Query psy9277
Match_columns 178
No_of_seqs 169 out of 1417
Neff 9.1
Searched_HMMs 46136
Date Fri Aug 16 23:21:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9277.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9277hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0330|consensus 100.0 3.2E-34 6.8E-39 226.4 14.8 147 27-173 56-202 (476)
2 KOG0331|consensus 100.0 9.5E-33 2.1E-37 228.0 14.0 142 32-173 91-238 (519)
3 KOG0338|consensus 100.0 6.3E-33 1.4E-37 225.3 12.0 145 31-175 180-327 (691)
4 COG0513 SrmB Superfamily II DN 100.0 6.4E-32 1.4E-36 227.8 18.2 141 32-172 29-172 (513)
5 PRK04837 ATP-dependent RNA hel 100.0 1.4E-31 3E-36 221.6 19.3 143 30-172 6-155 (423)
6 PTZ00110 helicase; Provisional 100.0 2.6E-31 5.6E-36 225.8 18.6 148 24-171 122-274 (545)
7 PLN00206 DEAD-box ATP-dependen 100.0 4.1E-31 8.8E-36 223.6 18.5 152 20-171 109-267 (518)
8 KOG0348|consensus 100.0 2.7E-31 6E-36 216.8 13.8 150 25-174 129-286 (708)
9 KOG0340|consensus 100.0 4E-31 8.7E-36 206.9 10.8 140 29-168 4-143 (442)
10 PRK10590 ATP-dependent RNA hel 100.0 6.3E-30 1.4E-34 213.5 18.4 141 32-172 1-147 (456)
11 PRK04537 ATP-dependent RNA hel 100.0 9.8E-30 2.1E-34 217.0 19.0 138 32-169 9-153 (572)
12 PRK11776 ATP-dependent RNA hel 100.0 8.6E-30 1.9E-34 213.0 18.3 141 31-171 3-144 (460)
13 PRK11634 ATP-dependent RNA hel 100.0 1.1E-29 2.4E-34 218.3 18.4 143 30-172 4-147 (629)
14 PRK11192 ATP-dependent RNA hel 100.0 2.4E-29 5.3E-34 208.8 18.9 141 32-172 1-145 (434)
15 KOG0345|consensus 100.0 1.3E-29 2.9E-34 204.2 15.6 143 31-173 3-154 (567)
16 PRK01297 ATP-dependent RNA hel 100.0 1.7E-28 3.6E-33 206.0 20.7 145 28-172 83-235 (475)
17 KOG0328|consensus 100.0 2.6E-30 5.6E-35 197.4 8.4 158 15-172 10-167 (400)
18 KOG0342|consensus 100.0 1.4E-29 3E-34 204.9 11.8 149 28-176 78-231 (543)
19 KOG0346|consensus 100.0 1.8E-29 3.9E-34 202.2 10.9 139 32-170 19-165 (569)
20 PTZ00424 helicase 45; Provisio 100.0 4.5E-28 9.8E-33 199.1 18.9 143 28-170 24-166 (401)
21 KOG0334|consensus 100.0 6.5E-29 1.4E-33 215.3 12.9 160 13-172 346-510 (997)
22 KOG0335|consensus 100.0 4.4E-29 9.6E-34 203.7 10.0 149 25-173 67-225 (482)
23 KOG0339|consensus 100.0 1.4E-28 3.1E-33 200.0 12.2 153 21-173 212-369 (731)
24 KOG0343|consensus 100.0 2.5E-28 5.5E-33 200.2 11.2 148 28-176 65-216 (758)
25 KOG0333|consensus 100.0 4.7E-28 1E-32 197.5 12.6 148 22-169 235-391 (673)
26 KOG0347|consensus 100.0 3E-28 6.4E-33 199.7 11.1 144 27-170 176-333 (731)
27 cd00268 DEADc DEAD-box helicas 100.0 1.7E-26 3.7E-31 173.4 18.7 137 34-170 1-139 (203)
28 KOG0326|consensus 99.9 1.2E-28 2.6E-33 191.1 3.8 142 32-173 85-226 (459)
29 KOG0341|consensus 99.9 7E-28 1.5E-32 191.0 5.0 154 19-172 157-324 (610)
30 KOG0336|consensus 99.9 1.5E-26 3.3E-31 184.5 8.3 147 26-173 213-366 (629)
31 KOG0329|consensus 99.9 8.3E-26 1.8E-30 170.9 10.7 143 31-173 41-184 (387)
32 TIGR03817 DECH_helic helicase/ 99.9 8.2E-25 1.8E-29 191.4 18.2 124 38-164 20-143 (742)
33 KOG0327|consensus 99.9 3.1E-26 6.8E-31 180.9 7.9 154 20-173 14-168 (397)
34 KOG0350|consensus 99.9 1.8E-25 3.8E-30 181.6 12.2 145 29-173 124-293 (620)
35 KOG0337|consensus 99.9 7.2E-26 1.6E-30 180.8 7.8 139 31-169 20-159 (529)
36 COG1201 Lhr Lhr-like helicases 99.9 1.4E-24 3.1E-29 188.1 14.0 129 39-168 8-141 (814)
37 PRK02362 ski2-like helicase; P 99.9 4.6E-24 1E-28 187.3 15.6 130 32-168 1-131 (737)
38 PRK00254 ski2-like helicase; P 99.9 1.8E-23 3.8E-28 183.2 16.1 131 33-169 2-133 (720)
39 PRK13767 ATP-dependent helicas 99.9 7.7E-23 1.7E-27 181.9 15.7 129 39-168 18-164 (876)
40 PF00270 DEAD: DEAD/DEAH box h 99.9 3.5E-22 7.5E-27 145.4 15.2 114 56-170 1-115 (169)
41 KOG4284|consensus 99.9 8.6E-24 1.9E-28 176.4 6.9 144 29-173 22-166 (980)
42 KOG0332|consensus 99.9 9.5E-23 2.1E-27 161.0 8.1 141 24-167 82-224 (477)
43 PRK01172 ski2-like helicase; P 99.9 1.7E-21 3.7E-26 169.8 15.4 130 32-169 1-130 (674)
44 PRK12899 secA preprotein trans 99.9 2E-21 4.3E-26 169.5 15.5 134 35-173 65-207 (970)
45 COG1205 Distinct helicase fami 99.9 2.2E-21 4.8E-26 171.2 14.9 125 40-165 56-182 (851)
46 KOG0344|consensus 99.9 9.7E-22 2.1E-26 162.5 8.6 151 19-169 119-281 (593)
47 PLN03137 ATP-dependent DNA hel 99.8 5.1E-19 1.1E-23 157.3 17.3 122 31-162 434-564 (1195)
48 PRK14701 reverse gyrase; Provi 99.8 3.2E-19 6.9E-24 165.2 15.9 122 42-167 67-195 (1638)
49 PRK10917 ATP-dependent DNA hel 99.8 2.6E-19 5.7E-24 155.9 14.4 120 41-164 248-378 (681)
50 TIGR00643 recG ATP-dependent D 99.8 3.9E-19 8.5E-24 153.8 14.9 117 43-163 225-351 (630)
51 TIGR01054 rgy reverse gyrase. 99.8 4.6E-19 1E-23 160.9 15.8 123 42-167 66-195 (1171)
52 PRK09401 reverse gyrase; Revie 99.8 7.1E-19 1.5E-23 159.6 16.8 114 49-166 76-195 (1176)
53 TIGR00614 recQ_fam ATP-depende 99.8 5E-19 1.1E-23 148.6 13.9 105 48-162 5-113 (470)
54 TIGR00580 mfd transcription-re 99.8 2E-18 4.4E-23 153.5 15.4 119 38-160 435-564 (926)
55 TIGR02621 cas3_GSU0051 CRISPR- 99.8 1.6E-18 3.4E-23 151.4 13.5 116 50-171 12-152 (844)
56 COG1204 Superfamily II helicas 99.8 1.9E-18 4.2E-23 151.0 12.5 127 38-170 15-142 (766)
57 TIGR01389 recQ ATP-dependent D 99.8 6.3E-18 1.4E-22 145.5 14.2 107 46-162 4-115 (591)
58 PRK11057 ATP-dependent DNA hel 99.8 1.2E-17 2.7E-22 144.0 15.0 114 39-162 9-127 (607)
59 PRK10689 transcription-repair 99.8 1.8E-17 4E-22 150.2 15.6 116 42-161 589-714 (1147)
60 KOG0952|consensus 99.8 7.6E-18 1.6E-22 146.8 12.0 116 50-169 106-229 (1230)
61 PRK12898 secA preprotein trans 99.7 6.9E-17 1.5E-21 138.4 13.5 113 49-169 99-212 (656)
62 PRK09751 putative ATP-dependen 99.7 9.5E-17 2.1E-21 147.2 11.9 95 74-168 1-117 (1490)
63 TIGR00963 secA preprotein tran 99.7 4.8E-16 1.1E-20 134.2 13.7 113 48-168 51-164 (745)
64 PRK09200 preprotein translocas 99.7 4.7E-16 1E-20 135.8 13.5 113 48-168 73-187 (790)
65 COG1202 Superfamily II helicas 99.7 4.9E-16 1.1E-20 129.1 10.7 136 31-168 193-333 (830)
66 KOG0349|consensus 99.6 1.8E-16 4E-21 128.0 4.9 63 32-94 2-64 (725)
67 TIGR03714 secA2 accessory Sec 99.6 2.7E-15 5.8E-20 130.2 12.0 112 50-167 67-182 (762)
68 TIGR03158 cas3_cyano CRISPR-as 99.6 1.1E-14 2.4E-19 118.4 12.9 104 58-167 1-130 (357)
69 PHA02558 uvsW UvsW helicase; P 99.6 1E-14 2.3E-19 123.4 13.0 104 53-165 113-216 (501)
70 smart00487 DEXDc DEAD-like hel 99.6 5.3E-14 1.2E-18 103.5 15.2 120 49-169 3-124 (201)
71 PRK05580 primosome assembly pr 99.6 3.7E-14 8.1E-19 123.7 15.8 103 54-162 144-253 (679)
72 KOG0951|consensus 99.6 1.1E-14 2.5E-19 129.1 12.0 168 3-176 260-436 (1674)
73 PRK13104 secA preprotein trans 99.6 1.5E-14 3.2E-19 126.9 12.1 111 50-168 79-190 (896)
74 PRK13766 Hef nuclease; Provisi 99.6 8.8E-14 1.9E-18 123.3 15.7 116 51-170 12-127 (773)
75 COG1111 MPH1 ERCC4-like helica 99.6 5.7E-14 1.2E-18 115.4 12.8 119 52-174 13-131 (542)
76 KOG0354|consensus 99.5 9.5E-14 2.1E-18 119.3 9.7 130 39-172 47-176 (746)
77 PRK12904 preprotein translocas 99.5 3.6E-13 7.8E-18 117.9 12.1 113 49-170 77-191 (830)
78 PHA02653 RNA helicase NPH-II; 99.4 1.1E-12 2.5E-17 113.7 11.4 104 56-160 166-284 (675)
79 COG1200 RecG RecG-like helicas 99.4 3.4E-12 7.4E-17 108.6 12.3 123 37-163 245-378 (677)
80 PRK11664 ATP-dependent RNA hel 99.4 2.6E-12 5.7E-17 113.8 12.0 101 59-168 10-111 (812)
81 COG0514 RecQ Superfamily II DN 99.4 2.3E-12 5.1E-17 109.2 11.0 107 45-161 7-118 (590)
82 TIGR01587 cas3_core CRISPR-ass 99.4 3.4E-12 7.4E-17 103.6 11.0 93 71-167 1-111 (358)
83 COG1110 Reverse gyrase [DNA re 99.4 1.5E-11 3.2E-16 108.2 14.9 114 49-166 78-197 (1187)
84 cd00046 DEXDc DEAD-like helica 99.4 2.5E-11 5.5E-16 84.3 12.9 97 70-168 1-97 (144)
85 TIGR01970 DEAH_box_HrpB ATP-de 99.4 1.2E-11 2.6E-16 109.6 13.5 101 59-168 7-108 (819)
86 KOG0353|consensus 99.3 8.4E-12 1.8E-16 100.0 9.8 118 35-162 74-198 (695)
87 KOG0352|consensus 99.3 1.7E-11 3.6E-16 99.4 9.0 110 42-161 6-124 (641)
88 TIGR01407 dinG_rel DnaQ family 99.3 3.2E-11 6.8E-16 108.0 11.9 98 39-140 231-335 (850)
89 COG4581 Superfamily II RNA hel 99.3 2.1E-11 4.6E-16 108.6 10.5 113 46-169 112-224 (1041)
90 PRK13107 preprotein translocas 99.3 1.1E-11 2.5E-16 108.9 8.7 110 51-168 80-190 (908)
91 TIGR00595 priA primosomal prot 99.2 1.4E-10 3.1E-15 98.2 10.3 84 73-162 1-88 (505)
92 PRK07246 bifunctional ATP-depe 99.2 1.4E-10 3.1E-15 103.2 10.5 88 48-140 240-332 (820)
93 PF04851 ResIII: Type III rest 99.2 3.6E-10 7.9E-15 82.7 10.8 108 54-167 3-128 (184)
94 KOG0351|consensus 99.2 8.4E-11 1.8E-15 104.8 7.7 110 43-162 252-368 (941)
95 TIGR03117 cas_csf4 CRISPR-asso 99.1 5E-10 1.1E-14 96.5 10.5 75 65-140 12-89 (636)
96 TIGR00603 rad25 DNA repair hel 99.1 1.6E-09 3.5E-14 94.5 10.9 98 54-162 255-355 (732)
97 COG1197 Mfd Transcription-repa 99.0 5.1E-09 1.1E-13 94.0 14.0 119 38-160 578-707 (1139)
98 PRK11448 hsdR type I restricti 99.0 3.2E-09 6.9E-14 97.0 12.0 109 54-165 413-526 (1123)
99 PRK12906 secA preprotein trans 99.0 3.1E-09 6.7E-14 93.2 10.8 113 48-168 75-188 (796)
100 PRK09694 helicase Cas3; Provis 99.0 6E-09 1.3E-13 93.0 12.6 86 53-139 285-372 (878)
101 smart00488 DEXDc2 DEAD-like he 99.0 4.3E-09 9.2E-14 83.4 10.3 73 51-124 6-85 (289)
102 smart00489 DEXDc3 DEAD-like he 99.0 4.3E-09 9.2E-14 83.4 10.3 73 51-124 6-85 (289)
103 KOG0951|consensus 99.0 5.6E-10 1.2E-14 100.0 5.6 106 53-166 1142-1249(1674)
104 PRK12326 preprotein translocas 99.0 9.3E-09 2E-13 89.1 11.7 112 49-168 74-186 (764)
105 COG1061 SSL2 DNA or RNA helica 98.9 9.1E-09 2E-13 86.1 9.9 96 54-163 36-135 (442)
106 KOG0947|consensus 98.9 1.8E-08 3.8E-13 88.7 10.7 107 48-169 292-398 (1248)
107 PRK13103 secA preprotein trans 98.9 1.7E-08 3.8E-13 89.2 10.0 113 49-169 78-191 (913)
108 COG1198 PriA Primosomal protei 98.8 5.4E-08 1.2E-12 85.1 10.9 102 54-161 198-307 (730)
109 KOG0949|consensus 98.8 1.5E-08 3.3E-13 89.3 7.5 112 54-168 511-623 (1330)
110 PF07517 SecA_DEAD: SecA DEAD- 98.8 4.5E-07 9.8E-12 70.8 14.1 113 48-168 72-185 (266)
111 PRK08074 bifunctional ATP-depe 98.8 7.5E-08 1.6E-12 87.2 11.0 85 51-139 255-347 (928)
112 TIGR00348 hsdR type I site-spe 98.7 1E-07 2.2E-12 83.6 10.4 105 54-165 238-353 (667)
113 KOG0948|consensus 98.6 2.3E-07 4.9E-12 80.2 8.6 101 54-168 129-229 (1041)
114 TIGR00604 rad3 DNA repair heli 98.6 3.4E-07 7.5E-12 80.8 10.1 75 50-124 6-84 (705)
115 PRK11131 ATP-dependent RNA hel 98.6 4.3E-07 9.4E-12 83.6 10.0 100 56-169 76-182 (1294)
116 PRK11747 dinG ATP-dependent DN 98.5 6.2E-07 1.3E-11 79.0 9.8 66 51-119 23-97 (697)
117 COG1199 DinG Rad3-related DNA 98.5 5.5E-07 1.2E-11 78.9 9.1 74 48-123 9-86 (654)
118 CHL00122 secA preprotein trans 98.4 6.5E-07 1.4E-11 79.2 7.7 112 49-168 72-184 (870)
119 PRK12902 secA preprotein trans 98.4 1.7E-06 3.8E-11 76.7 8.9 110 49-166 81-191 (939)
120 PF13086 AAA_11: AAA domain; P 98.3 3.5E-06 7.5E-11 63.7 8.8 68 54-122 1-75 (236)
121 PF13245 AAA_19: Part of AAA d 98.3 4.2E-06 9.1E-11 53.1 7.3 59 62-120 2-62 (76)
122 KOG0952|consensus 98.2 3.2E-07 7E-12 81.6 0.9 113 53-169 926-1039(1230)
123 PF00176 SNF2_N: SNF2 family N 98.2 1.1E-05 2.4E-10 63.5 9.4 92 69-162 25-119 (299)
124 COG4096 HsdR Type I site-speci 98.2 1.3E-05 2.8E-10 70.4 10.0 106 53-168 164-274 (875)
125 COG1203 CRISPR-associated heli 98.2 1E-05 2.2E-10 71.9 9.2 77 54-130 195-276 (733)
126 COG4098 comFA Superfamily II D 98.2 2.2E-05 4.7E-10 62.9 10.0 101 54-166 97-201 (441)
127 TIGR01967 DEAH_box_HrpA ATP-de 98.2 1.6E-05 3.6E-10 73.6 10.5 112 50-169 60-175 (1283)
128 KOG0950|consensus 98.1 7.7E-06 1.7E-10 72.5 7.7 121 39-165 207-330 (1008)
129 PRK12903 secA preprotein trans 98.1 3.7E-05 8E-10 68.3 10.9 112 49-168 74-186 (925)
130 PF00580 UvrD-helicase: UvrD/R 98.1 1.9E-05 4.1E-10 62.4 8.3 69 55-125 1-70 (315)
131 PRK15483 type III restriction- 98.0 0.00011 2.4E-09 66.3 13.0 50 70-120 60-109 (986)
132 PRK14873 primosome assembly pr 98.0 3.8E-05 8.2E-10 67.3 9.0 81 75-160 166-250 (665)
133 TIGR00376 DNA helicase, putati 97.9 0.00015 3.1E-09 63.6 10.3 74 54-134 157-231 (637)
134 KOG1802|consensus 97.8 6.5E-05 1.4E-09 64.7 7.5 86 46-137 402-487 (935)
135 PF13604 AAA_30: AAA domain; P 97.8 0.0002 4.3E-09 53.6 8.7 64 54-120 1-66 (196)
136 COG0556 UvrB Helicase subunit 97.7 9.6E-05 2.1E-09 62.3 6.9 72 54-131 12-88 (663)
137 PF02562 PhoH: PhoH-like prote 97.7 8.6E-05 1.9E-09 55.9 5.9 59 52-111 2-60 (205)
138 PLN03142 Probable chromatin-re 97.7 0.00086 1.9E-08 61.4 12.9 106 54-163 169-282 (1033)
139 PF12340 DUF3638: Protein of u 97.6 0.0031 6.8E-08 48.2 12.9 128 33-165 4-145 (229)
140 KOG1123|consensus 97.5 5.5E-05 1.2E-09 63.4 2.8 96 54-160 302-400 (776)
141 TIGR00631 uvrb excinuclease AB 97.5 0.0015 3.2E-08 57.5 11.6 67 54-126 9-80 (655)
142 COG4889 Predicted helicase [Ge 97.5 0.00075 1.6E-08 60.2 9.4 99 33-138 141-243 (1518)
143 PF07652 Flavi_DEAD: Flaviviru 97.4 0.00022 4.8E-09 50.6 3.9 87 68-167 3-89 (148)
144 PRK12900 secA preprotein trans 97.3 0.00038 8.2E-09 62.9 5.5 107 55-168 139-246 (1025)
145 PF14617 CMS1: U3-containing 9 97.3 0.00057 1.2E-08 53.1 5.9 74 99-173 125-200 (252)
146 KOG1803|consensus 97.3 0.00082 1.8E-08 57.5 7.1 64 54-120 185-249 (649)
147 PRK04914 ATP-dependent helicas 97.2 0.004 8.7E-08 56.9 11.1 104 54-162 152-259 (956)
148 PRK14722 flhF flagellar biosyn 97.2 0.0016 3.5E-08 53.5 7.8 89 69-161 137-227 (374)
149 PRK10536 hypothetical protein; 97.2 0.0016 3.5E-08 50.7 7.3 60 50-110 55-114 (262)
150 PRK05298 excinuclease ABC subu 97.2 0.0058 1.3E-07 53.9 11.6 69 51-126 10-83 (652)
151 PRK13894 conjugal transfer ATP 97.2 0.0019 4.1E-08 52.0 7.9 68 42-112 122-190 (319)
152 PRK10919 ATP-dependent DNA hel 97.2 0.0015 3.3E-08 57.7 7.7 69 54-124 2-71 (672)
153 PRK11054 helD DNA helicase IV; 97.1 0.0053 1.1E-07 54.4 10.1 78 53-132 195-273 (684)
154 PRK12901 secA preprotein trans 97.1 0.0011 2.3E-08 60.3 5.6 107 55-168 170-278 (1112)
155 KOG0920|consensus 97.0 0.0088 1.9E-07 54.1 11.1 108 55-168 174-282 (924)
156 COG2805 PilT Tfp pilus assembl 97.0 0.0047 1E-07 49.1 8.3 111 28-157 102-229 (353)
157 PRK13833 conjugal transfer pro 97.0 0.0038 8.3E-08 50.3 8.1 65 45-112 121-186 (323)
158 TIGR02782 TrbB_P P-type conjug 97.0 0.0033 7.2E-08 50.2 7.7 68 42-112 106-174 (299)
159 TIGR01074 rep ATP-dependent DN 96.9 0.0039 8.4E-08 55.0 8.0 69 55-125 2-71 (664)
160 KOG4150|consensus 96.9 0.00077 1.7E-08 57.6 2.8 117 46-163 278-397 (1034)
161 TIGR01447 recD exodeoxyribonuc 96.8 0.0075 1.6E-07 52.5 8.7 67 56-122 147-215 (586)
162 TIGR01448 recD_rel helicase, p 96.8 0.013 2.8E-07 52.3 10.4 68 49-118 319-386 (720)
163 COG1643 HrpA HrpA-like helicas 96.8 0.016 3.6E-07 52.2 10.8 106 56-169 52-158 (845)
164 PRK11773 uvrD DNA-dependent he 96.8 0.0048 1E-07 55.0 7.6 70 54-125 9-79 (721)
165 TIGR01075 uvrD DNA helicase II 96.8 0.0051 1.1E-07 54.8 7.7 71 53-125 3-74 (715)
166 COG3587 Restriction endonuclea 96.8 0.0043 9.3E-08 55.2 6.9 50 69-119 74-123 (985)
167 TIGR02785 addA_Gpos recombinat 96.7 0.0066 1.4E-07 57.2 8.1 68 55-124 2-69 (1232)
168 COG0610 Type I site-specific r 96.7 0.012 2.6E-07 54.0 9.3 94 70-168 274-368 (962)
169 PRK12723 flagellar biosynthesi 96.6 0.011 2.4E-07 48.9 8.0 91 69-162 174-267 (388)
170 PRK10875 recD exonuclease V su 96.6 0.017 3.8E-07 50.5 9.4 65 56-121 154-220 (615)
171 TIGR03499 FlhF flagellar biosy 96.5 0.011 2.3E-07 46.9 7.1 86 69-159 194-282 (282)
172 TIGR02768 TraA_Ti Ti-type conj 96.5 0.034 7.5E-07 49.8 10.6 76 39-118 338-414 (744)
173 COG1419 FlhF Flagellar GTP-bin 96.4 0.033 7.1E-07 46.1 9.4 89 69-160 203-292 (407)
174 PRK13889 conjugal transfer rel 96.4 0.035 7.5E-07 51.1 10.2 65 50-118 343-408 (988)
175 TIGR01073 pcrA ATP-dependent D 96.4 0.013 2.9E-07 52.2 7.4 71 53-125 3-74 (726)
176 PRK05973 replicative DNA helic 96.3 0.02 4.3E-07 44.2 7.3 85 35-124 21-115 (237)
177 TIGR02525 plasmid_TraJ plasmid 96.3 0.017 3.7E-07 47.5 7.2 26 69-95 149-174 (372)
178 PRK12727 flagellar biosynthesi 96.3 0.062 1.3E-06 46.2 10.6 90 68-161 349-440 (559)
179 PRK14721 flhF flagellar biosyn 96.3 0.024 5.2E-07 47.4 8.0 91 69-162 191-282 (420)
180 PF01695 IstB_IS21: IstB-like 96.3 0.014 3E-07 43.0 5.9 47 68-118 46-92 (178)
181 PRK06995 flhF flagellar biosyn 96.2 0.031 6.7E-07 47.5 8.2 89 69-161 256-346 (484)
182 KOG1132|consensus 96.2 0.023 5E-07 50.8 7.6 73 54-126 21-136 (945)
183 PRK05703 flhF flagellar biosyn 96.1 0.036 7.8E-07 46.5 8.4 87 69-160 221-310 (424)
184 PF05970 PIF1: PIF1-like helic 96.1 0.023 5E-07 46.6 7.0 59 55-116 2-66 (364)
185 cd01130 VirB11-like_ATPase Typ 96.0 0.014 3E-07 43.2 4.9 38 47-86 4-42 (186)
186 COG0653 SecA Preprotein transl 96.0 0.038 8.3E-07 49.5 8.2 106 54-166 80-186 (822)
187 PRK11889 flhF flagellar biosyn 96.0 0.048 1E-06 45.3 8.2 86 70-161 242-332 (436)
188 TIGR03877 thermo_KaiC_1 KaiC d 96.0 0.02 4.4E-07 44.0 5.8 53 68-124 20-72 (237)
189 COG1484 DnaC DNA replication p 95.9 0.025 5.4E-07 44.1 6.2 66 52-121 81-153 (254)
190 PF09848 DUF2075: Uncharacteri 95.9 0.025 5.5E-07 46.1 6.2 52 71-123 3-54 (352)
191 TIGR02562 cas3_yersinia CRISPR 95.8 0.042 9.2E-07 50.5 7.9 84 54-138 408-499 (1110)
192 cd01124 KaiC KaiC is a circadi 95.8 0.03 6.6E-07 40.9 5.9 50 71-124 1-50 (187)
193 PRK13851 type IV secretion sys 95.7 0.023 5E-07 46.3 5.4 44 65-112 158-201 (344)
194 COG4962 CpaF Flp pilus assembl 95.7 0.045 9.7E-07 44.3 6.9 58 51-112 154-212 (355)
195 KOG1133|consensus 95.7 0.018 3.9E-07 50.3 4.8 42 54-95 15-60 (821)
196 PRK08181 transposase; Validate 95.6 0.064 1.4E-06 42.2 7.4 60 55-118 88-151 (269)
197 PRK06835 DNA replication prote 95.6 0.086 1.9E-06 42.7 8.3 46 69-118 183-228 (329)
198 TIGR00064 ftsY signal recognit 95.6 0.12 2.7E-06 40.6 9.1 87 70-162 73-167 (272)
199 PF02534 T4SS-DNA_transf: Type 95.6 0.019 4.1E-07 48.5 4.7 56 70-134 45-100 (469)
200 cd01126 TraG_VirD4 The TraG/Tr 95.6 0.012 2.6E-07 48.5 3.3 48 71-123 1-48 (384)
201 TIGR01425 SRP54_euk signal rec 95.5 0.13 2.8E-06 43.2 9.2 85 71-161 102-194 (429)
202 PRK13900 type IV secretion sys 95.5 0.073 1.6E-06 43.2 7.6 29 65-94 156-184 (332)
203 PRK14723 flhF flagellar biosyn 95.5 0.049 1.1E-06 48.7 7.0 89 69-161 185-275 (767)
204 KOG0390|consensus 95.5 0.26 5.6E-06 44.2 11.2 84 54-139 238-336 (776)
205 KOG4439|consensus 95.5 0.079 1.7E-06 46.7 7.8 105 54-160 325-441 (901)
206 TIGR00959 ffh signal recogniti 95.4 0.13 2.8E-06 43.2 8.8 86 71-161 101-194 (428)
207 PF06745 KaiC: KaiC; InterPro 95.4 0.036 7.8E-07 42.1 5.2 54 68-124 18-71 (226)
208 PRK13764 ATPase; Provisional 95.4 0.044 9.4E-07 47.8 6.2 27 68-95 256-282 (602)
209 PRK06921 hypothetical protein; 95.4 0.27 5.8E-06 38.6 10.0 48 68-118 116-163 (266)
210 KOG0953|consensus 95.3 0.034 7.4E-07 47.6 5.0 59 69-138 191-249 (700)
211 PRK12726 flagellar biosynthesi 95.3 0.088 1.9E-06 43.5 7.2 87 69-161 206-297 (407)
212 PRK08769 DNA polymerase III su 95.2 0.42 9.1E-06 38.6 10.8 116 53-169 3-164 (319)
213 PRK05707 DNA polymerase III su 95.2 0.24 5.1E-06 40.2 9.4 113 55-168 4-156 (328)
214 PRK13826 Dtr system oriT relax 95.2 0.29 6.4E-06 45.7 11.0 78 38-119 366-444 (1102)
215 TIGR02524 dot_icm_DotB Dot/Icm 95.1 0.079 1.7E-06 43.4 6.7 26 68-94 133-158 (358)
216 COG2804 PulE Type II secretory 95.1 0.057 1.2E-06 45.8 5.8 40 56-96 243-284 (500)
217 PRK06526 transposase; Provisio 95.0 0.069 1.5E-06 41.7 5.8 48 66-117 95-142 (254)
218 KOG0387|consensus 95.0 0.14 2.9E-06 45.7 8.0 104 54-161 205-326 (923)
219 COG3973 Superfamily I DNA and 95.0 0.12 2.7E-06 44.8 7.6 92 35-126 185-286 (747)
220 PRK08699 DNA polymerase III su 95.0 0.65 1.4E-05 37.6 11.4 33 56-88 3-40 (325)
221 PF00448 SRP54: SRP54-type pro 95.0 0.29 6.2E-06 36.7 8.8 84 72-161 4-95 (196)
222 TIGR03819 heli_sec_ATPase heli 94.9 0.11 2.3E-06 42.4 6.7 44 41-86 151-195 (340)
223 COG1219 ClpX ATP-dependent pro 94.9 0.019 4.1E-07 46.2 2.2 19 69-87 97-115 (408)
224 COG1875 NYN ribonuclease and A 94.8 0.071 1.5E-06 43.6 5.5 64 50-113 224-289 (436)
225 PRK04537 ATP-dependent RNA hel 94.8 0.2 4.3E-06 43.7 8.6 57 98-158 255-315 (572)
226 PRK04328 hypothetical protein; 94.8 0.083 1.8E-06 41.0 5.8 53 68-124 22-74 (249)
227 cd01122 GP4d_helicase GP4d_hel 94.8 0.022 4.9E-07 44.4 2.6 65 41-107 2-66 (271)
228 COG0630 VirB11 Type IV secreto 94.8 0.067 1.4E-06 43.0 5.3 47 45-94 120-167 (312)
229 KOG1131|consensus 94.8 0.28 6.1E-06 42.0 9.0 72 51-122 13-89 (755)
230 cd01129 PulE-GspE PulE/GspE Th 94.7 0.11 2.4E-06 40.7 6.3 45 46-94 58-104 (264)
231 TIGR02533 type_II_gspE general 94.7 0.088 1.9E-06 44.9 6.1 46 46-95 220-267 (486)
232 PRK10436 hypothetical protein; 94.7 0.091 2E-06 44.5 6.2 45 47-95 197-243 (462)
233 KOG1805|consensus 94.7 0.2 4.3E-06 45.7 8.3 68 53-123 668-736 (1100)
234 PRK11823 DNA repair protein Ra 94.7 0.31 6.8E-06 41.2 9.2 81 69-155 80-161 (446)
235 PRK13897 type IV secretion sys 94.6 0.051 1.1E-06 47.5 4.6 57 69-134 158-214 (606)
236 KOG1002|consensus 94.6 0.4 8.6E-06 41.0 9.5 106 54-167 184-294 (791)
237 PF10412 TrwB_AAD_bind: Type I 94.6 0.069 1.5E-06 44.2 5.1 52 64-118 10-61 (386)
238 cd01120 RecA-like_NTPases RecA 94.6 0.44 9.6E-06 33.3 8.8 40 72-114 2-41 (165)
239 PRK12377 putative replication 94.6 0.2 4.4E-06 38.9 7.4 47 69-119 101-147 (248)
240 PRK06871 DNA polymerase III su 94.6 0.81 1.8E-05 37.1 11.0 113 55-168 3-157 (325)
241 PF12846 AAA_10: AAA-like doma 94.6 0.092 2E-06 41.0 5.5 43 69-114 1-43 (304)
242 PF00437 T2SE: Type II/IV secr 94.5 0.09 2E-06 41.0 5.4 52 58-112 115-167 (270)
243 TIGR02538 type_IV_pilB type IV 94.5 0.11 2.3E-06 45.3 6.3 45 47-95 295-341 (564)
244 COG0513 SrmB Superfamily II DN 94.5 0.29 6.2E-06 42.1 8.8 64 90-157 263-330 (513)
245 PRK08533 flagellar accessory p 94.5 0.13 2.8E-06 39.5 6.0 54 66-123 21-74 (230)
246 TIGR03743 SXT_TraD conjugative 94.5 0.19 4.2E-06 44.3 7.7 55 69-126 176-232 (634)
247 PHA02244 ATPase-like protein 94.5 0.037 8.1E-07 45.4 3.1 23 65-87 115-137 (383)
248 COG1222 RPT1 ATP-dependent 26S 94.4 0.074 1.6E-06 43.4 4.7 72 13-87 129-203 (406)
249 PRK10416 signal recognition pa 94.4 0.61 1.3E-05 37.6 10.0 88 69-162 114-209 (318)
250 smart00382 AAA ATPases associa 94.4 0.046 1E-06 37.0 3.1 39 69-110 2-40 (148)
251 cd00009 AAA The AAA+ (ATPases 94.4 0.35 7.6E-06 32.9 7.7 38 69-109 19-56 (151)
252 PHA02533 17 large terminase pr 94.4 0.36 7.8E-06 41.7 9.1 69 54-123 59-127 (534)
253 PF02399 Herpes_ori_bp: Origin 94.4 0.11 2.4E-06 46.6 5.9 52 70-123 50-101 (824)
254 TIGR02640 gas_vesic_GvpN gas v 94.3 0.054 1.2E-06 42.3 3.7 27 61-87 13-39 (262)
255 TIGR03881 KaiC_arch_4 KaiC dom 94.3 0.15 3.2E-06 38.8 6.0 52 68-123 19-70 (229)
256 PRK11192 ATP-dependent RNA hel 94.3 0.33 7.2E-06 40.6 8.6 65 89-157 234-302 (434)
257 TIGR03878 thermo_KaiC_2 KaiC d 94.3 0.11 2.3E-06 40.7 5.3 38 67-107 34-71 (259)
258 KOG0385|consensus 94.3 0.79 1.7E-05 41.1 10.8 105 54-162 167-279 (971)
259 KOG0389|consensus 94.2 0.36 7.7E-06 43.2 8.6 103 55-161 400-510 (941)
260 PRK04837 ATP-dependent RNA hel 94.2 0.34 7.3E-06 40.4 8.4 56 99-158 254-313 (423)
261 PRK00771 signal recognition pa 94.2 0.36 7.8E-06 40.7 8.4 87 70-162 96-188 (437)
262 cd01127 TrwB Bacterial conjuga 94.1 0.064 1.4E-06 44.7 4.0 51 63-116 36-86 (410)
263 PF00931 NB-ARC: NB-ARC domain 94.1 0.21 4.4E-06 39.1 6.6 89 69-158 19-137 (287)
264 TIGR03754 conj_TOL_TraD conjug 94.0 0.33 7.3E-06 42.7 8.2 55 69-126 180-236 (643)
265 TIGR02784 addA_alphas double-s 94.0 0.2 4.4E-06 47.1 7.3 56 69-124 10-65 (1141)
266 PRK07952 DNA replication prote 93.9 0.46 9.9E-06 36.9 8.1 44 70-117 100-143 (244)
267 PRK14712 conjugal transfer nic 93.9 0.32 6.9E-06 47.1 8.4 64 54-118 835-902 (1623)
268 PRK08116 hypothetical protein; 93.9 0.58 1.3E-05 36.8 8.8 46 70-119 115-160 (268)
269 PRK13850 type IV secretion sys 93.9 0.097 2.1E-06 46.4 4.8 57 69-134 139-195 (670)
270 PF00308 Bac_DnaA: Bacterial d 93.9 0.12 2.7E-06 39.2 4.9 46 71-118 36-81 (219)
271 PRK11776 ATP-dependent RNA hel 93.8 0.47 1E-05 40.0 8.7 55 99-157 241-299 (460)
272 TIGR01547 phage_term_2 phage t 93.8 0.24 5.3E-06 40.9 6.9 53 71-123 3-56 (396)
273 PRK10590 ATP-dependent RNA hel 93.8 0.44 9.6E-06 40.2 8.5 58 97-158 242-303 (456)
274 TIGR02655 circ_KaiC circadian 93.7 0.17 3.7E-06 43.1 5.9 53 69-125 263-315 (484)
275 cd00544 CobU Adenosylcobinamid 93.7 0.44 9.6E-06 34.8 7.3 43 72-120 2-44 (169)
276 KOG0744|consensus 93.7 0.64 1.4E-05 37.7 8.5 67 69-136 177-257 (423)
277 PF12775 AAA_7: P-loop contain 93.6 0.059 1.3E-06 42.5 2.7 22 66-87 30-51 (272)
278 PRK14974 cell division protein 93.6 0.99 2.1E-05 36.7 9.8 85 70-161 141-234 (336)
279 PRK09183 transposase/IS protei 93.6 0.17 3.7E-06 39.5 5.3 47 66-116 99-145 (259)
280 PF01580 FtsK_SpoIIIE: FtsK/Sp 93.6 0.19 4.1E-06 37.5 5.3 27 69-95 38-64 (205)
281 cd00984 DnaB_C DnaB helicase C 93.5 0.27 5.9E-06 37.5 6.2 48 66-115 10-60 (242)
282 KOG0331|consensus 93.5 0.45 9.8E-06 40.8 7.9 64 89-157 331-398 (519)
283 PF13481 AAA_25: AAA domain; P 93.5 0.37 8.1E-06 35.3 6.7 57 68-125 31-94 (193)
284 TIGR02760 TraI_TIGR conjugativ 93.4 0.41 8.9E-06 47.5 8.4 63 53-117 1018-1085(1960)
285 PRK10867 signal recognition pa 93.4 0.87 1.9E-05 38.4 9.3 86 71-161 102-195 (433)
286 KOG0729|consensus 93.4 0.15 3.2E-06 40.3 4.4 96 14-117 156-252 (435)
287 TIGR03880 KaiC_arch_3 KaiC dom 93.3 0.31 6.6E-06 36.9 6.2 53 68-124 15-67 (224)
288 TIGR00614 recQ_fam ATP-depende 93.3 0.53 1.1E-05 40.0 8.1 56 99-158 225-284 (470)
289 TIGR02655 circ_KaiC circadian 93.3 0.23 4.9E-06 42.4 5.8 55 68-125 20-74 (484)
290 PTZ00361 26 proteosome regulat 93.2 0.088 1.9E-06 44.3 3.3 20 68-87 216-235 (438)
291 KOG0922|consensus 93.2 1.2 2.5E-05 39.2 10.0 101 56-166 53-156 (674)
292 PF04665 Pox_A32: Poxvirus A32 93.2 0.17 3.6E-06 39.2 4.6 24 70-94 14-37 (241)
293 COG1074 RecB ATP-dependent exo 93.1 0.23 4.9E-06 46.8 6.1 55 69-123 16-72 (1139)
294 COG0467 RAD55 RecA-superfamily 93.1 0.23 5E-06 38.6 5.2 58 66-127 20-77 (260)
295 PF13555 AAA_29: P-loop contai 93.0 0.1 2.2E-06 31.6 2.4 18 69-86 23-40 (62)
296 TIGR00416 sms DNA repair prote 93.0 0.68 1.5E-05 39.3 8.2 81 69-155 94-175 (454)
297 TIGR02237 recomb_radB DNA repa 93.0 0.33 7.1E-06 36.2 5.8 39 68-109 11-49 (209)
298 TIGR01420 pilT_fam pilus retra 92.9 0.22 4.8E-06 40.5 5.2 42 69-112 122-163 (343)
299 PRK06731 flhF flagellar biosyn 92.9 0.97 2.1E-05 35.6 8.5 86 69-161 75-166 (270)
300 PRK13709 conjugal transfer nic 92.9 0.57 1.2E-05 45.9 8.4 64 54-118 967-1034(1747)
301 PRK12724 flagellar biosynthesi 92.9 0.47 1E-05 39.8 7.0 84 70-161 224-311 (432)
302 TIGR02688 conserved hypothetic 92.8 0.2 4.3E-06 42.0 4.7 50 39-88 172-228 (449)
303 cd01131 PilT Pilus retraction 92.8 0.22 4.7E-06 37.2 4.6 23 72-95 4-26 (198)
304 KOG0333|consensus 92.8 0.59 1.3E-05 40.1 7.4 56 99-158 516-575 (673)
305 PF09439 SRPRB: Signal recogni 92.8 0.096 2.1E-06 38.7 2.6 22 69-90 3-24 (181)
306 PRK06964 DNA polymerase III su 92.7 1.6 3.6E-05 35.6 9.8 33 55-87 2-39 (342)
307 PRK06090 DNA polymerase III su 92.7 2.7 5.9E-05 34.0 10.9 113 55-169 4-159 (319)
308 PRK05642 DNA replication initi 92.6 0.49 1.1E-05 36.3 6.5 43 70-116 46-88 (234)
309 COG0606 Predicted ATPase with 92.6 0.13 2.8E-06 43.4 3.4 26 61-86 189-215 (490)
310 PF13401 AAA_22: AAA domain; P 92.6 0.091 2E-06 35.9 2.1 21 68-88 3-23 (131)
311 PRK13822 conjugal transfer cou 92.6 0.21 4.5E-06 44.1 4.8 58 69-135 224-281 (641)
312 PRK13531 regulatory ATPase Rav 92.5 0.31 6.6E-06 41.6 5.5 44 43-87 14-57 (498)
313 PTZ00454 26S protease regulato 92.5 0.094 2E-06 43.6 2.5 56 28-86 138-196 (398)
314 cd01121 Sms Sms (bacterial rad 92.5 1.6 3.4E-05 36.1 9.5 81 69-155 82-163 (372)
315 PF13207 AAA_17: AAA domain; P 92.5 0.1 2.2E-06 35.2 2.3 16 72-87 2-17 (121)
316 TIGR02788 VirB11 P-type DNA tr 92.4 0.19 4.2E-06 40.2 4.1 21 66-86 141-161 (308)
317 PF07728 AAA_5: AAA domain (dy 92.3 0.099 2.1E-06 36.4 2.1 17 71-87 1-17 (139)
318 KOG0925|consensus 92.3 0.89 1.9E-05 38.8 7.9 90 29-120 22-111 (699)
319 PRK03992 proteasome-activating 92.3 0.11 2.4E-06 43.1 2.6 54 30-86 126-182 (389)
320 PTZ00110 helicase; Provisional 92.3 1.2 2.5E-05 38.7 9.0 56 99-158 376-435 (545)
321 PLN03187 meiotic recombination 92.3 0.78 1.7E-05 37.5 7.5 28 27-54 27-54 (344)
322 cd03115 SRP The signal recogni 92.3 1.4 3.1E-05 31.8 8.2 84 72-161 3-94 (173)
323 PF01935 DUF87: Domain of unkn 92.2 0.31 6.8E-06 36.9 4.9 42 69-112 23-64 (229)
324 PRK04296 thymidine kinase; Pro 92.2 0.34 7.4E-06 35.9 4.9 37 69-108 2-38 (190)
325 PRK14087 dnaA chromosomal repl 92.2 0.65 1.4E-05 39.3 7.1 47 70-118 142-188 (450)
326 TIGR03158 cas3_cyano CRISPR-as 92.2 1.7 3.7E-05 35.5 9.4 56 99-158 271-326 (357)
327 PF00004 AAA: ATPase family as 92.2 0.12 2.7E-06 35.1 2.4 16 72-87 1-16 (132)
328 PRK06067 flagellar accessory p 92.1 0.58 1.3E-05 35.7 6.3 52 68-123 24-75 (234)
329 PF01078 Mg_chelatase: Magnesi 92.1 0.17 3.6E-06 38.3 3.1 19 68-86 21-39 (206)
330 TIGR00362 DnaA chromosomal rep 92.0 0.61 1.3E-05 38.7 6.8 47 70-118 137-183 (405)
331 TIGR01242 26Sp45 26S proteasom 92.0 0.18 3.8E-06 41.3 3.5 56 29-87 116-174 (364)
332 KOG0926|consensus 92.0 1 2.3E-05 40.7 8.2 98 61-168 263-367 (1172)
333 PRK01297 ATP-dependent RNA hel 92.0 1.2 2.6E-05 37.8 8.6 56 98-157 333-392 (475)
334 PRK11331 5-methylcytosine-spec 92.0 0.25 5.4E-06 41.7 4.3 33 55-87 180-212 (459)
335 PF13671 AAA_33: AAA domain; P 92.0 0.12 2.7E-06 35.9 2.3 15 72-86 2-16 (143)
336 PRK08727 hypothetical protein; 92.0 0.68 1.5E-05 35.5 6.5 50 70-123 42-91 (233)
337 TIGR03744 traC_PFL_4706 conjug 92.0 0.61 1.3E-05 42.9 7.2 41 69-111 475-515 (893)
338 PRK07993 DNA polymerase III su 92.0 3.1 6.7E-05 33.8 10.6 115 55-170 3-160 (334)
339 KOG1806|consensus 91.9 0.37 8E-06 44.3 5.5 71 52-123 736-806 (1320)
340 TIGR02880 cbbX_cfxQ probable R 91.9 0.44 9.5E-06 37.8 5.5 19 69-87 58-76 (284)
341 TIGR02012 tigrfam_recA protein 91.8 0.52 1.1E-05 38.1 5.9 40 67-109 53-92 (321)
342 PRK11634 ATP-dependent RNA hel 91.8 1.2 2.6E-05 39.4 8.6 55 99-157 244-302 (629)
343 COG0210 UvrD Superfamily I DNA 91.8 0.75 1.6E-05 40.6 7.4 70 54-125 2-72 (655)
344 PTZ00424 helicase 45; Provisio 91.8 1.6 3.5E-05 35.9 9.0 57 98-158 265-325 (401)
345 COG1444 Predicted P-loop ATPas 91.7 1.5 3.2E-05 39.4 9.0 81 47-128 207-289 (758)
346 PRK08939 primosomal protein Dn 91.7 0.47 1E-05 38.1 5.5 46 69-118 156-201 (306)
347 PRK00149 dnaA chromosomal repl 91.7 0.71 1.5E-05 39.0 6.8 47 70-118 149-195 (450)
348 PRK05800 cobU adenosylcobinami 91.6 1.6 3.6E-05 31.8 7.9 37 70-112 2-38 (170)
349 cd01394 radB RadB. The archaea 91.6 0.38 8.3E-06 36.2 4.7 36 69-107 19-54 (218)
350 PRK13876 conjugal transfer cou 91.6 0.19 4.2E-06 44.5 3.5 50 69-123 144-193 (663)
351 PF13238 AAA_18: AAA domain; P 91.5 0.15 3.3E-06 34.5 2.3 16 72-87 1-16 (129)
352 PF03193 DUF258: Protein of un 91.5 0.42 9.1E-06 34.7 4.6 45 41-85 2-51 (161)
353 KOG0733|consensus 91.5 0.18 4E-06 44.0 3.1 55 30-87 506-563 (802)
354 PF13191 AAA_16: AAA ATPase do 91.5 0.54 1.2E-05 33.9 5.3 28 69-97 24-51 (185)
355 PHA02535 P terminase ATPase su 91.4 1.4 3.1E-05 38.3 8.4 86 38-125 122-207 (581)
356 COG0593 DnaA ATPase involved i 91.4 0.89 1.9E-05 38.0 6.9 55 69-124 113-174 (408)
357 TIGR02767 TraG-Ti Ti-type conj 91.4 0.35 7.6E-06 42.6 4.8 49 70-123 212-260 (623)
358 PRK13700 conjugal transfer pro 91.3 0.29 6.4E-06 43.5 4.3 75 41-118 157-231 (732)
359 TIGR02759 TraD_Ftype type IV c 91.2 0.29 6.4E-06 42.6 4.2 43 67-112 174-216 (566)
360 cd00983 recA RecA is a bacter 91.2 0.65 1.4E-05 37.6 5.8 39 69-110 55-93 (325)
361 PRK14729 miaA tRNA delta(2)-is 91.0 0.17 3.8E-06 40.4 2.4 18 70-87 5-22 (300)
362 PRK13880 conjugal transfer cou 91.0 0.19 4E-06 44.4 2.7 46 69-119 175-220 (636)
363 CHL00181 cbbX CbbX; Provisiona 90.9 0.68 1.5E-05 36.8 5.6 21 69-89 59-79 (287)
364 TIGR03420 DnaA_homol_Hda DnaA 90.9 0.55 1.2E-05 35.3 5.0 21 68-88 37-57 (226)
365 PRK08084 DNA replication initi 90.8 0.74 1.6E-05 35.3 5.7 37 69-108 45-81 (235)
366 TIGR01389 recQ ATP-dependent D 90.8 1.4 3E-05 38.5 8.0 55 100-158 224-282 (591)
367 PRK11057 ATP-dependent DNA hel 90.8 1.5 3.3E-05 38.6 8.2 56 99-158 235-294 (607)
368 TIGR02760 TraI_TIGR conjugativ 90.8 1.4 3.1E-05 43.9 8.7 63 54-119 429-493 (1960)
369 TIGR03238 dnd_assoc_3 dnd syst 90.8 1.8 3.9E-05 37.0 8.2 76 56-135 12-99 (504)
370 PRK09361 radB DNA repair and r 90.7 0.54 1.2E-05 35.6 4.8 38 69-109 23-60 (225)
371 TIGR03015 pepcterm_ATPase puta 90.7 0.38 8.2E-06 37.3 4.0 34 54-87 23-61 (269)
372 PRK09354 recA recombinase A; P 90.6 0.74 1.6E-05 37.6 5.7 39 69-110 60-98 (349)
373 PRK14088 dnaA chromosomal repl 90.6 1 2.2E-05 38.0 6.8 47 70-118 131-177 (440)
374 PF07724 AAA_2: AAA domain (Cd 90.4 0.22 4.7E-06 36.5 2.3 16 71-86 5-20 (171)
375 PRK10078 ribose 1,5-bisphospho 90.3 0.23 5E-06 36.5 2.4 19 69-87 2-20 (186)
376 PF00625 Guanylate_kin: Guanyl 90.2 0.58 1.3E-05 34.3 4.5 18 69-86 2-19 (183)
377 KOG0738|consensus 90.2 0.25 5.4E-06 40.9 2.6 57 30-86 181-262 (491)
378 TIGR02881 spore_V_K stage V sp 90.1 0.22 4.7E-06 38.8 2.2 20 69-88 42-61 (261)
379 COG1224 TIP49 DNA helicase TIP 90.1 0.24 5.2E-06 40.6 2.5 27 68-95 64-90 (450)
380 PF06309 Torsin: Torsin; Inte 90.1 1.9 4.1E-05 30.0 6.6 50 73-123 57-112 (127)
381 PRK09302 circadian clock prote 90.0 0.88 1.9E-05 39.0 6.0 53 68-124 272-324 (509)
382 KOG0745|consensus 89.9 0.22 4.7E-06 41.8 2.1 37 70-111 227-263 (564)
383 TIGR02746 TraC-F-type type-IV 89.8 0.63 1.4E-05 42.0 5.2 40 69-111 430-469 (797)
384 TIGR00580 mfd transcription-re 89.8 1.5 3.2E-05 40.5 7.5 58 99-158 659-720 (926)
385 KOG0652|consensus 89.8 0.85 1.8E-05 36.0 5.1 63 26-89 162-225 (424)
386 COG1203 CRISPR-associated heli 89.8 1.1 2.4E-05 40.3 6.6 56 99-158 439-502 (733)
387 COG5008 PilU Tfp pilus assembl 89.8 0.41 8.9E-06 37.8 3.4 18 71-88 129-146 (375)
388 TIGR03689 pup_AAA proteasome A 89.8 0.24 5.3E-06 42.5 2.4 54 30-86 177-233 (512)
389 COG3451 VirB4 Type IV secretor 89.7 0.6 1.3E-05 42.4 4.9 24 71-94 438-461 (796)
390 PRK06893 DNA replication initi 89.7 0.74 1.6E-05 35.2 4.8 37 69-108 39-75 (229)
391 PF06068 TIP49: TIP49 C-termin 89.7 0.26 5.7E-06 40.5 2.4 37 68-107 49-85 (398)
392 TIGR02928 orc1/cdc6 family rep 89.7 1.1 2.3E-05 36.5 6.0 24 70-94 41-64 (365)
393 PF14532 Sigma54_activ_2: Sigm 89.7 0.6 1.3E-05 32.5 4.0 22 65-86 17-38 (138)
394 KOG2340|consensus 89.6 1.7 3.6E-05 37.6 7.1 73 53-125 215-318 (698)
395 PRK08903 DnaA regulatory inact 89.6 0.83 1.8E-05 34.6 5.0 19 69-87 42-60 (227)
396 PRK08118 topology modulation p 89.5 0.28 6.2E-06 35.6 2.3 17 70-86 2-18 (167)
397 PF02456 Adeno_IVa2: Adenoviru 89.5 0.43 9.2E-06 38.4 3.4 46 72-118 90-135 (369)
398 TIGR01241 FtsH_fam ATP-depende 89.4 0.28 6.1E-06 41.9 2.6 56 28-86 48-105 (495)
399 PRK00131 aroK shikimate kinase 89.4 0.28 6.1E-06 35.2 2.2 20 68-87 3-22 (175)
400 PF05729 NACHT: NACHT domain 89.4 0.92 2E-05 31.9 4.9 25 71-96 2-26 (166)
401 cd01125 repA Hexameric Replica 89.3 1.8 3.9E-05 33.1 6.7 37 71-107 3-48 (239)
402 PF13177 DNA_pol3_delta2: DNA 89.3 5.3 0.00012 28.7 8.9 100 70-169 20-153 (162)
403 COG1136 SalX ABC-type antimicr 89.3 0.26 5.7E-06 37.7 2.0 20 66-85 28-47 (226)
404 KOG0924|consensus 89.3 2.7 5.9E-05 37.5 8.3 70 55-128 357-429 (1042)
405 PLN02165 adenylate isopentenyl 89.3 0.34 7.3E-06 39.3 2.7 20 69-88 43-62 (334)
406 TIGR01587 cas3_core CRISPR-ass 89.2 3.7 8.1E-05 33.2 8.9 58 99-158 221-286 (358)
407 PRK12402 replication factor C 89.2 0.61 1.3E-05 37.3 4.2 18 71-88 38-55 (337)
408 KOG0060|consensus 89.2 0.27 5.7E-06 42.6 2.2 22 65-86 457-478 (659)
409 PRK10689 transcription-repair 89.2 1.9 4E-05 40.9 7.8 57 99-157 808-868 (1147)
410 PRK12678 transcription termina 89.2 1.5 3.2E-05 38.5 6.6 67 24-95 371-441 (672)
411 KOG0332|consensus 89.2 2.2 4.8E-05 35.3 7.2 54 101-158 331-388 (477)
412 PRK09302 circadian clock prote 89.1 1 2.2E-05 38.7 5.7 54 68-124 30-83 (509)
413 PTZ00035 Rad51 protein; Provis 89.1 2.2 4.7E-05 34.8 7.3 38 70-107 119-159 (337)
414 TIGR01650 PD_CobS cobaltochela 89.0 0.54 1.2E-05 38.1 3.7 24 64-87 59-82 (327)
415 COG1126 GlnQ ABC-type polar am 89.0 0.29 6.2E-06 37.4 2.0 20 66-85 25-44 (240)
416 KOG0989|consensus 89.0 0.72 1.6E-05 37.0 4.3 25 69-93 57-81 (346)
417 KOG1807|consensus 88.9 2.1 4.6E-05 38.6 7.4 80 43-122 365-449 (1025)
418 PRK00411 cdc6 cell division co 88.8 0.98 2.1E-05 37.1 5.3 37 69-106 55-91 (394)
419 PTZ00301 uridine kinase; Provi 88.7 1.1 2.3E-05 34.0 5.0 15 72-86 6-20 (210)
420 PRK07261 topology modulation p 88.7 0.36 7.7E-06 35.2 2.3 17 71-87 2-18 (171)
421 PRK14530 adenylate kinase; Pro 88.7 0.35 7.6E-06 36.4 2.4 20 68-87 2-21 (215)
422 PF00158 Sigma54_activat: Sigm 88.7 1.5 3.3E-05 31.9 5.7 41 67-109 20-60 (168)
423 TIGR00390 hslU ATP-dependent p 88.7 0.83 1.8E-05 38.4 4.7 18 70-87 48-65 (441)
424 KOG0391|consensus 88.6 4.1 8.9E-05 38.7 9.2 106 55-164 616-729 (1958)
425 COG0714 MoxR-like ATPases [Gen 88.6 0.6 1.3E-05 37.7 3.8 27 60-86 34-60 (329)
426 cd00227 CPT Chloramphenicol (C 88.6 0.4 8.7E-06 34.9 2.6 19 69-87 2-20 (175)
427 COG2256 MGS1 ATPase related to 88.4 4.1 8.8E-05 34.0 8.4 63 70-139 49-114 (436)
428 PRK14963 DNA polymerase III su 88.4 9.3 0.0002 33.0 11.0 18 71-88 38-55 (504)
429 COG3267 ExeA Type II secretory 88.4 3.2 6.9E-05 32.5 7.4 30 65-95 46-76 (269)
430 TIGR00767 rho transcription te 88.3 4.8 0.00011 33.7 8.9 29 66-95 165-193 (415)
431 PRK07399 DNA polymerase III su 88.2 8.8 0.00019 30.9 10.2 39 70-109 27-78 (314)
432 PRK00300 gmk guanylate kinase; 88.2 0.41 9E-06 35.5 2.5 19 68-86 4-22 (205)
433 TIGR02322 phosphon_PhnN phosph 88.2 0.41 8.8E-06 34.8 2.4 18 70-87 2-19 (179)
434 COG1474 CDC6 Cdc6-related prot 88.1 1.8 3.8E-05 35.7 6.2 25 70-95 43-67 (366)
435 KOG2373|consensus 88.1 0.64 1.4E-05 38.1 3.5 89 69-157 273-382 (514)
436 KOG0392|consensus 88.1 3.4 7.3E-05 39.2 8.4 105 55-162 976-1090(1549)
437 PRK00091 miaA tRNA delta(2)-is 88.1 0.4 8.6E-06 38.5 2.4 18 70-87 5-22 (307)
438 TIGR01243 CDC48 AAA family ATP 88.0 0.45 9.8E-06 42.7 2.9 54 31-87 449-505 (733)
439 TIGR01313 therm_gnt_kin carboh 88.0 0.33 7.3E-06 34.7 1.8 15 72-86 1-15 (163)
440 PRK05342 clpX ATP-dependent pr 87.9 0.41 9E-06 40.0 2.5 19 69-87 108-126 (412)
441 cd00071 GMPK Guanosine monopho 87.9 0.59 1.3E-05 32.7 3.0 15 72-86 2-16 (137)
442 KOG1533|consensus 87.8 0.64 1.4E-05 36.0 3.2 24 71-95 4-27 (290)
443 COG1197 Mfd Transcription-repa 87.8 8.5 0.00018 36.3 10.8 97 59-157 732-862 (1139)
444 PRK04220 2-phosphoglycerate ki 87.7 0.86 1.9E-05 36.5 4.1 47 39-86 60-109 (301)
445 PF00005 ABC_tran: ABC transpo 87.7 0.37 8.1E-06 33.2 1.8 20 67-86 9-28 (137)
446 cd00820 PEPCK_HprK Phosphoenol 87.7 0.45 9.7E-06 32.1 2.1 21 68-88 14-34 (107)
447 PRK07764 DNA polymerase III su 87.7 9.4 0.0002 35.0 11.0 19 71-89 39-57 (824)
448 PHA03333 putative ATPase subun 87.6 4.5 9.7E-05 36.2 8.6 59 65-125 183-241 (752)
449 COG0552 FtsY Signal recognitio 87.6 4.2 9.1E-05 33.0 7.9 86 71-162 141-234 (340)
450 TIGR00382 clpX endopeptidase C 87.6 0.44 9.6E-06 39.8 2.5 18 70-87 117-134 (413)
451 PRK14737 gmk guanylate kinase; 87.5 0.57 1.2E-05 34.7 2.8 18 69-86 4-21 (186)
452 KOG1205|consensus 87.4 6.1 0.00013 31.4 8.6 86 67-162 10-103 (282)
453 TIGR00665 DnaB replicative DNA 87.3 2.7 5.9E-05 35.2 7.1 40 66-107 192-231 (434)
454 COG0553 HepA Superfamily II DN 87.3 6.6 0.00014 35.5 10.0 109 53-163 337-460 (866)
455 COG0324 MiaA tRNA delta(2)-iso 87.2 0.48 1E-05 38.0 2.4 17 71-87 5-21 (308)
456 cd02025 PanK Pantothenate kina 87.2 1.3 2.9E-05 33.6 4.7 15 72-86 2-16 (220)
457 TIGR03263 guanyl_kin guanylate 87.2 0.53 1.1E-05 34.2 2.5 18 69-86 1-18 (180)
458 TIGR02974 phageshock_pspF psp 87.1 1.7 3.8E-05 35.2 5.6 46 61-108 14-59 (329)
459 PRK13873 conjugal transfer ATP 86.9 1.1 2.4E-05 40.7 4.8 38 71-110 443-480 (811)
460 cd01393 recA_like RecA is a b 86.7 1.2 2.7E-05 33.5 4.4 42 68-109 18-62 (226)
461 COG1855 ATPase (PilT family) [ 86.7 1.8 3.9E-05 36.8 5.5 41 28-86 240-280 (604)
462 cd01918 HprK_C HprK/P, the bif 86.7 0.54 1.2E-05 33.7 2.2 19 69-87 14-32 (149)
463 PRK04914 ATP-dependent helicas 86.7 4.6 9.9E-05 37.6 8.5 56 99-157 492-553 (956)
464 TIGR03600 phage_DnaB phage rep 86.6 3.3 7.2E-05 34.6 7.2 45 61-107 186-230 (421)
465 PRK11608 pspF phage shock prot 86.6 1.8 4E-05 34.9 5.5 44 64-109 24-67 (326)
466 PRK09694 helicase Cas3; Provis 86.5 5.8 0.00013 36.6 9.1 58 99-157 559-628 (878)
467 KOG4150|consensus 86.5 1.6 3.4E-05 38.2 5.1 92 38-143 371-464 (1034)
468 PRK13767 ATP-dependent helicas 86.5 6.4 0.00014 36.3 9.4 59 100-158 284-348 (876)
469 COG4525 TauB ABC-type taurine 86.5 0.71 1.5E-05 35.0 2.7 21 66-86 28-48 (259)
470 KOG0340|consensus 86.4 4.4 9.6E-05 33.3 7.4 69 85-158 240-312 (442)
471 COG1223 Predicted ATPase (AAA+ 86.4 0.55 1.2E-05 37.0 2.2 18 69-86 151-168 (368)
472 PF03796 DnaB_C: DnaB-like hel 86.3 4.6 0.0001 31.2 7.5 40 67-108 17-56 (259)
473 PF05496 RuvB_N: Holliday junc 86.3 1.7 3.7E-05 33.4 4.8 59 71-138 52-110 (233)
474 PF03237 Terminase_6: Terminas 86.3 2.3 5.1E-05 33.9 6.0 42 73-115 1-42 (384)
475 TIGR01243 CDC48 AAA family ATP 86.2 0.46 1E-05 42.6 2.0 54 30-86 173-229 (733)
476 PF00485 PRK: Phosphoribulokin 86.2 0.58 1.3E-05 34.6 2.3 15 72-86 2-16 (194)
477 PRK13342 recombination factor 86.1 6.3 0.00014 32.9 8.6 19 70-88 37-55 (413)
478 TIGR02902 spore_lonB ATP-depen 86.1 0.2 4.4E-06 43.2 -0.3 19 69-87 86-104 (531)
479 cd00464 SK Shikimate kinase (S 86.0 0.65 1.4E-05 32.6 2.4 17 71-87 1-17 (154)
480 KOG0731|consensus 86.0 0.55 1.2E-05 42.1 2.3 56 27-87 303-362 (774)
481 PHA00729 NTP-binding motif con 85.9 0.64 1.4E-05 35.6 2.4 50 71-121 19-78 (226)
482 KOG0733|consensus 85.9 1.1 2.4E-05 39.4 4.0 56 28-86 183-240 (802)
483 cd01123 Rad51_DMC1_radA Rad51_ 85.8 1.1 2.4E-05 34.0 3.7 41 68-108 18-61 (235)
484 COG3839 MalK ABC-type sugar tr 85.8 0.53 1.2E-05 38.3 2.0 21 66-86 26-46 (338)
485 PRK13891 conjugal transfer pro 85.8 1.4 3.1E-05 40.3 5.0 39 71-111 490-528 (852)
486 PHA02544 44 clamp loader, smal 85.8 6.1 0.00013 31.4 8.1 40 32-86 18-60 (316)
487 cd00079 HELICc Helicase superf 85.8 8.2 0.00018 25.7 9.1 56 99-158 27-86 (131)
488 KOG0330|consensus 85.7 2.8 6E-05 34.9 6.0 56 99-158 299-358 (476)
489 COG1702 PhoH Phosphate starvat 85.7 1.6 3.4E-05 35.5 4.6 45 52-96 126-170 (348)
490 TIGR02236 recomb_radA DNA repa 85.7 1.3 2.8E-05 35.3 4.2 41 69-109 95-138 (310)
491 cd02019 NK Nucleoside/nucleoti 85.7 0.78 1.7E-05 28.0 2.3 15 72-86 2-16 (69)
492 TIGR01970 DEAH_box_HrpB ATP-de 85.7 8.6 0.00019 35.3 9.7 58 100-158 209-270 (819)
493 TIGR00174 miaA tRNA isopenteny 85.7 0.66 1.4E-05 36.9 2.4 17 72-88 2-18 (287)
494 TIGR02239 recomb_RAD51 DNA rep 85.6 3.7 8.1E-05 33.1 6.8 22 70-91 97-118 (316)
495 TIGR02397 dnaX_nterm DNA polym 85.6 16 0.00035 29.4 10.6 18 70-87 37-54 (355)
496 PLN02796 D-glycerate 3-kinase 85.5 1.7 3.8E-05 35.5 4.8 16 72-87 103-118 (347)
497 COG0470 HolB ATPase involved i 85.4 10 0.00022 30.0 9.2 20 69-88 23-43 (325)
498 TIGR02773 addB_Gpos ATP-depend 85.4 3.7 8E-05 39.0 7.5 48 73-121 5-52 (1158)
499 TIGR00631 uvrb excinuclease AB 85.4 4 8.7E-05 36.4 7.3 55 99-157 441-499 (655)
500 PF03029 ATP_bind_1: Conserved 85.3 1.1 2.3E-05 34.7 3.4 22 74-96 1-22 (238)
No 1
>KOG0330|consensus
Probab=100.00 E-value=3.2e-34 Score=226.41 Aligned_cols=147 Identities=33% Similarity=0.560 Sum_probs=140.2
Q ss_pred ccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEE
Q psy9277 27 DVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCL 106 (178)
Q Consensus 27 ~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil 106 (178)
..+..++|.++++++++++++++.|++.||++|+++||.++.|+|++..|.||||||.+|++|+++++..+...++++|+
T Consensus 56 ~~e~~~sf~dLgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVL 135 (476)
T KOG0330|consen 56 TDESFKSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVL 135 (476)
T ss_pred hhhhhcchhhcCcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEe
Confidence 35678899999999999999999999999999999999999999999999999999999999999999988888999999
Q ss_pred cCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 107 SPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 107 ~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
+||||||.|+...+..++...|+++.++.||.+...+...+.+.|||+|+|||+|.+++.++.++..
T Consensus 136 tPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~l 202 (476)
T KOG0330|consen 136 TPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENTKGFSL 202 (476)
T ss_pred cCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhccCccH
Confidence 9999999999999999999999999999999999999999999999999999999999998776643
No 2
>KOG0331|consensus
Probab=100.00 E-value=9.5e-33 Score=228.02 Aligned_cols=142 Identities=33% Similarity=0.588 Sum_probs=135.5
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh------cCCCceEEE
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT------QLRETQVLC 105 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~------~~~~~~~li 105 (178)
..|.+++|+++...+++..||..|||+|.+.||.++.|+|++..|.||||||++|++|++.++.. ..+++++|+
T Consensus 91 ~~f~~~~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLV 170 (519)
T KOG0331|consen 91 AAFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLV 170 (519)
T ss_pred hhhhcccccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEE
Confidence 37999999999999999999999999999999999999999999999999999999999999875 345789999
Q ss_pred EcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 106 LSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 106 l~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
|+||||||.|+...+.+++..+.+++++++||.+...|...+.++.+|+|+|||||.|++..+.+++.
T Consensus 171 L~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~ 238 (519)
T KOG0331|consen 171 LAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLS 238 (519)
T ss_pred EcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999988764
No 3
>KOG0338|consensus
Probab=100.00 E-value=6.3e-33 Score=225.31 Aligned_cols=145 Identities=34% Similarity=0.567 Sum_probs=136.6
Q ss_pred ccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCC---ceEEEEc
Q psy9277 31 VSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRE---TQVLCLS 107 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~---~~~lil~ 107 (178)
..+|.+++|+-.+++++..+||..|||+|..+||..+-|+|++.||-||||||.+|++|+|.++.....+ .++|||+
T Consensus 180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~ 259 (691)
T KOG0338|consen 180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLV 259 (691)
T ss_pred hhhHHhcccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEe
Confidence 5589999999999999999999999999999999999999999999999999999999999999765443 4899999
Q ss_pred CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCccc
Q psy9277 108 PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRTTN 175 (178)
Q Consensus 108 Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~~~ 175 (178)
|||+|+.|++.+.+++++...+.+++++||.+.+.+...++.+|||+|+|||||.|+|+|...+..++
T Consensus 260 PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~lds 327 (691)
T KOG0338|consen 260 PTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDS 327 (691)
T ss_pred ccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999998876654
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.4e-32 Score=227.83 Aligned_cols=141 Identities=38% Similarity=0.640 Sum_probs=130.7
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh--cCCCceEEEEcCc
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT--QLRETQVLCLSPT 109 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~--~~~~~~~lil~Pt 109 (178)
..|++++|++++++++.+.||..||++|..+||.++.|+|+++.|+||||||++|++|+++.+.. ......+||++||
T Consensus 29 ~~F~~l~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PT 108 (513)
T COG0513 29 PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPT 108 (513)
T ss_pred CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCC
Confidence 78999999999999999999999999999999999999999999999999999999999999874 2222229999999
Q ss_pred HHHHHHHHHHHHHhccCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 110 RELAVQIQKVVLALGDFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
|+||.|+++.+..+.... +++++.++||.+...+...+..++||||+|||||+|++.++.+++
T Consensus 109 RELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l 172 (513)
T COG0513 109 RELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDL 172 (513)
T ss_pred HHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcch
Confidence 999999999999999998 799999999999999999999899999999999999999986554
No 5
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=1.4e-31 Score=221.63 Aligned_cols=143 Identities=29% Similarity=0.468 Sum_probs=131.6
Q ss_pred cccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-------CCCce
Q psy9277 30 VVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-------LRETQ 102 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-------~~~~~ 102 (178)
...+|++++|+++++++|.++||.+||++|.++||.+++|+|++++||||||||++|++|+++.+... ..+++
T Consensus 6 ~~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~ 85 (423)
T PRK04837 6 TEQKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPR 85 (423)
T ss_pred CCCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCce
Confidence 45789999999999999999999999999999999999999999999999999999999999988642 23478
Q ss_pred EEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 103 VLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 103 ~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
+|||+||++||.|+++.+..+....++++..++|+...+.+...+.+++||+|+||++|.+++.++.+++
T Consensus 86 ~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l 155 (423)
T PRK04837 86 ALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINL 155 (423)
T ss_pred EEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCccc
Confidence 9999999999999999999999999999999999999988888888889999999999999998776544
No 6
>PTZ00110 helicase; Provisional
Probab=99.98 E-value=2.6e-31 Score=225.76 Aligned_cols=148 Identities=27% Similarity=0.448 Sum_probs=135.5
Q ss_pred cccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-----C
Q psy9277 24 TSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-----L 98 (178)
Q Consensus 24 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-----~ 98 (178)
..+.+.++.+|++++|+++++++|.++||.+||++|.++||.+++|+|++++||||||||++|++|++..+... .
T Consensus 122 g~~~p~p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~ 201 (545)
T PTZ00110 122 GENVPKPVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYG 201 (545)
T ss_pred CCCCCcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCC
Confidence 34567788999999999999999999999999999999999999999999999999999999999999887543 2
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGR 171 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~ 171 (178)
.++++|||+||++||.|+++.+..+....++++.+++|+.+...+...+..+++|+|+||++|.+++.++...
T Consensus 202 ~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~ 274 (545)
T PTZ00110 202 DGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTN 274 (545)
T ss_pred CCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCC
Confidence 3678999999999999999999999998899999999999998888888889999999999999999876544
No 7
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.98 E-value=4.1e-31 Score=223.61 Aligned_cols=152 Identities=28% Similarity=0.529 Sum_probs=137.4
Q ss_pred cccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh---
Q psy9277 20 VEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT--- 96 (178)
Q Consensus 20 ~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~--- 96 (178)
+.+.....++++.+|++++|++.++++|.+.||..||++|.++||.+++|+|++++||||||||++|++|++.++..
T Consensus 109 i~~~g~~~p~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~ 188 (518)
T PLN00206 109 IHVKGEAVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRS 188 (518)
T ss_pred CEecCCCCCchhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhcc
Confidence 34445567789999999999999999999999999999999999999999999999999999999999999988743
Q ss_pred ----cCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCC
Q psy9277 97 ----QLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGR 171 (178)
Q Consensus 97 ----~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~ 171 (178)
...++++|||+||++||.|+++.++.+.+..++++..++||.....+...+..+++|+|+||++|.+++..+.+.
T Consensus 189 ~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~ 267 (518)
T PLN00206 189 GHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIE 267 (518)
T ss_pred ccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCCcc
Confidence 224679999999999999999999999998899999999999988888888889999999999999999877544
No 8
>KOG0348|consensus
Probab=99.97 E-value=2.7e-31 Score=216.76 Aligned_cols=150 Identities=29% Similarity=0.489 Sum_probs=133.2
Q ss_pred ccccccccccccCCCCHHHHHHH-HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh------c
Q psy9277 25 SEDVEVVSTFDNMGLREDLLRGI-YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT------Q 97 (178)
Q Consensus 25 ~~~~~~~~~f~~~~l~~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~------~ 97 (178)
++.+..-..|..+|||+.+...| ..+++..||.+|.++||.+++|+|++|.++||||||++|++|+++.+.. .
T Consensus 129 ~e~~fts~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~R 208 (708)
T KOG0348|consen 129 SEAPFTSAAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQR 208 (708)
T ss_pred cccccccccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccc
Confidence 44455567799999999999999 5889999999999999999999999999999999999999999999854 3
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHhccCCCc-eEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCcc
Q psy9277 98 LRETQVLCLSPTRELAVQIQKVVLALGDFMNV-QCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRTT 174 (178)
Q Consensus 98 ~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~~ 174 (178)
..|+.+|+|+||||||.|+|+.+.++.+.+-. .-+.+.||...+.+...+++|++|+|+|||||+|+|.++......
T Consensus 209 s~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s 286 (708)
T KOG0348|consen 209 SDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFS 286 (708)
T ss_pred cCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccchheee
Confidence 46789999999999999999999999887653 346678999999998999999999999999999999998765543
No 9
>KOG0340|consensus
Probab=99.97 E-value=4e-31 Score=206.86 Aligned_cols=140 Identities=39% Similarity=0.608 Sum_probs=135.0
Q ss_pred ccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 29 EVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 29 ~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
...+.|+++||++|+.+.|+.+|+++|||+|..|||.|++|+|++-+|.||||||.+|.+|+++++.....+.++++++|
T Consensus 4 ~t~~~F~~LGl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTP 83 (442)
T KOG0340|consen 4 KTAKPFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTP 83 (442)
T ss_pred cccCchhhcCccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecc
Confidence 34678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 109 TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 109 t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
||+||.|+.+.|..+++..++++.+++||++.-.+...+...+||+|+||||+.+++.++
T Consensus 84 TrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn 143 (442)
T KOG0340|consen 84 TRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSN 143 (442)
T ss_pred hHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccC
Confidence 999999999999999999999999999999999998999999999999999999998877
No 10
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.97 E-value=6.3e-30 Score=213.54 Aligned_cols=141 Identities=38% Similarity=0.671 Sum_probs=129.1
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcC------CCceEEE
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQL------RETQVLC 105 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~------~~~~~li 105 (178)
++|++++|+++++++|.++||..||++|.++||.+++|+|+++++|||||||++|++|+++.+.... ...++||
T Consensus 1 ~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLi 80 (456)
T PRK10590 1 MSFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALI 80 (456)
T ss_pred CCHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEE
Confidence 3799999999999999999999999999999999999999999999999999999999999886432 2358999
Q ss_pred EcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 106 LSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 106 l~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
|+||++||.|+++.++.+.+..++++..++|+.+.+.+...+..+++|+|+||++|++++....+.+
T Consensus 81 l~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l 147 (456)
T PRK10590 81 LTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKL 147 (456)
T ss_pred EeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCCccc
Confidence 9999999999999999999999999999999999998888888889999999999999988766543
No 11
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.97 E-value=9.8e-30 Score=217.04 Aligned_cols=138 Identities=33% Similarity=0.555 Sum_probs=127.9
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcC-------CCceEE
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQL-------RETQVL 104 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~-------~~~~~l 104 (178)
.+|++++|++.++++|.++||..||++|.++||.+++|+|+++++|||||||++|++|+++.+.... ..+++|
T Consensus 9 ~~f~~l~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raL 88 (572)
T PRK04537 9 LTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRAL 88 (572)
T ss_pred CChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEE
Confidence 5799999999999999999999999999999999999999999999999999999999999885421 247999
Q ss_pred EEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 105 CLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 105 il~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
||+||++|+.|+++.+..++...++++..++|+.+.+.+...+.++++|+|+||++|++++.+..
T Consensus 89 Il~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~ 153 (572)
T PRK04537 89 ILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHK 153 (572)
T ss_pred EEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999998888888889999999999999997653
No 12
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.97 E-value=8.6e-30 Score=212.98 Aligned_cols=141 Identities=37% Similarity=0.648 Sum_probs=130.5
Q ss_pred ccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 31 VSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
..+|++++|++.++++|.++||..||++|.++||.+++|+|++++||||||||++|++|+++.+.......+++|++||+
T Consensus 3 ~~~f~~l~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~Ptr 82 (460)
T PRK11776 3 MTAFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTR 82 (460)
T ss_pred CCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCH
Confidence 35799999999999999999999999999999999999999999999999999999999999987665567999999999
Q ss_pred HHHHHHHHHHHHhccCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCC
Q psy9277 111 ELAVQIQKVVLALGDFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGR 171 (178)
Q Consensus 111 ~L~~q~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~ 171 (178)
+||.|+++.++.+.... ++++..++|+.+...+...+..+++|+|+||++|.+++.++.+.
T Consensus 83 eLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~ 144 (460)
T PRK11776 83 ELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLD 144 (460)
T ss_pred HHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCCcc
Confidence 99999999999988754 78999999999999888888889999999999999999876654
No 13
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.97 E-value=1.1e-29 Score=218.30 Aligned_cols=143 Identities=40% Similarity=0.697 Sum_probs=132.1
Q ss_pred cccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 30 VVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
...+|++++|++.++++|.++||.+|+++|.++||.+++|+|++++||||||||++|++|+++.+......+++|||+||
T Consensus 4 ~~~~f~~l~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PT 83 (629)
T PRK11634 4 FETTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPT 83 (629)
T ss_pred ccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCc
Confidence 45679999999999999999999999999999999999999999999999999999999999998776667899999999
Q ss_pred HHHHHHHHHHHHHhccCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 110 RELAVQIQKVVLALGDFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
++||.|+++.+..+.... ++.++.++|+.+.+.+...+..+++|+|+||++|.+++.++.+++
T Consensus 84 reLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l 147 (629)
T PRK11634 84 RELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDL 147 (629)
T ss_pred HHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcch
Confidence 999999999999987765 799999999999998888888899999999999999998876553
No 14
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.97 E-value=2.4e-29 Score=208.83 Aligned_cols=141 Identities=33% Similarity=0.539 Sum_probs=129.7
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc----CCCceEEEEc
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ----LRETQVLCLS 107 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~----~~~~~~lil~ 107 (178)
++|++++|++.++++|.++||.+|+++|.++|+.+++|+|+++++|||+|||++|++|+++.+... ....++||++
T Consensus 1 ~~f~~l~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~ 80 (434)
T PRK11192 1 TTFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILT 80 (434)
T ss_pred CCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEEC
Confidence 379999999999999999999999999999999999999999999999999999999999988542 2346899999
Q ss_pred CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 108 PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 108 Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
||++||.|+++.+..+....++.+..++|+.....+...+.++++|+|+||++|++++.++.++.
T Consensus 81 Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~ 145 (434)
T PRK11192 81 PTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDC 145 (434)
T ss_pred CcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCc
Confidence 99999999999999999999999999999999988888888889999999999999998876543
No 15
>KOG0345|consensus
Probab=99.97 E-value=1.3e-29 Score=204.20 Aligned_cols=143 Identities=31% Similarity=0.572 Sum_probs=125.3
Q ss_pred ccccccCC--CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC---C--ceE
Q psy9277 31 VSTFDNMG--LREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR---E--TQV 103 (178)
Q Consensus 31 ~~~f~~~~--l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~---~--~~~ 103 (178)
...|++++ |++++++++.+.||+.+||+|..+||.+++++||++.++||||||++|++|++..+..... + .-+
T Consensus 3 ~~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vga 82 (567)
T KOG0345|consen 3 PKSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGA 82 (567)
T ss_pred CcchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeE
Confidence 45788776 5599999999999999999999999999999999999999999999999999998854321 1 368
Q ss_pred EEEcCcHHHHHHHHHHHHHhccC-CCceEEEEEcCccHHHHHHHhc-CCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 104 LCLSPTRELAVQIQKVVLALGDF-MNVQCHACIGGTNLSEDLRKLD-YGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 104 lil~Pt~~L~~q~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~~-~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
+||+|||+|+.|+.++...|... .++.+.+++||.+.++....+. ++++|+|||||||.+++++..-.++
T Consensus 83 lIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~ 154 (567)
T KOG0345|consen 83 LIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLS 154 (567)
T ss_pred EEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhcc
Confidence 99999999999999999988877 6889999999999888877776 5789999999999999998554444
No 16
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.96 E-value=1.7e-28 Score=205.96 Aligned_cols=145 Identities=32% Similarity=0.509 Sum_probs=129.7
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC-------C
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR-------E 100 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~-------~ 100 (178)
.+....|.+++|++.++++|.+.||.+|+++|.++|+.+++|+|+++++|||||||++|++|+++.+..... .
T Consensus 83 ~~~~~~f~~~~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~ 162 (475)
T PRK01297 83 QEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGE 162 (475)
T ss_pred ccCCCCHhHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCC
Confidence 455678999999999999999999999999999999999999999999999999999999999998865421 4
Q ss_pred ceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc-CCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 101 TQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD-YGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 101 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
+++|||+||++||.|+++.++.+.+..++++..++||.+.+.+...+. ..++|+|+||++|++++.+....+
T Consensus 163 ~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l 235 (475)
T PRK01297 163 PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHL 235 (475)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCCccc
Confidence 699999999999999999999999989999999999988877766664 468999999999999988765443
No 17
>KOG0328|consensus
Probab=99.96 E-value=2.6e-30 Score=197.43 Aligned_cols=158 Identities=80% Similarity=1.197 Sum_probs=148.8
Q ss_pred CCCCCcccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 15 EDLSNVEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
+..+...++.+++..+..+|+++||++++++++...||++|+.+|+.|++.|++|+|++.++.+|+|||..|.+.+++.+
T Consensus 10 ~~~~~~~feTs~~~~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~ 89 (400)
T KOG0328|consen 10 EDMDTVEFETSEKVKVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSL 89 (400)
T ss_pred ccccceeEeeccCcccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeec
Confidence 34556677778999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 95 DTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 95 ~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
.-+.+..+++|++|||+||.|+.+.+..++..+++++..+.||.+..+.+..+..|+|++.||||+++++++.+.+..
T Consensus 90 d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr~~L~t 167 (400)
T KOG0328|consen 90 DISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRSLRT 167 (400)
T ss_pred ccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHhccccc
Confidence 877778899999999999999999999999999999999999999999999999999999999999999999887654
No 18
>KOG0342|consensus
Probab=99.96 E-value=1.4e-29 Score=204.91 Aligned_cols=149 Identities=34% Similarity=0.524 Sum_probs=137.4
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc----CCCceE
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ----LRETQV 103 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~----~~~~~~ 103 (178)
......|+++.|++..+++++++||.++|++|..+++.++.|+|+++.|.||+|||++|++|+++.+.+. +++..+
T Consensus 78 ~~~~~~f~~~~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~v 157 (543)
T KOG0342|consen 78 ITTTFRFEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGV 157 (543)
T ss_pred hhhhhHhhccccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeE
Confidence 3345678999999999999999999999999999999999999999999999999999999999988653 345679
Q ss_pred EEEcCcHHHHHHHHHHHHHhccCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCcccc
Q psy9277 104 LCLSPTRELAVQIQKVVLALGDFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRTTNQ 176 (178)
Q Consensus 104 lil~Pt~~L~~q~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~~~~ 176 (178)
+|++|||+||.|++.+++.+.++. ++.+..+.||.........+.++|+|+|+|||||+|++++...+...|+
T Consensus 158 lIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~ 231 (543)
T KOG0342|consen 158 LIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTSGFLFRNL 231 (543)
T ss_pred EEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCCcchhhcc
Confidence 999999999999999999999988 8999999999999888888888999999999999999999999887765
No 19
>KOG0346|consensus
Probab=99.96 E-value=1.8e-29 Score=202.22 Aligned_cols=139 Identities=31% Similarity=0.471 Sum_probs=125.0
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc------CCCceEEE
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ------LRETQVLC 105 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~------~~~~~~li 105 (178)
++|++|+|++++++++.++||++||.+|..+||.+++|+|++..|.||||||.+|++|+++.+... ..++.++|
T Consensus 19 ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~i 98 (569)
T KOG0346|consen 19 KTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVI 98 (569)
T ss_pred ccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEE
Confidence 899999999999999999999999999999999999999999999999999999999999998543 34679999
Q ss_pred EcCcHHHHHHHHHHHHHhccCCC--ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 106 LSPTRELAVQIQKVVLALGDFMN--VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 106 l~Pt~~L~~q~~~~~~~~~~~~~--~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
++||++||+|+|..+.++...+. ++++-+.++++.+.....+.+.+||+|+||+++++++..+.+
T Consensus 99 LvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~ 165 (569)
T KOG0346|consen 99 LVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVL 165 (569)
T ss_pred EechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccc
Confidence 99999999999999988877653 666666767777766677888899999999999999988774
No 20
>PTZ00424 helicase 45; Provisional
Probab=99.96 E-value=4.5e-28 Score=199.12 Aligned_cols=143 Identities=64% Similarity=1.011 Sum_probs=131.3
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
.+...+|+++++++.++++|.+.||..|+++|.++|+.+++|+|+++++|||||||++|++|+++.+.....+.++||++
T Consensus 24 ~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~ 103 (401)
T PTZ00424 24 DEIVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILA 103 (401)
T ss_pred ccccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 44578999999999999999999999999999999999999999999999999999999999999886555667999999
Q ss_pred CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 108 PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 108 Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
|+++|+.|+++.+..++...++.+..+.|+....++...+..+++|+|+||++|.+++.++..
T Consensus 104 Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~ 166 (401)
T PTZ00424 104 PTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHL 166 (401)
T ss_pred CCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCCc
Confidence 999999999999999988888999999999988888888888899999999999999886654
No 21
>KOG0334|consensus
Probab=99.96 E-value=6.5e-29 Score=215.26 Aligned_cols=160 Identities=31% Similarity=0.566 Sum_probs=147.0
Q ss_pred cCCCCCCcccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHH
Q psy9277 13 IPEDLSNVEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQ 92 (178)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~ 92 (178)
.+..++.+.+...+-+.++++|.+.|++..++..++++||.+|+++|.+|||+|+.|+||+.+|-||||||++|++|++.
T Consensus 346 yr~~l~~i~v~g~~~pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmir 425 (997)
T KOG0334|consen 346 YRCELDGIKVKGKECPKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIR 425 (997)
T ss_pred hhcCccceeeccCCCCcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhh
Confidence 45566667888888899999999999999999999999999999999999999999999999999999999999999997
Q ss_pred Hhhh-----cCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHc
Q psy9277 93 SLDT-----QLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 93 ~l~~-----~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~ 167 (178)
++.. ...+|.++|++||++|+.|+++.++.|++.+++++++++|+....+++..+++++.|+|+|||+..|++--
T Consensus 426 hi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~ 505 (997)
T KOG0334|consen 426 HIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCA 505 (997)
T ss_pred hhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhh
Confidence 7643 24589999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred CCCCC
Q psy9277 168 SQGRR 172 (178)
Q Consensus 168 ~~~~~ 172 (178)
+.+.+
T Consensus 506 n~grv 510 (997)
T KOG0334|consen 506 NSGRV 510 (997)
T ss_pred cCCcc
Confidence 55443
No 22
>KOG0335|consensus
Probab=99.96 E-value=4.4e-29 Score=203.66 Aligned_cols=149 Identities=34% Similarity=0.464 Sum_probs=137.6
Q ss_pred ccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC-----
Q psy9277 25 SEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR----- 99 (178)
Q Consensus 25 ~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~----- 99 (178)
..-+.++.+|.+..+.+.+..+++..||..|||+|+.+||.+..|+++++||+||||||.+|++|++..+.....
T Consensus 67 ~~~p~~i~~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~ 146 (482)
T KOG0335|consen 67 RDVPPHIPTFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGE 146 (482)
T ss_pred CccCCCcccccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcc
Confidence 344566779999999999999999999999999999999999999999999999999999999999999866432
Q ss_pred -----CceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 100 -----ETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 100 -----~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
.++++|++|||+||.|+|+.++++.-..+++++.++|+.+...+.+.+..+|||+|+|||+|.+++..+.+.+.
T Consensus 147 ~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~ 225 (482)
T KOG0335|consen 147 SGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLD 225 (482)
T ss_pred cCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhcceeehh
Confidence 48999999999999999999999998899999999999999999999999999999999999999999887664
No 23
>KOG0339|consensus
Probab=99.96 E-value=1.4e-28 Score=200.04 Aligned_cols=153 Identities=31% Similarity=0.476 Sum_probs=142.0
Q ss_pred ccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc---
Q psy9277 21 EFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ--- 97 (178)
Q Consensus 21 ~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~--- 97 (178)
.+.....++++++|+.+++++.++.++.+.-|++||++|.+++|..+.|++++-+|-||||||.+|+.|++.++..+
T Consensus 212 rv~g~s~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL 291 (731)
T KOG0339|consen 212 RVSGSSPPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPEL 291 (731)
T ss_pred eeccCCCCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhh
Confidence 34456678899999999999999999999999999999999999999999999999999999999999999888542
Q ss_pred --CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 98 --LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 98 --~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
..+|..||++||++||.|++..+++|++..++++++++||.+..++...+..+|.|||+|||||+++++-+..++.
T Consensus 292 ~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~ 369 (731)
T KOG0339|consen 292 KPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLS 369 (731)
T ss_pred cCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccce
Confidence 4678999999999999999999999999999999999999999999999999999999999999999987776654
No 24
>KOG0343|consensus
Probab=99.95 E-value=2.5e-28 Score=200.19 Aligned_cols=148 Identities=28% Similarity=0.477 Sum_probs=135.7
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc----CCCceE
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ----LRETQV 103 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~----~~~~~~ 103 (178)
....+.|.+|+|+..++++|++.+|..+|.+|+.+||..+.|+||+..|.||||||++|++|+++++.+. ..|.-|
T Consensus 65 ~~~~~kF~dlpls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGa 144 (758)
T KOG0343|consen 65 STTIKKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGA 144 (758)
T ss_pred hhhhhhHHhCCCchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCcee
Confidence 3456789999999999999999999999999999999999999999999999999999999999999763 345679
Q ss_pred EEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCcccc
Q psy9277 104 LCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRTTNQ 176 (178)
Q Consensus 104 lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~~~~ 176 (178)
|||+|||+||.|+++.+.+.++..++..+++.||...+.+...+. +++|+|||||||+.+|..+......++
T Consensus 145 lIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~-~mNILVCTPGRLLQHmde~~~f~t~~l 216 (758)
T KOG0343|consen 145 LIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERIS-QMNILVCTPGRLLQHMDENPNFSTSNL 216 (758)
T ss_pred EEecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHHHhhh-cCCeEEechHHHHHHhhhcCCCCCCcc
Confidence 999999999999999999999999999999999999888766665 689999999999999999888877765
No 25
>KOG0333|consensus
Probab=99.95 E-value=4.7e-28 Score=197.50 Aligned_cols=148 Identities=29% Similarity=0.474 Sum_probs=136.7
Q ss_pred cccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc----
Q psy9277 22 FETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ---- 97 (178)
Q Consensus 22 ~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~---- 97 (178)
.+...-+.|+..|++.+|+.++++.+.+.||..|+|+|..++|..++.+|++..+.||||||++|++|++..+...
T Consensus 235 ~kg~~lpnplrnwEE~~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~ 314 (673)
T KOG0333|consen 235 IKGGRLPNPLRNWEESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMA 314 (673)
T ss_pred ecCCCCCccccChhhcCCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcc
Confidence 3444567899999999999999999999999999999999999999999999999999999999999999877442
Q ss_pred -----CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 98 -----LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 98 -----~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
..++.++|++|||+|++|+.+.-.+|++.++++++.++||.+.+++-..+..||+|+|+||++|.+.|.+.-
T Consensus 315 ~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Lenr~ 391 (673)
T KOG0333|consen 315 RLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLENRY 391 (673)
T ss_pred hhhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHHHH
Confidence 347899999999999999999999999999999999999999999988999999999999999999987653
No 26
>KOG0347|consensus
Probab=99.95 E-value=3e-28 Score=199.66 Aligned_cols=144 Identities=28% Similarity=0.528 Sum_probs=131.3
Q ss_pred ccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcC-CcEEEEcCCCChHHHHHHHHHHHHhhhc--------
Q psy9277 27 DVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKG-RDVIAQAQSGTGKTATFSISILQSLDTQ-------- 97 (178)
Q Consensus 27 ~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g-~~v~v~aptGsGKTl~~ll~il~~l~~~-------- 97 (178)
....+..|.+|+|+.+++++|..+||.+||++|+.++|.+..| .|++..|.||||||++|-+|+++++...
T Consensus 176 ~~~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~ 255 (731)
T KOG0347|consen 176 SKVDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELS 255 (731)
T ss_pred cccChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhh
Confidence 3455778999999999999999999999999999999999998 7999999999999999999999966332
Q ss_pred ---CCCce--EEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 98 ---LRETQ--VLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 98 ---~~~~~--~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
...++ +||++|||+||.|+...+..+....++++..++||.....+.+.+...+||+|+|||||+.++.....
T Consensus 256 ~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e~n~ 333 (731)
T KOG0347|consen 256 NTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEEDNT 333 (731)
T ss_pred hHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHhhhh
Confidence 12344 99999999999999999999999999999999999999999899999999999999999999987765
No 27
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.95 E-value=1.7e-26 Score=173.38 Aligned_cols=137 Identities=50% Similarity=0.841 Sum_probs=126.6
Q ss_pred cccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc--CCCceEEEEcCcHH
Q psy9277 34 FDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ--LRETQVLCLSPTRE 111 (178)
Q Consensus 34 f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~--~~~~~~lil~Pt~~ 111 (178)
|+++++++.+.+.+.+.|+..|+++|.++++.+.+|+|+++++|||+|||++|++|+++.+... ..+++++|++|+++
T Consensus 1 ~~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~ 80 (203)
T cd00268 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRE 80 (203)
T ss_pred CCcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHH
Confidence 7899999999999999999999999999999999999999999999999999999999998876 46789999999999
Q ss_pred HHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 112 LAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 112 L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
|+.|+...++.+....++.+..+.|+.+.......+.++++|+|+||++|.+++.+...
T Consensus 81 L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~ 139 (203)
T cd00268 81 LALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKL 139 (203)
T ss_pred HHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCC
Confidence 99999999999988888999999999988777777777899999999999999987753
No 28
>KOG0326|consensus
Probab=99.95 E-value=1.2e-28 Score=191.06 Aligned_cols=142 Identities=39% Similarity=0.695 Sum_probs=135.9
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
..|+++.|..+++..+.+.||++|+|+|.++||.++.|+|++..|..|+|||.+|.+|+++++....+..+++|++|||+
T Consensus 85 ~efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtre 164 (459)
T KOG0326|consen 85 NEFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRE 164 (459)
T ss_pred ccHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecch
Confidence 45999999999999999999999999999999999999999999999999999999999999998888889999999999
Q ss_pred HHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 112 LAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 112 L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
||.|....|+++++.+++++...+||++..+.+..+.+..|++|+||||++|++..+..++.
T Consensus 165 lALQtSqvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls 226 (459)
T KOG0326|consen 165 LALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKKGVADLS 226 (459)
T ss_pred hhHHHHHHHHHHhcccCeEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhcccccch
Confidence 99999999999999999999999999999999889999999999999999999998877654
No 29
>KOG0341|consensus
Probab=99.94 E-value=7e-28 Score=191.04 Aligned_cols=154 Identities=28% Similarity=0.467 Sum_probs=138.1
Q ss_pred CcccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh--
Q psy9277 19 NVEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT-- 96 (178)
Q Consensus 19 ~~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~-- 96 (178)
.+.++....++|+++|.++.++..+++.|++.|+..|||+|.+-+|.+++|+|.+-.|.||||||++|++|++.....
T Consensus 157 ~I~veGd~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE 236 (610)
T KOG0341|consen 157 HILVEGDDIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQE 236 (610)
T ss_pred eEEeeCCCCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHH
Confidence 355666778899999999999999999999999999999999999999999999999999999999999998765422
Q ss_pred ------cCCCceEEEEcCcHHHHHHHHHHHHHhccCC------CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHH
Q psy9277 97 ------QLRETQVLCLSPTRELAVQIQKVVLALGDFM------NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDM 164 (178)
Q Consensus 97 ------~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~------~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~ 164 (178)
...++..+|+||+|+||.|.++.+..|...+ .++..++.||.+..++...++.|.||+|+|||||.|+
T Consensus 237 ~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~Dm 316 (610)
T KOG0341|consen 237 MMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDM 316 (610)
T ss_pred hcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHH
Confidence 3467899999999999999999988776543 4799999999999999999999999999999999999
Q ss_pred HHcCCCCC
Q psy9277 165 IRSSQGRR 172 (178)
Q Consensus 165 l~~~~~~~ 172 (178)
|..+.+++
T Consensus 317 L~KK~~sL 324 (610)
T KOG0341|consen 317 LAKKIMSL 324 (610)
T ss_pred HHHhhccH
Confidence 98877654
No 30
>KOG0336|consensus
Probab=99.93 E-value=1.5e-26 Score=184.49 Aligned_cols=147 Identities=32% Similarity=0.483 Sum_probs=133.2
Q ss_pred ccccccccccc-CCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh------cC
Q psy9277 26 EDVEVVSTFDN-MGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT------QL 98 (178)
Q Consensus 26 ~~~~~~~~f~~-~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~------~~ 98 (178)
.-+.|.-+|++ |...+++++.+++.||.+|||+|+++||.+++|.|++..|.||+|||++|++|-+.++.. +.
T Consensus 213 pIPnP~ctFddAFq~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr 292 (629)
T KOG0336|consen 213 PIPNPVCTFDDAFQCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQR 292 (629)
T ss_pred cCCCCcCcHHHHHhhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhcc
Confidence 35677888988 678899999999999999999999999999999999999999999999999998876632 45
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
.++.+|+++||++|+.|+.-.+.++ .+.+.+.++++|+-+..++.+.++.+.+|+|+||++|.++.-.+.+++.
T Consensus 293 ~~p~~lvl~ptreLalqie~e~~ky-syng~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~i~l~ 366 (629)
T KOG0336|consen 293 NGPGVLVLTPTRELALQIEGEVKKY-SYNGLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNVINLA 366 (629)
T ss_pred CCCceEEEeccHHHHHHHHhHHhHh-hhcCcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCeeeee
Confidence 6789999999999999999999877 4558999999999999999999999999999999999999988887765
No 31
>KOG0329|consensus
Probab=99.93 E-value=8.3e-26 Score=170.89 Aligned_cols=143 Identities=36% Similarity=0.569 Sum_probs=134.0
Q ss_pred ccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 31 VSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
.+.|.++-|.|++++++-..||+.|+.+|.+|||...-|.|++++|.+|.|||.+|+++.++.+........++++|.||
T Consensus 41 ssgfrdfllkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtr 120 (387)
T KOG0329|consen 41 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTR 120 (387)
T ss_pred ccchhhhhcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccH
Confidence 56699999999999999999999999999999999999999999999999999999999999998776667899999999
Q ss_pred HHHHHHHHHHHHhccCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 111 ELAVQIQKVVLALGDFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 111 ~L~~q~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
+||-|+.+...+|++++ ++++.+++||...+...+.+++.|||+||||||++.+.+++.+++.
T Consensus 121 elafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk 184 (387)
T KOG0329|consen 121 ELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLK 184 (387)
T ss_pred HHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchh
Confidence 99999999999999886 6999999999999988889999899999999999999999988764
No 32
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.93 E-value=8.2e-25 Score=191.40 Aligned_cols=124 Identities=23% Similarity=0.305 Sum_probs=110.6
Q ss_pred CCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 38 GLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 38 ~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
.|++++.++|++.||++|+++|.++|+.+++|+|+++++|||||||++|++|+++.+..+ .+.++|||+||++|+.|++
T Consensus 20 ~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~-~~~~aL~l~PtraLa~q~~ 98 (742)
T TIGR03817 20 WAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD-PRATALYLAPTKALAADQL 98 (742)
T ss_pred cCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC-CCcEEEEEcChHHHHHHHH
Confidence 489999999999999999999999999999999999999999999999999999998764 4579999999999999999
Q ss_pred HHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHH
Q psy9277 118 KVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDM 164 (178)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~ 164 (178)
+.++.+. ..++++..+.|+.+.+++ ..+.++++|+|+||++|...
T Consensus 99 ~~l~~l~-~~~i~v~~~~Gdt~~~~r-~~i~~~~~IivtTPd~L~~~ 143 (742)
T TIGR03817 99 RAVRELT-LRGVRPATYDGDTPTEER-RWAREHARYVLTNPDMLHRG 143 (742)
T ss_pred HHHHHhc-cCCeEEEEEeCCCCHHHH-HHHhcCCCEEEEChHHHHHh
Confidence 9999987 457888888888876554 55666799999999998743
No 33
>KOG0327|consensus
Probab=99.93 E-value=3.1e-26 Score=180.87 Aligned_cols=154 Identities=62% Similarity=0.895 Sum_probs=138.8
Q ss_pred cccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC
Q psy9277 20 VEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR 99 (178)
Q Consensus 20 ~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~ 99 (178)
..+-.+++.+...+|++++|++++++.+...||++|+.+|+.||..+..|.|+.+.+++|+|||.+|.+++++.+.....
T Consensus 14 ~~~iesn~~evvdsfddm~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~k 93 (397)
T KOG0327|consen 14 EGVIESNWNEVVDSFDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVK 93 (397)
T ss_pred cccccccHHHHhhhhhhcCCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchH
Confidence 44556788899999999999999999999999999999999999999999999999999999999999999999987777
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh-cCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 100 ETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL-DYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 100 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
..++++++|+++||.|+..+...++...++++..+.|+.....+...+ ..+++|+|+|||++.+++..+.+...
T Consensus 94 e~qalilaPtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~l~~~ 168 (397)
T KOG0327|consen 94 ETQALILAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGSLSTD 168 (397)
T ss_pred HHHHHHhcchHHHHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhcccccccc
Confidence 789999999999999999999999999999999999998877444444 45799999999999999987755543
No 34
>KOG0350|consensus
Probab=99.93 E-value=1.8e-25 Score=181.62 Aligned_cols=145 Identities=22% Similarity=0.385 Sum_probs=123.5
Q ss_pred ccccccccCCCCHHHH----------HHHHhCCCCCCcHHHHHHHHHHHc---------CCcEEEEcCCCChHHHHHHHH
Q psy9277 29 EVVSTFDNMGLREDLL----------RGIYAYGFEKPSAIQQRSIKPIVK---------GRDVIAQAQSGTGKTATFSIS 89 (178)
Q Consensus 29 ~~~~~f~~~~l~~~i~----------~~l~~~g~~~~~~~Q~~~i~~i~~---------g~~v~v~aptGsGKTl~~ll~ 89 (178)
.....|+.+++++.+. +++.++++.+..|+|..++|.++. ++|+.|.||||||||++|.+|
T Consensus 124 nslq~~s~l~~se~k~~~d~lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iP 203 (620)
T KOG0350|consen 124 NSLQIFSVLGKSEMKNLEDTLEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIP 203 (620)
T ss_pred CceeeeeccchhHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhH
Confidence 3355577777766444 458999999999999999998864 579999999999999999999
Q ss_pred HHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCC-C----cEEEeChHHHHH
Q psy9277 90 ILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYG-Q----HVVSGTPGRVFD 163 (178)
Q Consensus 90 il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~-~----~IlV~TP~~l~~ 163 (178)
|++.+... -+..+|+||+||++|+.|+++.+..+....|+.|+.+.|..+...+...+.+. + ||+|+|||||.|
T Consensus 204 IVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVD 283 (620)
T KOG0350|consen 204 IVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVD 283 (620)
T ss_pred HHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHH
Confidence 99998754 34469999999999999999999999999999999999999998888877642 3 999999999999
Q ss_pred HHHcCCCCCc
Q psy9277 164 MIRSSQGRRT 173 (178)
Q Consensus 164 ~l~~~~~~~~ 173 (178)
++++...+..
T Consensus 284 Hl~~~k~f~L 293 (620)
T KOG0350|consen 284 HLNNTKSFDL 293 (620)
T ss_pred hccCCCCcch
Confidence 9997665443
No 35
>KOG0337|consensus
Probab=99.93 E-value=7.2e-26 Score=180.75 Aligned_cols=139 Identities=36% Similarity=0.588 Sum_probs=129.8
Q ss_pred ccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcC-CCceEEEEcCc
Q psy9277 31 VSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQL-RETQVLCLSPT 109 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~-~~~~~lil~Pt 109 (178)
...|..+||+..+++++.+.||..|||+|+..+|.++.+++++-.+.||||||.||++|+++++.... .+.++++++||
T Consensus 20 ~g~fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralilspt 99 (529)
T KOG0337|consen 20 SGGFQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPT 99 (529)
T ss_pred CCCccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCc
Confidence 67899999999999999999999999999999999999999999999999999999999999986533 45699999999
Q ss_pred HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 110 RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
++|+.|..+.++++++..++++++++|+.+.+++...+..++|||++||++++.+.....
T Consensus 100 reLa~qtlkvvkdlgrgt~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem~ 159 (529)
T KOG0337|consen 100 RELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEMT 159 (529)
T ss_pred HHHHHHHHHHHHHhccccchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehhee
Confidence 999999999999999999999999999999999999999999999999999977655444
No 36
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.92 E-value=1.4e-24 Score=188.14 Aligned_cols=129 Identities=21% Similarity=0.250 Sum_probs=120.6
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-----CCCceEEEEcCcHHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-----LRETQVLCLSPTRELA 113 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-----~~~~~~lil~Pt~~L~ 113 (178)
|++.+.+.+++. |..||+.|.+|||.+.+|+|++++||||||||+++++|++..+... ..+..+|||+|.++|.
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn 86 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN 86 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHH
Confidence 789999999886 9999999999999999999999999999999999999999999876 2346899999999999
Q ss_pred HHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 114 VQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 114 ~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.++.+.+...+..+|+.+.+.+|+++..++.+..++.|||+|||||.|.-++.+.
T Consensus 87 ~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~ 141 (814)
T COG1201 87 NDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSP 141 (814)
T ss_pred HHHHHHHHHHHHHcCCccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCH
Confidence 9999999999999999999999999999998999999999999999998888764
No 37
>PRK02362 ski2-like helicase; Provisional
Probab=99.92 E-value=4.6e-24 Score=187.28 Aligned_cols=130 Identities=18% Similarity=0.312 Sum_probs=114.7
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHH-HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKP-IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~-i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
..|++++|++++++++++.||.+|+|+|.+|++. +..|+|+++++|||||||++|.+|+++.+. .+.++||++|++
T Consensus 1 ~~~~~l~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~---~~~kal~i~P~r 77 (737)
T PRK02362 1 MKIAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIA---RGGKALYIVPLR 77 (737)
T ss_pred CChhhcCCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHh---cCCcEEEEeChH
Confidence 3689999999999999999999999999999998 778999999999999999999999999885 456899999999
Q ss_pred HHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 111 ELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 111 ~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
+||.|+++.++.+.. .++++..++|+...+.. ....++|+|+||+++..+++++
T Consensus 78 aLa~q~~~~~~~~~~-~g~~v~~~tGd~~~~~~---~l~~~~IiV~Tpek~~~llr~~ 131 (737)
T PRK02362 78 ALASEKFEEFERFEE-LGVRVGISTGDYDSRDE---WLGDNDIIVATSEKVDSLLRNG 131 (737)
T ss_pred HHHHHHHHHHHHhhc-CCCEEEEEeCCcCcccc---ccCCCCEEEECHHHHHHHHhcC
Confidence 999999999998753 58999999998765432 2245899999999999988864
No 38
>PRK00254 ski2-like helicase; Provisional
Probab=99.91 E-value=1.8e-23 Score=183.19 Aligned_cols=131 Identities=15% Similarity=0.258 Sum_probs=115.1
Q ss_pred ccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHH-HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 33 TFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKP-IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 33 ~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~-i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
+|+++++++.+.+.+++.||.+|+++|.++++. +.+|+|+++++|||||||++|.+|+++.+.. .+.++||++|+++
T Consensus 2 ~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~--~~~~~l~l~P~~a 79 (720)
T PRK00254 2 KVDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR--EGGKAVYLVPLKA 79 (720)
T ss_pred cHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh--cCCeEEEEeChHH
Confidence 688999999999999999999999999999986 7889999999999999999999999998765 3569999999999
Q ss_pred HHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 112 LAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 112 L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
|+.|+++.+..+. ..++++..++|+.+.+... ...++|+|+||+++..+++++.
T Consensus 80 La~q~~~~~~~~~-~~g~~v~~~~Gd~~~~~~~---~~~~~IiV~Tpe~~~~ll~~~~ 133 (720)
T PRK00254 80 LAEEKYREFKDWE-KLGLRVAMTTGDYDSTDEW---LGKYDIIIATAEKFDSLLRHGS 133 (720)
T ss_pred HHHHHHHHHHHHh-hcCCEEEEEeCCCCCchhh---hccCCEEEEcHHHHHHHHhCCc
Confidence 9999999998864 4689999999988754332 2468999999999998887643
No 39
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.90 E-value=7.7e-23 Score=181.94 Aligned_cols=129 Identities=22% Similarity=0.291 Sum_probs=109.8
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc------CCCceEEEEcCcHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ------LRETQVLCLSPTREL 112 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~------~~~~~~lil~Pt~~L 112 (178)
|++.+.+.+++ +|..|+++|.++|+.+++|+|++++||||||||++|++|+++.+... .++.++||++|+++|
T Consensus 18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL 96 (876)
T PRK13767 18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96 (876)
T ss_pred cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence 67777777766 79999999999999999999999999999999999999999988642 235689999999999
Q ss_pred HHHHHHHHHH-------hc----cCC-CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 113 AVQIQKVVLA-------LG----DFM-NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 113 ~~q~~~~~~~-------~~----~~~-~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
+.|+++.+.. +. ... ++++...+|+.+..++...+.+.++|+||||++|..++.+.
T Consensus 97 a~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~ 164 (876)
T PRK13767 97 NNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSP 164 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcCh
Confidence 9999986642 22 233 67889999999998887788888999999999998887654
No 40
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.89 E-value=3.5e-22 Score=145.42 Aligned_cols=114 Identities=27% Similarity=0.452 Sum_probs=101.1
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEE
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACI 135 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~ 135 (178)
|++|.++|+.+.+|+++++.+|||+|||++|++++++.+... +..+++|++|+++|+.|+++.+..+....++++..++
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~ 79 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG-KDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLH 79 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEES
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC-CCceEEEEeeccccccccccccccccccccccccccc
Confidence 789999999999999999999999999999999999988876 5569999999999999999999999988889999999
Q ss_pred cCccHH-HHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 136 GGTNLS-EDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 136 g~~~~~-~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
++...+ +....+.++++|+|+||++|.+++.+...
T Consensus 80 ~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~ 115 (169)
T PF00270_consen 80 GGQSISEDQREVLSNQADILVTTPEQLLDLISNGKI 115 (169)
T ss_dssp TTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSS
T ss_pred ccccccccccccccccccccccCcchhhcccccccc
Confidence 998866 44455556799999999999999987443
No 41
>KOG4284|consensus
Probab=99.89 E-value=8.6e-24 Score=176.36 Aligned_cols=144 Identities=34% Similarity=0.545 Sum_probs=131.9
Q ss_pred ccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 29 EVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 29 ~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
.....|+++.|..+++..|+..+|..||++|..|||.++.+.|++|++.+|+|||++|...+++.+..+...++++||+|
T Consensus 22 ~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~P 101 (980)
T KOG4284|consen 22 NCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTP 101 (980)
T ss_pred CCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEec
Confidence 34678999999999999999999999999999999999999999999999999999999999999988778889999999
Q ss_pred cHHHHHHHHHHHHHhccC-CCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 109 TRELAVQIQKVVLALGDF-MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 109 t~~L~~q~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
||++|.|+.+.+..++.. .|.++.++.||+........++ .|+|+|||||||..++..+..+..
T Consensus 102 TREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk-~~rIvIGtPGRi~qL~el~~~n~s 166 (980)
T KOG4284|consen 102 TREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRLK-QTRIVIGTPGRIAQLVELGAMNMS 166 (980)
T ss_pred chhhhhHHHHHHHHhcccccCcceEEEecCchhhhhhhhhh-hceEEecCchHHHHHHHhcCCCcc
Confidence 999999999999999875 4899999999999887766655 689999999999999998877654
No 42
>KOG0332|consensus
Probab=99.88 E-value=9.5e-23 Score=160.96 Aligned_cols=141 Identities=36% Similarity=0.657 Sum_probs=122.9
Q ss_pred cccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCc
Q psy9277 24 TSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSLDTQLRET 101 (178)
Q Consensus 24 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~ 101 (178)
.+.+.-..++|++++|.|++++++..++|.+|+.+|..++|.++. .+|.+.++.+|+|||.||++.+|.++......|
T Consensus 82 pnsPlyS~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~P 161 (477)
T KOG0332|consen 82 PNSPLYSAKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVP 161 (477)
T ss_pred CCCCccccccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCC
Confidence 344455689999999999999999999999999999999999998 589999999999999999999999998888889
Q ss_pred eEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHc
Q psy9277 102 QVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 102 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~ 167 (178)
+++.|+||++||.|..+++.++++..+++..+..-+.....- .. -..+|+|+|||.+.|++..
T Consensus 162 Q~iCLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~rG-~~--i~eqIviGTPGtv~Dlm~k 224 (477)
T KOG0332|consen 162 QCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKRG-NK--LTEQIVIGTPGTVLDLMLK 224 (477)
T ss_pred CceeeCchHHHHHHHHHHHHHhcCceeeeEEEEecCcccccC-Cc--chhheeeCCCccHHHHHHH
Confidence 999999999999999999999999988888888766622211 01 1248999999999999876
No 43
>PRK01172 ski2-like helicase; Provisional
Probab=99.87 E-value=1.7e-21 Score=169.76 Aligned_cols=130 Identities=20% Similarity=0.266 Sum_probs=112.2
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
+.|++++|++.+++.+.+.+|+ ++++|.++++.+.+|+|+++++|||||||+++.++++..+.. +.++||++|+++
T Consensus 1 ~~~~~~~l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~---~~k~v~i~P~ra 76 (674)
T PRK01172 1 MKISDLGYDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLA---GLKSIYIVPLRS 76 (674)
T ss_pred CcHhhcCCCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHh---CCcEEEEechHH
Confidence 3688999999999999999996 999999999999999999999999999999999999987763 468999999999
Q ss_pred HHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 112 LAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 112 L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
||.|+++.+.++. ..|+++...+|+....... ...++|+|+||+++..++++..
T Consensus 77 La~q~~~~~~~l~-~~g~~v~~~~G~~~~~~~~---~~~~dIiv~Tpek~~~l~~~~~ 130 (674)
T PRK01172 77 LAMEKYEELSRLR-SLGMRVKISIGDYDDPPDF---IKRYDVVILTSEKADSLIHHDP 130 (674)
T ss_pred HHHHHHHHHHHHh-hcCCeEEEEeCCCCCChhh---hccCCEEEECHHHHHHHHhCCh
Confidence 9999999998764 4688888888887654321 2368999999999988887643
No 44
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.87 E-value=2e-21 Score=169.53 Aligned_cols=134 Identities=19% Similarity=0.249 Sum_probs=119.5
Q ss_pred ccCCCCHHHHHHHH-----hCCCCCC---cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEE
Q psy9277 35 DNMGLREDLLRGIY-----AYGFEKP---SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCL 106 (178)
Q Consensus 35 ~~~~l~~~i~~~l~-----~~g~~~~---~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil 106 (178)
+.|++..++.+.+. .+||..| +|+|.++++.+..++++++.++||+|||++|++|++..+... ..++||
T Consensus 65 eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g---~~v~IV 141 (970)
T PRK12899 65 EAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG---KPVHLV 141 (970)
T ss_pred HHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc---CCeEEE
Confidence 55778888888876 6799988 999999999999999999999999999999999999877642 248999
Q ss_pred cCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcCCCCCc
Q psy9277 107 SPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSSQGRRT 173 (178)
Q Consensus 107 ~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~~~~~~ 173 (178)
+||++||.|.++.+..+.+.+++++.+++||.+..++...+ +|||+||||++| .|+++.+.+.+.
T Consensus 142 TpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y--~~DIVygTPgRLgfDyLrd~~~~~~ 207 (970)
T PRK12899 142 TVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY--QCDVVYGTASEFGFDYLRDNSIATR 207 (970)
T ss_pred eCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc--CCCEEEECCChhHHHHhhCCCCCcC
Confidence 99999999999999999999999999999999998886554 599999999999 999998865544
No 45
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.87 E-value=2.2e-21 Score=171.17 Aligned_cols=125 Identities=23% Similarity=0.303 Sum_probs=113.5
Q ss_pred CHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 40 REDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 40 ~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
...+..++.+.|+..++++|.+|+..+.+|+|++|++|||||||.+|++||++.+..... .++|+|+||++||++|.+.
T Consensus 56 ~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~-a~AL~lYPtnALa~DQ~~r 134 (851)
T COG1205 56 DESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPS-ARALLLYPTNALANDQAER 134 (851)
T ss_pred hhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcC-ccEEEEechhhhHhhHHHH
Confidence 445678888889999999999999999999999999999999999999999999987654 4999999999999999999
Q ss_pred HHHhccCCC--ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHH
Q psy9277 120 VLALGDFMN--VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMI 165 (178)
Q Consensus 120 ~~~~~~~~~--~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l 165 (178)
++++...++ +++..+.|++...+....+.+.++||+|||..|..++
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~l 182 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLL 182 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHh
Confidence 999998887 8889999999998887788889999999999997744
No 46
>KOG0344|consensus
Probab=99.86 E-value=9.7e-22 Score=162.45 Aligned_cols=151 Identities=26% Similarity=0.377 Sum_probs=123.9
Q ss_pred Cccccccccccccccccc----CCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 19 NVEFETSEDVEVVSTFDN----MGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 19 ~~~~~~~~~~~~~~~f~~----~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
.+.+...+-+.++.+|.+ +.+++.+++.+...||..|+++|.+|+|.++.+++++.|+|||||||++|.+|+++++
T Consensus 119 k~~v~G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L 198 (593)
T KOG0344|consen 119 KINVDGFHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHL 198 (593)
T ss_pred eeeccCCCCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHH
Confidence 355566666888999987 6789999999999999999999999999999999999999999999999999999998
Q ss_pred hhc-----CCCceEEEEcCcHHHHHHHHHHHHHhc--cCCCceEEEEEcCccHHHHH-HHhcCCCcEEEeChHHHHHHHH
Q psy9277 95 DTQ-----LRETQVLCLSPTRELAVQIQKVVLALG--DFMNVQCHACIGGTNLSEDL-RKLDYGQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 95 ~~~-----~~~~~~lil~Pt~~L~~q~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~-~~~~~~~~IlV~TP~~l~~~l~ 166 (178)
... ..+.+++|+.||++|+.|+++.++++. ...+.++..........+.. ......++|+|+||-+|..++.
T Consensus 199 ~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~ 278 (593)
T KOG0344|consen 199 KDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLG 278 (593)
T ss_pred HHhhcccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhc
Confidence 543 345799999999999999999999998 66666665554333222221 1222357999999999999998
Q ss_pred cCC
Q psy9277 167 SSQ 169 (178)
Q Consensus 167 ~~~ 169 (178)
.+.
T Consensus 279 ~~~ 281 (593)
T KOG0344|consen 279 LGK 281 (593)
T ss_pred CCC
Confidence 765
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.82 E-value=5.1e-19 Score=157.34 Aligned_cols=122 Identities=20% Similarity=0.245 Sum_probs=100.4
Q ss_pred cccccc--CCCCHHHHHHH-HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 31 VSTFDN--MGLREDLLRGI-YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 31 ~~~f~~--~~l~~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
.+.|.. ++....+...+ .-+||..++++|.++|+.++.|+|+++++|||+|||+||++|++. ....+|||+
T Consensus 434 ~~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~------~~GiTLVIS 507 (1195)
T PLN03137 434 DKKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALI------CPGITLVIS 507 (1195)
T ss_pred CccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHH------cCCcEEEEe
Confidence 344554 45556666666 457999999999999999999999999999999999999999986 246899999
Q ss_pred CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc------CCCcEEEeChHHHH
Q psy9277 108 PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD------YGQHVVSGTPGRVF 162 (178)
Q Consensus 108 Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~------~~~~IlV~TP~~l~ 162 (178)
|+++|++++...+... ++....+.++....++...+. ..++||++||++|.
T Consensus 508 PLiSLmqDQV~~L~~~----GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~ 564 (1195)
T PLN03137 508 PLVSLIQDQIMNLLQA----NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVA 564 (1195)
T ss_pred CHHHHHHHHHHHHHhC----CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhh
Confidence 9999999877776543 788999999988776655443 35799999999985
No 48
>PRK14701 reverse gyrase; Provisional
Probab=99.82 E-value=3.2e-19 Score=165.23 Aligned_cols=122 Identities=16% Similarity=0.146 Sum_probs=100.2
Q ss_pred HHHHHHHh-CCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 42 DLLRGIYA-YGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 42 ~i~~~l~~-~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
++.+.+++ .|| .||++|..+++.+++|+|++++||||+|||++++++.+... .++.+++||+||++|+.|+++.+
T Consensus 67 ~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~---~~g~~aLVl~PTreLa~Qi~~~l 142 (1638)
T PRK14701 67 EFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLA---LKGKKCYIILPTTLLVKQTVEKI 142 (1638)
T ss_pred HHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHH---hcCCeEEEEECHHHHHHHHHHHH
Confidence 45555655 899 69999999999999999999999999999997776665432 24579999999999999999999
Q ss_pred HHhccCC--CceEEEEEcCccHHHHHH---HhcC-CCcEEEeChHHHHHHHHc
Q psy9277 121 LALGDFM--NVQCHACIGGTNLSEDLR---KLDY-GQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 121 ~~~~~~~--~~~~~~~~g~~~~~~~~~---~~~~-~~~IlV~TP~~l~~~l~~ 167 (178)
+.++... ++++..++|+.+.+++.. .+.. .++|+|+||++|.+.+..
T Consensus 143 ~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~ 195 (1638)
T PRK14701 143 ESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPE 195 (1638)
T ss_pred HHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHH
Confidence 9998765 567788899988776643 3444 489999999999887653
No 49
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.82 E-value=2.6e-19 Score=155.94 Aligned_cols=120 Identities=21% Similarity=0.272 Sum_probs=101.7
Q ss_pred HHHHHHH-HhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHH
Q psy9277 41 EDLLRGI-YAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELA 113 (178)
Q Consensus 41 ~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~ 113 (178)
..+.+.+ ..++| +||++|.++++.+.++ ++++++||||||||++|++|++..+. .+.+++|++||++||
T Consensus 248 ~~~~~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~---~g~q~lilaPT~~LA 323 (681)
T PRK10917 248 GELLKKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE---AGYQAALMAPTEILA 323 (681)
T ss_pred hHHHHHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH---cCCeEEEEeccHHHH
Confidence 4455554 67788 5999999999999986 48999999999999999999998775 467999999999999
Q ss_pred HHHHHHHHHhccCCCceEEEEEcCccHHHHHH---HhcC-CCcEEEeChHHHHHH
Q psy9277 114 VQIQKVVLALGDFMNVQCHACIGGTNLSEDLR---KLDY-GQHVVSGTPGRVFDM 164 (178)
Q Consensus 114 ~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~-~~~IlV~TP~~l~~~ 164 (178)
.|+++.+++++...++++..++|+.+..++.. .+.+ .++|+||||+.+.+.
T Consensus 324 ~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~ 378 (681)
T PRK10917 324 EQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDD 378 (681)
T ss_pred HHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhccc
Confidence 99999999999999999999999998654433 3344 489999999988653
No 50
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.81 E-value=3.9e-19 Score=153.77 Aligned_cols=117 Identities=22% Similarity=0.284 Sum_probs=100.0
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 43 LLRGIYAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 43 i~~~l~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
+.+.+.+++| +||+.|.++++.++++ .+.+++||||||||++|++|++..+. .+.+++|++||++||.|+
T Consensus 225 ~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~---~g~qvlilaPT~~LA~Q~ 300 (630)
T TIGR00643 225 LTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE---AGYQVALMAPTEILAEQH 300 (630)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCCcEEEECCHHHHHHHH
Confidence 3445588899 6999999999999985 36899999999999999999998765 467999999999999999
Q ss_pred HHHHHHhccCCCceEEEEEcCccHHHHHH---HhcC-CCcEEEeChHHHHH
Q psy9277 117 QKVVLALGDFMNVQCHACIGGTNLSEDLR---KLDY-GQHVVSGTPGRVFD 163 (178)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~-~~~IlV~TP~~l~~ 163 (178)
++.+++++...++++..++|+.+..++.. .+.. .++|+||||+.+.+
T Consensus 301 ~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~ 351 (630)
T TIGR00643 301 YNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE 351 (630)
T ss_pred HHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc
Confidence 99999999988999999999988765433 3333 47999999998864
No 51
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.81 E-value=4.6e-19 Score=160.88 Aligned_cols=123 Identities=17% Similarity=0.183 Sum_probs=97.6
Q ss_pred HHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 42 DLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 42 ~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
++.+.+.+.....||++|..+++.++.|+|++++||||+|||+ |.+|++..+.. .+++++||+||++||.|+++.++
T Consensus 66 ~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~ 142 (1171)
T TIGR01054 66 EFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKIS 142 (1171)
T ss_pred HHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHH
Confidence 4444554433347999999999999999999999999999997 65666665543 46799999999999999999999
Q ss_pred HhccCCCceEE---EEEcCccHHHHHH---HhcC-CCcEEEeChHHHHHHHHc
Q psy9277 122 ALGDFMNVQCH---ACIGGTNLSEDLR---KLDY-GQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 122 ~~~~~~~~~~~---~~~g~~~~~~~~~---~~~~-~~~IlV~TP~~l~~~l~~ 167 (178)
.++...++.+. .++|+.+..++.. .+.+ +++|+|+||++|.+.+..
T Consensus 143 ~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~ 195 (1171)
T TIGR01054 143 SLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDE 195 (1171)
T ss_pred HHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHH
Confidence 99887776543 4678887765433 3333 589999999999988765
No 52
>PRK09401 reverse gyrase; Reviewed
Probab=99.81 E-value=7.1e-19 Score=159.61 Aligned_cols=114 Identities=20% Similarity=0.232 Sum_probs=92.9
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
..|+ +||++|..++|.++.|+|++++||||+|||. |.++++..+.. ++.+++||+||++||.|+++.++.++...+
T Consensus 76 ~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~--~g~~alIL~PTreLa~Qi~~~l~~l~~~~~ 151 (1176)
T PRK09401 76 KTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK--KGKKSYIIFPTRLLVEQVVEKLEKFGEKVG 151 (1176)
T ss_pred hcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHHHHhhhcC
Confidence 3477 7999999999999999999999999999996 44455444433 467999999999999999999999999888
Q ss_pred ceEEEEEcCcc-----HHHHHHHhc-CCCcEEEeChHHHHHHHH
Q psy9277 129 VQCHACIGGTN-----LSEDLRKLD-YGQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 129 ~~~~~~~g~~~-----~~~~~~~~~-~~~~IlV~TP~~l~~~l~ 166 (178)
+.+..++|+.. ..+....+. .+++|+|+||++|.+++.
T Consensus 152 ~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~ 195 (1176)
T PRK09401 152 CGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD 195 (1176)
T ss_pred ceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH
Confidence 88887776653 222333444 358999999999999876
No 53
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.81 E-value=5e-19 Score=148.57 Aligned_cols=105 Identities=18% Similarity=0.237 Sum_probs=88.3
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+.+||..|+|+|.++|+.+++|+|+++++|||+|||++|++|++. .+..+|||+|+++|+.|+++.+..+
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~------~~~~~lVi~P~~~L~~dq~~~l~~~---- 74 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC------SDGITLVISPLISLMEDQVLQLKAS---- 74 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH------cCCcEEEEecHHHHHHHHHHHHHHc----
Confidence 357999999999999999999999999999999999999999986 3458999999999999999988754
Q ss_pred CceEEEEEcCccHHHHHHH---h-cCCCcEEEeChHHHH
Q psy9277 128 NVQCHACIGGTNLSEDLRK---L-DYGQHVVSGTPGRVF 162 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~---~-~~~~~IlV~TP~~l~ 162 (178)
++.+..+.++....+.... + ...++|+++||+++.
T Consensus 75 gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~ 113 (470)
T TIGR00614 75 GIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCS 113 (470)
T ss_pred CCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHc
Confidence 7777778877766543322 2 234799999999974
No 54
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.79 E-value=2e-18 Score=153.52 Aligned_cols=119 Identities=19% Similarity=0.103 Sum_probs=98.9
Q ss_pred CCCHHHHHHH-HhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 38 GLREDLLRGI-YAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 38 ~l~~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
..+....+.+ ..++|+ ||+.|..||+.+.++ +|++++||||+|||.+|++|++..+. .+.+++|++||+
T Consensus 435 ~~~~~~~~~~~~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~---~g~qvlvLvPT~ 510 (926)
T TIGR00580 435 PPDLEWQQEFEDSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL---DGKQVAVLVPTT 510 (926)
T ss_pred CCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH---hCCeEEEEeCcH
Confidence 3455666666 556884 999999999999985 79999999999999999999998775 357999999999
Q ss_pred HHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH---hcC-CCcEEEeChHH
Q psy9277 111 ELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK---LDY-GQHVVSGTPGR 160 (178)
Q Consensus 111 ~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~-~~~IlV~TP~~ 160 (178)
+||.|+++.++++....++++..+.|+.+..++... +.. .++|+||||..
T Consensus 511 ~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~l 564 (926)
T TIGR00580 511 LLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKL 564 (926)
T ss_pred HHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHH
Confidence 999999999999888889999999888776544333 333 48999999953
No 55
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.79 E-value=1.6e-18 Score=151.45 Aligned_cols=116 Identities=19% Similarity=0.212 Sum_probs=95.4
Q ss_pred CCCCCCcHHHHHHHHHHHcCC-cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEE-EcCcHHHHHHHHHHHHHhccCC
Q psy9277 50 YGFEKPSAIQQRSIKPIVKGR-DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLC-LSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g~-~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~li-l~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
.||+ |+++|.++++.++.|+ ++++++|||||||.++.++.+. +......++.++ ++|||+||.|+++.++++++.+
T Consensus 12 ~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~-~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLA-VEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERL 89 (844)
T ss_pred hCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhcc-ccccccccceEEEeCchHHHHHHHHHHHHHHHHHh
Confidence 5887 9999999999999998 6788899999999976554443 222233455555 7799999999999998888754
Q ss_pred -----------------------CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCC
Q psy9277 128 -----------------------NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGR 171 (178)
Q Consensus 128 -----------------------~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~ 171 (178)
++++..++||.+.+.++..+..+++|||||+ |++.++.++
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~----D~i~sr~L~ 152 (844)
T TIGR02621 90 PDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTV----DMIGSRLLF 152 (844)
T ss_pred cccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECH----HHHcCCccc
Confidence 4889999999999999999999999999994 788777763
No 56
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.78 E-value=1.9e-18 Score=150.99 Aligned_cols=127 Identities=20% Similarity=0.292 Sum_probs=107.1
Q ss_pred CCCHHHHHHHHhCCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 38 GLREDLLRGIYAYGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 38 ~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
.+++.+.+.++..|+.++.+.|+.++..... ++|+++|+|||||||+++++.+++.+... +.+++|+||+++||.+.
T Consensus 15 ~~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~Ek 92 (766)
T COG1204 15 KLDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAEEK 92 (766)
T ss_pred cccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CCcEEEEeChHHHHHHH
Confidence 4777888888888888888888888876554 69999999999999999999999998863 56999999999999999
Q ss_pred HHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 117 QKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
++.+.++ ..+|+++...+|+.+..... + .+++|+|+|||++-.++++...
T Consensus 93 ~~~~~~~-~~~GirV~~~TgD~~~~~~~--l-~~~~ViVtT~EK~Dsl~R~~~~ 142 (766)
T COG1204 93 YEEFSRL-EELGIRVGISTGDYDLDDER--L-ARYDVIVTTPEKLDSLTRKRPS 142 (766)
T ss_pred HHHhhhH-HhcCCEEEEecCCcccchhh--h-ccCCEEEEchHHhhHhhhcCcc
Confidence 9999843 56799999999999866532 2 3689999999999777776654
No 57
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.77 E-value=6.3e-18 Score=145.50 Aligned_cols=107 Identities=18% Similarity=0.224 Sum_probs=90.7
Q ss_pred HHH-hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 46 GIY-AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 46 ~l~-~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|+ -+||..++++|.++|+.+++|+|+++++|||+|||++|++|++. .+..++|++|+++|+.|+++.++.+
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~------~~g~~lVisPl~sL~~dq~~~l~~~- 76 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALL------LKGLTVVISPLISLMKDQVDQLRAA- 76 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHH------cCCcEEEEcCCHHHHHHHHHHHHHc-
Confidence 443 47999999999999999999999999999999999999999985 2457899999999999999998875
Q ss_pred cCCCceEEEEEcCccHHHHHHHh----cCCCcEEEeChHHHH
Q psy9277 125 DFMNVQCHACIGGTNLSEDLRKL----DYGQHVVSGTPGRVF 162 (178)
Q Consensus 125 ~~~~~~~~~~~g~~~~~~~~~~~----~~~~~IlV~TP~~l~ 162 (178)
++.+..+.++.+.++....+ ....+|+++||++|.
T Consensus 77 ---gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~ 115 (591)
T TIGR01389 77 ---GVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLE 115 (591)
T ss_pred ---CCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhc
Confidence 67888888888776554332 245799999999985
No 58
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.77 E-value=1.2e-17 Score=143.95 Aligned_cols=114 Identities=20% Similarity=0.258 Sum_probs=92.8
Q ss_pred CCHHHHHHHH-hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 39 LREDLLRGIY-AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 39 l~~~i~~~l~-~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
..+...+.|+ .+||..|+++|.++++.+++|+|+++++|||+|||++|++|++.. ...+||++|+++|+.|+.
T Consensus 9 ~~~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~------~g~tlVisPl~sL~~dqv 82 (607)
T PRK11057 9 LESLAKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL------DGLTLVVSPLISLMKDQV 82 (607)
T ss_pred chhHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc------CCCEEEEecHHHHHHHHH
Confidence 4444455553 479999999999999999999999999999999999999999862 357999999999999999
Q ss_pred HHHHHhccCCCceEEEEEcCccHHHHHHH---hc-CCCcEEEeChHHHH
Q psy9277 118 KVVLALGDFMNVQCHACIGGTNLSEDLRK---LD-YGQHVVSGTPGRVF 162 (178)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~-~~~~IlV~TP~~l~ 162 (178)
+.++.+ ++....+.++...++.... +. ...+|+++||+++.
T Consensus 83 ~~l~~~----gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~ 127 (607)
T PRK11057 83 DQLLAN----GVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLM 127 (607)
T ss_pred HHHHHc----CCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhc
Confidence 998765 6777777777766654332 22 34689999999986
No 59
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.76 E-value=1.8e-17 Score=150.22 Aligned_cols=116 Identities=18% Similarity=0.113 Sum_probs=97.4
Q ss_pred HHHHHHHhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHH
Q psy9277 42 DLLRGIYAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQ 115 (178)
Q Consensus 42 ~i~~~l~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q 115 (178)
+..+...+++| .||+.|.+||+.++++ +|++++++||+|||.+|+.++...+. ++.+++|++||++||.|
T Consensus 589 ~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~qvlvLvPT~eLA~Q 664 (1147)
T PRK10689 589 QYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHKQVAVLVPTTLLAQQ 664 (1147)
T ss_pred HHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHH
Confidence 34444578888 6999999999999997 89999999999999999988776554 46799999999999999
Q ss_pred HHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeChHHH
Q psy9277 116 IQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTPGRV 161 (178)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP~~l 161 (178)
+++.+++.....++++..+.|+.+..++...+. ..++|+||||+.+
T Consensus 665 ~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL 714 (1147)
T PRK10689 665 HYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLL 714 (1147)
T ss_pred HHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHH
Confidence 999999877777889888888888777655443 3589999999744
No 60
>KOG0952|consensus
Probab=99.75 E-value=7.6e-18 Score=146.85 Aligned_cols=116 Identities=18% Similarity=0.326 Sum_probs=100.0
Q ss_pred CCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhh-------cCCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 50 YGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDT-------QLRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~-------~~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
++|.+++.+|+.++|.+++ +.|.+||||||||||-.|+|.|++.+.. .++..++|||+|+++||.++++.+.
T Consensus 106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~ 185 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFS 185 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHh
Confidence 4788999999999999887 7899999999999999999999998874 2356799999999999999999998
Q ss_pred HhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 122 ALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 122 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
+-+...|+.|.-++|++...... . ..++|||+|||+. |.+.++.
T Consensus 186 kkl~~~gi~v~ELTGD~ql~~te-i--~~tqiiVTTPEKw-DvvTRk~ 229 (1230)
T KOG0952|consen 186 KKLAPLGISVRELTGDTQLTKTE-I--ADTQIIVTTPEKW-DVVTRKS 229 (1230)
T ss_pred hhcccccceEEEecCcchhhHHH-H--HhcCEEEecccce-eeeeeee
Confidence 77788899999999999877653 2 2589999999997 5554443
No 61
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.73 E-value=6.9e-17 Score=138.37 Aligned_cols=113 Identities=20% Similarity=0.272 Sum_probs=99.0
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+|. +|+++|..+++.++.|+ +..+.||+|||++|++|++.... .+..++||+||++||.|.+..+..+++.+|
T Consensus 99 ~lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al---~G~~v~VvTptreLA~qdae~~~~l~~~lG 172 (656)
T PRK12898 99 VLGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAAL---AGLPVHVITVNDYLAERDAELMRPLYEALG 172 (656)
T ss_pred HhCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhh---cCCeEEEEcCcHHHHHHHHHHHHHHHhhcC
Confidence 4466 69999999999999999 99999999999999999998755 467999999999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcCC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSSQ 169 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~~ 169 (178)
+++++++|+.+... +....+|||++||...| .|+|+.+-
T Consensus 173 lsv~~i~gg~~~~~--r~~~y~~dIvygT~~e~~FDyLrd~~ 212 (656)
T PRK12898 173 LTVGCVVEDQSPDE--RRAAYGADITYCTNKELVFDYLRDRL 212 (656)
T ss_pred CEEEEEeCCCCHHH--HHHHcCCCEEEECCCchhhhhccccc
Confidence 99999999987543 34446899999999999 67776653
No 62
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.70 E-value=9.5e-17 Score=147.24 Aligned_cols=95 Identities=21% Similarity=0.271 Sum_probs=81.3
Q ss_pred EEcCCCChHHHHHHHHHHHHhhhcC----------CCceEEEEcCcHHHHHHHHHHHHHhc------------cCCCceE
Q psy9277 74 AQAQSGTGKTATFSISILQSLDTQL----------RETQVLCLSPTRELAVQIQKVVLALG------------DFMNVQC 131 (178)
Q Consensus 74 v~aptGsGKTl~~ll~il~~l~~~~----------~~~~~lil~Pt~~L~~q~~~~~~~~~------------~~~~~~~ 131 (178)
|++|||||||++|++|++.++..+. ++.++|||+|+++|+.|+++.++... ...++++
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 5799999999999999999986531 35799999999999999999886421 1347899
Q ss_pred EEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 132 HACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 132 ~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
...+|+.+.+++...+++.+||||+||++|..++.++
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk 117 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSR 117 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhh
Confidence 9999999999988788888999999999999988764
No 63
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.69 E-value=4.8e-16 Score=134.22 Aligned_cols=113 Identities=21% Similarity=0.280 Sum_probs=96.9
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+.+|. +|+++|..+...+..|+ +..++||+|||++|++|++-.... +..+.|++||+.||.|.++.+..+.+.+
T Consensus 51 R~lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~---G~~V~VvTpt~~LA~qdae~~~~l~~~L 124 (745)
T TIGR00963 51 RVLGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALT---GKGVHVVTVNDYLAQRDAEWMGQVYRFL 124 (745)
T ss_pred HHhCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHh---CCCEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 34576 69999999998888776 999999999999999999533332 4479999999999999999999999999
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
|+++.+++|+.+..++.... .+||++|||++| .|+++.+
T Consensus 125 GLsv~~i~g~~~~~~r~~~y--~~dIvyGT~~rlgfDyLrd~ 164 (745)
T TIGR00963 125 GLSVGLILSGMSPEERREAY--ACDITYGTNNELGFDYLRDN 164 (745)
T ss_pred CCeEEEEeCCCCHHHHHHhc--CCCEEEECCCchhhHHHhcc
Confidence 99999999999877654443 589999999999 9999876
No 64
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.69 E-value=4.7e-16 Score=135.78 Aligned_cols=113 Identities=20% Similarity=0.293 Sum_probs=96.9
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+.+|. +|+++|..+++.+..|+ +..+.||+|||++|++|++.... .+..+.|++||++||.|.+..+..+.+.+
T Consensus 73 R~~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al---~G~~v~VvTpt~~LA~qd~e~~~~l~~~l 146 (790)
T PRK09200 73 RVLGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNAL---EGKGVHLITVNDYLAKRDAEEMGQVYEFL 146 (790)
T ss_pred HHhCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHH---cCCCeEEEeCCHHHHHHHHHHHHHHHhhc
Confidence 34476 79999999999888887 99999999999999999986544 46789999999999999999999999999
Q ss_pred CceEEEEEcCcc-HHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 128 NVQCHACIGGTN-LSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 128 ~~~~~~~~g~~~-~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
|+++.++.|+.+ .++. +. ..++||++|||++| .|+|+..
T Consensus 147 Gl~v~~i~g~~~~~~~r-~~-~y~~dIvygT~~~l~fDyLrd~ 187 (790)
T PRK09200 147 GLTVGLNFSDIDDASEK-KA-IYEADIIYTTNSELGFDYLRDN 187 (790)
T ss_pred CCeEEEEeCCCCcHHHH-HH-hcCCCEEEECCccccchhHHhc
Confidence 999999999998 4444 33 34699999999999 6776654
No 65
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.67 E-value=4.9e-16 Score=129.13 Aligned_cols=136 Identities=15% Similarity=0.215 Sum_probs=117.4
Q ss_pred ccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHH-HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 31 VSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKP-IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~-i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
-...+++.+++...+.|+..|++.+.|+|.-++.. +++|.|.+|.++|+||||++.-++-+.++.. .+.+.++++|.
T Consensus 193 r~~vdeLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~--~g~KmlfLvPL 270 (830)
T COG1202 193 RVPVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS--GGKKMLFLVPL 270 (830)
T ss_pred cccccccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh--CCCeEEEEehh
Confidence 36788999999999999999999999999999986 8889999999999999999999988888775 46689999999
Q ss_pred HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh----cCCCcEEEeChHHHHHHHHcC
Q psy9277 110 RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL----DYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.+||+|-|+.|++-...+++++..-+|-.......... ....||||||.+-+-.+|+.+
T Consensus 271 VALANQKy~dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg 333 (830)
T COG1202 271 VALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTG 333 (830)
T ss_pred HHhhcchHHHHHHHhhcccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcC
Confidence 99999999999877788999998888776655442211 124699999999998888875
No 66
>KOG0349|consensus
Probab=99.64 E-value=1.8e-16 Score=128.01 Aligned_cols=63 Identities=30% Similarity=0.554 Sum_probs=60.1
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
..|+++|.-+++-.+..++.+.-||.+|.++||.|+.|-|++..|.||||||-+|.+|+++-.
T Consensus 2 ~af~e~gv~pel~~a~~e~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~lpilqiv 64 (725)
T KOG0349|consen 2 TAFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIV 64 (725)
T ss_pred cchHhhCcchHhhhhhhhhccccccccccccccEEecCCcEEEEeccCCCCccceehhhHHHH
Confidence 469999999999999999999999999999999999999999999999999999999999865
No 67
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.63 E-value=2.7e-15 Score=130.23 Aligned_cols=112 Identities=15% Similarity=0.210 Sum_probs=85.1
Q ss_pred CCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 50 YGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
+|. +|+++|......+ +++.++.++||+|||++|++|++.... .+..++|++|+++||.|.++.+..+.+.+|+
T Consensus 67 lgl-rpydVQlig~l~l--~~G~Iaem~TGeGKTLta~Lpa~l~aL---~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGL 140 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVL--HQGNIAEMKTGEGKTLTATMPLYLNAL---TGKGAMLVTTNDYLAKRDAEEMGPVYEWLGL 140 (762)
T ss_pred cCC-CccHHHHHHHHHh--cCCceeEecCCcchHHHHHHHHHHHhh---cCCceEEeCCCHHHHHHHHHHHHHHHhhcCC
Confidence 354 4555555555444 444799999999999999999876554 3457999999999999999999999999999
Q ss_pred eEEEEEcCcc---HHHHHHHhcCCCcEEEeChHHH-HHHHHc
Q psy9277 130 QCHACIGGTN---LSEDLRKLDYGQHVVSGTPGRV-FDMIRS 167 (178)
Q Consensus 130 ~~~~~~g~~~---~~~~~~~~~~~~~IlV~TP~~l-~~~l~~ 167 (178)
.+.+++++.. ..........+|||++|||++| .++|+.
T Consensus 141 sv~~~~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD 182 (762)
T TIGR03714 141 TVSLGVVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLID 182 (762)
T ss_pred cEEEEECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHH
Confidence 9988876521 2222233346899999999999 666654
No 68
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.61 E-value=1.1e-14 Score=118.36 Aligned_cols=104 Identities=17% Similarity=0.174 Sum_probs=80.0
Q ss_pred HHHHHHHHHHcCCc--EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccC----CCceE
Q psy9277 58 IQQRSIKPIVKGRD--VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDF----MNVQC 131 (178)
Q Consensus 58 ~Q~~~i~~i~~g~~--v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~----~~~~~ 131 (178)
+|.++++.+.++.+ +++++|||||||++|++|++. ...+++|++|+++|+.|+++.++.+... .++.+
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~------~~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v 74 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH------GENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNL 74 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH------cCCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceE
Confidence 59999999999874 889999999999999999985 2357899999999999999999888643 25666
Q ss_pred EEEEcCccHH--HH------------------HHHhcCCCcEEEeChHHHHHHHHc
Q psy9277 132 HACIGGTNLS--ED------------------LRKLDYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 132 ~~~~g~~~~~--~~------------------~~~~~~~~~IlV~TP~~l~~~l~~ 167 (178)
..+.|....+ .. .......++|++|||+.|..++++
T Consensus 75 ~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~ 130 (357)
T TIGR03158 75 LHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRF 130 (357)
T ss_pred EEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhh
Confidence 6666653222 00 011123689999999999877664
No 69
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.61 E-value=1e-14 Score=123.38 Aligned_cols=104 Identities=17% Similarity=0.111 Sum_probs=81.1
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEE
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCH 132 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~ 132 (178)
..|+++|.++++.++.+.+.++++|||+|||+++...+ ..+.. ....++|||+||++|+.|..+.+.++.......+.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~-~~~~~-~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~ 190 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLS-RYYLE-NYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMH 190 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHH-HHHHh-cCCCeEEEEECcHHHHHHHHHHHHHhcccccccee
Confidence 47999999999999999999999999999999765432 22222 23459999999999999999999998765445555
Q ss_pred EEEcCccHHHHHHHhcCCCcEEEeChHHHHHHH
Q psy9277 133 ACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMI 165 (178)
Q Consensus 133 ~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l 165 (178)
.+.+|.... .+++|+|+||+++.+..
T Consensus 191 ~i~~g~~~~-------~~~~I~VaT~qsl~~~~ 216 (501)
T PHA02558 191 KIYSGTAKD-------TDAPIVVSTWQSAVKQP 216 (501)
T ss_pred EEecCcccC-------CCCCEEEeeHHHHhhch
Confidence 666665432 35789999999997653
No 70
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.61 E-value=5.3e-14 Score=103.49 Aligned_cols=120 Identities=35% Similarity=0.581 Sum_probs=97.3
Q ss_pred hCCCCCCcHHHHHHHHHHHcC-CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKG-RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g-~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
..++..++++|.+++..+..+ +++++.+++|+|||.++..+++..+.... ..++++++|+++++.|....+..+....
T Consensus 3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSL 81 (201)
T ss_pred ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence 346778999999999999998 99999999999999999999988776532 3589999999999999999998887665
Q ss_pred CceEEEEEcCccHHHHHHHhcCCC-cEEEeChHHHHHHHHcCC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQ-HVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~-~IlV~TP~~l~~~l~~~~ 169 (178)
........++.........+..+. +|+++|++.+.+.+....
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~ 124 (201)
T smart00487 82 GLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDL 124 (201)
T ss_pred CeEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCC
Confidence 534455555655444555555565 999999999999887754
No 71
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.60 E-value=3.7e-14 Score=123.67 Aligned_cols=103 Identities=21% Similarity=0.235 Sum_probs=85.7
Q ss_pred CCcHHHHHHHHHHHcC---CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 54 KPSAIQQRSIKPIVKG---RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g---~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
.+++.|.+++..+.++ +++++.++||||||.+|+.++...+. .+.++||++|+++|+.|+++.+++.. +.+
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~---~g~~vLvLvPt~~L~~Q~~~~l~~~f---g~~ 217 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA---QGKQALVLVPEIALTPQMLARFRARF---GAP 217 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHHHHHHHHHHh---CCC
Confidence 5899999999999884 78999999999999999988777665 35689999999999999999997653 678
Q ss_pred EEEEEcCccHHHHHHHh----cCCCcEEEeChHHHH
Q psy9277 131 CHACIGGTNLSEDLRKL----DYGQHVVSGTPGRVF 162 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~----~~~~~IlV~TP~~l~ 162 (178)
+..++|+.+..++...+ ...++|+||||+.+.
T Consensus 218 v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~ 253 (679)
T PRK05580 218 VAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF 253 (679)
T ss_pred EEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc
Confidence 88999998776554332 245799999998874
No 72
>KOG0951|consensus
Probab=99.59 E-value=1.1e-14 Score=129.08 Aligned_cols=168 Identities=19% Similarity=0.211 Sum_probs=125.5
Q ss_pred CCCCccceeccCCCCCCcccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCCh
Q psy9277 3 AGGSRITKKVIPEDLSNVEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTG 81 (178)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsG 81 (178)
|.|+-+.+++-.+++..............+-+.-..++.|-..++. |...++.+|.......+. ..|+++|||||+|
T Consensus 260 P~GS~rl~kk~yeevhVPa~~~~pf~~~Ekl~~iselP~Wnq~aF~--g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaG 337 (1674)
T KOG0951|consen 260 PQGSFRLKKKGYEEVHVPAPSYFPFHKEEKLVKISELPKWNQPAFF--GKQSLNRIQSKVYDAALRGDENMLLCAPTGAG 337 (1674)
T ss_pred CCccEEEecCCceEEeCCCCCCCCCCccceeEeecCCcchhhhhcc--cchhhhHHHHHHHHHHhcCcCcEEEeccCCCC
Confidence 3444444444444443333322222233333444567888888875 566799999999999888 4799999999999
Q ss_pred HHHHHHHHHHHHhhhcCC--------CceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcE
Q psy9277 82 KTATFSISILQSLDTQLR--------ETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHV 153 (178)
Q Consensus 82 KTl~~ll~il~~l~~~~~--------~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I 153 (178)
||-.+++.+++.+....+ ..+.+|++|+++|++.+...+.+....+|++|.-.+|+.....+.- .+.+|
T Consensus 338 KTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~qi---eeTqV 414 (1674)
T KOG0951|consen 338 KTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQI---EETQV 414 (1674)
T ss_pred chHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccchhhhh---hccee
Confidence 999999999999865332 3589999999999999999998888999999999999987654321 35789
Q ss_pred EEeChHHHHHHHHcCCCCCcccc
Q psy9277 154 VSGTPGRVFDMIRSSQGRRTTNQ 176 (178)
Q Consensus 154 lV~TP~~l~~~l~~~~~~~~~~~ 176 (178)
+||||++- |.+.++..+..+++
T Consensus 415 IV~TPEK~-DiITRk~gdraY~q 436 (1674)
T KOG0951|consen 415 IVTTPEKW-DIITRKSGDRAYEQ 436 (1674)
T ss_pred EEeccchh-hhhhcccCchhHHH
Confidence 99999997 78888877776653
No 73
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.59 E-value=1.5e-14 Score=126.88 Aligned_cols=111 Identities=17% Similarity=0.204 Sum_probs=92.3
Q ss_pred CCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 50 YGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
+|. +++++|...--.+ ...-+..++||+|||++|.+|++..+.. +..++||+||++||.|.++.+..+.+.+|+
T Consensus 79 lg~-~~ydvQliGg~~L--h~G~Iaem~TGeGKTL~a~Lpa~~~al~---G~~V~VvTpn~yLA~qd~e~m~~l~~~lGL 152 (896)
T PRK13104 79 LGL-RHFDVQLIGGMVL--HEGNIAEMRTGEGKTLVATLPAYLNAIS---GRGVHIVTVNDYLAKRDSQWMKPIYEFLGL 152 (896)
T ss_pred cCC-CcchHHHhhhhhh--ccCccccccCCCCchHHHHHHHHHHHhc---CCCEEEEcCCHHHHHHHHHHHHHHhcccCc
Confidence 354 4667766544333 4455899999999999999999977653 456999999999999999999999999999
Q ss_pred eEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 130 QCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 130 ~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
++.+++|+.+..++.... .+||++|||++| .|+|+.+
T Consensus 153 tv~~i~gg~~~~~r~~~y--~~dIvygT~grlgfDyLrd~ 190 (896)
T PRK13104 153 TVGVIYPDMSHKEKQEAY--KADIVYGTNNEYGFDYLRDN 190 (896)
T ss_pred eEEEEeCCCCHHHHHHHh--CCCEEEECChhhhHHHHhcC
Confidence 999999999887765543 689999999999 9999887
No 74
>PRK13766 Hef nuclease; Provisional
Probab=99.57 E-value=8.8e-14 Score=123.26 Aligned_cols=116 Identities=19% Similarity=0.167 Sum_probs=95.0
Q ss_pred CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 51 GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
+..+++++|.+++..++.+ |+++++|||+|||+++++++...+. ..+.++|||+||++|+.|+.+.++.+....+..
T Consensus 12 ~~~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~--~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~ 88 (773)
T PRK13766 12 NTIEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLH--KKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEK 88 (773)
T ss_pred CcCCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHH--hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCce
Confidence 4457899999999888887 9999999999999999999888773 245699999999999999999998886554567
Q ss_pred EEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCC
Q psy9277 131 CHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQG 170 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~ 170 (178)
+..+.|+.+..++.. +..+++|+|+||+.+...+..+.+
T Consensus 89 v~~~~g~~~~~~r~~-~~~~~~iiv~T~~~l~~~l~~~~~ 127 (773)
T PRK13766 89 IVVFTGEVSPEKRAE-LWEKAKVIVATPQVIENDLIAGRI 127 (773)
T ss_pred EEEEeCCCCHHHHHH-HHhCCCEEEECHHHHHHHHHcCCC
Confidence 888888887765543 344679999999999877765544
No 75
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.56 E-value=5.7e-14 Score=115.37 Aligned_cols=119 Identities=18% Similarity=0.146 Sum_probs=101.8
Q ss_pred CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceE
Q psy9277 52 FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQC 131 (178)
Q Consensus 52 ~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~ 131 (178)
..+++.+|.......+.+ |++++.|||-|||+++++-+..++.... .++|+++||+.|+.|+++.|+++..-..-.+
T Consensus 13 ~ie~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~--~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i 89 (542)
T COG1111 13 TIEPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFG--GKVLFLAPTKPLVLQHAEFCRKVTGIPEDEI 89 (542)
T ss_pred cccHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcC--CeEEEecCCchHHHHHHHHHHHHhCCChhhe
Confidence 346888998887776666 9999999999999999999988877643 2899999999999999999999987777788
Q ss_pred EEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCCcc
Q psy9277 132 HACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRRTT 174 (178)
Q Consensus 132 ~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~~~ 174 (178)
+.++|..+.+++...+. ..+|+|+||+.+..-|..+.+++..
T Consensus 90 ~~ltGev~p~~R~~~w~-~~kVfvaTPQvveNDl~~Grid~~d 131 (542)
T COG1111 90 AALTGEVRPEEREELWA-KKKVFVATPQVVENDLKAGRIDLDD 131 (542)
T ss_pred eeecCCCChHHHHHHHh-hCCEEEeccHHHHhHHhcCccChHH
Confidence 99999999888766655 5689999999999999999887643
No 76
>KOG0354|consensus
Probab=99.50 E-value=9.5e-14 Score=119.29 Aligned_cols=130 Identities=18% Similarity=0.167 Sum_probs=99.7
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
+++...+.+.--..-.++.+|.+.....+ |+|++|++|||+|||+++...+.+++..... .++|+++|++.|+.|+..
T Consensus 47 ~~~s~~~~~~~p~~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a 124 (746)
T KOG0354|consen 47 LDESAAQRWIYPTNLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIA 124 (746)
T ss_pred CChhhhccccccCcccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHH
Confidence 44444444432234478999999999999 9999999999999999999999888766544 799999999999999997
Q ss_pred HHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCCCCC
Q psy9277 119 VVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQGRR 172 (178)
Q Consensus 119 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~~~~ 172 (178)
.+..++.. ..+....||.........+-..++|+|.||+-|.+.|.++..+-
T Consensus 125 ~~~~~~~~--~~~T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ 176 (746)
T KOG0354|consen 125 CFSIYLIP--YSVTGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHDE 176 (746)
T ss_pred HHhhccCc--ccceeeccCccCCCchhhhhcccceEEeChHhhhhhcccccccc
Confidence 77777665 45555556643333333555678999999999999998776554
No 77
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.48 E-value=3.6e-13 Score=117.92 Aligned_cols=113 Identities=19% Similarity=0.278 Sum_probs=95.3
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHH-HHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISIL-QSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il-~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
-+|. +|+++|....-.+..|+ +..+.||+|||+++.+|++ +.+. +..+-|++||..||.|.++.+..+.+.+
T Consensus 77 ~lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL~----G~~V~IvTpn~yLA~rd~e~~~~l~~~L 149 (830)
T PRK12904 77 VLGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNALT----GKGVHVVTVNDYLAKRDAEWMGPLYEFL 149 (830)
T ss_pred HhCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHHc----CCCEEEEecCHHHHHHHHHHHHHHHhhc
Confidence 3465 68889888776665554 9999999999999999996 5442 3357799999999999999999999999
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcCCC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSSQG 170 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~~~ 170 (178)
|+++.++.|+.+..++.... .+||++|||++| .|+|+.+..
T Consensus 150 Glsv~~i~~~~~~~er~~~y--~~dI~ygT~~elgfDyLrd~~~ 191 (830)
T PRK12904 150 GLSVGVILSGMSPEERREAY--AADITYGTNNEFGFDYLRDNMV 191 (830)
T ss_pred CCeEEEEcCCCCHHHHHHhc--CCCeEEECCcchhhhhhhcccc
Confidence 99999999999988776664 499999999999 999987653
No 78
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.43 E-value=1.1e-12 Score=113.70 Aligned_cols=104 Identities=15% Similarity=0.133 Sum_probs=79.4
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHH---------HHHHHHHHhh---hcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTAT---------FSISILQSLD---TQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~---------~ll~il~~l~---~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
-.+|.++++.+.+|++++++|+||||||.+ |++|.+..+. ....+.++++++|+++||.|+...+.+.
T Consensus 166 ~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~ 245 (675)
T PHA02653 166 PDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHH
Confidence 358999999999999999999999999997 5555555443 2334568999999999999999998765
Q ss_pred ccC---CCceEEEEEcCccHHHHHHHhcCCCcEEEeChHH
Q psy9277 124 GDF---MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGR 160 (178)
Q Consensus 124 ~~~---~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~ 160 (178)
... .+..+...+|+.+.. .......+.+|+|+|++.
T Consensus 246 vg~~~~~g~~v~v~~Gg~~~~-~~~t~~k~~~Ilv~T~~L 284 (675)
T PHA02653 246 LGFDEIDGSPISLKYGSIPDE-LINTNPKPYGLVFSTHKL 284 (675)
T ss_pred hCccccCCceEEEEECCcchH-HhhcccCCCCEEEEeCcc
Confidence 443 367788889998732 222222367999999864
No 79
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.41 E-value=3.4e-12 Score=108.57 Aligned_cols=123 Identities=24% Similarity=0.282 Sum_probs=103.2
Q ss_pred CCCCHHHHHHH-HhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 37 MGLREDLLRGI-YAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 37 ~~l~~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
+..+..+++.+ .++.| ++|..|..++..|..+ .+-+++|.-|||||++++++++..+. .+.++..++||
T Consensus 245 ~~~~~~l~~~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~---~G~Q~ALMAPT 320 (677)
T COG1200 245 LPANGELLAKFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE---AGYQAALMAPT 320 (677)
T ss_pred CCccHHHHHHHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH---cCCeeEEeccH
Confidence 34455666665 78888 5999999999999874 58899999999999999999998776 57899999999
Q ss_pred HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh---cCC-CcEEEeChHHHHH
Q psy9277 110 RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL---DYG-QHVVSGTPGRVFD 163 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~~-~~IlV~TP~~l~~ 163 (178)
.-||.|.++.+.++...+|+++..++|....+.+...+ .+| .||+|||-.-+.|
T Consensus 321 EILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd 378 (677)
T COG1200 321 EILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQD 378 (677)
T ss_pred HHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhc
Confidence 99999999999999999999999999998776554443 345 7999999755543
No 80
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.40 E-value=2.6e-12 Score=113.77 Aligned_cols=101 Identities=17% Similarity=0.217 Sum_probs=80.5
Q ss_pred HHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhccCCCceEEEEEcC
Q psy9277 59 QQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQCHACIGG 137 (178)
Q Consensus 59 Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~~~~~~g~ 137 (178)
-.+.+..+.++++++++|+||||||.+|.+++++... ...+++++.|+|++|.|+++.+ ..+....|..+...+++
T Consensus 10 ~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~---~~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~ 86 (812)
T PRK11664 10 LPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG---INGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRA 86 (812)
T ss_pred HHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC---cCCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecC
Confidence 3455566777899999999999999999999997543 2358999999999999999998 45566677788877766
Q ss_pred ccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 138 TNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 138 ~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.+.. ....+|+|+|||+|++++.+.
T Consensus 87 ~~~~------~~~t~I~v~T~G~Llr~l~~d 111 (812)
T PRK11664 87 ESKV------GPNTRLEVVTEGILTRMIQRD 111 (812)
T ss_pred cccc------CCCCcEEEEChhHHHHHHhhC
Confidence 5432 234689999999999998764
No 81
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.40 E-value=2.3e-12 Score=109.16 Aligned_cols=107 Identities=20% Similarity=0.264 Sum_probs=92.2
Q ss_pred HHH-HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 45 RGI-YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 45 ~~l-~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
..| +-+||..+.+-|.++|..+++|+|+++..|||.||++||.+|.+-. .+.+|+|+|..+|++++.+.++..
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~------~G~TLVVSPLiSLM~DQV~~l~~~ 80 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL------EGLTLVVSPLISLMKDQVDQLEAA 80 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc------CCCEEEECchHHHHHHHHHHHHHc
Confidence 344 3469999999999999999999999999999999999999999863 448999999999999999999876
Q ss_pred ccCCCceEEEEEcCccHHHHHHHhc---C-CCcEEEeChHHH
Q psy9277 124 GDFMNVQCHACIGGTNLSEDLRKLD---Y-GQHVVSGTPGRV 161 (178)
Q Consensus 124 ~~~~~~~~~~~~g~~~~~~~~~~~~---~-~~~IlV~TP~~l 161 (178)
|+....+.+..+.+++...+. . ..+++.-+|++|
T Consensus 81 ----Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl 118 (590)
T COG0514 81 ----GIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERL 118 (590)
T ss_pred ----CceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhh
Confidence 788888888888777655443 2 369999999998
No 82
>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=99.39 E-value=3.4e-12 Score=103.63 Aligned_cols=93 Identities=15% Similarity=0.148 Sum_probs=67.1
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHH---------
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLS--------- 141 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~--------- 141 (178)
++++.+|||||||++|+++++..+.. ....+++|++|+++|+.|+++.+..+... .+..++++....
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~-~~~~~ii~v~P~~~L~~q~~~~l~~~f~~---~~~~~~~~~~~~~~~~~~~~~ 76 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKS-QKADRVIIALPTRATINAMYRRAKELFGS---NLGLLHSSSSFKRIKEMGDSE 76 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhh-CCCCeEEEEeehHHHHHHHHHHHHHHhCc---ccEEeeccHHHHHHhccCCch
Confidence 58999999999999999999987654 34569999999999999999999887432 233334332211
Q ss_pred ---HHHHHh-c-----CCCcEEEeChHHHHHHHHc
Q psy9277 142 ---EDLRKL-D-----YGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 142 ---~~~~~~-~-----~~~~IlV~TP~~l~~~l~~ 167 (178)
...... . ...+|+|+||+++...+.+
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~ 111 (358)
T TIGR01587 77 EFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFG 111 (358)
T ss_pred hHHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhc
Confidence 100010 0 1357999999999887765
No 83
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.38 E-value=1.5e-11 Score=108.21 Aligned_cols=114 Identities=18% Similarity=0.218 Sum_probs=88.7
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
..|+ +||..|+.+...+..|+++-+.||||.|||..-++..+.... ++.+++||+||..|+.|.++.+.++....+
T Consensus 78 ~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~---kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~ 153 (1187)
T COG1110 78 ATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAK---KGKRVYIIVPTTTLVRQVYERLKKFAEDAG 153 (1187)
T ss_pred hhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHh---cCCeEEEEecCHHHHHHHHHHHHHHHhhcC
Confidence 3466 799999999999999999999999999999877666655333 457999999999999999999999987655
Q ss_pred -ceEEE-EEcCccHHHHHH---HhcC-CCcEEEeChHHHHHHHH
Q psy9277 129 -VQCHA-CIGGTNLSEDLR---KLDY-GQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 129 -~~~~~-~~g~~~~~~~~~---~~~~-~~~IlV~TP~~l~~~l~ 166 (178)
..+.. +++..+.++... .+.+ +.||+|+|.+.|...+.
T Consensus 154 ~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e 197 (1187)
T COG1110 154 SLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFE 197 (1187)
T ss_pred CcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHH
Confidence 33333 566655554333 3333 58999999999966654
No 84
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.37 E-value=2.5e-11 Score=84.26 Aligned_cols=97 Identities=37% Similarity=0.534 Sum_probs=79.1
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcC
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDY 149 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 149 (178)
+++++.+|||+|||..++..+....... ...+++|++|++.++.|..+.+...... +..+..+.+.............
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 78 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSG 78 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-cCCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhHHHHHhcC
Confidence 4789999999999999988888766542 3469999999999999999998877665 6777778877776666555556
Q ss_pred CCcEEEeChHHHHHHHHcC
Q psy9277 150 GQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 150 ~~~IlV~TP~~l~~~l~~~ 168 (178)
+.+|+++|++.+...+...
T Consensus 79 ~~~i~i~t~~~~~~~~~~~ 97 (144)
T cd00046 79 KTDIVVGTPGRLLDELERL 97 (144)
T ss_pred CCCEEEECcHHHHHHHHcC
Confidence 7899999999998877654
No 85
>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=99.36 E-value=1.2e-11 Score=109.55 Aligned_cols=101 Identities=19% Similarity=0.274 Sum_probs=80.2
Q ss_pred HHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHH-HhccCCCceEEEEEcC
Q psy9277 59 QQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVL-ALGDFMNVQCHACIGG 137 (178)
Q Consensus 59 Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~-~~~~~~~~~~~~~~g~ 137 (178)
-.+.+..+.++.+++++|+||||||.+|.+++++... .+.+++++.|+|++|.|+++.+. .+....|..+...+.+
T Consensus 7 ~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~---~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~ 83 (819)
T TIGR01970 7 LPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG---IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRG 83 (819)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc---cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEcc
Confidence 3455666777899999999999999999999998753 34699999999999999999884 5555667777666655
Q ss_pred ccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 138 TNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 138 ~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.+ ......+|+|+|||+|++++.+.
T Consensus 84 ~~------~~s~~t~I~v~T~G~Llr~l~~d 108 (819)
T TIGR01970 84 EN------KVSRRTRLEVVTEGILTRMIQDD 108 (819)
T ss_pred cc------ccCCCCcEEEECCcHHHHHHhhC
Confidence 43 22345789999999999999764
No 86
>KOG0353|consensus
Probab=99.34 E-value=8.4e-12 Score=100.01 Aligned_cols=118 Identities=16% Similarity=0.236 Sum_probs=94.4
Q ss_pred ccCCCCHHHHHHHH-hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHH
Q psy9277 35 DNMGLREDLLRGIY-AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELA 113 (178)
Q Consensus 35 ~~~~l~~~i~~~l~-~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~ 113 (178)
++|+.+.+..+.|+ .+..++++|.|..+|...+.|+++++..|||.||++||.+|.+- ....+++++|..+|+
T Consensus 74 d~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~------adg~alvi~plislm 147 (695)
T KOG0353|consen 74 DDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC------ADGFALVICPLISLM 147 (695)
T ss_pred CCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh------cCCceEeechhHHHH
Confidence 56778888888774 55678899999999999999999999999999999999999986 456999999999999
Q ss_pred HHHHHHHHHhccCCCceEEEEEcCccHHHHHHH---h-c--CCCcEEEeChHHHH
Q psy9277 114 VQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK---L-D--YGQHVVSGTPGRVF 162 (178)
Q Consensus 114 ~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~-~--~~~~IlV~TP~~l~ 162 (178)
.++.-.++.+ |+....+....+.++.... + . ....++..||+++.
T Consensus 148 edqil~lkql----gi~as~lnansske~~k~v~~~i~nkdse~kliyvtpekia 198 (695)
T KOG0353|consen 148 EDQILQLKQL----GIDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIA 198 (695)
T ss_pred HHHHHHHHHh----CcchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHH
Confidence 9999999877 6665566656555443221 1 1 13578899999984
No 87
>KOG0352|consensus
Probab=99.29 E-value=1.7e-11 Score=99.45 Aligned_cols=110 Identities=22% Similarity=0.283 Sum_probs=87.2
Q ss_pred HHHHHHH-hCCCCCC-cHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 42 DLLRGIY-AYGFEKP-SAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 42 ~i~~~l~-~~g~~~~-~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+.++|+ -+|+.++ ++.|.+++..+.. .+||.|++|||+||++||.+|.|- .+...|+++|..+|++++.+
T Consensus 6 ~VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~------~~gITIV~SPLiALIkDQiD 79 (641)
T KOG0352|consen 6 KVREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALV------HGGITIVISPLIALIKDQID 79 (641)
T ss_pred HHHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHH------hCCeEEEehHHHHHHHHHHH
Confidence 4556664 4466544 8999999999877 579999999999999999999986 34589999999999999999
Q ss_pred HHHHhccCCCceEEEEEcCccHHHHHHHhc------CCCcEEEeChHHH
Q psy9277 119 VVLALGDFMNVQCHACIGGTNLSEDLRKLD------YGQHVVSGTPGRV 161 (178)
Q Consensus 119 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~------~~~~IlV~TP~~l 161 (178)
.+..+ .+.+..+.+..+..++.+.+. ....++.-||+.-
T Consensus 80 HL~~L----KVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~A 124 (641)
T KOG0352|consen 80 HLKRL----KVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGA 124 (641)
T ss_pred HHHhc----CCchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhh
Confidence 99877 677777777777766655442 2457999999863
No 88
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.29 E-value=3.2e-11 Score=107.99 Aligned_cols=98 Identities=21% Similarity=0.278 Sum_probs=77.9
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHH----HHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIK----PIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAV 114 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~----~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~ 114 (178)
+++...+.+...||+ +++.|.+++. .+.+++++++.||||+|||++|++|++.... .+.+++|.+||++|..
T Consensus 231 ~~~~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~---~~~~vvi~t~t~~Lq~ 306 (850)
T TIGR01407 231 LSSLFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI---TEKPVVISTNTKVLQS 306 (850)
T ss_pred ccHHHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc---CCCeEEEEeCcHHHHH
Confidence 345677778788986 8999998776 4445899999999999999999999988655 3458999999999999
Q ss_pred HHHH-HHHHhccCCC--ceEEEEEcCccH
Q psy9277 115 QIQK-VVLALGDFMN--VQCHACIGGTNL 140 (178)
Q Consensus 115 q~~~-~~~~~~~~~~--~~~~~~~g~~~~ 140 (178)
|+.. .+..+.+.++ ++++.+.|....
T Consensus 307 Ql~~~~~~~l~~~~~~~~~~~~~kG~~~y 335 (850)
T TIGR01407 307 QLLEKDIPLLNEILNFKINAALIKGKSNY 335 (850)
T ss_pred HHHHHHHHHHHHHcCCCceEEEEEcchhh
Confidence 9876 4655555444 888888877644
No 89
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.29 E-value=2.1e-11 Score=108.56 Aligned_cols=113 Identities=20% Similarity=0.218 Sum_probs=90.2
Q ss_pred HHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 46 GIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 46 ~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.....+| .+.++|++++-.+.+|.+|+|+||||+|||++...++...+. ++.+++|.+|.++|.+|.++.+.....
T Consensus 112 ~~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~---~~qrviYTsPIKALsNQKyrdl~~~fg 187 (1041)
T COG4581 112 PAREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALR---DGQRVIYTSPIKALSNQKYRDLLAKFG 187 (1041)
T ss_pred HHHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHH---cCCceEeccchhhhhhhHHHHHHHHhh
Confidence 3466788 599999999999999999999999999999999888877665 455799999999999999998854433
Q ss_pred CCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 126 FMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 126 ~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
...-.+.+.+|+.+.. .+..++|.|-+-|-.|+..+.
T Consensus 188 dv~~~vGL~TGDv~IN-------~~A~clvMTTEILRnMlyrg~ 224 (1041)
T COG4581 188 DVADMVGLMTGDVSIN-------PDAPCLVMTTEILRNMLYRGS 224 (1041)
T ss_pred hhhhhccceecceeeC-------CCCceEEeeHHHHHHHhccCc
Confidence 2222356667776654 346788888899999988773
No 90
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=1.1e-11 Score=108.85 Aligned_cols=110 Identities=21% Similarity=0.256 Sum_probs=89.4
Q ss_pred CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 51 GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
|. .|+++|...- +.-...-+..++||.|||++|.+|++..... +..+.||+|+..||.+..+.+..+.+.+|++
T Consensus 80 gm-~~ydVQliGg--l~L~~G~IaEm~TGEGKTL~a~lp~~l~al~---g~~VhIvT~ndyLA~RD~e~m~~l~~~lGls 153 (908)
T PRK13107 80 EM-RHFDVQLLGG--MVLDSNRIAEMRTGEGKTLTATLPAYLNALT---GKGVHVITVNDYLARRDAENNRPLFEFLGLT 153 (908)
T ss_pred CC-CcCchHHhcc--hHhcCCccccccCCCCchHHHHHHHHHHHhc---CCCEEEEeCCHHHHHHHHHHHHHHHHhcCCe
Confidence 44 4666766433 3334566999999999999999999876653 4459999999999999999999999999999
Q ss_pred EEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 131 CHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
+.++.++.+..+... ..+|||++|||++| .|+|+.+
T Consensus 154 v~~i~~~~~~~~r~~--~Y~~dI~YgT~~e~gfDyLrdn 190 (908)
T PRK13107 154 VGINVAGLGQQEKKA--AYNADITYGTNNEFGFDYLRDN 190 (908)
T ss_pred EEEecCCCCHHHHHh--cCCCCeEEeCCCcccchhhhcc
Confidence 999999888754322 23799999999999 9999877
No 91
>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=99.19 E-value=1.4e-10 Score=98.25 Aligned_cols=84 Identities=26% Similarity=0.236 Sum_probs=64.9
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh---c-
Q psy9277 73 IAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL---D- 148 (178)
Q Consensus 73 ~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~- 148 (178)
++.||||||||.+|+..+...+. .+.+++|++|+++|+.|+++.+++.. +..+..++++.+..++...+ .
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~---~g~~vLvlvP~i~L~~Q~~~~l~~~f---~~~v~vlhs~~~~~er~~~~~~~~~ 74 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLA---LGKSVLVLVPEIALTPQMIQRFKYRF---GSQVAVLHSGLSDSEKLQAWRKVKN 74 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCcHHHHHHHHHHHHHHh---CCcEEEEECCCCHHHHHHHHHHHHc
Confidence 46899999999999776655443 35689999999999999999997653 56778888888766543332 2
Q ss_pred CCCcEEEeChHHHH
Q psy9277 149 YGQHVVSGTPGRVF 162 (178)
Q Consensus 149 ~~~~IlV~TP~~l~ 162 (178)
...+|+|||+..+.
T Consensus 75 g~~~IVVGTrsalf 88 (505)
T TIGR00595 75 GEILVVIGTRSALF 88 (505)
T ss_pred CCCCEEECChHHHc
Confidence 34799999998774
No 92
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.18 E-value=1.4e-10 Score=103.16 Aligned_cols=88 Identities=26% Similarity=0.406 Sum_probs=71.8
Q ss_pred HhCCCCCCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH-HHHHH
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ-KVVLA 122 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~-~~~~~ 122 (178)
.-.|| ++++-|.++...+.. +..+++.|+||+|||++|++|++... .+.++||++||++|++|+. +.+..
T Consensus 240 ~~~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~----~~~~vvI~t~T~~Lq~Ql~~~~i~~ 314 (820)
T PRK07246 240 ALLGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----DQRQIIVSVPTKILQDQIMAEEVKA 314 (820)
T ss_pred ccCCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----CCCcEEEEeCcHHHHHHHHHHHHHH
Confidence 33466 589999997765544 78999999999999999999988753 3468999999999999994 66777
Q ss_pred hccCCCceEEEEEcCccH
Q psy9277 123 LGDFMNVQCHACIGGTNL 140 (178)
Q Consensus 123 ~~~~~~~~~~~~~g~~~~ 140 (178)
+.+.+++.+..+.|+.+.
T Consensus 315 l~~~~~~~~~~~kg~~~y 332 (820)
T PRK07246 315 IQEVFHIDCHSLKGPQNY 332 (820)
T ss_pred HHHhcCCcEEEEECCccc
Confidence 777788888888877653
No 93
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.18 E-value=3.6e-10 Score=82.68 Aligned_cols=108 Identities=21% Similarity=0.189 Sum_probs=74.5
Q ss_pred CCcHHHHHHHHHHHc-------CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccC
Q psy9277 54 KPSAIQQRSIKPIVK-------GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDF 126 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~-------g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~ 126 (178)
+++++|.+++..+.. .+++++.+|||||||.+++..+..... ++++++|+..|+.|..+.+..+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------~~l~~~p~~~l~~Q~~~~~~~~~~~ 76 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------KVLIVAPNISLLEQWYDEFDDFGSE 76 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------ceeEecCHHHHHHHHHHHHHHhhhh
Confidence 589999999999884 589999999999999998854544322 8999999999999999999766543
Q ss_pred CCceEEE-----------EEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHc
Q psy9277 127 MNVQCHA-----------CIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 127 ~~~~~~~-----------~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~ 167 (178)
....... ..................+++++|.+.+......
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~ 128 (184)
T PF04851_consen 77 KYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKE 128 (184)
T ss_dssp SEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH
T ss_pred hhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhccc
Confidence 2111100 0111111122223345678999999999888654
No 94
>KOG0351|consensus
Probab=99.16 E-value=8.4e-11 Score=104.78 Aligned_cols=110 Identities=18% Similarity=0.195 Sum_probs=90.6
Q ss_pred HHHHH-HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 43 LLRGI-YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 43 i~~~l-~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
....+ ..+|.+.+.+-|.++|..++.|+|++|.+|||.||++||.+|++- .++-.|+|.|..+|++++...+.
T Consensus 252 ~~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l------~~gitvVISPL~SLm~DQv~~L~ 325 (941)
T KOG0351|consen 252 LELLLKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALL------LGGVTVVISPLISLMQDQVTHLS 325 (941)
T ss_pred HHHHHHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeeccccc------cCCceEEeccHHHHHHHHHHhhh
Confidence 44444 677999999999999999999999999999999999999999875 34589999999999999988884
Q ss_pred HhccCCCceEEEEEcCccHHHHHH---HhcC---CCcEEEeChHHHH
Q psy9277 122 ALGDFMNVQCHACIGGTNLSEDLR---KLDY---GQHVVSGTPGRVF 162 (178)
Q Consensus 122 ~~~~~~~~~~~~~~g~~~~~~~~~---~~~~---~~~IlV~TP~~l~ 162 (178)
. .++....+.++....++.. .+.+ .++|+.-||+++.
T Consensus 326 ~----~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~ 368 (941)
T KOG0351|consen 326 K----KGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVV 368 (941)
T ss_pred h----cCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhh
Confidence 3 3788888888887764433 3333 4699999999984
No 95
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=99.12 E-value=5e-10 Score=96.55 Aligned_cols=75 Identities=21% Similarity=0.225 Sum_probs=61.3
Q ss_pred HHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc-cC--CCceEEEEEcCccH
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG-DF--MNVQCHACIGGTNL 140 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~-~~--~~~~~~~~~g~~~~ 140 (178)
.+.+++.+++.|+||+|||++|++|++..+... .+.++||++||++|+.|+++.+..+. +. .+++++.+.|..++
T Consensus 12 al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~-~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~nY 89 (636)
T TIGR03117 12 SLRQKRIGMLEASTGVGKTLAMIMAALTMLKER-PDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQEF 89 (636)
T ss_pred HHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhc-cCceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCccc
Confidence 344588999999999999999999999876532 34699999999999999999988887 43 36777777777654
No 96
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.05 E-value=1.6e-09 Score=94.50 Aligned_cols=98 Identities=16% Similarity=0.116 Sum_probs=74.4
Q ss_pred CCcHHHHHHHHHHHc-C--CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 54 KPSAIQQRSIKPIVK-G--RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~-g--~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
.++++|.+++..+.. | ++.++++|||+|||+..+..+.. + +.++|||||+..|+.|..+.+.++.......
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~-l-----~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~ 328 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACT-V-----KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQ 328 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHH-h-----CCCEEEEeCcHHHHHHHHHHHHHhcCCCCce
Confidence 589999999998874 4 47899999999999998765543 2 2479999999999999999999886544456
Q ss_pred EEEEEcCccHHHHHHHhcCCCcEEEeChHHHH
Q psy9277 131 CHACIGGTNLSEDLRKLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~ 162 (178)
+..+.|+.... ......|+|+|.+.+.
T Consensus 329 I~~~tg~~k~~-----~~~~~~VvVtTYq~l~ 355 (732)
T TIGR00603 329 ICRFTSDAKER-----FHGEAGVVVSTYSMVA 355 (732)
T ss_pred EEEEecCcccc-----cccCCcEEEEEHHHhh
Confidence 66666653221 1123679999998764
No 97
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.05 E-value=5.1e-09 Score=94.00 Aligned_cols=119 Identities=18% Similarity=0.121 Sum_probs=95.2
Q ss_pred CCCHHHHHHH-HhCCCCCCcHHHHHHHHHHHcC------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 38 GLREDLLRGI-YAYGFEKPSAIQQRSIKPIVKG------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 38 ~l~~~i~~~l-~~~g~~~~~~~Q~~~i~~i~~g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
.-+.+..+.+ ..++|. -|+-|..||..+.++ +|-++||.-|-|||-+++=++..... ++.++.++|||.
T Consensus 578 ~~d~~~q~~F~~~FPye-ET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~---~GKQVAvLVPTT 653 (1139)
T COG1197 578 PPDTEWQEEFEASFPYE-ETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM---DGKQVAVLVPTT 653 (1139)
T ss_pred CCChHHHHHHHhcCCCc-CCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc---CCCeEEEEcccH
Confidence 3455556666 456775 699999999999873 59999999999999998776665554 568999999999
Q ss_pred HHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh---cC-CCcEEEeChHH
Q psy9277 111 ELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL---DY-GQHVVSGTPGR 160 (178)
Q Consensus 111 ~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~-~~~IlV~TP~~ 160 (178)
-||+|.++.+++-...+++++..+.-=.+.+++...+ .+ ..||||||-.-
T Consensus 654 lLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrL 707 (1139)
T COG1197 654 LLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRL 707 (1139)
T ss_pred HhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHh
Confidence 9999999999999999999998887666666655444 34 47999999643
No 98
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.02 E-value=3.2e-09 Score=97.01 Aligned_cols=109 Identities=18% Similarity=0.135 Sum_probs=75.2
Q ss_pred CCcHHHHHHHHHHHc-----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIVK-----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~-----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.++++|.+|+..+.. .++.+++++||||||.+.+ .++.++.......++|+|+|+++|+.|..+.+..+.....
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai-~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~ 491 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAI-ALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGD 491 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHH-HHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccc
Confidence 589999999987763 4689999999999998854 3445555544556999999999999999999987743222
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHH
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMI 165 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l 165 (178)
..+..+++.....+. .......|+|+|.+++...+
T Consensus 492 ~~~~~i~~i~~L~~~--~~~~~~~I~iaTiQtl~~~~ 526 (1123)
T PRK11448 492 QTFASIYDIKGLEDK--FPEDETKVHVATVQGMVKRI 526 (1123)
T ss_pred cchhhhhchhhhhhh--cccCCCCEEEEEHHHHHHhh
Confidence 111111211111111 11235689999999987664
No 99
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.01 E-value=3.1e-09 Score=93.25 Aligned_cols=113 Identities=17% Similarity=0.221 Sum_probs=93.8
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+.+|. +|+++|...--.+..|+ +..+.||+|||+++.+|++.... .+..+-+++|+.-||.|-++.+..+.+.+
T Consensus 75 R~~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al---~G~~v~vvT~neyLA~Rd~e~~~~~~~~L 148 (796)
T PRK12906 75 RVLGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNAL---TGKGVHVVTVNEYLSSRDATEMGELYRWL 148 (796)
T ss_pred HHhCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHH---cCCCeEEEeccHHHHHhhHHHHHHHHHhc
Confidence 34465 68999988776666666 99999999999999998887655 46789999999999999999999999999
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
|+++.++.++.+..++.... .|||+.+|...| .|+|+.+
T Consensus 149 Gl~vg~i~~~~~~~~r~~~y--~~dI~Y~t~~e~gfDyLRD~ 188 (796)
T PRK12906 149 GLTVGLNLNSMSPDEKRAAY--NCDITYSTNSELGFDYLRDN 188 (796)
T ss_pred CCeEEEeCCCCCHHHHHHHh--cCCCeecCCccccccchhhc
Confidence 99999999988877665443 589999999888 4566654
No 100
>PRK09694 helicase Cas3; Provisional
Probab=99.00 E-value=6e-09 Score=93.00 Aligned_cols=86 Identities=19% Similarity=0.134 Sum_probs=64.0
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC--Cce
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM--NVQ 130 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~--~~~ 130 (178)
..|+|+|..+......+..+++.+|||+|||.+++..+.. +.......+++|..||++.++++++++.++.+.. ...
T Consensus 285 ~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~-l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~ 363 (878)
T PRK09694 285 YQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWR-LIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPN 363 (878)
T ss_pred CCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHH-HHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 4799999988655445678999999999999998776654 3333334689999999999999999987654321 345
Q ss_pred EEEEEcCcc
Q psy9277 131 CHACIGGTN 139 (178)
Q Consensus 131 ~~~~~g~~~ 139 (178)
+.+.+|...
T Consensus 364 v~L~Hg~a~ 372 (878)
T PRK09694 364 LILAHGNSR 372 (878)
T ss_pred eEeecCcch
Confidence 666666543
No 101
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.99 E-value=4.3e-09 Score=83.42 Aligned_cols=73 Identities=23% Similarity=0.244 Sum_probs=58.8
Q ss_pred CCCCCcHHHHHHHHH----HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC---CceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 51 GFEKPSAIQQRSIKP----IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR---ETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~----i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~---~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.|+ |++.|.+.+.. +.+|.++++.||||+|||++|++|++..+..... +.+++|.++|.++..|....+++.
T Consensus 6 Py~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 6 PYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 454 69999996554 4458999999999999999999999987654332 238999999999999988888766
Q ss_pred c
Q psy9277 124 G 124 (178)
Q Consensus 124 ~ 124 (178)
.
T Consensus 85 ~ 85 (289)
T smart00488 85 M 85 (289)
T ss_pred c
Confidence 4
No 102
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.99 E-value=4.3e-09 Score=83.42 Aligned_cols=73 Identities=23% Similarity=0.244 Sum_probs=58.8
Q ss_pred CCCCCcHHHHHHHHH----HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC---CceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 51 GFEKPSAIQQRSIKP----IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLR---ETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~----i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~---~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.|+ |++.|.+.+.. +.+|.++++.||||+|||++|++|++..+..... +.+++|.++|.++..|....+++.
T Consensus 6 Py~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 6 PYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 454 69999996554 4458999999999999999999999987654332 238999999999999988888766
Q ss_pred c
Q psy9277 124 G 124 (178)
Q Consensus 124 ~ 124 (178)
.
T Consensus 85 ~ 85 (289)
T smart00489 85 M 85 (289)
T ss_pred c
Confidence 4
No 103
>KOG0951|consensus
Probab=98.99 E-value=5.6e-10 Score=100.02 Aligned_cols=106 Identities=20% Similarity=0.308 Sum_probs=88.0
Q ss_pred CCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhccCCCce
Q psy9277 53 EKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQ 130 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~ 130 (178)
...+++|.++++.+.+ +.++++++|+|||||.|+-++++. .....++++++|..+.+..+++.+ +++.+..|.+
T Consensus 1142 ~~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~ 1217 (1674)
T KOG0951|consen 1142 QDFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLR 1217 (1674)
T ss_pred cccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhccccCce
Confidence 3458999999999887 689999999999999999998876 334569999999999999999887 6777778999
Q ss_pred EEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHH
Q psy9277 131 CHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~ 166 (178)
++.+.|..+.+-. +....+|+|+||++. ++++
T Consensus 1218 ~~~l~ge~s~~lk---l~~~~~vii~tpe~~-d~lq 1249 (1674)
T KOG0951|consen 1218 IVKLTGETSLDLK---LLQKGQVIISTPEQW-DLLQ 1249 (1674)
T ss_pred EEecCCccccchH---HhhhcceEEechhHH-HHHh
Confidence 9999998887744 233568999999998 4444
No 104
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.96 E-value=9.3e-09 Score=89.10 Aligned_cols=112 Identities=16% Similarity=0.191 Sum_probs=93.6
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
-+|. +|+++|....-.++.|. +..+.||+|||++..+|+..... .+..+.+++|+.-||.|-++.+..+...+|
T Consensus 74 ~lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL---~G~~VhvvT~NdyLA~RDae~m~~ly~~LG 147 (764)
T PRK12326 74 TLGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYAL---QGRRVHVITVNDYLARRDAEWMGPLYEALG 147 (764)
T ss_pred HcCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHH---cCCCeEEEcCCHHHHHHHHHHHHHHHHhcC
Confidence 3465 68999999988888774 77999999999999998887654 466899999999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
+++.++.++.+.+++.... .|||+.+|...| .|+|+.+
T Consensus 148 Lsvg~i~~~~~~~err~aY--~~DItYgTn~e~gFDyLRDn 186 (764)
T PRK12326 148 LTVGWITEESTPEERRAAY--ACDVTYASVNEIGFDVLRDQ 186 (764)
T ss_pred CEEEEECCCCCHHHHHHHH--cCCCEEcCCcccccccchhh
Confidence 9999999988877665444 589999999877 4455544
No 105
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.91 E-value=9.1e-09 Score=86.07 Aligned_cols=96 Identities=21% Similarity=0.215 Sum_probs=69.7
Q ss_pred CCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 54 KPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
.++++|.+++..+.+ ++..++++|||+|||.+++..+... +..++||+|+++|+.|..+.+....... .
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~------~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~-~ 108 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL------KRSTLVLVPTKELLDQWAEALKKFLLLN-D 108 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHh------cCCEEEEECcHHHHHHHHHHHHHhcCCc-c
Confidence 599999999999998 8999999999999999987666542 2249999999999999987776554322 1
Q ss_pred eEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHH
Q psy9277 130 QCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFD 163 (178)
Q Consensus 130 ~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~ 163 (178)
.+.. +|+...... . ..|.|+|-+.+..
T Consensus 109 ~~g~-~~~~~~~~~-----~-~~i~vat~qtl~~ 135 (442)
T COG1061 109 EIGI-YGGGEKELE-----P-AKVTVATVQTLAR 135 (442)
T ss_pred ccce-ecCceeccC-----C-CcEEEEEhHHHhh
Confidence 1222 233222211 0 3699999888765
No 106
>KOG0947|consensus
Probab=98.88 E-value=1.8e-08 Score=88.67 Aligned_cols=107 Identities=19% Similarity=0.198 Sum_probs=87.7
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
...+| ++...|++||-++.+|.+|+|.|+|.+|||+++-.++.- ...+..+++|-+|-++|.+|-++.|+.-....
T Consensus 292 ~~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAial---aq~h~TR~iYTSPIKALSNQKfRDFk~tF~Dv 367 (1248)
T KOG0947|consen 292 LIYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIAL---AQKHMTRTIYTSPIKALSNQKFRDFKETFGDV 367 (1248)
T ss_pred hhCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHH---HHhhccceEecchhhhhccchHHHHHHhcccc
Confidence 45567 599999999999999999999999999999998766643 23367799999999999999999998776654
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
| +++|+.+.. ....++|.|-+-|-.||.++.
T Consensus 368 g----LlTGDvqin-------PeAsCLIMTTEILRsMLYrga 398 (1248)
T KOG0947|consen 368 G----LLTGDVQIN-------PEASCLIMTTEILRSMLYRGA 398 (1248)
T ss_pred c----eeecceeeC-------CCcceEeehHHHHHHHHhccc
Confidence 4 667777654 246789999999988887664
No 107
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.85 E-value=1.7e-08 Score=89.21 Aligned_cols=113 Identities=17% Similarity=0.175 Sum_probs=90.0
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
-+|. .|+++|...- +.-...-+..+.||+|||+++.+|++-... .+..+.+++|+.-||.+-+..+..+.+.+|
T Consensus 78 ~lGm-~~ydVQliGg--~~Lh~G~iaEM~TGEGKTLvA~l~a~l~al---~G~~VhvvT~ndyLA~RD~e~m~~l~~~lG 151 (913)
T PRK13103 78 VMGM-RHFDVQLIGG--MTLHEGKIAEMRTGEGKTLVGTLAVYLNAL---SGKGVHVVTVNDYLARRDANWMRPLYEFLG 151 (913)
T ss_pred HhCC-CcchhHHHhh--hHhccCccccccCCCCChHHHHHHHHHHHH---cCCCEEEEeCCHHHHHHHHHHHHHHhcccC
Confidence 3354 5777776543 333556689999999999999998876554 467899999999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcCC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSSQ 169 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~~ 169 (178)
+++.++.++.+.+++..... +||++||..-| .|+|+.+.
T Consensus 152 l~v~~i~~~~~~~err~~Y~--~dI~YGT~~e~gFDYLrD~~ 191 (913)
T PRK13103 152 LSVGIVTPFQPPEEKRAAYA--ADITYGTNNEFGFDYLRDNM 191 (913)
T ss_pred CEEEEECCCCCHHHHHHHhc--CCEEEEcccccccchhhccc
Confidence 99999998888777655543 99999999887 55555543
No 108
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.79 E-value=5.4e-08 Score=85.06 Aligned_cols=102 Identities=24% Similarity=0.253 Sum_probs=80.6
Q ss_pred CCcHHHHHHHHHHHcC----CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 54 KPSAIQQRSIKPIVKG----RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g----~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
.+++-|..+...+.+. ...++.+.||||||.+|+-.+-..+. .+.++|+|+|-.+|..|+...++... |.
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~---~GkqvLvLVPEI~Ltpq~~~rf~~rF---g~ 271 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA---QGKQVLVLVPEIALTPQLLARFKARF---GA 271 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH---cCCEEEEEeccccchHHHHHHHHHHh---CC
Confidence 5788999999998775 68999999999999999988777666 46799999999999999999997664 46
Q ss_pred eEEEEEcCccHHHHHHHh----cCCCcEEEeChHHH
Q psy9277 130 QCHACIGGTNLSEDLRKL----DYGQHVVSGTPGRV 161 (178)
Q Consensus 130 ~~~~~~g~~~~~~~~~~~----~~~~~IlV~TP~~l 161 (178)
++..++++.+..++...+ .....|+|||=-.|
T Consensus 272 ~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl 307 (730)
T COG1198 272 KVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL 307 (730)
T ss_pred ChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh
Confidence 677777776554433333 34579999995443
No 109
>KOG0949|consensus
Probab=98.79 E-value=1.5e-08 Score=89.27 Aligned_cols=112 Identities=17% Similarity=0.207 Sum_probs=84.4
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc-CCCceEE
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD-FMNVQCH 132 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~-~~~~~~~ 132 (178)
.|..||.+.+..+-.++++++.|||.+|||++-...+ ....+.....-+|+++|+++|+.|+...+..... ..-.+..
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~i-EKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~ 589 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAI-EKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRGV 589 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHH-HHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccch
Confidence 5899999999999999999999999999998754444 4444445666899999999999999888755442 2223444
Q ss_pred EEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 133 ACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 133 ~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.+.|....+-+.. .-.|+|+|+.|+.+..+|-+.
T Consensus 590 sl~g~ltqEYsin--p~nCQVLITvPecleslLlsp 623 (1330)
T KOG0949|consen 590 SLLGDLTQEYSIN--PWNCQVLITVPECLESLLLSP 623 (1330)
T ss_pred hhHhhhhHHhcCC--chhceEEEEchHHHHHHhcCc
Confidence 4455555544433 236999999999998888663
No 110
>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=98.76 E-value=4.5e-07 Score=70.80 Aligned_cols=113 Identities=19% Similarity=0.292 Sum_probs=87.3
Q ss_pred HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+..|+ +|+++|..++-.+..|+ ++...||-|||++..+|+.-... .+..+-|++.+..||..=++.+..+.+.+
T Consensus 72 r~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL---~G~~V~vvT~NdyLA~RD~~~~~~~y~~L 145 (266)
T PF07517_consen 72 RTLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNAL---QGKGVHVVTSNDYLAKRDAEEMRPFYEFL 145 (266)
T ss_dssp HHTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHT---TSS-EEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred HHcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHH---hcCCcEEEeccHHHhhccHHHHHHHHHHh
Confidence 35566 69999999997776666 99999999999998887765444 45689999999999999999999999999
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
|+.+....++.+.+++.... .++|+.+|...+ .|+|+..
T Consensus 146 Glsv~~~~~~~~~~~r~~~Y--~~dI~Y~t~~~~~fD~Lrd~ 185 (266)
T PF07517_consen 146 GLSVGIITSDMSSEERREAY--AADIVYGTNSEFGFDYLRDN 185 (266)
T ss_dssp T--EEEEETTTEHHHHHHHH--HSSEEEEEHHHHHHHHHHHT
T ss_pred hhccccCccccCHHHHHHHH--hCcccccccchhhHHHHHHH
Confidence 99999999998876654443 478999999998 4566653
No 111
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.76 E-value=7.5e-08 Score=87.16 Aligned_cols=85 Identities=18% Similarity=0.217 Sum_probs=65.8
Q ss_pred CCCCCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH----HHH
Q psy9277 51 GFEKPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV----VLA 122 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~----~~~ 122 (178)
|| ++++-|.+++..+.. +..+++.||||+|||++|++|++..... .+.++||-++|+.|-+|+... +++
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~--~~~~vvIsT~T~~LQ~Ql~~kDiP~L~~ 331 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKK--KEEPVVISTYTIQLQQQLLEKDIPLLQK 331 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhc--cCCeEEEEcCCHHHHHHHHHhhHHHHHH
Confidence 56 589999998776654 7899999999999999999999875543 456899999999999998774 333
Q ss_pred hccCCCceEEEEEcCcc
Q psy9277 123 LGDFMNVQCHACIGGTN 139 (178)
Q Consensus 123 ~~~~~~~~~~~~~g~~~ 139 (178)
.. ..+++++++-|..+
T Consensus 332 ~~-~~~~~~~~lKGr~n 347 (928)
T PRK08074 332 IF-PFPVEAALLKGRSH 347 (928)
T ss_pred Hc-CCCceEEEEEcccc
Confidence 32 23567777666544
No 112
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=98.72 E-value=1e-07 Score=83.55 Aligned_cols=105 Identities=22% Similarity=0.201 Sum_probs=74.0
Q ss_pred CCcHHHHHHHHHHHc----------CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 54 KPSAIQQRSIKPIVK----------GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~----------g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.+..+|..++..+.. .+..++..+||||||++.+..+.. +......+++|+|+|+.+|..|..+.+..+
T Consensus 238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~-l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARK-ALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHH-HHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 378899999987643 257899999999999887655543 334445679999999999999999999888
Q ss_pred ccCCCceEEEEEcCccHHHHHHHhcC-CCcEEEeChHHHHHHH
Q psy9277 124 GDFMNVQCHACIGGTNLSEDLRKLDY-GQHVVSGTPGRVFDMI 165 (178)
Q Consensus 124 ~~~~~~~~~~~~g~~~~~~~~~~~~~-~~~IlV~TP~~l~~~l 165 (178)
.... + .+..+.......+.. ...|+|+|.++|...+
T Consensus 317 ~~~~-~-----~~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~ 353 (667)
T TIGR00348 317 QKDC-A-----ERIESIAELKRLLEKDDGGIIITTIQKFDKKL 353 (667)
T ss_pred CCCC-C-----cccCCHHHHHHHHhCCCCCEEEEEhHHhhhhH
Confidence 5321 1 111223333233332 4689999999997644
No 113
>KOG0948|consensus
Probab=98.60 E-value=2.3e-07 Score=80.19 Aligned_cols=101 Identities=22% Similarity=0.232 Sum_probs=82.7
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEE
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHA 133 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~ 133 (178)
.+.|.|..+|..+-++.+|+|.|.|.+|||.++-.+|.+.+.. +-|+||-+|-++|.+|-|+.+..=.+. +++
T Consensus 129 ~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~---kQRVIYTSPIKALSNQKYREl~~EF~D----VGL 201 (1041)
T KOG0948|consen 129 TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE---KQRVIYTSPIKALSNQKYRELLEEFKD----VGL 201 (1041)
T ss_pred ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh---cCeEEeeChhhhhcchhHHHHHHHhcc----cce
Confidence 5889999999999999999999999999999999999887764 458999999999999999998544444 344
Q ss_pred EEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 134 CIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 134 ~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
.+|+.... .....+|.|-+-|-.||.++
T Consensus 202 MTGDVTIn-------P~ASCLVMTTEILRsMLYRG 229 (1041)
T KOG0948|consen 202 MTGDVTIN-------PDASCLVMTTEILRSMLYRG 229 (1041)
T ss_pred eecceeeC-------CCCceeeeHHHHHHHHHhcc
Confidence 55665543 23457888999998887655
No 114
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.59 E-value=3.4e-07 Score=80.81 Aligned_cols=75 Identities=23% Similarity=0.273 Sum_probs=64.1
Q ss_pred CCCCCCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 50 YGFEKPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
+-|..++|.|.+.+..+.. +.+.++.+|||+|||++.+.|++..........+++|.+.|.+-..|..+.++++.
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLM 84 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhh
Confidence 3466679999998876654 89999999999999999999999977655445799999999999999999998854
No 115
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.56 E-value=4.3e-07 Score=83.56 Aligned_cols=100 Identities=21% Similarity=0.254 Sum_probs=62.1
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEE--cC----cHHHHHHHHHHHHH-hccCCC
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCL--SP----TRELAVQIQKVVLA-LGDFMN 128 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil--~P----t~~L~~q~~~~~~~-~~~~~~ 128 (178)
+....+.+..+..+..++++|+||||||. .+|.+-... ..+....|+ -| ++++|.++.+.+.. ++...|
T Consensus 76 ~~~r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle~--g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VG 151 (1294)
T PRK11131 76 SQKKQDILEAIRDHQVVIVAGETGSGKTT--QLPKICLEL--GRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCVG 151 (1294)
T ss_pred HHHHHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHHc--CCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcceec
Confidence 33444556666677888999999999998 467332211 122222232 35 57888888888754 444444
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
+.+ ..++ ....+++|+|+|||+|++.+.+..
T Consensus 152 Y~v-------rf~~---~~s~~t~I~v~TpG~LL~~l~~d~ 182 (1294)
T PRK11131 152 YKV-------RFND---QVSDNTMVKLMTDGILLAEIQQDR 182 (1294)
T ss_pred eee-------cCcc---ccCCCCCEEEEChHHHHHHHhcCC
Confidence 432 1111 113468999999999999987654
No 116
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.53 E-value=6.2e-07 Score=79.03 Aligned_cols=66 Identities=26% Similarity=0.398 Sum_probs=54.7
Q ss_pred CCCCCcHHHHHHHHHHHc---C------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 51 GFEKPSAIQQRSIKPIVK---G------RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~---g------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
|| +.++-|.+++..+.+ + +.+++.||||+|||++|++|++..... .+.++||-+.|++|=+|+...
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~--~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARA--EKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHH--cCCeEEEEcCCHHHHHHHHhh
Confidence 66 589999998877663 3 678999999999999999999875554 345899999999999998753
No 117
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.51 E-value=5.5e-07 Score=78.88 Aligned_cols=74 Identities=22% Similarity=0.333 Sum_probs=60.9
Q ss_pred HhCCCCCCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 48 YAYGFEKPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 48 ~~~g~~~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
..+...++++.|.+++..+.. ++.+++.||||+|||++|++|++...... +..++|.++|+.|-.|+.+....+
T Consensus 9 ~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~--~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 9 VAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE--GKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred hhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc--CCcEEEECCCHHHHHHHHHhhcch
Confidence 344455799999999976553 66799999999999999999999876553 368999999999999999887544
No 118
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.44 E-value=6.5e-07 Score=79.16 Aligned_cols=112 Identities=19% Similarity=0.215 Sum_probs=88.4
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+|. +|+++|.... +.-..+-+..+.||.|||+++.+|+.-... .+..+.|++++..||.+-++.+..+.+.+|
T Consensus 72 ~lG~-r~ydvQlig~--l~L~~G~IaEm~TGEGKTL~a~l~ayl~aL---~G~~VhVvT~NdyLA~RD~e~m~pvy~~LG 145 (870)
T CHL00122 72 TLGL-RHFDVQLIGG--LVLNDGKIAEMKTGEGKTLVATLPAYLNAL---TGKGVHIVTVNDYLAKRDQEWMGQIYRFLG 145 (870)
T ss_pred HhCC-CCCchHhhhh--HhhcCCccccccCCCCchHHHHHHHHHHHh---cCCceEEEeCCHHHHHHHHHHHHHHHHHcC
Confidence 4465 4788887654 334567899999999999999998854333 356799999999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
+.+.+..++.+..++... ..|||+.+|...| .|+|+.+
T Consensus 146 Lsvg~i~~~~~~~err~a--Y~~DItYgTn~e~gFDyLRDn 184 (870)
T CHL00122 146 LTVGLIQEGMSSEERKKN--YLKDITYVTNSELGFDYLRDN 184 (870)
T ss_pred CceeeeCCCCChHHHHHh--cCCCCEecCCccccccchhhc
Confidence 999999888888766444 3589999999766 3555544
No 119
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.38 E-value=1.7e-06 Score=76.66 Aligned_cols=110 Identities=16% Similarity=0.185 Sum_probs=86.7
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+|. +|+++|...--.+ ...-+..+.||-|||+++.+|+.-... .+..+-||+++.-||..=++.+..+.+.+|
T Consensus 81 ~lG~-r~ydVQliGgl~L--h~G~IAEM~TGEGKTL~atlpaylnAL---~GkgVhVVTvNdYLA~RDae~m~~vy~~LG 154 (939)
T PRK12902 81 VLGM-RHFDVQLIGGMVL--HEGQIAEMKTGEGKTLVATLPSYLNAL---TGKGVHVVTVNDYLARRDAEWMGQVHRFLG 154 (939)
T ss_pred HhCC-CcchhHHHhhhhh--cCCceeeecCCCChhHHHHHHHHHHhh---cCCCeEEEeCCHHHHHhHHHHHHHHHHHhC
Confidence 3455 5777776644333 566689999999999999998876444 456799999999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHH
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIR 166 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~ 166 (178)
+.+.+..++.+..++... ..|||+.||+..| .|+|+
T Consensus 155 Ltvg~i~~~~~~~err~a--Y~~DItYgTn~e~gFDYLR 191 (939)
T PRK12902 155 LSVGLIQQDMSPEERKKN--YACDITYATNSELGFDYLR 191 (939)
T ss_pred CeEEEECCCCChHHHHHh--cCCCeEEecCCcccccchh
Confidence 999999888777665433 4799999999988 34443
No 120
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.34 E-value=3.5e-06 Score=63.73 Aligned_cols=68 Identities=25% Similarity=0.374 Sum_probs=51.4
Q ss_pred CCcHHHHHHHHHHHcCCc-EEEEcCCCChHHHHHHHHHHHHh------hhcCCCceEEEEcCcHHHHHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVKGRD-VIAQAQSGTGKTATFSISILQSL------DTQLRETQVLCLSPTRELAVQIQKVVLA 122 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~-v~v~aptGsGKTl~~ll~il~~l------~~~~~~~~~lil~Pt~~L~~q~~~~~~~ 122 (178)
++++.|.+|+..++.... .+|.||+|+|||....- ++..+ .....+.++++++|+.+-+..+.+.+.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~-~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLAS-IIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHH-HHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHH-HHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 368899999999999998 99999999999965443 33333 1244667999999999999999999877
No 121
>PF13245 AAA_19: Part of AAA domain
Probab=98.32 E-value=4.2e-06 Score=53.12 Aligned_cols=59 Identities=29% Similarity=0.456 Sum_probs=41.5
Q ss_pred HHHHHHcCCc-EEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 62 SIKPIVKGRD-VIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 62 ~i~~i~~g~~-v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
++...+.+.+ ++|.+|+|||||...+-.+...+.. ...+.++++++|++..+.++.+.+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 3443333444 5559999999997766555554431 222668999999999999998888
No 122
>KOG0952|consensus
Probab=98.23 E-value=3.2e-07 Score=81.57 Aligned_cols=113 Identities=17% Similarity=0.220 Sum_probs=89.7
Q ss_pred CCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceE
Q psy9277 53 EKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQC 131 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~ 131 (178)
..+.+.|.+.+-.+.. ..++++.+|||+|||++|.+++...+... .+.+++|++|.++|+..-.+.+.......|+++
T Consensus 926 ~~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~-p~~kvvyIap~kalvker~~Dw~~r~~~~g~k~ 1004 (1230)
T KOG0952|consen 926 KYFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYY-PGSKVVYIAPDKALVKERSDDWSKRDELPGIKV 1004 (1230)
T ss_pred cccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccC-CCccEEEEcCCchhhcccccchhhhcccCCcee
Confidence 3567788888877666 78999999999999999999988876654 347999999999999999988866655559999
Q ss_pred EEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 132 HACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 132 ~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
+-+.|+...+-. .+ ...+|+|+||++.-...++-+
T Consensus 1005 ie~tgd~~pd~~--~v-~~~~~~ittpek~dgi~Rsw~ 1039 (1230)
T KOG0952|consen 1005 IELTGDVTPDVK--AV-READIVITTPEKWDGISRSWQ 1039 (1230)
T ss_pred EeccCccCCChh--he-ecCceEEcccccccCcccccc
Confidence 999888876622 22 257899999999866665433
No 123
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=98.22 E-value=1.1e-05 Score=63.47 Aligned_cols=92 Identities=18% Similarity=0.090 Sum_probs=58.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCC---ceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRE---TQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR 145 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~---~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 145 (178)
.+..+++-..|.|||+..+..+. .+...... ..+|||+|. .+..+-...+.++......++..+.|.........
T Consensus 25 ~~g~lL~de~GlGKT~~~i~~~~-~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~~~~~~~~~~~~ 102 (299)
T PF00176_consen 25 PRGGLLADEMGLGKTITAIALIS-YLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIYDGDSERRRLSK 102 (299)
T ss_dssp T-EEEE---TTSSHHHHHHHHHH-HHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEESSSCHHHHTTS
T ss_pred CCCEEEEECCCCCchhhhhhhhh-hhhhccccccccceeEeecc-chhhhhhhhhccccccccccccccccccccccccc
Confidence 46899999999999988765444 33332222 259999999 88888899998888654567766666652332222
Q ss_pred HhcCCCcEEEeChHHHH
Q psy9277 146 KLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 146 ~~~~~~~IlV~TP~~l~ 162 (178)
......+|+|+|.+.+.
T Consensus 103 ~~~~~~~vvi~ty~~~~ 119 (299)
T PF00176_consen 103 NQLPKYDVVITTYETLR 119 (299)
T ss_dssp SSCCCSSEEEEEHHHHH
T ss_pred cccccceeeeccccccc
Confidence 22345789999999887
No 124
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.20 E-value=1.3e-05 Score=70.35 Aligned_cols=106 Identities=21% Similarity=0.180 Sum_probs=78.5
Q ss_pred CCCcHHHHHHHHHHHc----C-CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 53 EKPSAIQQRSIKPIVK----G-RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~----g-~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
..++.+|..||..+.+ | +-+++.+.||+|||..+ +.++.+|.+...-.++|+|+-.++|+.|.+..+..+...-
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTA-iaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~ 242 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTA-IAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFG 242 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeH-HHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCc
Confidence 3588999999987664 3 45999999999999886 4677777777677799999999999999999988875432
Q ss_pred CceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 128 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 128 ~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
-.+..+. +... ..+++|.|+|-+.+..-+...
T Consensus 243 -~~~n~i~-~~~~-------~~s~~i~lsTyqt~~~~~~~~ 274 (875)
T COG4096 243 -TKMNKIE-DKKG-------DTSSEIYLSTYQTMTGRIEQK 274 (875)
T ss_pred -cceeeee-cccC-------CcceeEEEeehHHHHhhhhcc
Confidence 2211111 1111 125789999999998776554
No 125
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.18 E-value=1e-05 Score=71.86 Aligned_cols=77 Identities=21% Similarity=0.288 Sum_probs=64.6
Q ss_pred CCcHHHHHHHHHHHc---CC-cEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIVK---GR-DVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~---g~-~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
...+.|..++..+.+ .. .+++.||||.|||.+.+.++...+.. .....+.+++.|+++++.++++.++.+....+
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~ 274 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccc
Confidence 358899999988877 24 78999999999999999999887765 44677999999999999999999988765544
Q ss_pred ce
Q psy9277 129 VQ 130 (178)
Q Consensus 129 ~~ 130 (178)
+.
T Consensus 275 ~~ 276 (733)
T COG1203 275 VI 276 (733)
T ss_pred cc
Confidence 43
No 126
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.17 E-value=2.2e-05 Score=62.85 Aligned_cols=101 Identities=18% Similarity=0.203 Sum_probs=77.6
Q ss_pred CCcHHHHHHHHHH----HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 54 KPSAIQQRSIKPI----VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 54 ~~~~~Q~~~i~~i----~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
++++.|..+-..+ .+.++.++.|-||+|||....-.+-+.+. .|.++.|.+|....+.+++.+++.-.. +.
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~---~G~~vciASPRvDVclEl~~Rlk~aF~--~~ 171 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALN---QGGRVCIASPRVDVCLELYPRLKQAFS--NC 171 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHh---cCCeEEEecCcccchHHHHHHHHHhhc--cC
Confidence 6899998876554 45789999999999999875444433333 577999999999999999999977655 45
Q ss_pred eEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHH
Q psy9277 130 QCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 130 ~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~ 166 (178)
.+.+++|+++..-+ .+++|+|-..|+.+-+
T Consensus 172 ~I~~Lyg~S~~~fr-------~plvVaTtHQLlrFk~ 201 (441)
T COG4098 172 DIDLLYGDSDSYFR-------APLVVATTHQLLRFKQ 201 (441)
T ss_pred CeeeEecCCchhcc-------ccEEEEehHHHHHHHh
Confidence 67788888765532 5699999988887754
No 127
>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=98.16 E-value=1.6e-05 Score=73.57 Aligned_cols=112 Identities=13% Similarity=0.113 Sum_probs=65.9
Q ss_pred CCCCCCcHHHH---HHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhcc
Q psy9277 50 YGFEKPSAIQQ---RSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGD 125 (178)
Q Consensus 50 ~g~~~~~~~Q~---~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~ 125 (178)
..|....|+.. +.+..+..+..++++|+||||||.- +|.+-.-.......++++.-|.|--|..++..+ ..+..
T Consensus 60 ~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTq--lPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~ 137 (1283)
T TIGR01967 60 IRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQ--LPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGT 137 (1283)
T ss_pred ccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHH--HHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCC
Confidence 34554455544 4555666678899999999999983 454332111111224444557777777777655 33433
Q ss_pred CCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 126 FMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 126 ~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
..|-.++..+...+. ...+..|.++|||.|++.+.+..
T Consensus 138 ~lG~~VGY~vR~~~~------~s~~T~I~~~TdGiLLr~l~~d~ 175 (1283)
T TIGR01967 138 PLGEKVGYKVRFHDQ------VSSNTLVKLMTDGILLAETQQDR 175 (1283)
T ss_pred CcceEEeeEEcCCcc------cCCCceeeeccccHHHHHhhhCc
Confidence 344444332222111 12357899999999999987643
No 128
>KOG0950|consensus
Probab=98.15 E-value=7.7e-06 Score=72.46 Aligned_cols=121 Identities=14% Similarity=0.131 Sum_probs=96.9
Q ss_pred CCHHHHHH-HHhCCCCCCcHHHHHHH--HHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHH
Q psy9277 39 LREDLLRG-IYAYGFEKPSAIQQRSI--KPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQ 115 (178)
Q Consensus 39 l~~~i~~~-l~~~g~~~~~~~Q~~~i--~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q 115 (178)
+++...+. .+..|+..++.||.+|+ +.++.++|.+..+||+.|||++.-+-++...... ...++.+.|-.+-++.
T Consensus 207 ~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~--rr~~llilp~vsiv~E 284 (1008)
T KOG0950|consen 207 LPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCR--RRNVLLILPYVSIVQE 284 (1008)
T ss_pred CchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHH--hhceeEecceeehhHH
Confidence 33333333 46778999999999998 6788899999999999999999998888877663 3468999999999999
Q ss_pred HHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHH
Q psy9277 116 IQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMI 165 (178)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l 165 (178)
-...+..+...+|+.+-.++|....... .+.-++-|+|-++=..++
T Consensus 285 k~~~l~~~~~~~G~~ve~y~g~~~p~~~----~k~~sv~i~tiEkansli 330 (1008)
T KOG0950|consen 285 KISALSPFSIDLGFPVEEYAGRFPPEKR----RKRESVAIATIEKANSLI 330 (1008)
T ss_pred HHhhhhhhccccCCcchhhcccCCCCCc----ccceeeeeeehHhhHhHH
Confidence 9999999999999999888877655432 234579999998865444
No 129
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.10 E-value=3.7e-05 Score=68.28 Aligned_cols=112 Identities=16% Similarity=0.178 Sum_probs=88.5
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
-+|. +|+++|...--.+..| -+..+.||-|||+++.+|+.-... .|..+-|++..--||..=...+..+...+|
T Consensus 74 ~lG~-r~ydVQliGglvLh~G--~IAEMkTGEGKTLvAtLpayLnAL---~GkgVhVVTvNdYLA~RDae~mg~vy~fLG 147 (925)
T PRK12903 74 VLGK-RPYDVQIIGGIILDLG--SVAEMKTGEGKTITSIAPVYLNAL---TGKGVIVSTVNEYLAERDAEEMGKVFNFLG 147 (925)
T ss_pred HhCC-CcCchHHHHHHHHhcC--CeeeecCCCCccHHHHHHHHHHHh---cCCceEEEecchhhhhhhHHHHHHHHHHhC
Confidence 3465 6888888776555555 479999999999999988854333 355788889999999999999999999999
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
+.+.+...+.+..+.... ..|||..||...| .|+|+.+
T Consensus 148 LsvG~i~~~~~~~~rr~a--Y~~DItYgTn~E~gFDYLRDn 186 (925)
T PRK12903 148 LSVGINKANMDPNLKREA--YACDITYSVHSELGFDYLRDN 186 (925)
T ss_pred CceeeeCCCCChHHHHHh--ccCCCeeecCcccchhhhhhc
Confidence 999999888777765444 3599999999887 5566654
No 130
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=98.09 E-value=1.9e-05 Score=62.44 Aligned_cols=69 Identities=23% Similarity=0.276 Sum_probs=53.8
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
+++-|.+++.. ...+++|.|+.|||||.+.+--++..+... ....+.+++++|++.+.++...+.....
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~ 70 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLE 70 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcC
Confidence 47789998877 788999999999999998877666665543 3446899999999999999999877543
No 131
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.04 E-value=0.00011 Score=66.28 Aligned_cols=50 Identities=14% Similarity=0.260 Sum_probs=39.9
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
.++.+.++||+|||.+|+-.++... ......+.||+||+.+.-..+...+
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~-~~~~~~~fii~vp~~aI~egv~~~l 109 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELH-QKYGLFKFIIVVPTPAIKEGTRNFI 109 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHH-HHcCCcEEEEEeCCHHHHHHHHHHh
Confidence 4899999999999999988776643 3334468999999999888777654
No 132
>PRK14873 primosome assembly protein PriA; Provisional
Probab=97.99 E-value=3.8e-05 Score=67.34 Aligned_cols=81 Identities=17% Similarity=0.168 Sum_probs=60.7
Q ss_pred EcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh---cC-C
Q psy9277 75 QAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL---DY-G 150 (178)
Q Consensus 75 ~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~-~ 150 (178)
.+-+|||||.+|+-.+-..+. .+.++|+++|..+|+.|+.+.++..+. +..++.++++.+..++...+ .. .
T Consensus 166 ~~~~GSGKTevyl~~i~~~l~---~Gk~vLvLvPEi~lt~q~~~rl~~~f~--~~~v~~lhS~l~~~~R~~~w~~~~~G~ 240 (665)
T PRK14873 166 QALPGEDWARRLAAAAAATLR---AGRGALVVVPDQRDVDRLEAALRALLG--AGDVAVLSAGLGPADRYRRWLAVLRGQ 240 (665)
T ss_pred hcCCCCcHHHHHHHHHHHHHH---cCCeEEEEecchhhHHHHHHHHHHHcC--CCcEEEECCCCCHHHHHHHHHHHhCCC
Confidence 334699999999877766555 456899999999999999999976653 25577888887766544433 23 4
Q ss_pred CcEEEeChHH
Q psy9277 151 QHVVSGTPGR 160 (178)
Q Consensus 151 ~~IlV~TP~~ 160 (178)
..|+|||-.-
T Consensus 241 ~~IViGtRSA 250 (665)
T PRK14873 241 ARVVVGTRSA 250 (665)
T ss_pred CcEEEEccee
Confidence 7899999543
No 133
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=97.86 E-value=0.00015 Score=63.59 Aligned_cols=74 Identities=18% Similarity=0.174 Sum_probs=57.0
Q ss_pred CCcHHHHHHHHHHHcC-CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEE
Q psy9277 54 KPSAIQQRSIKPIVKG-RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCH 132 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g-~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~ 132 (178)
.++..|..|+..++.. ..++|.||+|+|||....-.+.+.+. .+.++++++||..-+.++.+.+... +++++
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~---~g~~VLv~a~sn~Avd~l~e~l~~~----~~~vv 229 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVK---RGLRVLVTAPSNIAVDNLLERLALC----DQKIV 229 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHH---cCCCEEEEcCcHHHHHHHHHHHHhC----CCcEE
Confidence 4689999999998875 68899999999999766544444333 3458999999999999999988654 45544
Q ss_pred EE
Q psy9277 133 AC 134 (178)
Q Consensus 133 ~~ 134 (178)
.+
T Consensus 230 Rl 231 (637)
T TIGR00376 230 RL 231 (637)
T ss_pred Ee
Confidence 44
No 134
>KOG1802|consensus
Probab=97.84 E-value=6.5e-05 Score=64.72 Aligned_cols=86 Identities=21% Similarity=0.230 Sum_probs=69.6
Q ss_pred HHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 46 GIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 46 ~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.+...|+.+++.-|..|...++...=.++++|+|+|||.... .|+.++.+. ....+|+++|+.--+.|+.+.+.+.
T Consensus 402 ~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa-~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~t-- 477 (935)
T KOG1802|consen 402 RFSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSA-TIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKT-- 477 (935)
T ss_pred hhcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhH-HHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhc--
Confidence 344557888999999999999999999999999999998754 444444443 4568999999999999999998655
Q ss_pred CCCceEEEEEcC
Q psy9277 126 FMNVQCHACIGG 137 (178)
Q Consensus 126 ~~~~~~~~~~g~ 137 (178)
|++++.+...
T Consensus 478 --gLKVvRl~ak 487 (935)
T KOG1802|consen 478 --GLKVVRLCAK 487 (935)
T ss_pred --CceEeeeehh
Confidence 6888777643
No 135
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.78 E-value=0.0002 Score=53.62 Aligned_cols=64 Identities=23% Similarity=0.420 Sum_probs=46.4
Q ss_pred CCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
++++-|.+++..++.+ +-+++.|+.|+|||.+. -.+...+.. .+.++++++||...+..+.+..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~--~g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEA--AGKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHH--TT--EEEEESSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHh--CCCeEEEECCcHHHHHHHHHhh
Confidence 3688999999999754 35788899999999653 334444443 3579999999999999888774
No 136
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.74 E-value=9.6e-05 Score=62.30 Aligned_cols=72 Identities=25% Similarity=0.295 Sum_probs=55.0
Q ss_pred CCcHHHHHHHHHHHcC-----CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIVKG-----RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g-----~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.|.--|-+||..+..| +.-.+.|-||||||+...-.|-. -..-+||++|.+.||.|+|..++.|.....
T Consensus 12 ~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~------~~rPtLV~AhNKTLAaQLy~Efk~fFP~Na 85 (663)
T COG0556 12 KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAK------VQRPTLVLAHNKTLAAQLYSEFKEFFPENA 85 (663)
T ss_pred CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHH------hCCCeEEEecchhHHHHHHHHHHHhCcCcc
Confidence 4777788888777663 57889999999999775433322 123589999999999999999999987765
Q ss_pred ceE
Q psy9277 129 VQC 131 (178)
Q Consensus 129 ~~~ 131 (178)
+..
T Consensus 86 VEY 88 (663)
T COG0556 86 VEY 88 (663)
T ss_pred eEE
Confidence 543
No 137
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.73 E-value=8.6e-05 Score=55.95 Aligned_cols=59 Identities=19% Similarity=0.240 Sum_probs=41.7
Q ss_pred CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 52 FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 52 ~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
++-.+..|..++..+....-+++.||.|||||+.++...++.+.. ..-.+.+|.-|..+
T Consensus 2 I~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 2 IKPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKE-GEYDKIIITRPPVE 60 (205)
T ss_dssp ----SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-SEEEEEE-S--
T ss_pred ccCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCcEEEEEecCCC
Confidence 345689999999999998999999999999999999988888765 34447777777765
No 138
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.70 E-value=0.00086 Score=61.45 Aligned_cols=106 Identities=13% Similarity=0.052 Sum_probs=71.8
Q ss_pred CCcHHHHHHHHHHH----cCCcEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIV----KGRDVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~----~g~~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+.++|.+.+.-+. +|.+.++.-..|.|||+-.+.. +..+.. .......|||||. ++..+..+.+.+++. .
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p--~ 244 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCP--V 244 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCC--C
Confidence 58999999987654 5788999999999999875433 333332 2233478999996 556677777887764 4
Q ss_pred ceEEEEEcCccHHHHHH--H-hcCCCcEEEeChHHHHH
Q psy9277 129 VQCHACIGGTNLSEDLR--K-LDYGQHVVSGTPGRVFD 163 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~--~-~~~~~~IlV~TP~~l~~ 163 (178)
++++.++|......... . .....+|+|+|.+.+..
T Consensus 245 l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~ 282 (1033)
T PLN03142 245 LRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIK 282 (1033)
T ss_pred CceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHH
Confidence 56666776654322211 1 12357999999988754
No 139
>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=97.61 E-value=0.0031 Score=48.20 Aligned_cols=128 Identities=18% Similarity=0.247 Sum_probs=81.3
Q ss_pred ccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHc---CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 33 TFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVK---GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 33 ~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~---g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
.|+-...+.+++=.+.. ++ -.++.|.+....+.+ |.|.+.+.-.|.|||.+. +|++..+..++. ..+.+++|
T Consensus 4 ~w~p~~~P~wLl~E~e~-~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg~-~LvrviVp- 78 (229)
T PF12340_consen 4 NWDPMEYPDWLLFEIES-NI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVI-VPMLALALADGS-RLVRVIVP- 78 (229)
T ss_pred CCCchhChHHHHHHHHc-Cc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchH-HHHHHHHHcCCC-cEEEEEcC-
Confidence 45556666777766643 45 589999999988876 689999999999999774 567666655333 34555555
Q ss_pred HHHHHHHHHHHHHhcc-CCCceEEEE--EcCcc--HH--HHHH----HhcCCCcEEEeChHHHHHHH
Q psy9277 110 RELAVQIQKVVLALGD-FMNVQCHAC--IGGTN--LS--EDLR----KLDYGQHVVSGTPGRVFDMI 165 (178)
Q Consensus 110 ~~L~~q~~~~~~~~~~-~~~~~~~~~--~g~~~--~~--~~~~----~~~~~~~IlV~TP~~l~~~l 165 (178)
++|..|.+..++.-.. -.+-++..+ .-... .. .... .......|+++||+.++.+.
T Consensus 79 k~Ll~q~~~~L~~~lg~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~ 145 (229)
T PF12340_consen 79 KALLEQMRQMLRSRLGGLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFK 145 (229)
T ss_pred HHHHHHHHHHHHHHHHHHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHH
Confidence 5699999888844433 234444333 11111 11 1111 11234469999999997663
No 140
>KOG1123|consensus
Probab=97.55 E-value=5.5e-05 Score=63.38 Aligned_cols=96 Identities=17% Similarity=0.108 Sum_probs=74.4
Q ss_pred CCcHHHHHHHHHHHc---CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 54 KPSAIQQRSIKPIVK---GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~---g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
.++|+|..++..... .++-+|..|.|+|||++-+-+++. -+.+||++|.+---+.|....++.++...+-.
T Consensus 302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t------ikK~clvLcts~VSVeQWkqQfk~wsti~d~~ 375 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT------IKKSCLVLCTSAVSVEQWKQQFKQWSTIQDDQ 375 (776)
T ss_pred ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee------ecccEEEEecCccCHHHHHHHHHhhcccCccc
Confidence 478999999998876 368899999999999887655543 23589999999999999999998887766667
Q ss_pred EEEEEcCccHHHHHHHhcCCCcEEEeChHH
Q psy9277 131 CHACIGGTNLSEDLRKLDYGQHVVSGTPGR 160 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~ 160 (178)
++.++.+.... ...++.|+|+|-..
T Consensus 376 i~rFTsd~Ke~-----~~~~~gvvvsTYsM 400 (776)
T KOG1123|consen 376 ICRFTSDAKER-----FPSGAGVVVTTYSM 400 (776)
T ss_pred eEEeecccccc-----CCCCCcEEEEeeeh
Confidence 77776655332 23578899999643
No 141
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=97.53 E-value=0.0015 Score=57.54 Aligned_cols=67 Identities=21% Similarity=0.315 Sum_probs=52.3
Q ss_pred CCcHHHHHHHHHHHcC-----CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccC
Q psy9277 54 KPSAIQQRSIKPIVKG-----RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDF 126 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g-----~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~ 126 (178)
.|+-.|..+|..+.++ ++.++.|-||||||+...- +++. .+..+|||+|++.+|.|+++.++.|...
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~-~~~~-----~~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMAN-VIAQ-----VNRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHH-HHHH-----hCCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 5889999999887653 3677999999999977542 2221 1235899999999999999999999754
No 142
>COG4889 Predicted helicase [General function prediction only]
Probab=97.52 E-value=0.00075 Score=60.23 Aligned_cols=99 Identities=23% Similarity=0.209 Sum_probs=64.5
Q ss_pred ccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCC----cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 33 TFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGR----DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 33 ~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~----~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
.|+.+.. .++...+.-..-++|+|+|+.|+....+|- .-=+.+.+|+|||+..+- +...+. ..++|+++|
T Consensus 141 DW~~f~p-~e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLk-isEala----~~~iL~LvP 214 (1518)
T COG4889 141 DWDIFDP-TELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLK-ISEALA----AARILFLVP 214 (1518)
T ss_pred ChhhcCc-cccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHH-HHHHHh----hhheEeecc
Confidence 3444332 234444433345689999999999988731 122445578999988753 333333 268999999
Q ss_pred cHHHHHHHHHHHHHhccCCCceEEEEEcCc
Q psy9277 109 TRELAVQIQKVVLALGDFMNVQCHACIGGT 138 (178)
Q Consensus 109 t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~ 138 (178)
+.+|..|..+.+..- +.+.++...++++.
T Consensus 215 SIsLLsQTlrew~~~-~~l~~~a~aVcSD~ 243 (1518)
T COG4889 215 SISLLSQTLREWTAQ-KELDFRASAVCSDD 243 (1518)
T ss_pred hHHHHHHHHHHHhhc-cCccceeEEEecCc
Confidence 999999999888544 23456665555443
No 143
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.40 E-value=0.00022 Score=50.60 Aligned_cols=87 Identities=21% Similarity=0.234 Sum_probs=54.0
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL 147 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 147 (178)
+|+-.++-..+|+|||--.+.-++..-.. ++.++|+|.|||.++..+++.++.. .+++.. ..... ..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~--~~~rvLvL~PTRvva~em~~aL~~~----~~~~~t---~~~~~----~~ 69 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIK--RRLRVLVLAPTRVVAEEMYEALKGL----PVRFHT---NARMR----TH 69 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHH--TT--EEEEESSHHHHHHHHHHTTTS----SEEEES---TTSS-------
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHH--ccCeEEEecccHHHHHHHHHHHhcC----CcccCc---eeeec----cc
Confidence 45667889999999999877766664443 4579999999999999999888533 333321 11111 11
Q ss_pred cCCCcEEEeChHHHHHHHHc
Q psy9277 148 DYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 148 ~~~~~IlV~TP~~l~~~l~~ 167 (178)
..+.-|-|.|-+.+..++-+
T Consensus 70 ~g~~~i~vMc~at~~~~~~~ 89 (148)
T PF07652_consen 70 FGSSIIDVMCHATYGHFLLN 89 (148)
T ss_dssp -SSSSEEEEEHHHHHHHHHT
T ss_pred cCCCcccccccHHHHHHhcC
Confidence 12345667777777766654
No 144
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=97.33 E-value=0.00038 Score=62.85 Aligned_cols=107 Identities=19% Similarity=0.216 Sum_probs=81.8
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
|+++|.. ..+.-...-+..+.||-|||+++.+|+.-... .+.-+-+|+-.--||..=.+++..+...+|+.+.+.
T Consensus 139 ~ydVQLi--GgivLh~G~IAEM~TGEGKTLvatlp~yLnAL---~G~gVHvVTvNDYLA~RDaewm~p~y~flGLtVg~i 213 (1025)
T PRK12900 139 PYDVQLI--GGIVLHSGKISEMATGEGKTLVSTLPTFLNAL---TGRGVHVVTVNDYLAQRDKEWMNPVFEFHGLSVGVI 213 (1025)
T ss_pred ccchHHh--hhHHhhcCCccccCCCCCcchHhHHHHHHHHH---cCCCcEEEeechHhhhhhHHHHHHHHHHhCCeeeee
Confidence 5556554 44444556689999999999999998865444 344678888899999999999999999999999999
Q ss_pred EcCccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 135 IGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 135 ~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
..+.+..++... ..|||..||..-| .|+|+.+
T Consensus 214 ~~~~~~~~Rr~a--Y~~DItYgTn~EfGFDYLRDn 246 (1025)
T PRK12900 214 LNTMRPEERREQ--YLCDITYGTNNEFGFDYLRDN 246 (1025)
T ss_pred CCCCCHHHHHHh--CCCcceecCCCccccccchhc
Confidence 777776665433 4699999998877 4555544
No 145
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=97.33 E-value=0.00057 Score=53.07 Aligned_cols=74 Identities=18% Similarity=0.274 Sum_probs=58.2
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcC-ccHHHHHHHhcC-CCcEEEeChHHHHHHHHcCCCCCc
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGG-TNLSEDLRKLDY-GQHVVSGTPGRVFDMIRSSQGRRT 173 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~-~~~IlV~TP~~l~~~l~~~~~~~~ 173 (178)
..|.+|||+..---|.++.+.++.+- .-+..++.++.- ...+++...+.. ..+|.||||+||.+++.++.+.+.
T Consensus 125 gsP~~lvvs~SalRa~dl~R~l~~~~-~k~~~v~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~kLle~~~L~l~ 200 (252)
T PF14617_consen 125 GSPHVLVVSSSALRAADLIRALRSFK-GKDCKVAKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLSKLLENGALSLS 200 (252)
T ss_pred CCCEEEEEcchHHHHHHHHHHHHhhc-cCCchHHHHHHhhccHHHHHHHHHhCCceEEEeChHHHHHHHHcCCCCcc
Confidence 35799999999999999999998873 113445555544 488888888875 579999999999999998887763
No 146
>KOG1803|consensus
Probab=97.32 E-value=0.00082 Score=57.48 Aligned_cols=64 Identities=22% Similarity=0.275 Sum_probs=52.7
Q ss_pred CCcHHHHHHHHHHHcC-CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVKG-RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g-~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
.+.+-|..|+....+. .=.+++||+|+|||.....-+.+.+. .+.++|+.+||..-+.-+.+.+
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk---~~k~VLVcaPSn~AVdNiverl 249 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVK---QKKRVLVCAPSNVAVDNIVERL 249 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHH---cCCeEEEEcCchHHHHHHHHHh
Confidence 5788999999888886 45688999999999887766666555 3469999999999999888864
No 147
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.24 E-value=0.004 Score=56.85 Aligned_cols=104 Identities=18% Similarity=0.053 Sum_probs=66.1
Q ss_pred CCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceE
Q psy9277 54 KPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQC 131 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~ 131 (178)
.|.|+|.+....++. ...+++.-..|.|||+-+.+.+-+.+. .....++|||||. .|..|-...+.+.. ++..
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~-~g~~~rvLIVvP~-sL~~QW~~El~~kF---~l~~ 226 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLL-TGRAERVLILVPE-TLQHQWLVEMLRRF---NLRF 226 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHH-cCCCCcEEEEcCH-HHHHHHHHHHHHHh---CCCe
Confidence 499999999877765 357899999999999888655544433 3334589999997 78888877774332 4444
Q ss_pred EEEEcCccHHHHHH--HhcCCCcEEEeChHHHH
Q psy9277 132 HACIGGTNLSEDLR--KLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 132 ~~~~g~~~~~~~~~--~~~~~~~IlV~TP~~l~ 162 (178)
.++.++........ ......+++|++-+.+.
T Consensus 227 ~i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~ 259 (956)
T PRK04914 227 SLFDEERYAEAQHDADNPFETEQLVICSLDFLR 259 (956)
T ss_pred EEEcCcchhhhcccccCccccCcEEEEEHHHhh
Confidence 43332221110000 01123578888877654
No 148
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.23 E-value=0.0016 Score=53.45 Aligned_cols=89 Identities=22% Similarity=0.240 Sum_probs=50.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC-c-HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP-T-RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P-t-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
|..+++.||||+|||.....-+....... ...++.++.. + +.=+.+ .++.+++..++.+..+............
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~-G~~~V~lit~D~~R~ga~E---qL~~~a~~~gv~~~~~~~~~~l~~~l~~ 212 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRF-GASKVALLTTDSYRIGGHE---QLRIFGKILGVPVHAVKDGGDLQLALAE 212 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc-CCCeEEEEecccccccHHH---HHHHHHHHcCCceEecCCcccHHHHHHH
Confidence 67899999999999988654433322221 1124444432 1 222333 3344444456666666555555555555
Q ss_pred hcCCCcEEEeChHHH
Q psy9277 147 LDYGQHVVSGTPGRV 161 (178)
Q Consensus 147 ~~~~~~IlV~TP~~l 161 (178)
+.+.--|+|=|||+.
T Consensus 213 l~~~DlVLIDTaG~~ 227 (374)
T PRK14722 213 LRNKHMVLIDTIGMS 227 (374)
T ss_pred hcCCCEEEEcCCCCC
Confidence 554445788888865
No 149
>PRK10536 hypothetical protein; Provisional
Probab=97.22 E-value=0.0016 Score=50.72 Aligned_cols=60 Identities=17% Similarity=0.183 Sum_probs=45.0
Q ss_pred CCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 50 YGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
.++...+..|...+..+.++..+++.||+|+|||+..+...++.+... .-.+++|.-|+.
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~-~~~kIiI~RP~v 114 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHK-DVDRIIVTRPVL 114 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CeeEEEEeCCCC
Confidence 355667899999999999989999999999999999887777665432 223445544553
No 150
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=97.22 E-value=0.0058 Score=53.89 Aligned_cols=69 Identities=23% Similarity=0.355 Sum_probs=53.7
Q ss_pred CCCCCcHHHHHHHHHHHcC-----CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 51 GFEKPSAIQQRSIKPIVKG-----RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~g-----~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.| .|+..|..++..+.++ +..++.|.+||||++... .++.. .+..+|||+|+...|.|+++.+..+..
T Consensus 10 ~~-~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia-~l~~~-----~~r~vLIVt~~~~~A~~l~~dL~~~~~ 82 (652)
T PRK05298 10 PY-KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA-NVIAR-----LQRPTLVLAHNKTLAAQLYSEFKEFFP 82 (652)
T ss_pred CC-CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH-HHHHH-----hCCCEEEEECCHHHHHHHHHHHHHhcC
Confidence 45 6999999999988652 267799999999997743 22221 134699999999999999999988865
Q ss_pred C
Q psy9277 126 F 126 (178)
Q Consensus 126 ~ 126 (178)
.
T Consensus 83 ~ 83 (652)
T PRK05298 83 E 83 (652)
T ss_pred C
Confidence 3
No 151
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=97.20 E-value=0.0019 Score=52.01 Aligned_cols=68 Identities=24% Similarity=0.313 Sum_probs=42.7
Q ss_pred HHHHHHHhCCCCCCcHHHHHHHHH-HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 42 DLLRGIYAYGFEKPSAIQQRSIKP-IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 42 ~i~~~l~~~g~~~~~~~Q~~~i~~-i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
.-++.+.+.|. +++.|.+.+.. +..+.+++++|+|||||| .++-.++..+.......+++++-.+.++
T Consensus 122 ~tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 122 FTLDQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred CCHHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 34455555665 56778877765 455889999999999999 4445555543221223355555555554
No 152
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=97.18 E-value=0.0015 Score=57.72 Aligned_cols=69 Identities=16% Similarity=0.167 Sum_probs=54.4
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.+++-|.+++.. ....++|.|..|||||.+.+.-+.+.+... -...++++++-|+.-|.++.+++..+.
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHh
Confidence 478999998764 356789999999999999776666655432 234589999999999999999887664
No 153
>PRK11054 helD DNA helicase IV; Provisional
Probab=97.08 E-value=0.0053 Score=54.35 Aligned_cols=78 Identities=17% Similarity=0.165 Sum_probs=56.3
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceE
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQC 131 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~ 131 (178)
..+++-|.+++-. ...+++|.|..|||||.+.+--+...+... ..+.++++++.|+..|..+.+++.......++.+
T Consensus 195 ~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~~v~v 272 (684)
T PRK11054 195 SPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTEDITA 272 (684)
T ss_pred CCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCCCcEE
Confidence 3689999998743 345789999999999988765554444332 2345899999999999999998866543323444
Q ss_pred E
Q psy9277 132 H 132 (178)
Q Consensus 132 ~ 132 (178)
.
T Consensus 273 ~ 273 (684)
T PRK11054 273 R 273 (684)
T ss_pred E
Confidence 3
No 154
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.07 E-value=0.0011 Score=60.26 Aligned_cols=107 Identities=20% Similarity=0.232 Sum_probs=79.9
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
++++| .+..+.-...-+..+.||-|||+++.+|+.-... .+.-+-+|+.+--||..=.+++..+...+|+.+.+.
T Consensus 170 ~yDVQ--liGgivLh~G~IAEM~TGEGKTLvAtlp~yLnAL---~GkgVHvVTVNDYLA~RDaewmgply~fLGLsvg~i 244 (1112)
T PRK12901 170 HYDVQ--LIGGVVLHQGKIAEMATGEGKTLVATLPVYLNAL---TGNGVHVVTVNDYLAKRDSEWMGPLYEFHGLSVDCI 244 (1112)
T ss_pred ccchH--HhhhhhhcCCceeeecCCCCchhHHHHHHHHHHH---cCCCcEEEEechhhhhccHHHHHHHHHHhCCceeec
Confidence 44454 4455555667799999999999999998865544 344578888999999999999999999999999987
Q ss_pred Ec-CccHHHHHHHhcCCCcEEEeChHHH-HHHHHcC
Q psy9277 135 IG-GTNLSEDLRKLDYGQHVVSGTPGRV-FDMIRSS 168 (178)
Q Consensus 135 ~g-~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~~~ 168 (178)
.. +.+..++.. ...|||..||..-| .|+|+.+
T Consensus 245 ~~~~~~~~~rr~--aY~~DItYgTn~EfGFDYLRDn 278 (1112)
T PRK12901 245 DKHQPNSEARRK--AYNADITYGTNNEFGFDYLRDN 278 (1112)
T ss_pred CCCCCCHHHHHH--hCCCcceecCCCccccccchhc
Confidence 65 444444433 34699999998777 5555544
No 155
>KOG0920|consensus
Probab=97.04 E-value=0.0088 Score=54.07 Aligned_cols=108 Identities=16% Similarity=0.230 Sum_probs=77.4
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhccCCCceEEE
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQCHA 133 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~~~~ 133 (178)
.+..+...+..+.+..-++++|.||+|||.=.---++.....+......++=-|.|--|..+++++ .+.+...|-.|+.
T Consensus 174 a~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~VGY 253 (924)
T KOG0920|consen 174 AYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGEEVGY 253 (924)
T ss_pred cHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCCeeeE
Confidence 477888888999999999999999999998877777777665554445555558888888888876 4445555544444
Q ss_pred EEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 134 CIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 134 ~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
-....+.. .....++++|-|.|++.|...
T Consensus 254 qvrl~~~~------s~~t~L~fcTtGvLLr~L~~~ 282 (924)
T KOG0920|consen 254 QVRLESKR------SRETRLLFCTTGVLLRRLQSD 282 (924)
T ss_pred EEeeeccc------CCceeEEEecHHHHHHHhccC
Confidence 33333222 123579999999999999763
No 156
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=97.04 E-value=0.0047 Score=49.05 Aligned_cols=111 Identities=16% Similarity=0.191 Sum_probs=57.5
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCC-------
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRE------- 100 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~------- 100 (178)
+..+.+|+++++++-+.+.+..- .-=++|.+|||||||.. +.+++..+......
T Consensus 102 p~~i~~~e~LglP~i~~~~~~~~------------------~GLILVTGpTGSGKSTT-lAamId~iN~~~~~HIlTIED 162 (353)
T COG2805 102 PSKIPTLEELGLPPIVRELAESP------------------RGLILVTGPTGSGKSTT-LAAMIDYINKHKAKHILTIED 162 (353)
T ss_pred CccCCCHHHcCCCHHHHHHHhCC------------------CceEEEeCCCCCcHHHH-HHHHHHHHhccCCcceEEecC
Confidence 34566677777666655533210 12389999999999976 34566666554322
Q ss_pred ceEEEEcCcHHHHHHHHH--HHHHhccCC-----CceEEEEEcCccHHHHHHH-h--cCCCcEEEeC
Q psy9277 101 TQVLCLSPTRELAVQIQK--VVLALGDFM-----NVQCHACIGGTNLSEDLRK-L--DYGQHVVSGT 157 (178)
Q Consensus 101 ~~~lil~Pt~~L~~q~~~--~~~~~~~~~-----~~~~~~~~g~~~~~~~~~~-~--~~~~~IlV~T 157 (178)
|.-.+-.+-++|++|-.- ....|...+ .-.-+.++|.+...+-+.. + .+..|.+++|
T Consensus 163 PIE~vh~skkslI~QREvG~dT~sF~~aLraALReDPDVIlvGEmRD~ETi~~ALtAAETGHLV~~T 229 (353)
T COG2805 163 PIEYVHESKKSLINQREVGRDTLSFANALRAALREDPDVILVGEMRDLETIRLALTAAETGHLVFGT 229 (353)
T ss_pred chHhhhcchHhhhhHHHhcccHHHHHHHHHHHhhcCCCEEEEeccccHHHHHHHHHHHhcCCEEEEe
Confidence 111222344666665321 223332211 1112355677655443332 1 2456888886
No 157
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=97.04 E-value=0.0038 Score=50.33 Aligned_cols=65 Identities=15% Similarity=0.263 Sum_probs=41.1
Q ss_pred HHHHhCCCCCCcHHHHHHHHHHH-cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 45 RGIYAYGFEKPSAIQQRSIKPIV-KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 45 ~~l~~~g~~~~~~~Q~~~i~~i~-~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
+.+.+.|. +++.|...+..+. .+.+++++|+||||||... -.++..+......-+.+.+=.+.||
T Consensus 121 ~~lv~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 121 DDYVTSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred HHHHHcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCccc
Confidence 34545554 5677877776544 4789999999999999653 4555554322223355555555554
No 158
>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=97.04 E-value=0.0033 Score=50.17 Aligned_cols=68 Identities=21% Similarity=0.314 Sum_probs=41.3
Q ss_pred HHHHHHHhCCCCCCcHHHHHHHHHH-HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 42 DLLRGIYAYGFEKPSAIQQRSIKPI-VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 42 ~i~~~l~~~g~~~~~~~Q~~~i~~i-~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
.-++.+.+.|. +++-|...+..+ ..+.+++++|+||||||... -.++..+.......+++++=.+.|+
T Consensus 106 ~tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 106 FTLDDYVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred CCHHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCceEEEECCchhh
Confidence 34555555564 456666666554 45789999999999999653 4455544332123355555555554
No 159
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.95 E-value=0.0039 Score=55.00 Aligned_cols=69 Identities=16% Similarity=0.167 Sum_probs=54.2
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
+++-|.+++.. ...+++|.|..|||||.+.+--+.+.+... ....++++|+.|+.-+.++.+.+.+...
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 68889988754 356899999999999988777666666432 2345889999999999999999876543
No 160
>KOG4150|consensus
Probab=96.86 E-value=0.00077 Score=57.59 Aligned_cols=117 Identities=12% Similarity=-0.058 Sum_probs=84.8
Q ss_pred HHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 46 GIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 46 ~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.++.+--+....+|.+++..+.+|+++.+...+.+||.++|.+.....+... .....+++.|++++++...+.+.....
T Consensus 278 ~~~~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~-~~s~~~~~~~~~~~~~~~~~~~~V~~~ 356 (1034)
T KOG4150|consen 278 LLNKNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLC-HATNSLLPSEMVEHLRNGSKGQVVHVE 356 (1034)
T ss_pred HHhcccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcC-cccceecchhHHHHhhccCCceEEEEE
Confidence 3455555678899999999999999999999999999999998877655543 334779999999999887765432221
Q ss_pred C---CCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHH
Q psy9277 126 F---MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFD 163 (178)
Q Consensus 126 ~---~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~ 163 (178)
. ..--++-.+++.+........+.+.+++.+.|..+..
T Consensus 357 ~I~~~K~A~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s 397 (1034)
T KOG4150|consen 357 VIKARKSAYVEMSDKLSETTKSALKRIGLNTLYSHQAEAIS 397 (1034)
T ss_pred ehhhhhcceeecccCCCchhHHHHHhcCcceeecCHHHHHH
Confidence 1 1112333456666666656667788999999976643
No 161
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=96.83 E-value=0.0075 Score=52.50 Aligned_cols=67 Identities=18% Similarity=0.231 Sum_probs=48.8
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH--HHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHH
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS--ISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLA 122 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l--l~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~ 122 (178)
..+|+.++..++.+.-+++.|++|+|||.... +..+..........++++.+||..-|..+.+.+..
T Consensus 147 ~~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 147 QNWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred cHHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 37999999999999999999999999997643 22222222111235799999998888877766543
No 162
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=96.83 E-value=0.013 Score=52.26 Aligned_cols=68 Identities=21% Similarity=0.175 Sum_probs=50.8
Q ss_pred hCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 49 AYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 49 ~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
..++ .+++-|.+|+..+..++-+++.|++|+|||.+. -.++..+........+++++||..-|..+.+
T Consensus 319 ~~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 319 KLRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred hcCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 3454 689999999999999999999999999999654 2344433332212578889999888777665
No 163
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.82 E-value=0.016 Score=52.18 Aligned_cols=106 Identities=20% Similarity=0.223 Sum_probs=68.6
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhccCCCceEEEE
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQCHAC 134 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~~~~~ 134 (178)
+....+.+..+.++.-++++|+||||||.-.=.-+++... ..+....+.=|.|--|..++..+ .++....|-.|++.
T Consensus 52 ~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~ 129 (845)
T COG1643 52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYS 129 (845)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEE
Confidence 4555666777778899999999999999765444444332 23345666668887777777766 44544445444443
Q ss_pred EcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcCC
Q psy9277 135 IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSSQ 169 (178)
Q Consensus 135 ~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~~ 169 (178)
+-..+.. .....|-+.|-|.|+..+.+..
T Consensus 130 iRfe~~~------s~~Trik~mTdGiLlrei~~D~ 158 (845)
T COG1643 130 IRFESKV------SPRTRIKVMTDGILLREIQNDP 158 (845)
T ss_pred EEeeccC------CCCceeEEeccHHHHHHHhhCc
Confidence 3221111 1245788999999999987543
No 164
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.81 E-value=0.0048 Score=55.02 Aligned_cols=70 Identities=14% Similarity=0.188 Sum_probs=54.9
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.+++-|.+++.. ....++|.|..|||||.+..-=+.+.+.. .-...++++|+-|+..|.++.+++.++..
T Consensus 9 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 9 SLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred hcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 589999998764 35689999999999998876655555432 22345899999999999999999977754
No 165
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.81 E-value=0.0051 Score=54.78 Aligned_cols=71 Identities=17% Similarity=0.234 Sum_probs=55.5
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
..+++-|.+++.. ....++|.|..|||||.+..-=+.+.+.. .-...++++|+-|+.-|.++.+++..+..
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 4589999998854 35689999999999998876655555443 22345899999999999999999987754
No 166
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.80 E-value=0.0043 Score=55.19 Aligned_cols=50 Identities=16% Similarity=0.250 Sum_probs=36.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
.-|+=|.+.||+|||.||+=.+.. |.+.-.-.+-|||||+.+.-.-++..
T Consensus 74 ~lNiDI~METGTGKTy~Ylrtmfe-Lhk~YG~~KFIivVPs~AIkeGv~~~ 123 (985)
T COG3587 74 KLNIDILMETGTGKTYTYLRTMFE-LHKKYGLFKFIIVVPSLAIKEGVFLT 123 (985)
T ss_pred cceeeEEEecCCCceeeHHHHHHH-HHHHhCceeEEEEeccHHHHhhhHHH
Confidence 358899999999999999865543 33332446889999998876654443
No 167
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=96.73 E-value=0.0066 Score=57.18 Aligned_cols=68 Identities=19% Similarity=0.271 Sum_probs=54.4
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|+-|.++|. ..+.+++|.|..|||||.+.+--++..+.......+.++|+=|++-|.++..++..-.
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l 69 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEAL 69 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHH
Confidence 5889999986 4689999999999999998877777766543233479999999999999888875543
No 168
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.68 E-value=0.012 Score=54.03 Aligned_cols=94 Identities=17% Similarity=0.147 Sum_probs=68.8
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcC
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDY 149 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 149 (178)
+.-+|-=-+|||||+.-+..+ +.+......+.+++|+-.++|-.|..+.+..+........ ...+.++..+.+..
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A-~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~----~~~s~~~Lk~~l~~ 348 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLA-RLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP----KAESTSELKELLED 348 (962)
T ss_pred CceEEEeecCCchHHHHHHHH-HHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc----cccCHHHHHHHHhc
Confidence 457777789999998855433 3334445678999999999999999999998865433221 34556666566664
Q ss_pred C-CcEEEeChHHHHHHHHcC
Q psy9277 150 G-QHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 150 ~-~~IlV~TP~~l~~~l~~~ 168 (178)
+ ..|+|||-++|-..+...
T Consensus 349 ~~~~ii~TTIQKf~~~~~~~ 368 (962)
T COG0610 349 GKGKIIVTTIQKFNKAVKED 368 (962)
T ss_pred CCCcEEEEEecccchhhhcc
Confidence 4 489999999998877654
No 169
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.64 E-value=0.011 Score=48.89 Aligned_cols=91 Identities=20% Similarity=0.149 Sum_probs=49.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR 145 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 145 (178)
+..+++.||||+|||.+..--+...... ...+..+.+++ +.|.-+..+ ++.+++.+++.+..............
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ---L~~~a~~lgvpv~~~~~~~~l~~~L~ 250 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ---IQTYGDIMGIPVKAIESFKDLKEEIT 250 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH---HHHHhhcCCcceEeeCcHHHHHHHHH
Confidence 3578999999999998875433222211 12334555544 334545444 45555556666544433233333223
Q ss_pred HhcCCCcEEEeChHHHH
Q psy9277 146 KLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 146 ~~~~~~~IlV~TP~~l~ 162 (178)
...+.-.|+|=|||+..
T Consensus 251 ~~~~~DlVLIDTaGr~~ 267 (388)
T PRK12723 251 QSKDFDLVLVDTIGKSP 267 (388)
T ss_pred HhCCCCEEEEcCCCCCc
Confidence 33332357888998864
No 170
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.62 E-value=0.017 Score=50.51 Aligned_cols=65 Identities=20% Similarity=0.205 Sum_probs=48.3
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc--CCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ--LRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~--~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
.++|+.|+-..+.++-.++.|++|+|||.+..- ++..+... ....++++.+||..-|..+.+.+.
T Consensus 154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~-ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 154 VDWQKVAAAVALTRRISVISGGPGTGKTTTVAK-LLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHH-HHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 589999999999999999999999999977432 22222221 123578888999888888776553
No 171
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.54 E-value=0.011 Score=46.86 Aligned_cols=86 Identities=20% Similarity=0.264 Sum_probs=40.9
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
++.++++||||+|||....--+.. +.....+.++.++. |-+.-+.++... +....++.+...............
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~-~~~~~g~~~V~li~~D~~r~~a~eql~~---~~~~~~~p~~~~~~~~~l~~~l~~ 269 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAAR-FVLEHGNKKVALITTDTYRIGAVEQLKT---YAKILGVPVKVARDPKELRKALDR 269 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH-HHHHcCCCeEEEEECCccchhHHHHHHH---HHHHhCCceeccCCHHHHHHHHHH
Confidence 457899999999999776533322 22211123444444 223333333333 333345544333332233333333
Q ss_pred hcCCCc-EEEeChH
Q psy9277 147 LDYGQH-VVSGTPG 159 (178)
Q Consensus 147 ~~~~~~-IlV~TP~ 159 (178)
+. .++ |+|=|||
T Consensus 270 ~~-~~d~vliDt~G 282 (282)
T TIGR03499 270 LR-DKDLILIDTAG 282 (282)
T ss_pred cc-CCCEEEEeCCC
Confidence 33 344 5566654
No 172
>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=96.47 E-value=0.034 Score=49.82 Aligned_cols=76 Identities=13% Similarity=0.234 Sum_probs=53.3
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
.++..+...-..++ .+++-|..|+..++. ++-+++.|+.|+|||...- .+...+.. .+..++.++||..-+..+.
T Consensus 338 ~~~~~~~~~l~~~~-~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~-~i~~~~~~--~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 338 VSPPIVDAAIDQHY-RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLK-AAREAWEA--AGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred CCHHHHHHHHhccC-CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHH-HHHHHHHh--CCCeEEEEeCcHHHHHHHH
Confidence 44444444333344 589999999999987 4678999999999996532 33333332 3568999999988877765
Q ss_pred H
Q psy9277 118 K 118 (178)
Q Consensus 118 ~ 118 (178)
+
T Consensus 414 ~ 414 (744)
T TIGR02768 414 A 414 (744)
T ss_pred h
Confidence 4
No 173
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.45 E-value=0.033 Score=46.06 Aligned_cols=89 Identities=21% Similarity=0.251 Sum_probs=57.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc-HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT-RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL 147 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 147 (178)
++-+.+.||||.|||....--+........+..-++|=.-| |-=|..+ ++.|++-+++.+.++.......+....+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQ---Lk~Ya~im~vp~~vv~~~~el~~ai~~l 279 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQ---LKTYADIMGVPLEVVYSPKELAEAIEAL 279 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHH---HHHHHHHhCCceEEecCHHHHHHHHHHh
Confidence 67899999999999988654333333222233345554444 4444433 3344455588888888888887777777
Q ss_pred cCCCcEEEeChHH
Q psy9277 148 DYGQHVVSGTPGR 160 (178)
Q Consensus 148 ~~~~~IlV~TP~~ 160 (178)
.+.-.|+|=|-|+
T Consensus 280 ~~~d~ILVDTaGr 292 (407)
T COG1419 280 RDCDVILVDTAGR 292 (407)
T ss_pred hcCCEEEEeCCCC
Confidence 6555678888765
No 174
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.39 E-value=0.035 Score=51.10 Aligned_cols=65 Identities=18% Similarity=0.156 Sum_probs=49.0
Q ss_pred CCCCCCcHHHHHHHHHHHcCC-cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 50 YGFEKPSAIQQRSIKPIVKGR-DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g~-~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.|+ .+++-|.+++..++.+. -+++.|+.|+|||.. +-.+...+.. .+.+++.++||-.-|..+.+
T Consensus 343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~--~G~~V~~~ApTGkAA~~L~e 408 (988)
T PRK13889 343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEA--AGYEVRGAALSGIAAENLEG 408 (988)
T ss_pred cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHH--cCCeEEEecCcHHHHHHHhh
Confidence 454 58999999999999865 478999999999975 3334443332 46789999999887766643
No 175
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=96.37 E-value=0.013 Score=52.22 Aligned_cols=71 Identities=18% Similarity=0.248 Sum_probs=55.3
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
..+++-|.+++.. ....++|.|..|||||.+..-=+.+.+... -...+++.++-|+.-|..+.+.+.++..
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 3 AHLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred cccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 3589999998864 356899999999999988776666655432 2334899999999999999998877643
No 176
>PRK05973 replicative DNA helicase; Provisional
Probab=96.35 E-value=0.02 Score=44.24 Aligned_cols=85 Identities=20% Similarity=0.219 Sum_probs=53.9
Q ss_pred ccCCCCHHHHHHHHhCCCCC----------CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEE
Q psy9277 35 DNMGLREDLLRGIYAYGFEK----------PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVL 104 (178)
Q Consensus 35 ~~~~l~~~i~~~l~~~g~~~----------~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~l 104 (178)
..+++|+.+-+.-.+-||.. ++|. .+...-+..|.-++|.|++|+|||...+--+.+... ++..++
T Consensus 21 ~~~~~~~~~~~~a~~~g~~~w~~~~~~~~~~~p~-~~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~---~Ge~vl 96 (237)
T PRK05973 21 QNIPLHEALDRIAAEEGFSSWSLLAAKAAATTPA-EELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK---SGRTGV 96 (237)
T ss_pred cCCcHHHHHHHHHHHhccchHHHHHHhccCCCCH-HHhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEE
Confidence 45567777777777778853 3332 223344555788999999999999877655544332 345677
Q ss_pred EEcCcHHHHHHHHHHHHHhc
Q psy9277 105 CLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 105 il~Pt~~L~~q~~~~~~~~~ 124 (178)
|++- .+-..|+.+.+..+.
T Consensus 97 yfSl-Ees~~~i~~R~~s~g 115 (237)
T PRK05973 97 FFTL-EYTEQDVRDRLRALG 115 (237)
T ss_pred EEEE-eCCHHHHHHHHHHcC
Confidence 7753 333566666666553
No 177
>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=96.31 E-value=0.017 Score=47.49 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=19.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
+..++++||||||||... -.++..+.
T Consensus 149 ~GlilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHHH
Confidence 457899999999999664 45555553
No 178
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.31 E-value=0.062 Score=46.20 Aligned_cols=90 Identities=19% Similarity=0.213 Sum_probs=45.4
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR 145 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 145 (178)
.|..+.++||+|+|||.....-+.. +.....+.++.++. +.+.-+. ..++.+....++.+..............
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~-la~~~~gkkVaLIdtDtyRigA~---EQLk~ya~iLgv~v~~a~d~~~L~~aL~ 424 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQR-FAAQHAPRDVALVTTDTQRVGGR---EQLHSYGRQLGIAVHEADSAESLLDLLE 424 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHH-HHHhcCCCceEEEecccccccHH---HHHHHhhcccCceeEecCcHHHHHHHHH
Confidence 3678999999999999776432222 11111122444443 2233332 2234444445555444333333333333
Q ss_pred HhcCCCcEEEeChHHH
Q psy9277 146 KLDYGQHVVSGTPGRV 161 (178)
Q Consensus 146 ~~~~~~~IlV~TP~~l 161 (178)
.+.+.--|||=|||+.
T Consensus 425 ~l~~~DLVLIDTaG~s 440 (559)
T PRK12727 425 RLRDYKLVLIDTAGMG 440 (559)
T ss_pred HhccCCEEEecCCCcc
Confidence 3333334778888753
No 179
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.28 E-value=0.024 Score=47.36 Aligned_cols=91 Identities=18% Similarity=0.117 Sum_probs=49.1
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc-HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT-RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL 147 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 147 (178)
|.-+.+.||||+|||.....-.-..+.......-.++.+.+ +.=+.++ +..+++..|+.+...............+
T Consensus 191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQ---L~~~a~ilGvp~~~v~~~~dl~~al~~l 267 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQ---LRIYGKLLGVSVRSIKDIADLQLMLHEL 267 (420)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHH---HHHHHHHcCCceecCCCHHHHHHHHHHh
Confidence 56799999999999987654332222222222234555555 3323333 3334444466555444444433333344
Q ss_pred cCCCcEEEeChHHHH
Q psy9277 148 DYGQHVVSGTPGRVF 162 (178)
Q Consensus 148 ~~~~~IlV~TP~~l~ 162 (178)
.+.-.|+|-|+|+..
T Consensus 268 ~~~d~VLIDTaGrsq 282 (420)
T PRK14721 268 RGKHMVLIDTVGMSQ 282 (420)
T ss_pred cCCCEEEecCCCCCc
Confidence 444468898987653
No 180
>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=96.26 E-value=0.014 Score=43.02 Aligned_cols=47 Identities=23% Similarity=0.326 Sum_probs=29.4
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
+++++++.||+|+|||..+.. +...+.. .+..++ .++..+|+..+..
T Consensus 46 ~~~~l~l~G~~G~GKThLa~a-i~~~~~~--~g~~v~-f~~~~~L~~~l~~ 92 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVA-IANEAIR--KGYSVL-FITASDLLDELKQ 92 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHH-HHHHHHH--TT--EE-EEEHHHHHHHHHC
T ss_pred cCeEEEEEhhHhHHHHHHHHH-HHHHhcc--CCccee-EeecCceeccccc
Confidence 478999999999999987643 3444443 343444 4566777776654
No 181
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.17 E-value=0.031 Score=47.53 Aligned_cols=89 Identities=21% Similarity=0.222 Sum_probs=46.7
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc-Cc-HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS-PT-RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~-Pt-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
|.-+.+.||||+|||.+...-.-...... ...++.++. -+ +.=+.++ ++.|++..++.+...............
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~-G~~kV~LI~~Dt~RigA~EQ---Lr~~AeilGVpv~~~~~~~Dl~~aL~~ 331 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRH-GASKVALLTTDSYRIGGHEQ---LRIYGKILGVPVHAVKDAADLRLALSE 331 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhc-CCCeEEEEeCCccchhHHHH---HHHHHHHhCCCeeccCCchhHHHHHHh
Confidence 45688999999999988654332222221 122343333 22 3333333 333344445554444333333334444
Q ss_pred hcCCCcEEEeChHHH
Q psy9277 147 LDYGQHVVSGTPGRV 161 (178)
Q Consensus 147 ~~~~~~IlV~TP~~l 161 (178)
+.+.-.++|-|+|+.
T Consensus 332 L~d~d~VLIDTaGr~ 346 (484)
T PRK06995 332 LRNKHIVLIDTIGMS 346 (484)
T ss_pred ccCCCeEEeCCCCcC
Confidence 444457889999944
No 182
>KOG1132|consensus
Probab=96.17 E-value=0.023 Score=50.81 Aligned_cols=73 Identities=16% Similarity=0.195 Sum_probs=53.9
Q ss_pred CCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHh---hh---------cC-------------------
Q psy9277 54 KPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSL---DT---------QL------------------- 98 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l---~~---------~~------------------- 98 (178)
+|++.|...+..++. ..+.++.+|||+|||++.+=..+... .. +.
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e~ 100 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEEA 100 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhhh
Confidence 589999988877765 67899999999999999875555433 10 01
Q ss_pred --------CCceEEEEcCcHHHHHHHHHHHHHhccC
Q psy9277 99 --------RETQVLCLSPTRELAVQIQKVVLALGDF 126 (178)
Q Consensus 99 --------~~~~~lil~Pt~~L~~q~~~~~~~~~~~ 126 (178)
..++..|-+-|.+-..|+.+.+++..-.
T Consensus 101 ~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~ 136 (945)
T KOG1132|consen 101 GEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYR 136 (945)
T ss_pred cCccccccCCceEEEecchHHHHHHHHHHHhhcCCC
Confidence 0246677778888899999999877544
No 183
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.14 E-value=0.036 Score=46.47 Aligned_cols=87 Identities=21% Similarity=0.240 Sum_probs=45.7
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC--cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP--TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P--t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
++.+++.+|||+|||....--+...... ..+.++.++.- -+.-+. ..++.+....++.+...............
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~-~~g~~V~li~~D~~r~~a~---eqL~~~a~~~~vp~~~~~~~~~l~~~l~~ 296 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALL-YGKKKVALITLDTYRIGAV---EQLKTYAKIMGIPVEVVYDPKELAKALEQ 296 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHh-cCCCeEEEEECCccHHHHH---HHHHHHHHHhCCceEccCCHHhHHHHHHH
Confidence 5678999999999997765333222111 12345555542 233232 23333334445555444443333333333
Q ss_pred hcCCCc-EEEeChHH
Q psy9277 147 LDYGQH-VVSGTPGR 160 (178)
Q Consensus 147 ~~~~~~-IlV~TP~~ 160 (178)
+. +++ |+|=|||+
T Consensus 297 ~~-~~DlVlIDt~G~ 310 (424)
T PRK05703 297 LR-DCDVILIDTAGR 310 (424)
T ss_pred hC-CCCEEEEeCCCC
Confidence 33 354 88889965
No 184
>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=96.10 E-value=0.023 Score=46.59 Aligned_cols=59 Identities=24% Similarity=0.321 Sum_probs=43.9
Q ss_pred CcHHHHHHHHHH------HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 55 PSAIQQRSIKPI------VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 55 ~~~~Q~~~i~~i------~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
+++-|..++..+ ..+.++++.|+-|+|||..+ -.+...... .+..+++++||-.-|..+
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~--~~i~~~~~~-~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI--KAIIDYLRS-RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH--HHHHHHhcc-ccceEEEecchHHHHHhc
Confidence 677899998888 56889999999999999654 233322222 345788999998877776
No 185
>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=96.02 E-value=0.014 Score=43.17 Aligned_cols=38 Identities=24% Similarity=0.350 Sum_probs=28.6
Q ss_pred HHhCCCCCCcHHHHHHHHHHH-cCCcEEEEcCCCChHHHHH
Q psy9277 47 IYAYGFEKPSAIQQRSIKPIV-KGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 47 l~~~g~~~~~~~Q~~~i~~i~-~g~~v~v~aptGsGKTl~~ 86 (178)
|.+.|+ +++-|...+.... .|.++++++|||||||...
T Consensus 4 l~~~g~--~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 4 LIAQGT--FSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHcCC--CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 444454 5677777776654 4899999999999999764
No 186
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=96.00 E-value=0.038 Score=49.49 Aligned_cols=106 Identities=20% Similarity=0.229 Sum_probs=83.1
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEE
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHA 133 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~ 133 (178)
+++.+| .+..+.-...-+.-+.||-|||++..+|+--... .+..+.+++-.--||..-...+..+...+|+.+++
T Consensus 80 ~~~dVQ--liG~i~lh~g~iaEM~TGEGKTL~atlp~ylnaL---~gkgVhvVTvNdYLA~RDae~m~~l~~~LGlsvG~ 154 (822)
T COG0653 80 RHFDVQ--LLGGIVLHLGDIAEMRTGEGKTLVATLPAYLNAL---AGKGVHVVTVNDYLARRDAEWMGPLYEFLGLSVGV 154 (822)
T ss_pred ChhhHH--HhhhhhhcCCceeeeecCCchHHHHHHHHHHHhc---CCCCcEEeeehHHhhhhCHHHHHHHHHHcCCceee
Confidence 345554 4456666777889999999999999988754333 34568888899999999999999999999999999
Q ss_pred EEcCccHHHHHHHhcCCCcEEEeChHHH-HHHHH
Q psy9277 134 CIGGTNLSEDLRKLDYGQHVVSGTPGRV-FDMIR 166 (178)
Q Consensus 134 ~~g~~~~~~~~~~~~~~~~IlV~TP~~l-~~~l~ 166 (178)
...+++..++.... .|||.-+|-..| .|+++
T Consensus 155 ~~~~m~~~ek~~aY--~~DItY~TnnElGFDYLR 186 (822)
T COG0653 155 ILAGMSPEEKRAAY--ACDITYGTNNELGFDYLR 186 (822)
T ss_pred ccCCCChHHHHHHH--hcCceeccccccCcchhh
Confidence 99999887775554 589999998877 44444
No 187
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.99 E-value=0.048 Score=45.31 Aligned_cols=86 Identities=16% Similarity=0.190 Sum_probs=46.2
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC--cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP--TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL 147 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P--t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 147 (178)
+.+++.||+|+|||.....-... +.. .+.++.++.. -|.-+.++ ++.+....++.+...............+
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~-L~~--~GkkVglI~aDt~RiaAvEQ---Lk~yae~lgipv~v~~d~~~L~~aL~~l 315 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQ-FHG--KKKTVGFITTDHSRIGTVQQ---LQDYVKTIGFEVIAVRDEAAMTRALTYF 315 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH-HHH--cCCcEEEEecCCcchHHHHH---HHHHhhhcCCcEEecCCHHHHHHHHHHH
Confidence 57899999999999876544433 322 3345554443 34223222 3334344466655443333333333333
Q ss_pred cC--CC-cEEEeChHHH
Q psy9277 148 DY--GQ-HVVSGTPGRV 161 (178)
Q Consensus 148 ~~--~~-~IlV~TP~~l 161 (178)
.. ++ -|+|=|||+.
T Consensus 316 k~~~~~DvVLIDTaGRs 332 (436)
T PRK11889 316 KEEARVDYILIDTAGKN 332 (436)
T ss_pred HhccCCCEEEEeCcccc
Confidence 32 34 4788999885
No 188
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.98 E-value=0.02 Score=44.01 Aligned_cols=53 Identities=19% Similarity=0.260 Sum_probs=38.0
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|..+++.||+|+|||...+--+...+. ++..++|++ +.+-..++.+.+..+.
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge~~lyvs-~ee~~~~i~~~~~~~g 72 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGIYVA-LEEHPVQVRRNMAQFG 72 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCCcEEEEE-eeCCHHHHHHHHHHhC
Confidence 4689999999999999876655555442 355788887 4566667777676654
No 189
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.93 E-value=0.025 Score=44.13 Aligned_cols=66 Identities=17% Similarity=0.281 Sum_probs=44.2
Q ss_pred CCCCcHHHHHHHHHHH-------cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 52 FEKPSAIQQRSIKPIV-------KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 52 ~~~~~~~Q~~~i~~i~-------~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
|......+..++..+. ++.++++.||+|+|||..+. ++.+.+.. . +..++++++.+++.++...+.
T Consensus 81 ~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~-Ai~~~l~~--~-g~sv~f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 81 FEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAI-AIGNELLK--A-GISVLFITAPDLLSKLKAAFD 153 (254)
T ss_pred ccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHH-HHHHHHHH--c-CCeEEEEEHHHHHHHHHHHHh
Confidence 3334445555444333 57899999999999997654 34444442 3 356677789999999888664
No 190
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=95.87 E-value=0.025 Score=46.07 Aligned_cols=52 Identities=19% Similarity=0.245 Sum_probs=38.5
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
-++|.|.+|||||+..+- ++..+.....+..+++++++.+|...+...+..-
T Consensus 3 v~~I~G~aGTGKTvla~~-l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALN-LAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred EEEEEecCCcCHHHHHHH-HHHHhhccccCCceEEEEecchHHHHHHHHHhhh
Confidence 478999999999988653 3333422335668999999999999888777433
No 191
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=95.84 E-value=0.042 Score=50.46 Aligned_cols=84 Identities=19% Similarity=0.179 Sum_probs=61.4
Q ss_pred CCcHHHHHHHHHHHc--------CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 54 KPSAIQQRSIKPIVK--------GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~--------g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.-..+|-.|+..+.. |-.++--|.||+|||++=. =|++.+.....+.|..|-.-.|.|-.|..+.+++-..
T Consensus 408 ~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA-RImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~ 486 (1110)
T TIGR02562 408 PRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA-RAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLN 486 (1110)
T ss_pred CCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH-HHHHHhCCCCCCceEEEEccccceeccchHHHHHhcC
Confidence 446799999988765 4466777899999998742 3445555556677888888999999999999977654
Q ss_pred CCCceEEEEEcCc
Q psy9277 126 FMNVQCHACIGGT 138 (178)
Q Consensus 126 ~~~~~~~~~~g~~ 138 (178)
--+-..++++|+.
T Consensus 487 L~~ddLAVlIGs~ 499 (1110)
T TIGR02562 487 LSDDDLAVLIGGT 499 (1110)
T ss_pred CCccceEEEECHH
Confidence 4344566666663
No 192
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=95.80 E-value=0.03 Score=40.89 Aligned_cols=50 Identities=22% Similarity=0.237 Sum_probs=33.0
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.+++.||+|+|||...+--+...+. .+..++|++. .+-..++.+.+..++
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~---~g~~v~~~s~-e~~~~~~~~~~~~~g 50 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLA---RGEPGLYVTL-EESPEELIENAESLG 50 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHH---CCCcEEEEEC-CCCHHHHHHHHHHcC
Confidence 3789999999999876544444332 4556777754 455666666666553
No 193
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.74 E-value=0.023 Score=46.25 Aligned_cols=44 Identities=18% Similarity=0.344 Sum_probs=27.4
Q ss_pred HHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
.+..+.+++++||||||||... -.++..+.. ..+.+.+=.+.||
T Consensus 158 ~v~~~~nilI~G~tGSGKTTll-~aLl~~i~~---~~rivtiEd~~El 201 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTMS-KTLISAIPP---QERLITIEDTLEL 201 (344)
T ss_pred HHHcCCeEEEECCCCccHHHHH-HHHHcccCC---CCCEEEECCCccc
Confidence 4456899999999999999653 445544422 2244444444444
No 194
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=95.74 E-value=0.045 Score=44.33 Aligned_cols=58 Identities=21% Similarity=0.326 Sum_probs=39.6
Q ss_pred CCCCCcHHHHHHHHHHHcCC-cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 51 GFEKPSAIQQRSIKPIVKGR-DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~g~-~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
.|..+++-|...+..+..++ |+++++.||||||... -.++..+.. .-++|.+=-|.+|
T Consensus 154 ~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlL-Nal~~~i~~---~eRvItiEDtaEL 212 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLL-NALSGFIDS---DERVITIEDTAEL 212 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHH-HHHHhcCCC---cccEEEEeehhhh
Confidence 35578999999998888755 9999999999999542 222222221 1266666666655
No 195
>KOG1133|consensus
Probab=95.68 E-value=0.018 Score=50.31 Aligned_cols=42 Identities=26% Similarity=0.422 Sum_probs=35.9
Q ss_pred CCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 54 KPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
+|+.+|.+.+..+.+ |+=-+..+|||+|||++.+=..+..+.
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~ 60 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLR 60 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHH
Confidence 699999998887765 888899999999999998877777663
No 196
>PRK08181 transposase; Validated
Probab=95.64 E-value=0.064 Score=42.21 Aligned_cols=60 Identities=23% Similarity=0.269 Sum_probs=36.5
Q ss_pred CcHHHHHHHHH----HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 55 PSAIQQRSIKP----IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 55 ~~~~Q~~~i~~----i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
+...|..++.. +..++++++.||+|+|||.... .+...+.. .+..+ +..+..+|+.++..
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~-Aia~~a~~--~g~~v-~f~~~~~L~~~l~~ 151 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAA-AIGLALIE--NGWRV-LFTRTTDLVQKLQV 151 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHH-HHHHHHHH--cCCce-eeeeHHHHHHHHHH
Confidence 34555555532 3358899999999999996654 33333332 33344 44456777776643
No 197
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.64 E-value=0.086 Score=42.71 Aligned_cols=46 Identities=24% Similarity=0.330 Sum_probs=30.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
+.++++.|++|+|||.... ++...+.. .+..+++ .+..+|..++..
T Consensus 183 ~~~Lll~G~~GtGKThLa~-aIa~~l~~--~g~~V~y-~t~~~l~~~l~~ 228 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSN-CIAKELLD--RGKSVIY-RTADELIEILRE 228 (329)
T ss_pred CCcEEEECCCCCcHHHHHH-HHHHHHHH--CCCeEEE-EEHHHHHHHHHH
Confidence 6899999999999997543 45555543 3445555 455667666543
No 198
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=95.63 E-value=0.12 Score=40.64 Aligned_cols=87 Identities=18% Similarity=0.199 Sum_probs=45.6
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHH----
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSED---- 143 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~---- 143 (178)
+-+++++|+|+|||....--+.. +.. .+.+++++. +.|.-+.++... +....++.+.....+.+....
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~-l~~--~g~~V~li~~D~~r~~a~~ql~~---~~~~~~i~~~~~~~~~dp~~~~~~~ 146 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANK-LKK--QGKSVLLAAGDTFRAAAIEQLEE---WAKRLGVDVIKQKEGADPAAVAFDA 146 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHH-HHh--cCCEEEEEeCCCCCHHHHHHHHH---HHHhCCeEEEeCCCCCCHHHHHHHH
Confidence 56788899999999876544433 222 345666665 334444333333 333335443322222222111
Q ss_pred H-HHhcCCCc-EEEeChHHHH
Q psy9277 144 L-RKLDYGQH-VVSGTPGRVF 162 (178)
Q Consensus 144 ~-~~~~~~~~-IlV~TP~~l~ 162 (178)
. ....+++| |+|=||+++.
T Consensus 147 l~~~~~~~~D~ViIDT~G~~~ 167 (272)
T TIGR00064 147 IQKAKARNIDVVLIDTAGRLQ 167 (272)
T ss_pred HHHHHHCCCCEEEEeCCCCCc
Confidence 1 11234565 8899999873
No 199
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=95.61 E-value=0.019 Score=48.47 Aligned_cols=56 Identities=20% Similarity=0.236 Sum_probs=41.5
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
.++++.||||||||..+++|.+-. ...-+|+.=|-.+|........++. |.+|.++
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~-----~~~s~iV~D~KgEl~~~t~~~r~~~----G~~V~vl 100 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLN-----YPGSMIVTDPKGELYEKTAGYRKKR----GYKVYVL 100 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHh-----ccCCEEEEECCCcHHHHHHHHHHHC----CCEEEEe
Confidence 479999999999999999987632 1236778889999888777766555 4445444
No 200
>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=95.57 E-value=0.012 Score=48.45 Aligned_cols=48 Identities=27% Similarity=0.257 Sum_probs=37.3
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
++++.||||||||.++++|-+-. ....+++.=|--++........+..
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~-----~~~s~vv~D~Kge~~~~t~~~r~~~ 48 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT-----WPGSVVVLDPKGENFELTSEHRRAL 48 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc-----CCCCEEEEccchhHHHHHHHHHHHc
Confidence 57899999999999998887653 2357888889999987766665543
No 201
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.55 E-value=0.13 Score=43.19 Aligned_cols=85 Identities=15% Similarity=0.134 Sum_probs=45.9
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC--cHHHHHHHHHHHHHhccCCCceEEEEEcCccH-H---HHH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP--TRELAVQIQKVVLALGDFMNVQCHACIGGTNL-S---EDL 144 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P--t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~-~---~~~ 144 (178)
-++++|++|+|||....--+.. +.. .+.++++++. -|.-+.++.+ .+....++.+....++.+. . +..
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~-l~~--~G~kV~lV~~D~~R~aA~eQLk---~~a~~~~vp~~~~~~~~dp~~i~~~~l 175 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYY-YQR--KGFKPCLVCADTFRAGAFDQLK---QNATKARIPFYGSYTESDPVKIASEGV 175 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHH-HHH--CCCCEEEEcCcccchhHHHHHH---HHhhccCCeEEeecCCCCHHHHHHHHH
Confidence 5789999999998765432222 222 3446666653 3544444333 3344446665544443332 1 122
Q ss_pred HHhc-CCCc-EEEeChHHH
Q psy9277 145 RKLD-YGQH-VVSGTPGRV 161 (178)
Q Consensus 145 ~~~~-~~~~-IlV~TP~~l 161 (178)
.... .++| |+|=|||++
T Consensus 176 ~~~~~~~~DvViIDTaGr~ 194 (429)
T TIGR01425 176 EKFKKENFDIIIVDTSGRH 194 (429)
T ss_pred HHHHhCCCCEEEEECCCCC
Confidence 2222 3454 789999987
No 202
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=95.54 E-value=0.073 Score=43.17 Aligned_cols=29 Identities=21% Similarity=0.407 Sum_probs=21.7
Q ss_pred HHHcCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
.+..+.+++++|+||||||... -+++..+
T Consensus 156 ~v~~~~nili~G~tgSGKTTll-~aL~~~i 184 (332)
T PRK13900 156 AVISKKNIIISGGTSTGKTTFT-NAALREI 184 (332)
T ss_pred HHHcCCcEEEECCCCCCHHHHH-HHHHhhC
Confidence 3445899999999999999653 4555544
No 203
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.53 E-value=0.049 Score=48.72 Aligned_cols=89 Identities=22% Similarity=0.223 Sum_probs=44.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc--HHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT--RELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt--~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
++-+.++||||+|||.+...-........ .+.++.++.-. +.=+ .+.++.+.+..++.+....+.....+....
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~-G~kkV~lit~Dt~RigA---~eQL~~~a~~~gvpv~~~~~~~~l~~al~~ 260 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVARE-GADQLALLTTDSFRIGA---LEQLRIYGRILGVPVHAVKDAADLRFALAA 260 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHc-CCCeEEEecCcccchHH---HHHHHHHHHhCCCCccccCCHHHHHHHHHH
Confidence 34578999999999987654332221221 12244444432 2112 233444444456554433322222223333
Q ss_pred hcCCCcEEEeChHHH
Q psy9277 147 LDYGQHVVSGTPGRV 161 (178)
Q Consensus 147 ~~~~~~IlV~TP~~l 161 (178)
+.+.-.|+|=|||+.
T Consensus 261 ~~~~D~VLIDTAGRs 275 (767)
T PRK14723 261 LGDKHLVLIDTVGMS 275 (767)
T ss_pred hcCCCEEEEeCCCCC
Confidence 333235789999954
No 204
>KOG0390|consensus
Probab=95.48 E-value=0.26 Score=44.16 Aligned_cols=84 Identities=19% Similarity=0.182 Sum_probs=58.7
Q ss_pred CCcHHHHHHHHHHHc---C-------CcEEEEcCCCChHHHHHHHHHHHHhhhcCCC-----ceEEEEcCcHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVK---G-------RDVIAQAQSGTGKTATFSISILQSLDTQLRE-----TQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~---g-------~~v~v~aptGsGKTl~~ll~il~~l~~~~~~-----~~~lil~Pt~~L~~q~~~ 118 (178)
.+.|+|.+.+.-+.. | ..+++.=..|+|||+-. ++.+..+.+.... .++|||+|. .|+.-..+
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~-IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkk 315 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQC-ISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKK 315 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHH-HHHHHHHHHhCcCccccccccEEEccH-HHHHHHHH
Confidence 589999999976654 2 24566666899999774 4555666555555 689999995 67777777
Q ss_pred HHHHhccCCCceEEEEEcCcc
Q psy9277 119 VVLALGDFMNVQCHACIGGTN 139 (178)
Q Consensus 119 ~~~~~~~~~~~~~~~~~g~~~ 139 (178)
.+.++.....+....+++...
T Consensus 316 EF~KWl~~~~i~~l~~~~~~~ 336 (776)
T KOG0390|consen 316 EFGKWLGNHRINPLDFYSTKK 336 (776)
T ss_pred HHHHhccccccceeeeecccc
Confidence 777776544555555666555
No 205
>KOG4439|consensus
Probab=95.46 E-value=0.079 Score=46.65 Aligned_cols=105 Identities=17% Similarity=0.115 Sum_probs=69.1
Q ss_pred CCcHHHHHHHHHHHc-----CCcEEEEcCCCChHHHHHHHHHHHHhh-h---cCCC---ceEEEEcCcHHHHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVK-----GRDVIAQAQSGTGKTATFSISILQSLD-T---QLRE---TQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~-----g~~v~v~aptGsGKTl~~ll~il~~l~-~---~~~~---~~~lil~Pt~~L~~q~~~~~~ 121 (178)
.+-++|..++..+.- +..-++...-|-|||++-+-.+++.-. . ...+ ...|||||- .|+.|.+..+.
T Consensus 325 ~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa-Sli~qW~~Ev~ 403 (901)
T KOG4439|consen 325 ELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA-SLIHQWEAEVA 403 (901)
T ss_pred ecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH-HHHHHHHHHHH
Confidence 356788887755442 456677778899999976655554321 1 1111 148999996 56777777776
Q ss_pred HhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHH
Q psy9277 122 ALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGR 160 (178)
Q Consensus 122 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~ 160 (178)
+-.....++|..++|....+-....+. ..||||+|..-
T Consensus 404 ~rl~~n~LsV~~~HG~n~r~i~~~~L~-~YDvViTTY~l 441 (901)
T KOG4439|consen 404 RRLEQNALSVYLYHGPNKREISAKELR-KYDVVITTYNL 441 (901)
T ss_pred HHHhhcceEEEEecCCccccCCHHHHh-hcceEEEeeec
Confidence 665666788888888775443333433 68999999743
No 206
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=95.41 E-value=0.13 Score=43.22 Aligned_cols=86 Identities=28% Similarity=0.312 Sum_probs=45.5
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC--cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHH----HH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP--TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSE----DL 144 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P--t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~----~~ 144 (178)
-+++++++|+|||....--+.. +.. ..+.+++++.- .|.-+.++... ++...++.+.....+.+..+ ..
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~-l~~-~~g~kV~lV~~D~~R~~a~~QL~~---~a~~~gvp~~~~~~~~~P~~i~~~al 175 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYY-LKK-KQGKKVLLVACDLYRPAAIEQLKV---LGQQVGVPVFALGKGQSPVEIARRAL 175 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHH-HHH-hCCCeEEEEeccccchHHHHHHHH---HHHhcCCceEecCCCCCHHHHHHHHH
Confidence 5889999999999886544433 221 13445655552 34444443333 33334555444333222211 11
Q ss_pred HH-hcCCC-cEEEeChHHH
Q psy9277 145 RK-LDYGQ-HVVSGTPGRV 161 (178)
Q Consensus 145 ~~-~~~~~-~IlV~TP~~l 161 (178)
.. ...++ .|+|=||+++
T Consensus 176 ~~~~~~~~DvVIIDTaGr~ 194 (428)
T TIGR00959 176 EYAKENGFDVVIVDTAGRL 194 (428)
T ss_pred HHHHhcCCCEEEEeCCCcc
Confidence 11 13456 4889999976
No 207
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=95.40 E-value=0.036 Score=42.09 Aligned_cols=54 Identities=24% Similarity=0.311 Sum_probs=34.5
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|..+++.|++|+|||...+--+.+.+... +-.++|++ +.+-..++.+.++.+.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~--ge~vlyvs-~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNF--GEKVLYVS-FEEPPEELIENMKSFG 71 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHH--T--EEEEE-SSS-HHHHHHHHHTTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhc--CCcEEEEE-ecCCHHHHHHHHHHcC
Confidence 467899999999999987665555544431 44677777 3444466666665553
No 208
>PRK13764 ATPase; Provisional
Probab=95.39 E-value=0.044 Score=47.83 Aligned_cols=27 Identities=11% Similarity=0.289 Sum_probs=20.6
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
.+++++++||||||||... -+++..+.
T Consensus 256 ~~~~ILIsG~TGSGKTTll-~AL~~~i~ 282 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFA-QALAEFYA 282 (602)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 4789999999999999654 45555554
No 209
>PRK06921 hypothetical protein; Provisional
Probab=95.36 E-value=0.27 Score=38.65 Aligned_cols=48 Identities=19% Similarity=0.250 Sum_probs=30.2
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+.++++.|++|+|||.... ++...+... .+..++|+. ..++..++..
T Consensus 116 ~~~~l~l~G~~G~GKThLa~-aia~~l~~~-~g~~v~y~~-~~~l~~~l~~ 163 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLT-AAANELMRK-KGVPVLYFP-FVEGFGDLKD 163 (266)
T ss_pred CCCeEEEECCCCCcHHHHHH-HHHHHHhhh-cCceEEEEE-HHHHHHHHHH
Confidence 36789999999999996643 445544432 144555554 4555555543
No 210
>KOG0953|consensus
Probab=95.27 E-value=0.034 Score=47.60 Aligned_cols=59 Identities=24% Similarity=0.322 Sum_probs=44.3
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGT 138 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~ 138 (178)
.+=++=+|||.||||.-+ ++++...+ ..+|-.|.|-||.++++.++.. |+.+-+++|..
T Consensus 191 RkIi~H~GPTNSGKTy~A----Lqrl~~ak---sGvycGPLrLLA~EV~~r~na~----gipCdL~TGeE 249 (700)
T KOG0953|consen 191 RKIIMHVGPTNSGKTYRA----LQRLKSAK---SGVYCGPLRLLAHEVYDRLNAL----GIPCDLLTGEE 249 (700)
T ss_pred heEEEEeCCCCCchhHHH----HHHHhhhc---cceecchHHHHHHHHHHHhhhc----CCCccccccce
Confidence 345777899999999765 46665433 5689999999999999999766 56655555554
No 211
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.27 E-value=0.088 Score=43.54 Aligned_cols=87 Identities=24% Similarity=0.234 Sum_probs=46.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC--cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP--TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRK 146 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P--t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 146 (178)
++.+++.||+|+|||....--+.. +.. .+.++.++.- -|.=+. +.++.+.+..++.+...............
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~-l~~--~g~~V~lItaDtyR~gAv---eQLk~yae~lgvpv~~~~dp~dL~~al~~ 279 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQ-LLK--QNRTVGFITTDTFRSGAV---EQFQGYADKLDVELIVATSPAELEEAVQY 279 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH-HHH--cCCeEEEEeCCccCccHH---HHHHHHhhcCCCCEEecCCHHHHHHHHHH
Confidence 567899999999999776544333 222 2345555542 233222 23555555566654433221222222222
Q ss_pred hc--CCC-cEEEeChHHH
Q psy9277 147 LD--YGQ-HVVSGTPGRV 161 (178)
Q Consensus 147 ~~--~~~-~IlV~TP~~l 161 (178)
+. .++ .|+|=|||+.
T Consensus 280 l~~~~~~D~VLIDTAGr~ 297 (407)
T PRK12726 280 MTYVNCVDHILIDTVGRN 297 (407)
T ss_pred HHhcCCCCEEEEECCCCC
Confidence 22 244 4889999983
No 212
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=95.19 E-value=0.42 Score=38.60 Aligned_cols=116 Identities=21% Similarity=0.216 Sum_probs=63.5
Q ss_pred CCCcHHHHHHHHHHHc----CC---cEEEEcCCCChHHHHHHHHHHHHhhhc----------------CCCceEEEE--c
Q psy9277 53 EKPSAIQQRSIKPIVK----GR---DVIAQAQSGTGKTATFSISILQSLDTQ----------------LRETQVLCL--S 107 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~----g~---~v~v~aptGsGKTl~~ll~il~~l~~~----------------~~~~~~lil--~ 107 (178)
..++|+|..+|..+.+ |+ -.++.||.|.||+..+.. +.+.+... ...|-..++ .
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~-lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~ 81 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA-LAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFI 81 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH-HHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecC
Confidence 4678899999987764 33 589999999999876543 23333221 123445666 5
Q ss_pred CcH-------H-HHHHHHHHHHHhcc---CCCceEEEEEcCccHHH--HHH---HhcC---CCc-EEEeC-hHHHHHHHH
Q psy9277 108 PTR-------E-LAVQIQKVVLALGD---FMNVQCHACIGGTNLSE--DLR---KLDY---GQH-VVSGT-PGRVFDMIR 166 (178)
Q Consensus 108 Pt~-------~-L~~q~~~~~~~~~~---~~~~~~~~~~g~~~~~~--~~~---~~~~---~~~-IlV~T-P~~l~~~l~ 166 (178)
|.. + .+.|+.+....+.. .-+.+++++........ ... .+++ ++. |+++. |++|+.-++
T Consensus 82 p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIr 161 (319)
T PRK08769 82 PNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIR 161 (319)
T ss_pred CCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHH
Confidence 642 1 24444443333322 22567777765544332 111 2222 233 44444 678877766
Q ss_pred cCC
Q psy9277 167 SSQ 169 (178)
Q Consensus 167 ~~~ 169 (178)
++-
T Consensus 162 SRC 164 (319)
T PRK08769 162 SRC 164 (319)
T ss_pred hhh
Confidence 653
No 213
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=95.17 E-value=0.24 Score=40.16 Aligned_cols=113 Identities=14% Similarity=0.108 Sum_probs=62.0
Q ss_pred CcHHHHHHHHHHHcC----CcEEEEcCCCChHHHHHHHHHHHHhhhc-------------------CCCceEEEEcCcH-
Q psy9277 55 PSAIQQRSIKPIVKG----RDVIAQAQSGTGKTATFSISILQSLDTQ-------------------LRETQVLCLSPTR- 110 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g----~~v~v~aptGsGKTl~~ll~il~~l~~~-------------------~~~~~~lil~Pt~- 110 (178)
.+|||...|..+... ...+++||.|.||+..+.. +...+... ...+...++.|..
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~-~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~ 82 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAER-LAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA 82 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHH-HHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC
Confidence 478999999888763 3689999999999976543 22333221 1234567777742
Q ss_pred ---HHHHHHHHHHHHhcc---CCCceEEEEEcCcc--HHHHHH---HhcC---CCcEEEeC--hHHHHHHHHcC
Q psy9277 111 ---ELAVQIQKVVLALGD---FMNVQCHACIGGTN--LSEDLR---KLDY---GQHVVSGT--PGRVFDMIRSS 168 (178)
Q Consensus 111 ---~L~~q~~~~~~~~~~---~~~~~~~~~~g~~~--~~~~~~---~~~~---~~~IlV~T--P~~l~~~l~~~ 168 (178)
--+.|+.+....+.. ..+.+++++..... ...... .+++ +.-++++| |++|+.-++++
T Consensus 83 ~~~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SR 156 (328)
T PRK05707 83 DKTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSR 156 (328)
T ss_pred CCCCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhh
Confidence 234555544433332 23567766643332 222211 2222 33455555 55666555544
No 214
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=95.15 E-value=0.29 Score=45.66 Aligned_cols=78 Identities=21% Similarity=0.268 Sum_probs=56.7
Q ss_pred CCCHHHHHHHHhCCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 38 GLREDLLRGIYAYGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 38 ~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
+.++..++.....++ .+++-|..++..+.. ++-+++.|+.|+|||...- ++...+.. .+.+++.++||-.-|..+
T Consensus 366 ~v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~--~G~~V~g~ApTgkAA~~L 441 (1102)
T PRK13826 366 GVREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AAREAWEA--AGYRVVGGALAGKAAEGL 441 (1102)
T ss_pred CCCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHHHHHH--cCCeEEEEcCcHHHHHHH
Confidence 455666666544454 699999999998865 6778999999999996532 33333332 466899999998888777
Q ss_pred HHH
Q psy9277 117 QKV 119 (178)
Q Consensus 117 ~~~ 119 (178)
.+.
T Consensus 442 ~e~ 444 (1102)
T PRK13826 442 EKE 444 (1102)
T ss_pred HHh
Confidence 653
No 215
>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=95.14 E-value=0.079 Score=43.43 Aligned_cols=26 Identities=23% Similarity=0.447 Sum_probs=19.8
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
.+..++++||||||||... -.++..+
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 4678999999999999764 4455544
No 216
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.10 E-value=0.057 Score=45.77 Aligned_cols=40 Identities=25% Similarity=0.376 Sum_probs=29.5
Q ss_pred cHHHHHHHHHHHcCC--cEEEEcCCCChHHHHHHHHHHHHhhh
Q psy9277 56 SAIQQRSIKPIVKGR--DVIAQAQSGTGKTATFSISILQSLDT 96 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~--~v~v~aptGsGKTl~~ll~il~~l~~ 96 (178)
++.|...+..+++.. =+++.||||||||.. +..+++.+..
T Consensus 243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 667777777776633 478999999999976 5667776654
No 217
>PRK06526 transposase; Provisional
Probab=95.04 E-value=0.069 Score=41.67 Aligned_cols=48 Identities=17% Similarity=0.122 Sum_probs=29.6
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
+..+.++++.||+|+|||....--. ..+.. .+.++++ ....+++.++.
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~al~-~~a~~--~g~~v~f-~t~~~l~~~l~ 142 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIGLG-IRACQ--AGHRVLF-ATAAQWVARLA 142 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHH-HHHHH--CCCchhh-hhHHHHHHHHH
Confidence 3357899999999999997765333 22222 3334444 44455666554
No 218
>KOG0387|consensus
Probab=95.02 E-value=0.14 Score=45.73 Aligned_cols=104 Identities=19% Similarity=0.128 Sum_probs=65.9
Q ss_pred CCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+.++|++...-+.+ +..-++.-.=|-|||.-. ++.|..+..+ +-...+|||||. .++.|..+.+..++. .
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQi-isFLaaL~~S~k~~~paLIVCP~-Tii~qW~~E~~~w~p--~ 280 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQI-ISFLAALHHSGKLTKPALIVCPA-TIIHQWMKEFQTWWP--P 280 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhH-HHHHHHHhhcccccCceEEEccH-HHHHHHHHHHHHhCc--c
Confidence 468899998766544 667788888999999643 2233333322 233589999996 466677777777754 4
Q ss_pred ceEEEEEcCccH--------HHHHHH-h----cCCCcEEEeChHHH
Q psy9277 129 VQCHACIGGTNL--------SEDLRK-L----DYGQHVVSGTPGRV 161 (178)
Q Consensus 129 ~~~~~~~g~~~~--------~~~~~~-~----~~~~~IlV~TP~~l 161 (178)
+++..+++..+. ...... + ..+.+|+|+|-..+
T Consensus 281 ~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~ 326 (923)
T KOG0387|consen 281 FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGF 326 (923)
T ss_pred eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhh
Confidence 677777765542 111111 1 12457999998765
No 219
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.00 E-value=0.12 Score=44.84 Aligned_cols=92 Identities=25% Similarity=0.303 Sum_probs=58.5
Q ss_pred ccCCCCHHHHHH-HHhCCCCCCcH----HHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHhhhc---CCCceEE
Q psy9277 35 DNMGLREDLLRG-IYAYGFEKPSA----IQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSLDTQ---LRETQVL 104 (178)
Q Consensus 35 ~~~~l~~~i~~~-l~~~g~~~~~~----~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l~~~---~~~~~~l 104 (178)
.+.+..++++.. |.+.--..+.. +|.+==..|.. +.-++|+|..|||||.+++--+...++.- .....++
T Consensus 185 sd~~~~dEvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vl 264 (747)
T COG3973 185 SDTGGRDEVLQRVLEKNSSAKMRDIVETIQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVL 264 (747)
T ss_pred cCCchHHHHHHHHHHhccchhHHHHHHHhhHhHHHHHhccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceE
Confidence 344566665554 54432223322 23332223333 56789999999999999876555544332 2233599
Q ss_pred EEcCcHHHHHHHHHHHHHhccC
Q psy9277 105 CLSPTRELAVQIQKVVLALGDF 126 (178)
Q Consensus 105 il~Pt~~L~~q~~~~~~~~~~~ 126 (178)
++.|.+-+..-+.+++-+++..
T Consensus 265 vl~PN~vFleYis~VLPeLGe~ 286 (747)
T COG3973 265 VLGPNRVFLEYISRVLPELGEE 286 (747)
T ss_pred EEcCcHHHHHHHHHhchhhccC
Confidence 9999999999999999888654
No 220
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=94.98 E-value=0.65 Score=37.61 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=26.0
Q ss_pred cHHHHHHHHHHHc--C---CcEEEEcCCCChHHHHHHH
Q psy9277 56 SAIQQRSIKPIVK--G---RDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 56 ~~~Q~~~i~~i~~--g---~~v~v~aptGsGKTl~~ll 88 (178)
+|||...|..+.. + ...++.||.|.|||..+..
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~ 40 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARF 40 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHH
Confidence 5788888887774 3 3689999999999977654
No 221
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=94.95 E-value=0.29 Score=36.66 Aligned_cols=84 Identities=24% Similarity=0.234 Sum_probs=42.2
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHH----HHH
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSE----DLR 145 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~----~~~ 145 (178)
+++.||||+|||....--+.+.... +.++.+++ ..|.=+.++.+.+ ++.+++.+.......+..+ ...
T Consensus 4 i~lvGptGvGKTTt~aKLAa~~~~~---~~~v~lis~D~~R~ga~eQL~~~---a~~l~vp~~~~~~~~~~~~~~~~~l~ 77 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIAKLAARLKLK---GKKVALISADTYRIGAVEQLKTY---AEILGVPFYVARTESDPAEIAREALE 77 (196)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHT---T--EEEEEESTSSTHHHHHHHHH---HHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred EEEECCCCCchHhHHHHHHHHHhhc---cccceeecCCCCCccHHHHHHHH---HHHhccccchhhcchhhHHHHHHHHH
Confidence 6899999999998865433333222 33444444 2354444444433 3334666555443332211 111
Q ss_pred Hh-cCCC-cEEEeChHHH
Q psy9277 146 KL-DYGQ-HVVSGTPGRV 161 (178)
Q Consensus 146 ~~-~~~~-~IlV~TP~~l 161 (178)
.. .+++ -|+|=|||+.
T Consensus 78 ~~~~~~~D~vlIDT~Gr~ 95 (196)
T PF00448_consen 78 KFRKKGYDLVLIDTAGRS 95 (196)
T ss_dssp HHHHTTSSEEEEEE-SSS
T ss_pred HHhhcCCCEEEEecCCcc
Confidence 11 1333 4778898754
No 222
>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=94.88 E-value=0.11 Score=42.38 Aligned_cols=44 Identities=23% Similarity=0.238 Sum_probs=31.6
Q ss_pred HHHHHHHHhCCCCCCcHHHHHHHHHHHc-CCcEEEEcCCCChHHHHH
Q psy9277 41 EDLLRGIYAYGFEKPSAIQQRSIKPIVK-GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 41 ~~i~~~l~~~g~~~~~~~Q~~~i~~i~~-g~~v~v~aptGsGKTl~~ 86 (178)
..-++.|.+.|+ +++.+...+..+.. +.+++++++||||||...
T Consensus 151 ~~tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 151 TFTLDELVASGT--FPPGVARLLRAIVAARLAFLISGGTGSGKTTLL 195 (340)
T ss_pred cCCHHHHHHcCC--CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH
Confidence 334566666675 45667776665544 789999999999998654
No 223
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.019 Score=46.16 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=16.1
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
.-|+++.+|||||||+.+.
T Consensus 97 KSNILLiGPTGsGKTlLAq 115 (408)
T COG1219 97 KSNILLIGPTGSGKTLLAQ 115 (408)
T ss_pred eccEEEECCCCCcHHHHHH
Confidence 3589999999999997653
No 224
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.84 E-value=0.071 Score=43.63 Aligned_cols=64 Identities=20% Similarity=0.261 Sum_probs=47.5
Q ss_pred CCCCCCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHH
Q psy9277 50 YGFEKPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELA 113 (178)
Q Consensus 50 ~g~~~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~ 113 (178)
.|+.--+..|..|+..++.. .=|.+.++-|||||+.++-+.+......+.-.+.|+--|+..+-
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG 289 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVG 289 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcc
Confidence 47776778899999988884 45778899999999999988888776554444555555665443
No 225
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.83 E-value=0.2 Score=43.69 Aligned_cols=57 Identities=7% Similarity=0.084 Sum_probs=45.2
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 98 LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 98 ~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
..+.++||.|+++..+.++++.+... ++.+..++|+.+..++...+. ...+|||+|-
T Consensus 255 ~~~~k~LVF~nt~~~ae~l~~~L~~~----g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTd 315 (572)
T PRK04537 255 SEGARTMVFVNTKAFVERVARTLERH----GYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATD 315 (572)
T ss_pred ccCCcEEEEeCCHHHHHHHHHHHHHc----CCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEeh
Confidence 34568999999999999999988654 788999999988776655443 3579999993
No 226
>PRK04328 hypothetical protein; Provisional
Probab=94.82 E-value=0.083 Score=40.99 Aligned_cols=53 Identities=19% Similarity=0.248 Sum_probs=35.9
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|..+++.+++|+|||...+--+.+.+. ++..++|++ +.+-..++.+.+..+.
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~---~ge~~lyis-~ee~~~~i~~~~~~~g 74 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGVYVA-LEEHPVQVRRNMRQFG 74 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh---cCCcEEEEE-eeCCHHHHHHHHHHcC
Confidence 4678999999999999776554544433 345677776 5555556666666654
No 227
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.80 E-value=0.022 Score=44.40 Aligned_cols=65 Identities=22% Similarity=0.238 Sum_probs=38.9
Q ss_pred HHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 41 EDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 41 ~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
+++.++|..-|...-.+.--+.+.-+..|.-+++.|++|+|||...+-.+.+.... .+..++|++
T Consensus 2 ~~~~~~~~~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~--~g~~vl~iS 66 (271)
T cd01122 2 EEIREALSNEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLITQ--HGVRVGTIS 66 (271)
T ss_pred chhhccccccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHh--cCceEEEEE
Confidence 45666665334333222222233456678899999999999997665444433221 245677776
No 228
>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=94.80 E-value=0.067 Score=43.03 Aligned_cols=47 Identities=21% Similarity=0.246 Sum_probs=30.7
Q ss_pred HHHHhCCCCCCcHHHHH-HHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 45 RGIYAYGFEKPSAIQQR-SIKPIVKGRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 45 ~~l~~~g~~~~~~~Q~~-~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
..|.+.|. +++.|.. .|-.+.++++++++++||||||.. +.+++..+
T Consensus 120 ~~l~~~gt--~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~I 167 (312)
T COG0630 120 EDLIEYGT--ISPEQAAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFI 167 (312)
T ss_pred HHHhhcCC--CCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC
Confidence 33433444 4555544 445566699999999999999954 44555444
No 229
>KOG1131|consensus
Probab=94.79 E-value=0.28 Score=42.05 Aligned_cols=72 Identities=14% Similarity=0.094 Sum_probs=46.8
Q ss_pred CCCCCcHHHHHHHHHHHc----CCcEEEEcCCCChHHHHHHHHHHHHhhhcC-CCceEEEEcCcHHHHHHHHHHHHH
Q psy9277 51 GFEKPSAIQQRSIKPIVK----GRDVIAQAQSGTGKTATFSISILQSLDTQL-RETQVLCLSPTRELAVQIQKVVLA 122 (178)
Q Consensus 51 g~~~~~~~Q~~~i~~i~~----g~~v~v~aptGsGKTl~~ll~il~~l~~~~-~~~~~lil~Pt~~L~~q~~~~~~~ 122 (178)
-|.+.+|-|.+-+..+.+ +-+.++.+|+|+|||.+.+..++.....-. ...+.+|-+-|..-+......++.
T Consensus 13 PY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~ 89 (755)
T KOG1131|consen 13 PYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKR 89 (755)
T ss_pred CCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHH
Confidence 455677888776665554 678999999999999987765555433222 334667766665555555444433
No 230
>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=94.74 E-value=0.11 Score=40.70 Aligned_cols=45 Identities=20% Similarity=0.364 Sum_probs=29.9
Q ss_pred HHHhCCCCCCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 46 GIYAYGFEKPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 46 ~l~~~g~~~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
.|.++|+ .+.|.+.+..+.. +..+++.++||||||... ..++..+
T Consensus 58 ~l~~lg~---~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i 104 (264)
T cd01129 58 DLEKLGL---KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSEL 104 (264)
T ss_pred CHHHcCC---CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhh
Confidence 3556664 5556666665554 346899999999999764 3444444
No 231
>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=94.73 E-value=0.088 Score=44.92 Aligned_cols=46 Identities=20% Similarity=0.388 Sum_probs=30.5
Q ss_pred HHHhCCCCCCcHHHHHHHHHHHc-CC-cEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 46 GIYAYGFEKPSAIQQRSIKPIVK-GR-DVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 46 ~l~~~g~~~~~~~Q~~~i~~i~~-g~-~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
.|.++|+ .+-|.+.+..+.. .. -++++||||||||... ..++..+.
T Consensus 220 ~l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 220 DLETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred CHHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 3455664 5667777766655 33 3789999999999764 34555553
No 232
>PRK10436 hypothetical protein; Provisional
Probab=94.73 E-value=0.091 Score=44.53 Aligned_cols=45 Identities=24% Similarity=0.434 Sum_probs=29.6
Q ss_pred HHhCCCCCCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 47 IYAYGFEKPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 47 l~~~g~~~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
|.++|+ .+.|.+.|..+.. +--++++||||||||... ..++..+.
T Consensus 197 L~~LG~---~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 197 LETLGM---TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred HHHcCc---CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 445553 4556666665544 456899999999999764 44555543
No 233
>KOG1805|consensus
Probab=94.70 E-value=0.2 Score=45.66 Aligned_cols=68 Identities=22% Similarity=0.185 Sum_probs=51.0
Q ss_pred CCCcHHHHHHHHHHHcCC-cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 53 EKPSAIQQRSIKPIVKGR-DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~-~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
..++.-|++|+-.++..+ ..+|.|=+|+|||......+ ..+.. .+.++|+.+-|..-+..+.-.++.+
T Consensus 668 ~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LI-kiL~~--~gkkVLLtsyThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 668 LRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLI-KILVA--LGKKVLLTSYTHSAVDNILIKLKGF 736 (1100)
T ss_pred hhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHH-HHHHH--cCCeEEEEehhhHHHHHHHHHHhcc
Confidence 478999999999888855 56788889999997754333 22222 4568999999988888888877655
No 234
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.67 E-value=0.31 Score=41.17 Aligned_cols=81 Identities=23% Similarity=0.197 Sum_probs=47.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD 148 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 148 (178)
|.-+++.+++|+|||...+.-+.... . .+.+++|+.- .+-..|+...+..+..... -..+....+.+.....+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a-~--~g~~vlYvs~-Ees~~qi~~ra~rlg~~~~--~l~~~~e~~l~~i~~~i~ 153 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLA-A--AGGKVLYVSG-EESASQIKLRAERLGLPSD--NLYLLAETNLEAILATIE 153 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHH-h--cCCeEEEEEc-cccHHHHHHHHHHcCCChh--cEEEeCCCCHHHHHHHHH
Confidence 56889999999999977654443322 2 3457888874 4455677766766643221 123444555554444443
Q ss_pred C-CCcEEE
Q psy9277 149 Y-GQHVVS 155 (178)
Q Consensus 149 ~-~~~IlV 155 (178)
+ +++++|
T Consensus 154 ~~~~~lVV 161 (446)
T PRK11823 154 EEKPDLVV 161 (446)
T ss_pred hhCCCEEE
Confidence 2 455443
No 235
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=94.65 E-value=0.051 Score=47.51 Aligned_cols=57 Identities=18% Similarity=0.050 Sum_probs=43.7
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
..++++.||||||||..+++|-+-.. +.-+|++=|--|+........+++ |.+|.++
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~~-----~~S~VV~DpKGEl~~~Ta~~R~~~----G~~V~vf 214 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLFW-----EDSVVVHDIKLENYELTSGWREKQ----GQKVFVW 214 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHhC-----CCCEEEEeCcHHHHHHHHHHHHHC----CCeEEEE
Confidence 35899999999999999999987642 346788889999987777766554 5555544
No 236
>KOG1002|consensus
Probab=94.64 E-value=0.4 Score=40.97 Aligned_cols=106 Identities=17% Similarity=0.160 Sum_probs=68.4
Q ss_pred CCcHHHHHHHHHHHcCC-----cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPIVKGR-----DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~-----~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+.|+|.+-+--+.... .-++.-.-|.|||.-.+.-++. ...+...++++|+.+|.+-. +.+..+.. -.
T Consensus 184 ~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra~tLVvaP~VAlmQW~-nEI~~~T~-gs 257 (791)
T KOG1002|consen 184 PLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRAPTLVVAPTVALMQWK-NEIERHTS-GS 257 (791)
T ss_pred cchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccCCeeEEccHHHHHHHH-HHHHHhcc-Cc
Confidence 46789998775544432 3455566899999776554444 33445699999999997644 33444433 13
Q ss_pred ceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHc
Q psy9277 129 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRS 167 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~ 167 (178)
.++..++|.. .+..+..+ .+.|++.+|...+...++.
T Consensus 258 lkv~~YhG~~-R~~nikel-~~YDvVLTty~vvEs~yRk 294 (791)
T KOG1002|consen 258 LKVYIYHGAK-RDKNIKEL-MNYDVVLTTYAVVESVYRK 294 (791)
T ss_pred eEEEEEeccc-ccCCHHHh-hcCcEEEEecHHHHHHHHh
Confidence 5555555544 33333333 3689999999999877765
No 237
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=94.63 E-value=0.069 Score=44.20 Aligned_cols=52 Identities=17% Similarity=0.337 Sum_probs=33.8
Q ss_pred HHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 64 KPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 64 ~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
|.-...+++++.|.||||||. ++..++..+.. ++.++||.=|.-+.....++
T Consensus 10 ~~~~e~~~~li~G~~GsGKT~-~i~~ll~~~~~--~g~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 10 PKDSENRHILIIGATGSGKTQ-AIRHLLDQIRA--RGDRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp -GGGGGG-EEEEE-TTSSHHH-HHHHHHHHHHH--TT-EEEEEEETTHHHHHH--
T ss_pred ccchhhCcEEEECCCCCCHHH-HHHHHHHHHHH--cCCEEEEEECCchHHHHhcC
Confidence 334457899999999999997 44566666654 35578888888877665544
No 238
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=94.62 E-value=0.44 Score=33.33 Aligned_cols=40 Identities=20% Similarity=0.271 Sum_probs=25.3
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHH
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAV 114 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~ 114 (178)
+++.|++|+|||.....-+... .. .+..++++........
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~-~~--~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNI-AT--KGGKVVYVDIEEEIEE 41 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHH-Hh--cCCEEEEEECCcchHH
Confidence 6899999999997654433332 22 3456777766544433
No 239
>PRK12377 putative replication protein; Provisional
Probab=94.61 E-value=0.2 Score=38.95 Aligned_cols=47 Identities=15% Similarity=0.244 Sum_probs=30.3
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
..++++.||+|+|||.... ++.+.+.. .+..+ +.++..+|..++...
T Consensus 101 ~~~l~l~G~~GtGKThLa~-AIa~~l~~--~g~~v-~~i~~~~l~~~l~~~ 147 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAA-AIGNRLLA--KGRSV-IVVTVPDVMSRLHES 147 (248)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHH--cCCCe-EEEEHHHHHHHHHHH
Confidence 3689999999999996643 44444443 23334 445666777766543
No 240
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=94.57 E-value=0.81 Score=37.07 Aligned_cols=113 Identities=17% Similarity=0.139 Sum_probs=59.9
Q ss_pred CcHHHHHHHHHHHc----C---CcEEEEcCCCChHHHHHHHHHHHHhhhc-------------------CCCceEEEEcC
Q psy9277 55 PSAIQQRSIKPIVK----G---RDVIAQAQSGTGKTATFSISILQSLDTQ-------------------LRETQVLCLSP 108 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~----g---~~v~v~aptGsGKTl~~ll~il~~l~~~-------------------~~~~~~lil~P 108 (178)
.+|||...|..+.+ | .-.++.||.|.||+..+.. +.+.+... ...|-..++.|
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~-~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p 81 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRA-LAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEP 81 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHH-HHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcc
Confidence 35777777776653 3 4678999999999976543 22333221 12244667777
Q ss_pred c--H-HHHHHHHHHHHHh---ccCCCceEEEEEcCccHHH--HHH---HhcCC---CcEEEeC--hHHHHHHHHcC
Q psy9277 109 T--R-ELAVQIQKVVLAL---GDFMNVQCHACIGGTNLSE--DLR---KLDYG---QHVVSGT--PGRVFDMIRSS 168 (178)
Q Consensus 109 t--~-~L~~q~~~~~~~~---~~~~~~~~~~~~g~~~~~~--~~~---~~~~~---~~IlV~T--P~~l~~~l~~~ 168 (178)
. + --+.|+.+....+ ...-+.+++.+........ ... .+++. .-+++.| |++|+.-++++
T Consensus 82 ~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 82 IDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred ccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 3 1 2344444433333 2333577777765544332 212 22222 2333333 77777666654
No 241
>PF12846 AAA_10: AAA-like domain
Probab=94.55 E-value=0.092 Score=41.04 Aligned_cols=43 Identities=21% Similarity=0.435 Sum_probs=29.3
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAV 114 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~ 114 (178)
+.++++.|+||+|||.... .++..+.. .+..++++=|..+...
T Consensus 1 n~h~~i~G~tGsGKT~~~~-~l~~~~~~--~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK-NLLEQLIR--RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CCeEEEECCCCCcHHHHHH-HHHHHHHH--cCCCEEEEcCCchHHH
Confidence 3689999999999997766 44444433 3456777766655444
No 242
>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=94.53 E-value=0.09 Score=41.04 Aligned_cols=52 Identities=13% Similarity=0.362 Sum_probs=31.7
Q ss_pred HHHHHHHH-HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 58 IQQRSIKP-IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 58 ~Q~~~i~~-i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
...+.+.. +..+.+++++|+||||||... -.++..+... ..+++++-.+.|+
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~~--~~~iv~iEd~~E~ 167 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPPE--DERIVTIEDPPEL 167 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHTT--TSEEEEEESSS-S
T ss_pred HHHHHHhhccccceEEEEECCCccccchHH-HHHhhhcccc--ccceEEeccccce
Confidence 33344433 345789999999999999664 5556655433 2355555544444
No 243
>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=94.53 E-value=0.11 Score=45.26 Aligned_cols=45 Identities=24% Similarity=0.372 Sum_probs=30.7
Q ss_pred HHhCCCCCCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 47 IYAYGFEKPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 47 l~~~g~~~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
|.++|+ .+.|...|..+.. +-.++++||||||||... ..++..+.
T Consensus 295 l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 295 IDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 556665 4566666666554 346789999999999774 45555553
No 244
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=94.53 E-value=0.29 Score=42.11 Aligned_cols=64 Identities=20% Similarity=0.197 Sum_probs=49.4
Q ss_pred HHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 90 ILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 90 il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
.+..+.......++||.+.|+..+..+...+... |+.+..++|+.+..++.+.+. ...+|+|+|
T Consensus 263 ~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~----g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaT 330 (513)
T COG0513 263 LLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKR----GFKVAALHGDLPQEERDRALEKFKDGELRVLVAT 330 (513)
T ss_pred HHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHC----CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEe
Confidence 3344444444458999999999999988877665 789999999998887766654 357999999
No 245
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=94.48 E-value=0.13 Score=39.50 Aligned_cols=54 Identities=19% Similarity=0.185 Sum_probs=34.5
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
+..|..+++.+++|+|||...+-.+...+ . ++.+++|++. .+-..+..+.+..+
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~--~g~~~~yi~~-e~~~~~~~~~~~~~ 74 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGFL-Q--NGYSVSYVST-QLTTTEFIKQMMSL 74 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHHH-h--CCCcEEEEeC-CCCHHHHHHHHHHh
Confidence 34578999999999999987544443322 2 3457788884 33345555555444
No 246
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=94.47 E-value=0.19 Score=44.31 Aligned_cols=55 Identities=20% Similarity=0.294 Sum_probs=39.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH--HHHHHHHHHHHhccC
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE--LAVQIQKVVLALGDF 126 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~--L~~q~~~~~~~~~~~ 126 (178)
..+++|.|+||+|||..+.+-+.+.+. .+..++++=|-.. |...+...++.++..
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~l~~q~i~---~g~~viv~DpKgD~~l~~~~~~~~~~~G~~ 232 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAELLITQDIR---RGDVVIVIDPKGDADLKRRMRAEAKRAGRP 232 (634)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCCCchHHHHHHHHHHHHhCCC
Confidence 468999999999999887555555444 3446666667754 778888877777543
No 247
>PHA02244 ATPase-like protein
Probab=94.47 E-value=0.037 Score=45.44 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=18.8
Q ss_pred HHHcCCcEEEEcCCCChHHHHHH
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~l 87 (178)
.+..+.++++.||||+|||....
T Consensus 115 ~l~~~~PVLL~GppGtGKTtLA~ 137 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHIAE 137 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHHHH
Confidence 34458999999999999996653
No 248
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.44 E-value=0.074 Score=43.37 Aligned_cols=72 Identities=18% Similarity=0.255 Sum_probs=42.4
Q ss_pred cCCCCCCcccccccccccccccccCC-CCHHHHHHH--HhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 13 IPEDLSNVEFETSEDVEVVSTFDNMG-LREDLLRGI--YAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~f~~~~-l~~~i~~~l--~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
++.+.+..-.....+..|..+|++.| |.+.+.+.= -++-.+.|--++.- -|---+.|++.||+|+|||+.+=
T Consensus 129 Lp~~~Dp~V~~M~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~---GI~PPKGVLLYGPPGTGKTLLAk 203 (406)
T COG1222 129 LPPEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEEL---GIDPPKGVLLYGPPGTGKTLLAK 203 (406)
T ss_pred CCCccCchhheeeeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHc---CCCCCCceEeeCCCCCcHHHHHH
Confidence 44444444444445667788999986 655444432 12333333323222 12235899999999999998763
No 249
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.40 E-value=0.61 Score=37.62 Aligned_cols=88 Identities=22% Similarity=0.184 Sum_probs=44.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc-Cc-HHHHHHHHHHHHHhccCCCceEEEEEcCccH-H----
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS-PT-RELAVQIQKVVLALGDFMNVQCHACIGGTNL-S---- 141 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~-Pt-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~-~---- 141 (178)
+.-++++||+|+|||....--+.. +.. .+.+++++. .+ +.-+.++...+.. ..++.+.....+.+. .
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~-l~~--~g~~V~Li~~D~~r~~a~eql~~~a~---~~~i~~~~~~~~~dpa~~v~~ 187 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHK-YKA--QGKKVLLAAGDTFRAAAIEQLQVWGE---RVGVPVIAQKEGADPASVAFD 187 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHH-HHh--cCCeEEEEecCccchhhHHHHHHHHH---HcCceEEEeCCCCCHHHHHHH
Confidence 346789999999999775432222 222 344666655 22 4444333333322 224444333222222 1
Q ss_pred HHHHHhcCCC-cEEEeChHHHH
Q psy9277 142 EDLRKLDYGQ-HVVSGTPGRVF 162 (178)
Q Consensus 142 ~~~~~~~~~~-~IlV~TP~~l~ 162 (178)
........+. .|+|=||+++.
T Consensus 188 ~l~~~~~~~~D~ViIDTaGr~~ 209 (318)
T PRK10416 188 AIQAAKARGIDVLIIDTAGRLH 209 (318)
T ss_pred HHHHHHhCCCCEEEEeCCCCCc
Confidence 1111223455 48899999863
No 250
>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=94.38 E-value=0.046 Score=36.99 Aligned_cols=39 Identities=18% Similarity=0.263 Sum_probs=24.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
+..+++.||+|+|||.....- +..+.. ....++++.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l-~~~~~~--~~~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARAL-ARELGP--PGGGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHH-HhccCC--CCCCEEEECCEE
Confidence 568999999999999765432 222221 112467776664
No 251
>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=94.38 E-value=0.35 Score=32.90 Aligned_cols=38 Identities=24% Similarity=0.326 Sum_probs=23.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
+..+++.||+|+|||.... .+...+.. .+..++++...
T Consensus 19 ~~~v~i~G~~G~GKT~l~~-~i~~~~~~--~~~~v~~~~~~ 56 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLAR-AIANELFR--PGAPFLYLNAS 56 (151)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHhhc--CCCCeEEEehh
Confidence 6789999999999996433 33333321 23345555443
No 252
>PHA02533 17 large terminase protein; Provisional
Probab=94.37 E-value=0.36 Score=41.73 Aligned_cols=69 Identities=17% Similarity=0.159 Sum_probs=54.2
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.+.++|...+..+..++-.++..+-..|||.+....++...... .+..+++++|+.+-|..+++.++.+
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~-~~~~v~i~A~~~~QA~~vF~~ik~~ 127 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFN-KDKNVGILAHKASMAAEVLDRTKQA 127 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhC-CCCEEEEEeCCHHHHHHHHHHHHHH
Confidence 58899999998876677777888889999998775555443332 3569999999999999999888654
No 253
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=94.35 E-value=0.11 Score=46.57 Aligned_cols=52 Identities=21% Similarity=0.270 Sum_probs=40.3
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.=.+|.+|-|||||.+..-++-+.+. ....++++|+..++|+.++...++..
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~--~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALK--NPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhcc--CCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 34689999999999876554444333 24568999999999999999998644
No 254
>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=94.34 E-value=0.054 Score=42.33 Aligned_cols=27 Identities=30% Similarity=0.414 Sum_probs=21.6
Q ss_pred HHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 61 RSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 61 ~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
.++..+..|.++++.||+|+|||.+..
T Consensus 13 ~~l~~l~~g~~vLL~G~~GtGKT~lA~ 39 (262)
T TIGR02640 13 RALRYLKSGYPVHLRGPAGTGKTTLAM 39 (262)
T ss_pred HHHHHHhcCCeEEEEcCCCCCHHHHHH
Confidence 344455669999999999999998764
No 255
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=94.33 E-value=0.15 Score=38.78 Aligned_cols=52 Identities=21% Similarity=0.217 Sum_probs=32.3
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.|..+++.+++|+|||...+.-+.+.+. ++..++++.- .+...++.+.+..+
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~---~g~~~~~is~-e~~~~~i~~~~~~~ 70 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLR---DGDPVIYVTT-EESRESIIRQAAQF 70 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHh---cCCeEEEEEc-cCCHHHHHHHHHHh
Confidence 4789999999999999776544433332 3446677663 33444554444433
No 256
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=94.31 E-value=0.33 Score=40.58 Aligned_cols=65 Identities=17% Similarity=0.154 Sum_probs=48.8
Q ss_pred HHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 89 SILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 89 ~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
.++..+.......++||.+++++-+..+++.++. .++.+..++|+.+..++...+. ...+|||+|
T Consensus 234 ~~l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~----~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaT 302 (434)
T PRK11192 234 ALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRK----AGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVAT 302 (434)
T ss_pred HHHHHHHhcCCCCeEEEEeCChHHHHHHHHHHHh----CCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEc
Confidence 3344444443556899999999999999998875 3788899999988776655443 347899999
No 257
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=94.28 E-value=0.11 Score=40.66 Aligned_cols=38 Identities=18% Similarity=0.122 Sum_probs=27.6
Q ss_pred HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 67 VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
..|.-++|.|++|+|||...+--+.+.+. ++..++|++
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge~vlyis 71 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQAS---RGNPVLFVT 71 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCCcEEEEE
Confidence 34678999999999999876655444332 355778877
No 258
>KOG0385|consensus
Probab=94.28 E-value=0.79 Score=41.07 Aligned_cols=105 Identities=16% Similarity=0.092 Sum_probs=67.7
Q ss_pred CCcHHHHHHHHHH----HcCCcEEEEcCCCChHHHHHHHHHHHHhhh-cCCCceEEEEcCcHHHHHHHHHHHHHhccCCC
Q psy9277 54 KPSAIQQRSIKPI----VKGRDVIAQAQSGTGKTATFSISILQSLDT-QLRETQVLCLSPTRELAVQIQKVVLALGDFMN 128 (178)
Q Consensus 54 ~~~~~Q~~~i~~i----~~g~~v~v~aptGsGKTl~~ll~il~~l~~-~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~ 128 (178)
.+.++|.+-+.-+ .+|-|.++.-.-|-|||+--+ +.+..+.. ....+--+|++|...|.+- .+.+++|.. +
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~~~GPfLVi~P~StL~NW-~~Ef~rf~P--~ 242 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKGIPGPFLVIAPKSTLDNW-MNEFKRFTP--S 242 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcCCCCCeEEEeeHhhHHHH-HHHHHHhCC--C
Confidence 4788888766543 348899999999999997643 33333322 2223456888998887654 344566643 6
Q ss_pred ceEEEEEcCccHHHHHH--Hhc-CCCcEEEeChHHHH
Q psy9277 129 VQCHACIGGTNLSEDLR--KLD-YGQHVVSGTPGRVF 162 (178)
Q Consensus 129 ~~~~~~~g~~~~~~~~~--~~~-~~~~IlV~TP~~l~ 162 (178)
+++++++|+........ .+. ...+|+|||-+..+
T Consensus 243 l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i 279 (971)
T KOG0385|consen 243 LNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAI 279 (971)
T ss_pred cceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHH
Confidence 78888898874332211 112 25699999987763
No 259
>KOG0389|consensus
Probab=94.21 E-value=0.36 Score=43.20 Aligned_cols=103 Identities=17% Similarity=0.134 Sum_probs=67.6
Q ss_pred CcHHHHHHHHHH---H-cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCce
Q psy9277 55 PSAIQQRSIKPI---V-KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQ 130 (178)
Q Consensus 55 ~~~~Q~~~i~~i---~-~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~ 130 (178)
+-++|..-+.-+ . .+.+.++.-.-|-|||.- +++.+..+......+--|||||.-.|-+.. +.+.+|+. .++
T Consensus 400 LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQ-vIaFlayLkq~g~~gpHLVVvPsSTleNWl-rEf~kwCP--sl~ 475 (941)
T KOG0389|consen 400 LKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQ-VIAFLAYLKQIGNPGPHLVVVPSSTLENWL-REFAKWCP--SLK 475 (941)
T ss_pred ccchhhhhHHHHHHHHHccccceehhhccCcchhH-HHHHHHHHHHcCCCCCcEEEecchhHHHHH-HHHHHhCC--ceE
Confidence 677777655433 2 266778888899999954 445555555544455679999988775433 33445543 478
Q ss_pred EEEEEcCccHHHHHHHhc----CCCcEEEeChHHH
Q psy9277 131 CHACIGGTNLSEDLRKLD----YGQHVVSGTPGRV 161 (178)
Q Consensus 131 ~~~~~g~~~~~~~~~~~~----~~~~IlV~TP~~l 161 (178)
+..++|......+.+..- .+.+|+|+|..-.
T Consensus 476 Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la 510 (941)
T KOG0389|consen 476 VEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLA 510 (941)
T ss_pred EEeccCcHHHHHHHHHHHhccCCCccEEEEEeecc
Confidence 888898886655444332 2579999997543
No 260
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.20 E-value=0.34 Score=40.44 Aligned_cols=56 Identities=14% Similarity=0.119 Sum_probs=44.1
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
...++||.++++..|..+++.+... ++.+..++|+....++...+. ...+|||+|-
T Consensus 254 ~~~~~lVF~~t~~~~~~l~~~L~~~----g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTd 313 (423)
T PRK04837 254 WPDRAIIFANTKHRCEEIWGHLAAD----GHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATD 313 (423)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhC----CCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEec
Confidence 4568999999999999888887643 788999999987766655443 3579999993
No 261
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=94.16 E-value=0.36 Score=40.69 Aligned_cols=87 Identities=18% Similarity=0.206 Sum_probs=44.2
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc--HHHHHHHHHHHHHhccCCCceEEEEEcCccHH----HH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT--RELAVQIQKVVLALGDFMNVQCHACIGGTNLS----ED 143 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt--~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~----~~ 143 (178)
..++++|++|+|||.+..--+. .+.. .+.+++++... +.-+. +.++.++...++.+.......... +.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~-~L~~--~g~kV~lV~~D~~R~aa~---eQL~~la~~~gvp~~~~~~~~d~~~i~~~a 169 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLAR-YFKK--KGLKVGLVAADTYRPAAY---DQLKQLAEKIGVPFYGDPDNKDAVEIAKEG 169 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHH-HHHH--cCCeEEEecCCCCCHHHH---HHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence 4689999999999987654332 2332 33455555532 33333 333334444455543222122211 11
Q ss_pred HHHhcCCCcEEEeChHHHH
Q psy9277 144 LRKLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 144 ~~~~~~~~~IlV~TP~~l~ 162 (178)
.......--|||=||+++.
T Consensus 170 l~~~~~~DvVIIDTAGr~~ 188 (437)
T PRK00771 170 LEKFKKADVIIVDTAGRHA 188 (437)
T ss_pred HHHhhcCCEEEEECCCccc
Confidence 1222222348888998874
No 262
>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=94.14 E-value=0.064 Score=44.70 Aligned_cols=51 Identities=18% Similarity=0.300 Sum_probs=34.8
Q ss_pred HHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 63 IKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 63 i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
++.-...+++++.|+||||||.+ +..++..+.. .+.+++|+=|..++....
T Consensus 36 ~~~~~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~--~~~~~vi~D~kg~~~~~~ 86 (410)
T cd01127 36 FPKDAEEAHTMIIGTTGTGKTTQ-IRELLASIRA--RGDRAIIYDPNGGFVSKF 86 (410)
T ss_pred CCcchhhccEEEEcCCCCCHHHH-HHHHHHHHHh--cCCCEEEEeCCcchhHhh
Confidence 44445578999999999999976 3344444433 345788888887775543
No 263
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=94.09 E-value=0.21 Score=39.07 Aligned_cols=89 Identities=20% Similarity=0.198 Sum_probs=44.1
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCC-CceEEEEcCc----HHHHHHHHHHHHHhccC-----------------
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLR-ETQVLCLSPT----RELAVQIQKVVLALGDF----------------- 126 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~-~~~~lil~Pt----~~L~~q~~~~~~~~~~~----------------- 126 (178)
.+-+.+.|+.|+|||..+.-.. +....... ...+++-+.. ..+..++...+..-...
T Consensus 19 ~~~v~I~G~~G~GKT~LA~~~~-~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~ 97 (287)
T PF00931_consen 19 VRVVAIVGMGGIGKTTLARQVA-RDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLREL 97 (287)
T ss_dssp SEEEEEEESTTSSHHHHHHHHH-CHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHH
T ss_pred eEEEEEEcCCcCCcceeeeecc-cccccccccccccccccccccccccccccccccccccccccccccccccccccchhh
Confidence 3568999999999998775433 32211111 2223333222 33444444333111000
Q ss_pred -CCceEEEEEcCccHHHHHHHh-------cCCCcEEEeCh
Q psy9277 127 -MNVQCHACIGGTNLSEDLRKL-------DYGQHVVSGTP 158 (178)
Q Consensus 127 -~~~~~~~~~g~~~~~~~~~~~-------~~~~~IlV~TP 158 (178)
.+-++.++.++.........+ ..++.|||||=
T Consensus 98 L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR 137 (287)
T PF00931_consen 98 LKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTR 137 (287)
T ss_dssp HCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEES
T ss_pred hccccceeeeeeeccccccccccccccccccccccccccc
Confidence 023777777776655544222 24789999983
No 264
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=94.04 E-value=0.33 Score=42.74 Aligned_cols=55 Identities=18% Similarity=0.256 Sum_probs=42.8
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH--HHHHHHHHHHHHhccC
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR--ELAVQIQKVVLALGDF 126 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~--~L~~q~~~~~~~~~~~ 126 (178)
..+.+|.|+||+|||..+.+.+.+.+. .+..++++=|-. ++...++..++.+++.
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~---~g~~vi~fDpkgD~el~~~~~~~~~~~GR~ 236 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIR---RGDVVIVFDPKGDADLLKRMYAEAKRAGRL 236 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCCCCHHHHHHHHHHHHHhCCC
Confidence 468999999999999998877766654 345677777774 6788888888887664
No 265
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=93.99 E-value=0.2 Score=47.10 Aligned_cols=56 Identities=23% Similarity=0.376 Sum_probs=45.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.++++|.|+-|||||...+--++..+........+++|+-|+.-|.++..++....
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L 65 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRL 65 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 57999999999999998877777766554444589999999999999888775544
No 266
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.94 E-value=0.46 Score=36.88 Aligned_cols=44 Identities=23% Similarity=0.335 Sum_probs=28.0
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
..+++.|++|+|||.... .+...+.. .+..++++ +..++...+.
T Consensus 100 ~~~~l~G~~GtGKThLa~-aia~~l~~--~g~~v~~i-t~~~l~~~l~ 143 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAA-AICNELLL--RGKSVLII-TVADIMSAMK 143 (244)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHh--cCCeEEEE-EHHHHHHHHH
Confidence 479999999999997654 44444443 23345444 5566665443
No 267
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=93.94 E-value=0.32 Score=47.06 Aligned_cols=64 Identities=25% Similarity=0.378 Sum_probs=47.3
Q ss_pred CCcHHHHHHHHHHHc--CCcEEEEcCCCChHHHHH--HHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVK--GRDVIAQAQSGTGKTATF--SISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~--g~~v~v~aptGsGKTl~~--ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+++-|.+++..++. ++-+++.|..|+|||... ++.++..+. ...+..++.++||..-+..+.+
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~-e~~g~~V~glAPTgkAa~~L~e 902 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLP-ESERPRVVGLGPTHRAVGEMRS 902 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHh-hccCceEEEEechHHHHHHHHH
Confidence 689999999999986 488999999999999764 223333222 2245678889999887776543
No 268
>PRK08116 hypothetical protein; Validated
Probab=93.94 E-value=0.58 Score=36.77 Aligned_cols=46 Identities=22% Similarity=0.207 Sum_probs=30.0
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
..+++.|++|+|||.... ++.+.+... +..+ +..+..++..++...
T Consensus 115 ~gl~l~G~~GtGKThLa~-aia~~l~~~--~~~v-~~~~~~~ll~~i~~~ 160 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAA-CIANELIEK--GVPV-IFVNFPQLLNRIKST 160 (268)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHHc--CCeE-EEEEHHHHHHHHHHH
Confidence 459999999999997654 455655543 3344 444566666666443
No 269
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=93.93 E-value=0.097 Score=46.36 Aligned_cols=57 Identities=18% Similarity=0.142 Sum_probs=42.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
..++++.||||||||..+++|-+-.. ...+|++=|--++........++. |.+|.++
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL~~-----~gS~VV~DpKGE~~~~Ta~~R~~~----G~~V~~F 195 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLLTF-----KGSVIALDVKGELFELTSRARKAS----GDAVFKF 195 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHhcC-----CCCEEEEeCCchHHHHHHHHHHhC----CCEEEEe
Confidence 35899999999999999999886532 236788889888887766655443 5555544
No 270
>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=93.91 E-value=0.12 Score=39.23 Aligned_cols=46 Identities=24% Similarity=0.262 Sum_probs=30.6
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+++.||+|+|||-. +.++.+.+.....+.+++|+.. .+.......
T Consensus 36 ~l~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~~-~~f~~~~~~ 81 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLSA-EEFIREFAD 81 (219)
T ss_dssp EEEEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEEH-HHHHHHHHH
T ss_pred ceEEECCCCCCHHHH-HHHHHHHHHhccccccceeecH-HHHHHHHHH
Confidence 489999999999973 5567776666545667777654 344444433
No 271
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=93.84 E-value=0.47 Score=40.03 Aligned_cols=55 Identities=13% Similarity=0.102 Sum_probs=44.0
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
...++||.|+++.-+..+++.+... ++.+..++|+.+..++...+. ...+|+|+|
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~----~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaT 299 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQ----GFSALALHGDLEQRDRDQVLVRFANRSCSVLVAT 299 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhC----CCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEe
Confidence 4458999999999999999988655 788899999998776655443 246899999
No 272
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=93.84 E-value=0.24 Score=40.89 Aligned_cols=53 Identities=17% Similarity=0.345 Sum_probs=40.3
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH-HHHHHHHHHHHh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE-LAVQIQKVVLAL 123 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~-L~~q~~~~~~~~ 123 (178)
-.++.|+.|||||.+...-++..+.....+.+++++.++.. +-..++..+...
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~ 56 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENL 56 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHH
Confidence 46789999999999998888877766434568899999865 666666666544
No 273
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=93.82 E-value=0.44 Score=40.22 Aligned_cols=58 Identities=19% Similarity=0.134 Sum_probs=44.7
Q ss_pred cCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 97 QLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 97 ~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
.....++||.++++.-+..+++.+... ++.+..++|+.+..++...+. ...+|||+|-
T Consensus 242 ~~~~~~~lVF~~t~~~~~~l~~~L~~~----g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTd 303 (456)
T PRK10590 242 KGNWQQVLVFTRTKHGANHLAEQLNKD----GIRSAAIHGNKSQGARTRALADFKSGDIRVLVATD 303 (456)
T ss_pred cCCCCcEEEEcCcHHHHHHHHHHHHHC----CCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcc
Confidence 334468999999999999998888654 788899999988766655443 3468999993
No 274
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.72 E-value=0.17 Score=43.13 Aligned_cols=53 Identities=19% Similarity=0.235 Sum_probs=38.3
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
|..+++.+|+|+|||...+.-+...+. ++-+++|++ ..+-..|+.+.+..+..
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge~~~y~s-~eEs~~~i~~~~~~lg~ 315 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA---NKERAILFA-YEESRAQLLRNAYSWGI 315 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---CCCeEEEEE-eeCCHHHHHHHHHHcCC
Confidence 578999999999999876554443322 455788876 66777788888877753
No 275
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=93.70 E-value=0.44 Score=34.78 Aligned_cols=43 Identities=7% Similarity=0.127 Sum_probs=29.9
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV 120 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~ 120 (178)
++|.|++|||||....--+.. .+.+++|++..+..-....+.+
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~em~~rI 44 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDEMAERI 44 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHHHHHHH
Confidence 589999999999776543322 3457888887777655555554
No 276
>KOG0744|consensus
Probab=93.69 E-value=0.64 Score=37.74 Aligned_cols=67 Identities=21% Similarity=0.191 Sum_probs=43.0
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhh--cCCCceE-EEE-----------cCcHHHHHHHHHHHHHhccCCCceEEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDT--QLRETQV-LCL-----------SPTRELAVQIQKVVLALGDFMNVQCHAC 134 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~--~~~~~~~-lil-----------~Pt~~L~~q~~~~~~~~~~~~~~~~~~~ 134 (178)
++=++++||+|+|||-. .-++.|++.- +.+.... +|= .-+-.|+.++++.+.++.+.-+.-+.++
T Consensus 177 NRliLlhGPPGTGKTSL-CKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvL 255 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSL-CKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVL 255 (423)
T ss_pred eeEEEEeCCCCCChhHH-HHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEE
Confidence 45689999999999943 4566676632 1111222 222 2445678888888888888777666665
Q ss_pred Ec
Q psy9277 135 IG 136 (178)
Q Consensus 135 ~g 136 (178)
.+
T Consensus 256 ID 257 (423)
T KOG0744|consen 256 ID 257 (423)
T ss_pred eH
Confidence 53
No 277
>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=93.65 E-value=0.059 Score=42.48 Aligned_cols=22 Identities=41% Similarity=0.631 Sum_probs=18.3
Q ss_pred HHcCCcEEEEcCCCChHHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~l 87 (178)
+.+++.++++||+|+|||...-
T Consensus 30 ~~~~~pvLl~G~~GtGKT~li~ 51 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSLIQ 51 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHHHH
T ss_pred HHcCCcEEEECCCCCchhHHHH
Confidence 3458999999999999997643
No 278
>PRK14974 cell division protein FtsY; Provisional
Probab=93.61 E-value=0.99 Score=36.74 Aligned_cols=85 Identities=20% Similarity=0.190 Sum_probs=43.4
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc--H-HHHHHHHHHHHHhccCCCceEEEEEcCccHHH----
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT--R-ELAVQIQKVVLALGDFMNVQCHACIGGTNLSE---- 142 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt--~-~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~---- 142 (178)
.-+++.|++|+|||....-.+ ..+.. .+.+++++... | .-..|...... .+++.+.....+.+...
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~--~g~~V~li~~Dt~R~~a~eqL~~~a~----~lgv~v~~~~~g~dp~~v~~~ 213 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKK--NGFSVVIAAGDTFRAGAIEQLEEHAE----RLGVKVIKHKYGADPAAVAYD 213 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHH--cCCeEEEecCCcCcHHHHHHHHHHHH----HcCCceecccCCCCHHHHHHH
Confidence 358899999999998654333 22332 34466666543 2 33344433333 34555443322222111
Q ss_pred HHHH-hcCCC-cEEEeChHHH
Q psy9277 143 DLRK-LDYGQ-HVVSGTPGRV 161 (178)
Q Consensus 143 ~~~~-~~~~~-~IlV~TP~~l 161 (178)
.... ...+. -|+|=|+|++
T Consensus 214 ai~~~~~~~~DvVLIDTaGr~ 234 (336)
T PRK14974 214 AIEHAKARGIDVVLIDTAGRM 234 (336)
T ss_pred HHHHHHhCCCCEEEEECCCcc
Confidence 1111 12344 4788899987
No 279
>PRK09183 transposase/IS protein; Provisional
Probab=93.59 E-value=0.17 Score=39.52 Aligned_cols=47 Identities=19% Similarity=0.177 Sum_probs=29.5
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
+..+.++++.||+|+|||.....-. ..+.. .+..++++ +..++..++
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~-~~a~~--~G~~v~~~-~~~~l~~~l 145 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALG-YEAVR--AGIKVRFT-TAADLLLQL 145 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHH-HHHHH--cCCeEEEE-eHHHHHHHH
Confidence 4568999999999999997654332 22222 34455554 445565443
No 280
>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=93.56 E-value=0.19 Score=37.52 Aligned_cols=27 Identities=15% Similarity=0.283 Sum_probs=17.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
..++++.|.||||||.+....+.+.+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 458999999999999876554444433
No 281
>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=93.52 E-value=0.27 Score=37.52 Aligned_cols=48 Identities=23% Similarity=0.198 Sum_probs=31.1
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc---CcHHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS---PTRELAVQ 115 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~---Pt~~L~~q 115 (178)
+..|.-+++.|++|+|||...+--+.+.... .+..++|++ |..+++.+
T Consensus 10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~--~g~~vly~s~E~~~~~~~~r 60 (242)
T cd00984 10 LQPGDLIIIAARPSMGKTAFALNIAENIAKK--QGKPVLFFSLEMSKEQLLQR 60 (242)
T ss_pred CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh--CCCceEEEeCCCCHHHHHHH
Confidence 3457789999999999997665444443332 245777777 33444443
No 282
>KOG0331|consensus
Probab=93.49 E-value=0.45 Score=40.77 Aligned_cols=64 Identities=17% Similarity=0.147 Sum_probs=49.8
Q ss_pred HHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 89 SILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 89 ~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
.++.... ...+.++||.|-|+.-|.++.+.++.. ++.+..++|+.+..++...+. ..+.|||+|
T Consensus 331 ~lL~~~~-~~~~~KvIIFc~tkr~~~~l~~~l~~~----~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVAT 398 (519)
T KOG0331|consen 331 KLLEDIS-SDSEGKVIIFCETKRTCDELARNLRRK----GWPAVAIHGDKSQSERDWVLKGFREGKSPVLVAT 398 (519)
T ss_pred HHHHHHh-ccCCCcEEEEecchhhHHHHHHHHHhc----CcceeeecccccHHHHHHHHHhcccCCcceEEEc
Confidence 3444333 345679999999999999999988765 578889999999888777665 247899999
No 283
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=93.49 E-value=0.37 Score=35.31 Aligned_cols=57 Identities=23% Similarity=0.195 Sum_probs=33.5
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhh-------cCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDT-------QLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~-------~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.|.-+++.||+|+|||...+-.+...+.. ...+.+++|+..-.. ..++.+.+..+..
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~~ 94 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALLQ 94 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHhc
Confidence 57789999999999998765544444321 113457777765544 5556666655443
No 284
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=93.40 E-value=0.41 Score=47.47 Aligned_cols=63 Identities=30% Similarity=0.457 Sum_probs=47.0
Q ss_pred CCCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHH---HHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 53 EKPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFS---ISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~l---l~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
..+++.|..++..++.+ +-++|.|+.|+|||...- -++.+.+.. .+..++.++||..-+..+.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~--~g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES--EQLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh--cCCeEEEEeChHHHHHHHH
Confidence 36899999999998874 677889999999996651 233333322 4568899999988877664
No 285
>PRK10867 signal recognition particle protein; Provisional
Probab=93.37 E-value=0.87 Score=38.37 Aligned_cols=86 Identities=23% Similarity=0.320 Sum_probs=45.4
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH---
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR--- 145 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--- 145 (178)
-+++++++|+|||.+..--+.. +... .+.+++++. +.|.-+.++.. .++...++.+.....+.+..+...
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~-l~~~-~G~kV~lV~~D~~R~aa~eQL~---~~a~~~gv~v~~~~~~~dp~~i~~~a~ 176 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKY-LKKK-KKKKVLLVAADVYRPAAIEQLK---TLGEQIGVPVFPSGDGQDPVDIAKAAL 176 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHH-HHHh-cCCcEEEEEccccchHHHHHHH---HHHhhcCCeEEecCCCCCHHHHHHHHH
Confidence 4789999999999876544433 2222 244565555 33554443333 333444665443322222222111
Q ss_pred -H-hcCCC-cEEEeChHHH
Q psy9277 146 -K-LDYGQ-HVVSGTPGRV 161 (178)
Q Consensus 146 -~-~~~~~-~IlV~TP~~l 161 (178)
. ...++ -|+|=|||++
T Consensus 177 ~~a~~~~~DvVIIDTaGrl 195 (433)
T PRK10867 177 EEAKENGYDVVIVDTAGRL 195 (433)
T ss_pred HHHHhcCCCEEEEeCCCCc
Confidence 1 12345 4889999987
No 286
>KOG0729|consensus
Probab=93.36 E-value=0.15 Score=40.30 Aligned_cols=96 Identities=16% Similarity=0.142 Sum_probs=50.6
Q ss_pred CCCCCCcccccccccccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHH-HHHcCCcEEEEcCCCChHHHHHHHHHHH
Q psy9277 14 PEDLSNVEFETSEDVEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIK-PIVKGRDVIAQAQSGTGKTATFSISILQ 92 (178)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~-~i~~g~~v~v~aptGsGKTl~~ll~il~ 92 (178)
+..++..-+-..-+..+..+|.+.|=-.+.++.+++. .+.|--+-..... -|---+.+++.+|+|+|||+|+-..+
T Consensus 156 ppkidpsvtmm~veekpdvty~dvggckeqieklrev-ve~pll~perfv~lgidppkgvllygppgtgktl~arava-- 232 (435)
T KOG0729|consen 156 PPKIDPSVTMMQVEEKPDVTYSDVGGCKEQIEKLREV-VELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVA-- 232 (435)
T ss_pred CCCCCCceeEEEeecCCCcccccccchHHHHHHHHHH-HhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHh--
Confidence 3344433333334556677888887555555555432 1111111111111 12225789999999999999874322
Q ss_pred HhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 93 SLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 93 ~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
++. .-+.|=+=..+|++...
T Consensus 233 ----nrt-dacfirvigselvqkyv 252 (435)
T KOG0729|consen 233 ----NRT-DACFIRVIGSELVQKYV 252 (435)
T ss_pred ----ccc-CceEEeehhHHHHHHHh
Confidence 112 23444455667877643
No 287
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=93.35 E-value=0.31 Score=36.94 Aligned_cols=53 Identities=23% Similarity=0.263 Sum_probs=33.8
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|..+++.+++|+|||...+--+...+. ++..++|++-. +-..++.+.+..+.
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~---~g~~~~y~s~e-~~~~~l~~~~~~~~ 67 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK---NGEKAMYISLE-EREERILGYAKSKG 67 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCCeEEEEECC-CCHHHHHHHHHHcC
Confidence 3678999999999998765544443332 34467776543 34566666665554
No 288
>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=93.26 E-value=0.53 Score=39.96 Aligned_cols=56 Identities=18% Similarity=0.179 Sum_probs=44.6
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
.+..+||.|+++..+.+++..++.. ++.+..++++.+..++..... ...+|||+|-
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~----g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~ 284 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNL----GIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATV 284 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhc----CCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEec
Confidence 4557799999999999999988754 788899999988776654432 4579999994
No 289
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.25 E-value=0.23 Score=42.42 Aligned_cols=55 Identities=22% Similarity=0.186 Sum_probs=38.4
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.|..+++.+++|+|||...+--+.+-+.. .+-.++|++- .+-..++.+.+..+..
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~--~ge~~lyvs~-eE~~~~l~~~~~~~G~ 74 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIH--FDEPGVFVTF-EESPQDIIKNARSFGW 74 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHh--CCCCEEEEEE-ecCHHHHHHHHHHcCC
Confidence 47899999999999998876555544332 2346777774 4666777777766654
No 290
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.24 E-value=0.088 Score=44.31 Aligned_cols=20 Identities=35% Similarity=0.376 Sum_probs=17.2
Q ss_pred cCCcEEEEcCCCChHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~l 87 (178)
..+.+++.||+|+|||+.+-
T Consensus 216 ~p~gVLL~GPPGTGKT~LAr 235 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLLAK 235 (438)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 46789999999999997763
No 291
>KOG0922|consensus
Probab=93.23 E-value=1.2 Score=39.22 Aligned_cols=101 Identities=15% Similarity=0.218 Sum_probs=58.7
Q ss_pred cHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH-HHhccCCCceEEEE
Q psy9277 56 SAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQCHAC 134 (178)
Q Consensus 56 ~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~~~~~ 134 (178)
+..-.+.+..+.+.+-++|.|.||||||.=.--.+.. ......+ ++.+--|.|--|..++++. .++.-..|-.|+..
T Consensus 53 ~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~e-aG~~~~g-~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~ 130 (674)
T KOG0922|consen 53 YKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAE-AGFASSG-KIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYT 130 (674)
T ss_pred HHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHh-cccccCC-cEEeecCchHHHHHHHHHHHHHhCCCcCceeeeE
Confidence 4455566777778899999999999999542222221 1122222 4555558887777777665 44444444444332
Q ss_pred --EcCccHHHHHHHhcCCCcEEEeChHHHHHHHH
Q psy9277 135 --IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIR 166 (178)
Q Consensus 135 --~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~ 166 (178)
+.+.... ...|...|-|.|++-+-
T Consensus 131 IRFed~ts~--------~TrikymTDG~LLRE~l 156 (674)
T KOG0922|consen 131 IRFEDSTSK--------DTRIKYMTDGMLLREIL 156 (674)
T ss_pred EEecccCCC--------ceeEEEecchHHHHHHh
Confidence 2222111 24688888888876554
No 292
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=93.21 E-value=0.17 Score=39.19 Aligned_cols=24 Identities=33% Similarity=0.389 Sum_probs=17.7
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
-++++.|++|||||.. ++.++..+
T Consensus 14 fr~viIG~sGSGKT~l-i~~lL~~~ 37 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTL-IKSLLYYL 37 (241)
T ss_pred ceEEEECCCCCCHHHH-HHHHHHhh
Confidence 3789999999999954 44555443
No 293
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=93.13 E-value=0.23 Score=46.80 Aligned_cols=55 Identities=25% Similarity=0.395 Sum_probs=44.7
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhc--CCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQ--LRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~--~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
+.+++|.|..|||||.+...-++..+... -.-.+.++|+-|++-+..+..++.+-
T Consensus 16 ~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~ 72 (1139)
T COG1074 16 GQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDR 72 (1139)
T ss_pred CCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHH
Confidence 77999999999999999887777777663 24458999999999988888876443
No 294
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=93.06 E-value=0.23 Score=38.60 Aligned_cols=58 Identities=22% Similarity=0.238 Sum_probs=38.3
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCC
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFM 127 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~ 127 (178)
+-.|..+++.+++|||||...+--+.+.+.. +-.++|++ +.+...++.+.+..+....
T Consensus 20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge~vlyvs-~~e~~~~l~~~~~~~g~d~ 77 (260)
T COG0467 20 LPRGSVVLITGPPGTGKTIFALQFLYEGARE---GEPVLYVS-TEESPEELLENARSFGWDL 77 (260)
T ss_pred CcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc---CCcEEEEE-ecCCHHHHHHHHHHcCCCH
Confidence 3457899999999999997765555544332 44566654 5566666777776554433
No 295
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=92.99 E-value=0.1 Score=31.60 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=15.3
Q ss_pred CCcEEEEcCCCChHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ 86 (178)
|..+++.+++|||||..+
T Consensus 23 g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 23 GDVTLITGPNGSGKSTLL 40 (62)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 457999999999999664
No 296
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=92.98 E-value=0.68 Score=39.27 Aligned_cols=81 Identities=20% Similarity=0.195 Sum_probs=46.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD 148 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 148 (178)
|.-+++.+++|+|||...+..+.+ +.. ++.+++|+... +-..|+...+..+.... .-..+....+.+.....+.
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~-~a~--~g~kvlYvs~E-Es~~qi~~ra~rlg~~~--~~l~~~~e~~~~~I~~~i~ 167 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQ-LAK--NQMKVLYVSGE-ESLQQIKMRAIRLGLPE--PNLYVLSETNWEQICANIE 167 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHH-HHh--cCCcEEEEECc-CCHHHHHHHHHHcCCCh--HHeEEcCCCCHHHHHHHHH
Confidence 678899999999999876654333 322 33478888754 44567766666653221 1223334445544444433
Q ss_pred -CCCcEEE
Q psy9277 149 -YGQHVVS 155 (178)
Q Consensus 149 -~~~~IlV 155 (178)
.+++++|
T Consensus 168 ~~~~~~vV 175 (454)
T TIGR00416 168 EENPQACV 175 (454)
T ss_pred hcCCcEEE
Confidence 2455443
No 297
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=92.96 E-value=0.33 Score=36.25 Aligned_cols=39 Identities=18% Similarity=0.279 Sum_probs=27.2
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
.|.-+.+.||+|+|||...+-.+.+... .+..++|+.-.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~---~g~~v~yi~~e 49 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAAR---QGKKVVYIDTE 49 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCCeEEEEECC
Confidence 4677899999999999887655444332 34567777654
No 298
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=92.95 E-value=0.22 Score=40.51 Aligned_cols=42 Identities=14% Similarity=0.369 Sum_probs=26.1
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
+..++++||||||||... ..++..+... .+.+++.+--..+.
T Consensus 122 ~g~ili~G~tGSGKTT~l-~al~~~i~~~-~~~~i~tiEdp~E~ 163 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTL-ASMIDYINKN-AAGHIITIEDPIEY 163 (343)
T ss_pred CcEEEEECCCCCCHHHHH-HHHHHhhCcC-CCCEEEEEcCChhh
Confidence 678999999999999764 3445444322 22355555444443
No 299
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.90 E-value=0.97 Score=35.64 Aligned_cols=86 Identities=15% Similarity=0.181 Sum_probs=45.5
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC-c-H-HHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP-T-R-ELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR 145 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P-t-~-~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 145 (178)
+..+.+++++|+|||..+..-... +.. .+..+.++.- + + +.+.|. +.+....++.+..........+...
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~-l~~--~~~~v~~i~~D~~ri~~~~ql----~~~~~~~~~~~~~~~~~~~l~~~l~ 147 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQ-FHG--KKKTVGFITTDHSRIGTVQQL----QDYVKTIGFEVIAVRDEAAMTRALT 147 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHH-HHH--cCCeEEEEecCCCCHHHHHHH----HHHhhhcCceEEecCCHHHHHHHHH
Confidence 468999999999999877543332 222 2334444443 2 2 333333 3344444665544333323333323
Q ss_pred Hhc--CCC-cEEEeChHHH
Q psy9277 146 KLD--YGQ-HVVSGTPGRV 161 (178)
Q Consensus 146 ~~~--~~~-~IlV~TP~~l 161 (178)
.+. .++ .|+|=|||+.
T Consensus 148 ~l~~~~~~D~ViIDt~Gr~ 166 (270)
T PRK06731 148 YFKEEARVDYILIDTAGKN 166 (270)
T ss_pred HHHhcCCCCEEEEECCCCC
Confidence 232 234 3778888876
No 300
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=92.90 E-value=0.57 Score=45.85 Aligned_cols=64 Identities=20% Similarity=0.383 Sum_probs=46.9
Q ss_pred CCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHHHHHHHHhh--hcCCCceEEEEcCcHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFSISILQSLD--TQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~ll~il~~l~--~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+++-|.+++..++.+ +-++|.|..|+|||...- .++..+. ....+..++.++||..-|..+.+
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~-~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e 1034 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFR-AVMSAVNTLPESERPRVVGLGPTHRAVGEMRS 1034 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHH-HHHHHHHHhhcccCceEEEECCcHHHHHHHHh
Confidence 6899999999999984 689999999999996642 2333222 12234678889999877776543
No 301
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.89 E-value=0.47 Score=39.80 Aligned_cols=84 Identities=18% Similarity=0.175 Sum_probs=42.6
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL 147 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 147 (178)
.-+++++|+|+|||....--+...... .+.++.++. +-|..+..+.. .++...++...... ........+
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~--~G~~V~Lit~Dt~R~aA~eQLk---~yAe~lgvp~~~~~---~~~~l~~~l 295 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLH--MGKSVSLYTTDNYRIAAIEQLK---RYADTMGMPFYPVK---DIKKFKETL 295 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHh--cCCeEEEecccchhhhHHHHHH---HHHHhcCCCeeehH---HHHHHHHHH
Confidence 348899999999998876544433222 333554444 33455544333 33333344332211 111111122
Q ss_pred -cCCCc-EEEeChHHH
Q psy9277 148 -DYGQH-VVSGTPGRV 161 (178)
Q Consensus 148 -~~~~~-IlV~TP~~l 161 (178)
..+++ |+|=|||+.
T Consensus 296 ~~~~~D~VLIDTaGr~ 311 (432)
T PRK12724 296 ARDGSELILIDTAGYS 311 (432)
T ss_pred HhCCCCEEEEeCCCCC
Confidence 23454 778888764
No 302
>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=92.84 E-value=0.2 Score=42.03 Aligned_cols=50 Identities=24% Similarity=0.218 Sum_probs=33.3
Q ss_pred CCHHHHHHHHhCCCCC--CcHHH-HH----HHHHHHcCCcEEEEcCCCChHHHHHHH
Q psy9277 39 LREDLLRGIYAYGFEK--PSAIQ-QR----SIKPIVKGRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~--~~~~Q-~~----~i~~i~~g~~v~v~aptGsGKTl~~ll 88 (178)
..+|+--.|++.|++- ++.-| .. +++-+.++.|++..||+|+|||..|.-
T Consensus 172 ~dEWid~LlrSiG~~P~~~~~r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~ 228 (449)
T TIGR02688 172 LEEWIDVLIRSIGYEPEGFEARQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNN 228 (449)
T ss_pred HHHHHHHHHHhcCCCcccCChHHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHH
Confidence 3456666778888852 22211 11 124555689999999999999977653
No 303
>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=92.83 E-value=0.22 Score=37.23 Aligned_cols=23 Identities=22% Similarity=0.612 Sum_probs=17.0
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
++++||||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 689999999999774 34455443
No 304
>KOG0333|consensus
Probab=92.82 E-value=0.59 Score=40.13 Aligned_cols=56 Identities=13% Similarity=0.157 Sum_probs=45.9
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc---C-CCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD---Y-GQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~-~~~IlV~TP 158 (178)
..+.+||.+.++.=|.-+++.+.+. ++++..++|+.+.+++...+. . ..+|+|+|-
T Consensus 516 ~~ppiIIFvN~kk~~d~lAk~LeK~----g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTD 575 (673)
T KOG0333|consen 516 FDPPIIIFVNTKKGADALAKILEKA----GYKVTTLHGGKSQEQRENALADFREGTGDILVATD 575 (673)
T ss_pred CCCCEEEEEechhhHHHHHHHHhhc----cceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEec
Confidence 3578999999999988888888766 799999999999888766654 3 579999994
No 305
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=92.77 E-value=0.096 Score=38.75 Aligned_cols=22 Identities=41% Similarity=0.514 Sum_probs=16.0
Q ss_pred CCcEEEEcCCCChHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISI 90 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~i 90 (178)
...+++.||.|||||..|..-.
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~L~ 24 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQLV 24 (181)
T ss_dssp --EEEEE-STTSSHHHHHHHHH
T ss_pred CceEEEEcCCCCCHHHHHHHHh
Confidence 4679999999999998876433
No 306
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=92.72 E-value=1.6 Score=35.57 Aligned_cols=33 Identities=15% Similarity=0.162 Sum_probs=25.9
Q ss_pred CcHHHHHHHHHHHc--C---CcEEEEcCCCChHHHHHH
Q psy9277 55 PSAIQQRSIKPIVK--G---RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~--g---~~v~v~aptGsGKTl~~l 87 (178)
++|||...|..+.+ + ...++.||.|.||+..+.
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~ 39 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQ 39 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHH
Confidence 36788888887765 2 478899999999997764
No 307
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=92.68 E-value=2.7 Score=33.98 Aligned_cols=113 Identities=12% Similarity=0.146 Sum_probs=63.4
Q ss_pred CcHHHHHHHHHHHc----C---CcEEEEcCCCChHHHHHHHHHHHHhhh------------------cCCCceEEEEcCc
Q psy9277 55 PSAIQQRSIKPIVK----G---RDVIAQAQSGTGKTATFSISILQSLDT------------------QLRETQVLCLSPT 109 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~----g---~~v~v~aptGsGKTl~~ll~il~~l~~------------------~~~~~~~lil~Pt 109 (178)
.+|+|...|..+.+ + .-.++.||.|.||+..+.. +.+.+.. ....|-..++.|.
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~-~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~ 82 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVEL-FSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPE 82 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH-HHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecC
Confidence 56788888876654 3 3799999999999966543 2233321 1123556778885
Q ss_pred H---HH-HHHHHHHHHHhcc----CCCceEEEEEcCccHHHHH-----HHhcCCC----cEEEeC-hHHHHHHHHcCC
Q psy9277 110 R---EL-AVQIQKVVLALGD----FMNVQCHACIGGTNLSEDL-----RKLDYGQ----HVVSGT-PGRVFDMIRSSQ 169 (178)
Q Consensus 110 ~---~L-~~q~~~~~~~~~~----~~~~~~~~~~g~~~~~~~~-----~~~~~~~----~IlV~T-P~~l~~~l~~~~ 169 (178)
. .. +.|+ +.+.++.. .-+.+|+++.......... ..+++.+ =|++++ |++|+.-++++-
T Consensus 83 ~~~~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRC 159 (319)
T PRK06090 83 KEGKSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC 159 (319)
T ss_pred cCCCcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence 3 23 3444 34433322 2357877776555443221 1222322 244544 678887777653
No 308
>PRK05642 DNA replication initiation factor; Validated
Probab=92.63 E-value=0.49 Score=36.30 Aligned_cols=43 Identities=14% Similarity=0.140 Sum_probs=27.8
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQI 116 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~ 116 (178)
..++++||+|+|||.. +.++.+.+.. .+.+++|+. ..++....
T Consensus 46 ~~l~l~G~~G~GKTHL-l~a~~~~~~~--~~~~v~y~~-~~~~~~~~ 88 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL-LQAACLRFEQ--RGEPAVYLP-LAELLDRG 88 (234)
T ss_pred CeEEEECCCCCCHHHH-HHHHHHHHHh--CCCcEEEee-HHHHHhhh
Confidence 5689999999999976 3344544433 244666655 45666543
No 309
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=92.61 E-value=0.13 Score=43.40 Aligned_cols=26 Identities=27% Similarity=0.443 Sum_probs=19.8
Q ss_pred HHHHHHH-cCCcEEEEcCCCChHHHHH
Q psy9277 61 RSIKPIV-KGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 61 ~~i~~i~-~g~~v~v~aptGsGKTl~~ 86 (178)
.++.... .|+|+++.+|+|||||+..
T Consensus 189 rAleiAAAGgHnLl~~GpPGtGKTmla 215 (490)
T COG0606 189 RALEIAAAGGHNLLLVGPPGTGKTMLA 215 (490)
T ss_pred HHHHHHHhcCCcEEEecCCCCchHHhh
Confidence 3444333 3899999999999999875
No 310
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=92.57 E-value=0.091 Score=35.92 Aligned_cols=21 Identities=24% Similarity=0.373 Sum_probs=13.7
Q ss_pred cCCcEEEEcCCCChHHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll 88 (178)
+++.+++.|++|+|||...-.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~ 23 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKR 23 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHH
Confidence 356789999999999977543
No 311
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=92.55 E-value=0.21 Score=44.12 Aligned_cols=58 Identities=16% Similarity=0.097 Sum_probs=41.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACI 135 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~ 135 (178)
..++++.||||+|||..+++|-+-. .+.-++++=|..|+........++. |.+|.++.
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL~-----~~gS~VV~DpKgEl~~~Ta~~R~~~----G~~V~vfd 281 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTALK-----WGGPLVVLDPSTEVAPMVSEHRRDA----GREVIVLD 281 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhhc-----CCCCEEEEeCcHHHHHHHHHHHHHC----CCeEEEEe
Confidence 3689999999999999999997642 2335777778888877666655443 44554443
No 312
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.51 E-value=0.31 Score=41.59 Aligned_cols=44 Identities=16% Similarity=0.191 Sum_probs=29.1
Q ss_pred HHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 43 LLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 43 i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
+.+.+.+ ++..=-.+=..++-.++.|.++++.||+|+|||..+-
T Consensus 14 l~~~l~~-~i~gre~vI~lll~aalag~hVLL~GpPGTGKT~LAr 57 (498)
T PRK13531 14 LSSALEK-GLYERSHAIRLCLLAALSGESVFLLGPPGIAKSLIAR 57 (498)
T ss_pred HHHHHhh-hccCcHHHHHHHHHHHccCCCEEEECCCChhHHHHHH
Confidence 3444433 3333333334455567789999999999999998763
No 313
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=92.51 E-value=0.094 Score=43.62 Aligned_cols=56 Identities=23% Similarity=0.186 Sum_probs=33.9
Q ss_pred cccccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
..|..+|++++--+...+.+++. -+..|..++.. -+...+.+++.||+|+|||+..
T Consensus 138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~---Gl~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQI---GIDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhc---CCCCCceEEEECCCCCCHHHHH
Confidence 35567888887665555555432 12222211111 1234689999999999999875
No 314
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.46 E-value=1.6 Score=36.10 Aligned_cols=81 Identities=23% Similarity=0.250 Sum_probs=46.3
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD 148 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 148 (178)
|.-+++.+++|+|||...+..+.. +.. .+.+++|+.-. +-..|+.....++.... .-..+......+.....+.
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~-~a~--~g~~VlYvs~E-Es~~qi~~Ra~rlg~~~--~~l~l~~e~~le~I~~~i~ 155 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAAR-LAK--RGGKVLYVSGE-ESPEQIKLRADRLGIST--ENLYLLAETNLEDILASIE 155 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHH-HHh--cCCeEEEEECC-cCHHHHHHHHHHcCCCc--ccEEEEccCcHHHHHHHHH
Confidence 578999999999999776543333 222 33578888754 34556666666554321 1223344555554444443
Q ss_pred -CCCcEEE
Q psy9277 149 -YGQHVVS 155 (178)
Q Consensus 149 -~~~~IlV 155 (178)
.+++++|
T Consensus 156 ~~~~~lVV 163 (372)
T cd01121 156 ELKPDLVI 163 (372)
T ss_pred hcCCcEEE
Confidence 2566554
No 315
>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=92.46 E-value=0.1 Score=35.25 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=13.6
Q ss_pred EEEEcCCCChHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFS 87 (178)
Q Consensus 72 v~v~aptGsGKTl~~l 87 (178)
++|.|++|||||...-
T Consensus 2 I~I~G~~gsGKST~a~ 17 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAK 17 (121)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred EEEECCCCCCHHHHHH
Confidence 6899999999997653
No 316
>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=92.43 E-value=0.19 Score=40.20 Aligned_cols=21 Identities=29% Similarity=0.578 Sum_probs=17.9
Q ss_pred HHcCCcEEEEcCCCChHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..+.+++++||||||||...
T Consensus 141 v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 141 IASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred hhCCCEEEEECCCCCCHHHHH
Confidence 446899999999999999754
No 317
>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=92.35 E-value=0.099 Score=36.38 Aligned_cols=17 Identities=35% Similarity=0.427 Sum_probs=14.6
Q ss_pred cEEEEcCCCChHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFS 87 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~l 87 (178)
++++.||+|+|||...-
T Consensus 1 ~vlL~G~~G~GKt~l~~ 17 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLAR 17 (139)
T ss_dssp EEEEEESSSSSHHHHHH
T ss_pred CEEEECCCCCCHHHHHH
Confidence 58999999999997653
No 318
>KOG0925|consensus
Probab=92.34 E-value=0.89 Score=38.82 Aligned_cols=90 Identities=16% Similarity=0.213 Sum_probs=59.5
Q ss_pred ccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 29 EVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 29 ~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
..+..|+..+.++.-.+.|++..=---|..+.+.+..+.+++-+++.|.||||||.-.=-..+..... ....+..--|
T Consensus 22 k~~Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~--~~~~v~CTQp 99 (699)
T KOG0925|consen 22 KAINPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELS--HLTGVACTQP 99 (699)
T ss_pred hhcCCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHh--hccceeecCc
Confidence 33888999999999888886543333466666777777789999999999999996422222222121 1234444557
Q ss_pred cHHHHHHHHHHH
Q psy9277 109 TRELAVQIQKVV 120 (178)
Q Consensus 109 t~~L~~q~~~~~ 120 (178)
.|--|.++..+.
T Consensus 100 rrvaamsva~RV 111 (699)
T KOG0925|consen 100 RRVAAMSVAQRV 111 (699)
T ss_pred hHHHHHHHHHHH
Confidence 777777666554
No 319
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=92.33 E-value=0.11 Score=43.07 Aligned_cols=54 Identities=24% Similarity=0.347 Sum_probs=29.8
Q ss_pred cccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 30 VVSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..+|++++--+...+.+.+. .+..+..++.. -+...+++++.||+|+|||+..
T Consensus 126 p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~---g~~~p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEV---GIEPPKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCCceEEECCCCCChHHHH
Confidence 456677776555555554331 11111111100 1122468999999999999765
No 320
>PTZ00110 helicase; Provisional
Probab=92.30 E-value=1.2 Score=38.69 Aligned_cols=56 Identities=14% Similarity=0.063 Sum_probs=43.5
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc---C-CCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD---Y-GQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~-~~~IlV~TP 158 (178)
.+.++||.|+++.-|..+++.++.. ++.+..++|+.+..++...+. + ...|||+|-
T Consensus 376 ~~~k~LIF~~t~~~a~~l~~~L~~~----g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTd 435 (545)
T PTZ00110 376 DGDKILIFVETKKGADFLTKELRLD----GWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATD 435 (545)
T ss_pred cCCeEEEEecChHHHHHHHHHHHHc----CCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcc
Confidence 4569999999999999998888643 678888999988776654443 3 468999993
No 321
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=92.29 E-value=0.78 Score=37.45 Aligned_cols=28 Identities=11% Similarity=0.160 Sum_probs=22.3
Q ss_pred ccccccccccCCCCHHHHHHHHhCCCCC
Q psy9277 27 DVEVVSTFDNMGLREDLLRGIYAYGFEK 54 (178)
Q Consensus 27 ~~~~~~~f~~~~l~~~i~~~l~~~g~~~ 54 (178)
.+.++....+.|+++...+.|++.||..
T Consensus 27 ~~~~~~~l~~~g~~~~~~~kL~~~g~~t 54 (344)
T PLN03187 27 LFESIDKLISQGINAGDVKKLQDAGIYT 54 (344)
T ss_pred cccCHHHHhhCCCCHHHHHHHHHcCCCc
Confidence 4566667777889999999999999864
No 322
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=92.25 E-value=1.4 Score=31.76 Aligned_cols=84 Identities=24% Similarity=0.311 Sum_probs=41.4
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc-Cc-HHHHHHHHHHHHHhccCCCceEEEEEcCccHHH----HH-
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS-PT-RELAVQIQKVVLALGDFMNVQCHACIGGTNLSE----DL- 144 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~-Pt-~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~----~~- 144 (178)
+++.+++|+|||.....-+. .+.. .+.+++++. .+ +.-.. +.+..+....++.+..........+ ..
T Consensus 3 ~~~~G~~G~GKTt~~~~la~-~~~~--~g~~v~~i~~D~~~~~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLAL-YLKK--KGKKVLLVAADTYRPAAI---EQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIE 76 (173)
T ss_pred EEEECCCCCCHHHHHHHHHH-HHHH--CCCcEEEEEcCCCChHHH---HHHHHhcccCCeEEEecCCCCCHHHHHHHHHH
Confidence 57899999999987644332 2222 234555444 33 32222 2233334444555433322222221 11
Q ss_pred HHhcCCC-cEEEeChHHH
Q psy9277 145 RKLDYGQ-HVVSGTPGRV 161 (178)
Q Consensus 145 ~~~~~~~-~IlV~TP~~l 161 (178)
.....+. -|+|=||+..
T Consensus 77 ~~~~~~~d~viiDt~g~~ 94 (173)
T cd03115 77 HAREENFDVVIVDTAGRL 94 (173)
T ss_pred HHHhCCCCEEEEECcccc
Confidence 1223355 4788899875
No 323
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=92.24 E-value=0.31 Score=36.94 Aligned_cols=42 Identities=24% Similarity=0.441 Sum_probs=28.0
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
++++.|.|.||||||...- .+++.+.. ..+..++|+=|.-+=
T Consensus 23 ~~H~~I~G~TGsGKS~~~~-~ll~~l~~-~~~~~~ii~D~~GEY 64 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVK-VLLEELLK-KKGAKVIIFDPHGEY 64 (229)
T ss_pred cceEEEECCCCCCHHHHHH-HHHHHHHh-cCCCCEEEEcCCCcc
Confidence 5789999999999997654 34444442 244466666665443
No 324
>PRK04296 thymidine kinase; Provisional
Probab=92.18 E-value=0.34 Score=35.93 Aligned_cols=37 Identities=16% Similarity=0.260 Sum_probs=24.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
|.-.++.||.|+|||...+-- +.++.. .+.+++++-|
T Consensus 2 g~i~litG~~GsGKTT~~l~~-~~~~~~--~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQR-AYNYEE--RGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHH-HHHHHH--cCCeEEEEec
Confidence 344788999999999765543 333332 3457777766
No 325
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.18 E-value=0.65 Score=39.33 Aligned_cols=47 Identities=19% Similarity=0.281 Sum_probs=31.0
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
..+++.|++|+|||... -++.+.+.....+.+++|+.. .++..++..
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~ 188 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVD 188 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHH
Confidence 35899999999999543 455565554445567777655 555555443
No 326
>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=92.17 E-value=1.7 Score=35.51 Aligned_cols=56 Identities=7% Similarity=0.017 Sum_probs=43.0
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcCCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP 158 (178)
.+.+++|+++|+.-++.++..+++. ..++.+..++|..+..++.+.. ..+|+|+|.
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~--~~~~~~~~l~g~~~~~~R~~~~--~~~iLVaTd 326 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQ--GLGDDIGRITGFAPKKDRERAM--QFDILLGTS 326 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhh--CCCceEEeeecCCCHHHHHHhc--cCCEEEEec
Confidence 4568999999999999999999764 2345677788888877664432 478999995
No 327
>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=92.17 E-value=0.12 Score=35.11 Aligned_cols=16 Identities=31% Similarity=0.517 Sum_probs=13.5
Q ss_pred EEEEcCCCChHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFS 87 (178)
Q Consensus 72 v~v~aptGsGKTl~~l 87 (178)
+++.||+|+|||...-
T Consensus 1 ill~G~~G~GKT~l~~ 16 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLAR 16 (132)
T ss_dssp EEEESSTTSSHHHHHH
T ss_pred CEEECcCCCCeeHHHH
Confidence 6899999999996653
No 328
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=92.13 E-value=0.58 Score=35.67 Aligned_cols=52 Identities=13% Similarity=0.183 Sum_probs=33.3
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.|.-+++.+++|+|||.....-+...+. ++.+++|+.-.. -..++.+.+..+
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~~~~y~~~e~-~~~~~~~~~~~~ 75 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALK---QGKKVYVITTEN-TSKSYLKQMESV 75 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHh---CCCEEEEEEcCC-CHHHHHHHHHHC
Confidence 3678999999999999776554443332 355777776543 334555555554
No 329
>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=92.07 E-value=0.17 Score=38.27 Aligned_cols=19 Identities=32% Similarity=0.454 Sum_probs=14.2
Q ss_pred cCCcEEEEcCCCChHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ 86 (178)
.+.++++.+|+|+|||+..
T Consensus 21 G~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 21 GGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp CC--EEEES-CCCTHHHHH
T ss_pred CCCCeEEECCCCCCHHHHH
Confidence 4789999999999999775
No 330
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=92.05 E-value=0.61 Score=38.75 Aligned_cols=47 Identities=15% Similarity=0.187 Sum_probs=29.7
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
..+++.||+|+|||... ..+.+.+.....+..++++.. ..+..+...
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~~~~~v~yi~~-~~~~~~~~~ 183 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENNPNAKVVYVSS-EKFTNDFVN 183 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhCCCCcEEEEEH-HHHHHHHHH
Confidence 35899999999999765 355555544333456777643 445444433
No 331
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=92.03 E-value=0.18 Score=41.32 Aligned_cols=56 Identities=21% Similarity=0.335 Sum_probs=31.0
Q ss_pred ccccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 29 EVVSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 29 ~~~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
.+..+|++++-.+...+.+.+. .+..+... ..+ -+...+.+++.||+|+|||...-
T Consensus 116 ~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~--~~~-g~~~p~gvLL~GppGtGKT~lak 174 (364)
T TIGR01242 116 RPNVSYEDIGGLEEQIREIREAVELPLKHPELF--EEV-GIEPPKGVLLYGPPGTGKTLLAK 174 (364)
T ss_pred CCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHH--Hhc-CCCCCceEEEECCCCCCHHHHHH
Confidence 3455677776555555555432 11111111 111 12235679999999999997653
No 332
>KOG0926|consensus
Probab=92.01 E-value=1 Score=40.67 Aligned_cols=98 Identities=22% Similarity=0.254 Sum_probs=52.2
Q ss_pred HHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh---c-CCCceEEEEcCcHHHHHHHHHHH-HHhccCCCceE--EE
Q psy9277 61 RSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT---Q-LRETQVLCLSPTRELAVQIQKVV-LALGDFMNVQC--HA 133 (178)
Q Consensus 61 ~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~---~-~~~~~~lil~Pt~~L~~q~~~~~-~~~~~~~~~~~--~~ 133 (178)
+.+.+|..+--++|||.||||||.-. .-.|..... + ..+.-+=|--|.|--|..+..+. .+++. ++-.+ .+
T Consensus 263 ~IMEaIn~n~vvIIcGeTGsGKTTQv-PQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~-~~~eVsYqI 340 (1172)
T KOG0926|consen 263 RIMEAINENPVVIICGETGSGKTTQV-PQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGV-LGSEVSYQI 340 (1172)
T ss_pred HHHHHhhcCCeEEEecCCCCCccccc-hHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHHhcc-CccceeEEE
Confidence 34456666778999999999999642 111221111 1 11223334447776666655544 33433 23222 22
Q ss_pred EEcCccHHHHHHHhcCCCcEEEeChHHHHHHHHcC
Q psy9277 134 CIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRSS 168 (178)
Q Consensus 134 ~~g~~~~~~~~~~~~~~~~IlV~TP~~l~~~l~~~ 168 (178)
-+.+.- .....|-+.|-|.|+.-|.+.
T Consensus 341 Rfd~ti--------~e~T~IkFMTDGVLLrEi~~D 367 (1172)
T KOG0926|consen 341 RFDGTI--------GEDTSIKFMTDGVLLREIEND 367 (1172)
T ss_pred Eecccc--------CCCceeEEecchHHHHHHHHh
Confidence 233321 123568888888887766543
No 333
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.00 E-value=1.2 Score=37.83 Aligned_cols=56 Identities=11% Similarity=0.157 Sum_probs=42.8
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 98 LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 98 ~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
....++||.|++++-+..+++.+... ++.+..++|+.+.+++...+. ....|||+|
T Consensus 333 ~~~~~~IVF~~s~~~~~~l~~~L~~~----~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT 392 (475)
T PRK01297 333 NPWERVMVFANRKDEVRRIEERLVKD----GINAAQLSGDVPQHKRIKTLEGFREGKIRVLVAT 392 (475)
T ss_pred cCCCeEEEEeCCHHHHHHHHHHHHHc----CCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEc
Confidence 34468999999999999988877544 678888899988776644433 246899998
No 334
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=91.99 E-value=0.25 Score=41.72 Aligned_cols=33 Identities=24% Similarity=0.391 Sum_probs=26.4
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
+-......+..+..++++++.+|+|+|||..+-
T Consensus 180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 180 PETTIETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 444556667777789999999999999997764
No 335
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=91.99 E-value=0.12 Score=35.87 Aligned_cols=15 Identities=27% Similarity=0.459 Sum_probs=13.2
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
++++|++|||||...
T Consensus 2 ii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 2 IILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 689999999999764
No 336
>PRK08727 hypothetical protein; Validated
Probab=91.97 E-value=0.68 Score=35.47 Aligned_cols=50 Identities=18% Similarity=0.175 Sum_probs=30.7
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
..+++.||+|+|||.... ++.+.+.. .+.+++|+. ..++.....+.+..+
T Consensus 42 ~~l~l~G~~G~GKThL~~-a~~~~~~~--~~~~~~y~~-~~~~~~~~~~~~~~l 91 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLAL-ALCAAAEQ--AGRSSAYLP-LQAAAGRLRDALEAL 91 (233)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHH--cCCcEEEEe-HHHhhhhHHHHHHHH
Confidence 459999999999996644 33443333 345666654 455555555545444
No 337
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=91.96 E-value=0.61 Score=42.87 Aligned_cols=41 Identities=15% Similarity=0.351 Sum_probs=30.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
..|.+|.|+||||||...-.-+.+.+.. .+++++|+=|-++
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~--~~~~v~IiD~g~s 515 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAV--HRPRLFIVEAGNS 515 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHh--cCCEEEEEcCCCC
Confidence 4589999999999998765555554432 3568899888876
No 338
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=91.96 E-value=3.1 Score=33.82 Aligned_cols=115 Identities=16% Similarity=0.152 Sum_probs=63.6
Q ss_pred CcHHHHHHHHHHHc----C---CcEEEEcCCCChHHHHHHHHHHHHhhh-------------------cCCCceEEEEcC
Q psy9277 55 PSAIQQRSIKPIVK----G---RDVIAQAQSGTGKTATFSISILQSLDT-------------------QLRETQVLCLSP 108 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~----g---~~v~v~aptGsGKTl~~ll~il~~l~~-------------------~~~~~~~lil~P 108 (178)
.+|||...|..+.+ | .-.++.||.|.||+..+.. +.+.+.. ....|-..++.|
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~-~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p 81 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYA-LSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTP 81 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHH-HHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEec
Confidence 46778888877653 3 3788999999999977543 2333322 122355677877
Q ss_pred cH----HHHHHHHHHHHHhcc---CCCceEEEEEcCccHHHHH--H---HhcCC---Cc-EEEeC-hHHHHHHHHcCCC
Q psy9277 109 TR----ELAVQIQKVVLALGD---FMNVQCHACIGGTNLSEDL--R---KLDYG---QH-VVSGT-PGRVFDMIRSSQG 170 (178)
Q Consensus 109 t~----~L~~q~~~~~~~~~~---~~~~~~~~~~g~~~~~~~~--~---~~~~~---~~-IlV~T-P~~l~~~l~~~~~ 170 (178)
.. --+.|+.+..+.+.. .-+.+|+.+..-....... . .+++. .- |+++. |++|+.-++++--
T Consensus 82 ~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq 160 (334)
T PRK07993 82 EKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCR 160 (334)
T ss_pred ccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccc
Confidence 63 235555554444432 2356777776544433221 1 22222 23 33433 6777766665433
No 339
>KOG1806|consensus
Probab=91.88 E-value=0.37 Score=44.29 Aligned_cols=71 Identities=21% Similarity=0.179 Sum_probs=55.6
Q ss_pred CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 52 FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 52 ~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
+-..|+-|-+++-.-.....+++.+|+|+|||-...- ++..+..+....+++|++.+..-.+|.++.....
T Consensus 736 ~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avq-il~~lyhn~p~qrTlivthsnqaln~lfeKi~~~ 806 (1320)
T KOG1806|consen 736 QVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQ-ILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMAL 806 (1320)
T ss_pred hhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhh-hhhhhhhcCCCcceEEEEecccchhHHHHHHHhc
Confidence 4457899999888877788999999999999977643 3344444556679999999999989988877444
No 340
>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=91.86 E-value=0.44 Score=37.76 Aligned_cols=19 Identities=26% Similarity=0.244 Sum_probs=16.3
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
+.++++.||+|+|||.++.
T Consensus 58 ~~~vll~G~pGTGKT~lA~ 76 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVAL 76 (284)
T ss_pred CceEEEEcCCCCCHHHHHH
Confidence 4589999999999998763
No 341
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=91.85 E-value=0.52 Score=38.11 Aligned_cols=40 Identities=15% Similarity=0.155 Sum_probs=26.3
Q ss_pred HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 67 VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
-.|+-+.+.+|+|+|||...+..+.+... .+..++|+...
T Consensus 53 p~G~iteI~G~~GsGKTtLaL~~~~~~~~---~g~~v~yId~E 92 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLALHAIAEAQK---AGGTAAFIDAE 92 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEEccc
Confidence 34678899999999999887655544332 23455555433
No 342
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=91.78 E-value=1.2 Score=39.36 Aligned_cols=55 Identities=11% Similarity=0.094 Sum_probs=43.3
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
...++||.|+|+.-+.++++.+... ++.+..++|+.+..++...+. ...+|||+|
T Consensus 244 ~~~~~IVF~~tk~~a~~l~~~L~~~----g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVAT 302 (629)
T PRK11634 244 DFDAAIIFVRTKNATLEVAEALERN----GYNSAALNGDMNQALREQTLERLKDGRLDILIAT 302 (629)
T ss_pred CCCCEEEEeccHHHHHHHHHHHHhC----CCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEc
Confidence 3458999999999999999888654 778889999988776544432 357999999
No 343
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=91.76 E-value=0.75 Score=40.63 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=54.7
Q ss_pred CCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 54 KPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
.+++-|.+++... ...++|.|..|||||-+..-=+.+.+... -...+++.++=|+.-|.++...+..+..
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 5788899987665 67789999999999998877666665542 2234688888999999999998887765
No 344
>PTZ00424 helicase 45; Provisional
Probab=91.76 E-value=1.6 Score=35.86 Aligned_cols=57 Identities=16% Similarity=0.085 Sum_probs=43.5
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 98 LRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 98 ~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
....++++.|+++.-+..+.+.++.. ++.+..++|+.+..++...+. ...+|+|+|-
T Consensus 265 ~~~~~~ivF~~t~~~~~~l~~~l~~~----~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~ 325 (401)
T PTZ00424 265 LTITQAIIYCNTRRKVDYLTKKMHER----DFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTD 325 (401)
T ss_pred cCCCeEEEEecCcHHHHHHHHHHHHC----CCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcc
Confidence 34468999999999998888877653 678889999988776655433 2479999993
No 345
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=91.74 E-value=1.5 Score=39.42 Aligned_cols=81 Identities=15% Similarity=0.279 Sum_probs=53.2
Q ss_pred HHhCCCCCCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 47 IYAYGFEKPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 47 l~~~g~~~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
+.++.......-|.+.+..++.. +-+++.|.-|-|||.+.=+.+....... ...++++.+|+.+-++.++..+.+-.
T Consensus 207 l~~l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~-~~~~iiVTAP~~~nv~~Lf~fa~~~l 285 (758)
T COG1444 207 LYELCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLA-GSVRIIVTAPTPANVQTLFEFAGKGL 285 (758)
T ss_pred HhhhhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhc-CCceEEEeCCCHHHHHHHHHHHHHhH
Confidence 44443334444555555566653 4789999999999988766663222221 14689999999999999988775544
Q ss_pred cCCC
Q psy9277 125 DFMN 128 (178)
Q Consensus 125 ~~~~ 128 (178)
...|
T Consensus 286 ~~lg 289 (758)
T COG1444 286 EFLG 289 (758)
T ss_pred HHhC
Confidence 4444
No 346
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.70 E-value=0.47 Score=38.08 Aligned_cols=46 Identities=15% Similarity=0.220 Sum_probs=27.8
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
++++++.||+|+|||.... ++.+.+.. .+..+.++ ..-+++.++..
T Consensus 156 ~~gl~L~G~~G~GKThLa~-Aia~~l~~--~g~~v~~~-~~~~l~~~lk~ 201 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLA-AIANELAK--KGVSSTLL-HFPEFIRELKN 201 (306)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHH--cCCCEEEE-EHHHHHHHHHH
Confidence 4689999999999996644 44444443 33344443 33355555544
No 347
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=91.66 E-value=0.71 Score=38.97 Aligned_cols=47 Identities=13% Similarity=0.185 Sum_probs=29.2
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
..+++.||+|+|||.... .+...+.....+.+++++ +..++..+...
T Consensus 149 ~~l~l~G~~G~GKThL~~-ai~~~~~~~~~~~~v~yi-~~~~~~~~~~~ 195 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLH-AIGNYILEKNPNAKVVYV-TSEKFTNDFVN 195 (450)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHhCCCCeEEEE-EHHHHHHHHHH
Confidence 468999999999997643 444555443334566666 44455554433
No 348
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=91.63 E-value=1.6 Score=31.77 Aligned_cols=37 Identities=16% Similarity=0.172 Sum_probs=23.1
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
+.++|.|++|||||.....-+.. .+...++++.....
T Consensus 2 ~~ili~G~~~sGKS~~a~~l~~~------~~~~~~~iat~~~~ 38 (170)
T PRK05800 2 MLILVTGGARSGKSRFAERLAAQ------SGLQVLYIATAQPF 38 (170)
T ss_pred CEEEEECCCCccHHHHHHHHHHH------cCCCcEeCcCCCCC
Confidence 45899999999999775433221 12245666654443
No 349
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=91.61 E-value=0.38 Score=36.16 Aligned_cols=36 Identities=19% Similarity=0.219 Sum_probs=25.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
|.-+.+.+++|+|||...+.-+.+... .+..++|+.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~---~g~~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAG---QGKKVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEE
Confidence 567899999999999877655444322 345677773
No 350
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=91.58 E-value=0.19 Score=44.46 Aligned_cols=50 Identities=12% Similarity=0.064 Sum_probs=37.9
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
..++++.||||||||..+++|-+-.. ...+||.=|--|+.......-+++
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~-----~~S~VV~D~KGEl~~~Ta~~R~~~ 193 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW-----PGSAIVHDIKGENWQLTAGFRARF 193 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC-----CCCEEEEeCcchHHHHHHHHHHhC
Confidence 46999999999999999999987542 236777778888877665554443
No 351
>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=91.50 E-value=0.15 Score=34.47 Aligned_cols=16 Identities=25% Similarity=0.318 Sum_probs=13.8
Q ss_pred EEEEcCCCChHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFS 87 (178)
Q Consensus 72 v~v~aptGsGKTl~~l 87 (178)
|++.|++|||||.+.-
T Consensus 1 I~i~G~~GsGKtTia~ 16 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAK 16 (129)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred CEEECCCCCCHHHHHH
Confidence 6899999999998754
No 352
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=91.49 E-value=0.42 Score=34.68 Aligned_cols=45 Identities=27% Similarity=0.451 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCCC-----CcHHHHHHHHHHHcCCcEEEEcCCCChHHHH
Q psy9277 41 EDLLRGIYAYGFEK-----PSAIQQRSIKPIVKGRDVIAQAQSGTGKTAT 85 (178)
Q Consensus 41 ~~i~~~l~~~g~~~-----~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~ 85 (178)
++.++..+++||.- -+....+.+...+.++-+++.+++|.|||..
T Consensus 2 ~~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSSL 51 (161)
T PF03193_consen 2 EELLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSSL 51 (161)
T ss_dssp HHHHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHHH
T ss_pred HHHHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 35666777888752 2445567777888899999999999999943
No 353
>KOG0733|consensus
Probab=91.49 E-value=0.18 Score=43.96 Aligned_cols=55 Identities=20% Similarity=0.287 Sum_probs=30.5
Q ss_pred cccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 30 VVSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
|..+|++.|--+++...|.-. -+++|..+ +++. +-.-..+++++|+|+|||+.+=
T Consensus 506 PdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~--k~lG-i~~PsGvLL~GPPGCGKTLlAK 563 (802)
T KOG0733|consen 506 PDVTWDDIGALEEVRLELNMAILAPIKRPDLF--KALG-IDAPSGVLLCGPPGCGKTLLAK 563 (802)
T ss_pred CCCChhhcccHHHHHHHHHHHHhhhccCHHHH--HHhC-CCCCCceEEeCCCCccHHHHHH
Confidence 355677776544444444211 22222222 2221 1225689999999999998763
No 354
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=91.45 E-value=0.54 Score=33.93 Aligned_cols=28 Identities=29% Similarity=0.555 Sum_probs=15.9
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQ 97 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~ 97 (178)
++.+++.|++|+|||... -.++..+...
T Consensus 24 ~~~~ll~G~~G~GKT~ll-~~~~~~~~~~ 51 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSLL-RALLDRLAER 51 (185)
T ss_dssp ---EEE-B-TTSSHHHHH-HHHHHHHHHH
T ss_pred CcEEEEECCCCCCHHHHH-HHHHHHHHhc
Confidence 578999999999999653 3355554443
No 355
>PHA02535 P terminase ATPase subunit; Provisional
Probab=91.44 E-value=1.4 Score=38.33 Aligned_cols=86 Identities=12% Similarity=0.097 Sum_probs=63.3
Q ss_pred CCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 38 GLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 38 ~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
.+++...+.|.+.-...+.++|...+..=...+.-++.-.--.|||+.|..-++..... .+...++|+|+++.+....
T Consensus 122 ~~s~~~~~~l~~~~~~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~--~G~nqiflSas~~QA~~f~ 199 (581)
T PHA02535 122 DISDEQTEKLIEAFLDSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALL--TGRNQIFLSASKAQAHVFK 199 (581)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHh--cCCceEEECCCHHHHHHHH
Confidence 37778888887665678999999988652224555555566689999988766665544 3447799999999999877
Q ss_pred HHHHHhcc
Q psy9277 118 KVVLALGD 125 (178)
Q Consensus 118 ~~~~~~~~ 125 (178)
+.+..+.+
T Consensus 200 ~yi~~~a~ 207 (581)
T PHA02535 200 QYIIAFAR 207 (581)
T ss_pred HHHHHHHH
Confidence 77766644
No 356
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=91.42 E-value=0.89 Score=37.95 Aligned_cols=55 Identities=15% Similarity=0.030 Sum_probs=35.9
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH-------HHHHHHHHHHHHhc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR-------ELAVQIQKVVLALG 124 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~-------~L~~q~~~~~~~~~ 124 (178)
..-+++.||+|+|||-.. -++.+.........+++++.... ++-..-.+.+++..
T Consensus 113 ~nplfi~G~~GlGKTHLl-~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y 174 (408)
T COG0593 113 YNPLFIYGGVGLGKTHLL-QAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY 174 (408)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh
Confidence 356999999999999653 35555555554556788887654 34444444565555
No 357
>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=91.41 E-value=0.35 Score=42.56 Aligned_cols=49 Identities=22% Similarity=0.245 Sum_probs=37.3
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~ 123 (178)
.++++.||||||||..+++|-+-. -+.-++++=|..|+.......-++.
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL~-----~~gS~VV~DpKgE~~~~Ta~~R~~~ 260 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTALK-----YGGPLVCLDPSTEVAPMVCEHRRQA 260 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhhc-----CCCCEEEEEChHHHHHHHHHHHHHc
Confidence 689999999999999999997542 2346777788888877666554444
No 358
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=91.32 E-value=0.29 Score=43.53 Aligned_cols=75 Identities=15% Similarity=0.138 Sum_probs=45.8
Q ss_pred HHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 41 EDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 41 ~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.++.+.+++-|-..+..+----+|.-.+.+++++.|.||||||.+. .-++..+.. ++.++||.=|+-+.+...|+
T Consensus 157 ~~l~k~lk~~~~~s~i~I~gvPip~~~E~~H~li~GttGSGKS~~i-~~LL~~ir~--RGdrAIIyD~~GeFv~~FY~ 231 (732)
T PRK13700 157 KDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVI-RRLANYARQ--RGDMVVIYDRSGEFVKSYYD 231 (732)
T ss_pred HHHHHHHHhcCCCCCeeEccccCCcchhhcceEEeCCCCCCHHHHH-HHHHHHHHH--cCCeEEEEeCCCchHHHhcC
Confidence 3555566665543332222222233345789999999999999864 444554443 45577777787777765554
No 359
>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=91.23 E-value=0.29 Score=42.58 Aligned_cols=43 Identities=12% Similarity=0.300 Sum_probs=27.5
Q ss_pred HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHH
Q psy9277 67 VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTREL 112 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L 112 (178)
...+++++.|+||||||.+ +..++..+.. ++.+++|+=|.-+.
T Consensus 174 ~e~~h~li~G~tGsGKs~~-i~~ll~~~~~--~g~~~ii~D~~g~~ 216 (566)
T TIGR02759 174 SETQHILIHGTTGSGKSVA-IRKLLRWIRQ--RGDRAIIYDKGCTF 216 (566)
T ss_pred ccccceEEEcCCCCCHHHH-HHHHHHHHHh--cCCeEEEEECCCCe
Confidence 3467999999999999964 3445554433 23355555555443
No 360
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=91.20 E-value=0.65 Score=37.60 Aligned_cols=39 Identities=18% Similarity=0.171 Sum_probs=26.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
|+-+.+.+|+|+|||...+..+.+... .+..++|+....
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~---~g~~~vyId~E~ 93 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQK---LGGTVAFIDAEH 93 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH---cCCCEEEECccc
Confidence 578899999999999777655544322 344666665533
No 361
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=90.98 E-value=0.17 Score=40.43 Aligned_cols=18 Identities=17% Similarity=0.220 Sum_probs=15.0
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
+=++|.||||||||...+
T Consensus 5 ~ii~I~GpTasGKS~LAl 22 (300)
T PRK14729 5 KIVFIFGPTAVGKSNILF 22 (300)
T ss_pred cEEEEECCCccCHHHHHH
Confidence 348999999999997665
No 362
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=90.96 E-value=0.19 Score=44.41 Aligned_cols=46 Identities=17% Similarity=0.117 Sum_probs=35.6
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
..++++.||||||||..+++|.+-. .+..+||+=|-.++.......
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnLL~-----~~~S~VV~D~KGE~~~~Tag~ 220 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTLLS-----WGHSSVITDLKGELWALTAGW 220 (636)
T ss_pred CceEEEEecCCCCCceEEEccchhh-----CCCCEEEEeCcHHHHHHHHHH
Confidence 3689999999999999999888753 234678888888886555443
No 363
>CHL00181 cbbX CbbX; Provisional
Probab=90.89 E-value=0.68 Score=36.78 Aligned_cols=21 Identities=29% Similarity=0.279 Sum_probs=17.4
Q ss_pred CCcEEEEcCCCChHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSIS 89 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~ 89 (178)
+.++++.||+|+|||.++-.-
T Consensus 59 ~~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred CceEEEECCCCCCHHHHHHHH
Confidence 557999999999999887543
No 364
>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=90.89 E-value=0.55 Score=35.31 Aligned_cols=21 Identities=24% Similarity=0.311 Sum_probs=17.4
Q ss_pred cCCcEEEEcCCCChHHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll 88 (178)
.+.++++.||+|+|||.....
T Consensus 37 ~~~~lll~G~~G~GKT~la~~ 57 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQA 57 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHH
Confidence 367899999999999976643
No 365
>PRK08084 DNA replication initiation factor; Provisional
Probab=90.83 E-value=0.74 Score=35.34 Aligned_cols=37 Identities=14% Similarity=0.189 Sum_probs=24.0
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
+.++++.||+|+|||.... .+.+.+.. .+.+++|+.-
T Consensus 45 ~~~l~l~Gp~G~GKThLl~-a~~~~~~~--~~~~v~y~~~ 81 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLH-AACAELSQ--RGRAVGYVPL 81 (235)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHh--CCCeEEEEEH
Confidence 4689999999999996654 33333332 3445666544
No 366
>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=90.83 E-value=1.4 Score=38.53 Aligned_cols=55 Identities=9% Similarity=0.075 Sum_probs=43.8
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 100 ETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 100 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
+..+||.|+++..+.++++.+... ++.+..++++.+.+++..... ...+|||+|-
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~----g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~ 282 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQ----GISALAYHAGLSNKVRAENQEDFLYDDVKVMVATN 282 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhC----CCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEec
Confidence 457899999999999999988653 788889999988776655433 4579999994
No 367
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=90.81 E-value=1.5 Score=38.55 Aligned_cols=56 Identities=11% Similarity=0.055 Sum_probs=44.5
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
.+.++||.|+++.-+.+++..+... ++.+..++++.+..++..... ...+|+|+|.
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~----g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~ 294 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSR----GISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATV 294 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhC----CCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEec
Confidence 4568899999999999999988754 788899999988776554443 3478999995
No 368
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=90.80 E-value=1.4 Score=43.91 Aligned_cols=63 Identities=14% Similarity=0.191 Sum_probs=48.2
Q ss_pred CCcHHHHHHHHHHHcC--CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHH
Q psy9277 54 KPSAIQQRSIKPIVKG--RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKV 119 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~~g--~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~ 119 (178)
.+++-|.+++..++.+ +-.++.++.|+|||... -.++..+.. .+.+++.++||..-+..+.+.
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l-~~l~~~~~~--~G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIA-QLLLHLASE--QGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHH-HHHHHHHHh--cCCeEEEEeCCHHHHHHHHHH
Confidence 5899999999998874 68899999999999653 233333332 467899999998877776665
No 369
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=90.79 E-value=1.8 Score=37.00 Aligned_cols=76 Identities=12% Similarity=0.123 Sum_probs=43.2
Q ss_pred cHHHHHHHHHHH-------cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEE-----EcCcHHHHHHHHHHHHHh
Q psy9277 56 SAIQQRSIKPIV-------KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLC-----LSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 56 ~~~Q~~~i~~i~-------~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~li-----l~Pt~~L~~q~~~~~~~~ 123 (178)
+++|.+..+.+. .|.-+.++||+|||||...- ..+.....+..+.+ ..|.+.-......++..+
T Consensus 12 r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLLr----~~l~~~~sGg~I~ldg~~~~~~~~~ai~~LR~VFQ~f 87 (504)
T TIGR03238 12 RKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEILA----ENKRKFSEGYEFFLDATHSFSPNKNAMETLDEIFDGF 87 (504)
T ss_pred hHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHHh----cCCCCCCCCCEEEECCEECCCCCHHHHHHHHHHHHhh
Confidence 788887766553 38899999999999996654 11111112211211 225555555555566666
Q ss_pred ccCCCceEEEEE
Q psy9277 124 GDFMNVQCHACI 135 (178)
Q Consensus 124 ~~~~~~~~~~~~ 135 (178)
-....--++.+.
T Consensus 88 n~~~~~lIvaIN 99 (504)
T TIGR03238 88 NQSNKPLIVGIN 99 (504)
T ss_pred hcCCCCEEEEEe
Confidence 555443344433
No 370
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.69 E-value=0.54 Score=35.59 Aligned_cols=38 Identities=16% Similarity=0.219 Sum_probs=26.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
|.-+.+.+++|+|||...+-.+.+.+. .+.+++|+.-.
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~---~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAK---NGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH---CCCeEEEEECC
Confidence 678899999999999876655544332 24466666543
No 371
>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=90.67 E-value=0.38 Score=37.27 Aligned_cols=34 Identities=21% Similarity=0.330 Sum_probs=24.5
Q ss_pred CCcHHHHHHHHHHH----cCC-cEEEEcCCCChHHHHHH
Q psy9277 54 KPSAIQQRSIKPIV----KGR-DVIAQAQSGTGKTATFS 87 (178)
Q Consensus 54 ~~~~~Q~~~i~~i~----~g~-~v~v~aptGsGKTl~~l 87 (178)
.+++.+.+++..+. .+. .+++.||+|+|||...-
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 46666677776553 233 68999999999997654
No 372
>PRK09354 recA recombinase A; Provisional
Probab=90.63 E-value=0.74 Score=37.64 Aligned_cols=39 Identities=18% Similarity=0.159 Sum_probs=26.2
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
|+-+.+.+|+|||||...+..+.+... .+..++|+..-.
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~---~G~~~~yId~E~ 98 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQK---AGGTAAFIDAEH 98 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEECCcc
Confidence 567889999999999887766555432 234555554433
No 373
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=90.61 E-value=1 Score=37.99 Aligned_cols=47 Identities=15% Similarity=0.191 Sum_probs=30.1
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
..+++.||+|+|||... .++.+.+.....+.+++|+.. ..+..+...
T Consensus 131 n~l~lyG~~G~GKTHLl-~ai~~~l~~~~~~~~v~yi~~-~~f~~~~~~ 177 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLL-QSIGNYVVQNEPDLRVMYITS-EKFLNDLVD 177 (440)
T ss_pred CeEEEEcCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHH
Confidence 36999999999999664 355555554334456777654 445554443
No 374
>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=90.41 E-value=0.22 Score=36.45 Aligned_cols=16 Identities=31% Similarity=0.449 Sum_probs=14.0
Q ss_pred cEEEEcCCCChHHHHH
Q psy9277 71 DVIAQAQSGTGKTATF 86 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ 86 (178)
++++.+|||+|||...
T Consensus 5 ~~ll~GpsGvGKT~la 20 (171)
T PF07724_consen 5 NFLLAGPSGVGKTELA 20 (171)
T ss_dssp EEEEESSTTSSHHHHH
T ss_pred EEEEECCCCCCHHHHH
Confidence 6899999999999654
No 375
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=90.35 E-value=0.23 Score=36.54 Aligned_cols=19 Identities=26% Similarity=0.487 Sum_probs=16.1
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
|..+++.||+|+|||...-
T Consensus 2 g~~i~l~G~sGsGKsTl~~ 20 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLA 20 (186)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 5678999999999997653
No 376
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=90.23 E-value=0.58 Score=34.26 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=15.2
Q ss_pred CCcEEEEcCCCChHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ 86 (178)
++-++++||+|+||+...
T Consensus 2 ~r~ivl~Gpsg~GK~~l~ 19 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLA 19 (183)
T ss_dssp SSEEEEESSTTSSHHHHH
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 567899999999999554
No 377
>KOG0738|consensus
Probab=90.18 E-value=0.25 Score=40.90 Aligned_cols=57 Identities=23% Similarity=0.355 Sum_probs=35.7
Q ss_pred cccccccCCCCHHHHHHHHhC------CCC-----CCcH---HHHH------HHHHHHcC-----CcEEEEcCCCChHHH
Q psy9277 30 VVSTFDNMGLREDLLRGIYAY------GFE-----KPSA---IQQR------SIKPIVKG-----RDVIAQAQSGTGKTA 84 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~------g~~-----~~~~---~Q~~------~i~~i~~g-----~~v~v~aptGsGKTl 84 (178)
..+.|+..+....+.++|+.- +++ .+.. .=.+ .+|.+++| +.+++.+|+|+|||+
T Consensus 181 ~~~~f~~~~~d~~Lve~lerdIl~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTl 260 (491)
T KOG0738|consen 181 EDKKFDSLGYDADLVEALERDILQRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTL 260 (491)
T ss_pred ccCCCCcccchHHHHHHHHHHHhccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHH
Confidence 356688888888888888532 110 0100 1111 12455555 699999999999997
Q ss_pred HH
Q psy9277 85 TF 86 (178)
Q Consensus 85 ~~ 86 (178)
.+
T Consensus 261 LA 262 (491)
T KOG0738|consen 261 LA 262 (491)
T ss_pred HH
Confidence 65
No 378
>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=90.10 E-value=0.22 Score=38.81 Aligned_cols=20 Identities=35% Similarity=0.414 Sum_probs=16.7
Q ss_pred CCcEEEEcCCCChHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll 88 (178)
..++++.||+|+|||..+-.
T Consensus 42 ~~~vll~GppGtGKTtlA~~ 61 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARI 61 (261)
T ss_pred cceEEEEcCCCCCHHHHHHH
Confidence 35899999999999987644
No 379
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.09 E-value=0.24 Score=40.56 Aligned_cols=27 Identities=37% Similarity=0.581 Sum_probs=21.0
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
.|+.+++.+|+|+|||..+ +.+.+.|.
T Consensus 64 aGrgiLi~GppgTGKTAlA-~gIa~eLG 90 (450)
T COG1224 64 AGRGILIVGPPGTGKTALA-MGIARELG 90 (450)
T ss_pred cccEEEEECCCCCcHHHHH-HHHHHHhC
Confidence 3789999999999999665 45555554
No 380
>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=90.05 E-value=1.9 Score=29.99 Aligned_cols=50 Identities=14% Similarity=0.086 Sum_probs=28.8
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEE-----EcCcHHHHHHHHHHHHHh
Q psy9277 73 IAQAQSGTGKTATFSISILQSLDTQ-LRETQVLC-----LSPTRELAVQIQKVVLAL 123 (178)
Q Consensus 73 ~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~li-----l~Pt~~L~~q~~~~~~~~ 123 (178)
...|+||+|||.+.-+-+-+ +..+ .+...+.. =.|....+.+..+.++..
T Consensus 57 SfHG~tGtGKn~v~~liA~~-ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~ 112 (127)
T PF06309_consen 57 SFHGWTGTGKNFVSRLIAEH-LYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSW 112 (127)
T ss_pred EeecCCCCcHHHHHHHHHHH-HHhcccCCCceeeecccccCCCchHHHHHHHHHHHH
Confidence 47899999999887654333 3332 23333332 236666666655555544
No 381
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=90.00 E-value=0.88 Score=39.02 Aligned_cols=53 Identities=23% Similarity=0.255 Sum_probs=35.5
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|..+++.+++|+|||...+-.+...+. .+-.++|++- .+-..++.+.+..++
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~~---~g~~~~yis~-e~~~~~i~~~~~~~g 324 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAACR---RGERCLLFAF-EESRAQLIRNARSWG 324 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCCcEEEEEe-cCCHHHHHHHHHHcC
Confidence 3678899999999999876555544332 3457777754 344666666666554
No 382
>KOG0745|consensus
Probab=89.86 E-value=0.22 Score=41.83 Aligned_cols=37 Identities=24% Similarity=0.343 Sum_probs=23.5
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
-|+++.+|||||||+... .|.++ .+-|.+|.=|.|-.
T Consensus 227 SNvLllGPtGsGKTllaq--TLAr~---ldVPfaIcDcTtLT 263 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTLLAQ--TLARV---LDVPFAICDCTTLT 263 (564)
T ss_pred ccEEEECCCCCchhHHHH--HHHHH---hCCCeEEecccchh
Confidence 489999999999997653 22222 24455555554433
No 383
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=89.85 E-value=0.63 Score=42.05 Aligned_cols=40 Identities=23% Similarity=0.333 Sum_probs=26.8
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
+.+++|.|+||+|||...-.-+.+.+ . .+.+++|+=|..+
T Consensus 430 n~n~~I~G~tGsGKS~~~~~l~~~~~-~--~g~~v~iiD~~~s 469 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQELIVDNL-S--RGGKVWVIDVGRS 469 (797)
T ss_pred ccceEEEcCCCCCHHHHHHHHHHHHH-h--CCCEEEEEeCCCC
Confidence 35899999999999987654333332 2 3456777666543
No 384
>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=89.81 E-value=1.5 Score=40.54 Aligned_cols=58 Identities=16% Similarity=0.027 Sum_probs=45.7
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
++.+++|++|+++-+..+++.++++.. +.++..++|+++..++...+. ...+|+|+|-
T Consensus 659 ~g~qv~if~n~i~~~e~l~~~L~~~~p--~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~ 720 (926)
T TIGR00580 659 RGGQVFYVHNRIESIEKLATQLRELVP--EARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTT 720 (926)
T ss_pred cCCeEEEEECCcHHHHHHHHHHHHhCC--CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECC
Confidence 456899999999999999888887643 578999999998776655443 3579999993
No 385
>KOG0652|consensus
Probab=89.80 E-value=0.85 Score=36.04 Aligned_cols=63 Identities=17% Similarity=0.174 Sum_probs=36.1
Q ss_pred cccccccccccCC-CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHH
Q psy9277 26 EDVEVVSTFDNMG-LREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSIS 89 (178)
Q Consensus 26 ~~~~~~~~f~~~~-l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~ 89 (178)
-+..|..+|++.| |...|.+..... ...++.-.+--=--+.--+.++..+|+|+|||+.+-.-
T Consensus 162 vDekPtE~YsDiGGldkQIqELvEAi-VLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAc 225 (424)
T KOG0652|consen 162 VDEKPTEQYSDIGGLDKQIQELVEAI-VLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARAC 225 (424)
T ss_pred eccCCcccccccccHHHHHHHHHHHh-ccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHH
Confidence 3556777888885 666555544332 11222211110011223579999999999999876443
No 386
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=89.78 E-value=1.1 Score=40.30 Aligned_cols=56 Identities=16% Similarity=0.141 Sum_probs=44.3
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc--------CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD--------YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~--------~~~~IlV~TP 158 (178)
.+.++++|+.|..-|..+|+.++.... .+.++++-....++.+... +++.|+|+|.
T Consensus 439 ~~~kvlvI~NTV~~Aie~Y~~Lk~~~~----~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQ 502 (733)
T COG1203 439 EGKKVLVIVNTVDRAIELYEKLKEKGP----KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQ 502 (733)
T ss_pred cCCcEEEEEecHHHHHHHHHHHHhcCC----CEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEee
Confidence 457899999999999999999987744 7788888877665555444 4678999995
No 387
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.76 E-value=0.41 Score=37.83 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=14.5
Q ss_pred cEEEEcCCCChHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll 88 (178)
=+++.++|||||+.....
T Consensus 129 LviiVGaTGSGKSTtmAa 146 (375)
T COG5008 129 LVIIVGATGSGKSTTMAA 146 (375)
T ss_pred eEEEECCCCCCchhhHHH
Confidence 478899999999977543
No 388
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=89.75 E-value=0.24 Score=42.50 Aligned_cols=54 Identities=20% Similarity=0.266 Sum_probs=29.7
Q ss_pred cccccccCC-CCHHHHHHHHh--CCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 30 VVSTFDNMG-LREDLLRGIYA--YGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 30 ~~~~f~~~~-l~~~i~~~l~~--~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..+|++++ +++.+.+.... ..+..+..+...- +...+++++.||+|+|||+..
T Consensus 177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~g---l~~p~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYD---LKPPKGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhcc---CCCCcceEEECCCCCcHHHHH
Confidence 456788886 55433332221 1122222221111 223578999999999999764
No 389
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=89.74 E-value=0.6 Score=42.36 Aligned_cols=24 Identities=29% Similarity=0.461 Sum_probs=18.2
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l 94 (178)
+.+|+||||+|||...-+-+.+..
T Consensus 438 hT~I~G~tGaGKTvLl~~llaq~~ 461 (796)
T COG3451 438 HTLIIGPTGAGKTVLLSFLLAQAL 461 (796)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHH
Confidence 899999999999976554444433
No 390
>PRK06893 DNA replication initiation factor; Validated
Probab=89.70 E-value=0.74 Score=35.17 Aligned_cols=37 Identities=5% Similarity=0.045 Sum_probs=23.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
+..+++.||+|+|||.... .+.+.+.. ++..++|+.-
T Consensus 39 ~~~l~l~G~~G~GKThL~~-ai~~~~~~--~~~~~~y~~~ 75 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLK-AVSNHYLL--NQRTAIYIPL 75 (229)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHH--cCCCeEEeeH
Confidence 3457999999999996543 34444333 2345666554
No 391
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=89.70 E-value=0.26 Score=40.51 Aligned_cols=37 Identities=30% Similarity=0.382 Sum_probs=23.1
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
+|+.+++.+|+|+|||..+ +.+.+.|.. +-|++.+..
T Consensus 49 aGr~iLiaGppGtGKTAlA-~~ia~eLG~--~~PF~~isg 85 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTALA-MAIAKELGE--DVPFVSISG 85 (398)
T ss_dssp TT-EEEEEE-TTSSHHHHH-HHHHHHCTT--TS-EEEEEG
T ss_pred cCcEEEEeCCCCCCchHHH-HHHHHHhCC--CCCeeEccc
Confidence 3789999999999999665 455555543 345555544
No 392
>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=89.69 E-value=1.1 Score=36.45 Aligned_cols=24 Identities=33% Similarity=0.540 Sum_probs=17.9
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSL 94 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l 94 (178)
.++++.||+|+|||.+.- .++..+
T Consensus 41 ~~i~I~G~~GtGKT~l~~-~~~~~l 64 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTK-YVMKEL 64 (365)
T ss_pred CcEEEECCCCCCHHHHHH-HHHHHH
Confidence 689999999999997643 344433
No 393
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=89.69 E-value=0.6 Score=32.54 Aligned_cols=22 Identities=23% Similarity=0.280 Sum_probs=17.0
Q ss_pred HHHcCCcEEEEcCCCChHHHHH
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ 86 (178)
....+..+++.|++|+||+.++
T Consensus 17 ~a~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 17 LAKSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp HHCSSS-EEEECCTTSSHHHHH
T ss_pred HhCCCCcEEEEcCCCCCHHHHH
Confidence 3344789999999999999764
No 394
>KOG2340|consensus
Probab=89.64 E-value=1.7 Score=37.57 Aligned_cols=73 Identities=23% Similarity=0.348 Sum_probs=54.5
Q ss_pred CCCcHHHHHHHHHHHcCCcEEEEcCC-CChH--HHHHHHHHHHHhhhcC----------------------------CCc
Q psy9277 53 EKPSAIQQRSIKPIVKGRDVIAQAQS-GTGK--TATFSISILQSLDTQL----------------------------RET 101 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~~g~~v~v~apt-GsGK--Tl~~ll~il~~l~~~~----------------------------~~~ 101 (178)
..+|+.|.+.+....+-+|++..-.| +.|+ +-.|.+=+++++.+.+ ..+
T Consensus 215 ~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRp 294 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRP 294 (698)
T ss_pred CcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCc
Confidence 46899999999999988888765443 3455 4566777777663210 137
Q ss_pred eEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 102 QVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 102 ~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
++|||||+|+-|-.+.+.+..++.
T Consensus 295 kVLivvpfRe~A~riVn~lis~l~ 318 (698)
T KOG2340|consen 295 KVLIVVPFRESAYRIVNLLISLLS 318 (698)
T ss_pred eEEEEecchHHHHHHHHHHHHHhc
Confidence 899999999999999999988743
No 395
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=89.58 E-value=0.83 Score=34.60 Aligned_cols=19 Identities=16% Similarity=0.319 Sum_probs=16.0
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
+..++++|++|+|||....
T Consensus 42 ~~~~~l~G~~G~GKT~La~ 60 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQ 60 (227)
T ss_pred CCeEEEECCCCCCHHHHHH
Confidence 5689999999999996543
No 396
>PRK08118 topology modulation protein; Reviewed
Probab=89.53 E-value=0.28 Score=35.60 Aligned_cols=17 Identities=24% Similarity=0.485 Sum_probs=14.3
Q ss_pred CcEEEEcCCCChHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATF 86 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ 86 (178)
+.++|+||+|||||...
T Consensus 2 ~rI~I~G~~GsGKSTla 18 (167)
T PRK08118 2 KKIILIGSGGSGKSTLA 18 (167)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 35899999999999654
No 397
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=89.50 E-value=0.43 Score=38.37 Aligned_cols=46 Identities=17% Similarity=0.242 Sum_probs=26.9
Q ss_pred EEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQK 118 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~ 118 (178)
.+|.|||||||+-..---+-..+. +...-.+++|+|++..+--...
T Consensus 90 ~~VYGPTG~GKSqLlRNLis~~lI-~P~PETVfFItP~~~mIpp~E~ 135 (369)
T PF02456_consen 90 GVVYGPTGSGKSQLLRNLISCQLI-QPPPETVFFITPQKDMIPPQEI 135 (369)
T ss_pred EEEECCCCCCHHHHHHHhhhcCcc-cCCCCceEEECCCCCCCCHHHH
Confidence 578999999998443211111111 1223478999998766544433
No 398
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=89.43 E-value=0.28 Score=41.90 Aligned_cols=56 Identities=18% Similarity=0.193 Sum_probs=33.4
Q ss_pred cccccccccCCCCHHHHHHHHhCC--CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYG--FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g--~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
..+..+|+++.-.+.+.+.+.+.- +..+..++.. .....+++++.||+|+|||...
T Consensus 48 ~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~---g~~~~~giLL~GppGtGKT~la 105 (495)
T TIGR01241 48 EKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKL---GAKIPKGVLLVGPPGTGKTLLA 105 (495)
T ss_pred CCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhc---CCCCCCcEEEECCCCCCHHHHH
Confidence 356778999876666665554321 1122222111 1122468999999999999765
No 399
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.40 E-value=0.28 Score=35.15 Aligned_cols=20 Identities=25% Similarity=0.398 Sum_probs=17.1
Q ss_pred cCCcEEEEcCCCChHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~l 87 (178)
.+..++++|++|||||...-
T Consensus 3 ~~~~i~l~G~~GsGKstla~ 22 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTIGR 22 (175)
T ss_pred CCCeEEEEcCCCCCHHHHHH
Confidence 46789999999999997754
No 400
>PF05729 NACHT: NACHT domain
Probab=89.40 E-value=0.92 Score=31.91 Aligned_cols=25 Identities=20% Similarity=0.372 Sum_probs=17.5
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDT 96 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~ 96 (178)
-++|.|++|+|||.... -++..+..
T Consensus 2 ~l~I~G~~G~GKStll~-~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLR-KLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHH-HHHHHHHh
Confidence 37899999999997643 44444443
No 401
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=89.33 E-value=1.8 Score=33.15 Aligned_cols=37 Identities=24% Similarity=0.193 Sum_probs=24.7
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhh---------hcCCCceEEEEc
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLD---------TQLRETQVLCLS 107 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~---------~~~~~~~~lil~ 107 (178)
-.++.||.|+|||...+--++.... ....+.+++|+.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~ 48 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS 48 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE
Confidence 4689999999999887655544221 112345788887
No 402
>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=89.32 E-value=5.3 Score=28.72 Aligned_cols=100 Identities=16% Similarity=0.182 Sum_probs=53.8
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhc-----------------CCCceEEEEcCcHH----HHHHHHHHHHHhccC--
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQ-----------------LRETQVLCLSPTRE----LAVQIQKVVLALGDF-- 126 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~-----------------~~~~~~lil~Pt~~----L~~q~~~~~~~~~~~-- 126 (178)
...++.||.|+||+..+..-+-..+-.. ...+...++.|... .+.|+.+....+...
T Consensus 20 ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~~ 99 (162)
T PF13177_consen 20 HALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSPS 99 (162)
T ss_dssp SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS-T
T ss_pred eeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHHHHHHHHHHHHHHh
Confidence 3689999999999877554333222111 22456788888754 455655444444322
Q ss_pred -CCceEEEEEcCccHHHHHH--H---hcC---CCcE-EEeC-hHHHHHHHHcCC
Q psy9277 127 -MNVQCHACIGGTNLSEDLR--K---LDY---GQHV-VSGT-PGRVFDMIRSSQ 169 (178)
Q Consensus 127 -~~~~~~~~~g~~~~~~~~~--~---~~~---~~~I-lV~T-P~~l~~~l~~~~ 169 (178)
.+.++.++........... . +++ .+.+ ++++ |.+|+.-++++-
T Consensus 100 ~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc 153 (162)
T PF13177_consen 100 EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRC 153 (162)
T ss_dssp TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTS
T ss_pred cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhc
Confidence 2578888876655433222 1 222 2233 3333 666777666653
No 403
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=89.32 E-value=0.26 Score=37.75 Aligned_cols=20 Identities=35% Similarity=0.429 Sum_probs=17.0
Q ss_pred HHcCCcEEEEcCCCChHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTAT 85 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~ 85 (178)
+..|.-+.+.+|+|||||..
T Consensus 28 i~~Ge~vaI~GpSGSGKSTL 47 (226)
T COG1136 28 IEAGEFVAIVGPSGSGKSTL 47 (226)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 44589999999999999954
No 404
>KOG0924|consensus
Probab=89.27 E-value=2.7 Score=37.50 Aligned_cols=70 Identities=20% Similarity=0.228 Sum_probs=44.7
Q ss_pred CcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc--CcHHHHHHHHHHH-HHhccCCC
Q psy9277 55 PSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS--PTRELAVQIQKVV-LALGDFMN 128 (178)
Q Consensus 55 ~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~--Pt~~L~~q~~~~~-~~~~~~~~ 128 (178)
....+.+.+..|-.+.-+++.+.||||||.-..- .++........+|-| |.|.-|..+++.+ .++.-.+|
T Consensus 357 vf~~R~~ll~~ir~n~vvvivgETGSGKTTQl~Q----yL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG 429 (1042)
T KOG0924|consen 357 VFACRDQLLSVIRENQVVVIVGETGSGKTTQLAQ----YLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLG 429 (1042)
T ss_pred hHHHHHHHHHHHhhCcEEEEEecCCCCchhhhHH----HHHhcccccCCeeeecCchHHHHHHHHHHHHHHhCCccc
Confidence 3556666777777788999999999999965432 233322222234433 8888888888766 45533333
No 405
>PLN02165 adenylate isopentenyltransferase
Probab=89.26 E-value=0.34 Score=39.32 Aligned_cols=20 Identities=20% Similarity=0.273 Sum_probs=17.1
Q ss_pred CCcEEEEcCCCChHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll 88 (178)
|.-+++.||||||||..+..
T Consensus 43 g~iivIiGPTGSGKStLA~~ 62 (334)
T PLN02165 43 DKVVVIMGATGSGKSRLSVD 62 (334)
T ss_pred CCEEEEECCCCCcHHHHHHH
Confidence 66799999999999987654
No 406
>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=89.24 E-value=3.7 Score=33.20 Aligned_cols=58 Identities=7% Similarity=0.047 Sum_probs=42.7
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH-------Hhc-CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR-------KLD-YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-------~~~-~~~~IlV~TP 158 (178)
.+.+++|+++|++-+..+++.+++... +..+..++|+.+..++.. ... ....|+|+|.
T Consensus 221 ~~~~~lVf~~t~~~~~~~~~~L~~~~~--~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~ 286 (358)
T TIGR01587 221 KGGKIAIIVNTVDRAQEFYQQLKENAP--EEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQ 286 (358)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhhcC--CCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECc
Confidence 456899999999999999999876532 346888899887655432 223 3468999995
No 407
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=89.22 E-value=0.61 Score=37.34 Aligned_cols=18 Identities=33% Similarity=0.575 Sum_probs=15.5
Q ss_pred cEEEEcCCCChHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll 88 (178)
++++.||+|+|||.....
T Consensus 38 ~lll~Gp~GtGKT~la~~ 55 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRA 55 (337)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 799999999999977543
No 408
>KOG0060|consensus
Probab=89.20 E-value=0.27 Score=42.62 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=18.3
Q ss_pred HHHcCCcEEEEcCCCChHHHHH
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ 86 (178)
.+.+|++++|++|+|+|||-.+
T Consensus 457 ~V~~g~~LLItG~sG~GKtSLl 478 (659)
T KOG0060|consen 457 EVPSGQNLLITGPSGCGKTSLL 478 (659)
T ss_pred EecCCCeEEEECCCCCchhHHH
Confidence 3556999999999999999543
No 409
>PRK10689 transcription-repair coupling factor; Provisional
Probab=89.18 E-value=1.9 Score=40.89 Aligned_cols=57 Identities=19% Similarity=0.058 Sum_probs=44.8
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
++.+++|++|+++-+..+++.+.+... +.++..++|+++..++...+. ...+|+|+|
T Consensus 808 r~gqv~vf~n~i~~ie~la~~L~~~~p--~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaT 868 (1147)
T PRK10689 808 RGGQVYYLYNDVENIQKAAERLAELVP--EARIAIGHGQMRERELERVMNDFHHQRFNVLVCT 868 (1147)
T ss_pred cCCeEEEEECCHHHHHHHHHHHHHhCC--CCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEC
Confidence 356899999999999999888877643 467888999998876655443 357999999
No 410
>PRK12678 transcription termination factor Rho; Provisional
Probab=89.18 E-value=1.5 Score=38.48 Aligned_cols=67 Identities=19% Similarity=0.323 Sum_probs=39.7
Q ss_pred cccccccccccccCC-CCHHHHHHHHhCCCCCCcHHHHHHHHHHH---cCCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 24 TSEDVEVVSTFDNMG-LREDLLRGIYAYGFEKPSAIQQRSIKPIV---KGRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 24 ~~~~~~~~~~f~~~~-l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~---~g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
..+.......|+++- +++.-.-.|.. .+...-..+|..++ .|.-.+|.+|.|+|||... ..|...+.
T Consensus 371 ~~e~~~~r~~F~~Ltp~~P~~R~~le~----e~~~~giRvIDll~PIGkGQR~LIvgpp~aGKTtLL-~~IAn~i~ 441 (672)
T PRK12678 371 SPEEAKKRPEFGKLTPLYPNERLRLET----EPKKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTIL-QNIANAIT 441 (672)
T ss_pred ChHHhccCCCcccCCCCChHHhccccc----CcccccceeeeeecccccCCEeEEeCCCCCCHHHHH-HHHHHHHh
Confidence 334444556676653 44432222220 35555556665544 5899999999999999775 34555443
No 411
>KOG0332|consensus
Probab=89.18 E-value=2.2 Score=35.29 Aligned_cols=54 Identities=17% Similarity=0.121 Sum_probs=44.1
Q ss_pred ceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc---C-CCcEEEeCh
Q psy9277 101 TQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD---Y-GQHVVSGTP 158 (178)
Q Consensus 101 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~-~~~IlV~TP 158 (178)
.+++|.|.|++-|..++..+... |..+.+++|+....++...+. . ...|+|+|-
T Consensus 331 gqsiIFc~tk~ta~~l~~~m~~~----Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTn 388 (477)
T KOG0332|consen 331 GQSIIFCHTKATAMWLYEEMRAE----GHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTN 388 (477)
T ss_pred hheEEEEeehhhHHHHHHHHHhc----CceeEEeeccchhHHHHHHHHHHhcCcceEEEEec
Confidence 57899999999999999999766 788999999988777655443 2 358999984
No 412
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.14 E-value=1 Score=38.69 Aligned_cols=54 Identities=22% Similarity=0.310 Sum_probs=35.1
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
.|.-+++.|++|+|||...+--+.+.+.. .+..++|++ +.+-..++.+.+..++
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~--~ge~~lyis-~ee~~~~i~~~~~~~g 83 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKR--FDEPGVFVT-FEESPEDIIRNVASFG 83 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHh--cCCCEEEEE-ccCCHHHHHHHHHHcC
Confidence 47889999999999998766544444432 144666664 4455556666665554
No 413
>PTZ00035 Rad51 protein; Provisional
Probab=89.06 E-value=2.2 Score=34.76 Aligned_cols=38 Identities=18% Similarity=0.007 Sum_probs=23.3
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhh---hcCCCceEEEEc
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLD---TQLRETQVLCLS 107 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~---~~~~~~~~lil~ 107 (178)
.-+.+.|++|+|||......+..... ....+..++|+.
T Consensus 119 ~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyId 159 (337)
T PTZ00035 119 SITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYID 159 (337)
T ss_pred eEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEE
Confidence 45789999999999877544433211 111234676765
No 414
>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=89.02 E-value=0.54 Score=38.07 Aligned_cols=24 Identities=29% Similarity=0.428 Sum_probs=19.6
Q ss_pred HHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 64 KPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 64 ~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
-.+..++++++.+++|+|||....
T Consensus 59 ~~l~~~~~ilL~G~pGtGKTtla~ 82 (327)
T TIGR01650 59 AGFAYDRRVMVQGYHGTGKSTHIE 82 (327)
T ss_pred HHHhcCCcEEEEeCCCChHHHHHH
Confidence 345568999999999999997754
No 415
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=89.00 E-value=0.29 Score=37.39 Aligned_cols=20 Identities=35% Similarity=0.559 Sum_probs=16.7
Q ss_pred HHcCCcEEEEcCCCChHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTAT 85 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~ 85 (178)
+..|.-+.+++|+|||||..
T Consensus 25 v~~Gevv~iiGpSGSGKSTl 44 (240)
T COG1126 25 VEKGEVVVIIGPSGSGKSTL 44 (240)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 34588899999999999954
No 416
>KOG0989|consensus
Probab=88.95 E-value=0.72 Score=37.04 Aligned_cols=25 Identities=24% Similarity=0.072 Sum_probs=20.1
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQS 93 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~ 93 (178)
.-+.+..||+|+|||-+.+...-+.
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L 81 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARAL 81 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHh
Confidence 4589999999999998887655443
No 417
>KOG1807|consensus
Probab=88.89 E-value=2.1 Score=38.55 Aligned_cols=80 Identities=16% Similarity=0.074 Sum_probs=56.8
Q ss_pred HHHHHHhC--CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhc---CCCceEEEEcCcHHHHHHHH
Q psy9277 43 LLRGIYAY--GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQ---LRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 43 i~~~l~~~--g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~---~~~~~~lil~Pt~~L~~q~~ 117 (178)
+++++... |...+..-|..|+...+..+--++++|+|+|||++-+..+-..+..+ ....-.+++|-|..-+.|..
T Consensus 365 ~~n~lePp~~g~~ildsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~l 444 (1025)
T KOG1807|consen 365 IVNALEPPGPGLVILDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYL 444 (1025)
T ss_pred hhhhcCCCCCCceeecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHH
Confidence 44444322 33456678999999999999999999999999999876554444332 12235788898988888877
Q ss_pred HHHHH
Q psy9277 118 KVVLA 122 (178)
Q Consensus 118 ~~~~~ 122 (178)
..+..
T Consensus 445 igiy~ 449 (1025)
T KOG1807|consen 445 IGIYY 449 (1025)
T ss_pred HHHHh
Confidence 76643
No 418
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=88.84 E-value=0.98 Score=37.11 Aligned_cols=37 Identities=22% Similarity=0.351 Sum_probs=23.1
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCL 106 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil 106 (178)
..++++.||+|+|||.+.- .++..+.....+...+++
T Consensus 55 ~~~~lI~G~~GtGKT~l~~-~v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTVK-KVFEELEEIAVKVVYVYI 91 (394)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHHhcCCcEEEEE
Confidence 3689999999999997743 334444332223444554
No 419
>PTZ00301 uridine kinase; Provisional
Probab=88.73 E-value=1.1 Score=33.97 Aligned_cols=15 Identities=27% Similarity=0.377 Sum_probs=13.0
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
+.|.|++|||||...
T Consensus 6 IgIaG~SgSGKTTla 20 (210)
T PTZ00301 6 IGISGASGSGKSSLS 20 (210)
T ss_pred EEEECCCcCCHHHHH
Confidence 578899999999776
No 420
>PRK07261 topology modulation protein; Provisional
Probab=88.71 E-value=0.36 Score=35.18 Aligned_cols=17 Identities=24% Similarity=0.341 Sum_probs=14.6
Q ss_pred cEEEEcCCCChHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFS 87 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~l 87 (178)
.++++|++|||||..+-
T Consensus 2 ri~i~G~~GsGKSTla~ 18 (171)
T PRK07261 2 KIAIIGYSGSGKSTLAR 18 (171)
T ss_pred EEEEEcCCCCCHHHHHH
Confidence 47899999999997764
No 421
>PRK14530 adenylate kinase; Provisional
Probab=88.68 E-value=0.35 Score=36.44 Aligned_cols=20 Identities=20% Similarity=0.295 Sum_probs=16.6
Q ss_pred cCCcEEEEcCCCChHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~l 87 (178)
.+..+++.||+|||||...-
T Consensus 2 ~~~~I~i~G~pGsGKsT~~~ 21 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQSS 21 (215)
T ss_pred CCCEEEEECCCCCCHHHHHH
Confidence 46689999999999997653
No 422
>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=88.66 E-value=1.5 Score=31.85 Aligned_cols=41 Identities=12% Similarity=0.135 Sum_probs=25.4
Q ss_pred HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 67 VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
.....|++.|++|+||++++- .++.......++.+.+=|..
T Consensus 20 ~~~~pVlI~GE~GtGK~~lA~--~IH~~s~r~~~pfi~vnc~~ 60 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELLAR--AIHNNSPRKNGPFISVNCAA 60 (168)
T ss_dssp TSTS-EEEECSTTSSHHHHHH--HHHHCSTTTTS-EEEEETTT
T ss_pred CCCCCEEEEcCCCCcHHHHHH--HHHHhhhcccCCeEEEehhh
Confidence 346899999999999997653 33433333345666665554
No 423
>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=88.65 E-value=0.83 Score=38.37 Aligned_cols=18 Identities=22% Similarity=0.479 Sum_probs=15.9
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
+++++.+|||+|||..+-
T Consensus 48 ~~ILLiGppG~GKT~lAr 65 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIAR 65 (441)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 699999999999997653
No 424
>KOG0391|consensus
Probab=88.59 E-value=4.1 Score=38.70 Aligned_cols=106 Identities=18% Similarity=0.146 Sum_probs=69.8
Q ss_pred CcHHHHHHHHHHH---c-CCcEEEEcCCCChHHHHHHHHHHHHhhhc-CCCceEEEEcCcHHHHHHHHHHHHHhccCCCc
Q psy9277 55 PSAIQQRSIKPIV---K-GRDVIAQAQSGTGKTATFSISILQSLDTQ-LRETQVLCLSPTRELAVQIQKVVLALGDFMNV 129 (178)
Q Consensus 55 ~~~~Q~~~i~~i~---~-g~~v~v~aptGsGKTl~~ll~il~~l~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~ 129 (178)
++.+|..-+..+. + +-|-++.-.-|-|||.- .+.++.++..+ .+.+=-|||+||-.+.+. ...+++++- ++
T Consensus 616 LReYQkiGLdWLatLYeknlNGILADEmGLGKTIQ-tISllAhLACeegnWGPHLIVVpTsviLnW-EMElKRwcP--gl 691 (1958)
T KOG0391|consen 616 LREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQ-TISLLAHLACEEGNWGPHLIVVPTSVILNW-EMELKRWCP--GL 691 (1958)
T ss_pred HHHHHHhhHHHHHHHHHhcccceehhhhcccchhH-HHHHHHHHHhcccCCCCceEEeechhhhhh-hHHHhhhCC--cc
Confidence 5667777665433 2 56888888999999965 34556666543 333456899999776553 334677754 78
Q ss_pred eEEEEEcCccHHHHHHH-hc--CCCcEEEeChHHHHHH
Q psy9277 130 QCHACIGGTNLSEDLRK-LD--YGQHVVSGTPGRVFDM 164 (178)
Q Consensus 130 ~~~~~~g~~~~~~~~~~-~~--~~~~IlV~TP~~l~~~ 164 (178)
++..++|........+. +. +..||+|+....+..-
T Consensus 692 KILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd 729 (1958)
T KOG0391|consen 692 KILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQD 729 (1958)
T ss_pred eEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhH
Confidence 88999988755433222 22 3469999988766443
No 425
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=88.59 E-value=0.6 Score=37.66 Aligned_cols=27 Identities=22% Similarity=0.412 Sum_probs=21.9
Q ss_pred HHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 60 QRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 60 ~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
..++-.++.|..+++.+|+|+|||...
T Consensus 34 ~~~l~a~~~~~~vll~G~PG~gKT~la 60 (329)
T COG0714 34 ELALLALLAGGHVLLEGPPGVGKTLLA 60 (329)
T ss_pred HHHHHHHHcCCCEEEECCCCccHHHHH
Confidence 334456677999999999999999765
No 426
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=88.58 E-value=0.4 Score=34.87 Aligned_cols=19 Identities=32% Similarity=0.459 Sum_probs=16.3
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
|+-++++|++|||||...-
T Consensus 2 ~~~i~l~G~~gsGKst~a~ 20 (175)
T cd00227 2 GRIIILNGGSSAGKSSIAR 20 (175)
T ss_pred CCEEEEECCCCCCHHHHHH
Confidence 5679999999999997764
No 427
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=88.43 E-value=4.1 Score=34.03 Aligned_cols=63 Identities=14% Similarity=0.048 Sum_probs=37.0
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHH---HHHHHHHhccCCCceEEEEEcCcc
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQ---IQKVVLALGDFMNVQCHACIGGTN 139 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q---~~~~~~~~~~~~~~~~~~~~g~~~ 139 (178)
.+.++-||+|+|||..+-+-.-. -+....-+..+.+=+.+ +.+..++.... |-+++++.+...
T Consensus 49 ~SmIl~GPPG~GKTTlA~liA~~------~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~-gr~tiLflDEIH 114 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLIAGT------TNAAFEALSAVTSGVKDLREIIEEARKNRLL-GRRTILFLDEIH 114 (436)
T ss_pred ceeEEECCCCCCHHHHHHHHHHh------hCCceEEeccccccHHHHHHHHHHHHHHHhc-CCceEEEEehhh
Confidence 48999999999999776442211 22234445555444444 44444444332 677777776653
No 428
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.38 E-value=9.3 Score=32.96 Aligned_cols=18 Identities=28% Similarity=0.403 Sum_probs=15.1
Q ss_pred cEEEEcCCCChHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll 88 (178)
-++++||+|+|||.+...
T Consensus 38 a~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARL 55 (504)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 359999999999988653
No 429
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=88.37 E-value=3.2 Score=32.50 Aligned_cols=30 Identities=30% Similarity=0.483 Sum_probs=21.6
Q ss_pred HHHcCC-cEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 65 PIVKGR-DVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 65 ~i~~g~-~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
.+..|+ -+.++++.|||||..-- .++..+.
T Consensus 46 ~i~d~qg~~~vtGevGsGKTv~~R-al~~s~~ 76 (269)
T COG3267 46 AIADGQGILAVTGEVGSGKTVLRR-ALLASLN 76 (269)
T ss_pred HHhcCCceEEEEecCCCchhHHHH-HHHHhcC
Confidence 344455 78999999999998876 4554443
No 430
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=88.31 E-value=4.8 Score=33.69 Aligned_cols=29 Identities=31% Similarity=0.390 Sum_probs=20.7
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
+-.|+.+++.||+|+|||.... .+...+.
T Consensus 165 ig~Gq~~~IvG~~g~GKTtL~~-~i~~~I~ 193 (415)
T TIGR00767 165 IGKGQRGLIVAPPKAGKTVLLQ-KIAQAIT 193 (415)
T ss_pred eCCCCEEEEECCCCCChhHHHH-HHHHhhc
Confidence 3358899999999999997543 3444443
No 431
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=88.23 E-value=8.8 Score=30.92 Aligned_cols=39 Identities=18% Similarity=0.281 Sum_probs=25.4
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhhhc-------------CCCceEEEEcCc
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLDTQ-------------LRETQVLCLSPT 109 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~~~-------------~~~~~~lil~Pt 109 (178)
...+++||.|+||+..+.. +...+... ...|-..++.|+
T Consensus 27 ha~Lf~G~~G~Gk~~~A~~-~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~ 78 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAALC-FIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPT 78 (314)
T ss_pred ceEEEECCCCCCHHHHHHH-HHHHHcCCCCCCCcHhcccccCCCCCEEEEecc
Confidence 4789999999999966532 33333221 233566888885
No 432
>PRK00300 gmk guanylate kinase; Provisional
Probab=88.19 E-value=0.41 Score=35.55 Aligned_cols=19 Identities=26% Similarity=0.504 Sum_probs=16.1
Q ss_pred cCCcEEEEcCCCChHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ 86 (178)
.|+-+++.||+|||||...
T Consensus 4 ~g~~i~i~G~sGsGKstl~ 22 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLV 22 (205)
T ss_pred CCCEEEEECCCCCCHHHHH
Confidence 4778999999999999643
No 433
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=88.18 E-value=0.41 Score=34.80 Aligned_cols=18 Identities=28% Similarity=0.427 Sum_probs=15.2
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
+-+++.||+|||||...-
T Consensus 2 ~~~~i~G~sGsGKttl~~ 19 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLD 19 (179)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 457899999999998764
No 434
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=88.14 E-value=1.8 Score=35.73 Aligned_cols=25 Identities=36% Similarity=0.672 Sum_probs=18.4
Q ss_pred CcEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 70 RDVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
.|+++.|+||+|||...-. ++..+.
T Consensus 43 ~n~~iyG~~GTGKT~~~~~-v~~~l~ 67 (366)
T COG1474 43 SNIIIYGPTGTGKTATVKF-VMEELE 67 (366)
T ss_pred ccEEEECCCCCCHhHHHHH-HHHHHH
Confidence 4799999999999977543 334343
No 435
>KOG2373|consensus
Probab=88.12 E-value=0.64 Score=38.11 Aligned_cols=89 Identities=16% Similarity=0.133 Sum_probs=46.9
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHH------------HHhc---cCCCceEEE
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVV------------LALG---DFMNVQCHA 133 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~------------~~~~---~~~~~~~~~ 133 (178)
|.=.++.+|||||||....=..+......-+...+=+=.|.+-|+.-+...+ +.+. +.+..-...
T Consensus 273 GElTvlTGpTGsGKTTFlsEYsLDL~~QGVnTLwgSFEi~n~rla~~mL~Qyagyrl~drl~~y~HWadrFErlplyfmt 352 (514)
T KOG2373|consen 273 GELTVLTGPTGSGKTTFLSEYSLDLFTQGVNTLWGSFEIPNKRLAHWMLVQYAGYRLLDRLNSYKHWADRFERLPLYFMT 352 (514)
T ss_pred CceEEEecCCCCCceeEehHhhHHHHhhhhhheeeeeecchHHHHHHHHHHHccCchHhhhhhhhHHHHHHhccchHhhh
Confidence 5678999999999997644444443332222223334446666665443322 1111 222333445
Q ss_pred EEcCccHHHHHHHhc------CCCcEEEeC
Q psy9277 134 CIGGTNLSEDLRKLD------YGQHVVSGT 157 (178)
Q Consensus 134 ~~g~~~~~~~~~~~~------~~~~IlV~T 157 (178)
+.|....+..+..+. +-+||||-.
T Consensus 353 fhgqq~~~~vi~~i~ha~yV~di~HViIDN 382 (514)
T KOG2373|consen 353 FHGQQFMEKVINEIAHAIYVEDIQHVIIDN 382 (514)
T ss_pred hcccchHHHHHHHHHHHHHHHhhhhhhhhh
Confidence 566666654444332 345777644
No 436
>KOG0392|consensus
Probab=88.08 E-value=3.4 Score=39.16 Aligned_cols=105 Identities=15% Similarity=0.118 Sum_probs=68.4
Q ss_pred CcHHHHHHHHHH--Hc--CCcEEEEcCCCChHHHHHHHHHHHHhhhcCC-----Cce-EEEEcCcHHHHHHHHHHHHHhc
Q psy9277 55 PSAIQQRSIKPI--VK--GRDVIAQAQSGTGKTATFSISILQSLDTQLR-----ETQ-VLCLSPTRELAVQIQKVVLALG 124 (178)
Q Consensus 55 ~~~~Q~~~i~~i--~~--g~~v~v~aptGsGKTl~~ll~il~~l~~~~~-----~~~-~lil~Pt~~L~~q~~~~~~~~~ 124 (178)
++.+|.+-+.-+ ++ +-+-++|-.-|-|||+-.+--+.......+. ... .+||||. .|+-.....+.+|+
T Consensus 976 LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf~ 1054 (1549)
T KOG0392|consen 976 LRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKFF 1054 (1549)
T ss_pred HHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHHhc
Confidence 567888866543 33 5688999999999997654333322222100 123 7999996 57777777777776
Q ss_pred cCCCceEEEEEcCccHHHHHHHhcCCCcEEEeChHHHH
Q psy9277 125 DFMNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 125 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~IlV~TP~~l~ 162 (178)
.. +++..++|........+.--+..+|+|+....+-
T Consensus 1055 pf--L~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~R 1090 (1549)
T KOG0392|consen 1055 PF--LKVLQYVGPPAERRELRDQYKNANIIVTSYDVVR 1090 (1549)
T ss_pred ch--hhhhhhcCChHHHHHHHhhccccceEEeeHHHHH
Confidence 55 5667777776655444443446799999987663
No 437
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=88.08 E-value=0.4 Score=38.51 Aligned_cols=18 Identities=22% Similarity=0.313 Sum_probs=15.1
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
+=++++||||||||....
T Consensus 5 ~~i~i~GptgsGKt~la~ 22 (307)
T PRK00091 5 KVIVIVGPTASGKTALAI 22 (307)
T ss_pred eEEEEECCCCcCHHHHHH
Confidence 347999999999997765
No 438
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=87.97 E-value=0.45 Score=42.72 Aligned_cols=54 Identities=19% Similarity=0.270 Sum_probs=31.2
Q ss_pred ccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 31 VSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 31 ~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
..+|++++-.+.+.+.|++. .+..+..++.. .+...+.+++.||+|+|||+..-
T Consensus 449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~---g~~~~~giLL~GppGtGKT~lak 505 (733)
T TIGR01243 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKM---GIRPPKGVLLFGPPGTGKTLLAK 505 (733)
T ss_pred ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhc---CCCCCceEEEECCCCCCHHHHHH
Confidence 45677777666666666442 11111111110 11224679999999999997653
No 439
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=87.95 E-value=0.33 Score=34.68 Aligned_cols=15 Identities=20% Similarity=0.406 Sum_probs=12.5
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
++++||+|||||..+
T Consensus 1 i~l~G~~GsGKSTla 15 (163)
T TIGR01313 1 FVLMGVAGSGKSTIA 15 (163)
T ss_pred CEEECCCCCCHHHHH
Confidence 468999999999654
No 440
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=87.92 E-value=0.41 Score=40.03 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=16.3
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
..++++.||||+|||..+-
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr 126 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQ 126 (412)
T ss_pred CceEEEEcCCCCCHHHHHH
Confidence 3679999999999998764
No 441
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=87.88 E-value=0.59 Score=32.73 Aligned_cols=15 Identities=27% Similarity=0.598 Sum_probs=12.6
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
+++.||+|||||...
T Consensus 2 i~i~GpsGsGKstl~ 16 (137)
T cd00071 2 IVLSGPSGVGKSTLL 16 (137)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999643
No 442
>KOG1533|consensus
Probab=87.84 E-value=0.64 Score=36.01 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=17.0
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhh
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLD 95 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~ 95 (178)
..+|+||+||||| .|...+.+.+.
T Consensus 4 gqvVIGPPgSGKs-TYc~g~~~fls 27 (290)
T KOG1533|consen 4 GQVVIGPPGSGKS-TYCNGMSQFLS 27 (290)
T ss_pred ceEEEcCCCCCcc-chhhhHHHHHH
Confidence 3589999999998 45555555443
No 443
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=87.82 E-value=8.5 Score=36.29 Aligned_cols=97 Identities=18% Similarity=0.124 Sum_probs=68.0
Q ss_pred HHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHh------------------------------hhcCCCceEEEEcC
Q psy9277 59 QQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSL------------------------------DTQLRETQVLCLSP 108 (178)
Q Consensus 59 Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l------------------------------~~~~~~~~~lil~P 108 (178)
|++-+..+....||+--+.|--=+|+--.+.=+..+ ..-.+++++.||.|
T Consensus 732 ~KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~~d~~~ireAI~REl~RgGQvfYv~N 811 (1139)
T COG1197 732 HKEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVSEYDDLLIREAILRELLRGGQVFYVHN 811 (1139)
T ss_pred HHHHHHHHhccCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcceEEEEecCChHHHHHHHHHHHhcCCEEEEEec
Confidence 566666666666666666666666644332222211 11235789999999
Q ss_pred cHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 109 TRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 109 t~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
..+-..++...++.+.. +.++++.+|.+...+....+. ...||+|||
T Consensus 812 rV~~Ie~~~~~L~~LVP--EarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~T 862 (1139)
T COG1197 812 RVESIEKKAERLRELVP--EARIAVAHGQMRERELEEVMLDFYNGEYDVLVCT 862 (1139)
T ss_pred chhhHHHHHHHHHHhCC--ceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEe
Confidence 99999999999998865 578999999998876655443 468999999
No 444
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=87.72 E-value=0.86 Score=36.49 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=30.8
Q ss_pred CCHHHHHHHHhCCCCCCcHHHHHHHHHHHcC---CcEEEEcCCCChHHHHH
Q psy9277 39 LREDLLRGIYAYGFEKPSAIQQRSIKPIVKG---RDVIAQAQSGTGKTATF 86 (178)
Q Consensus 39 l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g---~~v~v~aptGsGKTl~~ 86 (178)
+...+.+.|.+.++..+.+- ...|..+... .-+++.|++|+|||..+
T Consensus 60 l~~~V~~~L~~~~~~~~~~~-y~~~~~i~~~~~p~iIlI~G~sgsGKStlA 109 (301)
T PRK04220 60 LRRRVYYKLIEKDYEEVAEK-YLLWRRIRKSKEPIIILIGGASGVGTSTIA 109 (301)
T ss_pred HHHHHHHHHHHhCcHhHHHH-HHHHHHHhcCCCCEEEEEECCCCCCHHHHH
Confidence 44566677777776654432 4444444442 36899999999999754
No 445
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=87.69 E-value=0.37 Score=33.20 Aligned_cols=20 Identities=25% Similarity=0.386 Sum_probs=16.9
Q ss_pred HcCCcEEEEcCCCChHHHHH
Q psy9277 67 VKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ 86 (178)
..|.-+.+.|++|+|||...
T Consensus 9 ~~g~~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKSTLL 28 (137)
T ss_dssp ETTSEEEEEESTTSSHHHHH
T ss_pred cCCCEEEEEccCCCccccce
Confidence 45788999999999999654
No 446
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=87.68 E-value=0.45 Score=32.10 Aligned_cols=21 Identities=29% Similarity=0.237 Sum_probs=17.4
Q ss_pred cCCcEEEEcCCCChHHHHHHH
Q psy9277 68 KGRDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll 88 (178)
.|+-+.+.+|+|+|||....+
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~~ 34 (107)
T cd00820 14 GKVGVLITGDSGIGKTELALE 34 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHHH
Confidence 467899999999999976644
No 447
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=87.67 E-value=9.4 Score=35.02 Aligned_cols=19 Identities=26% Similarity=0.349 Sum_probs=16.0
Q ss_pred cEEEEcCCCChHHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSIS 89 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~ 89 (178)
-+++++|.|+|||.+..+-
T Consensus 39 a~Lf~Gp~G~GKTt~A~~l 57 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARIL 57 (824)
T ss_pred eEEEECCCCCCHHHHHHHH
Confidence 4799999999999887653
No 448
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=87.64 E-value=4.5 Score=36.20 Aligned_cols=59 Identities=12% Similarity=0.114 Sum_probs=45.3
Q ss_pred HHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhcc
Q psy9277 65 PIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGD 125 (178)
Q Consensus 65 ~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~ 125 (178)
..++.+-.++.+|-|.|||++..+.+...+.. .+.+++|.+|...-++++++.+..+..
T Consensus 183 ~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f--~Gi~IlvTAH~~~ts~evF~rv~~~le 241 (752)
T PHA03333 183 DEYGKCYTAATVPRRCGKTTIMAIILAAMISF--LEIDIVVQAQRKTMCLTLYNRVETVVH 241 (752)
T ss_pred HHHhhcceEEEeccCCCcHHHHHHHHHHHHHh--cCCeEEEECCChhhHHHHHHHHHHHHH
Confidence 34456778889999999999877665544432 357899999999999999988766654
No 449
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=87.60 E-value=4.2 Score=33.04 Aligned_cols=86 Identities=23% Similarity=0.226 Sum_probs=50.1
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC-c-HHHHHHHHHHHHHhccCCCceEEEE-EcCccHHHH----
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP-T-RELAVQIQKVVLALGDFMNVQCHAC-IGGTNLSED---- 143 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P-t-~~L~~q~~~~~~~~~~~~~~~~~~~-~g~~~~~~~---- 143 (178)
-+++++-.|+|||...-- +.+.+.+ .+.++++.+- | |+=|.++...+- +..|+.++.- .|..+..--
T Consensus 141 Vil~vGVNG~GKTTTIaK--LA~~l~~-~g~~VllaA~DTFRAaAiEQL~~w~---er~gv~vI~~~~G~DpAaVafDAi 214 (340)
T COG0552 141 VILFVGVNGVGKTTTIAK--LAKYLKQ-QGKSVLLAAGDTFRAAAIEQLEVWG---ERLGVPVISGKEGADPAAVAFDAI 214 (340)
T ss_pred EEEEEecCCCchHhHHHH--HHHHHHH-CCCeEEEEecchHHHHHHHHHHHHH---HHhCCeEEccCCCCCcHHHHHHHH
Confidence 478899999999977532 2222222 4445555552 2 787777766663 3347766652 455444221
Q ss_pred HHHhcCCCc-EEEeChHHHH
Q psy9277 144 LRKLDYGQH-VVSGTPGRVF 162 (178)
Q Consensus 144 ~~~~~~~~~-IlV~TP~~l~ 162 (178)
.....++.| ++|=|.|||+
T Consensus 215 ~~Akar~~DvvliDTAGRLh 234 (340)
T COG0552 215 QAAKARGIDVVLIDTAGRLH 234 (340)
T ss_pred HHHHHcCCCEEEEeCccccc
Confidence 122235665 5577999984
No 450
>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=87.56 E-value=0.44 Score=39.85 Aligned_cols=18 Identities=22% Similarity=0.416 Sum_probs=15.7
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
.++++.+|||+|||..+-
T Consensus 117 ~~iLL~GP~GsGKT~lAr 134 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQ 134 (413)
T ss_pred ceEEEECCCCcCHHHHHH
Confidence 579999999999998763
No 451
>PRK14737 gmk guanylate kinase; Provisional
Probab=87.45 E-value=0.57 Score=34.70 Aligned_cols=18 Identities=22% Similarity=0.355 Sum_probs=15.0
Q ss_pred CCcEEEEcCCCChHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ 86 (178)
++-++++||+|+|||...
T Consensus 4 ~~~ivl~GpsG~GK~tl~ 21 (186)
T PRK14737 4 PKLFIISSVAGGGKSTII 21 (186)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 556899999999999654
No 452
>KOG1205|consensus
Probab=87.36 E-value=6.1 Score=31.40 Aligned_cols=86 Identities=13% Similarity=0.209 Sum_probs=54.7
Q ss_pred HcCCcEEEEcC-CCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHH
Q psy9277 67 VKGRDVIAQAQ-SGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLR 145 (178)
Q Consensus 67 ~~g~~v~v~ap-tGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 145 (178)
..|+-++|.|- .|-|+.++|.+.- .+.+.+.++-+..-.+.+.+.+++..... ++..+..+.+..++..
T Consensus 10 ~~~kvVvITGASsGIG~~lA~~la~--------~G~~l~lvar~~rrl~~v~~~l~~~~~~~--~v~~~~~Dvs~~~~~~ 79 (282)
T KOG1205|consen 10 LAGKVVLITGASSGIGEALAYELAK--------RGAKLVLVARRARRLERVAEELRKLGSLE--KVLVLQLDVSDEESVK 79 (282)
T ss_pred hCCCEEEEeCCCcHHHHHHHHHHHh--------CCCceEEeehhhhhHHHHHHHHHHhCCcC--ccEEEeCccCCHHHHH
Confidence 45677777765 7899999997643 44455555555555555667777766544 5666666665544433
Q ss_pred -------HhcCCCcEEEeChHHHH
Q psy9277 146 -------KLDYGQHVVSGTPGRVF 162 (178)
Q Consensus 146 -------~~~~~~~IlV~TP~~l~ 162 (178)
....+.||+|.+.|...
T Consensus 80 ~~~~~~~~~fg~vDvLVNNAG~~~ 103 (282)
T KOG1205|consen 80 KFVEWAIRHFGRVDVLVNNAGISL 103 (282)
T ss_pred HHHHHHHHhcCCCCEEEecCcccc
Confidence 22357899998887653
No 453
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=87.32 E-value=2.7 Score=35.19 Aligned_cols=40 Identities=20% Similarity=0.073 Sum_probs=25.8
Q ss_pred HHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 66 IVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
+..|.-+++.|++|+|||...+--+.+.... .+..+++++
T Consensus 192 ~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~--~g~~vl~~S 231 (434)
T TIGR00665 192 LQPSDLIILAARPSMGKTAFALNIAENAAIK--EGKPVAFFS 231 (434)
T ss_pred CCCCeEEEEEeCCCCChHHHHHHHHHHHHHh--CCCeEEEEe
Confidence 3446788999999999997665444443332 234566665
No 454
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=87.28 E-value=6.6 Score=35.52 Aligned_cols=109 Identities=17% Similarity=0.077 Sum_probs=67.8
Q ss_pred CCCcHHHHHHHHHHH-----cCCcEEEEcCCCChHHHHHHHHHHHHhhhcCC-CceEEEEcCcHHHHHHHHHHHHHhccC
Q psy9277 53 EKPSAIQQRSIKPIV-----KGRDVIAQAQSGTGKTATFSISILQSLDTQLR-ETQVLCLSPTRELAVQIQKVVLALGDF 126 (178)
Q Consensus 53 ~~~~~~Q~~~i~~i~-----~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~-~~~~lil~Pt~~L~~q~~~~~~~~~~~ 126 (178)
..+.++|.+.+..+. .+.+.++...-|-|||+-.+..+.+....... .+.+++++|+..+ .+..+.+.++...
T Consensus 337 ~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~-~nw~~e~~k~~~~ 415 (866)
T COG0553 337 AELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLL-SNWKREFEKFAPD 415 (866)
T ss_pred hhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHH-HHHHHHHhhhCcc
Confidence 456788888776544 16788888999999997766555442222222 3578999997554 4455555666544
Q ss_pred CCceEEEEEcCccH----HHHHHHhcC-C----CcEEEeChHHHHH
Q psy9277 127 MNVQCHACIGGTNL----SEDLRKLDY-G----QHVVSGTPGRVFD 163 (178)
Q Consensus 127 ~~~~~~~~~g~~~~----~~~~~~~~~-~----~~IlV~TP~~l~~ 163 (178)
... +....|.... .+....+.+ . .+++++|-+.+..
T Consensus 416 ~~~-~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~ 460 (866)
T COG0553 416 LRL-VLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRR 460 (866)
T ss_pred ccc-eeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHH
Confidence 332 5566665541 222222222 2 6899999988876
No 455
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=87.19 E-value=0.48 Score=38.02 Aligned_cols=17 Identities=24% Similarity=0.282 Sum_probs=14.1
Q ss_pred cEEEEcCCCChHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFS 87 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~l 87 (178)
=++++|||+||||-..+
T Consensus 5 ~i~I~GPTAsGKT~lai 21 (308)
T COG0324 5 LIVIAGPTASGKTALAI 21 (308)
T ss_pred EEEEECCCCcCHHHHHH
Confidence 37899999999996653
No 456
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=87.16 E-value=1.3 Score=33.62 Aligned_cols=15 Identities=20% Similarity=0.222 Sum_probs=12.6
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
+-+.|++|||||...
T Consensus 2 igI~G~sGSGKTTla 16 (220)
T cd02025 2 IGIAGSVAVGKSTTA 16 (220)
T ss_pred EEeeCCCCCCHHHHH
Confidence 457899999999775
No 457
>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=87.16 E-value=0.53 Score=34.16 Aligned_cols=18 Identities=28% Similarity=0.479 Sum_probs=14.8
Q ss_pred CCcEEEEcCCCChHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ 86 (178)
|+-+++.||+|||||...
T Consensus 1 g~ii~l~G~~GsGKsTl~ 18 (180)
T TIGR03263 1 GLLIVISGPSGVGKSTLV 18 (180)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 456899999999999753
No 458
>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=87.05 E-value=1.7 Score=35.15 Aligned_cols=46 Identities=20% Similarity=0.165 Sum_probs=28.3
Q ss_pred HHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 61 RSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 61 ~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
++-.....+..|++.|++|+||+.++- .++.......++.+.+=|.
T Consensus 14 ~~~~~a~~~~pVLI~GE~GtGK~~lAr--~iH~~s~r~~~pfv~vnc~ 59 (329)
T TIGR02974 14 QVSRLAPLDRPVLIIGERGTGKELIAA--RLHYLSKRWQGPLVKLNCA 59 (329)
T ss_pred HHHHHhCCCCCEEEECCCCChHHHHHH--HHHHhcCccCCCeEEEeCC
Confidence 333344457899999999999997653 3443333334455555443
No 459
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=86.91 E-value=1.1 Score=40.74 Aligned_cols=38 Identities=18% Similarity=0.310 Sum_probs=23.5
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTR 110 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~ 110 (178)
+.+|.|+||+|||...-.-+.+ +... .+.+++++=+.+
T Consensus 443 n~~I~G~tGsGKS~l~~~l~~~-~~~~-~g~~v~i~D~~~ 480 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLALMALQ-FRRY-PGAQVFAFDFGG 480 (811)
T ss_pred eEEEECCCCCCHHHHHHHHHHH-hhhc-CCCeEEEEeCCC
Confidence 8999999999999776543332 2211 234555555544
No 460
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=86.75 E-value=1.2 Score=33.47 Aligned_cols=42 Identities=19% Similarity=0.126 Sum_probs=26.5
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhc---CCCceEEEEcCc
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQ---LRETQVLCLSPT 109 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~---~~~~~~lil~Pt 109 (178)
.|.-+.+.|++|+|||...+.-+...+... .....++|+...
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e 62 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTE 62 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecC
Confidence 367899999999999987765444432211 011466776654
No 461
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=86.72 E-value=1.8 Score=36.78 Aligned_cols=41 Identities=17% Similarity=0.351 Sum_probs=32.3
Q ss_pred cccccccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 28 VEVVSTFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 28 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
+-...+.++++|++.+.+.|.+ +.+.+++.+|+|+|||..+
T Consensus 240 Pvvk~~ledY~L~dkl~eRL~e------------------raeGILIAG~PGaGKsTFa 280 (604)
T COG1855 240 PVVKLSLEDYGLSDKLKERLEE------------------RAEGILIAGAPGAGKSTFA 280 (604)
T ss_pred eeEEechhhcCCCHHHHHHHHh------------------hhcceEEecCCCCChhHHH
Confidence 4456778899999999888754 2467999999999999554
No 462
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=86.69 E-value=0.54 Score=33.65 Aligned_cols=19 Identities=32% Similarity=0.419 Sum_probs=16.7
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
|+.+++++++|+|||...+
T Consensus 14 g~gvLi~G~sG~GKStlal 32 (149)
T cd01918 14 GIGVLITGPSGIGKSELAL 32 (149)
T ss_pred CEEEEEEcCCCCCHHHHHH
Confidence 7889999999999997663
No 463
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=86.68 E-value=4.6 Score=37.59 Aligned_cols=56 Identities=18% Similarity=0.245 Sum_probs=44.8
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc------CCCcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD------YGQHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~------~~~~IlV~T 157 (178)
.+.++||+|.+++-+..+.+.++. ..|+++..++|+++..++...+. .++.|+|+|
T Consensus 492 ~~~KvLVF~~~~~t~~~L~~~L~~---~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsT 553 (956)
T PRK04914 492 RSEKVLVICAKAATALQLEQALRE---REGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCS 553 (956)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHhh---ccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEec
Confidence 356999999999999999988843 23789999999998877655543 257899999
No 464
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=86.65 E-value=3.3 Score=34.59 Aligned_cols=45 Identities=24% Similarity=0.187 Sum_probs=29.1
Q ss_pred HHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEc
Q psy9277 61 RSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLS 107 (178)
Q Consensus 61 ~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~ 107 (178)
..+.-+..|.-+++.|++|+|||...+--+.+.... .+..++|++
T Consensus 186 ~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~--~g~~v~~fS 230 (421)
T TIGR03600 186 RLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALR--EGKPVLFFS 230 (421)
T ss_pred HHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh--CCCcEEEEE
Confidence 334445557789999999999997766554443322 244566666
No 465
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=86.63 E-value=1.8 Score=34.93 Aligned_cols=44 Identities=18% Similarity=0.181 Sum_probs=27.4
Q ss_pred HHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCc
Q psy9277 64 KPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPT 109 (178)
Q Consensus 64 ~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt 109 (178)
.....+..|++.|.+|+||+.++- .++.......++.+.+=|..
T Consensus 24 ~~a~~~~pVlI~GE~GtGK~~lA~--~iH~~s~r~~~pfv~v~c~~ 67 (326)
T PRK11608 24 RLAPLDKPVLIIGERGTGKELIAS--RLHYLSSRWQGPFISLNCAA 67 (326)
T ss_pred HHhCCCCCEEEECCCCCcHHHHHH--HHHHhCCccCCCeEEEeCCC
Confidence 334458899999999999997653 33433332334555554443
No 466
>PRK09694 helicase Cas3; Provisional
Probab=86.55 E-value=5.8 Score=36.58 Aligned_cols=58 Identities=14% Similarity=0.156 Sum_probs=41.2
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHH-------HHh-cCC----CcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDL-------RKL-DYG----QHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~-~~~----~~IlV~T 157 (178)
.+.+++|+++|++-|+++++.+++... .+..+.++++.....++. ... +++ ..|+|+|
T Consensus 559 ~g~~vLVf~NTV~~Aq~ly~~L~~~~~-~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaT 628 (878)
T PRK09694 559 AGAQVCLICNLVDDAQKLYQRLKELNN-TQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVAT 628 (878)
T ss_pred cCCEEEEEECCHHHHHHHHHHHHhhCC-CCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEEC
Confidence 466899999999999999999986532 146788888887654441 112 222 3699999
No 467
>KOG4150|consensus
Probab=86.54 E-value=1.6 Score=38.20 Aligned_cols=92 Identities=17% Similarity=0.231 Sum_probs=65.9
Q ss_pred CCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHH
Q psy9277 38 GLREDLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQ 117 (178)
Q Consensus 38 ~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~ 117 (178)
++++..-.++...|...++..|.+++..++. |+++|-.|+.+.+...- ...++|+.|+.++|+.+.
T Consensus 371 ~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~-------------~~~~~~~~~~~~~~~~~-~~~~~Y~~~~~~~~~~~~ 436 (1034)
T KOG4150|consen 371 KLSETTKSALKRIGLNTLYSHQAEAISAALA-------------KSLCYNVPVFEELCKDT-NSCALYLFPTKALAQDQL 436 (1034)
T ss_pred CCCchhHHHHHhcCcceeecCHHHHHHHHhh-------------hccccccHHHHHHHhcc-cceeeeecchhhHHHHHH
Confidence 4667777888888888888889888877664 44566667766554433 358999999999999999
Q ss_pred HHHHHhccCC--CceEEEEEcCccHHHH
Q psy9277 118 KVVLALGDFM--NVQCHACIGGTNLSED 143 (178)
Q Consensus 118 ~~~~~~~~~~--~~~~~~~~g~~~~~~~ 143 (178)
+.+.++++.+ .+....+.|+...++.
T Consensus 437 R~L~~L~~~F~~~~~~~~~~~~~~~K~~ 464 (1034)
T KOG4150|consen 437 RALSDLIKGFEASINMGVYDGDTPYKDR 464 (1034)
T ss_pred HHHHHHHHHHHhhcCcceEeCCCCcCCH
Confidence 9988877654 3344455566555443
No 468
>PRK13767 ATP-dependent helicase; Provisional
Probab=86.52 E-value=6.4 Score=36.33 Aligned_cols=59 Identities=14% Similarity=-0.065 Sum_probs=43.6
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHhccC--CCceEEEEEcCccHHHHHHHh---cC-CCcEEEeCh
Q psy9277 100 ETQVLCLSPTRELAVQIQKVVLALGDF--MNVQCHACIGGTNLSEDLRKL---DY-GQHVVSGTP 158 (178)
Q Consensus 100 ~~~~lil~Pt~~L~~q~~~~~~~~~~~--~~~~~~~~~g~~~~~~~~~~~---~~-~~~IlV~TP 158 (178)
+.++||.|+|+..|..++..+++.... .+..+...+|+.+.+++.... ++ ...|+|||.
T Consensus 284 ~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs 348 (876)
T PRK13767 284 HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSST 348 (876)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECC
Confidence 457999999999999999988765332 346678889998877654433 23 368999986
No 469
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=86.47 E-value=0.71 Score=34.97 Aligned_cols=21 Identities=38% Similarity=0.547 Sum_probs=18.0
Q ss_pred HHcCCcEEEEcCCCChHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..|..+++.+|+|||||...
T Consensus 28 ia~ge~vv~lGpSGcGKTTLL 48 (259)
T COG4525 28 IASGELVVVLGPSGCGKTTLL 48 (259)
T ss_pred ecCCCEEEEEcCCCccHHHHH
Confidence 456899999999999999654
No 470
>KOG0340|consensus
Probab=86.39 E-value=4.4 Score=33.33 Aligned_cols=69 Identities=12% Similarity=0.209 Sum_probs=48.5
Q ss_pred HHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 85 TFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 85 ~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
+|+.-++...... ....++|.+.+.--++-++..++.+ +++++.+++.++.+++...+. +...|+|+|-
T Consensus 240 aYLv~~Lr~~~~~-~~~simIFvnttr~cQ~l~~~l~~l----e~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTD 312 (442)
T KOG0340|consen 240 AYLVHLLRDFENK-ENGSIMIFVNTTRECQLLSMTLKNL----EVRVVSLHSQMPQKERLAALSRFRSNAARILIATD 312 (442)
T ss_pred HHHHHHHhhhhhc-cCceEEEEeehhHHHHHHHHHHhhh----ceeeeehhhcchHHHHHHHHHHHhhcCccEEEEec
Confidence 4555555443332 3456777787776676666666544 999999999999998887774 4578999994
No 471
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=86.39 E-value=0.55 Score=37.05 Aligned_cols=18 Identities=33% Similarity=0.445 Sum_probs=15.8
Q ss_pred CCcEEEEcCCCChHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ 86 (178)
-+|++..+|+|+|||+.+
T Consensus 151 PknVLFyGppGTGKTm~A 168 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMA 168 (368)
T ss_pred cceeEEECCCCccHHHHH
Confidence 479999999999999654
No 472
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=86.33 E-value=4.6 Score=31.23 Aligned_cols=40 Identities=28% Similarity=0.194 Sum_probs=27.5
Q ss_pred HcCCcEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcC
Q psy9277 67 VKGRDVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSP 108 (178)
Q Consensus 67 ~~g~~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~P 108 (178)
..|.=+++.|+||.|||...+-.+.+.... .+..++|++.
T Consensus 17 ~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~--~~~~vly~Sl 56 (259)
T PF03796_consen 17 RPGELTVIAARPGVGKTAFALQIALNAALN--GGYPVLYFSL 56 (259)
T ss_dssp -TT-EEEEEESTTSSHHHHHHHHHHHHHHT--TSSEEEEEES
T ss_pred CcCcEEEEEecccCCchHHHHHHHHHHHHh--cCCeEEEEcC
Confidence 345678999999999998776666555443 2357888774
No 473
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=86.30 E-value=1.7 Score=33.42 Aligned_cols=59 Identities=19% Similarity=0.147 Sum_probs=31.7
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCc
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGT 138 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~ 138 (178)
++++.||+|.|||..+.+-+ + .........-.|..+-+.++...+..+. -..+++.+..
T Consensus 52 h~lf~GPPG~GKTTLA~IIA-~----e~~~~~~~~sg~~i~k~~dl~~il~~l~----~~~ILFIDEI 110 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTLARIIA-N----ELGVNFKITSGPAIEKAGDLAAILTNLK----EGDILFIDEI 110 (233)
T ss_dssp EEEEESSTTSSHHHHHHHHH-H----HCT--EEEEECCC--SCHHHHHHHHT------TT-EEEECTC
T ss_pred eEEEECCCccchhHHHHHHH-h----ccCCCeEeccchhhhhHHHHHHHHHhcC----CCcEEEEech
Confidence 79999999999997654322 1 1122344445566555566665555442 2345566554
No 474
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=86.28 E-value=2.3 Score=33.94 Aligned_cols=42 Identities=24% Similarity=0.198 Sum_probs=25.1
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHH
Q psy9277 73 IAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQ 115 (178)
Q Consensus 73 ~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q 115 (178)
++.++.|+|||.+....++...........+++. ++..-+.+
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~ 42 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARD 42 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHH
Confidence 4678999999999887777766554333345555 66555555
No 475
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=86.20 E-value=0.46 Score=42.65 Aligned_cols=54 Identities=20% Similarity=0.274 Sum_probs=31.4
Q ss_pred cccccccCCCCHHHHHHHHhC---CCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 30 VVSTFDNMGLREDLLRGIYAY---GFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 30 ~~~~f~~~~l~~~i~~~l~~~---g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..+|++++-.+...+.++++ .+..+...+.. .+..++.+++.||+|+|||...
T Consensus 173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~---gi~~~~giLL~GppGtGKT~la 229 (733)
T TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHL---GIEPPKGVLLYGPPGTGKTLLA 229 (733)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCceEEEECCCCCChHHHH
Confidence 456788876555555555432 11111111111 1234689999999999999664
No 476
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=86.18 E-value=0.58 Score=34.65 Aligned_cols=15 Identities=33% Similarity=0.390 Sum_probs=12.9
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
|.|+||+|||||...
T Consensus 2 IgI~G~sgSGKTTla 16 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLA 16 (194)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999765
No 477
>PRK13342 recombination factor protein RarA; Reviewed
Probab=86.11 E-value=6.3 Score=32.92 Aligned_cols=19 Identities=37% Similarity=0.438 Sum_probs=15.9
Q ss_pred CcEEEEcCCCChHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSI 88 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll 88 (178)
.++++.||+|+|||...-.
T Consensus 37 ~~ilL~GppGtGKTtLA~~ 55 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARI 55 (413)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3899999999999977643
No 478
>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=86.10 E-value=0.2 Score=43.25 Aligned_cols=19 Identities=37% Similarity=0.445 Sum_probs=16.7
Q ss_pred CCcEEEEcCCCChHHHHHH
Q psy9277 69 GRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~l 87 (178)
..++++.||+|+|||.++-
T Consensus 86 ~~~vLi~Ge~GtGKt~lAr 104 (531)
T TIGR02902 86 PQHVIIYGPPGVGKTAAAR 104 (531)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 4789999999999998764
No 479
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=86.00 E-value=0.65 Score=32.58 Aligned_cols=17 Identities=24% Similarity=0.356 Sum_probs=14.6
Q ss_pred cEEEEcCCCChHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFS 87 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~l 87 (178)
+++++|++|||||...-
T Consensus 1 ~i~l~G~~GsGKstla~ 17 (154)
T cd00464 1 NIVLIGMMGAGKTTVGR 17 (154)
T ss_pred CEEEEcCCCCCHHHHHH
Confidence 58899999999997763
No 480
>KOG0731|consensus
Probab=85.99 E-value=0.55 Score=42.08 Aligned_cols=56 Identities=20% Similarity=0.272 Sum_probs=32.9
Q ss_pred ccccccccccCC-CCH---HHHHHHHhCCCCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHH
Q psy9277 27 DVEVVSTFDNMG-LRE---DLLRGIYAYGFEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 27 ~~~~~~~f~~~~-l~~---~i~~~l~~~g~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~l 87 (178)
+.+...+|+|.. +++ ++.+-+.= .+.|-.+|.. -+.--+.+++++|+|+|||+.+-
T Consensus 303 ~~~t~V~FkDVAG~deAK~El~E~V~f--LKNP~~Y~~l---GAKiPkGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 303 EGNTGVKFKDVAGVDEAKEELMEFVKF--LKNPEQYQEL---GAKIPKGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CCCCCCccccccCcHHHHHHHHHHHHH--hcCHHHHHHc---CCcCcCceEEECCCCCcHHHHHH
Confidence 555567888864 443 33333321 1233333332 22335799999999999998764
No 481
>PHA00729 NTP-binding motif containing protein
Probab=85.92 E-value=0.64 Score=35.64 Aligned_cols=50 Identities=14% Similarity=0.090 Sum_probs=30.1
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhc----------CCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQ----------LRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~----------~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
++++.|++|+|||..+.. +...+... -...+-.+++...+|...+...+.
T Consensus 19 nIlItG~pGvGKT~LA~a-La~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~ 78 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALK-VARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAID 78 (226)
T ss_pred EEEEECCCCCCHHHHHHH-HHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHh
Confidence 899999999999966543 22222100 011233455566777777766553
No 482
>KOG0733|consensus
Probab=85.92 E-value=1.1 Score=39.37 Aligned_cols=56 Identities=21% Similarity=0.277 Sum_probs=31.3
Q ss_pred cccccccccCC-CCHHHHHHHHhCC-CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHH
Q psy9277 28 VEVVSTFDNMG-LREDLLRGIYAYG-FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 28 ~~~~~~f~~~~-l~~~i~~~l~~~g-~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ 86 (178)
++.-.+|+++| ++..+.+...-.. ++.|-.+++- -+.=-+.+++++|+|+|||..+
T Consensus 183 ~~snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~l---Gv~PprGvLlHGPPGCGKT~lA 240 (802)
T KOG0733|consen 183 PESNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSL---GVRPPRGVLLHGPPGCGKTSLA 240 (802)
T ss_pred CCCCcchhhccChHHHHHHHHHHHHHhcCchhHhhc---CCCCCCceeeeCCCCccHHHHH
Confidence 33345788886 4443333322111 3333333322 1122579999999999999765
No 483
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=85.82 E-value=1.1 Score=33.96 Aligned_cols=41 Identities=15% Similarity=0.041 Sum_probs=26.5
Q ss_pred cCCcEEEEcCCCChHHHHHHHHHHHHhhhc---CCCceEEEEcC
Q psy9277 68 KGRDVIAQAQSGTGKTATFSISILQSLDTQ---LRETQVLCLSP 108 (178)
Q Consensus 68 ~g~~v~v~aptGsGKTl~~ll~il~~l~~~---~~~~~~lil~P 108 (178)
.|.-+.+.+++|+|||...+.-++...... ..+..++|+.-
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~ 61 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDT 61 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeC
Confidence 467889999999999988765544422211 01246777763
No 484
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=85.82 E-value=0.53 Score=38.28 Aligned_cols=21 Identities=33% Similarity=0.477 Sum_probs=17.4
Q ss_pred HHcCCcEEEEcCCCChHHHHH
Q psy9277 66 IVKGRDVIAQAQSGTGKTATF 86 (178)
Q Consensus 66 i~~g~~v~v~aptGsGKTl~~ 86 (178)
+..|.-+++.||+|||||...
T Consensus 26 i~~Gef~vllGPSGcGKSTlL 46 (338)
T COG3839 26 IEDGEFVVLLGPSGCGKSTLL 46 (338)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 345889999999999999653
No 485
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=85.80 E-value=1.4 Score=40.29 Aligned_cols=39 Identities=13% Similarity=0.161 Sum_probs=25.8
Q ss_pred cEEEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHH
Q psy9277 71 DVIAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRE 111 (178)
Q Consensus 71 ~v~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~ 111 (178)
+.+|.||||+|||...-.-+.+.... .+.+++++=|-++
T Consensus 490 h~~I~G~tGsGKS~l~~~L~~~~~k~--~~~~v~i~D~~~s 528 (852)
T PRK13891 490 HTFMFGPTGAGKSTHLGIIAAQLRRY--AGMSIYAFDKGMS 528 (852)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhc--CCCEEEEEcCCcc
Confidence 58999999999997765434332221 3457777777654
No 486
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=85.79 E-value=6.1 Score=31.39 Aligned_cols=40 Identities=28% Similarity=0.316 Sum_probs=26.5
Q ss_pred cccccCCCCHHHHHHHHhCCCCCCcHHHHHHHHHHHcC--CcEEE-EcCCCChHHHHH
Q psy9277 32 STFDNMGLREDLLRGIYAYGFEKPSAIQQRSIKPIVKG--RDVIA-QAQSGTGKTATF 86 (178)
Q Consensus 32 ~~f~~~~l~~~i~~~l~~~g~~~~~~~Q~~~i~~i~~g--~~v~v-~aptGsGKTl~~ 86 (178)
++|+++-.++.+.+.+... +.+| .++++ .||+|+|||...
T Consensus 18 ~~~~~~~~~~~~~~~l~~~---------------~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 18 STIDECILPAADKETFKSI---------------VKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcHHHhcCcHHHHHHHHHH---------------HhcCCCCeEEEeeCcCCCCHHHHH
Confidence 6777777777777666421 1123 24555 899999999764
No 487
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=85.77 E-value=8.2 Score=25.67 Aligned_cols=56 Identities=16% Similarity=0.219 Sum_probs=40.7
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHh---cC-CCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKL---DY-GQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---~~-~~~IlV~TP 158 (178)
.+.++|+.+++...+.++.+.+.+ .+..+..++|+.+..+..... .+ ...|+++|.
T Consensus 27 ~~~~~lvf~~~~~~~~~~~~~l~~----~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~ 86 (131)
T cd00079 27 KGGKVLIFCPSKKMLDELAELLRK----PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATD 86 (131)
T ss_pred CCCcEEEEeCcHHHHHHHHHHHHh----cCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcC
Confidence 356899999999999999988876 367788888887654443332 22 357888885
No 488
>KOG0330|consensus
Probab=85.74 E-value=2.8 Score=34.87 Aligned_cols=56 Identities=16% Similarity=0.145 Sum_probs=44.2
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeCh
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGTP 158 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~TP 158 (178)
.+..+||.|.|..-++.+.-.++.+ |+...-++|+++.+.+...+. ..++|+|||-
T Consensus 299 ~g~s~iVF~~t~~tt~~la~~L~~l----g~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TD 358 (476)
T KOG0330|consen 299 AGNSVIVFCNTCNTTRFLALLLRNL----GFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTD 358 (476)
T ss_pred cCCcEEEEEeccchHHHHHHHHHhc----CcceecccchhhHHHHHHHHHHHhccCCcEEEecc
Confidence 3457899999988888777777655 899999999999887766654 3589999993
No 489
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=85.74 E-value=1.6 Score=35.50 Aligned_cols=45 Identities=20% Similarity=0.127 Sum_probs=38.5
Q ss_pred CCCCcHHHHHHHHHHHcCCcEEEEcCCCChHHHHHHHHHHHHhhh
Q psy9277 52 FEKPSAIQQRSIKPIVKGRDVIAQAQSGTGKTATFSISILQSLDT 96 (178)
Q Consensus 52 ~~~~~~~Q~~~i~~i~~g~~v~v~aptGsGKTl~~ll~il~~l~~ 96 (178)
+.--++.|..=+..+.+..=++..+|-|+|||+.......+.+..
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~ 170 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGA 170 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhh
Confidence 445689999999999999999999999999999888877777654
No 490
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=85.72 E-value=1.3 Score=35.34 Aligned_cols=41 Identities=10% Similarity=-0.035 Sum_probs=26.4
Q ss_pred CCcEEEEcCCCChHHHHHHHHHHHHhhh---cCCCceEEEEcCc
Q psy9277 69 GRDVIAQAQSGTGKTATFSISILQSLDT---QLRETQVLCLSPT 109 (178)
Q Consensus 69 g~~v~v~aptGsGKTl~~ll~il~~l~~---~~~~~~~lil~Pt 109 (178)
|.-+.+++++|+|||...+-.+.+.... ...+..++||.-.
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te 138 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTE 138 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECC
Confidence 4567899999999998766555443221 1112378888743
No 491
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=85.68 E-value=0.78 Score=28.00 Aligned_cols=15 Identities=27% Similarity=0.465 Sum_probs=12.7
Q ss_pred EEEEcCCCChHHHHH
Q psy9277 72 VIAQAQSGTGKTATF 86 (178)
Q Consensus 72 v~v~aptGsGKTl~~ 86 (178)
+.++++.|||||...
T Consensus 2 i~i~G~~gsGKst~~ 16 (69)
T cd02019 2 IAITGGSGSGKSTVA 16 (69)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999654
No 492
>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=85.68 E-value=8.6 Score=35.25 Aligned_cols=58 Identities=19% Similarity=0.187 Sum_probs=46.4
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhcC----CCcEEEeCh
Q psy9277 100 ETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLDY----GQHVVSGTP 158 (178)
Q Consensus 100 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~----~~~IlV~TP 158 (178)
...+||.+|++.-+..+++.+++... .++.+..++|+.+.+++...+.. ...|||+|.
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~~-~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATn 270 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERLD-SDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATN 270 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhcC-CCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecc
Confidence 45899999999999999998876432 37889999999998887776652 258999994
No 493
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=85.66 E-value=0.66 Score=36.89 Aligned_cols=17 Identities=12% Similarity=0.167 Sum_probs=14.2
Q ss_pred EEEEcCCCChHHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFSI 88 (178)
Q Consensus 72 v~v~aptGsGKTl~~ll 88 (178)
+++.||||+|||....-
T Consensus 2 i~i~G~t~~GKs~la~~ 18 (287)
T TIGR00174 2 IFIMGPTAVGKSQLAIQ 18 (287)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 68999999999976643
No 494
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=85.59 E-value=3.7 Score=33.07 Aligned_cols=22 Identities=18% Similarity=-0.014 Sum_probs=17.0
Q ss_pred CcEEEEcCCCChHHHHHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFSISIL 91 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~ll~il 91 (178)
.-+.+.+++|+|||...+..+.
T Consensus 97 ~i~~i~G~~g~GKT~l~~~~~~ 118 (316)
T TIGR02239 97 SITEIFGEFRTGKTQLCHTLAV 118 (316)
T ss_pred eEEEEECCCCCCcCHHHHHHHH
Confidence 4578999999999987754443
No 495
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=85.56 E-value=16 Score=29.41 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=14.7
Q ss_pred CcEEEEcCCCChHHHHHH
Q psy9277 70 RDVIAQAQSGTGKTATFS 87 (178)
Q Consensus 70 ~~v~v~aptGsGKTl~~l 87 (178)
...++.||+|+|||....
T Consensus 37 ~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 37 HAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 357999999999996653
No 496
>PLN02796 D-glycerate 3-kinase
Probab=85.51 E-value=1.7 Score=35.47 Aligned_cols=16 Identities=31% Similarity=0.322 Sum_probs=13.8
Q ss_pred EEEEcCCCChHHHHHH
Q psy9277 72 VIAQAQSGTGKTATFS 87 (178)
Q Consensus 72 v~v~aptGsGKTl~~l 87 (178)
+.|.|++|||||...-
T Consensus 103 IGI~G~sGSGKSTLa~ 118 (347)
T PLN02796 103 IGISAPQGCGKTTLVF 118 (347)
T ss_pred EEEECCCCCcHHHHHH
Confidence 8899999999997643
No 497
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=85.41 E-value=10 Score=29.97 Aligned_cols=20 Identities=20% Similarity=0.190 Sum_probs=16.5
Q ss_pred CCc-EEEEcCCCChHHHHHHH
Q psy9277 69 GRD-VIAQAQSGTGKTATFSI 88 (178)
Q Consensus 69 g~~-v~v~aptGsGKTl~~ll 88 (178)
... +++.||+|+|||.++..
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~ 43 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALA 43 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHH
Confidence 455 99999999999987643
No 498
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=85.38 E-value=3.7 Score=39.00 Aligned_cols=48 Identities=19% Similarity=0.319 Sum_probs=34.2
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhhcCCCceEEEEcCcHHHHHHHHHHHH
Q psy9277 73 IAQAQSGTGKTATFSISILQSLDTQLRETQVLCLSPTRELAVQIQKVVL 121 (178)
Q Consensus 73 ~v~aptGsGKTl~~ll~il~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~ 121 (178)
+|.|+.|||||...+--+.+.+.....++..++++|... .-+..+.+.
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~l~~~~~~~~~illVPeq~-TF~~e~rl~ 52 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQKIKENPLGKPIILIVPDQM-TFQMEQALL 52 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHHHhhCCCCCcEEEEcCCcc-cHHHHHHHH
Confidence 788999999998876666666655445778999999874 333444443
No 499
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=85.38 E-value=4 Score=36.36 Aligned_cols=55 Identities=16% Similarity=0.216 Sum_probs=41.7
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHhccCCCceEEEEEcCccHHHHHHHhc----CCCcEEEeC
Q psy9277 99 RETQVLCLSPTRELAVQIQKVVLALGDFMNVQCHACIGGTNLSEDLRKLD----YGQHVVSGT 157 (178)
Q Consensus 99 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~IlV~T 157 (178)
++.+++|.++|+..+..+.+.+.+. ++.+..++|+.+..++...+. ...+|+|||
T Consensus 441 ~g~~vLIf~~tk~~ae~L~~~L~~~----gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t 499 (655)
T TIGR00631 441 RNERVLVTTLTKKMAEDLTDYLKEL----GIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGI 499 (655)
T ss_pred CCCEEEEEECCHHHHHHHHHHHhhh----ccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEc
Confidence 5678999999999999999888765 678888888877654433332 346888888
No 500
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=85.34 E-value=1.1 Score=34.67 Aligned_cols=22 Identities=32% Similarity=0.534 Sum_probs=14.5
Q ss_pred EEcCCCChHHHHHHHHHHHHhhh
Q psy9277 74 AQAQSGTGKTATFSISILQSLDT 96 (178)
Q Consensus 74 v~aptGsGKTl~~ll~il~~l~~ 96 (178)
|.||.||||| .|.-.+-+.+..
T Consensus 1 ViGpaGSGKT-T~~~~~~~~~~~ 22 (238)
T PF03029_consen 1 VIGPAGSGKT-TFCKGLSEWLES 22 (238)
T ss_dssp -EESTTSSHH-HHHHHHHHHHTT
T ss_pred CCCCCCCCHH-HHHHHHHHHHHh
Confidence 5799999999 445555554443
Done!