)
T COG1419 203 KRVIALVGPTGVGKT 217 (407)
T ss_pred CcEEEEECCCCCcHH
Confidence 678999999999999
No 439
>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=61.13 E-value=5.7 Score=40.43 Aligned_cols=17 Identities=47% Similarity=0.696 Sum_probs=14.6
Q ss_pred CcEEEeCCCCCChhHHH
Q psy3462 292 KNCLLESPTGSGKTLAL 308 (795)
Q Consensus 292 ~~~l~EaPTGTGKTlay 308 (795)
+.+++-||||+|||-.+
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 57899999999999754
No 440
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=61.08 E-value=6.6 Score=48.41 Aligned_cols=31 Identities=23% Similarity=0.233 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhc--------C---CcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNK--------A---KNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~--------~---~~~llEAPTGTGKT 53 (795)
=+|.+.++.+.+++.. + ..++|.+|||||||
T Consensus 461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT 502 (758)
T PRK11034 461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKT 502 (758)
T ss_pred eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHH
Confidence 3677888888887763 1 24899999999999
No 441
>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=61.00 E-value=7 Score=43.98 Aligned_cols=21 Identities=29% Similarity=0.471 Sum_probs=16.6
Q ss_pred HHHHh-cCCcEEEECCCCCchH
Q psy3462 33 IQGCN-KAKNCLLESPTGSGKT 53 (795)
Q Consensus 33 ~~al~-~~~~~llEAPTGTGKT 53 (795)
.+.+. .+..+++.+|||+|||
T Consensus 127 ~~~~~~~~glilI~GpTGSGKT 148 (358)
T TIGR02524 127 IDAIAPQEGIVFITGATGSGKS 148 (358)
T ss_pred HHHHhccCCEEEEECCCCCCHH
Confidence 33443 5678999999999999
No 442
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=60.97 E-value=5.4 Score=44.41 Aligned_cols=16 Identities=44% Similarity=0.540 Sum_probs=14.4
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
++++++-||||+|||-
T Consensus 144 ~~nilI~G~tGSGKTT 159 (323)
T PRK13833 144 RLNIVISGGTGSGKTT 159 (323)
T ss_pred CCeEEEECCCCCCHHH
Confidence 5789999999999995
No 443
>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=60.92 E-value=8.1 Score=41.34 Aligned_cols=64 Identities=9% Similarity=-0.097 Sum_probs=30.0
Q ss_pred cceeEEEEecCccccccCCCCcchHHHHHHHHHHHhhhCCCCeEe---CccchHHHHhcCCCCCCCceEEE
Q psy3462 123 VVTRDYTIHMHKRLHKVGFKKRAPRAIKVVRAFVKKQMGTEDVRI---DTRLNKHIWSKGINNHTLGTAYF 190 (795)
Q Consensus 123 ~vtreyTInL~K~v~g~~fkkRAprAik~IrkFa~K~mkt~dVrI---D~~LNk~IWsrGirnpP~rirV~ 190 (795)
-+.|+|--+.+ ...|. --|..|...+..-+-++--...|-+ +-+|=+..|..-.-+-|++..|+
T Consensus 55 ~~~RiyL~~r~-l~~G~---i~a~ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~ 121 (233)
T PF01745_consen 55 GTRRIYLDDRP-LSDGI---INAEEAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIR 121 (233)
T ss_dssp T-EEEES-----GGG-S-----HHHHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEE
T ss_pred ccceeeecccc-ccCCC---cCHHHHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEE
Confidence 36787766533 23332 4566676666666666543224433 34455555555555566665555
No 444
>PRK06893 DNA replication initiation factor; Validated
Probab=60.83 E-value=11 Score=39.35 Aligned_cols=28 Identities=14% Similarity=0.036 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhcC--CcEEEECCCCCchH
Q psy3462 26 KILHLQVIQGCNKA--KNCLLESPTGSGKT 53 (795)
Q Consensus 26 ~~mm~~i~~al~~~--~~~llEAPTGTGKT 53 (795)
..++..+.+.+... ..+++.||+|||||
T Consensus 24 ~~~~~~~~~~~~~~~~~~l~l~G~~G~GKT 53 (229)
T PRK06893 24 LLLLDSLRKNFIDLQQPFFYIWGGKSSGKS 53 (229)
T ss_pred HHHHHHHHHHhhccCCCeEEEECCCCCCHH
Confidence 34555555555432 23799999999999
No 445
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.77 E-value=10 Score=44.27 Aligned_cols=31 Identities=23% Similarity=0.370 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHhcCCc---EEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKN---CLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~---~llEAPTGTGKT 53 (795)
-+|......+..++.++.. +|+.||.|||||
T Consensus 17 vGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKT 50 (472)
T PRK14962 17 VGQDHVKKLIINALKKNSISHAYIFAGPRGTGKT 50 (472)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHH
Confidence 4677777788888887643 699999999999
No 446
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=60.73 E-value=7.3 Score=37.82 Aligned_cols=24 Identities=21% Similarity=0.401 Sum_probs=17.6
Q ss_pred CcEEEECCCCCchHHHHHHHHHHHHH
Q psy3462 40 KNCLLESPTGSGKTLALLCSVLAWQR 65 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL~paL~~~~ 65 (795)
...+|.||+|+||| .++-++.|+.
T Consensus 20 g~~vi~G~Ng~GKS--til~ai~~~L 43 (202)
T PF13476_consen 20 GLNVIYGPNGSGKS--TILEAIRYAL 43 (202)
T ss_dssp EEEEEEESTTSSHH--HHHHHHHHHH
T ss_pred CcEEEECCCCCCHH--HHHHHHHHHH
Confidence 35789999999999 3445566654
No 447
>PF05729 NACHT: NACHT domain
Probab=60.67 E-value=9.2 Score=35.90 Aligned_cols=16 Identities=31% Similarity=0.422 Sum_probs=13.7
Q ss_pred cEEEeCCCCCChhHHH
Q psy3462 293 NCLLESPTGSGKTLAL 308 (795)
Q Consensus 293 ~~l~EaPTGTGKTlay 308 (795)
.++|.|+.|+|||...
T Consensus 2 ~l~I~G~~G~GKStll 17 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLL 17 (166)
T ss_pred EEEEECCCCCChHHHH
Confidence 5789999999999743
No 448
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=60.55 E-value=12 Score=45.27 Aligned_cols=31 Identities=10% Similarity=0.217 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
.+|.+.++.+..++..+.++++.+|+|||||
T Consensus 34 igq~~a~~~L~~~~~~~~~~l~~G~~G~GKt 64 (637)
T PRK13765 34 IGQEHAVEVIKKAAKQRRHVMMIGSPGTGKS 64 (637)
T ss_pred CChHHHHHHHHHHHHhCCeEEEECCCCCcHH
Confidence 6788899999999999999999999999999
No 449
>KOG0923|consensus
Probab=60.55 E-value=4.9 Score=48.69 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=21.1
Q ss_pred HHHhhccccCcEEEeCCCCCChhH
Q psy3462 283 QVIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 283 ~~i~al~~~~~~l~EaPTGTGKTl 306 (795)
+++.++.+.++++|+|.||+|||-
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCccc
Confidence 567777788999999999999996
No 450
>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=60.53 E-value=8.8 Score=39.93 Aligned_cols=38 Identities=26% Similarity=0.324 Sum_probs=0.0
Q ss_pred hHHHHHhhccccCcE-----EEeCCCCCChhHHHHHHHHHHHHH
Q psy3462 280 LHLQVIQGCNKAKNC-----LLESPTGSGKTLALLCSVLAWQRK 318 (795)
Q Consensus 280 ~~~~~i~al~~~~~~-----l~EaPTGTGKTlayL~~~l~~~~~ 318 (795)
.++.++.++.++... +|-||+|+|||- +|-++...+..
T Consensus 18 ~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH-LL~Ai~~~~~~ 60 (219)
T PF00308_consen 18 LAYAAAKAIAENPGERYNPLFLYGPSGLGKTH-LLQAIANEAQK 60 (219)
T ss_dssp HHHHHHHHHHHSTTTSSSEEEEEESTTSSHHH-HHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCCCceEEECCCCCCHHH-HHHHHHHHHHh
No 451
>PRK06921 hypothetical protein; Provisional
Probab=60.31 E-value=7.3 Score=41.90 Aligned_cols=16 Identities=38% Similarity=0.412 Sum_probs=14.2
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+..+++-||||||||.
T Consensus 117 ~~~l~l~G~~G~GKTh 132 (266)
T PRK06921 117 KNSIALLGQPGSGKTH 132 (266)
T ss_pred CCeEEEECCCCCcHHH
Confidence 5679999999999995
No 452
>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=59.92 E-value=8.2 Score=37.42 Aligned_cols=27 Identities=30% Similarity=0.278 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+.+.+.+..+..+++.++-|+|||
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaGKT 29 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAGKT 29 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSSHH
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCCHH
Confidence 466788888889999999999999999
No 453
>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=59.89 E-value=6.3 Score=41.44 Aligned_cols=18 Identities=39% Similarity=0.650 Sum_probs=13.0
Q ss_pred ccCcEEEeCCCCCChhHH
Q psy3462 290 KAKNCLLESPTGSGKTLA 307 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTla 307 (795)
.+.++++.||.|||||+.
T Consensus 21 G~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 21 GGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp CC--EEEES-CCCTHHHH
T ss_pred CCCCeEEECCCCCCHHHH
Confidence 467899999999999974
No 454
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=59.83 E-value=9.4 Score=43.42 Aligned_cols=23 Identities=30% Similarity=0.325 Sum_probs=18.4
Q ss_pred ccccCcEEEeCCCCCChhHHHHH
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLC 310 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~ 310 (795)
+..++++++-||||+|||....-
T Consensus 134 ~~~g~ii~lvGptGvGKTTtiak 156 (374)
T PRK14722 134 MERGGVFALMGPTGVGKTTTTAK 156 (374)
T ss_pred ccCCcEEEEECCCCCCHHHHHHH
Confidence 34578999999999999975543
No 455
>KOG0949|consensus
Probab=59.78 E-value=6.7 Score=49.38 Aligned_cols=93 Identities=13% Similarity=0.265 Sum_probs=57.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccc
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFF 97 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~ 97 (795)
.|-|-.-|. +..+.+..++.++|-|||-.|||. .++ |+ .|+-+.+...+-|+||..|..-
T Consensus 509 dF~Pd~WQ~----elLDsvDr~eSavIVAPTSaGKTf--isf---Y~-----------iEKVLResD~~VVIyvaPtKaL 568 (1330)
T KOG0949|consen 509 DFCPDEWQR----ELLDSVDRNESAVIVAPTSAGKTF--ISF---YA-----------IEKVLRESDSDVVIYVAPTKAL 568 (1330)
T ss_pred ccCCcHHHH----HHhhhhhcccceEEEeeccCCcee--ccH---HH-----------HHHHHhhcCCCEEEEecchHHH
Confidence 466778884 455677888899999999999993 332 22 2234566678899999888764
Q ss_pred cccccccccccc-ccCCCCCCCCCcccceeEEEEe
Q psy3462 98 LLFRERRISDTM-VKKPATKKKPLNEVVTRDYTIH 131 (795)
Q Consensus 98 l~~rerr~SDt~-~~~~k~~~s~~~e~vtreyTIn 131 (795)
..--+..+=--. .+....|.+... ..||||.||
T Consensus 569 VnQvsa~VyaRF~~~t~~rg~sl~g-~ltqEYsin 602 (1330)
T KOG0949|consen 569 VNQVSANVYARFDTKTFLRGVSLLG-DLTQEYSIN 602 (1330)
T ss_pred hhhhhHHHHHhhccCccccchhhHh-hhhHHhcCC
Confidence 432222111111 111233444443 369999999
No 456
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=59.78 E-value=11 Score=42.08 Aligned_cols=32 Identities=13% Similarity=0.229 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhc--CCcEEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNK--AKNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~--~~~~llEAPTGTGKTL 54 (795)
-+|.++..++.-++-+ ..+++|++|+|||||.
T Consensus 7 vgq~~~~~al~~~~~~~~~g~vli~G~~G~gKtt 40 (337)
T TIGR02030 7 VGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKST 40 (337)
T ss_pred ccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHH
Confidence 5788888776555544 4789999999999994
No 457
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=59.76 E-value=4.2 Score=40.06 Aligned_cols=14 Identities=50% Similarity=0.669 Sum_probs=9.2
Q ss_pred cEEEECCCCCchHH
Q psy3462 41 NCLLESPTGSGKTL 54 (795)
Q Consensus 41 ~~llEAPTGTGKTL 54 (795)
|+++|++.|+|||.
T Consensus 1 HvLleg~PG~GKT~ 14 (131)
T PF07726_consen 1 HVLLEGVPGVGKTT 14 (131)
T ss_dssp -EEEES---HHHHH
T ss_pred CEeeECCCccHHHH
Confidence 68999999999994
No 458
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=59.74 E-value=5.1 Score=44.19 Aligned_cols=16 Identities=31% Similarity=0.403 Sum_probs=14.1
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
+++++|-||||||||-
T Consensus 4 ~~ii~I~GpTasGKS~ 19 (300)
T PRK14729 4 NKIVFIFGPTAVGKSN 19 (300)
T ss_pred CcEEEEECCCccCHHH
Confidence 4679999999999995
No 459
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=59.61 E-value=9.2 Score=37.52 Aligned_cols=27 Identities=22% Similarity=0.234 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+.+.+.+..+..+++.++-|+|||
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKT 36 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKT 36 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHH
Confidence 456677777778889999999999999
No 460
>PRK00300 gmk guanylate kinase; Provisional
Probab=59.35 E-value=5.8 Score=39.69 Aligned_cols=17 Identities=29% Similarity=0.593 Sum_probs=14.9
Q ss_pred ccCcEEEeCCCCCChhH
Q psy3462 290 KAKNCLLESPTGSGKTL 306 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTl 306 (795)
.+..+++.||+|+|||-
T Consensus 4 ~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 4 RGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 46789999999999993
No 461
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=59.14 E-value=7.2 Score=46.36 Aligned_cols=63 Identities=22% Similarity=0.301 Sum_probs=45.3
Q ss_pred ccCCCCCHHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHHHHHHHHHHH------H
Q psy3462 245 EFPVKAYPSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQR------K 318 (795)
Q Consensus 245 ~fpy~~yp~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlayL~~~l~~~~------~ 318 (795)
.=||+|-.-|-+.+.++.+.++++ .+.-.+-|-||||||...- -+++-.. .
T Consensus 8 ~s~f~PaGDQP~AI~~Lv~gi~~g----------------------~~~QtLLGvTGSGKTfT~A-nVI~~~~rPtLV~A 64 (663)
T COG0556 8 HSPFKPAGDQPEAIAELVEGIENG----------------------LKHQTLLGVTGSGKTFTMA-NVIAKVQRPTLVLA 64 (663)
T ss_pred ccCCCCCCCcHHHHHHHHHHHhcC----------------------ceeeEEeeeccCCchhHHH-HHHHHhCCCeEEEe
Confidence 457999999999999999888764 4567888999999997531 1122111 2
Q ss_pred hhHHHHHHHHhh
Q psy3462 319 EKELVQQKMFEQ 330 (795)
Q Consensus 319 ~~k~LQ~Ql~~k 330 (795)
+.|.|-.||...
T Consensus 65 hNKTLAaQLy~E 76 (663)
T COG0556 65 HNKTLAAQLYSE 76 (663)
T ss_pred cchhHHHHHHHH
Confidence 456888888764
No 462
>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=59.14 E-value=13 Score=40.52 Aligned_cols=17 Identities=35% Similarity=0.548 Sum_probs=14.5
Q ss_pred cCcEEEeCCCCCChhHH
Q psy3462 291 AKNCLLESPTGSGKTLA 307 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTla 307 (795)
..++++-||+|||||..
T Consensus 40 ~~~i~I~G~~GtGKT~l 56 (365)
T TIGR02928 40 PSNVFIYGKTGTGKTAV 56 (365)
T ss_pred CCcEEEECCCCCCHHHH
Confidence 36799999999999953
No 463
>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=59.04 E-value=5.5 Score=35.99 Aligned_cols=12 Identities=42% Similarity=0.459 Sum_probs=11.0
Q ss_pred EEEECCCCCchH
Q psy3462 42 CLLESPTGSGKT 53 (795)
Q Consensus 42 ~llEAPTGTGKT 53 (795)
++|.|++|||||
T Consensus 1 I~i~G~~GsGKt 12 (129)
T PF13238_consen 1 IGISGIPGSGKT 12 (129)
T ss_dssp EEEEESTTSSHH
T ss_pred CEEECCCCCCHH
Confidence 578999999999
No 464
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=58.92 E-value=11 Score=42.76 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 21 KYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 21 p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
..++|+.....+.+.+.+.++.++.|-||+|||= -+.++++++...
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTE-Mif~~i~~al~~ 143 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTE-MIFQGIEQALNQ 143 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchh-hhHHHHHHHHhc
Confidence 4589999999999999999999999999999992 344444444433
No 465
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=58.75 E-value=8.1 Score=45.98 Aligned_cols=38 Identities=26% Similarity=0.285 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhcC-CcEEEECCCCCchHHH
Q psy3462 18 YFLKYSSCKILHLQVIQGCNKA-KNCLLESPTGSGKTLA 55 (795)
Q Consensus 18 ~~~p~~~Q~~mm~~i~~al~~~-~~~llEAPTGTGKTLA 55 (795)
.|.|.--|-+-++++.+.+.+| ++-++.+-||||||..
T Consensus 10 ~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT 48 (663)
T COG0556 10 PFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFT 48 (663)
T ss_pred CCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhH
Confidence 5788888889999999999887 5789999999999943
No 466
>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=58.73 E-value=12 Score=42.52 Aligned_cols=16 Identities=44% Similarity=0.464 Sum_probs=13.9
Q ss_pred cCCcEEEECCCCCchH
Q psy3462 38 KAKNCLLESPTGSGKT 53 (795)
Q Consensus 38 ~~~~~llEAPTGTGKT 53 (795)
.+..+++-+|||+|||
T Consensus 148 ~~GlilI~G~TGSGKT 163 (372)
T TIGR02525 148 AAGLGLICGETGSGKS 163 (372)
T ss_pred cCCEEEEECCCCCCHH
Confidence 4567899999999999
No 467
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=58.71 E-value=11 Score=44.15 Aligned_cols=27 Identities=26% Similarity=0.265 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhcCCcEEEECCCCCchH
Q psy3462 27 ILHLQVIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 27 ~mm~~i~~al~~~~~~llEAPTGTGKT 53 (795)
++.+.+..+-..+.+++|.+++|||||
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~ 224 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKE 224 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHH
Confidence 555666666666889999999999999
No 468
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=58.53 E-value=10 Score=37.34 Aligned_cols=27 Identities=33% Similarity=0.410 Sum_probs=21.3
Q ss_pred ccCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
.+...++-||+|+|||...+--++.++
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~ 57 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALA 57 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 578899999999999976655555555
No 469
>PRK10865 protein disaggregation chaperone; Provisional
Probab=58.52 E-value=6.3 Score=49.14 Aligned_cols=32 Identities=25% Similarity=0.228 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEECCCCCchHH
Q psy3462 23 SSCKILHLQVIQGCNKA-----------KNCLLESPTGSGKTL 54 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~-----------~~~llEAPTGTGKTL 54 (795)
-+|...|..+.+++... ..++|.||||||||.
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~ 613 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE 613 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHH
Confidence 47888888888777542 247999999999993
No 470
>PHA00729 NTP-binding motif containing protein
Probab=58.48 E-value=7.3 Score=41.47 Aligned_cols=15 Identities=33% Similarity=0.445 Sum_probs=13.1
Q ss_pred CcEEEeCCCCCChhH
Q psy3462 292 KNCLLESPTGSGKTL 306 (795)
Q Consensus 292 ~~~l~EaPTGTGKTl 306 (795)
.++++-|++|||||.
T Consensus 18 ~nIlItG~pGvGKT~ 32 (226)
T PHA00729 18 VSAVIFGKQGSGKTT 32 (226)
T ss_pred EEEEEECCCCCCHHH
Confidence 368999999999993
No 471
>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=58.47 E-value=7.3 Score=44.20 Aligned_cols=29 Identities=10% Similarity=0.017 Sum_probs=22.0
Q ss_pred CChhHHHHHhhhCCccccchhhhhhHHHHH
Q psy3462 505 PCIEDLEQFSTRALVSPCFQLIQLDLMLDE 534 (795)
Q Consensus 505 ~~~~dL~~~~~~~~~cpyf~~~q~~~~~~~ 534 (795)
+.++++...+++.++|-+...-.++ +|++
T Consensus 286 ~~l~~~l~~~R~~G~~~~~~~Qs~~-Ql~~ 314 (410)
T cd01127 286 PDLVDALAEGRKFGGCFVLGIQSYA-QLED 314 (410)
T ss_pred hHHHHHHHHHhcCCCEEEEEEcCHH-HHHH
Confidence 6799999999999999987663343 4433
No 472
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=58.43 E-value=9.4 Score=37.45 Aligned_cols=23 Identities=26% Similarity=0.310 Sum_probs=18.0
Q ss_pred HHhhccccCcEEEeCCCCCChhH
Q psy3462 284 VIQGCNKAKNCLLESPTGSGKTL 306 (795)
Q Consensus 284 ~i~al~~~~~~l~EaPTGTGKTl 306 (795)
+...+..+.++++.|+.|+|||.
T Consensus 15 l~~~l~~~~~i~l~G~lGaGKTt 37 (133)
T TIGR00150 15 FAKPLDFGTVVLLKGDLGAGKTT 37 (133)
T ss_pred HHHhCCCCCEEEEEcCCCCCHHH
Confidence 33445567899999999999984
No 473
>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=58.37 E-value=9.7 Score=45.98 Aligned_cols=27 Identities=26% Similarity=0.400 Sum_probs=19.0
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQR 317 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~ 317 (795)
..+.++.||+|||||-....-+..+++
T Consensus 173 ~~~~lI~GpPGTGKT~t~~~ii~~~~~ 199 (637)
T TIGR00376 173 KDLFLIHGPPGTGKTRTLVELIRQLVK 199 (637)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 367899999999999655444434443
No 474
>PRK08084 DNA replication initiation factor; Provisional
Probab=58.35 E-value=11 Score=39.46 Aligned_cols=30 Identities=17% Similarity=0.184 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNK--AKNCLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~--~~~~llEAPTGTGKT 53 (795)
.....+..+.+.... ...+++-||+|+|||
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKT 59 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRS 59 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHH
Confidence 333344444443322 357999999999999
No 475
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=58.31 E-value=4.2 Score=47.47 Aligned_cols=21 Identities=33% Similarity=0.578 Sum_probs=18.2
Q ss_pred ccCcEEEeCCCCCChhHHHHH
Q psy3462 290 KAKNCLLESPTGSGKTLALLC 310 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTlayL~ 310 (795)
-++|+||-+.||||||.++=+
T Consensus 18 ~NRHGLIaGATGTGKTvTLqv 38 (502)
T PF05872_consen 18 ANRHGLIAGATGTGKTVTLQV 38 (502)
T ss_pred ccccceeeccCCCCceehHHH
Confidence 478999999999999988744
No 476
>KOG0991|consensus
Probab=58.29 E-value=10 Score=41.28 Aligned_cols=25 Identities=32% Similarity=0.647 Sum_probs=20.9
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAW 315 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~ 315 (795)
-.|.++-||.|||||-+.+|-+=..
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~L 72 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLAREL 72 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHH
Confidence 4679999999999999999976433
No 477
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=58.17 E-value=16 Score=34.75 Aligned_cols=17 Identities=29% Similarity=0.599 Sum_probs=14.2
Q ss_pred ccCcEEEeCCCCCChhH
Q psy3462 290 KAKNCLLESPTGSGKTL 306 (795)
Q Consensus 290 ~~~~~l~EaPTGTGKTl 306 (795)
.+..++|.|+.||||+.
T Consensus 20 ~~~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 20 SSSPVLITGEPGTGKSL 36 (138)
T ss_dssp SSS-EEEECCTTSSHHH
T ss_pred CCCcEEEEcCCCCCHHH
Confidence 35789999999999996
No 478
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=58.16 E-value=2.8 Score=50.47 Aligned_cols=23 Identities=35% Similarity=0.527 Sum_probs=20.7
Q ss_pred cCcEEEeCCCCCChhHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVL 313 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l 313 (795)
..|+++-||||+|||.++.+|.|
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnL 197 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTL 197 (636)
T ss_pred CceEEEEecCCCCCceEEEccch
Confidence 47899999999999999998864
No 479
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=58.13 E-value=12 Score=45.15 Aligned_cols=31 Identities=16% Similarity=0.248 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAK---NCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~---~~llEAPTGTGKT 53 (795)
-+|..|++.+..++..++ ..||.+|.|+|||
T Consensus 27 iGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKT 60 (598)
T PRK09111 27 IGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKT 60 (598)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHH
Confidence 578899999999998875 3899999999999
No 480
>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=58.05 E-value=5.5 Score=35.99 Aligned_cols=13 Identities=38% Similarity=0.391 Sum_probs=11.3
Q ss_pred EEEeCCCCCChhH
Q psy3462 294 CLLESPTGSGKTL 306 (795)
Q Consensus 294 ~l~EaPTGTGKTl 306 (795)
++|.|++|||||-
T Consensus 1 I~i~G~~GsGKtT 13 (129)
T PF13238_consen 1 IGISGIPGSGKTT 13 (129)
T ss_dssp EEEEESTTSSHHH
T ss_pred CEEECCCCCCHHH
Confidence 4789999999994
No 481
>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=57.98 E-value=5.5 Score=36.22 Aligned_cols=13 Identities=38% Similarity=0.810 Sum_probs=11.6
Q ss_pred EEEeCCCCCChhH
Q psy3462 294 CLLESPTGSGKTL 306 (795)
Q Consensus 294 ~l~EaPTGTGKTl 306 (795)
++|.||+|+|||-
T Consensus 2 I~I~G~~gsGKST 14 (121)
T PF13207_consen 2 IIISGPPGSGKST 14 (121)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6889999999994
No 482
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=57.93 E-value=3.8 Score=40.37 Aligned_cols=16 Identities=44% Similarity=0.536 Sum_probs=10.4
Q ss_pred cEEEeCCCCCChhHHH
Q psy3462 293 NCLLESPTGSGKTLAL 308 (795)
Q Consensus 293 ~~l~EaPTGTGKTlay 308 (795)
|+|+|++.|+|||..-
T Consensus 1 HvLleg~PG~GKT~la 16 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLA 16 (131)
T ss_dssp -EEEES---HHHHHHH
T ss_pred CEeeECCCccHHHHHH
Confidence 6899999999999754
No 483
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=57.82 E-value=13 Score=41.64 Aligned_cols=27 Identities=33% Similarity=0.571 Sum_probs=18.7
Q ss_pred CcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 40 KNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
.-+++-+|||+||| .-|.+.+.|+..+
T Consensus 126 GLILVTGpTGSGKS-TTlAamId~iN~~ 152 (353)
T COG2805 126 GLILVTGPTGSGKS-TTLAAMIDYINKH 152 (353)
T ss_pred ceEEEeCCCCCcHH-HHHHHHHHHHhcc
Confidence 34889999999998 3345555565544
No 484
>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=57.79 E-value=7.5 Score=39.89 Aligned_cols=22 Identities=18% Similarity=0.297 Sum_probs=17.8
Q ss_pred HHHHHhcCCcEEEECCCCCchH
Q psy3462 32 VIQGCNKAKNCLLESPTGSGKT 53 (795)
Q Consensus 32 i~~al~~~~~~llEAPTGTGKT 53 (795)
+..-+..+...+|.||+|+|||
T Consensus 6 ~~~Gl~~G~l~lI~G~~G~GKT 27 (242)
T cd00984 6 LTGGLQPGDLIIIAARPSMGKT 27 (242)
T ss_pred hhcCCCCCeEEEEEeCCCCCHH
Confidence 3345566778999999999999
No 485
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=57.77 E-value=12 Score=38.32 Aligned_cols=16 Identities=25% Similarity=0.343 Sum_probs=14.1
Q ss_pred cCcEEEeCCCCCChhH
Q psy3462 291 AKNCLLESPTGSGKTL 306 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTl 306 (795)
...+++-||+|||||-
T Consensus 42 ~~~~~l~G~~G~GKT~ 57 (227)
T PRK08903 42 DRFFYLWGEAGSGRSH 57 (227)
T ss_pred CCeEEEECCCCCCHHH
Confidence 4679999999999993
No 486
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=57.71 E-value=13 Score=32.23 Aligned_cols=26 Identities=27% Similarity=0.353 Sum_probs=19.4
Q ss_pred CcEEEECCCCCchHHHHHHHHHHHHHHh
Q psy3462 40 KNCLLESPTGSGKTLALLCSVLAWQRKE 67 (795)
Q Consensus 40 ~~~llEAPTGTGKTLAyL~paL~~~~~~ 67 (795)
...+|.+|+|+||| -|+=|+.++.-.
T Consensus 24 ~~tli~G~nGsGKS--TllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKS--TLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHH--HHHHHHHHHHcC
Confidence 46999999999999 455566665533
No 487
>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=57.39 E-value=8.2 Score=43.45 Aligned_cols=25 Identities=24% Similarity=0.356 Sum_probs=18.6
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHH
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQ 316 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~ 316 (795)
++.+++-||||+|||-.+ -.++.++
T Consensus 134 ~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 689999999999999644 3344444
No 488
>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=57.29 E-value=9.6 Score=45.43 Aligned_cols=28 Identities=36% Similarity=0.732 Sum_probs=20.5
Q ss_pred cCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 291 AKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 291 ~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
.+|.++-||||||||.+ +-..|.|++..
T Consensus 176 ~~h~li~G~tGsGKs~~-i~~ll~~~~~~ 203 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVA-IRKLLRWIRQR 203 (566)
T ss_pred ccceEEEcCCCCCHHHH-HHHHHHHHHhc
Confidence 47899999999999963 44456665443
No 489
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=57.11 E-value=9.3 Score=43.94 Aligned_cols=25 Identities=28% Similarity=0.298 Sum_probs=18.2
Q ss_pred HHHHHHHhcCCcEEEECCCCCchHH
Q psy3462 30 LQVIQGCNKAKNCLLESPTGSGKTL 54 (795)
Q Consensus 30 ~~i~~al~~~~~~llEAPTGTGKTL 54 (795)
+.|...--.+.++++.++|||||++
T Consensus 92 eqik~~ap~~~~vLi~GetGtGKel 116 (403)
T COG1221 92 EQIKAYAPSGLPVLIIGETGTGKEL 116 (403)
T ss_pred HHHHhhCCCCCcEEEecCCCccHHH
Confidence 3333333447889999999999994
No 490
>KOG0951|consensus
Probab=57.06 E-value=9.2 Score=49.31 Aligned_cols=32 Identities=31% Similarity=0.383 Sum_probs=26.8
Q ss_pred ccccCcEEEeCCCCCChhHHHHHHHHHHHHHh
Q psy3462 288 CNKAKNCLLESPTGSGKTLALLCSVLAWQRKE 319 (795)
Q Consensus 288 l~~~~~~l~EaPTGTGKTlayL~~~l~~~~~~ 319 (795)
+....++++.||||+|||..-++-+|.-+..+
T Consensus 322 l~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h 353 (1674)
T KOG0951|consen 322 LRGDENMLLCAPTGAGKTNVAVLTILQELGNH 353 (1674)
T ss_pred hcCcCcEEEeccCCCCchHHHHHHHHHHHhcc
Confidence 44578999999999999998888888777655
No 491
>CHL00095 clpC Clp protease ATP binding subunit
Probab=57.05 E-value=7.9 Score=47.92 Aligned_cols=31 Identities=29% Similarity=0.407 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhcC--------C---cEEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKA--------K---NCLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~--------~---~~llEAPTGTGKT 53 (795)
-+|.+.++.+.+++... + ..++.+|||||||
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt 553 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKT 553 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHH
Confidence 47988889888888632 1 3689999999999
No 492
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=57.05 E-value=30 Score=37.48 Aligned_cols=62 Identities=18% Similarity=0.130 Sum_probs=0.0
Q ss_pred hHHHHHHHHhCCCCCCCC-HHHHHHHHHHHHHHh----------cCCcEEEECCCCCchHHHHHHHHHHHHHH
Q psy3462 5 SSDIFKTYLNEPNYFLKY-SSCKILHLQVIQGCN----------KAKNCLLESPTGSGKTLALLCSVLAWQRK 66 (795)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~-~~Q~~mm~~i~~al~----------~~~~~llEAPTGTGKTLAyL~paL~~~~~ 66 (795)
+.+.-+++.+.+....+. .....+.+.+.+.+. .+..++|-+|||+|||-...-=+..+...
T Consensus 149 ~~~la~~L~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~vi~~vGptGvGKTTt~~kLa~~~~~~ 221 (282)
T TIGR03499 149 SPELARELLEKLPERADAEDAWRWLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKLAARFVLE 221 (282)
T ss_pred CHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHhccCCccccccCCCeEEEEECCCCCCHHHHHHHHHHHHHHH
No 493
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.01 E-value=12 Score=45.17 Aligned_cols=31 Identities=13% Similarity=0.253 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEECCCCCchH
Q psy3462 23 SSCKILHLQVIQGCNKAK--N-CLLESPTGSGKT 53 (795)
Q Consensus 23 ~~Q~~mm~~i~~al~~~~--~-~llEAPTGTGKT 53 (795)
=+|......+.+++.+++ | .||.||.|+|||
T Consensus 19 vGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKt 52 (620)
T PRK14954 19 TAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKT 52 (620)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHH
Confidence 478888888888888764 3 789999999999
No 494
>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=57.01 E-value=9.9 Score=37.06 Aligned_cols=13 Identities=46% Similarity=0.659 Sum_probs=11.7
Q ss_pred EEEECCCCCchHH
Q psy3462 42 CLLESPTGSGKTL 54 (795)
Q Consensus 42 ~llEAPTGTGKTL 54 (795)
.++.||+|||||.
T Consensus 2 ~li~G~~G~GKT~ 14 (187)
T cd01124 2 TLLSGGPGTGKTT 14 (187)
T ss_pred EEEEcCCCCCHHH
Confidence 6899999999993
No 495
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=56.85 E-value=11 Score=43.92 Aligned_cols=15 Identities=60% Similarity=0.860 Sum_probs=13.7
Q ss_pred cCcEEEeCCCCCChh
Q psy3462 291 AKNCLLESPTGSGKT 305 (795)
Q Consensus 291 ~~~~l~EaPTGTGKT 305 (795)
.+++++.+|||+|||
T Consensus 50 ~~~ILliGp~G~GKT 64 (443)
T PRK05201 50 PKNILMIGPTGVGKT 64 (443)
T ss_pred CceEEEECCCCCCHH
Confidence 468999999999999
No 496
>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=56.84 E-value=17 Score=36.08 Aligned_cols=30 Identities=20% Similarity=0.290 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEECCCCCchH
Q psy3462 24 SCKILHLQVIQGCNKAK--N-CLLESPTGSGKT 53 (795)
Q Consensus 24 ~Q~~mm~~i~~al~~~~--~-~llEAPTGTGKT 53 (795)
+|.+..+.+.+.+.+++ + .||+||.|+||+
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~ 33 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKK 33 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHH
Confidence 47788888888888874 4 699999999988
No 497
>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=56.82 E-value=20 Score=44.06 Aligned_cols=58 Identities=9% Similarity=-0.001 Sum_probs=36.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEECCCCCchHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccCCceeEEecccccc
Q psy3462 19 FLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLALLCSVLAWQRKEKELVQQKMFEQRTQDLQKTSFVFCGRSDFF 97 (795)
Q Consensus 19 ~~p~~~Q~~mm~~i~~al~~~~~~llEAPTGTGKTLAyL~paL~~~~~~~~~vq~~~~~~~~~~~~~~~~~yc~rth~~ 97 (795)
+...+.|++.+..+ +.++...+|.+|.||||| +++-++..+ + . ..+.+|+.|..|+-.
T Consensus 351 ~~Ls~~Q~~Av~~i---~~s~~~~il~G~aGTGKT--tll~~i~~~-----------~----~-~~g~~V~~~ApTg~A 408 (744)
T TIGR02768 351 YRLSEEQYEAVRHV---TGSGDIAVVVGRAGTGKS--TMLKAAREA-----------W----E-AAGYRVIGAALSGKA 408 (744)
T ss_pred CCCCHHHHHHHHHH---hcCCCEEEEEecCCCCHH--HHHHHHHHH-----------H----H-hCCCeEEEEeCcHHH
Confidence 45668886655444 344568999999999998 333332211 1 1 124678888877654
No 498
>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=56.81 E-value=6.8 Score=38.32 Aligned_cols=15 Identities=27% Similarity=0.567 Sum_probs=13.3
Q ss_pred CCcEEEECCCCCchH
Q psy3462 39 AKNCLLESPTGSGKT 53 (795)
Q Consensus 39 ~~~~llEAPTGTGKT 53 (795)
++.++|.+|+|+|||
T Consensus 1 g~ii~l~G~~GsGKs 15 (180)
T TIGR03263 1 GLLIVISGPSGVGKS 15 (180)
T ss_pred CcEEEEECCCCCCHH
Confidence 356899999999999
No 499
>KOG0744|consensus
Probab=56.78 E-value=7.2 Score=44.06 Aligned_cols=19 Identities=53% Similarity=0.884 Sum_probs=14.6
Q ss_pred cEEEECCCCCchHHHHHHHHH
Q psy3462 41 NCLLESPTGSGKTLALLCSVL 61 (795)
Q Consensus 41 ~~llEAPTGTGKTLAyL~paL 61 (795)
-+++.+|.||||| -||-+|
T Consensus 179 liLlhGPPGTGKT--SLCKaL 197 (423)
T KOG0744|consen 179 LILLHGPPGTGKT--SLCKAL 197 (423)
T ss_pred EEEEeCCCCCChh--HHHHHH
Confidence 3899999999999 344443
No 500
>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=56.77 E-value=13 Score=41.48 Aligned_cols=36 Identities=22% Similarity=0.470 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhhhHHHHHhhccccCcEEEeCCCCCChhHHH
Q psy3462 252 PSQISMMNQVSNLFEQPNHFLKYSSCKILHLQVIQGCNKAKNCLLESPTGSGKTLAL 308 (795)
Q Consensus 252 p~Q~~mm~~i~~~l~~~~~~~~~~~~~~~~~~~i~al~~~~~~l~EaPTGTGKTlay 308 (795)
+.|...++.|.+++.. .++.+..+-||-|||||.-+
T Consensus 4 ~eQ~~~~~~v~~~~~~---------------------~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIEN---------------------EEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHHc---------------------cCCcEEEEEcCCCCChhHHH
Confidence 5788888888777753 24678899999999999644
Done!