Query psy1090
Match_columns 169
No_of_seqs 119 out of 1261
Neff 10.3
Searched_HMMs 46136
Date Fri Aug 16 21:26:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1090.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1090hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0385|consensus 100.0 1.7E-45 3.8E-50 286.2 13.1 151 1-169 187-338 (971)
2 KOG0389|consensus 100.0 5.8E-45 1.2E-49 283.9 11.3 152 1-169 419-573 (941)
3 KOG0387|consensus 100.0 2.4E-41 5.3E-46 263.9 10.4 158 2-169 226-386 (923)
4 PLN03142 Probable chromatin-re 100.0 2.2E-40 4.7E-45 271.7 13.9 151 1-169 189-340 (1033)
5 KOG0391|consensus 100.0 7E-41 1.5E-45 269.0 8.7 151 1-169 635-786 (1958)
6 KOG0392|consensus 100.0 1.3E-38 2.7E-43 257.1 10.1 148 1-169 995-1149(1549)
7 KOG0388|consensus 100.0 6.8E-39 1.5E-43 248.4 6.6 157 1-169 587-744 (1185)
8 KOG0384|consensus 100.0 3.5E-38 7.6E-43 254.8 10.1 155 2-169 391-546 (1373)
9 KOG0386|consensus 100.0 6.6E-37 1.4E-41 243.7 7.9 150 1-169 414-565 (1157)
10 PF00176 SNF2_N: SNF2 family N 100.0 6.8E-36 1.5E-40 220.7 11.3 147 2-169 27-183 (299)
11 KOG0390|consensus 100.0 1E-34 2.2E-39 230.3 12.2 154 2-169 265-425 (776)
12 KOG1002|consensus 100.0 2.4E-34 5.2E-39 216.1 7.2 142 2-169 206-365 (791)
13 KOG4439|consensus 100.0 7.1E-35 1.5E-39 225.6 4.4 146 2-169 347-512 (901)
14 PRK04914 ATP-dependent helicas 100.0 4.7E-31 1E-35 216.2 11.4 148 2-169 171-326 (956)
15 KOG1015|consensus 100.0 1.1E-29 2.4E-34 202.1 9.1 148 1-168 697-869 (1567)
16 KOG1000|consensus 100.0 1.1E-28 2.3E-33 185.6 9.1 139 3-168 217-358 (689)
17 COG0553 HepA Superfamily II DN 100.0 1.7E-28 3.7E-33 203.4 7.5 153 1-169 359-521 (866)
18 KOG1016|consensus 99.9 2.2E-26 4.9E-31 180.7 9.6 149 1-169 283-483 (1387)
19 KOG1001|consensus 99.9 1.1E-25 2.3E-30 179.2 7.9 141 1-169 153-303 (674)
20 TIGR00603 rad25 DNA repair hel 99.9 4.8E-24 1E-28 170.6 12.0 128 2-162 275-415 (732)
21 KOG0383|consensus 99.9 3.1E-25 6.7E-30 175.2 -1.8 167 2-169 316-485 (696)
22 KOG0298|consensus 99.9 8E-24 1.7E-28 172.9 3.8 145 3-169 377-560 (1394)
23 cd00046 DEXDc DEAD-like helica 99.8 1E-19 2.2E-24 119.6 12.7 136 2-158 2-144 (144)
24 PF04851 ResIII: Type III rest 99.8 2.4E-19 5.2E-24 123.5 9.3 143 3-160 28-184 (184)
25 COG1061 SSL2 DNA or RNA helica 99.8 1.4E-18 3.1E-23 134.5 9.6 126 2-162 57-187 (442)
26 PRK13766 Hef nuclease; Provisi 99.8 1.1E-17 2.4E-22 137.8 14.1 137 2-161 31-175 (773)
27 PHA02558 uvsW UvsW helicase; P 99.7 1.8E-17 4E-22 130.4 12.2 127 2-161 131-262 (501)
28 smart00487 DEXDc DEAD-like hel 99.7 2.1E-17 4.7E-22 114.5 10.9 138 2-160 26-172 (201)
29 COG1111 MPH1 ERCC4-like helica 99.7 7.1E-17 1.5E-21 122.6 11.4 133 2-160 31-174 (542)
30 TIGR00348 hsdR type I site-spe 99.7 5.9E-16 1.3E-20 125.3 10.9 134 2-161 265-405 (667)
31 PRK11448 hsdR type I restricti 99.6 1.3E-15 2.7E-20 128.4 11.4 137 2-162 435-598 (1123)
32 TIGR00643 recG ATP-dependent D 99.6 3.1E-15 6.8E-20 120.7 13.0 136 1-162 257-400 (630)
33 PF00270 DEAD: DEAD/DEAH box h 99.6 2.7E-15 5.8E-20 102.1 10.5 142 3-165 17-168 (169)
34 COG1200 RecG RecG-like helicas 99.6 4.4E-15 9.5E-20 116.9 11.4 137 1-163 284-426 (677)
35 KOG1123|consensus 99.6 1E-16 2.3E-21 121.9 1.0 128 1-161 321-461 (776)
36 PRK10917 ATP-dependent DNA hel 99.6 1.7E-14 3.7E-19 117.3 12.4 134 1-161 283-422 (681)
37 cd00268 DEADc DEAD-box helicas 99.6 8E-14 1.7E-18 97.7 12.7 138 2-160 38-186 (203)
38 COG4096 HsdR Type I site-speci 99.6 1.8E-15 3.9E-20 120.9 4.3 127 3-160 188-322 (875)
39 KOG0354|consensus 99.6 1.6E-14 3.5E-19 115.2 9.6 136 2-159 78-222 (746)
40 TIGR00580 mfd transcription-re 99.5 3.1E-13 6.7E-18 112.3 13.7 135 1-162 473-613 (926)
41 PRK10689 transcription-repair 99.5 2.6E-13 5.5E-18 115.0 12.9 136 1-163 622-763 (1147)
42 PRK11776 ATP-dependent RNA hel 99.5 9.2E-13 2E-17 103.1 12.6 138 2-160 43-190 (460)
43 TIGR00614 recQ_fam ATP-depende 99.5 6.8E-13 1.5E-17 104.0 11.8 138 2-165 28-179 (470)
44 PRK10590 ATP-dependent RNA hel 99.5 1.4E-12 3E-17 102.0 13.0 138 2-160 40-192 (456)
45 PRK04837 ATP-dependent RNA hel 99.4 2.2E-12 4.7E-17 100.0 12.6 138 2-160 47-202 (423)
46 PRK11634 ATP-dependent RNA hel 99.4 4.2E-12 9.2E-17 102.3 13.1 137 3-160 46-192 (629)
47 PRK11192 ATP-dependent RNA hel 99.4 4.2E-12 9.1E-17 98.7 12.6 143 2-165 40-195 (434)
48 PTZ00424 helicase 45; Provisio 99.4 5.7E-12 1.2E-16 97.0 12.3 138 2-160 67-213 (401)
49 TIGR00595 priA primosomal prot 99.4 1.7E-11 3.7E-16 96.7 14.7 132 4-162 1-143 (505)
50 PRK01297 ATP-dependent RNA hel 99.4 7.8E-12 1.7E-16 98.3 12.4 138 2-159 126-281 (475)
51 PRK02362 ski2-like helicase; P 99.4 5.6E-12 1.2E-16 103.7 11.6 132 2-159 41-182 (737)
52 PRK00254 ski2-like helicase; P 99.4 7.3E-12 1.6E-16 102.8 12.0 130 2-159 41-180 (720)
53 PRK04537 ATP-dependent RNA hel 99.4 1.1E-11 2.3E-16 99.3 12.5 138 2-160 48-204 (572)
54 PTZ00110 helicase; Provisional 99.4 1.2E-11 2.6E-16 98.5 12.2 137 2-159 169-319 (545)
55 COG4889 Predicted helicase [Ge 99.4 2.3E-13 4.9E-18 109.7 2.2 150 3-159 183-351 (1518)
56 TIGR01587 cas3_core CRISPR-ass 99.4 1.3E-11 2.9E-16 93.6 11.8 151 3-159 2-166 (358)
57 COG1197 Mfd Transcription-repa 99.4 1.2E-11 2.6E-16 102.7 12.1 135 1-163 616-757 (1139)
58 TIGR01389 recQ ATP-dependent D 99.4 1.7E-11 3.7E-16 98.7 12.8 139 2-166 30-180 (591)
59 PLN00206 DEAD-box ATP-dependen 99.4 1.7E-11 3.7E-16 97.2 12.5 138 2-160 160-312 (518)
60 COG1204 Superfamily II helicas 99.4 1.2E-11 2.7E-16 101.1 11.9 133 2-159 49-191 (766)
61 PRK11057 ATP-dependent DNA hel 99.4 1.5E-11 3.3E-16 99.1 12.2 138 2-165 42-191 (607)
62 PRK09401 reverse gyrase; Revie 99.3 4.8E-11 1E-15 101.6 14.1 110 3-133 98-214 (1176)
63 PRK01172 ski2-like helicase; P 99.3 2.3E-11 5.1E-16 99.3 11.7 132 2-159 39-180 (674)
64 TIGR03158 cas3_cyano CRISPR-as 99.3 7.1E-11 1.5E-15 89.7 12.7 150 3-160 17-193 (357)
65 PRK05580 primosome assembly pr 99.3 9.1E-11 2E-15 95.6 13.6 134 3-163 165-309 (679)
66 TIGR03817 DECH_helic helicase/ 99.3 1.2E-10 2.7E-15 95.6 12.8 134 2-159 53-205 (742)
67 PRK13767 ATP-dependent helicas 99.2 1.4E-10 3E-15 97.0 12.0 137 2-159 49-218 (876)
68 PF07652 Flavi_DEAD: Flaviviru 99.2 1.6E-10 3.4E-15 75.5 8.8 126 4-161 8-139 (148)
69 TIGR01054 rgy reverse gyrase. 99.2 2.8E-10 6.1E-15 97.1 12.0 110 3-134 96-213 (1171)
70 COG1205 Distinct helicase fami 99.2 3.2E-10 7E-15 94.0 11.3 136 2-158 87-242 (851)
71 PRK09751 putative ATP-dependen 99.1 1.9E-09 4.1E-14 93.2 13.0 134 5-159 1-170 (1490)
72 COG0610 Type I site-specific r 99.1 6.7E-10 1.4E-14 93.3 9.8 136 2-161 275-416 (962)
73 PLN03137 ATP-dependent DNA hel 99.1 1.2E-09 2.7E-14 91.6 10.6 141 2-166 477-634 (1195)
74 PF13872 AAA_34: P-loop contai 99.1 8.7E-10 1.9E-14 80.4 8.4 133 2-160 64-222 (303)
75 KOG0330|consensus 99.0 1.7E-09 3.8E-14 80.6 9.0 139 2-161 100-248 (476)
76 PRK15483 type III restriction- 99.0 5.5E-09 1.2E-13 86.7 12.2 143 3-160 62-240 (986)
77 KOG0331|consensus 99.0 7.5E-09 1.6E-13 80.7 10.9 137 2-159 130-282 (519)
78 PRK14701 reverse gyrase; Provi 99.0 4.5E-09 9.7E-14 92.0 9.6 111 3-133 97-213 (1638)
79 TIGR02621 cas3_GSU0051 CRISPR- 98.9 1.1E-08 2.3E-13 84.3 10.2 135 4-160 35-217 (844)
80 PRK09694 helicase Cas3; Provis 98.9 1.5E-08 3.3E-13 84.2 10.3 157 3-160 304-482 (878)
81 COG0513 SrmB Superfamily II DN 98.9 3.9E-08 8.5E-13 78.1 12.2 142 3-166 69-222 (513)
82 PHA02653 RNA helicase NPH-II; 98.9 1E-08 2.2E-13 83.3 8.7 131 3-160 182-333 (675)
83 KOG0952|consensus 98.9 2.4E-08 5.2E-13 82.5 9.9 134 2-159 128-286 (1230)
84 KOG0350|consensus 98.8 1.4E-08 3.1E-13 78.0 7.1 116 3-134 186-309 (620)
85 COG4098 comFA Superfamily II D 98.8 1.1E-07 2.3E-12 70.4 11.2 118 8-160 124-245 (441)
86 COG1201 Lhr Lhr-like helicases 98.8 4.7E-08 1E-12 80.2 10.3 134 2-158 39-193 (814)
87 COG0514 RecQ Superfamily II DN 98.8 2.6E-08 5.7E-13 79.0 8.3 138 2-165 34-183 (590)
88 TIGR03714 secA2 accessory Sec 98.8 9.4E-08 2E-12 78.1 10.3 111 2-135 85-210 (762)
89 COG1110 Reverse gyrase [DNA re 98.8 7.7E-08 1.7E-12 79.5 9.8 106 6-132 103-215 (1187)
90 KOG0338|consensus 98.7 8.6E-08 1.9E-12 74.1 8.8 132 6-159 224-369 (691)
91 TIGR03117 cas_csf4 CRISPR-asso 98.7 4.6E-07 1E-11 73.1 12.0 61 3-63 19-85 (636)
92 TIGR00963 secA preprotein tran 98.7 3.5E-08 7.6E-13 80.2 5.2 136 2-164 71-221 (745)
93 KOG0345|consensus 98.6 3.5E-07 7.5E-12 70.1 9.7 136 5-160 48-200 (567)
94 KOG0335|consensus 98.6 5.6E-07 1.2E-11 69.5 10.5 139 2-161 113-275 (482)
95 PRK11664 ATP-dependent RNA hel 98.6 4.2E-07 9E-12 75.6 9.9 136 3-167 23-168 (812)
96 TIGR01970 DEAH_box_HrpB ATP-de 98.6 6.9E-07 1.5E-11 74.3 11.0 135 3-166 20-164 (819)
97 COG3587 Restriction endonuclea 98.6 5.9E-07 1.3E-11 73.2 9.6 131 5-159 79-243 (985)
98 KOG0342|consensus 98.5 1.6E-06 3.5E-11 66.7 9.5 135 4-159 123-272 (543)
99 PRK14873 primosome assembly pr 98.5 1.6E-06 3.5E-11 70.6 10.1 128 9-162 169-307 (665)
100 COG1198 PriA Primosomal protei 98.5 1.9E-06 4.2E-11 70.4 10.1 132 4-162 221-363 (730)
101 PRK09200 preprotein translocas 98.4 2.4E-06 5.2E-11 70.5 10.5 109 2-136 93-215 (790)
102 KOG0347|consensus 98.4 2.6E-06 5.6E-11 66.7 9.3 133 6-159 225-387 (731)
103 TIGR01407 dinG_rel DnaQ family 98.4 5.9E-06 1.3E-10 69.6 11.9 60 3-64 267-332 (850)
104 KOG0343|consensus 98.4 2.6E-06 5.7E-11 66.7 8.6 134 6-161 112-259 (758)
105 PRK11131 ATP-dependent RNA hel 98.4 2.8E-06 6E-11 73.2 9.4 68 96-165 162-235 (1294)
106 PRK12898 secA preprotein trans 98.4 8.3E-06 1.8E-10 66.1 11.6 61 2-65 118-182 (656)
107 PF13086 AAA_11: AAA domain; P 98.4 1.6E-06 3.5E-11 61.6 6.8 49 3-51 20-75 (236)
108 KOG0348|consensus 98.4 3.3E-06 7.2E-11 65.9 8.7 133 3-159 177-342 (708)
109 PRK13104 secA preprotein trans 98.3 4E-06 8.7E-11 69.6 9.6 107 2-134 97-216 (896)
110 KOG4284|consensus 98.3 8.1E-07 1.8E-11 70.7 5.0 138 2-161 64-212 (980)
111 COG1202 Superfamily II helicas 98.3 2E-06 4.3E-11 67.8 7.0 136 4-158 236-382 (830)
112 KOG0353|consensus 98.3 3.3E-06 7.1E-11 63.6 7.8 142 3-166 112-268 (695)
113 PF09848 DUF2075: Uncharacteri 98.3 4.2E-06 9.1E-11 63.7 7.8 43 4-46 5-47 (352)
114 PRK10536 hypothetical protein; 98.2 8.4E-06 1.8E-10 58.8 8.1 55 102-163 163-217 (262)
115 PRK13103 secA preprotein trans 98.2 8.3E-06 1.8E-10 67.8 8.9 107 2-134 97-216 (913)
116 smart00488 DEXDc2 DEAD-like he 98.2 1.2E-05 2.7E-10 59.5 9.0 50 3-52 30-84 (289)
117 smart00489 DEXDc3 DEAD-like he 98.2 1.2E-05 2.7E-10 59.5 9.0 50 3-52 30-84 (289)
118 PF02562 PhoH: PhoH-like prote 98.2 2.2E-06 4.7E-11 60.0 4.2 138 4-163 23-160 (205)
119 PF13401 AAA_22: AAA domain; P 98.2 1.9E-06 4.1E-11 56.0 3.8 35 122-158 89-125 (131)
120 COG4581 Superfamily II RNA hel 98.2 1.2E-05 2.6E-10 67.8 8.8 127 2-158 136-270 (1041)
121 KOG1802|consensus 98.2 3.6E-06 7.8E-11 67.3 5.1 60 4-66 429-489 (935)
122 PRK12899 secA preprotein trans 98.2 2.4E-05 5.3E-10 65.3 10.1 107 2-134 109-229 (970)
123 COG1203 CRISPR-associated heli 98.1 2E-06 4.3E-11 71.2 3.9 151 3-160 217-382 (733)
124 KOG0346|consensus 98.1 1.3E-05 2.8E-10 61.3 7.7 131 8-159 64-212 (569)
125 PRK12904 preprotein translocas 98.1 2.1E-05 4.5E-10 65.3 9.5 107 2-134 96-215 (830)
126 KOG1803|consensus 98.1 6.3E-06 1.4E-10 65.2 6.0 44 4-49 205-249 (649)
127 KOG0951|consensus 98.0 1.4E-05 3E-10 67.9 6.4 132 4-159 329-485 (1674)
128 KOG0339|consensus 98.0 9.3E-05 2E-09 57.8 10.3 131 8-159 268-412 (731)
129 PRK12326 preprotein translocas 98.0 5.4E-05 1.2E-09 61.8 8.9 62 2-66 93-158 (764)
130 PRK13107 preprotein translocas 97.9 6E-05 1.3E-09 62.8 8.6 109 2-136 97-218 (908)
131 PRK04296 thymidine kinase; Pro 97.9 3.6E-05 7.7E-10 53.6 6.2 33 4-38 6-38 (190)
132 PRK12906 secA preprotein trans 97.9 7.3E-05 1.6E-09 61.8 8.6 61 2-65 95-159 (796)
133 TIGR01967 DEAH_box_HrpA ATP-de 97.9 5.7E-05 1.2E-09 65.5 8.0 71 96-167 155-230 (1283)
134 KOG0352|consensus 97.8 7.9E-05 1.7E-09 57.1 7.3 143 3-167 39-195 (641)
135 PRK07246 bifunctional ATP-depe 97.8 0.00023 5.1E-09 59.8 10.7 38 95-133 411-449 (820)
136 KOG0328|consensus 97.8 1.8E-05 3.8E-10 57.5 3.0 138 3-161 67-213 (400)
137 KOG0949|consensus 97.8 0.00014 3E-09 60.8 8.3 134 3-158 529-671 (1330)
138 TIGR00604 rad3 DNA repair heli 97.8 0.00041 8.9E-09 57.6 10.6 49 3-51 32-82 (705)
139 PF07517 SecA_DEAD: SecA DEAD- 97.7 0.00044 9.6E-09 50.5 9.3 106 2-133 92-210 (266)
140 KOG0337|consensus 97.7 0.00019 4E-09 54.9 7.5 129 9-160 67-207 (529)
141 KOG1513|consensus 97.7 1.1E-05 2.3E-10 65.9 0.9 137 2-159 291-455 (1300)
142 KOG0340|consensus 97.7 0.00053 1.2E-08 51.4 9.5 138 2-160 46-196 (442)
143 KOG0947|consensus 97.7 0.00011 2.4E-09 61.2 6.6 122 3-158 315-444 (1248)
144 PRK08074 bifunctional ATP-depe 97.7 0.00066 1.4E-08 58.0 11.0 37 96-133 430-468 (928)
145 KOG0341|consensus 97.7 6.7E-05 1.4E-09 56.9 4.4 132 8-160 215-369 (610)
146 KOG1805|consensus 97.6 0.00044 9.6E-09 57.8 8.5 139 7-160 692-831 (1100)
147 COG0556 UvrB Helicase subunit 97.6 0.00014 3.1E-09 57.1 5.2 48 5-57 37-85 (663)
148 KOG1131|consensus 97.6 0.00017 3.6E-09 56.7 5.3 49 3-51 38-89 (755)
149 KOG0922|consensus 97.5 0.00038 8.1E-09 56.0 7.3 66 102-168 144-215 (674)
150 KOG0336|consensus 97.5 0.00061 1.3E-08 52.2 7.9 134 3-157 260-407 (629)
151 KOG0329|consensus 97.5 0.00016 3.4E-09 52.0 4.5 136 2-159 81-228 (387)
152 TIGR01447 recD exodeoxyribonuc 97.5 0.0004 8.6E-09 56.3 7.3 41 119-161 258-298 (586)
153 COG3421 Uncharacterized protei 97.5 0.00054 1.2E-08 54.8 7.3 115 5-134 2-126 (812)
154 TIGR00376 DNA helicase, putati 97.5 0.00066 1.4E-08 55.6 8.0 56 3-62 176-232 (637)
155 TIGR01448 recD_rel helicase, p 97.5 0.0012 2.6E-08 54.9 9.5 115 3-161 341-455 (720)
156 PF13604 AAA_30: AAA domain; P 97.5 0.00071 1.5E-08 47.3 7.1 41 119-161 92-133 (196)
157 PRK12902 secA preprotein trans 97.5 0.0018 3.9E-08 54.3 10.3 107 2-134 100-219 (939)
158 PRK12723 flagellar biosynthesi 97.4 0.002 4.3E-08 49.7 9.7 62 104-167 240-306 (388)
159 CHL00122 secA preprotein trans 97.3 0.0018 3.9E-08 54.1 8.5 59 2-63 91-153 (870)
160 PRK10875 recD exonuclease V su 97.3 0.00099 2.1E-08 54.3 6.8 42 118-161 263-304 (615)
161 COG1643 HrpA HrpA-like helicas 97.3 0.0013 2.9E-08 55.1 7.6 134 3-168 68-215 (845)
162 smart00382 AAA ATPases associa 97.2 0.0015 3.2E-08 42.1 6.3 42 3-46 5-46 (148)
163 KOG0926|consensus 97.2 0.00089 1.9E-08 55.2 6.0 66 97-164 349-430 (1172)
164 PF13245 AAA_19: Part of AAA d 97.2 0.0013 2.7E-08 38.7 4.9 40 4-43 14-55 (76)
165 PRK11747 dinG ATP-dependent DN 97.2 0.007 1.5E-07 50.3 10.8 38 96-134 218-260 (697)
166 KOG0351|consensus 97.1 0.00053 1.1E-08 58.1 4.1 136 3-163 282-435 (941)
167 KOG0948|consensus 97.1 0.001 2.2E-08 54.6 5.4 119 6-159 150-277 (1041)
168 KOG0920|consensus 97.1 0.0048 1E-07 52.1 9.4 137 4-168 192-339 (924)
169 PF02399 Herpes_ori_bp: Origin 97.1 0.0015 3.3E-08 54.1 6.2 125 5-158 54-190 (824)
170 TIGR02562 cas3_yersinia CRISPR 97.1 0.01 2.2E-07 50.8 10.7 66 4-69 435-503 (1110)
171 TIGR02881 spore_V_K stage V sp 97.0 0.0029 6.3E-08 46.2 6.8 24 3-26 45-68 (261)
172 PF00448 SRP54: SRP54-type pro 97.0 0.0041 8.8E-08 43.5 7.1 34 4-39 5-38 (196)
173 KOG0334|consensus 97.0 0.0037 7.9E-08 52.8 7.8 137 3-160 405-558 (997)
174 PRK12900 secA preprotein trans 97.0 0.0081 1.8E-07 51.1 9.7 60 2-63 153-215 (1025)
175 PRK06526 transposase; Provisio 97.0 0.0048 1E-07 44.9 7.4 43 2-50 100-142 (254)
176 KOG0344|consensus 97.0 0.00056 1.2E-08 54.1 2.5 113 3-135 176-303 (593)
177 KOG0333|consensus 97.0 0.0021 4.6E-08 50.7 5.6 111 3-134 285-410 (673)
178 KOG0332|consensus 96.9 0.0016 3.5E-08 49.3 4.6 132 6-159 135-275 (477)
179 cd00009 AAA The AAA+ (ATPases 96.9 0.0082 1.8E-07 38.9 7.6 41 120-160 84-131 (151)
180 cd01121 Sms Sms (bacterial rad 96.9 0.013 2.9E-07 45.0 9.3 46 4-51 86-131 (372)
181 TIGR00631 uvrb excinuclease AB 96.9 0.0097 2.1E-07 49.1 8.9 53 4-61 33-86 (655)
182 PRK11889 flhF flagellar biosyn 96.8 0.023 5E-07 44.0 10.0 33 4-38 245-277 (436)
183 PRK12901 secA preprotein trans 96.8 0.012 2.6E-07 50.3 9.1 59 2-62 184-245 (1112)
184 KOG0951|consensus 96.8 0.006 1.3E-07 52.8 7.3 104 2-136 1161-1269(1674)
185 COG1875 NYN ribonuclease and A 96.8 0.0043 9.4E-08 47.0 5.9 41 118-160 349-389 (436)
186 KOG0326|consensus 96.7 0.0035 7.6E-08 46.7 5.0 128 8-159 130-269 (459)
187 PRK12903 secA preprotein trans 96.7 0.01 2.3E-07 49.8 8.3 59 2-63 93-155 (925)
188 KOG1132|consensus 96.7 0.037 8E-07 46.4 11.3 37 96-133 221-260 (945)
189 COG1066 Sms Predicted ATP-depe 96.6 0.018 4E-07 44.4 8.3 87 4-135 97-183 (456)
190 TIGR00362 DnaA chromosomal rep 96.6 0.013 2.9E-07 45.5 7.7 38 121-158 200-241 (405)
191 PRK08116 hypothetical protein; 96.5 0.015 3.3E-07 42.7 7.3 34 2-37 116-149 (268)
192 PRK05703 flhF flagellar biosyn 96.5 0.036 7.8E-07 43.5 9.7 34 4-37 225-258 (424)
193 PRK00149 dnaA chromosomal repl 96.5 0.014 3.1E-07 46.0 7.2 40 120-159 211-254 (450)
194 PRK14974 cell division protein 96.4 0.031 6.7E-07 42.4 8.6 45 4-50 144-192 (336)
195 PRK14087 dnaA chromosomal repl 96.4 0.018 3.9E-07 45.5 7.6 38 120-157 206-247 (450)
196 COG1419 FlhF Flagellar GTP-bin 96.4 0.066 1.4E-06 41.4 10.1 121 4-167 207-332 (407)
197 PRK08727 hypothetical protein; 96.4 0.038 8.3E-07 39.7 8.4 22 4-25 45-66 (233)
198 KOG0924|consensus 96.3 0.0056 1.2E-07 50.0 4.3 48 119-167 467-519 (1042)
199 PLN03025 replication factor C 96.3 0.033 7.2E-07 41.9 8.1 42 120-161 99-141 (319)
200 PHA03368 DNA packaging termina 96.3 0.031 6.7E-07 45.9 8.2 118 11-157 265-389 (738)
201 TIGR03420 DnaA_homol_Hda DnaA 96.2 0.04 8.7E-07 39.1 7.8 39 122-160 92-134 (226)
202 PRK11823 DNA repair protein Ra 96.2 0.027 5.9E-07 44.4 7.3 47 4-52 84-130 (446)
203 COG1484 DnaC DNA replication p 96.2 0.032 6.8E-07 40.7 7.1 46 2-49 107-152 (254)
204 PRK14086 dnaA chromosomal repl 96.2 0.042 9.2E-07 44.8 8.4 40 120-159 377-420 (617)
205 TIGR00708 cobA cob(I)alamin ad 96.1 0.018 4E-07 39.3 5.1 54 114-167 91-148 (173)
206 PRK07003 DNA polymerase III su 96.0 0.048 1E-06 45.6 8.2 41 119-161 118-161 (830)
207 cd01124 KaiC KaiC is a circadi 96.0 0.024 5.2E-07 38.9 5.8 47 4-52 3-49 (187)
208 PRK09112 DNA polymerase III su 96.0 0.037 8.1E-07 42.3 7.2 24 3-26 48-71 (351)
209 KOG0327|consensus 95.9 0.013 2.8E-07 44.5 4.3 137 3-160 66-212 (397)
210 PTZ00293 thymidine kinase; Pro 95.9 0.085 1.8E-06 37.3 8.1 34 5-40 9-42 (211)
211 PRK14958 DNA polymerase III su 95.9 0.055 1.2E-06 43.5 7.9 23 4-26 42-64 (509)
212 KOG0925|consensus 95.9 0.011 2.5E-07 46.4 3.9 48 119-167 158-210 (699)
213 KOG0989|consensus 95.8 0.0074 1.6E-07 44.7 2.6 21 5-25 62-82 (346)
214 CHL00181 cbbX CbbX; Provisiona 95.8 0.03 6.4E-07 41.6 5.8 25 3-27 62-86 (287)
215 cd00561 CobA_CobO_BtuR ATP:cor 95.8 0.28 6.1E-06 33.1 9.8 53 115-167 90-146 (159)
216 PRK12323 DNA polymerase III su 95.7 0.063 1.4E-06 44.2 7.7 23 4-26 42-64 (700)
217 TIGR00416 sms DNA repair prote 95.7 0.044 9.6E-07 43.4 6.7 47 4-52 98-144 (454)
218 PRK14956 DNA polymerase III su 95.6 0.075 1.6E-06 42.2 7.6 23 4-26 44-66 (484)
219 PRK12402 replication factor C 95.6 0.037 7.9E-07 41.7 5.8 23 3-25 39-61 (337)
220 PRK08084 DNA replication initi 95.6 0.077 1.7E-06 38.2 7.1 37 121-157 98-139 (235)
221 PRK12422 chromosomal replicati 95.6 0.073 1.6E-06 42.1 7.5 39 120-158 202-244 (445)
222 PRK14088 dnaA chromosomal repl 95.6 0.12 2.5E-06 40.9 8.6 16 120-135 194-209 (440)
223 PF06733 DEAD_2: DEAD_2; Inte 95.6 0.0073 1.6E-07 41.3 1.7 38 96-134 118-159 (174)
224 PRK08181 transposase; Validate 95.6 0.07 1.5E-06 39.3 6.8 24 3-26 109-132 (269)
225 KOG0923|consensus 95.6 0.023 5E-07 46.4 4.5 66 102-167 359-429 (902)
226 TIGR03015 pepcterm_ATPase puta 95.6 0.066 1.4E-06 39.0 6.8 39 121-159 124-166 (269)
227 PF05621 TniB: Bacterial TniB 95.5 0.067 1.5E-06 39.8 6.7 45 114-158 139-189 (302)
228 COG0552 FtsY Signal recognitio 95.5 0.11 2.4E-06 39.1 7.8 30 8-39 147-176 (340)
229 COG1435 Tdk Thymidine kinase [ 95.5 0.1 2.3E-06 36.3 7.1 34 5-40 9-42 (201)
230 PHA03372 DNA packaging termina 95.5 0.11 2.3E-06 42.4 8.0 119 11-157 213-336 (668)
231 COG0541 Ffh Signal recognition 95.5 0.028 6.1E-07 43.7 4.6 33 5-39 105-137 (451)
232 PF00308 Bac_DnaA: Bacterial d 95.4 0.2 4.4E-06 35.6 8.5 36 120-156 97-137 (219)
233 PRK14960 DNA polymerase III su 95.4 0.12 2.5E-06 42.8 8.0 22 4-25 41-62 (702)
234 COG0003 ArsA Predicted ATPase 95.3 0.075 1.6E-06 40.1 6.5 57 8-66 10-73 (322)
235 PRK06645 DNA polymerase III su 95.3 0.11 2.3E-06 41.8 7.5 24 3-26 46-69 (507)
236 KOG0952|consensus 95.3 0.03 6.5E-07 47.9 4.5 107 3-135 946-1061(1230)
237 TIGR02768 TraA_Ti Ti-type conj 95.2 0.13 2.8E-06 43.3 8.1 39 3-43 371-409 (744)
238 PF07015 VirC1: VirC1 protein; 95.2 0.19 4E-06 36.1 7.8 44 6-51 8-53 (231)
239 PRK05986 cob(I)alamin adenolsy 95.2 0.077 1.7E-06 36.9 5.8 54 114-167 109-166 (191)
240 COG3972 Superfamily I DNA and 95.2 0.12 2.6E-06 41.0 7.3 45 9-53 185-230 (660)
241 COG0593 DnaA ATPase involved i 95.2 0.11 2.4E-06 40.4 7.1 97 30-159 113-220 (408)
242 PRK14722 flhF flagellar biosyn 95.1 0.42 9.2E-06 36.9 10.1 36 4-39 141-176 (374)
243 TIGR02928 orc1/cdc6 family rep 95.1 0.1 2.2E-06 39.9 6.8 24 3-26 43-66 (365)
244 PRK14964 DNA polymerase III su 95.0 0.24 5.2E-06 39.6 8.7 23 3-25 38-60 (491)
245 COG0653 SecA Preprotein transl 95.0 0.18 4E-06 42.5 8.2 58 2-62 95-156 (822)
246 KOG0780|consensus 94.9 0.048 1E-06 41.9 4.3 32 7-39 108-139 (483)
247 PTZ00112 origin recognition co 94.9 0.34 7.5E-06 41.6 9.5 22 4-25 785-806 (1164)
248 PRK05642 DNA replication initi 94.9 0.21 4.6E-06 35.9 7.6 39 120-158 97-139 (234)
249 PRK14961 DNA polymerase III su 94.9 0.37 8E-06 37.0 9.3 22 4-25 42-63 (363)
250 PRK14949 DNA polymerase III su 94.9 0.11 2.3E-06 44.4 6.7 23 4-26 42-64 (944)
251 cd03115 SRP The signal recogni 94.9 0.76 1.7E-05 31.1 11.7 32 4-37 4-35 (173)
252 COG3267 ExeA Type II secretory 94.8 0.063 1.4E-06 38.9 4.6 38 122-159 133-174 (269)
253 PHA03333 putative ATPase subun 94.8 0.081 1.8E-06 43.7 5.6 44 8-52 195-239 (752)
254 PRK07940 DNA polymerase III su 94.8 0.21 4.5E-06 38.9 7.8 24 4-27 40-63 (394)
255 PF06745 KaiC: KaiC; InterPro 94.7 0.091 2E-06 37.4 5.2 48 4-53 23-71 (226)
256 PRK14952 DNA polymerase III su 94.6 0.45 9.6E-06 39.0 9.5 23 4-26 39-61 (584)
257 PRK06893 DNA replication initi 94.6 0.29 6.3E-06 35.0 7.6 15 120-134 91-105 (229)
258 PRK07994 DNA polymerase III su 94.6 0.35 7.5E-06 40.1 8.8 24 4-27 42-65 (647)
259 KOG0950|consensus 94.5 0.19 4.2E-06 42.7 7.3 135 2-163 242-392 (1008)
260 PRK14721 flhF flagellar biosyn 94.5 1.8 4E-05 34.0 12.2 52 106-161 313-367 (420)
261 PHA02544 44 clamp loader, smal 94.4 0.32 6.8E-06 36.4 7.8 40 120-159 100-141 (316)
262 PF01695 IstB_IS21: IstB-like 94.4 0.044 9.6E-07 37.7 2.9 38 2-41 49-86 (178)
263 PRK05707 DNA polymerase III su 94.3 0.13 2.9E-06 38.9 5.6 25 4-28 26-50 (328)
264 PRK12727 flagellar biosynthesi 94.2 0.7 1.5E-05 37.4 9.6 33 5-37 355-387 (559)
265 PRK06731 flhF flagellar biosyn 94.2 1 2.2E-05 33.2 9.8 44 4-49 79-126 (270)
266 PRK14955 DNA polymerase III su 94.2 0.32 7E-06 37.9 7.6 23 4-26 42-64 (397)
267 PRK07764 DNA polymerase III su 94.2 0.54 1.2E-05 40.1 9.3 23 4-26 41-63 (824)
268 PRK14951 DNA polymerase III su 94.1 0.36 7.7E-06 39.8 7.9 23 4-26 42-64 (618)
269 KOG0991|consensus 94.1 0.14 3E-06 36.9 4.9 17 118-134 111-127 (333)
270 PHA00012 I assembly protein 94.0 0.25 5.5E-06 37.3 6.4 24 5-28 6-29 (361)
271 COG1702 PhoH Phosphate starvat 94.0 0.095 2.1E-06 39.6 4.1 44 119-164 242-285 (348)
272 PRK05973 replicative DNA helic 94.0 0.18 4E-06 36.4 5.5 47 4-52 68-114 (237)
273 PF12340 DUF3638: Protein of u 94.0 0.08 1.7E-06 37.8 3.6 50 2-52 43-92 (229)
274 PF05876 Terminase_GpA: Phage 94.0 0.029 6.2E-07 45.6 1.5 132 6-162 39-183 (557)
275 PRK14969 DNA polymerase III su 94.0 0.52 1.1E-05 38.2 8.6 23 4-26 42-64 (527)
276 TIGR02655 circ_KaiC circadian 94.0 0.25 5.4E-06 39.6 6.7 48 4-53 267-314 (484)
277 TIGR03345 VI_ClpV1 type VI sec 93.9 0.17 3.7E-06 43.3 6.0 23 2-24 210-232 (852)
278 PRK04195 replication factor C 93.9 0.17 3.7E-06 40.4 5.8 15 120-134 98-112 (482)
279 PRK12724 flagellar biosynthesi 93.9 0.49 1.1E-05 37.1 8.0 33 4-37 227-259 (432)
280 PRK10867 signal recognition pa 93.8 0.38 8.2E-06 37.9 7.3 34 4-38 104-137 (433)
281 PRK08058 DNA polymerase III su 93.8 0.23 5.1E-06 37.6 6.0 23 4-26 32-54 (329)
282 PHA02533 17 large terminase pr 93.8 0.18 3.9E-06 40.8 5.6 43 116-159 165-210 (534)
283 TIGR01547 phage_term_2 phage t 93.7 0.12 2.5E-06 40.2 4.4 38 121-160 102-142 (396)
284 PRK00771 signal recognition pa 93.7 0.64 1.4E-05 36.7 8.5 33 4-38 99-131 (437)
285 PRK09111 DNA polymerase III su 93.7 0.39 8.4E-06 39.5 7.5 24 4-27 50-73 (598)
286 TIGR03499 FlhF flagellar biosy 93.7 0.64 1.4E-05 34.5 8.1 34 4-37 198-231 (282)
287 TIGR01425 SRP54_euk signal rec 93.7 0.52 1.1E-05 37.1 7.8 33 4-38 104-136 (429)
288 cd01122 GP4d_helicase GP4d_hel 93.6 1 2.2E-05 32.9 9.0 46 3-49 33-78 (271)
289 PRK13889 conjugal transfer rel 93.5 0.56 1.2E-05 40.8 8.3 42 120-163 433-475 (988)
290 PF05127 Helicase_RecD: Helica 93.4 0.035 7.6E-07 38.1 1.0 33 120-157 90-122 (177)
291 TIGR03880 KaiC_arch_3 KaiC dom 93.4 0.29 6.3E-06 34.8 5.8 48 4-53 20-67 (224)
292 CHL00095 clpC Clp protease ATP 93.4 0.3 6.5E-06 41.7 6.6 24 2-25 202-225 (821)
293 PRK14963 DNA polymerase III su 93.4 0.78 1.7E-05 37.0 8.6 25 4-28 40-64 (504)
294 PRK05563 DNA polymerase III su 93.4 0.79 1.7E-05 37.5 8.7 22 4-25 42-63 (559)
295 PRK08533 flagellar accessory p 93.4 0.32 6.9E-06 34.9 5.9 46 4-51 28-73 (230)
296 PRK00440 rfc replication facto 93.3 0.99 2.1E-05 33.7 8.8 38 120-157 102-140 (319)
297 PRK12726 flagellar biosynthesi 93.3 1.1 2.4E-05 34.9 8.9 44 5-50 211-258 (407)
298 PRK07952 DNA replication prote 93.3 0.17 3.7E-06 36.7 4.4 33 2-36 101-133 (244)
299 PRK06995 flhF flagellar biosyn 93.3 0.49 1.1E-05 37.8 7.2 33 5-37 261-293 (484)
300 PRK14957 DNA polymerase III su 93.3 0.72 1.6E-05 37.5 8.2 23 4-26 42-64 (546)
301 PF00580 UvrD-helicase: UvrD/R 93.2 0.14 3.1E-06 37.8 4.1 37 5-41 18-56 (315)
302 PRK11034 clpA ATP-dependent Cl 93.1 0.28 6.1E-06 41.4 5.9 23 2-24 209-231 (758)
303 TIGR03877 thermo_KaiC_1 KaiC d 93.0 0.36 7.8E-06 34.7 5.8 47 4-52 25-71 (237)
304 PRK14959 DNA polymerase III su 93.0 0.59 1.3E-05 38.5 7.4 23 4-26 42-64 (624)
305 PRK10416 signal recognition pa 93.0 0.99 2.2E-05 34.1 8.2 32 5-38 119-150 (318)
306 PF03237 Terminase_6: Terminas 92.9 1.6 3.5E-05 33.0 9.5 36 5-40 2-37 (384)
307 COG2894 MinD Septum formation 92.9 0.54 1.2E-05 33.6 6.1 27 105-131 98-124 (272)
308 PRK07471 DNA polymerase III su 92.8 0.41 9E-06 36.9 6.1 25 4-28 45-69 (365)
309 COG0470 HolB ATPase involved i 92.8 0.63 1.4E-05 34.8 7.0 25 4-28 28-52 (325)
310 PRK14962 DNA polymerase III su 92.8 0.8 1.7E-05 36.6 7.8 22 4-25 40-61 (472)
311 PF01443 Viral_helicase1: Vira 92.7 0.33 7.2E-06 34.5 5.2 41 120-163 62-102 (234)
312 PRK08451 DNA polymerase III su 92.7 1.4 3E-05 35.8 9.1 23 4-26 40-62 (535)
313 PF13177 DNA_pol3_delta2: DNA 92.7 1 2.2E-05 30.4 7.3 29 4-32 23-51 (162)
314 PRK08506 replicative DNA helic 92.6 1 2.2E-05 36.0 8.2 45 4-50 196-240 (472)
315 PF02572 CobA_CobO_BtuR: ATP:c 92.4 0.37 8E-06 33.0 4.8 54 113-166 89-146 (172)
316 PRK05298 excinuclease ABC subu 92.4 0.48 1E-05 39.4 6.3 53 4-61 36-89 (652)
317 TIGR03881 KaiC_arch_4 KaiC dom 92.2 0.53 1.1E-05 33.5 5.8 46 4-51 24-69 (229)
318 PRK14723 flhF flagellar biosyn 92.2 1.4 3E-05 37.4 8.7 35 4-38 189-223 (767)
319 PRK14948 DNA polymerase III su 92.2 1.1 2.4E-05 37.1 8.1 24 4-27 42-65 (620)
320 TIGR03600 phage_DnaB phage rep 92.2 0.81 1.8E-05 35.9 7.1 45 4-49 198-242 (421)
321 PRK13826 Dtr system oriT relax 92.1 1.3 2.9E-05 39.0 8.7 41 121-163 469-510 (1102)
322 PHA00350 putative assembly pro 92.0 0.49 1.1E-05 36.8 5.6 15 6-20 7-21 (399)
323 PRK13342 recombination factor 92.0 1.1 2.3E-05 35.2 7.6 19 3-21 39-57 (413)
324 PRK06067 flagellar accessory p 92.0 0.56 1.2E-05 33.6 5.7 47 4-52 29-75 (234)
325 PRK10865 protein disaggregatio 92.0 0.75 1.6E-05 39.6 7.1 24 2-25 201-224 (857)
326 PRK12377 putative replication 92.0 0.35 7.6E-06 35.2 4.6 39 3-43 104-142 (248)
327 PF06564 YhjQ: YhjQ protein; 91.9 1.6 3.4E-05 31.7 7.7 31 8-40 10-42 (243)
328 TIGR00064 ftsY signal recognit 91.9 4 8.7E-05 30.1 11.6 32 5-38 77-108 (272)
329 TIGR03346 chaperone_ClpB ATP-d 91.8 0.67 1.5E-05 39.8 6.7 24 2-25 196-219 (852)
330 PRK08760 replicative DNA helic 91.8 0.67 1.4E-05 37.1 6.3 48 4-52 233-280 (476)
331 PRK04132 replication factor C 91.8 1.8 4E-05 37.1 9.0 42 120-163 630-674 (846)
332 KOG0739|consensus 91.7 0.21 4.5E-06 37.4 3.1 47 2-53 168-214 (439)
333 PRK04328 hypothetical protein; 91.6 0.66 1.4E-05 33.7 5.7 47 4-52 27-73 (249)
334 COG1199 DinG Rad3-related DNA 91.6 0.36 7.7E-06 40.1 4.8 48 3-51 37-85 (654)
335 COG0467 RAD55 RecA-superfamily 91.6 0.74 1.6E-05 33.5 6.0 48 4-53 27-74 (260)
336 PHA00673 acetyltransferase dom 91.5 0.27 5.8E-06 33.0 3.3 45 120-164 87-134 (154)
337 cd02034 CooC The accessory pro 91.5 2.4 5.3E-05 26.9 9.1 45 4-52 3-47 (116)
338 TIGR02880 cbbX_cfxQ probable R 91.4 0.28 6.2E-06 36.4 3.7 27 2-28 60-86 (284)
339 PRK09376 rho transcription ter 91.4 0.19 4.1E-06 39.0 2.8 22 4-25 173-194 (416)
340 COG3973 Superfamily I DNA and 91.4 0.4 8.7E-06 39.2 4.6 44 4-47 230-277 (747)
341 PRK14965 DNA polymerase III su 91.4 1.9 4.2E-05 35.4 8.6 23 4-26 42-64 (576)
342 PRK06871 DNA polymerase III su 91.2 1.2 2.6E-05 33.8 6.8 25 4-28 28-52 (325)
343 TIGR00678 holB DNA polymerase 91.1 2.1 4.6E-05 29.4 7.6 23 4-26 18-40 (188)
344 COG3265 GntK Gluconate kinase 91.1 0.78 1.7E-05 30.7 5.0 36 33-68 69-104 (161)
345 TIGR00347 bioD dethiobiotin sy 91.1 0.47 1E-05 31.9 4.2 33 4-38 2-34 (166)
346 PF12846 AAA_10: AAA-like doma 91.0 0.54 1.2E-05 34.5 4.9 36 3-40 4-39 (304)
347 cd02037 MRP-like MRP (Multiple 91.0 0.39 8.5E-06 32.5 3.8 32 4-37 4-35 (169)
348 TIGR00596 rad1 DNA repair prot 90.9 0.38 8.2E-06 40.9 4.3 58 102-160 11-74 (814)
349 TIGR01281 DPOR_bchL light-inde 90.8 0.34 7.4E-06 35.4 3.6 27 8-36 8-34 (268)
350 PRK08939 primosomal protein Dn 90.8 0.51 1.1E-05 35.4 4.5 38 2-41 158-195 (306)
351 PRK13235 nifH nitrogenase redu 90.8 0.35 7.6E-06 35.5 3.7 27 8-36 9-35 (274)
352 TIGR00682 lpxK tetraacyldisacc 90.7 2.4 5.2E-05 32.0 7.9 19 10-28 40-58 (311)
353 PRK14953 DNA polymerase III su 90.7 2.3 4.9E-05 34.2 8.3 22 4-25 42-63 (486)
354 PF02606 LpxK: Tetraacyldisacc 90.6 2.9 6.3E-05 31.8 8.5 41 10-50 47-100 (326)
355 PRK13230 nitrogenase reductase 90.6 0.36 7.8E-06 35.6 3.6 28 7-36 8-35 (279)
356 PRK05636 replicative DNA helic 90.5 0.91 2E-05 36.6 6.0 45 4-49 269-313 (505)
357 PRK07993 DNA polymerase III su 90.5 1.2 2.6E-05 33.9 6.4 25 4-28 28-52 (334)
358 PRK08691 DNA polymerase III su 90.4 3.2 6.9E-05 34.9 9.0 23 4-26 42-64 (709)
359 PRK14954 DNA polymerase III su 90.3 1.2 2.6E-05 36.9 6.6 23 4-26 42-64 (620)
360 PF02456 Adeno_IVa2: Adenoviru 90.3 0.64 1.4E-05 34.9 4.5 47 4-50 91-143 (369)
361 PRK10037 cell division protein 90.3 0.42 9E-06 34.6 3.6 31 4-36 6-36 (250)
362 PRK06921 hypothetical protein; 89.9 0.73 1.6E-05 33.9 4.7 39 3-42 120-158 (266)
363 PF03354 Terminase_1: Phage Te 89.9 1.6 3.5E-05 34.9 6.9 32 111-144 114-145 (477)
364 PRK13185 chlL protochlorophyll 89.9 0.47 1E-05 34.7 3.7 28 7-36 9-36 (270)
365 PHA02518 ParA-like protein; Pr 89.8 0.84 1.8E-05 31.8 4.8 41 6-48 7-49 (211)
366 PRK06835 DNA replication prote 89.8 0.48 1E-05 36.0 3.7 38 2-41 185-222 (329)
367 PRK07004 replicative DNA helic 89.7 0.95 2.1E-05 36.1 5.4 45 4-49 217-261 (460)
368 TIGR02012 tigrfam_recA protein 89.5 3.6 7.8E-05 31.2 8.1 38 5-44 60-97 (321)
369 cd02117 NifH_like This family 89.5 0.55 1.2E-05 33.1 3.7 27 8-36 8-34 (212)
370 TIGR00767 rho transcription te 89.4 1.1 2.4E-05 35.0 5.4 21 3-23 171-191 (415)
371 cd00983 recA RecA is a bacter 89.4 3 6.4E-05 31.7 7.6 37 5-43 60-96 (325)
372 CHL00072 chlL photochlorophyll 89.4 0.53 1.2E-05 35.0 3.7 28 8-37 8-35 (290)
373 PRK06321 replicative DNA helic 89.4 1.7 3.6E-05 34.8 6.6 46 4-50 230-275 (472)
374 cd02032 Bchl_like This family 89.4 0.55 1.2E-05 34.3 3.7 27 8-36 8-34 (267)
375 TIGR03878 thermo_KaiC_2 KaiC d 89.4 0.63 1.4E-05 34.0 4.0 34 4-39 40-73 (259)
376 PRK09165 replicative DNA helic 89.1 1.8 3.9E-05 34.9 6.6 48 3-50 220-280 (497)
377 PRK13849 putative crown gall t 89.0 1.1 2.4E-05 32.2 4.9 42 6-49 8-51 (231)
378 PRK05896 DNA polymerase III su 89.0 2.9 6.3E-05 34.5 7.7 24 4-27 42-65 (605)
379 cd02040 NifH NifH gene encodes 88.9 0.59 1.3E-05 34.1 3.6 27 8-36 9-35 (270)
380 TIGR00665 DnaB replicative DNA 88.9 1.9 4.2E-05 33.9 6.6 46 4-50 199-244 (434)
381 KOG1133|consensus 88.9 0.3 6.6E-06 40.3 2.1 38 96-134 322-362 (821)
382 PF13500 AAA_26: AAA domain; P 88.8 0.79 1.7E-05 31.9 4.0 33 4-38 5-37 (199)
383 TIGR01287 nifH nitrogenase iro 88.8 0.62 1.3E-05 34.2 3.6 27 8-36 8-34 (275)
384 PRK05748 replicative DNA helic 88.7 2.1 4.5E-05 34.0 6.7 45 4-49 207-251 (448)
385 KOG1807|consensus 88.7 1.1 2.4E-05 37.8 5.2 60 3-63 396-460 (1025)
386 KOG0738|consensus 88.7 0.66 1.4E-05 36.0 3.7 43 2-50 247-290 (491)
387 TIGR01243 CDC48 AAA family ATP 88.7 0.51 1.1E-05 39.8 3.5 39 2-45 489-527 (733)
388 PF13173 AAA_14: AAA domain 88.6 0.51 1.1E-05 30.4 2.8 41 120-161 61-101 (128)
389 PRK00652 lpxK tetraacyldisacch 88.6 7.3 0.00016 29.7 9.2 59 10-68 61-132 (325)
390 TIGR02655 circ_KaiC circadian 88.6 1.4 3.1E-05 35.3 5.8 49 4-53 25-73 (484)
391 COG2205 KdpD Osmosensitive K+ 88.6 1.2 2.6E-05 37.7 5.3 26 3-28 25-50 (890)
392 TIGR02782 TrbB_P P-type conjug 88.6 0.59 1.3E-05 35.0 3.4 25 2-26 134-158 (299)
393 PF02374 ArsA_ATPase: Anion-tr 88.6 0.72 1.6E-05 34.6 3.9 35 8-44 9-45 (305)
394 PRK10263 DNA translocase FtsK; 88.5 2.2 4.9E-05 38.2 7.1 38 3-40 1013-1052(1355)
395 PRK13232 nifH nitrogenase redu 88.5 0.69 1.5E-05 34.0 3.7 28 7-36 8-35 (273)
396 PF01583 APS_kinase: Adenylyls 88.5 3.1 6.7E-05 28.1 6.5 51 5-55 7-98 (156)
397 PF05729 NACHT: NACHT domain 88.3 0.93 2E-05 30.0 4.0 25 4-28 4-28 (166)
398 cd01120 RecA-like_NTPases RecA 88.2 1.2 2.6E-05 29.3 4.5 37 4-42 3-39 (165)
399 PRK13833 conjugal transfer pro 88.2 0.73 1.6E-05 34.9 3.7 24 2-25 146-169 (323)
400 PF13481 AAA_25: AAA domain; P 88.0 1.5 3.2E-05 30.1 5.0 51 3-53 35-93 (193)
401 PRK06647 DNA polymerase III su 88.0 3.9 8.6E-05 33.5 7.9 23 4-26 42-64 (563)
402 TIGR01969 minD_arch cell divis 87.9 0.78 1.7E-05 32.9 3.6 31 4-36 5-35 (251)
403 PRK13236 nitrogenase reductase 87.9 0.77 1.7E-05 34.3 3.7 27 8-36 14-40 (296)
404 PF01656 CbiA: CobQ/CobB/MinD/ 87.9 0.93 2E-05 31.1 3.9 33 4-38 3-35 (195)
405 cd01983 Fer4_NifH The Fer4_Nif 87.8 1.1 2.3E-05 26.6 3.8 30 6-37 5-34 (99)
406 PRK09354 recA recombinase A; P 87.7 6.1 0.00013 30.4 8.3 38 5-44 65-102 (349)
407 PRK09302 circadian clock prote 87.5 2 4.3E-05 34.7 6.0 48 4-53 277-324 (509)
408 PRK06090 DNA polymerase III su 87.3 2.1 4.5E-05 32.5 5.6 25 4-28 29-53 (319)
409 COG1199 DinG Rad3-related DNA 87.2 0.6 1.3E-05 38.8 3.0 38 96-134 193-234 (654)
410 PRK08769 DNA polymerase III su 87.1 4 8.8E-05 30.9 7.1 25 4-28 30-54 (319)
411 PF01935 DUF87: Domain of unkn 87.1 1.2 2.6E-05 31.7 4.2 35 5-40 28-62 (229)
412 COG1474 CDC6 Cdc6-related prot 87.0 2.1 4.6E-05 33.0 5.7 25 3-27 45-69 (366)
413 cd01394 radB RadB. The archaea 86.9 1.1 2.3E-05 31.7 3.8 34 4-39 23-56 (218)
414 PF00265 TK: Thymidine kinase; 86.8 1.4 3.1E-05 30.2 4.2 33 6-40 7-39 (176)
415 COG1192 Soj ATPases involved i 86.7 1 2.3E-05 32.6 3.8 31 6-37 9-39 (259)
416 PRK10689 transcription-repair 86.6 24 0.00052 31.8 12.5 92 30-146 809-903 (1147)
417 PHA02542 41 41 helicase; Provi 86.6 1.8 4E-05 34.6 5.3 45 3-49 193-237 (473)
418 KOG2825|consensus 86.5 3 6.5E-05 30.6 5.8 44 5-50 24-70 (323)
419 PRK13695 putative NTPase; Prov 86.5 4.9 0.00011 27.2 6.8 130 1-155 1-132 (174)
420 cd00984 DnaB_C DnaB helicase C 86.4 2.4 5.3E-05 30.3 5.5 37 4-41 17-53 (242)
421 TIGR02525 plasmid_TraJ plasmid 86.3 1.2 2.6E-05 34.5 3.9 24 3-26 152-175 (372)
422 PHA02519 plasmid partition pro 86.2 1 2.2E-05 35.0 3.6 31 4-36 111-141 (387)
423 PRK14712 conjugal transfer nic 86.0 4.9 0.00011 37.1 7.9 40 120-161 930-970 (1623)
424 PRK13234 nifH nitrogenase redu 85.8 1.2 2.5E-05 33.3 3.6 28 7-36 11-38 (295)
425 PRK13233 nifH nitrogenase redu 85.8 1.1 2.5E-05 32.8 3.6 28 8-36 10-37 (275)
426 PRK09361 radB DNA repair and r 85.8 2.9 6.3E-05 29.6 5.6 34 4-39 27-60 (225)
427 PRK10818 cell division inhibit 85.7 1.2 2.6E-05 32.6 3.6 30 5-36 8-37 (270)
428 PRK09302 circadian clock prote 85.7 2.5 5.4E-05 34.1 5.7 49 4-53 35-83 (509)
429 TIGR02016 BchX chlorophyllide 85.7 1.2 2.6E-05 33.3 3.7 29 7-37 7-35 (296)
430 PRK13705 plasmid-partitioning 85.6 1.1 2.4E-05 34.8 3.6 40 4-45 111-153 (388)
431 PRK13709 conjugal transfer nic 85.5 5.2 0.00011 37.3 7.9 39 120-160 1062-1101(1747)
432 cd01125 repA Hexameric Replica 85.4 2.8 6E-05 30.1 5.4 38 3-40 4-51 (239)
433 PRK13869 plasmid-partitioning 85.4 1.2 2.6E-05 34.9 3.6 41 4-46 126-168 (405)
434 cd01128 rho_factor Transcripti 85.3 1.5 3.3E-05 31.9 4.0 14 4-17 20-33 (249)
435 PRK06964 DNA polymerase III su 85.3 6.8 0.00015 30.1 7.5 25 4-28 25-49 (342)
436 PRK00090 bioD dithiobiotin syn 85.2 1.7 3.6E-05 30.8 4.1 25 4-28 4-28 (222)
437 TIGR02237 recomb_radB DNA repa 85.2 3.5 7.7E-05 28.8 5.7 35 4-40 16-50 (209)
438 PRK13894 conjugal transfer ATP 85.2 1.3 2.9E-05 33.5 3.7 34 2-35 150-183 (319)
439 PRK11054 helD DNA helicase IV; 85.1 1.7 3.7E-05 36.5 4.6 49 4-52 213-264 (684)
440 PRK09435 membrane ATPase/prote 85.1 7 0.00015 29.9 7.5 47 5-53 61-114 (332)
441 cd02036 MinD Bacterial cell di 85.1 1.6 3.4E-05 29.5 3.8 31 4-36 4-34 (179)
442 TIGR01007 eps_fam capsular exo 84.9 1.6 3.6E-05 30.4 3.9 32 4-37 22-53 (204)
443 PRK01906 tetraacyldisaccharide 84.9 10 0.00022 29.1 8.3 59 10-68 68-138 (338)
444 PF03796 DnaB_C: DnaB-like hel 84.6 3 6.4E-05 30.4 5.3 41 3-44 22-62 (259)
445 TIGR02760 TraI_TIGR conjugativ 84.4 7 0.00015 37.1 8.4 38 4-43 450-487 (1960)
446 TIGR03371 cellulose_yhjQ cellu 84.4 1.7 3.6E-05 31.2 3.8 32 4-37 6-37 (246)
447 PF00437 T2SE: Type II/IV secr 84.3 0.86 1.9E-05 33.3 2.4 23 3-25 130-152 (270)
448 TIGR01968 minD_bact septum sit 83.6 1.9 4.1E-05 31.1 3.9 31 4-36 6-36 (261)
449 KOG2028|consensus 83.2 3.9 8.6E-05 31.8 5.4 14 4-17 166-179 (554)
450 PF02702 KdpD: Osmosensitive K 83.2 1.5 3.3E-05 30.9 3.0 26 3-28 8-33 (211)
451 PRK09183 transposase/IS protei 83.0 2.2 4.7E-05 31.2 4.0 38 3-42 105-142 (259)
452 PRK07773 replicative DNA helic 83.0 4.6 0.0001 35.1 6.4 48 3-51 220-267 (886)
453 PRK06904 replicative DNA helic 82.9 3.6 7.7E-05 33.0 5.4 47 3-50 224-270 (472)
454 PRK08903 DnaA regulatory inact 82.9 2.2 4.7E-05 30.3 3.9 22 3-24 45-66 (227)
455 cd02035 ArsA ArsA ATPase funct 82.9 2.1 4.6E-05 30.3 3.8 32 4-37 3-34 (217)
456 COG1880 CdhB CO dehydrogenase/ 82.8 3.8 8.2E-05 27.6 4.6 44 13-56 19-62 (170)
457 PF07726 AAA_3: ATPase family 82.8 0.54 1.2E-05 30.6 0.7 21 3-23 2-22 (131)
458 PF07728 AAA_5: AAA domain (dy 82.8 1.4 2.9E-05 28.6 2.6 22 3-24 2-23 (139)
459 PF01580 FtsK_SpoIIIE: FtsK/Sp 82.8 2.2 4.8E-05 29.8 3.8 38 3-40 41-80 (205)
460 PRK05564 DNA polymerase III su 82.7 4.3 9.2E-05 30.5 5.6 14 120-133 93-106 (313)
461 PRK14971 DNA polymerase III su 82.7 9.5 0.00021 31.8 7.9 22 4-25 43-64 (614)
462 COG0464 SpoVK ATPases of the A 82.6 1.3 2.7E-05 35.6 2.8 46 2-52 278-323 (494)
463 COG1224 TIP49 DNA helicase TIP 82.5 1.1 2.3E-05 34.6 2.2 23 2-24 67-89 (450)
464 TIGR00959 ffh signal recogniti 82.4 2.1 4.6E-05 33.8 3.9 33 4-37 103-135 (428)
465 TIGR02524 dot_icm_DotB Dot/Icm 82.4 2.3 5.1E-05 32.7 4.1 24 3-26 137-160 (358)
466 cd00550 ArsA_ATPase Oxyanion-t 82.4 2 4.3E-05 31.3 3.6 40 4-45 4-45 (254)
467 cd02042 ParA ParA and ParB of 82.3 2.8 6E-05 25.6 3.8 31 4-36 4-34 (104)
468 KOG2543|consensus 82.1 3.4 7.4E-05 32.1 4.7 41 121-161 116-161 (438)
469 PRK05595 replicative DNA helic 81.8 4.3 9.4E-05 32.2 5.5 46 4-50 205-250 (444)
470 TIGR00580 mfd transcription-re 81.8 16 0.00035 32.1 9.1 92 30-146 660-754 (926)
471 PRK13768 GTPase; Provisional 81.7 2 4.3E-05 31.3 3.3 31 4-36 6-36 (253)
472 COG0305 DnaB Replicative DNA h 81.6 4.8 0.0001 31.9 5.5 48 4-52 200-247 (435)
473 CHL00175 minD septum-site dete 81.1 2.5 5.5E-05 31.1 3.8 31 4-36 20-50 (281)
474 PRK03992 proteasome-activating 80.8 2 4.3E-05 33.4 3.3 39 2-45 167-205 (389)
475 PTZ00301 uridine kinase; Provi 80.5 3.4 7.4E-05 29.3 4.1 21 5-25 8-28 (210)
476 PF06068 TIP49: TIP49 C-termin 80.5 0.75 1.6E-05 35.5 0.8 35 3-40 53-87 (398)
477 PF04665 Pox_A32: Poxvirus A32 80.3 2.4 5.1E-05 30.8 3.3 35 3-39 16-50 (241)
478 cd03109 DTBS Dethiobiotin synt 80.0 3.8 8.3E-05 26.6 4.0 34 5-40 4-37 (134)
479 cd01918 HprK_C HprK/P, the bif 79.8 1.2 2.6E-05 29.8 1.5 22 2-23 16-37 (149)
480 cd02038 FleN-like FleN is a me 79.6 3.8 8.2E-05 26.7 3.9 31 4-36 4-34 (139)
481 PRK12374 putative dithiobiotin 79.5 3.3 7.2E-05 29.6 3.9 24 5-28 8-31 (231)
482 TIGR03453 partition_RepA plasm 79.4 3 6.5E-05 32.4 3.8 39 5-45 110-150 (387)
483 PF07475 Hpr_kinase_C: HPr Ser 79.4 0.96 2.1E-05 30.9 1.0 21 2-22 20-40 (171)
484 PF10412 TrwB_AAD_bind: Type I 79.2 2.6 5.6E-05 32.8 3.4 37 2-40 17-53 (386)
485 COG0132 BioD Dethiobiotin synt 79.2 2.4 5.2E-05 30.3 3.0 23 6-28 9-31 (223)
486 TIGR03029 EpsG chain length de 79.1 3.3 7.3E-05 30.3 3.9 31 4-36 108-138 (274)
487 cd02025 PanK Pantothenate kina 79.1 4.5 9.7E-05 28.8 4.4 20 5-24 4-23 (220)
488 PF00154 RecA: recA bacterial 78.8 16 0.00036 27.8 7.4 43 5-49 58-101 (322)
489 PF06309 Torsin: Torsin; Inte 78.8 8.9 0.00019 24.9 5.2 47 7-53 60-113 (127)
490 cd01131 PilT Pilus retraction 78.8 2.7 5.9E-05 29.3 3.2 23 3-25 4-26 (198)
491 KOG0731|consensus 78.7 1.4 3.1E-05 37.1 2.0 21 1-21 345-365 (774)
492 cd01129 PulE-GspE PulE/GspE Th 78.7 2.3 5E-05 31.2 2.9 23 3-25 83-105 (264)
493 COG0444 DppD ABC-type dipeptid 78.1 1.7 3.6E-05 32.8 2.0 21 5-25 36-56 (316)
494 PF07724 AAA_2: AAA domain (Cd 78.1 3.6 7.8E-05 28.1 3.5 23 3-25 6-28 (171)
495 COG4098 comFA Superfamily II D 78.0 18 0.00039 28.0 7.3 83 28-133 303-386 (441)
496 PF00004 AAA: ATPase family as 77.8 1.8 4E-05 27.4 2.0 20 4-23 2-21 (132)
497 PRK13231 nitrogenase reductase 77.8 1.4 2.9E-05 32.2 1.5 27 7-36 9-35 (264)
498 TIGR03018 pepcterm_TyrKin exop 77.7 4.3 9.4E-05 28.4 3.9 33 4-37 40-72 (207)
499 PHA00729 NTP-binding motif con 77.6 3.7 8E-05 29.5 3.5 22 3-24 20-41 (226)
500 TIGR02640 gas_vesic_GvpN gas v 77.6 2 4.3E-05 31.4 2.3 30 3-37 24-53 (262)
No 1
>KOG0385|consensus
Probab=100.00 E-value=1.7e-45 Score=286.24 Aligned_cols=151 Identities=30% Similarity=0.514 Sum_probs=142.8
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
.|||||||||+|||+++|+++.++... +..+|.||+||.+++++|..||.+|+|+++++.|+|++.+|..........
T Consensus 187 ingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~NW~~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~- 265 (971)
T KOG0385|consen 187 INGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDNWMNEFKRFTPSLNVVVYHGDKEERAALRRDIMLP- 265 (971)
T ss_pred cccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHHHhhcc-
Confidence 479999999999999999999999884 668999999999999999999999999999999999999998888766542
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCC
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~ 159 (169)
+.+++ ++|||+.+.++...+.+++|.++|+||||++||.+|+.++.++.+++.+|+++||||+
T Consensus 266 ----------------~~fdV-~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPL 328 (971)
T KOG0385|consen 266 ----------------GRFDV-CITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPL 328 (971)
T ss_pred ----------------CCCce-EeehHHHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcc
Confidence 68888 9999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhhccC
Q psy1090 160 PNKWSKQCTL 169 (169)
Q Consensus 160 ~n~~~el~~l 169 (169)
||++.|||+|
T Consensus 329 QNNL~ELWaL 338 (971)
T KOG0385|consen 329 QNNLHELWAL 338 (971)
T ss_pred cccHHHHHHH
Confidence 9999999986
No 2
>KOG0389|consensus
Probab=100.00 E-value=5.8e-45 Score=283.90 Aligned_cols=152 Identities=32% Similarity=0.512 Sum_probs=140.5
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
|+||||||||+|||.++|+|++++.+.+..+|.|||||++++.+|.+||++|||.+++..|+|++.+|..++.....-
T Consensus 419 l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~-- 496 (941)
T KOG0389|consen 419 LNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLREFAKWCPSLKVEPYYGSQDERRELRERIKKN-- 496 (941)
T ss_pred ccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHHHHHhCCceEEEeccCcHHHHHHHHHHHhcc--
Confidence 679999999999999999999999999999999999999999999999999999999999999999998877654321
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHh---chhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEecc
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIEN---DFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGW 157 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~---~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~T 157 (169)
...+|+ ++|||+.+.. +..++++.+|+++|+||+|.+||..+.+++.+..+++++|++||||
T Consensus 497 --------------~~~ydV-llTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGT 561 (941)
T KOG0389|consen 497 --------------KDDYDV-LLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGT 561 (941)
T ss_pred --------------CCCccE-EEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCC
Confidence 157888 9999999864 5568889999999999999999999999999999999999999999
Q ss_pred CCCCCchhhccC
Q psy1090 158 YYPNKWSKQCTL 169 (169)
Q Consensus 158 P~~n~~~el~~l 169 (169)
|+||++.||++|
T Consensus 562 PLQNNL~ELiSL 573 (941)
T KOG0389|consen 562 PLQNNLKELISL 573 (941)
T ss_pred cccccHHHHHHH
Confidence 999999999986
No 3
>KOG0387|consensus
Probab=100.00 E-value=2.4e-41 Score=263.91 Aligned_cols=158 Identities=25% Similarity=0.449 Sum_probs=132.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHH-HHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERK-ALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~ 79 (169)
||||+||||+|||++.|+|+..+... ...+|+|||||.+++.||..||++|.|.+++.++++...... ......
T Consensus 226 GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E~~~w~p~~rv~ilh~t~s~~r~~~~~~~---- 301 (923)
T KOG0387|consen 226 GGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKEFQTWWPPFRVFILHGTGSGARYDASHSS---- 301 (923)
T ss_pred CCeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHHHHHhCcceEEEEEecCCcccccccchhh----
Confidence 89999999999999999999999988 667899999999999999999999999999999998765311 000000
Q ss_pred CcccccccCCc-cccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccC
Q psy1090 80 TIKVPAKKGKT-KKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWY 158 (169)
Q Consensus 80 ~~~~~~~~~~~-~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP 158 (169)
.+.... ..-......+ ++|||+.++...+.+....|+++|+||+|+++|++++.+.+++.+++.+|++|||||
T Consensus 302 -----~~~~~~L~r~~~~~~~i-litty~~~r~~~d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTP 375 (923)
T KOG0387|consen 302 -----HKKDKLLIRKVATDGGI-LITTYDGFRIQGDDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTP 375 (923)
T ss_pred -----hhhhhhheeeecccCcE-EEEehhhhcccCcccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCcc
Confidence 000000 0000133445 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCchhhccC
Q psy1090 159 YPNKWSKQCTL 169 (169)
Q Consensus 159 ~~n~~~el~~l 169 (169)
+||++.|||+|
T Consensus 376 iQNnL~ELwsL 386 (923)
T KOG0387|consen 376 IQNNLTELWSL 386 (923)
T ss_pred ccchHHHHHHH
Confidence 99999999986
No 4
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=2.2e-40 Score=271.69 Aligned_cols=151 Identities=30% Similarity=0.503 Sum_probs=136.5
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
.|||||||||+|||+++++++.++... +..+|+|||||.+++.||.+|+.+|+|.++++.++|....+.........
T Consensus 189 ~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~~Ei~kw~p~l~v~~~~G~~~eR~~~~~~~~~-- 266 (1033)
T PLN03142 189 INGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEERAHQREELLV-- 266 (1033)
T ss_pred CCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHHHHHHHHCCCCceEEEeCCHHHHHHHHHHHhc--
Confidence 479999999999999999999887654 55689999999999999999999999999999999998887665544332
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCC
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~ 159 (169)
...+++ +++||+.+.++...+..+.|++||+||||++||+.++.+++++.+++++||+|||||+
T Consensus 267 ---------------~~~~dV-vITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPl 330 (1033)
T PLN03142 267 ---------------AGKFDV-CVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPL 330 (1033)
T ss_pred ---------------ccCCCc-ceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCC
Confidence 156778 9999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhhccC
Q psy1090 160 PNKWSKQCTL 169 (169)
Q Consensus 160 ~n~~~el~~l 169 (169)
+|++.|||+|
T Consensus 331 qNnl~ELwsL 340 (1033)
T PLN03142 331 QNNLHELWAL 340 (1033)
T ss_pred CCCHHHHHHH
Confidence 9999999985
No 5
>KOG0391|consensus
Probab=100.00 E-value=7e-41 Score=268.97 Aligned_cols=151 Identities=26% Similarity=0.449 Sum_probs=142.2
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
++||||||||+|||+++|++++++..+ ++++|.|||+|.+++-+|.-||++|+|+++++-|+|+.++++..+..|..
T Consensus 635 lNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviLnWEMElKRwcPglKILTYyGs~kErkeKRqgW~k-- 712 (1958)
T KOG0391|consen 635 LNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVILNWEMELKRWCPGLKILTYYGSHKERKEKRQGWAK-- 712 (1958)
T ss_pred ccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhhhhhHHHhhhCCcceEeeecCCHHHHHHHhhcccC--
Confidence 589999999999999999999988866 77899999999999999999999999999999999999999988887753
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCC
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~ 159 (169)
...|.+ +|+||..+..+...|.+..|.++|+||+|++||..+++++++.++++.+|++|||||+
T Consensus 713 ---------------PnaFHV-CItSYklv~qd~~AFkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPL 776 (1958)
T KOG0391|consen 713 ---------------PNAFHV-CITSYKLVFQDLTAFKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPL 776 (1958)
T ss_pred ---------------CCeeEE-eehhhHHHHhHHHHHHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCch
Confidence 256666 9999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhhccC
Q psy1090 160 PNKWSKQCTL 169 (169)
Q Consensus 160 ~n~~~el~~l 169 (169)
+|++.|||+|
T Consensus 777 qNslmELWSL 786 (1958)
T KOG0391|consen 777 QNSLMELWSL 786 (1958)
T ss_pred hhHHHHHHHH
Confidence 9999999986
No 6
>KOG0392|consensus
Probab=100.00 E-value=1.3e-38 Score=257.11 Aligned_cols=148 Identities=30% Similarity=0.576 Sum_probs=136.3
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhC-------CCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHH
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQ-------ALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQS 73 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~-------~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~ 73 (169)
+.|||+|+||+|||++++++++.-.... ...|.|||||+++..+|..|+.+|+|.+++..|.|....|...+.
T Consensus 995 LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTLtGHW~~E~~kf~pfL~v~~yvg~p~~r~~lR~ 1074 (1549)
T KOG0392|consen 995 LHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTLTGHWKSEVKKFFPFLKVLQYVGPPAERRELRD 1074 (1549)
T ss_pred ccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchhhhHHHHHHHHhcchhhhhhhcCChHHHHHHHh
Confidence 4699999999999999999988655444 345899999999999999999999999999999999999988876
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEE
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVL 153 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~ 153 (169)
.. .+.++ ++++|+.++++.+.+.+..|.++|+||.|.+||..++.+++++.+++.+|++
T Consensus 1075 q~--------------------~~~~i-iVtSYDv~RnD~d~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLI 1133 (1549)
T KOG0392|consen 1075 QY--------------------KNANI-IVTSYDVVRNDVDYLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLI 1133 (1549)
T ss_pred hc--------------------cccce-EEeeHHHHHHHHHHHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEE
Confidence 54 55667 9999999999999999999999999999999999999999999999999999
Q ss_pred EeccCCCCCchhhccC
Q psy1090 154 LTGWYYPNKWSKQCTL 169 (169)
Q Consensus 154 lT~TP~~n~~~el~~l 169 (169)
|||||+||++.|||+|
T Consensus 1134 LSGTPIQNnvleLWSL 1149 (1549)
T KOG0392|consen 1134 LSGTPIQNNVLELWSL 1149 (1549)
T ss_pred eeCCCcccCHHHHHHH
Confidence 9999999999999986
No 7
>KOG0388|consensus
Probab=100.00 E-value=6.8e-39 Score=248.40 Aligned_cols=157 Identities=25% Similarity=0.432 Sum_probs=143.7
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
++||||||||+|||+++|++++++.+. +.++|.|||+|.+++++|.+|+.+|+|.++++.|-|+..+|..+++.+....
T Consensus 587 iNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL~NWaqEisrFlP~~k~lpywGs~~eRkiLrKfw~rKn 666 (1185)
T KOG0388|consen 587 INGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTLHNWAQEISRFLPSFKVLPYWGSPSERKILRKFWNRKN 666 (1185)
T ss_pred ccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHHHhHHHHHHHHhCccceeecCcCChhhhHHHHHhcchhh
Confidence 479999999999999999999999887 6688999999999999999999999999999999999999998887664321
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCC
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~ 159 (169)
.+.....+++ ++|||+.+..+...+..++|.+.|+||||.+|++.+.+++.+..++|+.|++|||||+
T Consensus 667 -----------mY~rna~fhV-viTSYQlvVtDeky~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPI 734 (1185)
T KOG0388|consen 667 -----------MYRRNAPFHV-VITSYQLVVTDEKYLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPI 734 (1185)
T ss_pred -----------hhccCCCceE-EEEeeeeeechHHHHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCcc
Confidence 1333467788 9999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhhccC
Q psy1090 160 PNKWSKQCTL 169 (169)
Q Consensus 160 ~n~~~el~~l 169 (169)
||+..|||.|
T Consensus 735 QNsMqELWAL 744 (1185)
T KOG0388|consen 735 QNSMQELWAL 744 (1185)
T ss_pred chHHHHHHHH
Confidence 9999999975
No 8
>KOG0384|consensus
Probab=100.00 E-value=3.5e-38 Score=254.80 Aligned_cols=155 Identities=28% Similarity=0.462 Sum_probs=143.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhC-CCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQ-ALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~-~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
+||||||||+|||++.++++.+++... ..+|+|||+|.+++.+|.+||..|. ++++++|+|+...|..++...+....
T Consensus 391 n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~~W~~ef~~w~-~mn~i~y~g~~~sr~~i~~ye~~~~~ 469 (1373)
T KOG0384|consen 391 NCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAWEREFETWT-DMNVIVYHGNLESRQLIRQYEFYHSS 469 (1373)
T ss_pred cceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhHHHHHHHHHHh-hhceeeeecchhHHHHHHHHHheecC
Confidence 699999999999999999999999886 6789999999999999999999999 99999999999999999988876542
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCC
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYP 160 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~ 160 (169)
. .+.-++++ +||||+.+..+...+..++|.++++||||++||..++.+..+..++..+|+++||||+|
T Consensus 470 ~-----------~~~lkf~~-lltTye~~LkDk~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQ 537 (1373)
T KOG0384|consen 470 N-----------TKKLKFNA-LLTTYEIVLKDKAELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQ 537 (1373)
T ss_pred C-----------ccccccce-eehhhHHHhccHhhhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCcc
Confidence 1 11246888 99999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhhccC
Q psy1090 161 NKWSKQCTL 169 (169)
Q Consensus 161 n~~~el~~l 169 (169)
|++.|||+|
T Consensus 538 NsikEL~sL 546 (1373)
T KOG0384|consen 538 NSLKELWSL 546 (1373)
T ss_pred ccHHHHHHH
Confidence 999999986
No 9
>KOG0386|consensus
Probab=100.00 E-value=6.6e-37 Score=243.72 Aligned_cols=150 Identities=35% Similarity=0.552 Sum_probs=141.1
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
++||||||||+|||+++|++|.++++. +..+|.||++|.+++.+|..||.+|.|++..+.|.|+...|..+......
T Consensus 414 LNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~~Ef~kWaPSv~~i~YkGtp~~R~~l~~qir~-- 491 (1157)
T KOG0386|consen 414 LNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWSSEFPKWAPSVQKIQYKGTPQQRSGLTKQQRH-- 491 (1157)
T ss_pred cccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCCchhhccccccceeeeeeeCCHHHHhhHHHHHhc--
Confidence 479999999999999999999999987 55789999999999999999999999999999999999999888876654
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHh-ccccccEEEEeccC
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLT-ALRATFKVLLTGWY 158 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~-~l~~~~~~~lT~TP 158 (169)
++|+| ++|||+.+.++...+..+.|.+.|+||.|++||..++....+. ...+++|++|||||
T Consensus 492 ----------------gKFnV-LlTtyEyiikdk~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTP 554 (1157)
T KOG0386|consen 492 ----------------GKFNV-LLTTYEYIIKDKALLSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTP 554 (1157)
T ss_pred ----------------cccee-eeeeHHHhcCCHHHHhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCCh
Confidence 88999 9999999999999999999999999999999999999998887 67899999999999
Q ss_pred CCCCchhhccC
Q psy1090 159 YPNKWSKQCTL 169 (169)
Q Consensus 159 ~~n~~~el~~l 169 (169)
+||++.|||+|
T Consensus 555 LQN~LpELWaL 565 (1157)
T KOG0386|consen 555 LQNNLPELWAL 565 (1157)
T ss_pred hhhccHHHHHH
Confidence 99999999986
No 10
>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=100.00 E-value=6.8e-36 Score=220.67 Aligned_cols=147 Identities=31% Similarity=0.460 Sum_probs=117.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCC---ceEEEecCcchHHHHHHHHHhC-C-CceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALE---PNLIVCPLSVLNNWEAEFRKFA-P-FVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~---~~Liv~P~~~l~qW~~e~~~~~-~-~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
||+|+||||+|||+++++++..+....... ++|||||.+++.||.+|+.+|+ | ..+++.+.|....+.....
T Consensus 27 g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~~~~~~~~~v~~~~~~~~~~~~~~~--- 103 (299)
T PF00176_consen 27 GGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEKWFDPDSLRVIIYDGDSERRRLSKN--- 103 (299)
T ss_dssp EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHHHSGT-TS-EEEESSSCHHHHTTSS---
T ss_pred CEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhcccccccccccccccccccccccccc---
Confidence 799999999999999999999877665443 6999999999999999999999 4 6888888887722211111
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHH-----hchhccccccccEEEEeCCcccCCcccHHHHHHhccccccE
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIE-----NDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFK 151 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~-----~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~ 151 (169)
.....++ +++||+.+. ...+.+...+|+++|+||+|.+++..++.++++..+.++++
T Consensus 104 -----------------~~~~~~v-vi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~ 165 (299)
T PF00176_consen 104 -----------------QLPKYDV-VITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLRARYR 165 (299)
T ss_dssp -----------------SCCCSSE-EEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCCECEE
T ss_pred -----------------cccccee-eeccccccccccccccccccccccceeEEEecccccccccccccccccccccceE
Confidence 1156677 999999999 66677778899999999999999999999999999999999
Q ss_pred EEEeccCCCCCchhhccC
Q psy1090 152 VLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 152 ~~lT~TP~~n~~~el~~l 169 (169)
|+|||||++|++.|+|++
T Consensus 166 ~lLSgTP~~n~~~dl~~~ 183 (299)
T PF00176_consen 166 WLLSGTPIQNSLEDLYSL 183 (299)
T ss_dssp EEE-SS-SSSGSHHHHHH
T ss_pred Eeeccccccccccccccc
Confidence 999999999999999863
No 11
>KOG0390|consensus
Probab=100.00 E-value=1e-34 Score=230.27 Aligned_cols=154 Identities=23% Similarity=0.318 Sum_probs=129.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCC-----CceEEEecCcchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQAL-----EPNLIVCPLSVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSE 74 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~-----~~~Liv~P~~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~ 74 (169)
|||+||+||+|||++.|+++..+.+..+. .+.|||||++++.+|+.||.+|.. .+..+.+++..++.-.....
T Consensus 265 GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sLv~nWkkEF~KWl~~~~i~~l~~~~~~~~~w~~~~s 344 (776)
T KOG0390|consen 265 GCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSLVNNWKKEFGKWLGNHRINPLDFYSTKKSSWIKLKS 344 (776)
T ss_pred ceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHHHHHHHHHHHHhccccccceeeeecccchhhhhhHH
Confidence 89999999999999999999999999888 899999999999999999999984 56777777776651000011
Q ss_pred hhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEE
Q psy1090 75 ALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLL 154 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~l 154 (169)
..... .......|++.+|+.++++...+....++++|+||+|++||..+..++++..+++++|++|
T Consensus 345 il~~~--------------~~~~~~~vli~sye~~~~~~~~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLL 410 (776)
T KOG0390|consen 345 ILFLG--------------YKQFTTPVLIISYETASDYCRKILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLL 410 (776)
T ss_pred HHHhh--------------hhheeEEEEeccHHHHHHHHHHHhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEe
Confidence 11110 0122222599999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCCchhhccC
Q psy1090 155 TGWYYPNKWSKQCTL 169 (169)
Q Consensus 155 T~TP~~n~~~el~~l 169 (169)
||||+||++.|+|||
T Consensus 411 SGTp~QNdl~EyFnl 425 (776)
T KOG0390|consen 411 TGTPIQNDLKEYFNL 425 (776)
T ss_pred eCCcccccHHHHHHH
Confidence 999999999999986
No 12
>KOG1002|consensus
Probab=100.00 E-value=2.4e-34 Score=216.13 Aligned_cols=142 Identities=23% Similarity=0.414 Sum_probs=122.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
|||||||||+|||+++|+++.. +-...|+|||||.-.+.||.+|+.++. ..++++.|+|.++......-
T Consensus 206 GGiLADEMGMGKTIQtIaLlla---e~~ra~tLVvaP~VAlmQW~nEI~~~T~gslkv~~YhG~~R~~nikel------- 275 (791)
T KOG1002|consen 206 GGILADEMGMGKTIQTIALLLA---EVDRAPTLVVAPTVALMQWKNEIERHTSGSLKVYIYHGAKRDKNIKEL------- 275 (791)
T ss_pred cceehhhhccchHHHHHHHHHh---ccccCCeeEEccHHHHHHHHHHHHHhccCceEEEEEecccccCCHHHh-------
Confidence 8999999999999999999876 333468999999999999999999998 46899999998876543222
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhch-----------------hccccccccEEEEeCCcccCCcccHHHHHH
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDF-----------------GFLKKITWNCIIVDEGHSVKNKKSKLSIKL 143 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~-----------------~~~~~~~~~~vi~DEah~~k~~~~~~~~~~ 143 (169)
...|+ ++|||..+...+ ..+++++|-.+|+||||.+|+..+...+++
T Consensus 276 ---------------~~YDv-VLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV 339 (791)
T KOG1002|consen 276 ---------------MNYDV-VLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAV 339 (791)
T ss_pred ---------------hcCcE-EEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhcccccccccHHHHH
Confidence 66677 999999886432 235678999999999999999999999999
Q ss_pred hccccccEEEEeccCCCCCchhhccC
Q psy1090 144 TALRATFKVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 144 ~~l~~~~~~~lT~TP~~n~~~el~~l 169 (169)
-.+.+.+||.|||||+||++.|||+|
T Consensus 340 ~~L~tt~rw~LSGTPLQNrigElySL 365 (791)
T KOG1002|consen 340 FALETTYRWCLSGTPLQNRIGELYSL 365 (791)
T ss_pred HhhHhhhhhhccCCcchhhHHHHHHH
Confidence 99999999999999999999999986
No 13
>KOG4439|consensus
Probab=100.00 E-value=7.1e-35 Score=225.59 Aligned_cols=146 Identities=24% Similarity=0.402 Sum_probs=122.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCC--------CCceEEEecCcchHHHHHHHHHhC--CCceEEEEeCCHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQA--------LEPNLIVCPLSVLNNWEAEFRKFA--PFVRTVKYYGNAIERKAL 71 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~--------~~~~Liv~P~~~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~ 71 (169)
||||+|+||+|||.++|++|........ ..++|||||.+++.||..|+.+-. ..+.++.|+|+.+ ..+
T Consensus 347 GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~PaSli~qW~~Ev~~rl~~n~LsV~~~HG~n~--r~i 424 (901)
T KOG4439|consen 347 GGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPASLIHQWEAEVARRLEQNALSVYLYHGPNK--REI 424 (901)
T ss_pred CcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcHHHHHHHHHHHHHHHhhcceEEEEecCCcc--ccC
Confidence 8999999999999999999987664311 126999999999999999998665 4678999999875 222
Q ss_pred HHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHh----------chhccccccccEEEEeCCcccCCcccHHHH
Q psy1090 72 QSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEN----------DFGFLKKITWNCIIVDEGHSVKNKKSKLSI 141 (169)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~----------~~~~~~~~~~~~vi~DEah~~k~~~~~~~~ 141 (169)
....+ ..+|+ |||||..+.+ +...+.++.|..||+||||.+||+.++.+.
T Consensus 425 ~~~~L-------------------~~YDv-ViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~ 484 (901)
T KOG4439|consen 425 SAKEL-------------------RKYDV-VITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNSNTQCSK 484 (901)
T ss_pred CHHHH-------------------hhcce-EEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhcccchhHHH
Confidence 22222 66777 9999999876 223566789999999999999999999999
Q ss_pred HHhccccccEEEEeccCCCCCchhhccC
Q psy1090 142 KLTALRATFKVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 142 ~~~~l~~~~~~~lT~TP~~n~~~el~~l 169 (169)
++-.+++..||+|||||++|+..|+|+|
T Consensus 485 AVC~L~a~~RWclTGTPiqNn~~DvysL 512 (901)
T KOG4439|consen 485 AVCKLSAKSRWCLTGTPIQNNLWDVYSL 512 (901)
T ss_pred HHHHHhhcceeecccCccccchhHHHHH
Confidence 9999999999999999999999999986
No 14
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.97 E-value=4.7e-31 Score=216.25 Aligned_cols=148 Identities=14% Similarity=0.110 Sum_probs=114.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
.++||||||+|||+++++++..+...+..+|+|||||.+++.||..|+.+++ ++.+.++.+..-.... ....
T Consensus 171 R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF-~l~~~i~~~~~~~~~~-~~~~------ 242 (956)
T PRK04914 171 RVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRF-NLRFSLFDEERYAEAQ-HDAD------ 242 (956)
T ss_pred CEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHh-CCCeEEEcCcchhhhc-cccc------
Confidence 3789999999999999999998888888889999999999999999997765 4555555544321110 0000
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhch---hccccccccEEEEeCCcccCCc---ccHHHHHHhcc--ccccEEE
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDF---GFLKKITWNCIIVDEGHSVKNK---KSKLSIKLTAL--RATFKVL 153 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~---~~~~~~~~~~vi~DEah~~k~~---~~~~~~~~~~l--~~~~~~~ 153 (169)
. .-...++ +|+||+.+.++. +.+....||++|+||||++++. .++.++.+..+ +++++++
T Consensus 243 -------~----pf~~~~~-vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LL 310 (956)
T PRK04914 243 -------N----PFETEQL-VICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLL 310 (956)
T ss_pred -------C----ccccCcE-EEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEE
Confidence 0 0024566 999999998754 4456679999999999999853 45668888777 6789999
Q ss_pred EeccCCCCCchhhccC
Q psy1090 154 LTGWYYPNKWSKQCTL 169 (169)
Q Consensus 154 lT~TP~~n~~~el~~l 169 (169)
|||||.+|+..|+|++
T Consensus 311 LTATP~q~~~~e~fal 326 (956)
T PRK04914 311 LTATPEQLGQESHFAR 326 (956)
T ss_pred EEcCcccCCcHHHHHh
Confidence 9999999999999975
No 15
>KOG1015|consensus
Probab=99.96 E-value=1.1e-29 Score=202.06 Aligned_cols=148 Identities=21% Similarity=0.291 Sum_probs=116.2
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHh--CCCCceEEEecCcchHHHHHHHHHhCCCce------EEEEeC--CHHHHHH
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEE--QALEPNLIVCPLSVLNNWEAEFRKFAPFVR------TVKYYG--NAIERKA 70 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~--~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~------~~~~~g--~~~~~~~ 70 (169)
.|||||+-||+|||+++++|+...+.. -..+++|||||.+++.+|..||.+|.+++. +..... ....|..
T Consensus 697 sGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~ 776 (1567)
T KOG1015|consen 697 SGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSY 776 (1567)
T ss_pred cchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhhccChHHHHH
Confidence 389999999999999999998876654 234689999999999999999999997532 222222 2233444
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh---------------ccccccccEEEEeCCcccCCc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG---------------FLKKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~---------------~~~~~~~~~vi~DEah~~k~~ 135 (169)
.-+.++ ...-+ +|..|+.++.... .+..-..|+|||||+|.+||.
T Consensus 777 ~L~~W~-------------------~~ggV-mIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdpGPD~vVCDE~HiLKNe 836 (1567)
T KOG1015|consen 777 MLQRWQ-------------------EDGGV-MIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDPGPDFVVCDEGHILKNE 836 (1567)
T ss_pred HHHHHH-------------------hcCCE-EEEehHHHHHHhcccchhhhHHHHHHHHhccCCCCCeEEecchhhhccc
Confidence 444444 33344 9999999875321 223346899999999999999
Q ss_pred ccHHHHHHhccccccEEEEeccCCCCCchhhcc
Q psy1090 136 KSKLSIKLTALRATFKVLLTGWYYPNKWSKQCT 168 (169)
Q Consensus 136 ~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~~ 168 (169)
.+..++++..+++++|++|||||+||++.|+|-
T Consensus 837 ksa~Skam~~irtkRRI~LTGTPLQNNLmEY~C 869 (1567)
T KOG1015|consen 837 KSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHC 869 (1567)
T ss_pred hHHHHHHHHHHHhheeEEeecCchhhhhHHHHH
Confidence 999999999999999999999999999999873
No 16
>KOG1000|consensus
Probab=99.95 E-value=1.1e-28 Score=185.62 Aligned_cols=139 Identities=23% Similarity=0.256 Sum_probs=115.8
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceE-EEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRT-VKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~-~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
++||||||+|||++||+++.++.. .+|.|||||.++...|.+++++|.|..-. .+..+.++.-..
T Consensus 217 ~llADeMGLGKTiQAlaIA~yyra---EwplliVcPAsvrftWa~al~r~lps~~pi~vv~~~~D~~~~----------- 282 (689)
T KOG1000|consen 217 ILLADEMGLGKTIQALAIARYYRA---EWPLLIVCPASVRFTWAKALNRFLPSIHPIFVVDKSSDPLPD----------- 282 (689)
T ss_pred EEEecccccchHHHHHHHHHHHhh---cCcEEEEecHHHhHHHHHHHHHhcccccceEEEecccCCccc-----------
Confidence 789999999999999999877654 45999999999999999999999986544 233333221100
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc--ccccEEEEeccCC
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL--RATFKVLLTGWYY 159 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l--~~~~~~~lT~TP~ 159 (169)
-+..+-|.+.||+.+....+.+..-+|.++|+||+|++|+..+++.+++..+ .+++.++|||||-
T Consensus 283 -------------~~t~~~v~ivSye~ls~l~~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPa 349 (689)
T KOG1000|consen 283 -------------VCTSNTVAIVSYEQLSLLHDILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPA 349 (689)
T ss_pred -------------cccCCeEEEEEHHHHHHHHHHHhcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcc
Confidence 0233335999999999988888888999999999999999999999999877 6889999999999
Q ss_pred CCCchhhcc
Q psy1090 160 PNKWSKQCT 168 (169)
Q Consensus 160 ~n~~~el~~ 168 (169)
-.++.|||+
T Consensus 350 vSRP~elyt 358 (689)
T KOG1000|consen 350 VSRPSELYT 358 (689)
T ss_pred cCCchhhhh
Confidence 999999996
No 17
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=99.95 E-value=1.7e-28 Score=203.39 Aligned_cols=153 Identities=33% Similarity=0.526 Sum_probs=130.9
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCC--CCceEEEecCcchHHHHHHHHHhCCCce-EEEEeCCHHH----HHHHHH
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQA--LEPNLIVCPLSVLNNWEAEFRKFAPFVR-TVKYYGNAIE----RKALQS 73 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~--~~~~Liv~P~~~l~qW~~e~~~~~~~~~-~~~~~g~~~~----~~~~~~ 73 (169)
.||+|+||||+|||+++++++.+...... .+|.||+||.+++.+|.+|+.+|.|..+ +..++|.... +.....
T Consensus 359 ~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~nw~~e~~k~~~~~~~~~~~~g~~~~~~~~~~~~~~ 438 (866)
T COG0553 359 LGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLSNWKREFEKFAPDLRLVLVYHGEKSELDKKREALRD 438 (866)
T ss_pred CCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHHHHHHHHhhhCccccceeeeeCCcccccHHHHHHHH
Confidence 48999999999999999999987555544 4699999999999999999999999999 9999998753 333332
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHHHh---chhccccccccEEEEeCCcccCCcccHHHHHHhcccccc
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEN---DFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATF 150 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~---~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~ 150 (169)
...... ...+++ +++||+.+.+ +...+....|+.+|+||+|++||..++.++++..+++.+
T Consensus 439 ~~~~~~---------------~~~~~v-~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~ 502 (866)
T COG0553 439 LLKLHL---------------VIIFDV-VITTYELLRRFLVDHGGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALN 502 (866)
T ss_pred Hhhhcc---------------cceeeE-EechHHHHHHhhhhHHHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcc
Confidence 211000 023666 9999999999 899999999999999999999999999999999999999
Q ss_pred EEEEeccCCCCCchhhccC
Q psy1090 151 KVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 151 ~~~lT~TP~~n~~~el~~l 169 (169)
++.|||||++|++.|||+|
T Consensus 503 ~~~LtgTPlen~l~eL~sl 521 (866)
T COG0553 503 RLDLTGTPLENRLGELWSL 521 (866)
T ss_pred eeeCCCChHhhhHHHHHHH
Confidence 9999999999999999975
No 18
>KOG1016|consensus
Probab=99.94 E-value=2.2e-26 Score=180.67 Aligned_cols=149 Identities=20% Similarity=0.329 Sum_probs=117.2
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCC-----------ceEEEEeCCHH---
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPF-----------VRTVKYYGNAI--- 66 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~-----------~~~~~~~g~~~--- 66 (169)
+|||||+.||+|||+++|+|+...++....+.+|+|+|-.++++|..||.+|.|. +++.+.....+
T Consensus 283 FGCILAHSMGLGKTlQVisF~diflRhT~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~ 362 (1387)
T KOG1016|consen 283 FGCILAHSMGLGKTLQVISFSDIFLRHTKAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFD 362 (1387)
T ss_pred cceeeeeccccCceeEEeehhHHHhhcCccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhhHH
Confidence 6999999999999999999998888888788999999999999999999999864 33444433322
Q ss_pred HHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhch---------------------------------
Q psy1090 67 ERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--------------------------------- 113 (169)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--------------------------------- 113 (169)
.|..+-..+. ...-+ ++..|++++-..
T Consensus 363 ~Rakvi~~Wv-------------------~~GGV-lLvGYemfRLL~lk~~~~~grpkkt~kr~~~~~i~~d~eD~~qe~ 422 (1387)
T KOG1016|consen 363 QRAKVIEQWV-------------------QTGGV-LLVGYEMFRLLILKTLPKKGRPKKTLKRISSGFIKDDSEDQRQEA 422 (1387)
T ss_pred HHHHHHHHHh-------------------ccCCE-EEehHHHHHHHHHhcccccCCccccccccCCcccCCchhhhHHHH
Confidence 2343333332 33333 777887765311
Q ss_pred -----hccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCchhhccC
Q psy1090 114 -----GFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 114 -----~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~~l 169 (169)
..+.+-..|+|||||.|++||..+..+.+++.+++++|++|||=|+||++-|.|-|
T Consensus 423 ~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCM 483 (1387)
T KOG1016|consen 423 YSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCM 483 (1387)
T ss_pred HHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhh
Confidence 11223468899999999999999999999999999999999999999999998843
No 19
>KOG1001|consensus
Probab=99.92 E-value=1.1e-25 Score=179.21 Aligned_cols=141 Identities=29% Similarity=0.448 Sum_probs=118.1
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhC-------CCCceEEEecCcchHHHHHHHHHhC--CCceEEEEeC-CHHHHHH
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQ-------ALEPNLIVCPLSVLNNWEAEFRKFA--PFVRTVKYYG-NAIERKA 70 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~-------~~~~~Liv~P~~~l~qW~~e~~~~~--~~~~~~~~~g-~~~~~~~ 70 (169)
.|||++|+||+|||+++++++....... ..+.+|||||.+++.||..|+.+.. ..+.+.+|+| .+....
T Consensus 153 ~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~s~~~qW~~elek~~~~~~l~v~v~~gr~kd~~e- 231 (674)
T KOG1001|consen 153 RGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPTSLLTQWKTELEKVTEEDKLSIYVYHGRTKDKSE- 231 (674)
T ss_pred ccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecchHHHHHHHHHHhccCCccceEEEEecccccccch-
Confidence 4899999999999999999987655433 2457899999999999999995554 3577788888 211111
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcccccc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATF 150 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~ 150 (169)
. ...|+ |++||+.+.. ..+.++.|-++|+||||.++|.+++.++++..+.+.+
T Consensus 232 -----l-------------------~~~dV-VltTy~il~~--~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~ 284 (674)
T KOG1001|consen 232 -----L-------------------NSYDV-VLTTYDILKN--SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKY 284 (674)
T ss_pred -----h-------------------cCCce-EEeeHHHhhc--ccccceeEEEEEeccccccCCcchHhhhhheeeccce
Confidence 0 55666 9999999976 5666799999999999999999999999999999999
Q ss_pred EEEEeccCCCCCchhhccC
Q psy1090 151 KVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 151 ~~~lT~TP~~n~~~el~~l 169 (169)
||.|||||.+|+..|+|++
T Consensus 285 RWcLtgtPiqn~~~~lysl 303 (674)
T KOG1001|consen 285 RWCLTGTPIQNNLDELYSL 303 (674)
T ss_pred eeeecCChhhhhHHHHHHH
Confidence 9999999999999999974
No 20
>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=99.91 E-value=4.8e-24 Score=170.57 Aligned_cols=128 Identities=21% Similarity=0.346 Sum_probs=98.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhC--CCceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFA--PFVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
+|++..+||+|||++++++++.+ .+++|||||.. ++.||.++|.+|. +...+..++|..+.+.
T Consensus 275 ~GIIvLPtGaGKTlvai~aa~~l-----~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~I~~~tg~~k~~~--------- 340 (732)
T TIGR00603 275 SGIIVLPCGAGKSLVGVTAACTV-----KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQICRFTSDAKERF--------- 340 (732)
T ss_pred CcEEEeCCCCChHHHHHHHHHHh-----CCCEEEEeCcHHHHHHHHHHHHHhcCCCCceEEEEecCccccc---------
Confidence 58999999999999999887654 36899999985 5789999999996 3456666777543321
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc----------hhccccccccEEEEeCCcccCCcccHHHHHHhcccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND----------FGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRA 148 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~----------~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~ 148 (169)
....++ +++||+++... .+.+....|+++|+||||++. .....+.+..+++
T Consensus 341 ----------------~~~~~V-vVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lp--A~~fr~il~~l~a 401 (732)
T TIGR00603 341 ----------------HGEAGV-VVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVP--AAMFRRVLTIVQA 401 (732)
T ss_pred ----------------ccCCcE-EEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEcccccc--HHHHHHHHHhcCc
Confidence 023455 99999998643 234555689999999999995 3445556778899
Q ss_pred ccEEEEeccCCCCC
Q psy1090 149 TFKVLLTGWYYPNK 162 (169)
Q Consensus 149 ~~~~~lT~TP~~n~ 162 (169)
.+|++|||||.+++
T Consensus 402 ~~RLGLTATP~ReD 415 (732)
T TIGR00603 402 HCKLGLTATLVRED 415 (732)
T ss_pred CcEEEEeecCcccC
Confidence 99999999999875
No 21
>KOG0383|consensus
Probab=99.89 E-value=3.1e-25 Score=175.15 Aligned_cols=167 Identities=33% Similarity=0.470 Sum_probs=144.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhC-CCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQ-ALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~-~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
.+|||||||+|||++++.++..+.... ..+|.|+++|.+++.+|..++..|.|+..+..|.|..+.+..++...+....
T Consensus 316 ~~ilADEmgLgktVqsi~fl~sl~~~~~~~~P~Lv~ap~sT~~nwe~e~~~wap~~~vv~~~G~~k~r~iirepe~s~ed 395 (696)
T KOG0383|consen 316 DAILADEMGLGKTVQSIVFLYSLPKEIHSPGPPLVVAPLSTIVNWEREFELWAPSFYVVPYPGTAKSRAIIREPEFSFED 395 (696)
T ss_pred CcccchhhcCCceeeEEEEEeecccccCCCCCceeeccCccccCCCCchhccCCCcccccCCCCccchhhhhcccccccc
Confidence 479999999999999999988777664 4579999999999999999999999999999999999999888877766554
Q ss_pred ccc--ccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccC
Q psy1090 81 IKV--PAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWY 158 (169)
Q Consensus 81 ~~~--~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP 158 (169)
... ..+-+....+....+.+ .+++|+....+...+..+.|.++|+||+|+++|..+++.+.+......+++++||||
T Consensus 396 ~~~~~~~~i~~~~~~s~~k~~v-l~~s~~~~~~~~~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtP 474 (696)
T KOG0383|consen 396 SSIKSSPKISEMKTESSAKFHV-LLPSYETIEIDQSILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTP 474 (696)
T ss_pred cccccCCccccccchhhccccc-CCCchhhcccCHHHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCc
Confidence 432 11122223445577788 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCchhhccC
Q psy1090 159 YPNKWSKQCTL 169 (169)
Q Consensus 159 ~~n~~~el~~l 169 (169)
.+|++.+||+|
T Consensus 475 lqnn~~el~~l 485 (696)
T KOG0383|consen 475 LQNNLEELFNL 485 (696)
T ss_pred chhhhHHhhhc
Confidence 99999999986
No 22
>KOG0298|consensus
Probab=99.88 E-value=8e-24 Score=172.87 Aligned_cols=145 Identities=21% Similarity=0.278 Sum_probs=116.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH------------Hh----CCCCceEEEecCcchHHHHHHHHHhCCCc-eEEEEeCCH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII------------EE----QALEPNLIVCPLSVLNNWEAEFRKFAPFV-RTVKYYGNA 65 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~------------~~----~~~~~~Liv~P~~~l~qW~~e~~~~~~~~-~~~~~~g~~ 65 (169)
++++||||+|||...++....-. .. ...+++|||||++++.||.+|+.++++.. +++.|.|-.
T Consensus 377 ~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~lKv~~Y~Gir 456 (1394)
T KOG0298|consen 377 VQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSLLKVLLYFGIR 456 (1394)
T ss_pred eeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccccceEEEEechh
Confidence 48999999999998887753221 11 12378999999999999999999999766 999999865
Q ss_pred HHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh----------------------ccccccccE
Q psy1090 66 IERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG----------------------FLKKITWNC 123 (169)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~----------------------~~~~~~~~~ 123 (169)
+.--... .. -...|| |+|||+.++.+.. .+..+.|..
T Consensus 457 k~~~~~~-~e-------------------l~~yDI-VlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWR 515 (1394)
T KOG0298|consen 457 KTFWLSP-FE-------------------LLQYDI-VLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWR 515 (1394)
T ss_pred hhcccCc-hh-------------------hhccCE-EEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHH
Confidence 4421111 11 167788 9999999987542 233468999
Q ss_pred EEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCchhhccC
Q psy1090 124 IIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKWSKQCTL 169 (169)
Q Consensus 124 vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~~l 169 (169)
+++||||.+....+...+++..+.+.++|..||||+++ +.|||.|
T Consensus 516 IclDEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~L 560 (1394)
T KOG0298|consen 516 ICLDEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPL 560 (1394)
T ss_pred HhhhHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHH
Confidence 99999999999888899999999999999999999999 9999864
No 23
>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=99.84 E-value=1e-19 Score=119.65 Aligned_cols=136 Identities=18% Similarity=0.191 Sum_probs=98.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HHHHHHHHHhCC-CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NNWEAEFRKFAP-FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~qW~~e~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
++++..++|+|||.+++.++.........++++|++|...+ .||.+.+.++.. ...+..+.+............
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---- 77 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQEKLLS---- 77 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHHHHhc----
Confidence 57899999999999999998887766567899999998655 567777777764 455666666544433321111
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhcc--ccccccEEEEeCCcccCCcccHHH---HHHhccccccEEEE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFL--KKITWNCIIVDEGHSVKNKKSKLS---IKLTALRATFKVLL 154 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~--~~~~~~~vi~DEah~~k~~~~~~~---~~~~~l~~~~~~~l 154 (169)
...++ ++.|++.+.+..... ....++++|+||+|.+.+...... ......+...++++
T Consensus 78 ----------------~~~~i-~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~ 140 (144)
T cd00046 78 ----------------GKTDI-VVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLL 140 (144)
T ss_pred ----------------CCCCE-EEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEE
Confidence 45556 999999887654432 345789999999999987655443 23344577889999
Q ss_pred eccC
Q psy1090 155 TGWY 158 (169)
Q Consensus 155 T~TP 158 (169)
||||
T Consensus 141 saTp 144 (144)
T cd00046 141 SATP 144 (144)
T ss_pred eccC
Confidence 9998
No 24
>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=99.80 E-value=2.4e-19 Score=123.47 Aligned_cols=143 Identities=20% Similarity=0.256 Sum_probs=88.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
+++..++|+|||.++++++..+.. +++++||. .++.||.+++..+.+................ . ....
T Consensus 28 ~ll~~~tGsGKT~~~~~~~~~l~~-----~~l~~~p~~~l~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~--- 96 (184)
T PF04851_consen 28 VLLNAPTGSGKTIIALALILELAR-----KVLIVAPNISLLEQWYDEFDDFGSEKYNFFEKSIKPAYDS-K--EFIS--- 96 (184)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHC-----EEEEEESSHHHHHHHHHHHHHHSTTSEEEEE--GGGCCE--S--EEET---
T ss_pred EEEEECCCCCcChhhhhhhhcccc-----ceeEecCHHHHHHHHHHHHHHhhhhhhhhccccccccccc-c--cccc---
Confidence 678899999999999988877664 89999998 7788999999887754443322211000000 0 0000
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhchhc-------------cccccccEEEEeCCcccCCcccHHHHHHhcccc
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-------------LKKITWNCIIVDEGHSVKNKKSKLSIKLTALRA 148 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-------------~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~ 148 (169)
................++ ++++++.+...... .....++++|+||||+..+... ++.+.....
T Consensus 97 -~~~~~~~~~~~~~~~~~i-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~ 172 (184)
T PF04851_consen 97 -IQDDISDKSESDNNDKDI-ILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKA 172 (184)
T ss_dssp -TTTEEEHHHHHCBSS-SE-EEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSC
T ss_pred -cccccccccccccccccc-hhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCC
Confidence 000000000011255666 99999998765332 2234689999999999854322 555555888
Q ss_pred ccEEEEeccCCC
Q psy1090 149 TFKVLLTGWYYP 160 (169)
Q Consensus 149 ~~~~~lT~TP~~ 160 (169)
.++++|||||.+
T Consensus 173 ~~~l~lTATp~r 184 (184)
T PF04851_consen 173 AFILGLTATPFR 184 (184)
T ss_dssp CEEEEEESS-S-
T ss_pred CeEEEEEeCccC
Confidence 999999999974
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.77 E-value=1.4e-18 Score=134.51 Aligned_cols=126 Identities=21% Similarity=0.247 Sum_probs=90.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCc-eEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFV-RTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
.|++...+|.|||+.++..+..+. .++|||||. .++.||.+.+.++.... .+..+.|..++-.
T Consensus 57 ~gvivlpTGaGKT~va~~~~~~~~-----~~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~~g~~~~~~~~~~---------- 121 (442)
T COG1061 57 RGVIVLPTGAGKTVVAAEAIAELK-----RSTLVLVPTKELLDQWAEALKKFLLLNDEIGIYGGGEKELE---------- 121 (442)
T ss_pred ceEEEeCCCCCHHHHHHHHHHHhc-----CCEEEEECcHHHHHHHHHHHHHhcCCccccceecCceeccC----------
Confidence 378899999999999988887654 349999998 77889998888877332 3444444433211
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCCcccHHHHHHhcccccc-EEEEec
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATF-KVLLTG 156 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~-~~~lT~ 156 (169)
. ..+ .++||+++.+. ...+..-.|+++|+||||++..+ ........+...+ +++|||
T Consensus 122 ----------------~-~~i-~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~--~~~~~~~~~~~~~~~LGLTA 181 (442)
T COG1061 122 ----------------P-AKV-TVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAP--SYRRILELLSAAYPRLGLTA 181 (442)
T ss_pred ----------------C-CcE-EEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcH--HHHHHHHhhhcccceeeecc
Confidence 1 234 99999999885 23444447999999999998543 3334445556666 999999
Q ss_pred cCCCCC
Q psy1090 157 WYYPNK 162 (169)
Q Consensus 157 TP~~n~ 162 (169)
||.+.+
T Consensus 182 Tp~R~D 187 (442)
T COG1061 182 TPERED 187 (442)
T ss_pred Cceeec
Confidence 998665
No 26
>PRK13766 Hef nuclease; Provisional
Probab=99.77 E-value=1.1e-17 Score=137.84 Aligned_cols=137 Identities=23% Similarity=0.291 Sum_probs=97.0
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
++++++++|+|||++++.++.... ....+++||+||. .+..||.+++.++.. ..++..++|...... +...+
T Consensus 31 n~lv~~ptG~GKT~~a~~~i~~~l-~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~--r~~~~-- 105 (773)
T PRK13766 31 NTLVVLPTGLGKTAIALLVIAERL-HKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEK--RAELW-- 105 (773)
T ss_pred CeEEEcCCCccHHHHHHHHHHHHH-HhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHH--HHHHH--
Confidence 578999999999999887777655 3456799999998 788899999998863 347777887543321 11111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCcccHHHHHHhc---cccccEEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNKKSKLSIKLTA---LRATFKVL 153 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~---l~~~~~~~ 153 (169)
...++ +++|++.+..+. ..+.-..|+++|+||||++.+..+....+-.. .+.+++++
T Consensus 106 -----------------~~~~i-iv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~~~~~~~~~~il~ 167 (773)
T PRK13766 106 -----------------EKAKV-IVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYIAERYHEDAKNPLVLG 167 (773)
T ss_pred -----------------hCCCE-EEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHHHHHHHhcCCCCEEEE
Confidence 33456 999999887653 23334478999999999998655443322222 24567999
Q ss_pred EeccCCCC
Q psy1090 154 LTGWYYPN 161 (169)
Q Consensus 154 lT~TP~~n 161 (169)
|||||..+
T Consensus 168 lTaTP~~~ 175 (773)
T PRK13766 168 LTASPGSD 175 (773)
T ss_pred EEcCCCCC
Confidence 99999654
No 27
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.75 E-value=1.8e-17 Score=130.41 Aligned_cols=127 Identities=25% Similarity=0.236 Sum_probs=88.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC--CCceE-EEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA--PFVRT-VKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~--~~~~~-~~~~g~~~~~~~~~~~~~~ 77 (169)
.+++..++|+|||+++..++..... ....++||+||. .++.||.+++.+|. +.... ..+.|....
T Consensus 131 ~~il~apTGsGKT~i~~~l~~~~~~-~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~~---------- 199 (501)
T PHA02558 131 RRLLNLPTSAGKSLIQYLLSRYYLE-NYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAKD---------- 199 (501)
T ss_pred ceEEEeCCCCCHHHHHHHHHHHHHh-cCCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecCcccC----------
Confidence 3688999999999987765544333 333489999998 78899999999886 22222 223332211
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEEec
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLLTG 156 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~lT~ 156 (169)
...++ +++|++.+.+..... -.+++++|+||||++... .....+..+ +++++++|||
T Consensus 200 ------------------~~~~I-~VaT~qsl~~~~~~~-~~~~~~iIvDEaH~~~~~--~~~~il~~~~~~~~~lGLTA 257 (501)
T PHA02558 200 ------------------TDAPI-VVSTWQSAVKQPKEW-FDQFGMVIVDECHLFTGK--SLTSIITKLDNCKFKFGLTG 257 (501)
T ss_pred ------------------CCCCE-EEeeHHHHhhchhhh-ccccCEEEEEchhcccch--hHHHHHHhhhccceEEEEec
Confidence 23455 999999987643221 137899999999998643 344555666 6788999999
Q ss_pred cCCCC
Q psy1090 157 WYYPN 161 (169)
Q Consensus 157 TP~~n 161 (169)
||...
T Consensus 258 Tp~~~ 262 (501)
T PHA02558 258 SLRDG 262 (501)
T ss_pred cCCCc
Confidence 99654
No 28
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.75 E-value=2.1e-17 Score=114.49 Aligned_cols=138 Identities=20% Similarity=0.233 Sum_probs=94.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCC---ceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPF---VRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~---~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
++++..++|+|||.+++.++.........+++|+++|. .+..||..++..+.+. .....+.+.... ........
T Consensus 26 ~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~- 103 (201)
T smart00487 26 DVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKR-EQLRKLES- 103 (201)
T ss_pred cEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchH-HHHHHHhc-
Confidence 46889999999999888777766655546789999996 6778999999988754 333344443322 11111110
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCC-cccHHH-HHHhcc-ccccEE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKN-KKSKLS-IKLTAL-RATFKV 152 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~-~~~~~~-~~~~~l-~~~~~~ 152 (169)
...++ +++|++.+.+.... .....++++|+||+|.+.. ...... ..+..+ +..+++
T Consensus 104 ------------------~~~~v-~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v 164 (201)
T smart00487 104 ------------------GKTDI-LVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLL 164 (201)
T ss_pred ------------------CCCCE-EEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEE
Confidence 22256 99999988876654 3455788999999999885 222223 333444 578899
Q ss_pred EEeccCCC
Q psy1090 153 LLTGWYYP 160 (169)
Q Consensus 153 ~lT~TP~~ 160 (169)
++||||..
T Consensus 165 ~~saT~~~ 172 (201)
T smart00487 165 LLSATPPE 172 (201)
T ss_pred EEecCCch
Confidence 99999953
No 29
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.72 E-value=7.1e-17 Score=122.65 Aligned_cols=133 Identities=22% Similarity=0.212 Sum_probs=99.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC--CCceEEEEeCCH--HHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA--PFVRTVKYYGNA--IERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~--~~~~~~~~~g~~--~~~~~~~~~~~ 76 (169)
+++++..+|+|||+.|+.++...+..... ++|+++|. .++.|-..-+.++. |...+..++|.- .+|...+
T Consensus 31 NtLvvlPTGLGKT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w---- 105 (542)
T COG1111 31 NTLVVLPTGLGKTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELW---- 105 (542)
T ss_pred CeEEEecCCccHHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHH----
Confidence 47889999999999999998877665533 89999997 78888888888876 678888999953 4455444
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCcccHHHHHHh-cc---cccc
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNKKSKLSIKLT-AL---RATF 150 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~-~l---~~~~ 150 (169)
...++ +++|++.+.+|. ..+..-++.++|+||||+.-+..+ +...++ .+ +.++
T Consensus 106 -------------------~~~kV-fvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyA-Yv~Va~~y~~~~k~~~ 164 (542)
T COG1111 106 -------------------AKKKV-FVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYA-YVFVAKEYLRSAKNPL 164 (542)
T ss_pred -------------------hhCCE-EEeccHHHHhHHhcCccChHHceEEEechhhhccCcch-HHHHHHHHHHhccCce
Confidence 33445 999999999875 345556788999999999876544 333333 22 4457
Q ss_pred EEEEeccCCC
Q psy1090 151 KVLLTGWYYP 160 (169)
Q Consensus 151 ~~~lT~TP~~ 160 (169)
.++|||||=.
T Consensus 165 ilgLTASPGs 174 (542)
T COG1111 165 ILGLTASPGS 174 (542)
T ss_pred EEEEecCCCC
Confidence 8999999953
No 30
>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=99.67 E-value=5.9e-16 Score=125.30 Aligned_cols=134 Identities=16% Similarity=0.055 Sum_probs=89.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
+|++.+.+|+|||++++.++..+.......++|||+|. .+..||.++|..+.++.. ...++ ...+......
T Consensus 265 ~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~~~--~~~~s---~~~L~~~l~~--- 336 (667)
T TIGR00348 265 GGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQKDCA--ERIES---IAELKRLLEK--- 336 (667)
T ss_pred eeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCCCCC--cccCC---HHHHHHHHhC---
Confidence 58899999999999999888777665556789999998 677899999998874211 01111 1111111100
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchh-cccccc----ccEEEEeCCcccCCcccHHHHHH-hccccccEEEE
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG-FLKKIT----WNCIIVDEGHSVKNKKSKLSIKL-TALRATFKVLL 154 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~-~~~~~~----~~~vi~DEah~~k~~~~~~~~~~-~~l~~~~~~~l 154 (169)
...++ +++|.+.+.+... .+.... ..++|+||||+... ....+.+ ..++...++++
T Consensus 337 ---------------~~~~i-ivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~--~~~~~~l~~~~p~a~~lGf 398 (667)
T TIGR00348 337 ---------------DDGGI-IITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQY--GELAKNLKKALKNASFFGF 398 (667)
T ss_pred ---------------CCCCE-EEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccc--hHHHHHHHhhCCCCcEEEE
Confidence 23455 9999999975322 122211 23899999999753 3334445 35677899999
Q ss_pred eccCCCC
Q psy1090 155 TGWYYPN 161 (169)
Q Consensus 155 T~TP~~n 161 (169)
||||...
T Consensus 399 TaTP~~~ 405 (667)
T TIGR00348 399 TGTPIFK 405 (667)
T ss_pred eCCCccc
Confidence 9999853
No 31
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.65 E-value=1.3e-15 Score=128.36 Aligned_cols=137 Identities=18% Similarity=0.146 Sum_probs=89.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCce--EEEEeCCHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVR--TVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~--~~~~~g~~~~~~~~~~~~~~~ 78 (169)
++++.+.+|+|||+++++++..+...+..+++||++|. .++.||.++|..+.+... +....+... +.....
T Consensus 435 ~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~~~~~i~~i~~----L~~~~~-- 508 (1123)
T PRK11448 435 EILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGDQTFASIYDIKG----LEDKFP-- 508 (1123)
T ss_pred CeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccccchhhhhchhh----hhhhcc--
Confidence 47899999999999999988777766667899999997 677899999988742111 100111000 000000
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhc-------cccccccEEEEeCCcccCCc----------------
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-------LKKITWNCIIVDEGHSVKNK---------------- 135 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-------~~~~~~~~vi~DEah~~k~~---------------- 135 (169)
.....+ +++|++.+.+.... +.--.|+++|+||||+....
T Consensus 509 ----------------~~~~~I-~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~~~~~~ 571 (1123)
T PRK11448 509 ----------------EDETKV-HVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQFRDQLD 571 (1123)
T ss_pred ----------------cCCCCE-EEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccchhccchhhh
Confidence 034556 99999988654211 22346889999999985310
Q ss_pred -ccHHHHHHhccccccEEEEeccCCCCC
Q psy1090 136 -KSKLSIKLTALRATFKVLLTGWYYPNK 162 (169)
Q Consensus 136 -~~~~~~~~~~l~~~~~~~lT~TP~~n~ 162 (169)
.+++.+.+..++ ..+++|||||..+.
T Consensus 572 ~~~~yr~iL~yFd-A~~IGLTATP~r~t 598 (1123)
T PRK11448 572 YVSKYRRVLDYFD-AVKIGLTATPALHT 598 (1123)
T ss_pred HHHHHHHHHhhcC-ccEEEEecCCccch
Confidence 123333344445 58999999998764
No 32
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.65 E-value=3.1e-15 Score=120.66 Aligned_cols=136 Identities=13% Similarity=0.115 Sum_probs=92.2
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHH--HHHHhh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERK--ALQSEA 75 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~--~~~~~~ 75 (169)
|+.++.-++|+|||..++..+...... ...++|++|. .+..|+.+++.++++ +.++..++|...... ......
T Consensus 257 ~~~Ll~g~TGSGKT~va~l~il~~~~~--g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i 334 (630)
T TIGR00643 257 MNRLLQGDVGSGKTLVAALAMLAAIEA--GYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETI 334 (630)
T ss_pred ccEEEECCCCCcHHHHHHHHHHHHHHc--CCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHH
Confidence 456889999999998876544443333 3589999998 556799999999885 578888888643322 222111
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccc---cccEE
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALR---ATFKV 152 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~---~~~~~ 152 (169)
. .+..++ ++.|+..+.+... -.+.+++|+||+|++.. .++........ .++.+
T Consensus 335 ~------------------~g~~~I-iVgT~~ll~~~~~---~~~l~lvVIDEaH~fg~--~qr~~l~~~~~~~~~~~~l 390 (630)
T TIGR00643 335 A------------------SGQIHL-VVGTHALIQEKVE---FKRLALVIIDEQHRFGV--EQRKKLREKGQGGFTPHVL 390 (630)
T ss_pred h------------------CCCCCE-EEecHHHHhcccc---ccccceEEEechhhccH--HHHHHHHHhcccCCCCCEE
Confidence 1 156677 9999988865432 23578999999999742 22233322333 57899
Q ss_pred EEeccCCCCC
Q psy1090 153 LLTGWYYPNK 162 (169)
Q Consensus 153 ~lT~TP~~n~ 162 (169)
+|||||.+..
T Consensus 391 ~~SATp~prt 400 (630)
T TIGR00643 391 VMSATPIPRT 400 (630)
T ss_pred EEeCCCCcHH
Confidence 9999997653
No 33
>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=99.64 E-value=2.7e-15 Score=102.10 Aligned_cols=142 Identities=23% Similarity=0.229 Sum_probs=94.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
.++..++|+|||..++..+.....++....+++++|. .++.|-.+++.++.. ..++..+++............ .
T Consensus 17 ~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-- 93 (169)
T PF00270_consen 17 VLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVL-S-- 93 (169)
T ss_dssp EEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHH-H--
T ss_pred EEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccccccccccccccccccccccc-c--
Confidence 4788899999999888666555544445689999997 677888899988874 467777776544221111111 1
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCcc-cH-HHHHHhcc---ccccEE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNKK-SK-LSIKLTAL---RATFKV 152 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~~-~~-~~~~~~~l---~~~~~~ 152 (169)
...++ +++|++.+...... ..-...+++|+||+|.+.... .. ....+..+ .....+
T Consensus 94 ----------------~~~~i-lv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i 156 (169)
T PF00270_consen 94 ----------------NQADI-LVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQII 156 (169)
T ss_dssp ----------------TTSSE-EEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEE
T ss_pred ----------------ccccc-cccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEE
Confidence 56677 99999998765543 122347999999999886531 11 22222333 346699
Q ss_pred EEeccCCCCCchh
Q psy1090 153 LLTGWYYPNKWSK 165 (169)
Q Consensus 153 ~lT~TP~~n~~~e 165 (169)
++||||- .++.+
T Consensus 157 ~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 157 LLSATLP-SNVEK 168 (169)
T ss_dssp EEESSST-HHHHH
T ss_pred EEeeCCC-hhHhh
Confidence 9999998 65544
No 34
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.63 E-value=4.4e-15 Score=116.89 Aligned_cols=137 Identities=17% Similarity=0.204 Sum_probs=99.7
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH-HHHHHHHHhCC--CceEEEEeCCHHH--HHHHHHhh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN-NWEAEFRKFAP--FVRTVKYYGNAIE--RKALQSEA 75 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~-qW~~e~~~~~~--~~~~~~~~g~~~~--~~~~~~~~ 75 (169)
|+.+|..|+|+|||+.|+..+......+ ..+.+.+|..++. |=++.+.+|++ ++++...+|+-+- +.......
T Consensus 284 M~RLlQGDVGSGKTvVA~laml~ai~~G--~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l 361 (677)
T COG1200 284 MNRLLQGDVGSGKTVVALLAMLAAIEAG--YQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQL 361 (677)
T ss_pred hHHHhccCcCCCHHHHHHHHHHHHHHcC--CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHH
Confidence 5678999999999988765554444444 6789999998775 78888999985 6778888886443 33333332
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccc-cccEEEE
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALR-ATFKVLL 154 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~-~~~~~~l 154 (169)
.. +..++ ++-|+..+++..++ .+.+++|+||-|++. -.++.+....=. .++.+.|
T Consensus 362 ~~------------------G~~~i-vVGTHALiQd~V~F---~~LgLVIiDEQHRFG--V~QR~~L~~KG~~~Ph~LvM 417 (677)
T COG1200 362 AS------------------GEIDI-VVGTHALIQDKVEF---HNLGLVIIDEQHRFG--VHQRLALREKGEQNPHVLVM 417 (677)
T ss_pred hC------------------CCCCE-EEEcchhhhcceee---cceeEEEEecccccc--HHHHHHHHHhCCCCCcEEEE
Confidence 22 77888 99999999887664 467899999999985 233333333334 6899999
Q ss_pred eccCCCCCc
Q psy1090 155 TGWYYPNKW 163 (169)
Q Consensus 155 T~TP~~n~~ 163 (169)
||||++.++
T Consensus 418 TATPIPRTL 426 (677)
T COG1200 418 TATPIPRTL 426 (677)
T ss_pred eCCCchHHH
Confidence 999998754
No 35
>KOG1123|consensus
Probab=99.61 E-value=1e-16 Score=121.85 Aligned_cols=128 Identities=22% Similarity=0.348 Sum_probs=101.0
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc-hHHHHHHHHHhC--CCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV-LNNWEAEFRKFA--PFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~-l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
++||+.-.+|.|||+..+..++.+. +..||+|.+++ +.||.++|..|. .+..+++++...+++..
T Consensus 321 RSGiIVLPCGAGKtLVGvTAa~tik-----K~clvLcts~VSVeQWkqQfk~wsti~d~~i~rFTsd~Ke~~~------- 388 (776)
T KOG1123|consen 321 RSGIIVLPCGAGKTLVGVTAACTIK-----KSCLVLCTSAVSVEQWKQQFKQWSTIQDDQICRFTSDAKERFP------- 388 (776)
T ss_pred cCceEEEecCCCCceeeeeeeeeec-----ccEEEEecCccCHHHHHHHHHhhcccCccceEEeeccccccCC-------
Confidence 3689999999999998887766543 57899999865 789999999997 46677888877665432
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHh----------chhccccccccEEEEeCCcccCCcccHHHHHHhccc
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEN----------DFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALR 147 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~----------~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~ 147 (169)
....+ +++||+++.. -.+++...+|+++++||+|.+ +.....+.+.-+.
T Consensus 389 ------------------~~~gv-vvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvv--PA~MFRRVlsiv~ 447 (776)
T KOG1123|consen 389 ------------------SGAGV-VVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVV--PAKMFRRVLSIVQ 447 (776)
T ss_pred ------------------CCCcE-EEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccc--hHHHHHHHHHHHH
Confidence 55556 9999999853 235777889999999999987 4455555556668
Q ss_pred cccEEEEeccCCCC
Q psy1090 148 ATFKVLLTGWYYPN 161 (169)
Q Consensus 148 ~~~~~~lT~TP~~n 161 (169)
+-++++||||.++.
T Consensus 448 aHcKLGLTATLvRE 461 (776)
T KOG1123|consen 448 AHCKLGLTATLVRE 461 (776)
T ss_pred HHhhccceeEEeec
Confidence 88999999999965
No 36
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.59 E-value=1.7e-14 Score=117.27 Aligned_cols=134 Identities=15% Similarity=0.176 Sum_probs=90.8
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCC--ceEEEEeCCHHH--HHHHHHhh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPF--VRTVKYYGNAIE--RKALQSEA 75 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~--~~~~~~~g~~~~--~~~~~~~~ 75 (169)
|+.+|.-++|+|||..++..+...... ..+++|++|. .+..|..+.++++++. .++..++|.... +.......
T Consensus 283 ~~~Ll~~~TGSGKT~va~~~il~~~~~--g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l 360 (681)
T PRK10917 283 MNRLLQGDVGSGKTVVAALAALAAIEA--GYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAI 360 (681)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHH
Confidence 456889999999998877555443332 3579999998 5567999999988754 677888886543 22222221
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEE
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLL 154 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~l 154 (169)
.. +..++ ++.|+..+..... -.+.+++|+||+|++.- .. ...+... ..+..++|
T Consensus 361 ~~------------------g~~~I-vVgT~~ll~~~v~---~~~l~lvVIDE~Hrfg~--~q-r~~l~~~~~~~~iL~~ 415 (681)
T PRK10917 361 AS------------------GEADI-VIGTHALIQDDVE---FHNLGLVIIDEQHRFGV--EQ-RLALREKGENPHVLVM 415 (681)
T ss_pred hC------------------CCCCE-EEchHHHhcccch---hcccceEEEechhhhhH--HH-HHHHHhcCCCCCEEEE
Confidence 11 56777 9999988765322 23678999999999732 22 2233322 35789999
Q ss_pred eccCCCC
Q psy1090 155 TGWYYPN 161 (169)
Q Consensus 155 T~TP~~n 161 (169)
||||.+.
T Consensus 416 SATp~pr 422 (681)
T PRK10917 416 TATPIPR 422 (681)
T ss_pred eCCCCHH
Confidence 9999754
No 37
>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=99.57 E-value=8e-14 Score=97.73 Aligned_cols=138 Identities=16% Similarity=0.133 Sum_probs=88.4
Q ss_pred CccccCCCCCcHHHHHHHH-HHHHHHh--CCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAF-FCKIIEE--QALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEA 75 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~-i~~~~~~--~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~ 75 (169)
+.++..++|+|||...+.. +..+... ....+++|++|. .++.|+.+.+..+.. +..+..++|............
T Consensus 38 ~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (203)
T cd00268 38 DVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK 117 (203)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc
Confidence 4678899999999885444 4444333 234579999997 677899999888863 566677777554433221111
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc-cHHH-HHHhccc-ccc
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK-SKLS-IKLTALR-ATF 150 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~-~~~~-~~~~~l~-~~~ 150 (169)
...++ +++|.+.+..... .+.-...+++|+||+|.+.+.. .... ..+..++ ...
T Consensus 118 --------------------~~~~i-iv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~ 176 (203)
T cd00268 118 --------------------RGPHI-VVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQ 176 (203)
T ss_pred --------------------CCCCE-EEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccChHHHHHHHHHhCCcccE
Confidence 35566 8999876654221 1222357899999999876433 1112 2233343 567
Q ss_pred EEEEeccCCC
Q psy1090 151 KVLLTGWYYP 160 (169)
Q Consensus 151 ~~~lT~TP~~ 160 (169)
.+++||||-.
T Consensus 177 ~~~~SAT~~~ 186 (203)
T cd00268 177 TLLFSATMPK 186 (203)
T ss_pred EEEEeccCCH
Confidence 8999999984
No 38
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.57 E-value=1.8e-15 Score=120.85 Aligned_cols=127 Identities=14% Similarity=0.116 Sum_probs=94.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
++|++.+|+|||.+|++++-.+...+..+++|+++-. +++.|-+..+..|.|....+........
T Consensus 188 aLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~~n~i~~~~~-------------- 253 (875)
T COG4096 188 ALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTKMNKIEDKKG-------------- 253 (875)
T ss_pred EEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCccceeeeecccC--------------
Confidence 5789999999999999999999999999999999986 6778999999999987665544322111
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhchhc-------cccccccEEEEeCCcccCCcccHHHHHHhccccccEEEE
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-------LKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLL 154 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-------~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~l 154 (169)
...+++ +++||+.+...... +..-.||++|+||||+. ..+-++.+...-...+++|
T Consensus 254 -------------~~s~~i-~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRg---i~~~~~~I~dYFdA~~~gL 316 (875)
T COG4096 254 -------------DTSSEI-YLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRG---IYSEWSSILDYFDAATQGL 316 (875)
T ss_pred -------------CcceeE-EEeehHHHHhhhhccccccccCCCCceeEEEechhhhh---HHhhhHHHHHHHHHHHHhh
Confidence 023455 99999999764432 22335899999999983 3333444444444577778
Q ss_pred eccCCC
Q psy1090 155 TGWYYP 160 (169)
Q Consensus 155 T~TP~~ 160 (169)
||||-.
T Consensus 317 TATP~~ 322 (875)
T COG4096 317 TATPKE 322 (875)
T ss_pred ccCccc
Confidence 999986
No 39
>KOG0354|consensus
Probab=99.57 E-value=1.6e-14 Score=115.16 Aligned_cols=136 Identities=19% Similarity=0.163 Sum_probs=93.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
+++++-.+|+|||+.|.-++...++..+.+++++.+|. .++.|....+..+.-.-......|....+......+
T Consensus 78 Ntii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~~T~~l~~~~~~~~r~~i~----- 152 (746)
T KOG0354|consen 78 NTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSVTGQLGDTVPRSNRGEIV----- 152 (746)
T ss_pred CeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCcccceeeccCccCCCchhhhh-----
Confidence 47899999999999998887777777777899999998 677777788887763233333333322211111111
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchhcccccc---ccEEEEeCCcccCCcccHHHHHHh---cc--ccccEE
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKIT---WNCIIVDEGHSVKNKKSKLSIKLT---AL--RATFKV 152 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~---~~~vi~DEah~~k~~~~~~~~~~~---~l--~~~~~~ 152 (169)
...++ ++.|.+.+.++........ |.++|+||||+.... +.+....+ .+ .....+
T Consensus 153 ---------------~s~~v-ff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn-~~Y~~Vmr~~l~~k~~~~qIL 215 (746)
T KOG0354|consen 153 ---------------ASKRV-FFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKN-HPYNNIMREYLDLKNQGNQIL 215 (746)
T ss_pred ---------------cccce-EEeChHhhhhhcccccccccceEEEEEEccccccccc-ccHHHHHHHHHHhhhccccEE
Confidence 45566 9999999998876555444 889999999987643 33443332 22 233789
Q ss_pred EEeccCC
Q psy1090 153 LLTGWYY 159 (169)
Q Consensus 153 ~lT~TP~ 159 (169)
+|||||=
T Consensus 216 gLTASpG 222 (746)
T KOG0354|consen 216 GLTASPG 222 (746)
T ss_pred EEecCCC
Confidence 9999996
No 40
>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=99.52 E-value=3.1e-13 Score=112.33 Aligned_cols=135 Identities=17% Similarity=0.170 Sum_probs=88.2
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCC--ceEEEEeCCH--HHHHHHHHhh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPF--VRTVKYYGNA--IERKALQSEA 75 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~--~~~~~~~g~~--~~~~~~~~~~ 75 (169)
|+.+++-++|+|||..++..+......+ ..++|++|. .+..|..+.+.+++.. .++..++|.. +++.......
T Consensus 473 ~d~Ll~adTGsGKT~val~a~l~al~~g--~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l 550 (926)
T TIGR00580 473 MDRLVCGDVGFGKTEVAMRAAFKAVLDG--KQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKEL 550 (926)
T ss_pred CCEEEECCCCccHHHHHHHHHHHHHHhC--CeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHH
Confidence 4678999999999988765444333333 679999998 5567899999887643 4555555532 2222222211
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEE
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLL 154 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~l 154 (169)
.. +..++ ++.|+..+.+... -.+.+++|+||+|++.. .....++.+ .....++|
T Consensus 551 ~~------------------g~~dI-VIGTp~ll~~~v~---f~~L~llVIDEahrfgv---~~~~~L~~~~~~~~vL~~ 605 (926)
T TIGR00580 551 AS------------------GKIDI-LIGTHKLLQKDVK---FKDLGLLIIDEEQRFGV---KQKEKLKELRTSVDVLTL 605 (926)
T ss_pred Hc------------------CCceE-EEchHHHhhCCCC---cccCCEEEeecccccch---hHHHHHHhcCCCCCEEEE
Confidence 11 45677 9999977654322 23568999999999742 233444444 35679999
Q ss_pred eccCCCCC
Q psy1090 155 TGWYYPNK 162 (169)
Q Consensus 155 T~TP~~n~ 162 (169)
||||.+..
T Consensus 606 SATpiprt 613 (926)
T TIGR00580 606 SATPIPRT 613 (926)
T ss_pred ecCCCHHH
Confidence 99997643
No 41
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.51 E-value=2.6e-13 Score=114.96 Aligned_cols=136 Identities=19% Similarity=0.217 Sum_probs=87.7
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCCC--ceEEEEeC--CHHHHHHHHHhh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAPF--VRTVKYYG--NAIERKALQSEA 75 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~~--~~~~~~~g--~~~~~~~~~~~~ 75 (169)
|+.+++.++|+|||..++-.+..... ...+++|++|.. +..|..+.+.+++.. .++..+.| +.+++.......
T Consensus 622 ~d~Ll~a~TGsGKT~val~aa~~~~~--~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l 699 (1147)
T PRK10689 622 MDRLVCGDVGFGKTEVAMRAAFLAVE--NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEA 699 (1147)
T ss_pred CCEEEEcCCCcCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHH
Confidence 46789999999999877633322222 246899999985 557888888876533 45545554 333333222211
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEE
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLL 154 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~l 154 (169)
.. +..++ ++.|++.+..... -.+.+++|+||+|++.. +....++.+ .....+++
T Consensus 700 ~~------------------g~~dI-VVgTp~lL~~~v~---~~~L~lLVIDEahrfG~---~~~e~lk~l~~~~qvLl~ 754 (1147)
T PRK10689 700 AE------------------GKIDI-LIGTHKLLQSDVK---WKDLGLLIVDEEHRFGV---RHKERIKAMRADVDILTL 754 (1147)
T ss_pred Hh------------------CCCCE-EEECHHHHhCCCC---HhhCCEEEEechhhcch---hHHHHHHhcCCCCcEEEE
Confidence 11 45677 9999987754322 23678999999999842 223445555 35678999
Q ss_pred eccCCCCCc
Q psy1090 155 TGWYYPNKW 163 (169)
Q Consensus 155 T~TP~~n~~ 163 (169)
||||.+...
T Consensus 755 SATpiprtl 763 (1147)
T PRK10689 755 TATPIPRTL 763 (1147)
T ss_pred cCCCCHHHH
Confidence 999987543
No 42
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.48 E-value=9.2e-13 Score=103.12 Aligned_cols=138 Identities=16% Similarity=0.217 Sum_probs=89.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhC-CCCceEEEecC-cchHHHHHHHHHhC---CCceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQ-ALEPNLIVCPL-SVLNNWEAEFRKFA---PFVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~-~~~~~Liv~P~-~~l~qW~~e~~~~~---~~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
+.++..++|+|||...+..+....... ....+||++|. .+..||.++++++. ++.++..++|......+.....
T Consensus 43 dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~- 121 (460)
T PRK11776 43 DVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE- 121 (460)
T ss_pred CEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc-
Confidence 467888999999977544443333332 23368999998 67789999998775 4677777777654433332221
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCccc--HHHHHHhccc-cccE
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNKKS--KLSIKLTALR-ATFK 151 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l~-~~~~ 151 (169)
...++ +++|++.+...... +.-..++++|+||||++-...- .....+..++ ....
T Consensus 122 -------------------~~~~I-vV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~g~~~~l~~i~~~~~~~~q~ 181 (460)
T PRK11776 122 -------------------HGAHI-IVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQT 181 (460)
T ss_pred -------------------CCCCE-EEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCcCcHHHHHHHHHhCCcccEE
Confidence 45567 99999888654321 2223678999999998764331 1223334443 4457
Q ss_pred EEEeccCCC
Q psy1090 152 VLLTGWYYP 160 (169)
Q Consensus 152 ~~lT~TP~~ 160 (169)
+++|||+..
T Consensus 182 ll~SAT~~~ 190 (460)
T PRK11776 182 LLFSATYPE 190 (460)
T ss_pred EEEEecCcH
Confidence 999999853
No 43
>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=99.47 E-value=6.8e-13 Score=104.03 Aligned_cols=138 Identities=17% Similarity=0.088 Sum_probs=87.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHH--HHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIER--KALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~--~~~~~~~~~~ 78 (169)
++++..++|+|||+..+.-+. . ..+.+|||+|. .++.|+.+.+..+ +.......+..... ..+.....
T Consensus 28 dvlv~apTGsGKTl~y~lp~l--~---~~~~~lVi~P~~~L~~dq~~~l~~~--gi~~~~l~~~~~~~~~~~i~~~~~-- 98 (470)
T TIGR00614 28 DCFVVMPTGGGKSLCYQLPAL--C---SDGITLVISPLISLMEDQVLQLKAS--GIPATFLNSSQSKEQQKNVLTDLK-- 98 (470)
T ss_pred CEEEEcCCCCcHhHHHHHHHH--H---cCCcEEEEecHHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHHh--
Confidence 367889999999976533222 1 23579999997 7778899998866 34555555543322 22221111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhch---hcc-ccccccEEEEeCCcccCCcccH---HHH----HHhccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF---GFL-KKITWNCIIVDEGHSVKNKKSK---LSI----KLTALR 147 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~---~~~-~~~~~~~vi~DEah~~k~~~~~---~~~----~~~~l~ 147 (169)
.+..++ +++|++.+.... ..+ .....+++|+||||++...+.. .+. ....+.
T Consensus 99 ----------------~~~~~i-l~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l~~~~~ 161 (470)
T TIGR00614 99 ----------------DGKIKL-LYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFP 161 (470)
T ss_pred ----------------cCCCCE-EEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHHHHHcC
Confidence 155677 999999876543 222 3457889999999998654321 111 122345
Q ss_pred cccEEEEeccCCCCCchh
Q psy1090 148 ATFKVLLTGWYYPNKWSK 165 (169)
Q Consensus 148 ~~~~~~lT~TP~~n~~~e 165 (169)
....+++||||......|
T Consensus 162 ~~~~l~lTAT~~~~~~~d 179 (470)
T TIGR00614 162 NVPIMALTATASPSVRED 179 (470)
T ss_pred CCceEEEecCCCHHHHHH
Confidence 567899999998754444
No 44
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.47 E-value=1.4e-12 Score=101.95 Aligned_cols=138 Identities=15% Similarity=0.168 Sum_probs=86.5
Q ss_pred CccccCCCCCcHHHHHHHHHH-HHHHhCC------CCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFC-KIIEEQA------LEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKAL 71 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~-~~~~~~~------~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~ 71 (169)
+.++..++|+|||+..+..+. .+..... ...+||++|. .+..||.+++..+.. +++.....|........
T Consensus 40 dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~ 119 (456)
T PRK10590 40 DLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQM 119 (456)
T ss_pred CEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHH
Confidence 467888999999988654433 3322211 1258999997 777899999988763 45555566554333222
Q ss_pred HHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCccc--HHHHHHhccc
Q psy1090 72 QSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTALR 147 (169)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l~ 147 (169)
.... ...+| +++|++.+..... .+.-...+++|+||||++-.... .....+..+.
T Consensus 120 ~~l~--------------------~~~~I-iV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~~~~~~i~~il~~l~ 178 (456)
T PRK10590 120 MKLR--------------------GGVDV-LVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLP 178 (456)
T ss_pred HHHc--------------------CCCcE-EEEChHHHHHHHHcCCcccccceEEEeecHHHHhccccHHHHHHHHHhCC
Confidence 2111 45677 9999988754322 22234678999999998765332 1122333443
Q ss_pred -cccEEEEeccCCC
Q psy1090 148 -ATFKVLLTGWYYP 160 (169)
Q Consensus 148 -~~~~~~lT~TP~~ 160 (169)
....+++|||+..
T Consensus 179 ~~~q~l~~SAT~~~ 192 (456)
T PRK10590 179 AKRQNLLFSATFSD 192 (456)
T ss_pred ccCeEEEEeCCCcH
Confidence 3457999999754
No 45
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.44 E-value=2.2e-12 Score=100.01 Aligned_cols=138 Identities=12% Similarity=0.090 Sum_probs=86.0
Q ss_pred CccccCCCCCcHHHHHHHHHH-HHHHhC-------CCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFC-KIIEEQ-------ALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKA 70 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~-~~~~~~-------~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~ 70 (169)
+.++..++|+|||+..+..+. .+.... ....+||++|. .+..|+.+++..+.. ++++..+.|.......
T Consensus 47 dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~ 126 (423)
T PRK04837 47 DVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQ 126 (423)
T ss_pred cEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHH
Confidence 357788999999988654433 332211 12368999998 677899988887763 5667666765433322
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCccc--HHHHHHhcc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTAL 146 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l 146 (169)
..... ...++ +++|++.+..... .+.-..++++|+||||++-...- .....+..+
T Consensus 127 ~~~l~--------------------~~~~I-lV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~~~f~~~i~~i~~~~ 185 (423)
T PRK04837 127 LKVLE--------------------SGVDI-LIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRM 185 (423)
T ss_pred HHHhc--------------------CCCCE-EEECHHHHHHHHHcCCcccccccEEEEecHHHHhhcccHHHHHHHHHhC
Confidence 22111 44577 9999988865432 22334678999999998765331 112223333
Q ss_pred c---cccEEEEeccCCC
Q psy1090 147 R---ATFKVLLTGWYYP 160 (169)
Q Consensus 147 ~---~~~~~~lT~TP~~ 160 (169)
. ....+++|||+..
T Consensus 186 ~~~~~~~~~l~SAT~~~ 202 (423)
T PRK04837 186 PPANQRLNMLFSATLSY 202 (423)
T ss_pred CCccceeEEEEeccCCH
Confidence 2 2345889999753
No 46
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.42 E-value=4.2e-12 Score=102.34 Aligned_cols=137 Identities=13% Similarity=0.130 Sum_probs=87.8
Q ss_pred ccccCCCCCcHHHHHH-HHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC---CCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVI-AFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA---PFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i-~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
.++.-++|+|||...+ .++..+........+||+||. .+..|+.+++.++. ++..+..++|............
T Consensus 46 vl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~-- 123 (629)
T PRK11634 46 VLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALR-- 123 (629)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHhc--
Confidence 5677899999998754 333333333333468999998 67789999987764 5677777777654433332221
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCccc--HHHHHHhccc-cccEE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTALR-ATFKV 152 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l~-~~~~~ 152 (169)
...++ +++|++.+..... .+.-....++|+||||.+-.... .....+..++ ....+
T Consensus 124 ------------------~~~~I-VVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~~gf~~di~~Il~~lp~~~q~l 184 (629)
T PRK11634 124 ------------------QGPQI-VVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTA 184 (629)
T ss_pred ------------------CCCCE-EEECHHHHHHHHHcCCcchhhceEEEeccHHHHhhcccHHHHHHHHHhCCCCCeEE
Confidence 44667 9999888765432 12223567899999998654332 2233344453 34578
Q ss_pred EEeccCCC
Q psy1090 153 LLTGWYYP 160 (169)
Q Consensus 153 ~lT~TP~~ 160 (169)
++|||+..
T Consensus 185 lfSAT~p~ 192 (629)
T PRK11634 185 LFSATMPE 192 (629)
T ss_pred EEEccCCh
Confidence 99999743
No 47
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.42 E-value=4.2e-12 Score=98.73 Aligned_cols=143 Identities=13% Similarity=0.108 Sum_probs=87.7
Q ss_pred CccccCCCCCcHHHHHHHHHH-HHHHh----CCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFC-KIIEE----QALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQS 73 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~-~~~~~----~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~ 73 (169)
+.++...+|+|||...+..+. .+... ....++||++|. .+..|+.+.+..+.. +..+..++|..........
T Consensus 40 d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~ 119 (434)
T PRK11192 40 DVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEV 119 (434)
T ss_pred CEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHH
Confidence 457888999999988654433 33221 122479999997 677898888887753 5677777775433222111
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc-cHHH-HHHhccc-c
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK-SKLS-IKLTALR-A 148 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~-~~~~-~~~~~l~-~ 148 (169)
.. ...++ +++|++.+..... .+....++++|+||||++-... .... .....+. .
T Consensus 120 --l~------------------~~~~I-lV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~~~~~~~~~~i~~~~~~~ 178 (434)
T PRK11192 120 --FS------------------ENQDI-VVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWR 178 (434)
T ss_pred --hc------------------CCCCE-EEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhCCCcHHHHHHHHHhCccc
Confidence 11 45567 9999988765432 2233467899999999876433 1111 2222232 3
Q ss_pred ccEEEEeccCCCCCchh
Q psy1090 149 TFKVLLTGWYYPNKWSK 165 (169)
Q Consensus 149 ~~~~~lT~TP~~n~~~e 165 (169)
...+++|||+....+.+
T Consensus 179 ~q~~~~SAT~~~~~~~~ 195 (434)
T PRK11192 179 KQTLLFSATLEGDAVQD 195 (434)
T ss_pred cEEEEEEeecCHHHHHH
Confidence 45689999986543333
No 48
>PTZ00424 helicase 45; Provisional
Probab=99.40 E-value=5.7e-12 Score=97.00 Aligned_cols=138 Identities=14% Similarity=0.158 Sum_probs=85.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
+.++..++|+|||..++..+...... ....++||++|. .+..|+.+.+..+.. ........|....+.......
T Consensus 67 d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-- 144 (401)
T PTZ00424 67 DTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLK-- 144 (401)
T ss_pred CEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHHHHHHc--
Confidence 35778899999998765444333322 234579999997 667788888777653 334444455443332222111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc--cHHHHHHhcc-ccccEE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTAL-RATFKV 152 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l-~~~~~~ 152 (169)
...++ +++|++.+..... .+.-..++++|+||+|++.... ......++.+ .....+
T Consensus 145 ------------------~~~~I-vv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~~~~~~~~~~i~~~~~~~~~~i 205 (401)
T PTZ00424 145 ------------------AGVHM-VVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVA 205 (401)
T ss_pred ------------------CCCCE-EEECcHHHHHHHHhCCcccccccEEEEecHHHHHhcchHHHHHHHHhhCCCCcEEE
Confidence 33466 9999887654322 2233467899999999875432 2233444555 345689
Q ss_pred EEeccCCC
Q psy1090 153 LLTGWYYP 160 (169)
Q Consensus 153 ~lT~TP~~ 160 (169)
++|||+..
T Consensus 206 ~~SAT~~~ 213 (401)
T PTZ00424 206 LFSATMPN 213 (401)
T ss_pred EEEecCCH
Confidence 99999753
No 49
>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=99.40 E-value=1.7e-11 Score=96.66 Aligned_cols=132 Identities=12% Similarity=-0.006 Sum_probs=84.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCH--HHHHHHHHhhhcCCC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNA--IERKALQSEALSLPT 80 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~--~~~~~~~~~~~~~~~ 80 (169)
+|.-.+|+|||...+.++......+ +.+||++|. .+..|+.+.+++.+ +..+..+++.. .++...+.....
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 LLFGVTGSGKTEVYLQAIEKVLALG--KSVLVLVPEIALTPQMIQRFKYRF-GSQVAVLHSGLSDSEKLQAWRKVKN--- 74 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCcHHHHHHHHHHHHHHh-CCcEEEEECCCCHHHHHHHHHHHHc---
Confidence 3566899999999887776655443 679999998 67789999998876 34566677643 233222222111
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCC--cccHHH-----HHH-hccccccEE
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKN--KKSKLS-----IKL-TALRATFKV 152 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~--~~~~~~-----~~~-~~l~~~~~~ 152 (169)
+..++ ++.|++.+.. . -.+.+++|+||.|...- ...-.+ ... ........+
T Consensus 75 ---------------g~~~I-VVGTrsalf~---p--~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vi 133 (505)
T TIGR00595 75 ---------------GEILV-VIGTRSALFL---P--FKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVV 133 (505)
T ss_pred ---------------CCCCE-EECChHHHcC---c--ccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEE
Confidence 55667 9999887632 1 23569999999997542 111111 111 123445688
Q ss_pred EEeccCCCCC
Q psy1090 153 LLTGWYYPNK 162 (169)
Q Consensus 153 ~lT~TP~~n~ 162 (169)
++||||...+
T Consensus 134 l~SATPsles 143 (505)
T TIGR00595 134 LGSATPSLES 143 (505)
T ss_pred EEeCCCCHHH
Confidence 8999998543
No 50
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.39 E-value=7.8e-12 Score=98.28 Aligned_cols=138 Identities=12% Similarity=0.097 Sum_probs=86.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCC--------CCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQA--------LEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKA 70 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~--------~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~ 70 (169)
+.++.-.+|+|||+..+--+........ ...+||++|. .+..|+.+++..+.. +.++..++|..+....
T Consensus 126 dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~ 205 (475)
T PRK01297 126 DAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQ 205 (475)
T ss_pred CEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHH
Confidence 3577889999999876544333222221 2468999997 777899998887763 4566667775433222
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCccc--HHHHHHhcc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTAL 146 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l 146 (169)
...... ...++ +++|++.+..... ...-...+++|+||+|++.+..- ...+.+..+
T Consensus 206 ~~~~~~-------------------~~~~I-iv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~~~~~~l~~i~~~~ 265 (475)
T PRK01297 206 LKQLEA-------------------RFCDI-LVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQT 265 (475)
T ss_pred HHHHhC-------------------CCCCE-EEECHHHHHHHHHcCCcccccCceEEechHHHHHhcccHHHHHHHHHhC
Confidence 222111 45677 9999999864322 11223567999999999865432 122233333
Q ss_pred c---cccEEEEeccCC
Q psy1090 147 R---ATFKVLLTGWYY 159 (169)
Q Consensus 147 ~---~~~~~~lT~TP~ 159 (169)
. ....+++|||..
T Consensus 266 ~~~~~~q~i~~SAT~~ 281 (475)
T PRK01297 266 PRKEERQTLLFSATFT 281 (475)
T ss_pred CCCCCceEEEEEeecC
Confidence 2 346899999964
No 51
>PRK02362 ski2-like helicase; Provisional
Probab=99.38 E-value=5.6e-12 Score=103.72 Aligned_cols=132 Identities=20% Similarity=0.120 Sum_probs=85.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC-CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP-FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+.+++-++|+|||+.+...+..... ..+++|+++|. .+..|+.+++.++.+ +.++..++|....... .
T Consensus 41 nvlv~APTGSGKTlia~lail~~l~--~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~tGd~~~~~~----~---- 110 (737)
T PRK02362 41 NLLAAIPTASGKTLIAELAMLKAIA--RGGKALYIVPLRALASEKFEEFERFEELGVRVGISTGDYDSRDE----W---- 110 (737)
T ss_pred cEEEECCCcchHHHHHHHHHHHHHh--cCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEEeCCcCcccc----c----
Confidence 4678899999999887544333322 34689999997 788899999998753 6778888876432210 0
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCcc-cHHHHH-H---hcc-ccccE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNKK-SKLSIK-L---TAL-RATFK 151 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~~-~~~~~~-~---~~l-~~~~~ 151 (169)
....++ +++|++.+...... ..-...+++|+||+|.+.+.. ...... + +.+ .....
T Consensus 111 ---------------l~~~~I-iV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~~rg~~le~il~rl~~~~~~~qi 174 (737)
T PRK02362 111 ---------------LGDNDI-IVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSANRGPTLEVTLAKLRRLNPDLQV 174 (737)
T ss_pred ---------------cCCCCE-EEECHHHHHHHHhcChhhhhhcCEEEEECccccCCCcchHHHHHHHHHHHhcCCCCcE
Confidence 044567 99998876443221 001256899999999986432 111221 2 222 34568
Q ss_pred EEEeccCC
Q psy1090 152 VLLTGWYY 159 (169)
Q Consensus 152 ~~lT~TP~ 159 (169)
++||||+.
T Consensus 175 i~lSATl~ 182 (737)
T PRK02362 175 VALSATIG 182 (737)
T ss_pred EEEcccCC
Confidence 99999974
No 52
>PRK00254 ski2-like helicase; Provisional
Probab=99.38 E-value=7.3e-12 Score=102.85 Aligned_cols=130 Identities=15% Similarity=0.165 Sum_probs=86.0
Q ss_pred CccccCCCCCcHHHHHH-HHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC-CceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVI-AFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP-FVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i-~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
+.+++..+|+|||..+. +++..+.. ..+++|+++|. .+..|+.+++.+|.. +.++..++|........
T Consensus 41 nvlv~apTGsGKT~~~~l~il~~l~~--~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~~~~~~~------- 111 (720)
T PRK00254 41 NLVLAIPTASGKTLVAEIVMVNKLLR--EGGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDYDSTDEW------- 111 (720)
T ss_pred cEEEECCCCcHHHHHHHHHHHHHHHh--cCCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCCCCchhh-------
Confidence 46788999999999884 44433332 24689999997 677899998887642 56777777764322110
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchh----ccccccccEEEEeCCcccCCc--ccHHHHHHhcc-ccccE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG----FLKKITWNCIIVDEGHSVKNK--KSKLSIKLTAL-RATFK 151 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~----~~~~~~~~~vi~DEah~~k~~--~~~~~~~~~~l-~~~~~ 151 (169)
....++ +++|++.+..... ++ .+.+++|+||+|.+... .......+..+ .....
T Consensus 112 ----------------~~~~~I-iV~Tpe~~~~ll~~~~~~l--~~l~lvViDE~H~l~~~~rg~~le~il~~l~~~~qi 172 (720)
T PRK00254 112 ----------------LGKYDI-IIATAEKFDSLLRHGSSWI--KDVKLVVADEIHLIGSYDRGATLEMILTHMLGRAQI 172 (720)
T ss_pred ----------------hccCCE-EEEcHHHHHHHHhCCchhh--hcCCEEEEcCcCccCCccchHHHHHHHHhcCcCCcE
Confidence 144567 9999887654322 22 25789999999998542 22223333333 45678
Q ss_pred EEEeccCC
Q psy1090 152 VLLTGWYY 159 (169)
Q Consensus 152 ~~lT~TP~ 159 (169)
++||||+-
T Consensus 173 I~lSATl~ 180 (720)
T PRK00254 173 LGLSATVG 180 (720)
T ss_pred EEEEccCC
Confidence 99999974
No 53
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.37 E-value=1.1e-11 Score=99.28 Aligned_cols=138 Identities=13% Similarity=0.102 Sum_probs=86.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhC--------CCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQ--------ALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKA 70 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~--------~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~ 70 (169)
+.++.-++|+|||+..+..+....... ....+||++|. .+..|+.+++.+|.. ++++...+|.......
T Consensus 48 Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q 127 (572)
T PRK04537 48 DVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQ 127 (572)
T ss_pred CEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHH
Confidence 357788999999988765544322211 12479999998 777899999998874 4556666665433222
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh---ccccccccEEEEeCCcccCCccc--HHHHHHhc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG---FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTA 145 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~---~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~ 145 (169)
..... ...++ +++|++.+.+... .+.-...+++|+||||++-...- .....+..
T Consensus 128 ~~~l~--------------------~~~dI-iV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~gf~~~i~~il~~ 186 (572)
T PRK04537 128 RELLQ--------------------QGVDV-IIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRR 186 (572)
T ss_pred HHHHh--------------------CCCCE-EEECHHHHHHHHHhccccchhheeeeEecCHHHHhhcchHHHHHHHHHh
Confidence 11111 44677 9999988765432 22233567899999998754221 11222333
Q ss_pred cc---cccEEEEeccCCC
Q psy1090 146 LR---ATFKVLLTGWYYP 160 (169)
Q Consensus 146 l~---~~~~~~lT~TP~~ 160 (169)
+. ....+++|||...
T Consensus 187 lp~~~~~q~ll~SATl~~ 204 (572)
T PRK04537 187 MPERGTRQTLLFSATLSH 204 (572)
T ss_pred cccccCceEEEEeCCccH
Confidence 33 3457899999754
No 54
>PTZ00110 helicase; Provisional
Probab=99.36 E-value=1.2e-11 Score=98.52 Aligned_cols=137 Identities=12% Similarity=0.139 Sum_probs=84.5
Q ss_pred CccccCCCCCcHHHHHHH-HHHHHHHhC-----CCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIA-FFCKIIEEQ-----ALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQ 72 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~-~i~~~~~~~-----~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~ 72 (169)
+.|+..++|+|||+..+. .+..+.... ....+||++|. .+..|+.+++.+|.. ..+....+|......+..
T Consensus 169 dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~ 248 (545)
T PTZ00110 169 DMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIY 248 (545)
T ss_pred CEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHH
Confidence 357788999999987543 333333221 12248999997 777899999999874 345555555433333222
Q ss_pred HhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCccc--HHHHHHhcc-c
Q psy1090 73 SEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNKKS--KLSIKLTAL-R 147 (169)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l-~ 147 (169)
... ...++ +++|++.+.+.... ..-...+++|+||||++-.... ...+.+..+ .
T Consensus 249 ~l~--------------------~~~~I-lVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld~gf~~~i~~il~~~~~ 307 (545)
T PTZ00110 249 ALR--------------------RGVEI-LIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRP 307 (545)
T ss_pred HHH--------------------cCCCE-EEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhhcchHHHHHHHHHhCCC
Confidence 221 44567 99999877543321 1223578999999998765331 122333344 3
Q ss_pred cccEEEEeccCC
Q psy1090 148 ATFKVLLTGWYY 159 (169)
Q Consensus 148 ~~~~~~lT~TP~ 159 (169)
....+++|||..
T Consensus 308 ~~q~l~~SAT~p 319 (545)
T PTZ00110 308 DRQTLMWSATWP 319 (545)
T ss_pred CCeEEEEEeCCC
Confidence 455789999964
No 55
>COG4889 Predicted helicase [General function prediction only]
Probab=99.36 E-value=2.3e-13 Score=109.73 Aligned_cols=150 Identities=13% Similarity=0.104 Sum_probs=87.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
|=|.+.+|+|||++++-+...+.. .++|+++|+ +++.|-.+|+..-. -+++........+..+ .++....+.
T Consensus 183 GkLIMAcGTGKTfTsLkisEala~----~~iL~LvPSIsLLsQTlrew~~~~~l~~~a~aVcSD~kvsr--s~eDik~sd 256 (1518)
T COG4889 183 GKLIMACGTGKTFTSLKISEALAA----ARILFLVPSISLLSQTLREWTAQKELDFRASAVCSDDKVSR--SAEDIKASD 256 (1518)
T ss_pred CcEEEecCCCccchHHHHHHHHhh----hheEeecchHHHHHHHHHHHhhccCccceeEEEecCccccc--ccccccccc
Confidence 446778999999999988777664 569999998 67777666654221 1333333333222211 122222222
Q ss_pred cccccc-------cCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCC-----cccHHHHHH---
Q psy1090 81 IKVPAK-------KGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKN-----KKSKLSIKL--- 143 (169)
Q Consensus 81 ~~~~~~-------~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~-----~~~~~~~~~--- 143 (169)
...+.+ +.....++....-+ +++||+++.+- .+..---+||++||||||+-.+ .+...+-.+
T Consensus 257 l~~p~sT~~~~il~~~~~~~k~~~~~v-vFsTYQSl~~i~eAQe~G~~~fDliicDEAHRTtGa~~a~dd~saFt~vHs~ 335 (1518)
T COG4889 257 LPIPVSTDLEDILSEMEHRQKANGLTV-VFSTYQSLPRIKEAQEAGLDEFDLIICDEAHRTTGATLAGDDKSAFTRVHSD 335 (1518)
T ss_pred CCCCCcccHHHHHHHHHHhhccCCcEE-EEEcccchHHHHHHHHcCCCCccEEEecchhccccceecccCcccceeecCc
Confidence 211111 11112223344444 99999998753 3333445899999999998544 112122222
Q ss_pred hccccccEEEEeccCC
Q psy1090 144 TALRATFKVLLTGWYY 159 (169)
Q Consensus 144 ~~l~~~~~~~lT~TP~ 159 (169)
..+++.+|+.|||||-
T Consensus 336 ~niKa~kRlYmTATPk 351 (1518)
T COG4889 336 QNIKAAKRLYMTATPK 351 (1518)
T ss_pred chhHHHHhhhcccCch
Confidence 2457888999999995
No 56
>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=99.36 E-value=1.3e-11 Score=93.64 Aligned_cols=151 Identities=15% Similarity=0.080 Sum_probs=85.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
.++..++|+|||..++..+......+...++++++|. .++.|+.+.+..++.. ++..+++............ ..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~-~~~~~~~~~~~~~~~~~~~----~~ 76 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS-NLGLLHSSSSFKRIKEMGD----SE 76 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc-ccEEeeccHHHHHHhccCC----ch
Confidence 4678899999999988887766555666789999997 7788999999887633 4444555432111000000 00
Q ss_pred cccccc--CCccccccCCCCeEEEecHHHHHhchhc-c-------ccccccEEEEeCCcccCCcccH-HHHHHhccc--c
Q psy1090 82 KVPAKK--GKTKKQISLKLPLILVTTPQIIENDFGF-L-------KKITWNCIIVDEGHSVKNKKSK-LSIKLTALR--A 148 (169)
Q Consensus 82 ~~~~~~--~~~~~~~~~~~~ii~i~ty~~~~~~~~~-~-------~~~~~~~vi~DEah~~k~~~~~-~~~~~~~l~--~ 148 (169)
...... ...........++ +++|++.+...... + ......++|+||+|.+...... ....+..+. .
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~I-~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~~~~ 155 (358)
T TIGR01587 77 EFEHLFPLYIHSNDKLFLDPI-TVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKDND 155 (358)
T ss_pred hHHHHHHHHhhchhhhhhCCe-eeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHHHcC
Confidence 000000 0000000133456 89999887654322 1 1223478999999998643211 122222222 3
Q ss_pred ccEEEEeccCC
Q psy1090 149 TFKVLLTGWYY 159 (169)
Q Consensus 149 ~~~~~lT~TP~ 159 (169)
...+++|||+.
T Consensus 156 ~~~i~~SATlp 166 (358)
T TIGR01587 156 VPILLMSATLP 166 (358)
T ss_pred CCEEEEecCch
Confidence 45799999975
No 57
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.36 E-value=1.2e-11 Score=102.75 Aligned_cols=135 Identities=20% Similarity=0.239 Sum_probs=89.4
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHH-HHHHHH-HhCCCceEE--E--EeCCHHHHHHHHHh
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNN-WEAEFR-KFAPFVRTV--K--YYGNAIERKALQSE 74 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~q-W~~e~~-~~~~~~~~~--~--~~g~~~~~~~~~~~ 74 (169)
|..++|.|+|.|||=.|+=.+-. .-...+.+.|+||..++.| =++.|. +|. ++.+- . -.-+.++.+.....
T Consensus 616 MDRLiCGDVGFGKTEVAmRAAFk--AV~~GKQVAvLVPTTlLA~QHy~tFkeRF~-~fPV~I~~LSRF~s~kE~~~il~~ 692 (1139)
T COG1197 616 MDRLICGDVGFGKTEVAMRAAFK--AVMDGKQVAVLVPTTLLAQQHYETFKERFA-GFPVRIEVLSRFRSAKEQKEILKG 692 (1139)
T ss_pred chheeecCcCCcHHHHHHHHHHH--HhcCCCeEEEEcccHHhHHHHHHHHHHHhc-CCCeeEEEecccCCHHHHHHHHHH
Confidence 67899999999999776632221 1233478999999998864 334443 444 33222 2 22233333333333
Q ss_pred hhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccc-cccEEE
Q psy1090 75 ALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALR-ATFKVL 153 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~-~~~~~~ 153 (169)
-.. +..|| +|-|+..+.+++.+ .+.+++|+||-|++.-. --..++.++ ....+-
T Consensus 693 la~------------------G~vDI-vIGTHrLL~kdv~F---kdLGLlIIDEEqRFGVk---~KEkLK~Lr~~VDvLT 747 (1139)
T COG1197 693 LAE------------------GKVDI-VIGTHRLLSKDVKF---KDLGLLIIDEEQRFGVK---HKEKLKELRANVDVLT 747 (1139)
T ss_pred Hhc------------------CCccE-EEechHhhCCCcEE---ecCCeEEEechhhcCcc---HHHHHHHHhccCcEEE
Confidence 222 88888 99999999887765 46789999999998643 345556663 567899
Q ss_pred EeccCCCCCc
Q psy1090 154 LTGWYYPNKW 163 (169)
Q Consensus 154 lT~TP~~n~~ 163 (169)
|||||++..+
T Consensus 748 LSATPIPRTL 757 (1139)
T COG1197 748 LSATPIPRTL 757 (1139)
T ss_pred eeCCCCcchH
Confidence 9999997654
No 58
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.36 E-value=1.7e-11 Score=98.72 Aligned_cols=139 Identities=19% Similarity=0.199 Sum_probs=88.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHH--HHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIE--RKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~--~~~~~~~~~~~ 78 (169)
+.++..++|.|||+.....+. . ..+.++||+|. +++.|+.+.++.. +..+..+++.... .........
T Consensus 30 dvlv~~PTG~GKTl~y~lpal--~---~~g~~lVisPl~sL~~dq~~~l~~~--gi~~~~~~s~~~~~~~~~~~~~l~-- 100 (591)
T TIGR01389 30 DVLVVMPTGGGKSLCYQVPAL--L---LKGLTVVISPLISLMKDQVDQLRAA--GVAAAYLNSTLSAKEQQDIEKALV-- 100 (591)
T ss_pred CEEEEcCCCccHhHHHHHHHH--H---cCCcEEEEcCCHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHHh--
Confidence 467889999999987643322 2 23578999997 6778899888876 4555556654322 222221111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCCcccH-------HHHHHhccccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKNKKSK-------LSIKLTALRAT 149 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~~~~~-------~~~~~~~l~~~ 149 (169)
.+..++ ++.|++.+... ...+.....+++|+||||++...+.. .......+...
T Consensus 101 ----------------~~~~~i-l~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~~~~~~ 163 (591)
T TIGR01389 101 ----------------NGELKL-LYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQV 163 (591)
T ss_pred ----------------CCCCCE-EEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHHhCCCC
Confidence 155667 88888887532 23445568899999999998653321 11222334445
Q ss_pred cEEEEeccCCCCCchhh
Q psy1090 150 FKVLLTGWYYPNKWSKQ 166 (169)
Q Consensus 150 ~~~~lT~TP~~n~~~el 166 (169)
..+++|||+......|+
T Consensus 164 ~vi~lTAT~~~~~~~~i 180 (591)
T TIGR01389 164 PRIALTATADAETRQDI 180 (591)
T ss_pred CEEEEEeCCCHHHHHHH
Confidence 58999999976654443
No 59
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.35 E-value=1.7e-11 Score=97.22 Aligned_cols=138 Identities=13% Similarity=0.128 Sum_probs=85.9
Q ss_pred CccccCCCCCcHHHHHHHH-HHHHHHh-------CCCCceEEEecC-cchHHHHHHHHHhCCC--ceEEEEeCCHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAF-FCKIIEE-------QALEPNLIVCPL-SVLNNWEAEFRKFAPF--VRTVKYYGNAIERKA 70 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~-i~~~~~~-------~~~~~~Liv~P~-~~l~qW~~e~~~~~~~--~~~~~~~g~~~~~~~ 70 (169)
+.++..++|+|||+..+.- +..+... +....+||++|. .+..|+.+++..+... .+.....|.......
T Consensus 160 dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q 239 (518)
T PLN00206 160 SLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQ 239 (518)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHH
Confidence 4678889999999876543 3333221 123469999997 6778998888877643 344444443322222
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc--cHHHHHHhcc
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTAL 146 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l 146 (169)
..... ...++ +++|++.+..... .+.-....++|+||||++...+ ....+.+..+
T Consensus 240 ~~~l~--------------------~~~~I-iV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~~gf~~~i~~i~~~l 298 (518)
T PLN00206 240 LYRIQ--------------------QGVEL-IVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQAL 298 (518)
T ss_pred HHHhc--------------------CCCCE-EEECHHHHHHHHHcCCccchheeEEEeecHHHHhhcchHHHHHHHHHhC
Confidence 22111 44567 9999987754322 2222356799999999886532 2223444556
Q ss_pred ccccEEEEeccCCC
Q psy1090 147 RATFKVLLTGWYYP 160 (169)
Q Consensus 147 ~~~~~~~lT~TP~~ 160 (169)
.....+++|||...
T Consensus 299 ~~~q~l~~SATl~~ 312 (518)
T PLN00206 299 SQPQVLLFSATVSP 312 (518)
T ss_pred CCCcEEEEEeeCCH
Confidence 67788999999854
No 60
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.35 E-value=1.2e-11 Score=101.06 Aligned_cols=133 Identities=15% Similarity=0.081 Sum_probs=91.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+.+++-.+|+|||+.++..+..-..++ .++++.|||. ++..+=.++|.+|. -+.++..++|+.......
T Consensus 49 N~li~aPTgsGKTlIA~lai~~~l~~~-~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~~~~~-------- 119 (766)
T COG1204 49 NVLISAPTGSGKTLIALLAILSTLLEG-GGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDLDDER-------- 119 (766)
T ss_pred cEEEEcCCCCchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCcccchhh--------
Confidence 478899999999999887766554443 5799999996 77778888888443 278999999986643311
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCc-ccHHH-----HHHhccccccE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNK-KSKLS-----IKLTALRATFK 151 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~-~~~~~-----~~~~~l~~~~~ 151 (169)
..+.+| +++||+.+...-.. .-....+++|+||+|.+..+ -.... +........+.
T Consensus 120 ---------------l~~~~V-iVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r~~~~~~~~ri 183 (766)
T COG1204 120 ---------------LARYDV-IVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGPVLESIVARMRRLNELIRI 183 (766)
T ss_pred ---------------hccCCE-EEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCceehhHHHHHHhhCcceEE
Confidence 167777 99999987532111 02236789999999998765 22222 22222223578
Q ss_pred EEEeccCC
Q psy1090 152 VLLTGWYY 159 (169)
Q Consensus 152 ~~lT~TP~ 159 (169)
++||||--
T Consensus 184 vgLSATlp 191 (766)
T COG1204 184 VGLSATLP 191 (766)
T ss_pred EEEeeecC
Confidence 99999964
No 61
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.35 E-value=1.5e-11 Score=99.12 Aligned_cols=138 Identities=17% Similarity=0.075 Sum_probs=84.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHH--HHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIER--KALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~--~~~~~~~~~~ 78 (169)
++++..++|+|||+.....+. .. .+.+|||+|. +++.|+.+.+... +.......+..... ........
T Consensus 42 dvlv~apTGsGKTl~y~lpal--~~---~g~tlVisPl~sL~~dqv~~l~~~--gi~~~~~~s~~~~~~~~~~~~~~~-- 112 (607)
T PRK11057 42 DCLVVMPTGGGKSLCYQIPAL--VL---DGLTLVVSPLISLMKDQVDQLLAN--GVAAACLNSTQTREQQLEVMAGCR-- 112 (607)
T ss_pred CEEEEcCCCchHHHHHHHHHH--Hc---CCCEEEEecHHHHHHHHHHHHHHc--CCcEEEEcCCCCHHHHHHHHHHHh--
Confidence 467889999999976543322 11 3579999997 6778899888866 34444444433222 11111111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCCcccH---HHHHH----hccccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKNKKSK---LSIKL----TALRAT 149 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~~~~~---~~~~~----~~l~~~ 149 (169)
.+..++ ++.|++.+... .+.+...+++++|+||||++...+.. .++.+ ..+...
T Consensus 113 ----------------~g~~~i-l~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~~~p~~ 175 (607)
T PRK11057 113 ----------------TGQIKL-LYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTL 175 (607)
T ss_pred ----------------CCCCcE-EEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHHhCCCC
Confidence 145566 77888877532 23344557899999999988653321 12222 233455
Q ss_pred cEEEEeccCCCCCchh
Q psy1090 150 FKVLLTGWYYPNKWSK 165 (169)
Q Consensus 150 ~~~~lT~TP~~n~~~e 165 (169)
..+++|||+....-.|
T Consensus 176 ~~v~lTAT~~~~~~~d 191 (607)
T PRK11057 176 PFMALTATADDTTRQD 191 (607)
T ss_pred cEEEEecCCChhHHHH
Confidence 6899999998664443
No 62
>PRK09401 reverse gyrase; Reviewed
Probab=99.32 E-value=4.8e-11 Score=101.64 Aligned_cols=110 Identities=19% Similarity=0.234 Sum_probs=73.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCC--ceEEEEeCC----HHHHHHHHHhh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPF--VRTVKYYGN----AIERKALQSEA 75 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~--~~~~~~~g~----~~~~~~~~~~~ 75 (169)
.++..++|+|||..++..+..+ .....++||++|. .++.|+.+.++++... ..+....|. .+++.......
T Consensus 98 v~i~ApTGsGKT~f~l~~~~~l--~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l 175 (1176)
T PRK09401 98 FAIIAPTGVGKTTFGLVMSLYL--AKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERL 175 (1176)
T ss_pred EEEEcCCCCCHHHHHHHHHHHH--HhcCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHH
Confidence 4677899999996444333332 2234689999998 6778999999998743 333333322 12222111111
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccC
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVK 133 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k 133 (169)
. .+.+++ +++|++.+.+..+.+....++++|+||||++-
T Consensus 176 ~------------------~~~~~I-lV~Tp~rL~~~~~~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 176 K------------------EGDFDI-LVTTSQFLSKNFDELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred h------------------cCCCCE-EEECHHHHHHHHHhccccccCEEEEEChHHhh
Confidence 1 045677 99999999887776666679999999999865
No 63
>PRK01172 ski2-like helicase; Provisional
Probab=99.32 E-value=2.3e-11 Score=99.29 Aligned_cols=132 Identities=11% Similarity=0.071 Sum_probs=83.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC-CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP-FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+.+++.++|+|||+.+...+...... .+++++++|. .+..|+.+++.++.. +.++...+|........
T Consensus 39 nvlv~apTGSGKTl~a~lail~~l~~--~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~~-------- 108 (674)
T PRK01172 39 NVIVSVPTAAGKTLIAYSAIYETFLA--GLKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIGDYDDPPDF-------- 108 (674)
T ss_pred cEEEECCCCchHHHHHHHHHHHHHHh--CCcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeCCCCCChhh--------
Confidence 46888999999998876554443333 3679999997 677899999987642 45666666653321110
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCcc-cHHHHHH----hcc-ccccE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNKK-SKLSIKL----TAL-RATFK 151 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~~-~~~~~~~----~~l-~~~~~ 151 (169)
....++ +++|++.+...... ..-.+++++|+||+|.+.... ......+ +.+ ...+.
T Consensus 109 ---------------~~~~dI-iv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~~~~~~~~ri 172 (674)
T PRK01172 109 ---------------IKRYDV-VILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRGPTLETVLSSARYVNPDARI 172 (674)
T ss_pred ---------------hccCCE-EEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCCccHHHHHHHHHHHhcCcCCcE
Confidence 034567 89998765432211 111357899999999986432 1122222 222 24567
Q ss_pred EEEeccCC
Q psy1090 152 VLLTGWYY 159 (169)
Q Consensus 152 ~~lT~TP~ 159 (169)
++||||+-
T Consensus 173 I~lSATl~ 180 (674)
T PRK01172 173 LALSATVS 180 (674)
T ss_pred EEEeCccC
Confidence 99999973
No 64
>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=99.30 E-value=7.1e-11 Score=89.66 Aligned_cols=150 Identities=13% Similarity=0.086 Sum_probs=82.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC------CCceEEEEeCCHHHH-HHHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA------PFVRTVKYYGNAIER-KALQSE 74 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~------~~~~~~~~~g~~~~~-~~~~~~ 74 (169)
.++.-.+|+|||..++..+.. ...++++++|. .+.+||.+.+.+++ .+..+..++|..... ......
T Consensus 17 ~~i~apTGsGKT~~~~~~~l~-----~~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~~g~~~~d~~~~~~~ 91 (357)
T TIGR03158 17 IFNTAPTGAGKTLAWLTPLLH-----GENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHVSKATLKDIKEYAND 91 (357)
T ss_pred EEEECCCCCCHHHHHHHHHHH-----cCCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEecCCchHHHHHhhhh
Confidence 466889999999877544331 23578999997 67788888888775 245666677752221 111111
Q ss_pred hhcCCCcccccccCC-ccccccCCCCeEEEecHHHHHhchhc---c-------ccccccEEEEeCCcccCCccc------
Q psy1090 75 ALSLPTIKVPAKKGK-TKKQISLKLPLILVTTPQIIENDFGF---L-------KKITWNCIIVDEGHSVKNKKS------ 137 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~-~~~~~~~~~~ii~i~ty~~~~~~~~~---~-------~~~~~~~vi~DEah~~k~~~~------ 137 (169)
....... ...... .........++ ++|+++.+...... . ....++++|+||+|.+.....
T Consensus 92 ~~~~~~g--~~~~~~~r~~~~~~~p~i-llT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~~~~~~~~~~~~~ 168 (357)
T TIGR03158 92 KVGSSKG--EKLYNLLRNPIGTSTPII-LLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHLYDAKQLVGMLFL 168 (357)
T ss_pred hcccCcc--chhhhhHHHHHhcCCCCE-EEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecccccCcccchhhhhh
Confidence 1000000 000000 00011134555 99999887632110 0 113678999999999874221
Q ss_pred -HHHHHHhcc-ccccEEEEeccCCC
Q psy1090 138 -KLSIKLTAL-RATFKVLLTGWYYP 160 (169)
Q Consensus 138 -~~~~~~~~l-~~~~~~~lT~TP~~ 160 (169)
.....++.. ...+.++|||||-.
T Consensus 169 l~~~~~~~~~~~~~~~i~lSAT~~~ 193 (357)
T TIGR03158 169 LAYMQLIRFFECRRKFVFLSATPDP 193 (357)
T ss_pred hHHHHHHHhhhcCCcEEEEecCCCH
Confidence 112222222 23588999999954
No 65
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.29 E-value=9.1e-11 Score=95.57 Aligned_cols=134 Identities=15% Similarity=0.051 Sum_probs=85.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCH--HHHHHHHHhhhcCC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNA--IERKALQSEALSLP 79 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~--~~~~~~~~~~~~~~ 79 (169)
.+|...+|+|||...+..+......+ +.+||++|. .+..|+.+.+++.+ +..+..++|.. .++...+.....
T Consensus 165 ~Ll~~~TGSGKT~v~l~~i~~~l~~g--~~vLvLvPt~~L~~Q~~~~l~~~f-g~~v~~~~s~~s~~~r~~~~~~~~~-- 239 (679)
T PRK05580 165 FLLDGVTGSGKTEVYLQAIAEVLAQG--KQALVLVPEIALTPQMLARFRARF-GAPVAVLHSGLSDGERLDEWRKAKR-- 239 (679)
T ss_pred EEEECCCCChHHHHHHHHHHHHHHcC--CeEEEEeCcHHHHHHHHHHHHHHh-CCCEEEEECCCCHHHHHHHHHHHHc--
Confidence 56778899999988877665555443 689999998 67789999998876 45677777643 233222221111
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCc--ccHHH-----HHHh-ccccccE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNK--KSKLS-----IKLT-ALRATFK 151 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~--~~~~~-----~~~~-~l~~~~~ 151 (169)
+..++ ++.|++.+-. .-.+.+++|+||+|...-. ..-.+ ...+ .......
T Consensus 240 ----------------g~~~I-VVgTrsal~~-----p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~ra~~~~~~~ 297 (679)
T PRK05580 240 ----------------GEAKV-VIGARSALFL-----PFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVRAKLENIPV 297 (679)
T ss_pred ----------------CCCCE-EEeccHHhcc-----cccCCCEEEEECCCccccccCcCCCCcHHHHHHHHhhccCCCE
Confidence 45677 8888876532 1236789999999975321 11111 1111 1234567
Q ss_pred EEEeccCCCCCc
Q psy1090 152 VLLTGWYYPNKW 163 (169)
Q Consensus 152 ~~lT~TP~~n~~ 163 (169)
+++||||...+.
T Consensus 298 il~SATps~~s~ 309 (679)
T PRK05580 298 VLGSATPSLESL 309 (679)
T ss_pred EEEcCCCCHHHH
Confidence 888999975443
No 66
>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=99.26 E-value=1.2e-10 Score=95.60 Aligned_cols=134 Identities=18% Similarity=0.204 Sum_probs=85.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+.++.-.+|+|||+..+.-+......+....+|+++|. .+..|-.++++++. .+.++..+.|........ ...
T Consensus 53 nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gdt~~~~r~---~i~-- 127 (742)
T TIGR03817 53 HVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELTLRGVRPATYDGDTPTEERR---WAR-- 127 (742)
T ss_pred CEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCCCCHHHHH---HHh--
Confidence 46788899999998765443333333444579999997 66678888888875 356777788865432211 110
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchh--------ccccccccEEEEeCCcccCCc-ccHHHHHHhcc----
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--------FLKKITWNCIIVDEGHSVKNK-KSKLSIKLTAL---- 146 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--------~~~~~~~~~vi~DEah~~k~~-~~~~~~~~~~l---- 146 (169)
...++ +++|++.+....- .+ .+.+++|+||+|.+.+. .+.....++.+
T Consensus 128 ----------------~~~~I-ivtTPd~L~~~~L~~~~~~~~~l--~~l~~vViDEah~~~g~fg~~~~~il~rL~ri~ 188 (742)
T TIGR03817 128 ----------------EHARY-VLTNPDMLHRGILPSHARWARFL--RRLRYVVIDECHSYRGVFGSHVALVLRRLRRLC 188 (742)
T ss_pred ----------------cCCCE-EEEChHHHHHhhccchhHHHHHH--hcCCEEEEeChhhccCccHHHHHHHHHHHHHHH
Confidence 34566 9999998863211 12 25689999999998652 22222223322
Q ss_pred ----ccccEEEEeccCC
Q psy1090 147 ----RATFKVLLTGWYY 159 (169)
Q Consensus 147 ----~~~~~~~lT~TP~ 159 (169)
..+..+++|||.-
T Consensus 189 ~~~g~~~q~i~~SATi~ 205 (742)
T TIGR03817 189 ARYGASPVFVLASATTA 205 (742)
T ss_pred HhcCCCCEEEEEecCCC
Confidence 2345789999964
No 67
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.23 E-value=1.4e-10 Score=96.98 Aligned_cols=137 Identities=23% Similarity=0.228 Sum_probs=81.2
Q ss_pred CccccCCCCCcHHHHHHHH-HHHHHHhC------CCCceEEEecC-cchHHHHHHHH-------HhC-------CCceEE
Q psy1090 2 DTVIPDPTRYRKSGKVIAF-FCKIIEEQ------ALEPNLIVCPL-SVLNNWEAEFR-------KFA-------PFVRTV 59 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~-i~~~~~~~------~~~~~Liv~P~-~~l~qW~~e~~-------~~~-------~~~~~~ 59 (169)
++++.-++|+|||..++.. +..+.... ....+|+|+|. .+..|+.+.+. ++. ++.++.
T Consensus 49 nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~ 128 (876)
T PRK13767 49 NVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVA 128 (876)
T ss_pred CEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEE
Confidence 4788999999999886544 33333221 12358999997 66667765433 222 356777
Q ss_pred EEeCCHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc--c--ccccccEEEEeCCcccCCc
Q psy1090 60 KYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--L--KKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 60 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~--~~~~~~~vi~DEah~~k~~ 135 (169)
..+|............ ...++ +++|++.+...... + .-...+++|+||+|.+.+.
T Consensus 129 v~~Gdt~~~~r~~~l~--------------------~~p~I-lVtTPE~L~~ll~~~~~~~~l~~l~~VVIDE~H~l~~~ 187 (876)
T PRK13767 129 IRTGDTSSYEKQKMLK--------------------KPPHI-LITTPESLAILLNSPKFREKLRTVKWVIVDEIHSLAEN 187 (876)
T ss_pred EEcCCCCHHHHHHHHh--------------------CCCCE-EEecHHHHHHHhcChhHHHHHhcCCEEEEechhhhccC
Confidence 7887654332211111 34566 99999988532211 1 0125689999999998643
Q ss_pred c--cHHH---HHHhcc--ccccEEEEeccCC
Q psy1090 136 K--SKLS---IKLTAL--RATFKVLLTGWYY 159 (169)
Q Consensus 136 ~--~~~~---~~~~~l--~~~~~~~lT~TP~ 159 (169)
. .... ..+..+ +...++++|||+-
T Consensus 188 ~RG~~l~~~L~rL~~l~~~~~q~IglSATl~ 218 (876)
T PRK13767 188 KRGVHLSLSLERLEELAGGEFVRIGLSATIE 218 (876)
T ss_pred ccHHHHHHHHHHHHHhcCCCCeEEEEecccC
Confidence 2 1111 112222 3456899999974
No 68
>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=99.21 E-value=1.6e-10 Score=75.52 Aligned_cols=126 Identities=17% Similarity=0.079 Sum_probs=64.3
Q ss_pred cccCCCCCcHHHHHHHHH-HHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcc
Q psy1090 4 VIPDPTRYRKSGKVIAFF-CKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIK 82 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i-~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 82 (169)
+|..-+|.|||...+--+ .... +...++||+.|.-++. +|..+...+..+. +......+. .
T Consensus 8 ~~d~hpGaGKTr~vlp~~~~~~i--~~~~rvLvL~PTRvva---~em~~aL~~~~~~-~~t~~~~~~-----~------- 69 (148)
T PF07652_consen 8 VLDLHPGAGKTRRVLPEIVREAI--KRRLRVLVLAPTRVVA---EEMYEALKGLPVR-FHTNARMRT-----H------- 69 (148)
T ss_dssp EEE--TTSSTTTTHHHHHHHHHH--HTT--EEEEESSHHHH---HHHHHHTTTSSEE-EESTTSS---------------
T ss_pred EEecCCCCCCcccccHHHHHHHH--HccCeEEEecccHHHH---HHHHHHHhcCCcc-cCceeeecc-----c-------
Confidence 456679999998766433 2222 2347899999997665 3444444444433 332211110 0
Q ss_pred cccccCCccccccCCCCeEEEecHHHHHh-chhccccccccEEEEeCCcccCCcccHHHHH-Hhcc---ccccEEEEecc
Q psy1090 83 VPAKKGKTKKQISLKLPLILVTTPQIIEN-DFGFLKKITWNCIIVDEGHSVKNKKSKLSIK-LTAL---RATFKVLLTGW 157 (169)
Q Consensus 83 ~~~~~~~~~~~~~~~~~ii~i~ty~~~~~-~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~-~~~l---~~~~~~~lT~T 157 (169)
.+...+ -+.+|..+.. ..+.....+|+++|+||||.. ++.+...+- +..+ .....++||||
T Consensus 70 ------------~g~~~i-~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTAT 135 (148)
T PF07652_consen 70 ------------FGSSII-DVMCHATYGHFLLNPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTAT 135 (148)
T ss_dssp -------------SSSSE-EEEEHHHHHHHHHTSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS
T ss_pred ------------cCCCcc-cccccHHHHHHhcCcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeCC
Confidence 033333 6677766644 233444568999999999974 233322222 1222 22357999999
Q ss_pred CCCC
Q psy1090 158 YYPN 161 (169)
Q Consensus 158 P~~n 161 (169)
|.-.
T Consensus 136 PPG~ 139 (148)
T PF07652_consen 136 PPGS 139 (148)
T ss_dssp -TT-
T ss_pred CCCC
Confidence 9743
No 69
>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=99.19 E-value=2.8e-10 Score=97.09 Aligned_cols=110 Identities=15% Similarity=0.160 Sum_probs=73.1
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCc--e---EEEEeCCHHHHH--HHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFV--R---TVKYYGNAIERK--ALQSE 74 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~--~---~~~~~g~~~~~~--~~~~~ 74 (169)
.++..++|+|||..++.++..+.. ...++||++|. .+..|+.+++.++.+.. . +..++|...... .....
T Consensus 96 ~vi~ApTGsGKT~f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~ 173 (1171)
T TIGR01054 96 FAIIAPTGVGKTTFGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMER 173 (1171)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHH
Confidence 466789999999755544433322 24679999997 67789999999887532 2 223555432221 11111
Q ss_pred hhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCC
Q psy1090 75 ALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~ 134 (169)
.. .+.+++ +++|+..+.+....+.. .++++|+||||++-.
T Consensus 174 l~------------------~~~~dI-lV~Tp~rL~~~~~~l~~-~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 174 IE------------------NGDFDI-LITTTMFLSKNYDELGP-KFDFIFVDDVDALLK 213 (1171)
T ss_pred Hh------------------cCCCCE-EEECHHHHHHHHHHhcC-CCCEEEEeChHhhhh
Confidence 10 045777 99999999877666554 799999999998754
No 70
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.17 E-value=3.2e-10 Score=94.00 Aligned_cols=136 Identities=15% Similarity=0.209 Sum_probs=90.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC---C-CceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA---P-FVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~---~-~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
+.++...||+|||.+-+--|..........++|++-|. .+.+...+.+.++. | ..++..|+|+....... ...
T Consensus 87 ~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~--~~~ 164 (851)
T COG1205 87 NVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERR--AII 164 (851)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHH--HHH
Confidence 46788999999998876666555555666789999997 56667888888876 3 56788899865443221 111
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhch------hccccccccEEEEeCCcccCCcc-cHHHHHHhccc--
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF------GFLKKITWNCIIVDEGHSVKNKK-SKLSIKLTALR-- 147 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~------~~~~~~~~~~vi~DEah~~k~~~-~~~~~~~~~l~-- 147 (169)
...++| ++|+|+++.-.. -.....++.++|+||+|..++.- +.....++++.
T Consensus 165 ------------------~~pp~I-llTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS~vA~llRRL~~~ 225 (851)
T COG1205 165 ------------------RNPPDI-LLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLRR 225 (851)
T ss_pred ------------------hCCCCE-EEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchhHHHHHHHHHHHH
Confidence 166777 999999986411 11111248899999999887633 33344444441
Q ss_pred ------cccEEEEeccC
Q psy1090 148 ------ATFKVLLTGWY 158 (169)
Q Consensus 148 ------~~~~~~lT~TP 158 (169)
....+..|||-
T Consensus 226 ~~~~~~~~q~i~~SAT~ 242 (851)
T COG1205 226 LRRYGSPLQIICTSATL 242 (851)
T ss_pred HhccCCCceEEEEeccc
Confidence 34568888884
No 71
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.10 E-value=1.9e-09 Score=93.20 Aligned_cols=134 Identities=17% Similarity=0.168 Sum_probs=80.6
Q ss_pred ccCCCCCcHHHHHHH-HHHHHHHhC----------CCCceEEEecC-cchHHHHHHHHH-----------h---CCCceE
Q psy1090 5 IPDPTRYRKSGKVIA-FFCKIIEEQ----------ALEPNLIVCPL-SVLNNWEAEFRK-----------F---APFVRT 58 (169)
Q Consensus 5 L~de~G~GKT~~~i~-~i~~~~~~~----------~~~~~Liv~P~-~~l~qW~~e~~~-----------~---~~~~~~ 58 (169)
++-.+|+|||..+.- .+..+.... ...++|+|+|. .+..|-.++++. + .+++++
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 356899999998765 444444321 12468999997 555555555542 1 136778
Q ss_pred EEEeCCHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh---ccccccccEEEEeCCcccCCc
Q psy1090 59 VKYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG---FLKKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 59 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~---~~~~~~~~~vi~DEah~~k~~ 135 (169)
...+|............ ...+| +++|++.+..... ...-.+.++||+||+|.+.+.
T Consensus 81 ~vrtGDt~~~eR~rll~--------------------~ppdI-LVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~ 139 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTR--------------------NPPDI-LITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGS 139 (1490)
T ss_pred EEEECCCCHHHHHHHhc--------------------CCCCE-EEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhccc
Confidence 88888644332221111 34566 9999998864321 111135679999999998753
Q ss_pred c--cHHHHHH---hcc--ccccEEEEeccCC
Q psy1090 136 K--SKLSIKL---TAL--RATFKVLLTGWYY 159 (169)
Q Consensus 136 ~--~~~~~~~---~~l--~~~~~~~lT~TP~ 159 (169)
+ +.....+ ..+ +...++++|||--
T Consensus 140 kRG~~Lel~LeRL~~l~~~~~QrIgLSATI~ 170 (1490)
T PRK09751 140 KRGAHLALSLERLDALLHTSAQRIGLSATVR 170 (1490)
T ss_pred ccccHHHHHHHHHHHhCCCCCeEEEEEeeCC
Confidence 2 2222222 222 2356899999974
No 72
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.09 E-value=6.7e-10 Score=93.34 Aligned_cols=136 Identities=21% Similarity=0.110 Sum_probs=87.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPT 80 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~ 80 (169)
||++=+-+|+|||++++-+...+.+......++||+-.. +-.|-.++|..+........ .......+...-..
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~---~~~s~~~Lk~~l~~--- 348 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP---KAESTSELKELLED--- 348 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc---cccCHHHHHHHHhc---
Confidence 688899999999999988877776665555677777764 45599999998874333222 22222222222211
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchhc----cccccccEEEEeCCcccCCcccHHHHHH-hccccccEEEEe
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF----LKKITWNCIIVDEGHSVKNKKSKLSIKL-TALRATFKVLLT 155 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~----~~~~~~~~vi~DEah~~k~~~~~~~~~~-~~l~~~~~~~lT 155 (169)
.... |++||-+.+...... ...-+.-++|+||||+..... ..+.+ ..++...-+++|
T Consensus 349 ---------------~~~~-ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ~G~--~~~~~~~~~~~a~~~gFT 410 (962)
T COG0610 349 ---------------GKGK-IIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQYGE--LAKLLKKALKKAIFIGFT 410 (962)
T ss_pred ---------------CCCc-EEEEEecccchhhhcccccccCCCcEEEEEechhhccccH--HHHHHHHHhccceEEEee
Confidence 2223 499998887655432 123345589999999976433 23333 345557889999
Q ss_pred ccCCCC
Q psy1090 156 GWYYPN 161 (169)
Q Consensus 156 ~TP~~n 161 (169)
|||+..
T Consensus 411 GTPi~~ 416 (962)
T COG0610 411 GTPIFK 416 (962)
T ss_pred CCcccc
Confidence 999964
No 73
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.08 E-value=1.2e-09 Score=91.57 Aligned_cols=141 Identities=16% Similarity=0.065 Sum_probs=82.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHH--HHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIE--RKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~--~~~~~~~~~~~ 78 (169)
++++...+|.|||+...--+.. ..+.+|||+|. +++.++...+... ++......+.... ..........
T Consensus 477 DVLVimPTGSGKSLcYQLPAL~-----~~GiTLVISPLiSLmqDQV~~L~~~--GI~Aa~L~s~~s~~eq~~ilr~l~s- 548 (1195)
T PLN03137 477 DVFVLMPTGGGKSLTYQLPALI-----CPGITLVISPLVSLIQDQIMNLLQA--NIPAASLSAGMEWAEQLEILQELSS- 548 (1195)
T ss_pred CEEEEcCCCccHHHHHHHHHHH-----cCCcEEEEeCHHHHHHHHHHHHHhC--CCeEEEEECCCCHHHHHHHHHHHHh-
Confidence 3677889999999875433221 13679999997 6766566666543 4555555554322 2111111100
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc---hhccc----cccccEEEEeCCcccCCcccH---HHHH----Hh
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND---FGFLK----KITWNCIIVDEGHSVKNKKSK---LSIK----LT 144 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~---~~~~~----~~~~~~vi~DEah~~k~~~~~---~~~~----~~ 144 (169)
..+..++ +++|++.+... ...+. .....++|+||||++...+.. .++. ..
T Consensus 549 ---------------~~g~~~I-LyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSqWGhDFRpdYr~L~~Lr~ 612 (1195)
T PLN03137 549 ---------------EYSKYKL-LYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQ 612 (1195)
T ss_pred ---------------cCCCCCE-EEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhhcccchHHHHHHHHHHHH
Confidence 0145677 99999887532 11111 123688999999998654322 1222 22
Q ss_pred ccccccEEEEeccCCCCCchhh
Q psy1090 145 ALRATFKVLLTGWYYPNKWSKQ 166 (169)
Q Consensus 145 ~l~~~~~~~lT~TP~~n~~~el 166 (169)
.+.....++||||...+.-.|+
T Consensus 613 ~fp~vPilALTATAT~~V~eDI 634 (1195)
T PLN03137 613 KFPNIPVLALTATATASVKEDV 634 (1195)
T ss_pred hCCCCCeEEEEecCCHHHHHHH
Confidence 3455668999999887654443
No 74
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=99.07 E-value=8.7e-10 Score=80.39 Aligned_cols=133 Identities=17% Similarity=0.137 Sum_probs=81.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe-cCcchHHHHHHHHHhCC-CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC-PLSVLNNWEAEFRKFAP-FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~-P~~~l~qW~~e~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
|-+|+|.+|.||-.+..++|.....+++.+ .++|. +..+...-.+++....- ...+..... ......
T Consensus 64 Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r-~vwvS~s~dL~~Da~RDl~DIG~~~i~v~~l~~-------~~~~~~--- 132 (303)
T PF13872_consen 64 GFFLGDGTGVGKGRQIAGIILENWLRGRKR-AVWVSVSNDLKYDAERDLRDIGADNIPVHPLNK-------FKYGDI--- 132 (303)
T ss_pred EEEeccCCCcCccchhHHHHHHHHHcCCCc-eEEEECChhhhhHHHHHHHHhCCCcccceechh-------hccCcC---
Confidence 568999999999999999998877776544 55555 45666666666664431 111111111 000000
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchh-------cccc------ccc-cEEEEeCCcccCCccc------HH
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG-------FLKK------ITW-NCIIVDEGHSVKNKKS------KL 139 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~-------~~~~------~~~-~~vi~DEah~~k~~~~------~~ 139 (169)
..-...+ +++||+.+..... .+.+ ..| +++|+||||..+|..+ +.
T Consensus 133 --------------~~~~~Gv-lF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~ 197 (303)
T PF13872_consen 133 --------------IRLKEGV-LFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKT 197 (303)
T ss_pred --------------CCCCCCc-cchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHH
Confidence 0122334 9999999876532 1111 122 4999999999999654 44
Q ss_pred HHHHhc----cccccEEEEeccCCC
Q psy1090 140 SIKLTA----LRATFKVLLTGWYYP 160 (169)
Q Consensus 140 ~~~~~~----l~~~~~~~lT~TP~~ 160 (169)
..+... ++..+.+..|||...
T Consensus 198 g~avl~LQ~~LP~ARvvY~SATgas 222 (303)
T PF13872_consen 198 GIAVLELQNRLPNARVVYASATGAS 222 (303)
T ss_pred HHHHHHHHHhCCCCcEEEecccccC
Confidence 455443 445568889999874
No 75
>KOG0330|consensus
Probab=99.04 E-value=1.7e-09 Score=80.59 Aligned_cols=139 Identities=15% Similarity=0.188 Sum_probs=96.1
Q ss_pred CccccCCCCCcHHHH-HHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGK-VIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~-~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
.+|.+-|+|+|||.. ++-++..+.........||++|. .+-.|-.+.|+.+.. ++++.+.-|.-....+-....
T Consensus 100 dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~-- 177 (476)
T KOG0330|consen 100 DVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLS-- 177 (476)
T ss_pred cEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhh--
Confidence 367889999999977 44556666665555678999998 566688888888863 566666666554443333222
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchh---ccccccccEEEEeCCcccCCcc--cHHHHHHhcccc-ccE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG---FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTALRA-TFK 151 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~---~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l~~-~~~ 151 (169)
.++++ ++.|+..+.+... -++-....++|+|||.++-+.+ ....+.++.++. +..
T Consensus 178 ------------------kkPhi-lVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~~ld~ILk~ip~erqt 238 (476)
T KOG0330|consen 178 ------------------KKPHI-LVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQT 238 (476)
T ss_pred ------------------cCCCE-EEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHHHHHHHHHhcCccceE
Confidence 66666 9999999887655 2333456789999999998744 334555666654 445
Q ss_pred EEEeccCCCC
Q psy1090 152 VLLTGWYYPN 161 (169)
Q Consensus 152 ~~lT~TP~~n 161 (169)
++.|||...+
T Consensus 239 ~LfsATMt~k 248 (476)
T KOG0330|consen 239 FLFSATMTKK 248 (476)
T ss_pred EEEEeecchh
Confidence 7889998754
No 76
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=99.02 E-value=5.5e-09 Score=86.71 Aligned_cols=143 Identities=14% Similarity=0.154 Sum_probs=89.4
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HHHHH---------HHHHhCC--CceEEEEeCCHHHH--
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NNWEA---------EFRKFAP--FVRTVKYYGNAIER-- 68 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~qW~~---------e~~~~~~--~~~~~~~~g~~~~~-- 68 (169)
.-+.+++|+|||.+++..+..+.......++|||||...+ ..... .|...++ ..+..+|.+.++.+
T Consensus 62 ~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~k~g 141 (986)
T PRK15483 62 IDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKKKSG 141 (986)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcccccc
Confidence 3467899999999999999888877777899999998543 33332 2332222 24455555443111
Q ss_pred -----HHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh------cc----cccccc-------EEEE
Q psy1090 69 -----KALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG------FL----KKITWN-------CIIV 126 (169)
Q Consensus 69 -----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~------~~----~~~~~~-------~vi~ 126 (169)
..+++ |.... ........| ++++-+++..+.. .+ ...+|+ ++|+
T Consensus 142 r~~~~~~i~~--Fa~~~-----------~~~~~~I~I-lv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIi 207 (986)
T PRK15483 142 RKNFPAQLSN--FVKAS-----------RQNSNTIHV-LLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVII 207 (986)
T ss_pred cccChHHHHH--HHhcc-----------ccCCCceEE-EEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEE
Confidence 11111 11000 000023455 8999888865321 11 113444 8999
Q ss_pred eCCcccCCcccHHHHHHhccccccEEEEeccCCC
Q psy1090 127 DEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYP 160 (169)
Q Consensus 127 DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~ 160 (169)
||+|++.. ..+.++++..++..+.+..|||--.
T Consensus 208 DEPh~~~~-~~k~~~~i~~lnpl~~lrysAT~~~ 240 (986)
T PRK15483 208 DEPHRFPR-DNKFYQAIEALKPQMIIRFGATFPD 240 (986)
T ss_pred ECCCCCCc-chHHHHHHHhcCcccEEEEeeecCC
Confidence 99999965 3557888999999999999999865
No 77
>KOG0331|consensus
Probab=98.98 E-value=7.5e-09 Score=80.68 Aligned_cols=137 Identities=17% Similarity=0.204 Sum_probs=90.9
Q ss_pred CccccCCCCCcHHHHHH-HHHHHHHHh-----CCCC-ceEEEecC-cchHHHHHHHHHhCCCce--EEEEeCCHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVI-AFFCKIIEE-----QALE-PNLIVCPL-SVLNNWEAEFRKFAPFVR--TVKYYGNAIERKAL 71 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i-~~i~~~~~~-----~~~~-~~Liv~P~-~~l~qW~~e~~~~~~~~~--~~~~~g~~~~~~~~ 71 (169)
+++...++|+|||+.-+ -.|.++... ...+ .+||++|. .+..|-.+++.+|...+. ....+|......+.
T Consensus 130 D~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~ 209 (519)
T KOG0331|consen 130 DLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQL 209 (519)
T ss_pred ceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHH
Confidence 46778899999997643 334444431 2223 48999998 777899999999985544 55555544444444
Q ss_pred HHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc--cHHHHHHhcc-
Q psy1090 72 QSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTAL- 146 (169)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l- 146 (169)
++.. ...++ +++|+..+....+ .+.-....++|+|||.++-... .+.-+.+..+
T Consensus 210 ~~l~--------------------~gvdi-viaTPGRl~d~le~g~~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i~ 268 (519)
T KOG0331|consen 210 RDLE--------------------RGVDV-VIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIP 268 (519)
T ss_pred HHHh--------------------cCCcE-EEeCChHHHHHHHcCCccccceeEEEeccHHhhhccccHHHHHHHHHhcC
Confidence 4433 55677 9999998876543 2333467899999999876543 4455666677
Q ss_pred cccc-EEEEeccCC
Q psy1090 147 RATF-KVLLTGWYY 159 (169)
Q Consensus 147 ~~~~-~~~lT~TP~ 159 (169)
+... .++.|||=.
T Consensus 269 ~~~rQtlm~saTwp 282 (519)
T KOG0331|consen 269 RPDRQTLMFSATWP 282 (519)
T ss_pred CCcccEEEEeeecc
Confidence 4443 688888854
No 78
>PRK14701 reverse gyrase; Provisional
Probab=98.95 E-value=4.5e-09 Score=92.03 Aligned_cols=111 Identities=22% Similarity=0.216 Sum_probs=72.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC----CceEEEEeCCHHHHHHHHH-hhh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP----FVRTVKYYGNAIERKALQS-EAL 76 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~----~~~~~~~~g~~~~~~~~~~-~~~ 76 (169)
.++..++|+|||...+-.... .......+|||+|. .++.|..+.++.+.. +.++..++|.......... ...
T Consensus 97 ~li~APTGsGKTl~~~~~al~--~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l 174 (1638)
T PRK14701 97 FSIVAPTGMGKSTFGAFIALF--LALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERI 174 (1638)
T ss_pred EEEEEcCCCCHHHHHHHHHHH--HHhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHH
Confidence 467789999999843322222 22223579999998 677899999988763 3455667765433222111 111
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccC
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVK 133 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k 133 (169)
. .+.+++ +++|++.+......+....++++|+||||++-
T Consensus 175 ~-----------------~g~~dI-LV~TPgrL~~~~~~l~~~~i~~iVVDEAD~ml 213 (1638)
T PRK14701 175 E-----------------NGDFDI-LVTTAQFLARNFPEMKHLKFDFIFVDDVDAFL 213 (1638)
T ss_pred h-----------------cCCCCE-EEECCchhHHhHHHHhhCCCCEEEEECceecc
Confidence 0 145777 89999888765554444678999999999874
No 79
>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=98.92 E-value=1.1e-08 Score=84.25 Aligned_cols=135 Identities=16% Similarity=0.123 Sum_probs=76.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC-CCCceEEEecC-cchHHHHHHHHHhCC-------------------------Cc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ-ALEPNLIVCPL-SVLNNWEAEFRKFAP-------------------------FV 56 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~-~~~~~Liv~P~-~~l~qW~~e~~~~~~-------------------------~~ 56 (169)
++.-.+|+|||....+++..+.... ...+.++++|. .+..|-.+++.++.. .+
T Consensus 35 ~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l 114 (844)
T TIGR02621 35 SCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPL 114 (844)
T ss_pred eEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCe
Confidence 3457999999975544443332222 22344557797 677888888887763 24
Q ss_pred eEEEEeCCHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc------cc--------ccccc
Q psy1090 57 RTVKYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF------LK--------KITWN 122 (169)
Q Consensus 57 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~------~~--------~~~~~ 122 (169)
++...+|......++.... ...+| ++.|.+.+.+..-. +. -.+..
T Consensus 115 ~v~~l~GG~~~~~q~~~l~--------------------~~p~I-IVgT~D~i~sr~L~~gYg~~~~~~pi~ag~L~~v~ 173 (844)
T TIGR02621 115 AISTLRGQFADNDEWMLDP--------------------HRPAV-IVGTVDMIGSRLLFSGYGCGFKSRPLHAGFLGQDA 173 (844)
T ss_pred EEEEEECCCChHHHHHhcC--------------------CCCcE-EEECHHHHcCCccccccccccccccchhhhhccce
Confidence 4455555543333333221 45566 99998877653210 00 12356
Q ss_pred EEEEeCCcccCCcccHHHHHHhc-c--cc----ccEEEEeccCCC
Q psy1090 123 CIIVDEGHSVKNKKSKLSIKLTA-L--RA----TFKVLLTGWYYP 160 (169)
Q Consensus 123 ~vi~DEah~~k~~~~~~~~~~~~-l--~~----~~~~~lT~TP~~ 160 (169)
++|+|||| +...-......+.. + .. ...++||||+..
T Consensus 174 ~LVLDEAD-Ld~gF~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ 217 (844)
T TIGR02621 174 LIVHDEAH-LEPAFQELLKQIMNEQQRPPDFLPLRVVELTATSRT 217 (844)
T ss_pred EEEEehhh-hccccHHHHHHHHHhcccCcccccceEEEEecCCCc
Confidence 99999999 43333333333332 2 11 368999999853
No 80
>PRK09694 helicase Cas3; Provisional
Probab=98.89 E-value=1.5e-08 Score=84.25 Aligned_cols=157 Identities=18% Similarity=0.143 Sum_probs=84.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHh----CCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKF----APFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~----~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
.+|-..||+|||-.++.++..+...+....+++..|. .+.++-.+.+.+| ++...+...+|..............
T Consensus 304 ~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~v~L~Hg~a~l~~~~~~~~~~ 383 (878)
T PRK09694 304 TIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPNLILAHGNSRFNHLFQSLKSR 383 (878)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCceEeecCcchhhhhhhhhhcc
Confidence 3677899999999999887776666656789999997 5667777776543 3445667777754322111110000
Q ss_pred CCCcccccccC----Ccc---ccccCCCCeEEEecHHHHHhch-----hccc--cccccEEEEeCCcccCCcccHHH-HH
Q psy1090 78 LPTIKVPAKKG----KTK---KQISLKLPLILVTTPQIIENDF-----GFLK--KITWNCIIVDEGHSVKNKKSKLS-IK 142 (169)
Q Consensus 78 ~~~~~~~~~~~----~~~---~~~~~~~~ii~i~ty~~~~~~~-----~~~~--~~~~~~vi~DEah~~k~~~~~~~-~~ 142 (169)
........... ... ..+.-..++ +++|.+.+.... ..++ .+.-.+||+||+|.+-....... ..
T Consensus 384 ~~~~~~~~~~~~~~~~w~~~~~kr~llapi-~V~TiDQlL~a~l~~kh~~lR~~~La~svvIiDEVHAyD~ym~~lL~~~ 462 (878)
T PRK09694 384 AATEQGQEEAWVQCCEWLSQSNKRVFLGQI-GVCTIDQVLISVLPVKHRFIRGFGLGRSVLIVDEVHAYDAYMYGLLEAV 462 (878)
T ss_pred cccccccchhhhHHHHHHhhhhhhhhcCCE-EEcCHHHHHHHHHccchHHHHHHhhccCeEEEechhhCCHHHHHHHHHH
Confidence 00000000000 000 011122566 888876654221 1111 12234899999998732111111 22
Q ss_pred Hhcc--ccccEEEEeccCCC
Q psy1090 143 LTAL--RATFKVLLTGWYYP 160 (169)
Q Consensus 143 ~~~l--~~~~~~~lT~TP~~ 160 (169)
++.+ .....++||||+..
T Consensus 463 L~~l~~~g~~vIllSATLP~ 482 (878)
T PRK09694 463 LKAQAQAGGSVILLSATLPA 482 (878)
T ss_pred HHHHHhcCCcEEEEeCCCCH
Confidence 2222 22458999999874
No 81
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.89 E-value=3.9e-08 Score=78.06 Aligned_cols=142 Identities=18% Similarity=0.201 Sum_probs=92.6
Q ss_pred ccccCCCCCcHHHHH-HHHHHHHHH-hCCCCc-eEEEecC-cchHHHHHHHHHhCC---CceEEEEeCCHHHHHHHHHhh
Q psy1090 3 TVIPDPTRYRKSGKV-IAFFCKIIE-EQALEP-NLIVCPL-SVLNNWEAEFRKFAP---FVRTVKYYGNAIERKALQSEA 75 (169)
Q Consensus 3 ~iL~de~G~GKT~~~-i~~i~~~~~-~~~~~~-~Liv~P~-~~l~qW~~e~~~~~~---~~~~~~~~g~~~~~~~~~~~~ 75 (169)
.+....+|+|||..- +-.+..+.. ...... +||++|. .+..|-.+++.++.. .+++...+|......+.....
T Consensus 69 vi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~ 148 (513)
T COG0513 69 VLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALK 148 (513)
T ss_pred EEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHh
Confidence 456778999999663 334444332 222222 9999998 677799999888873 566777777655444443322
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc--cHHHHHHhccc-ccc
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTALR-ATF 150 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l~-~~~ 150 (169)
...++ ++.|+..+..... .+.-....++|+|||.++-+.+ ......+..++ .+.
T Consensus 149 --------------------~~~~i-vVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~Gf~~~i~~I~~~~p~~~q 207 (513)
T COG0513 149 --------------------RGVDI-VVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQ 207 (513)
T ss_pred --------------------cCCCE-EEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcCCCHHHHHHHHHhCCcccE
Confidence 33677 9999988775443 3344567899999999887653 22334445554 366
Q ss_pred EEEEeccCCCCCchhh
Q psy1090 151 KVLLTGWYYPNKWSKQ 166 (169)
Q Consensus 151 ~~~lT~TP~~n~~~el 166 (169)
.++.|||... .+.++
T Consensus 208 tllfSAT~~~-~i~~l 222 (513)
T COG0513 208 TLLFSATMPD-DIREL 222 (513)
T ss_pred EEEEecCCCH-HHHHH
Confidence 7899999887 44443
No 82
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.88 E-value=1e-08 Score=83.26 Aligned_cols=131 Identities=14% Similarity=0.101 Sum_probs=72.7
Q ss_pred ccccCCCCCcHHHHHHHHH----------HHHH--H-hCCCCceEEEecC-cchHHHHHHHHHhC-----CCceEEEEeC
Q psy1090 3 TVIPDPTRYRKSGKVIAFF----------CKII--E-EQALEPNLIVCPL-SVLNNWEAEFRKFA-----PFVRTVKYYG 63 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i----------~~~~--~-~~~~~~~Liv~P~-~~l~qW~~e~~~~~-----~~~~~~~~~g 63 (169)
.++.-++|+|||.+.-.++ ..+. . .....+++|++|. .+..|...++.+.. ++..+....|
T Consensus 182 vIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~vg~~~~~g~~v~v~~G 261 (675)
T PHA02653 182 VVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSLGFDEIDGSPISLKYG 261 (675)
T ss_pred EEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHhCccccCCceEEEEEC
Confidence 5778899999997742222 1111 1 2234589999997 55667777776533 2344555555
Q ss_pred CHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHH
Q psy1090 64 NAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKL 143 (169)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~ 143 (169)
..... ...... ...++ ++.|..... .. -..++++|+||||............+
T Consensus 262 g~~~~--~~~t~~-------------------k~~~I-lv~T~~L~l---~~--L~~v~~VVIDEaHEr~~~~DllL~ll 314 (675)
T PHA02653 262 SIPDE--LINTNP-------------------KPYGL-VFSTHKLTL---NK--LFDYGTVIIDEVHEHDQIGDIIIAVA 314 (675)
T ss_pred CcchH--Hhhccc-------------------CCCCE-EEEeCcccc---cc--cccCCEEEccccccCccchhHHHHHH
Confidence 43321 000000 22345 777643211 11 23678999999998654433333333
Q ss_pred hcc--ccccEEEEeccCCC
Q psy1090 144 TAL--RATFKVLLTGWYYP 160 (169)
Q Consensus 144 ~~l--~~~~~~~lT~TP~~ 160 (169)
+.+ +.+..++||||+-.
T Consensus 315 k~~~~~~rq~ILmSATl~~ 333 (675)
T PHA02653 315 RKHIDKIRSLFLMTATLED 333 (675)
T ss_pred HHhhhhcCEEEEEccCCcH
Confidence 333 12367999999853
No 83
>KOG0952|consensus
Probab=98.85 E-value=2.4e-08 Score=82.49 Aligned_cols=134 Identities=17% Similarity=0.144 Sum_probs=84.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHh--------CCCCceEEEecC-cchHHHHHHHHH-hCC-CceEEEEeCCHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEE--------QALEPNLIVCPL-SVLNNWEAEFRK-FAP-FVRTVKYYGNAIERKA 70 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~--------~~~~~~Liv~P~-~~l~qW~~e~~~-~~~-~~~~~~~~g~~~~~~~ 70 (169)
+++++-.+|+|||..++..|.....+ +..-+++-|+|. ++...-.+.+.+ +.| ++.+..++|+-.-.+.
T Consensus 128 NMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~ql~~t 207 (1230)
T KOG0952|consen 128 NMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQLTKT 207 (1230)
T ss_pred CEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCcchhhHH
Confidence 57899999999998776555444432 233589999996 555444444432 222 6788888987544322
Q ss_pred HHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHH---hchh--ccccccccEEEEeCCcccCCcccHHHHHHh-
Q psy1090 71 LQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIE---NDFG--FLKKITWNCIIVDEGHSVKNKKSKLSIKLT- 144 (169)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~---~~~~--~~~~~~~~~vi~DEah~~k~~~~~~~~~~~- 144 (169)
.- .+.|+ ++||++... +... .-......+||+||.|.+..+..-....+-
T Consensus 208 ei-----------------------~~tqi-iVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~RGpvlEtiVa 263 (1230)
T KOG0952|consen 208 EI-----------------------ADTQI-IVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDDRGPVLETIVA 263 (1230)
T ss_pred HH-----------------------HhcCE-EEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCcccchHHHHHH
Confidence 11 56677 999987753 2111 111125679999999999876655444331
Q ss_pred --------ccccccEEEEeccCC
Q psy1090 145 --------ALRATFKVLLTGWYY 159 (169)
Q Consensus 145 --------~l~~~~~~~lT~TP~ 159 (169)
....-+.++||||..
T Consensus 264 Rtlr~vessqs~IRivgLSATlP 286 (1230)
T KOG0952|consen 264 RTLRLVESSQSMIRIVGLSATLP 286 (1230)
T ss_pred HHHHHHHhhhhheEEEEeeccCC
Confidence 114556799999965
No 84
>KOG0350|consensus
Probab=98.82 E-value=1.4e-08 Score=77.98 Aligned_cols=116 Identities=12% Similarity=0.221 Sum_probs=76.1
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCC--CceEEEecC-cchHHHHHHHHHhCCC--ceEEEEeCCHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQAL--EPNLIVCPL-SVLNNWEAEFRKFAPF--VRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~--~~~Liv~P~-~~l~qW~~e~~~~~~~--~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
.+++-.+|+|||+...--|......++. -+.+||+|. .+..|-++.|.+|.++ +-++...|..+-+.........
T Consensus 186 IcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~ 265 (620)
T KOG0350|consen 186 ICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASD 265 (620)
T ss_pred eEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcC
Confidence 4567889999997643333333333322 378999997 5667999999999964 5556666655444333322211
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchhc---cccccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF---LKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~---~~~~~~~~vi~DEah~~k~ 134 (169)
.+ -++.|| +++|+..+...... +.-....++|+|||.++.+
T Consensus 266 ~~---------------~~~~DI-lVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~ 309 (620)
T KOG0350|consen 266 PP---------------ECRIDI-LVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLD 309 (620)
T ss_pred CC---------------ccccce-EEcCchHHHHhccCCCCcchhhceEEEechHHHHHH
Confidence 11 146688 99999999876653 2223567999999999865
No 85
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.82 E-value=1.1e-07 Score=70.36 Aligned_cols=118 Identities=15% Similarity=0.146 Sum_probs=82.5
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcccccc
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPAK 86 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 86 (169)
-+|+|||-+....+......+ +.+.|..|. .++..-...++.-+++..+...+|.++...
T Consensus 124 V~GaGKTEMif~~i~~al~~G--~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~S~~~f----------------- 184 (441)
T COG4098 124 VTGAGKTEMIFQGIEQALNQG--GRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGDSDSYF----------------- 184 (441)
T ss_pred ecCCCchhhhHHHHHHHHhcC--CeEEEecCcccchHHHHHHHHHhhccCCeeeEecCCchhc-----------------
Confidence 479999988887777766555 789999997 677777777877777888988888876542
Q ss_pred cCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccH-HHHHHhcc--ccccEEEEeccCCC
Q psy1090 87 KGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSK-LSIKLTAL--RATFKVLLTGWYYP 160 (169)
Q Consensus 87 ~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~-~~~~~~~l--~~~~~~~lT~TP~~ 160 (169)
..+.|+.||++.++- . .-||++|+||+..+--.... ..-+++.- ....++.|||||..
T Consensus 185 ----------r~plvVaTtHQLlrF-k-----~aFD~liIDEVDAFP~~~d~~L~~Av~~ark~~g~~IylTATp~k 245 (441)
T COG4098 185 ----------RAPLVVATTHQLLRF-K-----QAFDLLIIDEVDAFPFSDDQSLQYAVKKARKKEGATIYLTATPTK 245 (441)
T ss_pred ----------cccEEEEehHHHHHH-H-----hhccEEEEeccccccccCCHHHHHHHHHhhcccCceEEEecCChH
Confidence 234446666666543 2 25899999999975433332 23333332 34568999999984
No 86
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.81 E-value=4.7e-08 Score=80.23 Aligned_cols=134 Identities=18% Similarity=0.201 Sum_probs=81.2
Q ss_pred CccccCCCCCcHHHHHHHH-HHHHHHhCCCC-----ceEEEecCc-chHHHHHHHHHhC--CCceEEEEeCCHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAF-FCKIIEEQALE-----PNLIVCPLS-VLNNWEAEFRKFA--PFVRTVKYYGNAIERKALQ 72 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~-i~~~~~~~~~~-----~~Liv~P~~-~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~~ 72 (169)
+.++.-.+|+|||..|+.- +..+....... .+|-|.|.- +...-...+..|. -++.+-+-+|+.......+
T Consensus 39 nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r 118 (814)
T COG1201 39 NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQK 118 (814)
T ss_pred ceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHHHcCCccceecCCCChHHhhh
Confidence 4678889999999988754 44555442111 479999974 4444555555554 2566666666433322111
Q ss_pred HhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhch------hccccccccEEEEeCCcccCCcc--cHHHHHHh
Q psy1090 73 SEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF------GFLKKITWNCIIVDEGHSVKNKK--SKLSIKLT 144 (169)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~------~~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~ 144 (169)
.. ...++| ++||++++.-.. ..+. +..++|+||.|.+.+.+ ++.+-.+.
T Consensus 119 ~~--------------------~~PPdI-LiTTPEsL~lll~~~~~r~~l~--~vr~VIVDEiHel~~sKRG~~Lsl~Le 175 (814)
T COG1201 119 ML--------------------KNPPHI-LITTPESLAILLNSPKFRELLR--DVRYVIVDEIHALAESKRGVQLALSLE 175 (814)
T ss_pred cc--------------------CCCCcE-EEeChhHHHHHhcCHHHHHHhc--CCcEEEeehhhhhhccccchhhhhhHH
Confidence 11 155566 999999986422 2222 56789999999987522 22233333
Q ss_pred c---cc-cccEEEEeccC
Q psy1090 145 A---LR-ATFKVLLTGWY 158 (169)
Q Consensus 145 ~---l~-~~~~~~lT~TP 158 (169)
+ +. .-.|++||||=
T Consensus 176 RL~~l~~~~qRIGLSATV 193 (814)
T COG1201 176 RLRELAGDFQRIGLSATV 193 (814)
T ss_pred HHHhhCcccEEEeehhcc
Confidence 2 22 45699999994
No 87
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.80 E-value=2.6e-08 Score=78.98 Aligned_cols=138 Identities=21% Similarity=0.233 Sum_probs=90.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeC--CHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYG--NAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g--~~~~~~~~~~~~~~~ 78 (169)
.++....+|.||+++. -|-.+.. .+.+|||.|. +++...++.++... ......++ +.+++..+......
T Consensus 34 d~lvvmPTGgGKSlCy--QiPAll~---~G~TLVVSPLiSLM~DQV~~l~~~G--i~A~~lnS~l~~~e~~~v~~~l~~- 105 (590)
T COG0514 34 DTLVVMPTGGGKSLCY--QIPALLL---EGLTLVVSPLISLMKDQVDQLEAAG--IRAAYLNSTLSREERQQVLNQLKS- 105 (590)
T ss_pred cEEEEccCCCCcchHh--hhHHHhc---CCCEEEECchHHHHHHHHHHHHHcC--ceeehhhcccCHHHHHHHHHHHhc-
Confidence 3567789999999653 2222222 4699999997 78888888888664 44444444 44555444443332
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCCcccH-------HHHHHhccccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKNKKSK-------LSIKLTALRAT 149 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~~~~~-------~~~~~~~l~~~ 149 (169)
+..++ +..+++.+... .+.+...+..++++||||++...+.. .......+...
T Consensus 106 -----------------g~~kl-LyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~ 167 (590)
T COG0514 106 -----------------GQLKL-LYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNP 167 (590)
T ss_pred -----------------CceeE-EEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHhhCCCC
Confidence 55677 88888888654 34556788999999999998775422 22333344556
Q ss_pred cEEEEeccCCCCCchh
Q psy1090 150 FKVLLTGWYYPNKWSK 165 (169)
Q Consensus 150 ~~~~lT~TP~~n~~~e 165 (169)
-++++|||--+.--.|
T Consensus 168 p~~AlTATA~~~v~~D 183 (590)
T COG0514 168 PVLALTATATPRVRDD 183 (590)
T ss_pred CEEEEeCCCChHHHHH
Confidence 7999988876544333
No 88
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.75 E-value=9.4e-08 Score=78.07 Aligned_cols=111 Identities=14% Similarity=-0.037 Sum_probs=66.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCC-HHH--HHHHHHhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGN-AIE--RKALQSEA 75 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~-~~~--~~~~~~~~ 75 (169)
|.|....+|.|||+++...+...... ...++||+|+ .+..||.+++..++. ++.+....+. ..+ ....+..
T Consensus 85 G~Iaem~TGeGKTLta~Lpa~l~aL~--g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~- 161 (762)
T TIGR03714 85 GNIAEMKTGEGKTLTATMPLYLNALT--GKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRK- 161 (762)
T ss_pred CceeEecCCcchHHHHHHHHHHHhhc--CCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHH-
Confidence 57888999999999876543322222 3468999998 566788877765542 4455443332 110 1111111
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhch---------hccccccccEEEEeCCcccCCc
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF---------GFLKKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~---------~~~~~~~~~~vi~DEah~~k~~ 135 (169)
...++| +++|++.+..+. ......++.++|+||||.+--+
T Consensus 162 -------------------~y~~dI-vygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiD 210 (762)
T TIGR03714 162 -------------------IYNSDI-VYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLD 210 (762)
T ss_pred -------------------hCCCCE-EEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhc
Confidence 145677 888888874321 1122346789999999987543
No 89
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.75 E-value=7.7e-08 Score=79.53 Aligned_cols=106 Identities=22% Similarity=0.302 Sum_probs=75.4
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC-----CceEEEEeCCHHHHHHHH-HhhhcC
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP-----FVRTVKYYGNAIERKALQ-SEALSL 78 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~-----~~~~~~~~g~~~~~~~~~-~~~~~~ 78 (169)
.-++|+|||.-.+.+..++...+ ++.++|+|. .++.|-.+.+.++.+ ...+. |++.-..+.... .+.+.
T Consensus 103 iAPTGvGKTTfg~~~sl~~a~kg--kr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~-yh~~l~~~ekee~le~i~- 178 (1187)
T COG1110 103 IAPTGVGKTTFGLLMSLYLAKKG--KRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV-YHSALPTKEKEEALERIE- 178 (1187)
T ss_pred EcCCCCchhHHHHHHHHHHHhcC--CeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee-eccccchHHHHHHHHHHh-
Confidence 35799999966655544444333 899999998 456789999999873 22333 777522222111 11111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCccc
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSV 132 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~ 132 (169)
.+++|+ +++|-+.+.++.+.+.+.+||++++|.+..+
T Consensus 179 ----------------~gdfdI-litTs~FL~k~~e~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 179 ----------------SGDFDI-LITTSQFLSKRFEELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred ----------------cCCccE-EEEeHHHHHhhHHHhcccCCCEEEEccHHHH
Confidence 178999 9999999999999999999999999999853
No 90
>KOG0338|consensus
Probab=98.73 E-value=8.6e-08 Score=74.08 Aligned_cols=132 Identities=8% Similarity=0.070 Sum_probs=83.1
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCC----CCceEEEecCc-ch---HHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQA----LEPNLIVCPLS-VL---NNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~----~~~~Liv~P~~-~l---~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
+--+|+|||..-+--+...+..++ .-++||+||.- +- ++-...+..|+ ++.++..-|.-+-+.+-....
T Consensus 224 ~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt-~I~~~L~vGGL~lk~QE~~LR-- 300 (691)
T KOG0338|consen 224 CAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFT-DITVGLAVGGLDLKAQEAVLR-- 300 (691)
T ss_pred eecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhc-cceeeeeecCccHHHHHHHHh--
Confidence 456899999653322332222222 23799999984 32 34556677787 688888777655544333222
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHh---chhccccccccEEEEeCCcccCCcc--cHHHHHHhcc-ccccE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEN---DFGFLKKITWNCIIVDEGHSVKNKK--SKLSIKLTAL-RATFK 151 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~---~~~~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l-~~~~~ 151 (169)
..+|| +|.|+..+.. +...|.--...++|+|||.++-... ......++.. +.+..
T Consensus 301 ------------------s~PDI-VIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLeegFademnEii~lcpk~RQT 361 (691)
T KOG0338|consen 301 ------------------SRPDI-VIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQT 361 (691)
T ss_pred ------------------hCCCE-EEecchhHHHHhccCCCccccceeEEEechHHHHHHHHHHHHHHHHHHhccccccc
Confidence 77888 9999988864 3444555567799999999876432 2223333333 45557
Q ss_pred EEEeccCC
Q psy1090 152 VLLTGWYY 159 (169)
Q Consensus 152 ~~lT~TP~ 159 (169)
+++|||+.
T Consensus 362 mLFSATMt 369 (691)
T KOG0338|consen 362 MLFSATMT 369 (691)
T ss_pred eeehhhhH
Confidence 99999975
No 91
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.68 E-value=4.6e-07 Score=73.10 Aligned_cols=61 Identities=15% Similarity=0.181 Sum_probs=41.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC-----CCceEEEEeC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-----PFVRTVKYYG 63 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-----~~~~~~~~~g 63 (169)
.++.-.+|+|||+..+.-+..........++||.+|. .+..|+.+++..+. ..++.....|
T Consensus 19 lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkG 85 (636)
T TIGR03117 19 GMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPG 85 (636)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEEC
Confidence 3456789999998876655433333335789999998 56678888877554 2455555555
No 92
>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=98.66 E-value=3.5e-08 Score=80.18 Aligned_cols=136 Identities=9% Similarity=0.009 Sum_probs=77.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HH---HHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NN---WEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~q---W~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.|....+|.|||+.+...+...... ...++||+|+..+ .| |...+.++. ++.+....|..........
T Consensus 71 G~Iaem~TGeGKTLva~lpa~l~aL~--G~~V~VvTpt~~LA~qdae~~~~l~~~L-GLsv~~i~g~~~~~~r~~~---- 143 (745)
T TIGR00963 71 GKIAEMKTGEGKTLTATLPAYLNALT--GKGVHVVTVNDYLAQRDAEWMGQVYRFL-GLSVGLILSGMSPEERREA---- 143 (745)
T ss_pred CceeeecCCCccHHHHHHHHHHHHHh--CCCEEEEcCCHHHHHHHHHHHHHHhccC-CCeEEEEeCCCCHHHHHHh----
Confidence 55667899999998754332212222 2469999999655 34 444444444 5777777765433221111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-----Hhch----hccccccccEEEEeCCcccCCcccHHHHHHhcc--
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDF----GFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-- 146 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~----~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-- 146 (169)
..++| ++.|+..+ +... +.+...+++++|+||+|++--+.. +...+.+-
T Consensus 144 ------------------y~~dI-vyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDea-RtpLiisg~~ 203 (745)
T TIGR00963 144 ------------------YACDI-TYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEA-RTPLIISGPA 203 (745)
T ss_pred ------------------cCCCE-EEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhh-hhHHhhcCCC
Confidence 33566 88777654 2221 122335688999999998765333 33333222
Q ss_pred ccccEEEEeccCCCCCch
Q psy1090 147 RATFKVLLTGWYYPNKWS 164 (169)
Q Consensus 147 ~~~~~~~lT~TP~~n~~~ 164 (169)
.....+.+++||+...+.
T Consensus 204 ~~~~~ly~~a~~i~r~L~ 221 (745)
T TIGR00963 204 EKSTELYLQANRFAKALE 221 (745)
T ss_pred CCchHHHHHHHHHHHhhc
Confidence 233456677777765543
No 93
>KOG0345|consensus
Probab=98.64 E-value=3.5e-07 Score=70.08 Aligned_cols=136 Identities=15% Similarity=0.128 Sum_probs=85.9
Q ss_pred ccCCCCCcHHHHHHHHHHHHH--HhCCC--C--ceEEEecC-cchHHHHH---HHHHhCCCceEEEEeCCHHHHHHHHHh
Q psy1090 5 IPDPTRYRKSGKVIAFFCKII--EEQAL--E--PNLIVCPL-SVLNNWEA---EFRKFAPFVRTVKYYGNAIERKALQSE 74 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~--~~~~~--~--~~Liv~P~-~~l~qW~~---e~~~~~~~~~~~~~~g~~~~~~~~~~~ 74 (169)
....+|+|||+.-+.-+..+. +.... + -.||+.|. .+-.|-.+ .|..+.+.++...+.|.......+...
T Consensus 48 veavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~f 127 (567)
T KOG0345|consen 48 VEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTF 127 (567)
T ss_pred EEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHH
Confidence 345689999977655544444 22222 2 36999998 44445443 344445788888888876666655554
Q ss_pred hhcCCCcccccccCCccccccCCCCeEEEecHHHHHhc----hhccccccccEEEEeCCcccCCcc--cHHHHHHhcccc
Q psy1090 75 ALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND----FGFLKKITWNCIIVDEGHSVKNKK--SKLSIKLTALRA 148 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~----~~~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~l~~ 148 (169)
.. ...+| ++.|+..+..- ...+.-....++|+|||.++-.-+ ......+..++.
T Consensus 128 ke-------------------e~~nI-lVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLldmgFe~~~n~ILs~LPK 187 (567)
T KOG0345|consen 128 KE-------------------EGPNI-LVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNTILSFLPK 187 (567)
T ss_pred HH-------------------hCCcE-EEeCchhHHHHHhchhhhccccccceEEecchHhHhcccHHHHHHHHHHhccc
Confidence 43 55566 99998776543 333444456799999999986543 334555666765
Q ss_pred ccE-EEEeccCCC
Q psy1090 149 TFK-VLLTGWYYP 160 (169)
Q Consensus 149 ~~~-~~lT~TP~~ 160 (169)
.+| =+.|||..+
T Consensus 188 QRRTGLFSATq~~ 200 (567)
T KOG0345|consen 188 QRRTGLFSATQTQ 200 (567)
T ss_pred ccccccccchhhH
Confidence 555 445888643
No 94
>KOG0335|consensus
Probab=98.62 E-value=5.6e-07 Score=69.53 Aligned_cols=139 Identities=17% Similarity=0.233 Sum_probs=90.7
Q ss_pred CccccCCCCCcHHHHHH-HHHHHHHHhCC----------CCceEEEecC-cchHHHHHHHHHhC--CCceEEEEeCCHHH
Q psy1090 2 DTVIPDPTRYRKSGKVI-AFFCKIIEEQA----------LEPNLIVCPL-SVLNNWEAEFRKFA--PFVRTVKYYGNAIE 67 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i-~~i~~~~~~~~----------~~~~Liv~P~-~~l~qW~~e~~~~~--~~~~~~~~~g~~~~ 67 (169)
+.+.+-++|+|||..-+ -++.++++++. ....||++|. .+..|-+.|-++|. ..++....+|....
T Consensus 113 dl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~ 192 (482)
T KOG0335|consen 113 DLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDL 192 (482)
T ss_pred ceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcch
Confidence 35567899999997643 33455554433 2358999997 78889999999987 45666776666444
Q ss_pred HHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCC---cccHHHHH
Q psy1090 68 RKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKN---KKSKLSIK 142 (169)
Q Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~---~~~~~~~~ 142 (169)
..+.+... ..+++ +++|...+..-.+ .+.--+..++|+|||.++-. ......+.
T Consensus 193 ~~q~~~~~--------------------~gcdI-lvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD~mgF~p~Ir~i 251 (482)
T KOG0335|consen 193 GAQLRFIK--------------------RGCDI-LVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEMGFEPQIRKI 251 (482)
T ss_pred hhhhhhhc--------------------cCccE-EEecCchhhhhhhcceeehhhCcEEEecchHHhhhhccccccHHHH
Confidence 44333322 77888 9999988876443 22233455999999998754 12233333
Q ss_pred Hhcc-----ccccEEEEeccCCCC
Q psy1090 143 LTAL-----RATFKVLLTGWYYPN 161 (169)
Q Consensus 143 ~~~l-----~~~~~~~lT~TP~~n 161 (169)
+... +.+..++.|||-..+
T Consensus 252 v~~~~~~~~~~~qt~mFSAtfp~~ 275 (482)
T KOG0335|consen 252 VEQLGMPPKNNRQTLLFSATFPKE 275 (482)
T ss_pred hcccCCCCccceeEEEEeccCChh
Confidence 3322 356678999996543
No 95
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.60 E-value=4.2e-07 Score=75.65 Aligned_cols=136 Identities=13% Similarity=0.014 Sum_probs=74.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HHHHHHHHHhC---CCceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NNWEAEFRKFA---PFVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~qW~~e~~~~~---~~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
.++.-++|+|||.+..-.+... ....++++|++|.-.+ .|-.+.+.+.. .+..+....+... ..
T Consensus 23 vvv~A~TGSGKTt~~pl~lL~~--~~~~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~~~-~~--------- 90 (812)
T PRK11664 23 VLLKAPTGAGKSTWLPLQLLQH--GGINGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAES-KV--------- 90 (812)
T ss_pred EEEEcCCCCCHHHHHHHHHHHc--CCcCCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecCcc-cc---------
Confidence 5788899999998876444321 1223589999998554 46555554332 1222222111110 00
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhc-cccccccEEEEeCCccc-CCcccH---HHHHHhccc-cccEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGHSV-KNKKSK---LSIKLTALR-ATFKV 152 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah~~-k~~~~~---~~~~~~~l~-~~~~~ 152 (169)
....++ ++.|...+.+.... ..-..++++|+||+|.- -+.+-. ..+....++ ....+
T Consensus 91 ----------------~~~t~I-~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~lr~~lqli 153 (812)
T PRK11664 91 ----------------GPNTRL-EVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLL 153 (812)
T ss_pred ----------------CCCCcE-EEEChhHHHHHHhhCCCcCcCcEEEEcCCCccccccchHHHHHHHHHHhCCccceEE
Confidence 023345 78888877654321 12247889999999962 221111 111223332 34579
Q ss_pred EEeccCCCCCchhhc
Q psy1090 153 LLTGWYYPNKWSKQC 167 (169)
Q Consensus 153 ~lT~TP~~n~~~el~ 167 (169)
+||||+-...+.+++
T Consensus 154 lmSATl~~~~l~~~~ 168 (812)
T PRK11664 154 IMSATLDNDRLQQLL 168 (812)
T ss_pred EEecCCCHHHHHHhc
Confidence 999998655444443
No 96
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.59 E-value=6.9e-07 Score=74.33 Aligned_cols=135 Identities=14% Similarity=0.037 Sum_probs=75.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HHHHHHHHHhC-C--CceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NNWEAEFRKFA-P--FVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~qW~~e~~~~~-~--~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
.++.-++|+|||.+..-.+.... ...++++|+.|.-.+ .|-.+.+.+.. . +..+....+. +..
T Consensus 20 vIi~a~TGSGKTT~vpl~lL~~~--~~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~-~~~---------- 86 (819)
T TIGR01970 20 VVLEAPPGAGKSTAVPLALLDAP--GIGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRG-ENK---------- 86 (819)
T ss_pred EEEECCCCCCHHHHHHHHHHHhh--ccCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEcc-ccc----------
Confidence 57889999999988776654332 234589999998654 45555554332 1 1222211111 000
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhc-cccccccEEEEeCCcc-cCCcccH--HHHHH-hccc-cccEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGHS-VKNKKSK--LSIKL-TALR-ATFKV 152 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah~-~k~~~~~--~~~~~-~~l~-~~~~~ 152 (169)
.....++ ++.|...+.+.... ..-..++++|+||+|. .-+.+-. ..+.+ ..++ ....+
T Consensus 87 ---------------~s~~t~I-~v~T~G~Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlI 150 (819)
T TIGR01970 87 ---------------VSRRTRL-EVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKIL 150 (819)
T ss_pred ---------------cCCCCcE-EEECCcHHHHHHhhCcccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEE
Confidence 0033456 77888777654321 2224688999999994 4332211 11222 2233 34578
Q ss_pred EEeccCCCCCchhh
Q psy1090 153 LLTGWYYPNKWSKQ 166 (169)
Q Consensus 153 ~lT~TP~~n~~~el 166 (169)
+||||+-...+.++
T Consensus 151 lmSATl~~~~l~~~ 164 (819)
T TIGR01970 151 AMSATLDGERLSSL 164 (819)
T ss_pred EEeCCCCHHHHHHH
Confidence 99999876544444
No 97
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=98.56 E-value=5.9e-07 Score=73.23 Aligned_cols=131 Identities=16% Similarity=0.142 Sum_probs=81.8
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH-H-------HHHHH-HHhCC--CceEEEEeCCHHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN-N-------WEAEF-RKFAP--FVRTVKYYGNAIERKALQS 73 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~-q-------W~~e~-~~~~~--~~~~~~~~g~~~~~~~~~~ 73 (169)
+-+|+|+|||.+.+-.+..+.......+.+||||+..+. - -.++| ..++. .++.+.+... ..+.....
T Consensus 79 I~METGTGKTy~YlrtmfeLhk~YG~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~-~~~~~~~~ 157 (985)
T COG3587 79 ILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDED-IEKFKFKS 157 (985)
T ss_pred EEEecCCCceeeHHHHHHHHHHHhCceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechH-HHHHhhcc
Confidence 468999999999988888777777677999999985442 1 11233 33332 3344444311 11111110
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhc---hhcccc-------------ccc-------cEEEEeCCc
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND---FGFLKK-------------ITW-------NCIIVDEGH 130 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~---~~~~~~-------------~~~-------~~vi~DEah 130 (169)
...+.+ ++.+.+...++ .+.+.+ .++ -++|+||-|
T Consensus 158 ---------------------~~~~~v-Ll~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh 215 (985)
T COG3587 158 ---------------------NNKPCV-LLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPH 215 (985)
T ss_pred ---------------------CCCceE-EEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChh
Confidence 033344 77777776655 322211 112 289999999
Q ss_pred ccCCcccHHHHHHhccccccEEEEeccCC
Q psy1090 131 SVKNKKSKLSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 131 ~~k~~~~~~~~~~~~l~~~~~~~lT~TP~ 159 (169)
++..+ .+.+.++..++..+.+=.+||--
T Consensus 216 ~f~~~-~k~~~~i~~l~pl~ilRfgATfk 243 (985)
T COG3587 216 RFLGD-DKTYGAIKQLNPLLILRFGATFK 243 (985)
T ss_pred hcccc-hHHHHHHHhhCceEEEEecccch
Confidence 99865 78899999998888887788753
No 98
>KOG0342|consensus
Probab=98.47 E-value=1.6e-06 Score=66.72 Aligned_cols=135 Identities=14% Similarity=0.135 Sum_probs=79.3
Q ss_pred cccCCCCCcHHHHHH----HHHHHHHHhCCCC-ceEEEecCc-chHHHHHHH---HHhCCCceEEEEeCCHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVI----AFFCKIIEEQALE-PNLIVCPLS-VLNNWEAEF---RKFAPFVRTVKYYGNAIERKALQSE 74 (169)
Q Consensus 4 iL~de~G~GKT~~~i----~~i~~~~~~~~~~-~~Liv~P~~-~l~qW~~e~---~~~~~~~~~~~~~g~~~~~~~~~~~ 74 (169)
+-+--+|+|||+.-+ ..+.......+.+ .++||||.- +--|-..|. .++.+...+....|....+...+..
T Consensus 123 l~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl 202 (543)
T KOG0342|consen 123 LAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKL 202 (543)
T ss_pred eeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHh
Confidence 345568999996533 2222222222222 589999984 445766554 4555677777666654443332222
Q ss_pred hhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhcccc---ccccEEEEeCCcccCCcccH--HHHHHhcc-cc
Q psy1090 75 ALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKK---ITWNCIIVDEGHSVKNKKSK--LSIKLTAL-RA 148 (169)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~---~~~~~vi~DEah~~k~~~~~--~~~~~~~l-~~ 148 (169)
. ...++ +++|+..+....+--.. ...+++|+|||.++-.-+-. .-+.+..+ +.
T Consensus 203 ~--------------------k~~ni-liATPGRLlDHlqNt~~f~~r~~k~lvlDEADrlLd~GF~~di~~Ii~~lpk~ 261 (543)
T KOG0342|consen 203 V--------------------KGCNI-LIATPGRLLDHLQNTSGFLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILPKQ 261 (543)
T ss_pred h--------------------ccccE-EEeCCchHHhHhhcCCcchhhccceeEeecchhhhhcccHHHHHHHHHhcccc
Confidence 1 45666 99999887665442221 23378999999997653321 23334444 45
Q ss_pred ccEEEEeccCC
Q psy1090 149 TFKVLLTGWYY 159 (169)
Q Consensus 149 ~~~~~lT~TP~ 159 (169)
+..++.|||-.
T Consensus 262 rqt~LFSAT~~ 272 (543)
T KOG0342|consen 262 RQTLLFSATQP 272 (543)
T ss_pred ceeeEeeCCCc
Confidence 56799999965
No 99
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.47 E-value=1.6e-06 Score=70.63 Aligned_cols=128 Identities=10% Similarity=0.002 Sum_probs=82.3
Q ss_pred CCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHH--HHHHHHhhhcCCCccccc
Q psy1090 9 TRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIE--RKALQSEALSLPTIKVPA 85 (169)
Q Consensus 9 ~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~--~~~~~~~~~~~~~~~~~~ 85 (169)
.|+|||-..+.++......+ +.+||++|. .+..|+.+.|+..++...+..+++.... |...+.....
T Consensus 169 ~GSGKTevyl~~i~~~l~~G--k~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~-------- 238 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAG--RGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLR-------- 238 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcC--CeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhC--------
Confidence 49999999988888777655 679999998 6778999999988865667777774333 3222222211
Q ss_pred ccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcc--cCCcccHHH----HHHh-c-cccccEEEEecc
Q psy1090 86 KKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHS--VKNKKSKLS----IKLT-A-LRATFKVLLTGW 157 (169)
Q Consensus 86 ~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~--~k~~~~~~~----~~~~-~-l~~~~~~~lT~T 157 (169)
+...| ++-|.+.+--- -.+.+++|+||-|. +|....-++ -++. . ......++-|+|
T Consensus 239 ----------G~~~I-ViGtRSAvFaP-----~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaT 302 (665)
T PRK14873 239 ----------GQARV-VVGTRSAVFAP-----VEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHA 302 (665)
T ss_pred ----------CCCcE-EEEcceeEEec-----cCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCC
Confidence 56667 88887764221 12568999999984 444322221 1111 1 123345666999
Q ss_pred CCCCC
Q psy1090 158 YYPNK 162 (169)
Q Consensus 158 P~~n~ 162 (169)
|--.+
T Consensus 303 PSles 307 (665)
T PRK14873 303 RTAEA 307 (665)
T ss_pred CCHHH
Confidence 97443
No 100
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.46 E-value=1.9e-06 Score=70.36 Aligned_cols=132 Identities=16% Similarity=0.101 Sum_probs=86.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeC--CHHHHHHHHHhhhcCCC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYG--NAIERKALQSEALSLPT 80 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g--~~~~~~~~~~~~~~~~~ 80 (169)
+|.--+|+|||-..+.+|......+ +.+||++|. ++..|-.+.|+..+ +.++.++++ +..+|...+.....
T Consensus 221 Ll~GvTGSGKTEvYl~~i~~~L~~G--kqvLvLVPEI~Ltpq~~~rf~~rF-g~~v~vlHS~Ls~~er~~~W~~~~~--- 294 (730)
T COG1198 221 LLDGVTGSGKTEVYLEAIAKVLAQG--KQVLVLVPEIALTPQLLARFKARF-GAKVAVLHSGLSPGERYRVWRRARR--- 294 (730)
T ss_pred eEeCCCCCcHHHHHHHHHHHHHHcC--CEEEEEeccccchHHHHHHHHHHh-CCChhhhcccCChHHHHHHHHHHhc---
Confidence 5667899999988888888777666 789999998 77888888887666 366666665 34444444433332
Q ss_pred cccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcc--cCCcccHHHHH----H-h-ccccccEE
Q psy1090 81 IKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHS--VKNKKSKLSIK----L-T-ALRATFKV 152 (169)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~--~k~~~~~~~~~----~-~-~l~~~~~~ 152 (169)
+...+ ++-|.+.+-.-. .+.+++|+||=|. +|..+.-++-+ + + .....-.+
T Consensus 295 ---------------G~~~v-VIGtRSAlF~Pf-----~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~~~pvv 353 (730)
T COG1198 295 ---------------GEARV-VIGTRSALFLPF-----KNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKENAPVV 353 (730)
T ss_pred ---------------CCceE-EEEechhhcCch-----hhccEEEEeccccccccCCcCCCcCHHHHHHHHHHHhCCCEE
Confidence 66666 888877753322 2568999999994 44443222211 1 1 11233456
Q ss_pred EEeccCCCCC
Q psy1090 153 LLTGWYYPNK 162 (169)
Q Consensus 153 ~lT~TP~~n~ 162 (169)
+=||||--.+
T Consensus 354 LgSATPSLES 363 (730)
T COG1198 354 LGSATPSLES 363 (730)
T ss_pred EecCCCCHHH
Confidence 7799997443
No 101
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.45 E-value=2.4e-06 Score=70.52 Aligned_cols=109 Identities=11% Similarity=-0.001 Sum_probs=66.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-H---HHHHHHHHhCCCceEEEEeCCHH-HHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-N---NWEAEFRKFAPFVRTVKYYGNAI-ERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~---qW~~e~~~~~~~~~~~~~~g~~~-~~~~~~~~~~ 76 (169)
|.|....+|.|||+++...+...... ...++||+|+..+ . +|...+.++. ++.+....|... ..... ..
T Consensus 93 G~Iaem~TGeGKTL~a~lp~~l~al~--G~~v~VvTpt~~LA~qd~e~~~~l~~~l-Gl~v~~i~g~~~~~~~r~--~~- 166 (790)
T PRK09200 93 GNIAEMQTGEGKTLTATMPLYLNALE--GKGVHLITVNDYLAKRDAEEMGQVYEFL-GLTVGLNFSDIDDASEKK--AI- 166 (790)
T ss_pred CceeeecCCCcchHHHHHHHHHHHHc--CCCeEEEeCCHHHHHHHHHHHHHHHhhc-CCeEEEEeCCCCcHHHHH--Hh-
Confidence 56778899999998765443322222 3579999999655 3 3555555565 677777776543 21111 11
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHH-----Hhchh----ccccccccEEEEeCCcccCCcc
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDFG----FLKKITWNCIIVDEGHSVKNKK 136 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~~----~~~~~~~~~vi~DEah~~k~~~ 136 (169)
...|| ++.|+..+ ..... ....-++.++|+||++.+--+.
T Consensus 167 -------------------y~~dI-vygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDe 215 (790)
T PRK09200 167 -------------------YEADI-IYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDE 215 (790)
T ss_pred -------------------cCCCE-EEECCccccchhHHhccccchhhhcccccceEEEeccccceecc
Confidence 34667 88885544 33221 1223467899999999865433
No 102
>KOG0347|consensus
Probab=98.41 E-value=2.6e-06 Score=66.72 Aligned_cols=133 Identities=17% Similarity=0.232 Sum_probs=80.8
Q ss_pred cCCCCCcHHHH-HHHHHHHHHH------------hCCCC-ceEEEecC-cchHHHHHHHHHhC--CCceEEEEeCCHHHH
Q psy1090 6 PDPTRYRKSGK-VIAFFCKIIE------------EQALE-PNLIVCPL-SVLNNWEAEFRKFA--PFVRTVKYYGNAIER 68 (169)
Q Consensus 6 ~de~G~GKT~~-~i~~i~~~~~------------~~~~~-~~Liv~P~-~~l~qW~~e~~~~~--~~~~~~~~~g~~~~~ 68 (169)
+-|+|+|||+. +|-++..+.+ ....+ -.|||+|. .+..|-.+.+...+ +..++....|.-...
T Consensus 225 aAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavq 304 (731)
T KOG0347|consen 225 AAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQ 304 (731)
T ss_pred ccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHH
Confidence 57999999964 3333332111 11112 27999997 77788888887666 467777788865544
Q ss_pred HHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhch----hccccc-cccEEEEeCCcccCCccc--HHHH
Q psy1090 69 KALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF----GFLKKI-TWNCIIVDEGHSVKNKKS--KLSI 141 (169)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~----~~~~~~-~~~~vi~DEah~~k~~~~--~~~~ 141 (169)
.+.+-.. ..++| |++|+..+-..+ -.+.++ +..++|+||+.++-..+. ...+
T Consensus 305 KQqRlL~--------------------~~p~I-VVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRmvekghF~Els~ 363 (731)
T KOG0347|consen 305 KQQRLLN--------------------QRPDI-VVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKGHFEELSK 363 (731)
T ss_pred HHHHHHh--------------------cCCCE-EEecchHHHHHHHhhhhhhhhhhhceEEEEccHHHHhhhccHHHHHH
Confidence 4333322 55666 899877654322 223322 567999999999865442 2233
Q ss_pred HHhccc------cccEEEEeccCC
Q psy1090 142 KLTALR------ATFKVLLTGWYY 159 (169)
Q Consensus 142 ~~~~l~------~~~~~~lT~TP~ 159 (169)
.+..++ -+-.++.|||..
T Consensus 364 lL~~L~e~~~~~qrQTlVFSATlt 387 (731)
T KOG0347|consen 364 LLKHLNEEQKNRQRQTLVFSATLT 387 (731)
T ss_pred HHHHhhhhhcccccceEEEEEEee
Confidence 333332 234688999864
No 103
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.39 E-value=5.9e-06 Score=69.58 Aligned_cols=60 Identities=12% Similarity=0.056 Sum_probs=38.4
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHH-HHH---HhCC-CceEEEEeCC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEA-EFR---KFAP-FVRTVKYYGN 64 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~-e~~---~~~~-~~~~~~~~g~ 64 (169)
+++.-.+|+|||...+.-+..... ..++++|.+|.. +..|+.. ++. +..+ .+++....|.
T Consensus 267 ~~~eA~TG~GKT~ayLlp~~~~~~--~~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~kG~ 332 (850)
T TIGR01407 267 SLIEAPTGTGKTLGYLLPALYYAI--TEKPVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALIKGK 332 (850)
T ss_pred EEEECCCCCchhHHHHHHHHHHhc--CCCeEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEEEcc
Confidence 455679999999887655443332 346899999985 4568754 444 3332 3666666653
No 104
>KOG0343|consensus
Probab=98.38 E-value=2.6e-06 Score=66.74 Aligned_cols=134 Identities=13% Similarity=0.101 Sum_probs=82.5
Q ss_pred cCCCCCcHHHHHH-HHHHHHHHhCCC---C-ceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhc
Q psy1090 6 PDPTRYRKSGKVI-AFFCKIIEEQAL---E-PNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 6 ~de~G~GKT~~~i-~~i~~~~~~~~~---~-~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|--+|+|||+.-+ -++..+.+.+.. + -+||+.|. .+.-|-.+-+.+... ++-.....|..+-......
T Consensus 112 AAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eR---- 187 (758)
T KOG0343|consen 112 AAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELER---- 187 (758)
T ss_pred ccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHHHh----
Confidence 5679999997533 334444443322 2 48999998 555577666665431 3444444554443222221
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchh---ccccccccEEEEeCCcccCCccc--HHHHHHhcc-ccccE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG---FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTAL-RATFK 151 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~---~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l-~~~~~ 151 (169)
....+| +++|+..+....+ .++..+..++|+|||.++-..+- .....+..+ ..+-.
T Consensus 188 -----------------i~~mNI-LVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMGFk~tL~~Ii~~lP~~RQT 249 (758)
T KOG0343|consen 188 -----------------ISQMNI-LVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKRQT 249 (758)
T ss_pred -----------------hhcCCe-EEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHHHhHHHHHHHHHHhCChhhee
Confidence 156677 9999998876554 34455678999999998754332 223334556 45667
Q ss_pred EEEeccCCCC
Q psy1090 152 VLLTGWYYPN 161 (169)
Q Consensus 152 ~~lT~TP~~n 161 (169)
+++|||+..+
T Consensus 250 LLFSATqt~s 259 (758)
T KOG0343|consen 250 LLFSATQTKS 259 (758)
T ss_pred eeeecccchh
Confidence 9999999754
No 105
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.37 E-value=2.8e-06 Score=73.17 Aligned_cols=68 Identities=18% Similarity=0.157 Sum_probs=41.1
Q ss_pred CCCCeEEEecHHHHHhchhc-cccccccEEEEeCCc-ccCCcccHHHHHHhcc----ccccEEEEeccCCCCCchh
Q psy1090 96 LKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGH-SVKNKKSKLSIKLTAL----RATFKVLLTGWYYPNKWSK 165 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah-~~k~~~~~~~~~~~~l----~~~~~~~lT~TP~~n~~~e 165 (169)
....+ ++.|...+.+.... ..-..++.+|+|||| +.-+.+-. ...++.+ +....+++|||.-.+.+.+
T Consensus 162 ~~t~I-~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfL-Lg~Lk~lL~~rpdlKvILmSATid~e~fs~ 235 (1294)
T PRK11131 162 DNTMV-KLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFI-LGYLKELLPRRPDLKVIITSATIDPERFSR 235 (1294)
T ss_pred CCCCE-EEEChHHHHHHHhcCCccccCcEEEecCccccccccchH-HHHHHHhhhcCCCceEEEeeCCCCHHHHHH
Confidence 44566 88898888765431 112478999999999 45443322 2223322 2346799999985444333
No 106
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.37 E-value=8.3e-06 Score=66.10 Aligned_cols=61 Identities=7% Similarity=-0.180 Sum_probs=39.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HH---HHHHHHHhCCCceEEEEeCCH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NN---WEAEFRKFAPFVRTVKYYGNA 65 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~q---W~~e~~~~~~~~~~~~~~g~~ 65 (169)
|.|....+|.|||+++...+...... ...++||+|+.-+ .| |...+.++. ++.+....|..
T Consensus 118 G~Iae~~TGeGKTla~~lp~~~~al~--G~~v~VvTptreLA~qdae~~~~l~~~l-Glsv~~i~gg~ 182 (656)
T PRK12898 118 GRLAEMQTGEGKTLTATLPAGTAALA--GLPVHVITVNDYLAERDAELMRPLYEAL-GLTVGCVVEDQ 182 (656)
T ss_pred CCeeeeeCCCCcHHHHHHHHHHHhhc--CCeEEEEcCcHHHHHHHHHHHHHHHhhc-CCEEEEEeCCC
Confidence 55677899999998865444333322 3579999998544 44 444454554 67777776653
No 107
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.36 E-value=1.6e-06 Score=61.61 Aligned_cols=49 Identities=18% Similarity=0.342 Sum_probs=34.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH------HhCCCCceEEEecC-cchHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII------EEQALEPNLIVCPL-SVLNNWEAEFRK 51 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~------~~~~~~~~Liv~P~-~~l~qW~~e~~~ 51 (169)
.++...+|+|||.+..+++..+. .....+++||++|+ ..+++-.+.+.+
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred EEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 45677899999988888777762 24556799999998 456677767665
No 108
>KOG0348|consensus
Probab=98.35 E-value=3.3e-06 Score=65.90 Aligned_cols=133 Identities=11% Similarity=0.136 Sum_probs=81.8
Q ss_pred ccccCCCCCcHHHHHHHHHH-HHHHh-----CCCC-ceEEEecC-cchHHHHHHHHHhCCCceEEE----EeCCHHH--H
Q psy1090 3 TVIPDPTRYRKSGKVIAFFC-KIIEE-----QALE-PNLIVCPL-SVLNNWEAEFRKFAPFVRTVK----YYGNAIE--R 68 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~-~~~~~-----~~~~-~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~----~~g~~~~--~ 68 (169)
+++-..+|+|||+..+.-+. .+... +..+ -+||++|. .+..|-++-+++....+..++ ..|.++. +
T Consensus 177 ~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEK 256 (708)
T KOG0348|consen 177 ALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEK 256 (708)
T ss_pred eEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccHH
Confidence 45667899999987665443 33321 1123 36999997 777888888887763333222 3343332 2
Q ss_pred HHHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhcccc---ccccEEEEeCCcccCC-----cccHHH
Q psy1090 69 KALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKK---ITWNCIIVDEGHSVKN-----KKSKLS 140 (169)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~---~~~~~vi~DEah~~k~-----~~~~~~ 140 (169)
..++ ...+| +|.|+..+......-.. ....++|+||+.++-. .-++..
T Consensus 257 ARLR-----------------------KGiNI-LIgTPGRLvDHLknT~~i~~s~LRwlVlDEaDrlleLGfekdit~Il 312 (708)
T KOG0348|consen 257 ARLR-----------------------KGINI-LIGTPGRLVDHLKNTKSIKFSRLRWLVLDEADRLLELGFEKDITQIL 312 (708)
T ss_pred HHHh-----------------------cCceE-EEcCchHHHHHHhccchheeeeeeEEEecchhHHHhccchhhHHHHH
Confidence 2222 66677 99999998876543333 3456899999998654 224444
Q ss_pred HHHhcc---cc--------ccEEEEeccCC
Q psy1090 141 IKLTAL---RA--------TFKVLLTGWYY 159 (169)
Q Consensus 141 ~~~~~l---~~--------~~~~~lT~TP~ 159 (169)
+++... .+ .-++++|||..
T Consensus 313 ~~v~~~~~~e~~~~~lp~q~q~mLlSATLt 342 (708)
T KOG0348|consen 313 KAVHSIQNAECKDPKLPHQLQNMLLSATLT 342 (708)
T ss_pred HHHhhccchhcccccccHHHHhHhhhhhhH
Confidence 455332 11 33688999975
No 109
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.35 E-value=4e-06 Score=69.61 Aligned_cols=107 Identities=15% Similarity=0.071 Sum_probs=63.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHH---HHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNN---WEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~q---W~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|-|-...+|.|||+++..-+......+ ..++||+|+. +..| |...+-++. ++.+....|..........
T Consensus 97 G~Iaem~TGeGKTL~a~Lpa~~~al~G--~~V~VvTpn~yLA~qd~e~m~~l~~~l-GLtv~~i~gg~~~~~r~~~---- 169 (896)
T PRK13104 97 GNIAEMRTGEGKTLVATLPAYLNAISG--RGVHIVTVNDYLAKRDSQWMKPIYEFL-GLTVGVIYPDMSHKEKQEA---- 169 (896)
T ss_pred CccccccCCCCchHHHHHHHHHHHhcC--CCEEEEcCCHHHHHHHHHHHHHHhccc-CceEEEEeCCCCHHHHHHH----
Confidence 456678899999987654433222223 4699999985 4434 555555555 5777777665332222111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-----Hhchhc----cccccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDFGF----LKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~~~----~~~~~~~~vi~DEah~~k~ 134 (169)
...|| ++.|...+ +..... .-.-++.++|+||++.+--
T Consensus 170 ------------------y~~dI-vygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLI 216 (896)
T PRK13104 170 ------------------YKADI-VYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILI 216 (896)
T ss_pred ------------------hCCCE-EEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhh
Confidence 33566 88887765 222111 1124788999999997644
No 110
>KOG4284|consensus
Probab=98.33 E-value=8.1e-07 Score=70.74 Aligned_cols=138 Identities=17% Similarity=0.210 Sum_probs=90.3
Q ss_pred CccccCCCCCcHHHHH-HHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC---CceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKV-IAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP---FVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~-i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~---~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
.-|+..-.|+|||+.- +..+..+..+...-..+||+|. .+--|-.+-+...+| ++++.+|.|.......+...
T Consensus 64 DliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rl-- 141 (980)
T KOG4284|consen 64 DLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRL-- 141 (980)
T ss_pred ceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCcceEEEecCchhhhhhhhh--
Confidence 4466778899999642 1222233223333358999997 455577777776664 78888888865544333322
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCcccH---HHHHHhcc-cccc
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNKKSK---LSIKLTAL-RATF 150 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~~~~---~~~~~~~l-~~~~ 150 (169)
....| +|-|+..+...+ +.+.-...+++|+|||..+-...+. ....+..+ ..+-
T Consensus 142 -------------------k~~rI-vIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~~rQ 201 (980)
T KOG4284|consen 142 -------------------KQTRI-VIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQ 201 (980)
T ss_pred -------------------hhceE-EecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcchhhe
Confidence 34445 999998887644 3455567889999999988653332 34555666 4566
Q ss_pred EEEEeccCCCC
Q psy1090 151 KVLLTGWYYPN 161 (169)
Q Consensus 151 ~~~lT~TP~~n 161 (169)
.++.|||-.+|
T Consensus 202 v~a~SATYp~n 212 (980)
T KOG4284|consen 202 VAAFSATYPRN 212 (980)
T ss_pred eeEEeccCchh
Confidence 88999998766
No 111
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.33 E-value=2e-06 Score=67.81 Aligned_cols=136 Identities=14% Similarity=0.103 Sum_probs=80.2
Q ss_pred cccCCCCCcHHHHH-HHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 4 VIPDPTRYRKSGKV-IAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 4 iL~de~G~GKT~~~-i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+....+++|||+.+ +|=+.... +..+++|+++|. .+.+|=+++|.+-+. ++++.+--|....+..-.
T Consensus 236 lVVSaTasGKTLIgElAGi~~~l--~~g~KmlfLvPLVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~------- 306 (830)
T COG1202 236 LVVSATASGKTLIGELAGIPRLL--SGGKKMLFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREE------- 306 (830)
T ss_pred EEEeccCCCcchHHHhhCcHHHH--hCCCeEEEEehhHHhhcchHHHHHHHhhcccceEEEEechhhhcccCC-------
Confidence 34567899999764 22233322 334799999997 666787888865443 445555556554432211
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc-cccccccEEEEeCCcccCCc--ccHHHHHH---hcc-ccccEE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGHSVKNK--KSKLSIKL---TAL-RATFKV 152 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah~~k~~--~~~~~~~~---~~l-~~~~~~ 152 (169)
+.........|| ++-||+-+.-.... -.--+.+.||+||.|.+... +...--.+ +.+ .....+
T Consensus 307 ---------pv~~~t~~dADI-IVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~deERG~RLdGLI~RLr~l~~~AQ~i 376 (830)
T COG1202 307 ---------PVVVDTSPDADI-IVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRLRYLFPGAQFI 376 (830)
T ss_pred ---------ccccCCCCCCcE-EEeechhHHHHHHcCCcccccceEEeeeeeeccchhcccchhhHHHHHHHhCCCCeEE
Confidence 111222377788 99999876422211 11236789999999998752 22222222 333 345678
Q ss_pred EEeccC
Q psy1090 153 LLTGWY 158 (169)
Q Consensus 153 ~lT~TP 158 (169)
.||||-
T Consensus 377 ~LSATV 382 (830)
T COG1202 377 YLSATV 382 (830)
T ss_pred EEEeec
Confidence 999994
No 112
>KOG0353|consensus
Probab=98.32 E-value=3.3e-06 Score=63.57 Aligned_cols=142 Identities=18% Similarity=0.156 Sum_probs=85.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
++|...+|-||++..- +..-...+-+|||||. ++++...-.++...-+...+.-..++++........-+.
T Consensus 112 ~~lil~tgggkslcyq-----lpal~adg~alvi~plislmedqil~lkqlgi~as~lnansske~~k~v~~~i~nk--- 183 (695)
T KOG0353|consen 112 AFLILPTGGGKSLCYQ-----LPALCADGFALVICPLISLMEDQILQLKQLGIDASMLNANSSKEEAKRVEAAITNK--- 183 (695)
T ss_pred eEEEEeCCCccchhhh-----hhHHhcCCceEeechhHHHHHHHHHHHHHhCcchhhccCcccHHHHHHHHHHHcCC---
Confidence 5678899999996431 1111234679999997 666655555665543333333334444444444333322
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhchhccc-------cccccEEEEeCCcccCCcc-------cHHHHHHhccc
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLK-------KITWNCIIVDEGHSVKNKK-------SKLSIKLTALR 147 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~-------~~~~~~vi~DEah~~k~~~-------~~~~~~~~~l~ 147 (169)
...+.. +-.|++.+.+...++. .--|.++-+||+|+-.... ......-+.++
T Consensus 184 -------------dse~kl-iyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l~ilkrqf~ 249 (695)
T KOG0353|consen 184 -------------DSEFKL-IYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFK 249 (695)
T ss_pred -------------CceeEE-EEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccCcchHHHHHHHHhCC
Confidence 156666 6677777765443332 3356789999999754422 22223334667
Q ss_pred cccEEEEeccCCCCCchhh
Q psy1090 148 ATFKVLLTGWYYPNKWSKQ 166 (169)
Q Consensus 148 ~~~~~~lT~TP~~n~~~el 166 (169)
..-.++||||...+-+.|.
T Consensus 250 ~~~iigltatatn~vl~d~ 268 (695)
T KOG0353|consen 250 GAPIIGLTATATNHVLDDA 268 (695)
T ss_pred CCceeeeehhhhcchhhHH
Confidence 7889999999988877664
No 113
>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=98.28 E-value=4.2e-06 Score=63.65 Aligned_cols=43 Identities=14% Similarity=0.084 Sum_probs=31.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWE 46 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~ 46 (169)
++.-..|+|||+.++.++..+.........+++|++..+.+..
T Consensus 5 ~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l 47 (352)
T PF09848_consen 5 LITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKL 47 (352)
T ss_pred EEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHH
Confidence 4566799999999999887773344456788888887665433
No 114
>PRK10536 hypothetical protein; Provisional
Probab=98.24 E-value=8.4e-06 Score=58.84 Aligned_cols=55 Identities=16% Similarity=0.237 Sum_probs=39.6
Q ss_pred EEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCc
Q psy1090 102 LVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKW 163 (169)
Q Consensus 102 ~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~ 163 (169)
-+.+...++.. .++-+++|+||||++.- ......+.++....+++++|=|-|.+.
T Consensus 163 ei~~l~ymRGr-----tl~~~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 163 EIAPFAYMRGR-----TFENAVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred EEecHHHhcCC-----cccCCEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 56665555432 23557999999999853 455566678888999999999887654
No 115
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.23 E-value=8.3e-06 Score=67.76 Aligned_cols=107 Identities=11% Similarity=-0.044 Sum_probs=64.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH----HHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN----NWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~----qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.|.-+.+|.|||+++...+.... -..+.+-||+|+..+. +|...+-+|. ++.+....+..........
T Consensus 97 G~iaEM~TGEGKTLvA~l~a~l~a--l~G~~VhvvT~ndyLA~RD~e~m~~l~~~l-Gl~v~~i~~~~~~~err~~---- 169 (913)
T PRK13103 97 GKIAEMRTGEGKTLVGTLAVYLNA--LSGKGVHVVTVNDYLARRDANWMRPLYEFL-GLSVGIVTPFQPPEEKRAA---- 169 (913)
T ss_pred CccccccCCCCChHHHHHHHHHHH--HcCCCEEEEeCCHHHHHHHHHHHHHHhccc-CCEEEEECCCCCHHHHHHH----
Confidence 567778899999987543322222 2236788999987663 4555555555 6777777665333221111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-----Hhchh----ccccccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDFG----FLKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~~----~~~~~~~~~vi~DEah~~k~ 134 (169)
-..|| +..|...+ +.+.. ..-..+++++|+||+|.+--
T Consensus 170 ------------------Y~~dI-~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDsiLI 216 (913)
T PRK13103 170 ------------------YAADI-TYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDSILI 216 (913)
T ss_pred ------------------hcCCE-EEEcccccccchhhccceechhhhcccccceeEechhhheec
Confidence 33566 66666554 33322 12235788999999998644
No 116
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.22 E-value=1.2e-05 Score=59.47 Aligned_cols=50 Identities=12% Similarity=0.133 Sum_probs=31.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCC----CceEEEecCc-chHHHHHHHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQAL----EPNLIVCPLS-VLNNWEAEFRKF 52 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~----~~~Liv~P~~-~l~qW~~e~~~~ 52 (169)
+++...+|+|||+..+..+......... .+++++++.. .+.|-..++++.
T Consensus 30 ~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 30 GILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred EEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 5677889999999887665433333222 2677777764 334555556543
No 117
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.22 E-value=1.2e-05 Score=59.47 Aligned_cols=50 Identities=12% Similarity=0.133 Sum_probs=31.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCC----CceEEEecCc-chHHHHHHHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQAL----EPNLIVCPLS-VLNNWEAEFRKF 52 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~----~~~Liv~P~~-~l~qW~~e~~~~ 52 (169)
+++...+|+|||+..+..+......... .+++++++.. .+.|-..++++.
T Consensus 30 ~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 30 GILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred EEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 5677889999999887665433333222 2677777764 334555556543
No 118
>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=98.19 E-value=2.2e-06 Score=60.02 Aligned_cols=138 Identities=16% Similarity=0.145 Sum_probs=56.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKV 83 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 83 (169)
++.-..|+|||+.+++.......++...+++++-|.--..+ + .-|.|+-.--.+..- .....+.......
T Consensus 23 ~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~---~-lGflpG~~~eK~~p~--~~p~~d~l~~~~~---- 92 (205)
T PF02562_consen 23 IVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGE---D-LGFLPGDLEEKMEPY--LRPIYDALEELFG---- 92 (205)
T ss_dssp EEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT--------SS---------TT--THHHHHHHTTTS-----
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCcc---c-cccCCCCHHHHHHHH--HHHHHHHHHHHhC----
Confidence 34567899999999999888777777778888877643221 1 112221100000000 0000111000000
Q ss_pred ccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCc
Q psy1090 84 PAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKW 163 (169)
Q Consensus 84 ~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~ 163 (169)
............+ -+.+.+.++. +.++..++|+||||.+. ....-..+.++....+++++|=|.|.+.
T Consensus 93 ----~~~~~~~~~~~~I-e~~~~~~iRG-----rt~~~~~iIvDEaQN~t--~~~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 93 ----KEKLEELIQNGKI-EIEPLAFIRG-----RTFDNAFIIVDEAQNLT--PEELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp ----TTCHHHHHHTTSE-EEEEGGGGTT-------B-SEEEEE-SGGG----HHHHHHHHTTB-TT-EEEEEE-------
T ss_pred ----hHhHHHHhhcCeE-EEEehhhhcC-----ccccceEEEEecccCCC--HHHHHHHHcccCCCcEEEEecCceeecC
Confidence 0000000012222 4444433332 12455799999999974 2344455667788899999998887654
No 119
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.19 E-value=1.9e-06 Score=55.95 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=26.2
Q ss_pred cEEEEeCCcccCCcccHHHHHHhcc--ccccEEEEeccC
Q psy1090 122 NCIIVDEGHSVKNKKSKLSIKLTAL--RATFKVLLTGWY 158 (169)
Q Consensus 122 ~~vi~DEah~~k~~~~~~~~~~~~l--~~~~~~~lT~TP 158 (169)
.++|+||+|++. +......++.+ .....+++.|||
T Consensus 89 ~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 789999999983 23344455444 677899999999
No 120
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.17 E-value=1.2e-05 Score=67.77 Aligned_cols=127 Identities=16% Similarity=0.104 Sum_probs=76.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCc--eEEEEeCCHHHHHHHHHhhhcC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFV--RTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~--~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
+.+.+-.+|+|||+.+--++......+ .+++-..|- .+-+|=+++|..-+.+. -+..++|+...
T Consensus 136 sVlV~ApTssGKTvVaeyAi~~al~~~--qrviYTsPIKALsNQKyrdl~~~fgdv~~~vGL~TGDv~I----------- 202 (1041)
T COG4581 136 SVLVCAPTSSGKTVVAEYAIALALRDG--QRVIYTSPIKALSNQKYRDLLAKFGDVADMVGLMTGDVSI----------- 202 (1041)
T ss_pred cEEEEccCCCCcchHHHHHHHHHHHcC--CceEeccchhhhhhhHHHHHHHHhhhhhhhccceecceee-----------
Confidence 356788899999988866665544444 458888896 66667666664332221 23445554332
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhc--hhccccccccEEEEeCCcccCCcc-cHHH-HHHhcc-ccccEEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND--FGFLKKITWNCIIVDEGHSVKNKK-SKLS-IKLTAL-RATFKVL 153 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~--~~~~~~~~~~~vi~DEah~~k~~~-~~~~-~~~~~l-~~~~~~~ 153 (169)
.....+ ++.|-+.+++- .+.....+...||+||.|++.... .-.+ ..+..+ +...-++
T Consensus 203 ----------------N~~A~c-lvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~ 265 (1041)
T COG4581 203 ----------------NPDAPC-LVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVF 265 (1041)
T ss_pred ----------------CCCCce-EEeeHHHHHHHhccCcccccccceEEEEeeeeccccccchhHHHHHHhcCCCCcEEE
Confidence 155555 55554777642 111222356789999999987633 2223 334444 3447899
Q ss_pred EeccC
Q psy1090 154 LTGWY 158 (169)
Q Consensus 154 lT~TP 158 (169)
||||=
T Consensus 266 LSATv 270 (1041)
T COG4581 266 LSATV 270 (1041)
T ss_pred EeCCC
Confidence 99994
No 121
>KOG1802|consensus
Probab=98.15 E-value=3.6e-06 Score=67.28 Aligned_cols=60 Identities=13% Similarity=0.266 Sum_probs=45.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc-hHHHHHHHHHhCCCceEEEEeCCHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV-LNNWEAEFRKFAPFVRTVKYYGNAI 66 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~-l~qW~~e~~~~~~~~~~~~~~g~~~ 66 (169)
+|...+|+|||++.-+++-.+.+. ..+|+|+++|+.+ ++|-.+.+.+- +++++.....++
T Consensus 429 LIQGPPGTGKTvtsa~IVyhl~~~-~~~~VLvcApSNiAVDqLaeKIh~t--gLKVvRl~aksR 489 (935)
T KOG1802|consen 429 LIQGPPGTGKTVTSATIVYHLARQ-HAGPVLVCAPSNIAVDQLAEKIHKT--GLKVVRLCAKSR 489 (935)
T ss_pred eeecCCCCCceehhHHHHHHHHHh-cCCceEEEcccchhHHHHHHHHHhc--CceEeeeehhhh
Confidence 678899999999987776665554 5789999999865 67888878765 578877665433
No 122
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.15 E-value=2.4e-05 Score=65.30 Aligned_cols=107 Identities=11% Similarity=0.012 Sum_probs=62.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chH---HHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLN---NWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~---qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.+....+|+|||+.++.-+......+ .+++||+|+. +.. +|...+.++. ++.+....|..........
T Consensus 109 gvIAeaqTGeGKTLAf~LP~l~~aL~g--~~v~IVTpTrELA~Qdae~m~~L~k~l-GLsV~~i~GG~~~~eq~~~---- 181 (970)
T PRK12899 109 GFITEMQTGEGKTLTAVMPLYLNALTG--KPVHLVTVNDYLAQRDCEWVGSVLRWL-GLTTGVLVSGSPLEKRKEI---- 181 (970)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHhhc--CCeEEEeCCHHHHHHHHHHHHHHHhhc-CCeEEEEeCCCCHHHHHHH----
Confidence 456678999999988654433222222 3588889974 443 4666666665 5777666654333322211
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-H----hchhccc-----cccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-E----NDFGFLK-----KITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-~----~~~~~~~-----~~~~~~vi~DEah~~k~ 134 (169)
-.+|| ++.|+..+ - +..-.+. .-.+.++|+|||..+--
T Consensus 182 ------------------y~~DI-VygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsmLi 229 (970)
T PRK12899 182 ------------------YQCDV-VYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSILI 229 (970)
T ss_pred ------------------cCCCE-EEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhhhh
Confidence 23566 88887666 2 1111111 23577999999987543
No 123
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.15 E-value=2e-06 Score=71.18 Aligned_cols=151 Identities=21% Similarity=0.271 Sum_probs=78.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhC--CCCceEEEecC-cchHHHHHHHHHhCCCceEEEE--eCCHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQ--ALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKY--YGNAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~--~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~--~g~~~~~~~~~~~~~~ 77 (169)
.+|..++|.|||..++....+..... ...+.+.+.|- +++++-.+.+.++.....+... ++.....-........
T Consensus 217 ~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~ 296 (733)
T COG1203 217 VVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFSVIGKSLHSSSKEPLLLEPDQDI 296 (733)
T ss_pred EEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccccccccccccccchhhhcccccc
Confidence 46889999999998888877766653 45678888886 5566778888877643333322 4443332211111100
Q ss_pred -CCCcccccccCCccccccCCCCeEEEecHHHHHhc-----hhccccccccEEEEeCCcccCCcc-cHHHHHH-hcc--c
Q psy1090 78 -LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEND-----FGFLKKITWNCIIVDEGHSVKNKK-SKLSIKL-TAL--R 147 (169)
Q Consensus 78 -~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~-----~~~~~~~~~~~vi~DEah~~k~~~-~~~~~~~-~~l--~ 147 (169)
......++.. ......++.++.+.+... ...+..+....+|+||+|.+.... .....++ ..+ .
T Consensus 297 ~~~~~~~ds~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~~~~~l~~~i~~l~~~ 369 (733)
T COG1203 297 LLTLTTNDSYK-------KLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADETMLAALLALLEALAEA 369 (733)
T ss_pred ceeEEeccccc-------ceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcccchHHHHHHHHHHHHhC
Confidence 0000000000 011111122333332210 111223456799999999887552 2222222 222 3
Q ss_pred cccEEEEeccCCC
Q psy1090 148 ATFKVLLTGWYYP 160 (169)
Q Consensus 148 ~~~~~~lT~TP~~ 160 (169)
-...++||||+.+
T Consensus 370 g~~ill~SATlP~ 382 (733)
T COG1203 370 GVPVLLMSATLPP 382 (733)
T ss_pred CCCEEEEecCCCH
Confidence 4668999999974
No 124
>KOG0346|consensus
Probab=98.14 E-value=1.3e-05 Score=61.34 Aligned_cols=131 Identities=15% Similarity=0.099 Sum_probs=74.6
Q ss_pred CCCCcHHHHH-HHHHHHHHHhCCC-----C-ceEEEecC-cchHHHHHHHHHhC---C-CceEEEEeCCHHHHHHHHHhh
Q psy1090 8 PTRYRKSGKV-IAFFCKIIEEQAL-----E-PNLIVCPL-SVLNNWEAEFRKFA---P-FVRTVKYYGNAIERKALQSEA 75 (169)
Q Consensus 8 e~G~GKT~~~-i~~i~~~~~~~~~-----~-~~Liv~P~-~~l~qW~~e~~~~~---~-~~~~~~~~g~~~~~~~~~~~~ 75 (169)
-+|+|||... |-++..+...... + ..+|++|. .+.+|-+..+.+.. + .++++-...+..+.... ..
T Consensus 64 rTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~--~~ 141 (569)
T KOG0346|consen 64 RTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNS--VA 141 (569)
T ss_pred ccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHH--HH
Confidence 4899999764 3445555443221 2 57999997 78888887776543 2 34444333222221111 11
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc---cccccccEEEEeCCcccCCcccH-H-HHHHhccc-cc
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF---LKKITWNCIIVDEGHSVKNKKSK-L-SIKLTALR-AT 149 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~---~~~~~~~~vi~DEah~~k~~~~~-~-~~~~~~l~-~~ 149 (169)
.. ..++| +++|+..+.+.... ...-...++|+|||.-+-..+-. - .+....++ .-
T Consensus 142 L~------------------d~pdI-vV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADLllsfGYeedlk~l~~~LPr~~ 202 (569)
T KOG0346|consen 142 LM------------------DLPDI-VVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLSFGYEEDLKKLRSHLPRIY 202 (569)
T ss_pred Hc------------------cCCCe-EEeChHHHHHHHhhccchhhhheeeEEechhhhhhhcccHHHHHHHHHhCCchh
Confidence 11 66777 99999988765432 11224578999999976543321 1 22223343 23
Q ss_pred cEEEEeccCC
Q psy1090 150 FKVLLTGWYY 159 (169)
Q Consensus 150 ~~~~lT~TP~ 159 (169)
-.++||||.-
T Consensus 203 Q~~LmSATl~ 212 (569)
T KOG0346|consen 203 QCFLMSATLS 212 (569)
T ss_pred hheeehhhhh
Confidence 3688899864
No 125
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.14 E-value=2.1e-05 Score=65.25 Aligned_cols=107 Identities=12% Similarity=-0.030 Sum_probs=63.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HH---HHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NN---WEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~q---W~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.|....+|.|||+++...+......+ +.+-||+|+..+ .| |...+-++. ++.+....|..........
T Consensus 96 G~Iaem~TGeGKTLva~lpa~l~aL~G--~~V~IvTpn~yLA~rd~e~~~~l~~~L-Glsv~~i~~~~~~~er~~~---- 168 (830)
T PRK12904 96 GKIAEMKTGEGKTLVATLPAYLNALTG--KGVHVVTVNDYLAKRDAEWMGPLYEFL-GLSVGVILSGMSPEERREA---- 168 (830)
T ss_pred CchhhhhcCCCcHHHHHHHHHHHHHcC--CCEEEEecCHHHHHHHHHHHHHHHhhc-CCeEEEEcCCCCHHHHHHh----
Confidence 667788999999987654332222223 357799998655 33 555555554 6777777764333322221
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHh-----ch----hccccccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIEN-----DF----GFLKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~-----~~----~~~~~~~~~~vi~DEah~~k~ 134 (169)
-..|| ++.|...+.- .. +.....++.++|+||+..+--
T Consensus 169 ------------------y~~dI-~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLI 215 (830)
T PRK12904 169 ------------------YAADI-TYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILI 215 (830)
T ss_pred ------------------cCCCe-EEECCcchhhhhhhcccccchhhhcccccceEEEechhhhee
Confidence 22566 7777666522 11 112234678999999987544
No 126
>KOG1803|consensus
Probab=98.13 E-value=6.3e-06 Score=65.17 Aligned_cols=44 Identities=16% Similarity=0.414 Sum_probs=35.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc-hHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV-LNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~-l~qW~~e~ 49 (169)
++-..+|+|||.+...+|+.+...+ +++||++|+++ +++-.+.+
T Consensus 205 ~I~GPPGTGKT~TlvEiI~qlvk~~--k~VLVcaPSn~AVdNiverl 249 (649)
T KOG1803|consen 205 IIHGPPGTGKTRTLVEIISQLVKQK--KRVLVCAPSNVAVDNIVERL 249 (649)
T ss_pred EeeCCCCCCceeeHHHHHHHHHHcC--CeEEEEcCchHHHHHHHHHh
Confidence 4567899999999999988877666 88999999864 66766643
No 127
>KOG0951|consensus
Probab=98.02 E-value=1.4e-05 Score=67.93 Aligned_cols=132 Identities=14% Similarity=0.129 Sum_probs=78.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCC---------CCceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQA---------LEPNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKAL 71 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~---------~~~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~ 71 (169)
.|+-.+|+|||-.|+..+......+. ..+..-++|. .+++.|...|.++.. +..+.-.+|...-....
T Consensus 329 LlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~q 408 (1674)
T KOG0951|consen 329 LLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQ 408 (1674)
T ss_pred EEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccchhhh
Confidence 57778999999877655443333221 1267888995 788899999988875 44555566664422211
Q ss_pred HHhhhcCCCcccccccCCccccccCCCCeEEEecHHHH---Hhchhc-cccccccEEEEeCCccc---CCcccH--HHHH
Q psy1090 72 QSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQII---ENDFGF-LKKITWNCIIVDEGHSV---KNKKSK--LSIK 142 (169)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~---~~~~~~-~~~~~~~~vi~DEah~~---k~~~~~--~~~~ 142 (169)
. ...++ +++|++.. .+.... --..-++++|+||.|.+ +++.-. ..+.
T Consensus 409 i-----------------------eeTqV-IV~TPEK~DiITRk~gdraY~qlvrLlIIDEIHLLhDdRGpvLESIVaRt 464 (1674)
T KOG0951|consen 409 I-----------------------EETQV-IVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHLLHDDRGPVLESIVART 464 (1674)
T ss_pred h-----------------------hccee-EEeccchhhhhhcccCchhHHHHHHHHhhhhhhhcccccchHHHHHHHHH
Confidence 1 44555 77776553 332211 11224678999999988 433221 1122
Q ss_pred Hhcc----ccccEEEEeccCC
Q psy1090 143 LTAL----RATFKVLLTGWYY 159 (169)
Q Consensus 143 ~~~l----~~~~~~~lT~TP~ 159 (169)
++.. ...+.++||||..
T Consensus 465 ~r~ses~~e~~RlVGLSATLP 485 (1674)
T KOG0951|consen 465 FRRSESTEEGSRLVGLSATLP 485 (1674)
T ss_pred HHHhhhcccCceeeeecccCC
Confidence 2222 2456799999975
No 128
>KOG0339|consensus
Probab=98.02 E-value=9.3e-05 Score=57.84 Aligned_cols=131 Identities=16% Similarity=0.215 Sum_probs=75.5
Q ss_pred CCCCcHHHHHH-HHHHHHHHh----CCCCce-EEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 8 PTRYRKSGKVI-AFFCKIIEE----QALEPN-LIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 8 e~G~GKT~~~i-~~i~~~~~~----~~~~~~-Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
-+|+|||-..+ -.+..++++ ...+|+ ||+||. .+..|-..|..+|.. +++++..+|....-.+.....
T Consensus 268 ktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk--- 344 (731)
T KOG0339|consen 268 KTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK--- 344 (731)
T ss_pred eccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhh---
Confidence 46889984322 223333332 134565 777897 677799999999863 677766665433322222211
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCccc--HHHHHHhcccc-ccEEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTALRA-TFKVL 153 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l~~-~~~~~ 153 (169)
....+ +++|++.+..-.. ...-....++|+||+.++-...- +.-.....++. +..++
T Consensus 345 -----------------~g~Ei-vVaTPgRlid~VkmKatn~~rvS~LV~DEadrmfdmGfe~qVrSI~~hirpdrQtll 406 (731)
T KOG0339|consen 345 -----------------EGAEI-VVATPGRLIDMVKMKATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPDRQTLL 406 (731)
T ss_pred -----------------cCCeE-EEechHHHHHHHHhhcccceeeeEEEEechhhhhccccHHHHHHHHhhcCCcceEEE
Confidence 34455 9999988765332 22234567999999998754321 11112223443 44688
Q ss_pred EeccCC
Q psy1090 154 LTGWYY 159 (169)
Q Consensus 154 lT~TP~ 159 (169)
+|||.-
T Consensus 407 FsaTf~ 412 (731)
T KOG0339|consen 407 FSATFK 412 (731)
T ss_pred eeccch
Confidence 888864
No 129
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.98 E-value=5.4e-05 Score=61.81 Aligned_cols=62 Identities=10% Similarity=-0.089 Sum_probs=41.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH----HHHHHHHHhCCCceEEEEeCCHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN----NWEAEFRKFAPFVRTVKYYGNAI 66 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~----qW~~e~~~~~~~~~~~~~~g~~~ 66 (169)
|.|.-+.+|.|||+++...+...... .+.+-||+|+..+. +|...+-+|. ++.+....+...
T Consensus 93 G~VaEM~TGEGKTLvA~l~a~l~AL~--G~~VhvvT~NdyLA~RDae~m~~ly~~L-GLsvg~i~~~~~ 158 (764)
T PRK12326 93 GDVIEMATGEGKTLAGAIAAAGYALQ--GRRVHVITVNDYLARRDAEWMGPLYEAL-GLTVGWITEEST 158 (764)
T ss_pred CCcccccCCCCHHHHHHHHHHHHHHc--CCCeEEEcCCHHHHHHHHHHHHHHHHhc-CCEEEEECCCCC
Confidence 56677888999998876544333333 36789999987663 4666666666 677777766443
No 130
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=97.94 E-value=6e-05 Score=62.80 Aligned_cols=109 Identities=7% Similarity=-0.075 Sum_probs=65.0
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch----HHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL----NNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l----~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.|....+|.|||+++...+..... ....+.||+|+.-+ .+|...+-+|. ++.+....+.........
T Consensus 97 G~IaEm~TGEGKTL~a~lp~~l~al--~g~~VhIvT~ndyLA~RD~e~m~~l~~~l-Glsv~~i~~~~~~~~r~~----- 168 (908)
T PRK13107 97 NRIAEMRTGEGKTLTATLPAYLNAL--TGKGVHVITVNDYLARRDAENNRPLFEFL-GLTVGINVAGLGQQEKKA----- 168 (908)
T ss_pred CccccccCCCCchHHHHHHHHHHHh--cCCCEEEEeCCHHHHHHHHHHHHHHHHhc-CCeEEEecCCCCHHHHHh-----
Confidence 5567788999999876433322222 23458999998544 26888888887 777776655433211111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-----Hhch----hccccccccEEEEeCCcccCCcc
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDF----GFLKKITWNCIIVDEGHSVKNKK 136 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~----~~~~~~~~~~vi~DEah~~k~~~ 136 (169)
.-.+|| +..|...+ +... +..-..++.++|+||+..+-.+.
T Consensus 169 -----------------~Y~~dI-~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsiLiDE 218 (908)
T PRK13107 169 -----------------AYNADI-TYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSILIDE 218 (908)
T ss_pred -----------------cCCCCe-EEeCCCcccchhhhccCccchhhhhccccceeeecchhhhcccc
Confidence 135677 66664443 2221 11223578899999999765543
No 131
>PRK04296 thymidine kinase; Provisional
Probab=97.93 E-value=3.6e-05 Score=53.55 Aligned_cols=33 Identities=18% Similarity=0.066 Sum_probs=24.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
++.-+||.|||..++.++...... ..+++++-|
T Consensus 6 litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~k~ 38 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYNYEER--GMKVLVFKP 38 (190)
T ss_pred EEECCCCCHHHHHHHHHHHHHHHc--CCeEEEEec
Confidence 566789999999998887765543 356777755
No 132
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.91 E-value=7.3e-05 Score=61.84 Aligned_cols=61 Identities=8% Similarity=-0.147 Sum_probs=41.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH----HHHHHHHHhCCCceEEEEeCCH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN----NWEAEFRKFAPFVRTVKYYGNA 65 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~----qW~~e~~~~~~~~~~~~~~g~~ 65 (169)
|.|.-..+|.|||+++...+...... ...+-||+|+..+. +|...+-++. ++.+....+..
T Consensus 95 G~iaEm~TGEGKTLvA~l~a~l~al~--G~~v~vvT~neyLA~Rd~e~~~~~~~~L-Gl~vg~i~~~~ 159 (796)
T PRK12906 95 GNIAEMKTGEGKTLTATLPVYLNALT--GKGVHVVTVNEYLSSRDATEMGELYRWL-GLTVGLNLNSM 159 (796)
T ss_pred CCcccccCCCCCcHHHHHHHHHHHHc--CCCeEEEeccHHHHHhhHHHHHHHHHhc-CCeEEEeCCCC
Confidence 66778899999998865443333333 36788999987663 4666666665 67777777643
No 133
>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=97.90 E-value=5.7e-05 Score=65.49 Aligned_cols=71 Identities=17% Similarity=0.127 Sum_probs=40.3
Q ss_pred CCCCeEEEecHHHHHhchhc-cccccccEEEEeCCc-ccCCcccHH--HHHHh-ccccccEEEEeccCCCCCchhhc
Q psy1090 96 LKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGH-SVKNKKSKL--SIKLT-ALRATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah-~~k~~~~~~--~~~~~-~l~~~~~~~lT~TP~~n~~~el~ 167 (169)
....+ .+.|...+.+.... -.-..++++|+||+| +.-+.+-.. .+.+. .......++||||.-...+.+.|
T Consensus 155 ~~T~I-~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~rpdLKlIlmSATld~~~fa~~F 230 (1283)
T TIGR01967 155 SNTLV-KLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATIDPERFSRHF 230 (1283)
T ss_pred CCcee-eeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHhhCCCCeEEEEeCCcCHHHHHHHh
Confidence 33445 78888877654321 112368999999999 454433221 12221 11334579999998654444443
No 134
>KOG0352|consensus
Probab=97.85 E-value=7.9e-05 Score=57.11 Aligned_cols=143 Identities=17% Similarity=0.202 Sum_probs=74.8
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
.+.++.+|.||++..- +-.++.. +-++||.|. .++....+.+.+.--...-+.-.-+..+|..+-..-...
T Consensus 39 VyVsMPTGaGKSLCyQ--LPaL~~~---gITIV~SPLiALIkDQiDHL~~LKVp~~SLNSKlSt~ER~ri~~DL~~e--- 110 (641)
T KOG0352|consen 39 VYVSMPTGAGKSLCYQ--LPALVHG---GITIVISPLIALIKDQIDHLKRLKVPCESLNSKLSTVERSRIMGDLAKE--- 110 (641)
T ss_pred EEEeccCCCchhhhhh--chHHHhC---CeEEEehHHHHHHHHHHHHHHhcCCchhHhcchhhHHHHHHHHHHHHhc---
Confidence 4678999999996431 1112222 357888886 667777788876531111111111223332222211110
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhc-h----hcc-ccccccEEEEeCCcccCCcccHH---HHHHhcc----cc
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIEND-F----GFL-KKITWNCIIVDEGHSVKNKKSKL---SIKLTAL----RA 148 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~-~----~~~-~~~~~~~vi~DEah~~k~~~~~~---~~~~~~l----~~ 148 (169)
.....+ +-+|++..... . +.+ ++-...++++||||+....+... +-.+..+ .-
T Consensus 111 -------------kp~~K~-LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS~~~~ 176 (641)
T KOG0352|consen 111 -------------KPTIKM-LYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSVCPG 176 (641)
T ss_pred -------------CCceeE-EEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchhhhhhHHhhCCC
Confidence 033334 55666655432 2 222 23456799999999876543221 2222333 34
Q ss_pred ccEEEEeccCCCCCchhhc
Q psy1090 149 TFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 149 ~~~~~lT~TP~~n~~~el~ 167 (169)
.-.++||||--..--+|+|
T Consensus 177 vpwvALTATA~~~VqEDi~ 195 (641)
T KOG0352|consen 177 VPWVALTATANAKVQEDIA 195 (641)
T ss_pred CceEEeecccChhHHHHHH
Confidence 4578999998776666654
No 135
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.84 E-value=0.00023 Score=59.82 Aligned_cols=38 Identities=16% Similarity=0.096 Sum_probs=26.9
Q ss_pred cCCCCeEEEecHHHHHhchhccc-cccccEEEEeCCcccC
Q psy1090 95 SLKLPLILVTTPQIIENDFGFLK-KITWNCIIVDEGHSVK 133 (169)
Q Consensus 95 ~~~~~ii~i~ty~~~~~~~~~~~-~~~~~~vi~DEah~~k 133 (169)
....|+ +|++++.+..+...-. --.++.+|+||||++-
T Consensus 411 a~~Adi-vItNHall~~~~~~~~~~p~~~~lIiDEAH~l~ 449 (820)
T PRK07246 411 AKTARL-LITNHAYFLTRVQDDKDFARNKVLVFDEAQKLM 449 (820)
T ss_pred HHhCCE-EEEchHHHHHHHhhccCCCCCCEEEEECcchhH
Confidence 355666 9999998776542211 1358999999999985
No 136
>KOG0328|consensus
Probab=97.80 E-value=1.8e-05 Score=57.49 Aligned_cols=138 Identities=13% Similarity=0.101 Sum_probs=84.8
Q ss_pred ccccCCCCCcHHHH-HHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 3 TVIPDPTRYRKSGK-VIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 3 ~iL~de~G~GKT~~-~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
.|-....|+|||.+ +++++....-..+.-.+||+.|.. +-.|-.+-+.-... +..+....|.+.-...+....
T Consensus 67 ViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld--- 143 (400)
T KOG0328|consen 67 VIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLD--- 143 (400)
T ss_pred eEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhc---
Confidence 45567889999965 556655544444445799999984 44566655655543 344444555444433333332
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCc--ccHHHHHHhccc-cccEEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNK--KSKLSIKLTALR-ATFKVL 153 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~--~~~~~~~~~~l~-~~~~~~ 153 (169)
....+ +.-|+..+-.-. ..+.-....++|+|||..+-+. ..+.+...+.++ ....++
T Consensus 144 -----------------~G~hv-VsGtPGrv~dmikr~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~ 205 (400)
T KOG0328|consen 144 -----------------YGQHV-VSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVL 205 (400)
T ss_pred -----------------ccceE-eeCCCchHHHHHHhccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEE
Confidence 22223 666665543321 2333446789999999976553 456777888885 667889
Q ss_pred EeccCCCC
Q psy1090 154 LTGWYYPN 161 (169)
Q Consensus 154 lT~TP~~n 161 (169)
+|||..+.
T Consensus 206 ~SATlp~e 213 (400)
T KOG0328|consen 206 VSATLPHE 213 (400)
T ss_pred EeccCcHH
Confidence 99998643
No 137
>KOG0949|consensus
Probab=97.79 E-value=0.00014 Score=60.82 Aligned_cols=134 Identities=21% Similarity=0.182 Sum_probs=86.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHH-Hh-CCCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFR-KF-APFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~-~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
+++.-.+-+|||....-++....+....+-++.|+|. .++.|-..+.. +| .+.+. .|...-....+....+
T Consensus 529 avIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~----rg~sl~g~ltqEYsin-- 602 (1330)
T KOG0949|consen 529 AVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFL----RGVSLLGDLTQEYSIN-- 602 (1330)
T ss_pred eEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccc----cchhhHhhhhHHhcCC--
Confidence 5777889999999988888888888888899999997 67777665553 33 22221 2222222222222111
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhc-----cccccccEEEEeCCcccCCcc-cHHHHHHhccccccEEE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-----LKKITWNCIIVDEGHSVKNKK-SKLSIKLTALRATFKVL 153 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-----~~~~~~~~vi~DEah~~k~~~-~~~~~~~~~l~~~~~~~ 153 (169)
...+++ +||-++.+..-... ..-....++|+||+|.+.+.. +..+..+..+-..--++
T Consensus 603 ---------------p~nCQV-LITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L~ 666 (1330)
T KOG0949|consen 603 ---------------PWNCQV-LITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFLV 666 (1330)
T ss_pred ---------------chhceE-EEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCeeE
Confidence 156777 99999988653221 011256799999999998854 44555555554445678
Q ss_pred EeccC
Q psy1090 154 LTGWY 158 (169)
Q Consensus 154 lT~TP 158 (169)
||||-
T Consensus 667 LSATi 671 (1330)
T KOG0949|consen 667 LSATI 671 (1330)
T ss_pred Eeccc
Confidence 99983
No 138
>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=97.75 E-value=0.00041 Score=57.57 Aligned_cols=49 Identities=14% Similarity=0.212 Sum_probs=34.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcc-hHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSV-LNNWEAEFRK 51 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~-l~qW~~e~~~ 51 (169)
+++-..+|+|||+..|......... +...++++++..+. +.|-.+|+++
T Consensus 32 ~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 32 AILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred eEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 6788899999999888665544443 32345555555544 5689999988
No 139
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=97.73 E-value=0.00044 Score=50.47 Aligned_cols=106 Identities=12% Similarity=-0.030 Sum_probs=60.0
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH----HHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN----NWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~----qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.+....+|=|||+++...+...... .+++=||+.+.-+. +|...+-+++ ++.+....+..........
T Consensus 92 G~laEm~TGEGKTli~~l~a~~~AL~--G~~V~vvT~NdyLA~RD~~~~~~~y~~L-Glsv~~~~~~~~~~~r~~~---- 164 (266)
T PF07517_consen 92 GRLAEMKTGEGKTLIAALPAALNALQ--GKGVHVVTSNDYLAKRDAEEMRPFYEFL-GLSVGIITSDMSSEERREA---- 164 (266)
T ss_dssp TSEEEESTTSHHHHHHHHHHHHHHTT--SS-EEEEESSHHHHHHHHHHHHHHHHHT-T--EEEEETTTEHHHHHHH----
T ss_pred ceeEEecCCCCcHHHHHHHHHHHHHh--cCCcEEEeccHHHhhccHHHHHHHHHHh-hhccccCccccCHHHHHHH----
Confidence 56777899999998875443333222 35677777775552 5777777777 6777776664432211111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhch---------hccccccccEEEEeCCcccC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF---------GFLKKITWNCIIVDEGHSVK 133 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~---------~~~~~~~~~~vi~DEah~~k 133 (169)
-..|| +-.|...+..++ ......+++++|+||+..+-
T Consensus 165 ------------------Y~~dI-~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~L 210 (266)
T PF07517_consen 165 ------------------YAADI-VYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSIL 210 (266)
T ss_dssp ------------------HHSSE-EEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHT
T ss_pred ------------------HhCcc-cccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEE
Confidence 23455 555554443321 11123578899999988643
No 140
>KOG0337|consensus
Probab=97.73 E-value=0.00019 Score=54.93 Aligned_cols=129 Identities=15% Similarity=0.111 Sum_probs=76.4
Q ss_pred CCCcHHHHHH-HHHHHHHHhC-CCCceEEEecCc-chHHHHH---HHHHhCCCceEE-EEeCCHHHHHHHHHhhhcCCCc
Q psy1090 9 TRYRKSGKVI-AFFCKIIEEQ-ALEPNLIVCPLS-VLNNWEA---EFRKFAPFVRTV-KYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 9 ~G~GKT~~~i-~~i~~~~~~~-~~~~~Liv~P~~-~l~qW~~---e~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
+|.|||..-+ -.++.+.... ..-+.||+.|+. +..|-.+ ++-++. +++.. .+.|++.+..... ..
T Consensus 67 tgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdlgrgt-~lr~s~~~ggD~~eeqf~~-l~------ 138 (529)
T KOG0337|consen 67 TGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDLGRGT-KLRQSLLVGGDSIEEQFIL-LN------ 138 (529)
T ss_pred cCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHhcccc-chhhhhhcccchHHHHHHH-hc------
Confidence 7899996532 2233333222 223899999984 4445444 444444 45555 4555554433222 11
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHhchhc--cccccccEEEEeCCcccCCc--ccHHHHHHhccc-cccEEEEec
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF--LKKITWNCIIVDEGHSVKNK--KSKLSIKLTALR-ATFKVLLTG 156 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~--~~~~~~~~vi~DEah~~k~~--~~~~~~~~~~l~-~~~~~~lT~ 156 (169)
...|+ +++|+..+...... +.-....+||+||+.++-.. ..+..+.+.+++ ..-.+++||
T Consensus 139 --------------~npDi-i~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl~~~~QTllfSa 203 (529)
T KOG0337|consen 139 --------------ENPDI-IIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQTLLFSA 203 (529)
T ss_pred --------------cCCCE-EEecCceeeeeehheeccccceeeeeehhhhHHHhhhhHHHHHHHHHhCCCcceEEEEec
Confidence 56777 88888776543222 22335678999999987543 345566677774 457899999
Q ss_pred cCCC
Q psy1090 157 WYYP 160 (169)
Q Consensus 157 TP~~ 160 (169)
|...
T Consensus 204 tlp~ 207 (529)
T KOG0337|consen 204 TLPR 207 (529)
T ss_pred cCch
Confidence 9763
No 141
>KOG1513|consensus
Probab=97.71 E-value=1.1e-05 Score=65.88 Aligned_cols=137 Identities=15% Similarity=0.114 Sum_probs=76.5
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe-cCcchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC-PLSVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLP 79 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~-P~~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~ 79 (169)
|-+++|.-|.||-.+..++|-....+++ +++|.+. .+.+.-.-.+++.... +...+ +.-++.+..++....
T Consensus 291 GfLiGDGAGVGKGRTvAgiIfeNyLkGR-KrAlW~SVSsDLKfDAERDL~DigA~~I~V--~alnK~KYakIss~e---- 363 (1300)
T KOG1513|consen 291 GFLIGDGAGVGKGRTVAGIIFENYLKGR-KRALWFSVSSDLKFDAERDLRDIGATGIAV--HALNKFKYAKISSKE---- 363 (1300)
T ss_pred eeeeccCcccCCCceeEEEEehhhhccc-ceeEEEEeccccccchhhchhhcCCCCccc--eehhhcccccccccc----
Confidence 4578899999998887777654444443 4566555 4455445556665443 22222 221221111111110
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchh--------cccc------ccc-cEEEEeCCcccCC-------ccc
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--------FLKK------ITW-NCIIVDEGHSVKN-------KKS 137 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--------~~~~------~~~-~~vi~DEah~~k~-------~~~ 137 (169)
....+.- |+++||..+..+.. .+++ ..| +++|+||||..|| ..+
T Consensus 364 -------------n~n~krG-ViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge~feGvIvfDECHkAKNL~p~~~~k~T 429 (1300)
T KOG1513|consen 364 -------------NTNTKRG-VIFATYTALIGESQGKGGKYRTRFRQLLQWCGEDFEGVIVFDECHKAKNLVPTAGAKST 429 (1300)
T ss_pred -------------cCCccce-eEEEeeHhhhhhccccCchHHHHHHHHHHHhhhccceeEEehhhhhhcccccccCCCcC
Confidence 1113333 49999999875433 1211 123 4999999999998 445
Q ss_pred HHHHHHhc----cccccEEEEeccCC
Q psy1090 138 KLSIKLTA----LRATFKVLLTGWYY 159 (169)
Q Consensus 138 ~~~~~~~~----l~~~~~~~lT~TP~ 159 (169)
|..+.+.. +...+.+..|||--
T Consensus 430 KtG~tVLdLQk~LP~ARVVYASATGA 455 (1300)
T KOG1513|consen 430 KTGKTVLDLQKKLPNARVVYASATGA 455 (1300)
T ss_pred cccHhHHHHHHhCCCceEEEeeccCC
Confidence 66666543 45667777787743
No 142
>KOG0340|consensus
Probab=97.71 E-value=0.00053 Score=51.44 Aligned_cols=138 Identities=12% Similarity=0.083 Sum_probs=79.1
Q ss_pred CccccCCCCCcHHHH-HHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhC--CCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGK-VIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFA--PFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~-~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
+||=+--+|+|||.. ++-.+..+.+....-=.||+.|.. +.-|-.++|.-.. -.+++.++.|..+.-.+-....
T Consensus 46 dcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~-- 123 (442)
T KOG0340|consen 46 DCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILS-- 123 (442)
T ss_pred ccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcc--
Confidence 466678899999965 223333332222222479999984 4446666665333 2567777777554432221111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchh------ccccccccEEEEeCCcccCCcc-cHHHHHH-hcccc-
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG------FLKKITWNCIIVDEGHSVKNKK-SKLSIKL-TALRA- 148 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~------~~~~~~~~~vi~DEah~~k~~~-~~~~~~~-~~l~~- 148 (169)
.+.++ ++++++.+..... .....+..++++|||.++.+.. ......+ ..++.
T Consensus 124 ------------------~rPHv-VvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrvL~~~f~d~L~~i~e~lP~~ 184 (442)
T KOG0340|consen 124 ------------------DRPHV-VVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGIEECLPKP 184 (442)
T ss_pred ------------------cCCCe-EecCccccccccccCCccchhhhhceeeEEecchhhhhccchhhHHhhhhccCCCc
Confidence 55555 9999888764332 1112355689999999987542 1112222 23333
Q ss_pred ccEEEEeccCCC
Q psy1090 149 TFKVLLTGWYYP 160 (169)
Q Consensus 149 ~~~~~lT~TP~~ 160 (169)
+-.+++|||--.
T Consensus 185 RQtLlfSATitd 196 (442)
T KOG0340|consen 185 RQTLLFSATITD 196 (442)
T ss_pred cceEEEEeehhh
Confidence 467999999653
No 143
>KOG0947|consensus
Probab=97.71 E-value=0.00011 Score=61.17 Aligned_cols=122 Identities=15% Similarity=0.166 Sum_probs=74.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH-HHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN-NWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTI 81 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~-qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 81 (169)
.+.+--+.+|||+.|=..|... ....-+++.-.|--.+. |=.++|+.-+.+.. ..+|+....
T Consensus 315 VFVAAHTSAGKTvVAEYAiala--q~h~TR~iYTSPIKALSNQKfRDFk~tF~Dvg--LlTGDvqin------------- 377 (1248)
T KOG0947|consen 315 VFVAAHTSAGKTVVAEYAIALA--QKHMTRTIYTSPIKALSNQKFRDFKETFGDVG--LLTGDVQIN------------- 377 (1248)
T ss_pred EEEEecCCCCcchHHHHHHHHH--HhhccceEecchhhhhccchHHHHHHhccccc--eeecceeeC-------------
Confidence 4567778899998764443332 23345788888975554 55567765554444 567653321
Q ss_pred ccccccCCccccccCCCCeEEEecHHHHHh----chhccccccccEEEEeCCcccCCcc-cHHHHHH-hcc-ccccEEEE
Q psy1090 82 KVPAKKGKTKKQISLKLPLILVTTPQIIEN----DFGFLKKITWNCIIVDEGHSVKNKK-SKLSIKL-TAL-RATFKVLL 154 (169)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~----~~~~~~~~~~~~vi~DEah~~k~~~-~~~~~~~-~~l-~~~~~~~l 154 (169)
....+ +|.|-+.+++ ..+.++ ..++||+||+|++.+.. .-.+..+ ..+ +-..-++|
T Consensus 378 --------------PeAsC-LIMTTEILRsMLYrgadliR--DvE~VIFDEVHYiND~eRGvVWEEViIMlP~HV~~IlL 440 (1248)
T KOG0947|consen 378 --------------PEASC-LIMTTEILRSMLYRGADLIR--DVEFVIFDEVHYINDVERGVVWEEVIIMLPRHVNFILL 440 (1248)
T ss_pred --------------CCcce-EeehHHHHHHHHhcccchhh--ccceEEEeeeeecccccccccceeeeeeccccceEEEE
Confidence 44455 8888777764 344444 36779999999986522 2223333 344 33446788
Q ss_pred eccC
Q psy1090 155 TGWY 158 (169)
Q Consensus 155 T~TP 158 (169)
|||=
T Consensus 441 SATV 444 (1248)
T KOG0947|consen 441 SATV 444 (1248)
T ss_pred eccC
Confidence 8884
No 144
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.68 E-value=0.00066 Score=57.98 Aligned_cols=37 Identities=22% Similarity=0.333 Sum_probs=26.7
Q ss_pred CCCCeEEEecHHHHHhchhcccc--ccccEEEEeCCcccC
Q psy1090 96 LKLPLILVTTPQIIENDFGFLKK--ITWNCIIVDEGHSVK 133 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~~~~--~~~~~vi~DEah~~k 133 (169)
...|+ +|++++.+..+...-.. -+++.+|+||||++-
T Consensus 430 ~~Adi-vItNHalLl~dl~~~~~ilp~~~~lViDEAH~l~ 468 (928)
T PRK08074 430 KFADL-VITNHALLLTDLTSEEPLLPSYEHIIIDEAHHFE 468 (928)
T ss_pred hcCCE-EEECHHHHHHHHhhhcccCCCCCeEEEECCchHH
Confidence 55666 99999988776521111 257999999999985
No 145
>KOG0341|consensus
Probab=97.67 E-value=6.7e-05 Score=56.85 Aligned_cols=132 Identities=16% Similarity=0.224 Sum_probs=72.0
Q ss_pred CCCCcHHHH----HHHHHHHHHH----hCCCCc-eEEEecC-cchHHHHHHHHHhC--------CCceEEEEeCCHHHHH
Q psy1090 8 PTRYRKSGK----VIAFFCKIIE----EQALEP-NLIVCPL-SVLNNWEAEFRKFA--------PFVRTVKYYGNAIERK 69 (169)
Q Consensus 8 e~G~GKT~~----~i~~i~~~~~----~~~~~~-~Liv~P~-~~l~qW~~e~~~~~--------~~~~~~~~~g~~~~~~ 69 (169)
-+|+|||+. .+.++...-. ....+| -||+||+ .+..|-.+-+..|+ |.++.....|.-.-+.
T Consensus 215 fTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~e 294 (610)
T KOG0341|consen 215 FTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVRE 294 (610)
T ss_pred eecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHH
Confidence 379999953 3333322111 123355 4999998 45556666665553 5556555555444444
Q ss_pred HHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCCcc--cHHHHHHhc
Q psy1090 70 ALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKNKK--SKLSIKLTA 145 (169)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~~~--~~~~~~~~~ 145 (169)
+...-. ....+ ++.|+..+..-.. .++----.++.+|||.++-.-. ......+..
T Consensus 295 ql~~v~--------------------~GvHi-vVATPGRL~DmL~KK~~sLd~CRyL~lDEADRmiDmGFEddir~iF~~ 353 (610)
T KOG0341|consen 295 QLDVVR--------------------RGVHI-VVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDMGFEDDIRTIFSF 353 (610)
T ss_pred HHHHHh--------------------cCeeE-EEcCcchHHHHHHHhhccHHHHHHhhhhhHHHHhhccchhhHHHHHHH
Confidence 333322 34445 8899877754221 1111123478999999875422 111222233
Q ss_pred ccc-ccEEEEeccCCC
Q psy1090 146 LRA-TFKVLLTGWYYP 160 (169)
Q Consensus 146 l~~-~~~~~lT~TP~~ 160 (169)
++. +..+++|||...
T Consensus 354 FK~QRQTLLFSATMP~ 369 (610)
T KOG0341|consen 354 FKGQRQTLLFSATMPK 369 (610)
T ss_pred HhhhhheeeeeccccH
Confidence 333 457899999763
No 146
>KOG1805|consensus
Probab=97.59 E-value=0.00044 Score=57.80 Aligned_cols=139 Identities=14% Similarity=0.113 Sum_probs=72.5
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccccc
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPA 85 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 85 (169)
.=+|+|||.+...++..+...+ +++|+.+=. +.++|-.-.+..+ +..++......+....+....... ..+.
T Consensus 692 GMPGTGKTTtI~~LIkiL~~~g--kkVLLtsyThsAVDNILiKL~~~--~i~~lRLG~~~kih~~v~e~~~~~---~~s~ 764 (1100)
T KOG1805|consen 692 GMPGTGKTTTISLLIKILVALG--KKVLLTSYTHSAVDNILIKLKGF--GIYILRLGSEEKIHPDVEEFTLTN---ETSE 764 (1100)
T ss_pred cCCCCCchhhHHHHHHHHHHcC--CeEEEEehhhHHHHHHHHHHhcc--CcceeecCCccccchHHHHHhccc---ccch
Confidence 3479999999888887776655 778888876 4566766566544 333333333222222222221100 0000
Q ss_pred ccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCC
Q psy1090 86 KKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYP 160 (169)
Q Consensus 86 ~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~ 160 (169)
+....-+..-....+ |.+|=-.+ .-..|...+||++|+|||..+.-+-+ +.-+....+.+|-|-+.|
T Consensus 765 ks~~~l~~~~~~~~I-Va~TClgi--~~plf~~R~FD~cIiDEASQI~lP~~-----LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 765 KSYADLKKFLDQTSI-VACTCLGI--NHPLFVNRQFDYCIIDEASQILLPLC-----LGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred hhHHHHHHHhCCCcE-EEEEccCC--CchhhhccccCEEEEccccccccchh-----hhhhhhcceEEEeccccc
Confidence 011111111144445 44432111 12344556799999999988755433 344555566666665554
No 147
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.58 E-value=0.00014 Score=57.13 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=38.5
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCCCce
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAPFVR 57 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~~~~ 57 (169)
|-.-+|+|||+++.-+|... ..|+||++|+- +..|-+.||+.|+|+-.
T Consensus 37 LLGvTGSGKTfT~AnVI~~~-----~rPtLV~AhNKTLAaQLy~Efk~fFP~Na 85 (663)
T COG0556 37 LLGVTGSGKTFTMANVIAKV-----QRPTLVLAHNKTLAAQLYSEFKEFFPENA 85 (663)
T ss_pred EeeeccCCchhHHHHHHHHh-----CCCeEEEecchhHHHHHHHHHHHhCcCcc
Confidence 45568999999987777543 47999999984 55699999999998643
No 148
>KOG1131|consensus
Probab=97.56 E-value=0.00017 Score=56.65 Aligned_cols=49 Identities=14% Similarity=0.248 Sum_probs=36.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCC-CCceEEEecCcc--hHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQA-LEPNLIVCPLSV--LNNWEAEFRK 51 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~-~~~~Liv~P~~~--l~qW~~e~~~ 51 (169)
|+|-+..|+|||+..++++..+....+ .-.-||-|...+ ++.-..|+++
T Consensus 38 ~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~ 89 (755)
T KOG1131|consen 38 CLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKR 89 (755)
T ss_pred EEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHH
Confidence 899999999999999999877666654 446788888754 4455556543
No 149
>KOG0922|consensus
Probab=97.55 E-value=0.00038 Score=55.96 Aligned_cols=66 Identities=17% Similarity=0.181 Sum_probs=40.9
Q ss_pred EEecHHHHHhchh-ccccccccEEEEeCCcccCCcccH-HHHHHhcc---ccc-cEEEEeccCCCCCchhhcc
Q psy1090 102 LVTTPQIIENDFG-FLKKITWNCIIVDEGHSVKNKKSK-LSIKLTAL---RAT-FKVLLTGWYYPNKWSKQCT 168 (169)
Q Consensus 102 ~i~ty~~~~~~~~-~~~~~~~~~vi~DEah~~k~~~~~-~~~~~~~l---~~~-~~~~lT~TP~~n~~~el~~ 168 (169)
...|-..+.++.- .-.-.+|+++|+||||. ++-.+. ..-.++.+ +.. +.+++|||.=...+++.|+
T Consensus 144 kymTDG~LLRE~l~Dp~LskYsvIIlDEAHE-Rsl~TDiLlGlLKki~~~R~~LklIimSATlda~kfS~yF~ 215 (674)
T KOG0922|consen 144 KYMTDGMLLREILKDPLLSKYSVIILDEAHE-RSLHTDILLGLLKKILKKRPDLKLIIMSATLDAEKFSEYFN 215 (674)
T ss_pred EEecchHHHHHHhcCCccccccEEEEechhh-hhhHHHHHHHHHHHHHhcCCCceEEEEeeeecHHHHHHHhc
Confidence 7778778776542 11234899999999996 222222 22223333 333 5688999987777777664
No 150
>KOG0336|consensus
Probab=97.54 E-value=0.00061 Score=52.16 Aligned_cols=134 Identities=13% Similarity=0.210 Sum_probs=77.8
Q ss_pred ccccCCCCCcHHHHHH--HHHHH-----HHHhCCCCceEEEecC-cchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVI--AFFCK-----IIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQS 73 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i--~~i~~-----~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~ 73 (169)
++-...+|+|||+.-+ +++.. ..+....-.+|++.|. .+-.|-.-|..++- .+.+.+.++|......+...
T Consensus 260 liGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~eqie~ 339 (629)
T KOG0336|consen 260 LIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNEQIED 339 (629)
T ss_pred eEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCchhHHHH
Confidence 3445679999997654 22211 1122223357888897 45556666666554 34555554444333222332
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCC--cccHHHHHHhccccc
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKN--KKSKLSIKLTALRAT 149 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~--~~~~~~~~~~~l~~~ 149 (169)
.. ...++ ++.|+..+.+.. +.+.-....++|+|||.++-. ...+.-+.+..++..
T Consensus 340 lk--------------------rgvei-iiatPgrlndL~~~n~i~l~siTYlVlDEADrMLDMgFEpqIrkilldiRPD 398 (629)
T KOG0336|consen 340 LK--------------------RGVEI-IIATPGRLNDLQMDNVINLASITYLVLDEADRMLDMGFEPQIRKILLDIRPD 398 (629)
T ss_pred Hh--------------------cCceE-EeeCCchHhhhhhcCeeeeeeeEEEEecchhhhhcccccHHHHHHhhhcCCc
Confidence 22 55566 899988876532 233334567999999998765 335556666677766
Q ss_pred cEEEE-ecc
Q psy1090 150 FKVLL-TGW 157 (169)
Q Consensus 150 ~~~~l-T~T 157 (169)
+-.+| |||
T Consensus 399 RqtvmTSAT 407 (629)
T KOG0336|consen 399 RQTVMTSAT 407 (629)
T ss_pred ceeeeeccc
Confidence 65555 454
No 151
>KOG0329|consensus
Probab=97.53 E-value=0.00016 Score=51.98 Aligned_cols=136 Identities=17% Similarity=0.222 Sum_probs=75.7
Q ss_pred CccccCCCCCcHHHH-HHHHHHHHHHhCCCCceEEEecC-cchHHHHHH---HHHhCCCceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGK-VIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAE---FRKFAPFVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~-~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e---~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
..++.-..|+|||.. .++.+..+-.....-.+|++|-. .+.-|-..| |.++.|+.++.++.|.-..+......
T Consensus 81 dvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~l-- 158 (387)
T KOG0329|consen 81 DVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELL-- 158 (387)
T ss_pred hhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHH--
Confidence 355667789999943 33333322211222267888876 454466555 45566999999999854332211111
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCcccHHH---HHHhcc--ccc
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNKKSKLS---IKLTAL--RAT 149 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~~~~~~---~~~~~l--~~~ 149 (169)
..++.|++.|+..+.... ..+.-....-+|+|||..+-.. .... +.+.++ .-+
T Consensus 159 -------------------k~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~-lDMrRDvQEifr~tp~~K 218 (387)
T KOG0329|consen 159 -------------------KNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQ-LDMRRDVQEIFRMTPHEK 218 (387)
T ss_pred -------------------hCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHH-HHHHHHHHHHhhcCcccc
Confidence 223445899988765332 2233335667899999965432 2122 222222 234
Q ss_pred cEEEEeccCC
Q psy1090 150 FKVLLTGWYY 159 (169)
Q Consensus 150 ~~~~lT~TP~ 159 (169)
....+|||.-
T Consensus 219 Qvmmfsatls 228 (387)
T KOG0329|consen 219 QVMMFSATLS 228 (387)
T ss_pred eeeeeeeecc
Confidence 4577788853
No 152
>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=97.52 E-value=0.0004 Score=56.30 Aligned_cols=41 Identities=24% Similarity=0.279 Sum_probs=31.5
Q ss_pred ccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCC
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n 161 (169)
.++|++|+||+..+- .....+.+..++...|++|.|=|-|-
T Consensus 258 l~~dvlIiDEaSMvd--~~l~~~ll~al~~~~rlIlvGD~~QL 298 (586)
T TIGR01447 258 LPLDVLVVDEASMVD--LPLMAKLLKALPPNTKLILLGDKNQL 298 (586)
T ss_pred CcccEEEEcccccCC--HHHHHHHHHhcCCCCEEEEECChhhC
Confidence 578999999999984 34455666777778899998877654
No 153
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.49 E-value=0.00054 Score=54.76 Aligned_cols=115 Identities=18% Similarity=0.174 Sum_probs=63.1
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKV 83 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 83 (169)
.-+.+|+|||+.+.++|.++...+ .+..|+.|.. ++++.-... |...+ ...-+..+.........
T Consensus 2 f~matgsgkt~~ma~lil~~y~kg-yr~flffvnq~nilekt~~n---ftd~~----------s~kylf~e~i~~~d~~i 67 (812)
T COG3421 2 FEMATGSGKTLVMAGLILECYKKG-YRNFLFFVNQANILEKTKLN---FTDSV----------SSKYLFSENININDENI 67 (812)
T ss_pred cccccCCChhhHHHHHHHHHHHhc-hhhEEEEecchhHHHHHHhh---cccch----------hhhHhhhhhhhcCCcee
Confidence 356799999999999999888766 4557777764 666543322 22110 11112222222222233
Q ss_pred ccccCCccccccCCCCeEEEecHHHHHhchhc-------cccc--cccEEEEeCCcccCC
Q psy1090 84 PAKKGKTKKQISLKLPLILVTTPQIIENDFGF-------LKKI--TWNCIIVDEGHSVKN 134 (169)
Q Consensus 84 ~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-------~~~~--~~~~vi~DEah~~k~ 134 (169)
.+++-....+......| +++|-+.+-.+... +..+ .--+.+-||||++..
T Consensus 68 ~ikkvn~fsehnd~iei-~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~ 126 (812)
T COG3421 68 EIKKVNNFSEHNDAIEI-YFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNT 126 (812)
T ss_pred eeeeecccCccCCceEE-EEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhh
Confidence 33333333334466666 89987777554321 1111 112567899999854
No 154
>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=97.47 E-value=0.00066 Score=55.64 Aligned_cols=56 Identities=13% Similarity=0.219 Sum_probs=39.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc-hHHHHHHHHHhCCCceEEEEe
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV-LNNWEAEFRKFAPFVRTVKYY 62 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~-l~qW~~e~~~~~~~~~~~~~~ 62 (169)
.++...+|+|||.++.+++......+ .++|+++|++. +.+..+.+... +.+++...
T Consensus 176 ~lI~GpPGTGKT~t~~~ii~~~~~~g--~~VLv~a~sn~Avd~l~e~l~~~--~~~vvRlg 232 (637)
T TIGR00376 176 FLIHGPPGTGKTRTLVELIRQLVKRG--LRVLVTAPSNIAVDNLLERLALC--DQKIVRLG 232 (637)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEEcCcHHHHHHHHHHHHhC--CCcEEEeC
Confidence 35667899999999988887766554 48999999864 56777777643 34444443
No 155
>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=97.46 E-value=0.0012 Score=54.92 Aligned_cols=115 Identities=17% Similarity=0.048 Sum_probs=64.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIK 82 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 82 (169)
.+|.-..|+|||..+-+++..+...+...++++++|.........|.. +.. ...+...-..
T Consensus 341 ~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~----g~~----------a~Tih~lL~~----- 401 (720)
T TIGR01448 341 VILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVT----GLT----------ASTIHRLLGY----- 401 (720)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhc----CCc----------cccHHHHhhc-----
Confidence 467788999999877776665544433357888899876654333321 100 0000000000
Q ss_pred cccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCC
Q psy1090 83 VPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 83 ~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n 161 (169)
..+. .. .. ..-...+.+++|+|||+.+.. ......+..++...+++|-|=|-|-
T Consensus 402 --------------~~~~-~~------~~--~~~~~~~~~llIvDEaSMvd~--~~~~~Ll~~~~~~~rlilvGD~~QL 455 (720)
T TIGR01448 402 --------------GPDT-FR------HN--HLEDPIDCDLLIVDESSMMDT--WLALSLLAALPDHARLLLVGDTDQL 455 (720)
T ss_pred --------------cCCc-cc------hh--hhhccccCCEEEEeccccCCH--HHHHHHHHhCCCCCEEEEECccccc
Confidence 0000 00 00 000124678999999999843 3345556677777899998876654
No 156
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.46 E-value=0.00071 Score=47.29 Aligned_cols=41 Identities=24% Similarity=0.220 Sum_probs=25.4
Q ss_pred ccccEEEEeCCcccCCcccHHHHHHhccc-cccEEEEeccCCCC
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKLSIKLTALR-ATFKVLLTGWYYPN 161 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~~~~~~~l~-~~~~~~lT~TP~~n 161 (169)
.+.+++|+|||..+. .......+...+ ...++++.|-|-|-
T Consensus 92 ~~~~vliVDEasmv~--~~~~~~ll~~~~~~~~klilvGD~~QL 133 (196)
T PF13604_consen 92 PKKDVLIVDEASMVD--SRQLARLLRLAKKSGAKLILVGDPNQL 133 (196)
T ss_dssp TSTSEEEESSGGG-B--HHHHHHHHHHS-T-T-EEEEEE-TTSH
T ss_pred CcccEEEEecccccC--HHHHHHHHHHHHhcCCEEEEECCcchh
Confidence 355799999999984 233444455553 36799999988864
No 157
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.46 E-value=0.0018 Score=54.31 Aligned_cols=107 Identities=10% Similarity=0.055 Sum_probs=61.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch----HHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL----NNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l----~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
|.|--+.+|-|||+++...+. + ..-..+.+-||.++.-+ .+|...+-+|. ++.+....+.........
T Consensus 100 G~IAEM~TGEGKTL~atlpay-l-nAL~GkgVhVVTvNdYLA~RDae~m~~vy~~L-GLtvg~i~~~~~~~err~----- 171 (939)
T PRK12902 100 GQIAEMKTGEGKTLVATLPSY-L-NALTGKGVHVVTVNDYLARRDAEWMGQVHRFL-GLSVGLIQQDMSPEERKK----- 171 (939)
T ss_pred CceeeecCCCChhHHHHHHHH-H-HhhcCCCeEEEeCCHHHHHhHHHHHHHHHHHh-CCeEEEECCCCChHHHHH-----
Confidence 566778899999997543222 2 22223567777777544 27999999998 777776654322211111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHH-----Hhchh----ccccccccEEEEeCCcccCC
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQII-----ENDFG----FLKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~-----~~~~~----~~~~~~~~~vi~DEah~~k~ 134 (169)
.-.+|| +-+|...+ +.+.. ....-+++++|+||+..+--
T Consensus 172 -----------------aY~~DI-tYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDSILI 219 (939)
T PRK12902 172 -----------------NYACDI-TYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDSILI 219 (939)
T ss_pred -----------------hcCCCe-EEecCCcccccchhhhhcccccccccCccceEEEecccceee
Confidence 145566 44443332 33221 22335778899999886543
No 158
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.43 E-value=0.002 Score=49.67 Aligned_cols=62 Identities=13% Similarity=0.080 Sum_probs=35.8
Q ss_pred ecHHHHHhchhccccccccEEEEeCCcccCCcccHH---HHHHhccc--cccEEEEeccCCCCCchhhc
Q psy1090 104 TTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKL---SIKLTALR--ATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 104 ~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~---~~~~~~l~--~~~~~~lT~TP~~n~~~el~ 167 (169)
.+++.+......+ ..++++++|++.+........ ...+.... ....++|+||-=++.+.+++
T Consensus 240 ~~~~~l~~~L~~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~ 306 (388)
T PRK12723 240 ESFKDLKEEITQS--KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIF 306 (388)
T ss_pred CcHHHHHHHHHHh--CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHH
Confidence 3444444433333 367899999999876432221 12222222 24568899998777777655
No 159
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.29 E-value=0.0018 Score=54.15 Aligned_cols=59 Identities=12% Similarity=-0.013 Sum_probs=38.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch----HHHHHHHHHhCCCceEEEEeC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL----NNWEAEFRKFAPFVRTVKYYG 63 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l----~qW~~e~~~~~~~~~~~~~~g 63 (169)
|.|.-..+|-|||+++...+. + ..-..+.+-||+++.-+ .+|...+-+|. ++.+....+
T Consensus 91 G~IaEm~TGEGKTL~a~l~ay-l-~aL~G~~VhVvT~NdyLA~RD~e~m~pvy~~L-GLsvg~i~~ 153 (870)
T CHL00122 91 GKIAEMKTGEGKTLVATLPAY-L-NALTGKGVHIVTVNDYLAKRDQEWMGQIYRFL-GLTVGLIQE 153 (870)
T ss_pred CccccccCCCCchHHHHHHHH-H-HHhcCCceEEEeCCHHHHHHHHHHHHHHHHHc-CCceeeeCC
Confidence 567778899999987543322 1 11123567888887544 26888888888 666666544
No 160
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.27 E-value=0.00099 Score=54.29 Aligned_cols=42 Identities=19% Similarity=0.234 Sum_probs=32.3
Q ss_pred cccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCC
Q psy1090 118 KITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 118 ~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n 161 (169)
..++|++|+||+..+- .......+..++...|++|-|=|-|-
T Consensus 263 ~l~~dvlIvDEaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL 304 (615)
T PRK10875 263 PLHLDVLVVDEASMVD--LPMMARLIDALPPHARVIFLGDRDQL 304 (615)
T ss_pred CCCCCeEEEChHhccc--HHHHHHHHHhcccCCEEEEecchhhc
Confidence 3567999999999873 44556677788888899998877654
No 161
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.27 E-value=0.0013 Score=55.08 Aligned_cols=134 Identities=12% Similarity=0.113 Sum_probs=70.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH-HHHHHH-HHhCC--CceE---EEEeCCHHHHHHHHHhh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN-NWEAEF-RKFAP--FVRT---VKYYGNAIERKALQSEA 75 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~-qW~~e~-~~~~~--~~~~---~~~~g~~~~~~~~~~~~ 75 (169)
.|+.-|+|+|||.+.=-++..... ...+.+.+.-|.-+-. .-.+.+ +.+.. +-.+ +.+....
T Consensus 68 vii~getGsGKTTqlP~~lle~g~-~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~---------- 136 (845)
T COG1643 68 VIIVGETGSGKTTQLPQFLLEEGL-GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKV---------- 136 (845)
T ss_pred EEEeCCCCCChHHHHHHHHHhhhc-ccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccC----------
Confidence 478899999999887766654332 2223444444665432 222222 22221 1111 1111111
Q ss_pred hcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh-ccccccccEEEEeCCcccCCcccHHHH-HHhc----ccc-
Q psy1090 76 LSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG-FLKKITWNCIIVDEGHSVKNKKSKLSI-KLTA----LRA- 148 (169)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~-~~~~~~~~~vi~DEah~~k~~~~~~~~-~~~~----l~~- 148 (169)
..+..+ =+.|-..+.+... ...-..++++|+||+|. ++-++...- .++. .+.
T Consensus 137 -------------------s~~Tri-k~mTdGiLlrei~~D~~Ls~ys~vIiDEaHE-RSl~tDilLgllk~~~~~rr~D 195 (845)
T COG1643 137 -------------------SPRTRI-KVMTDGILLREIQNDPLLSGYSVVIIDEAHE-RSLNTDILLGLLKDLLARRRDD 195 (845)
T ss_pred -------------------CCCcee-EEeccHHHHHHHhhCcccccCCEEEEcchhh-hhHHHHHHHHHHHHHHhhcCCC
Confidence 033344 6666666665543 33345889999999996 212222221 1222 232
Q ss_pred ccEEEEeccCCCCCchhhcc
Q psy1090 149 TFKVLLTGWYYPNKWSKQCT 168 (169)
Q Consensus 149 ~~~~~lT~TP~~n~~~el~~ 168 (169)
-+.++||||-=...++.+|.
T Consensus 196 LKiIimSATld~~rfs~~f~ 215 (845)
T COG1643 196 LKLIIMSATLDAERFSAYFG 215 (845)
T ss_pred ceEEEEecccCHHHHHHHcC
Confidence 45688999987777766654
No 162
>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=97.23 E-value=0.0015 Score=42.09 Aligned_cols=42 Identities=12% Similarity=0.010 Sum_probs=27.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWE 46 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~ 46 (169)
.+|.-++|+|||..+..++..+.... ..++.+.+......+.
T Consensus 5 ~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~ 46 (148)
T smart00382 5 ILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVL 46 (148)
T ss_pred EEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCH
Confidence 46778899999988877765443222 3567777766554433
No 163
>KOG0926|consensus
Probab=97.22 E-value=0.00089 Score=55.24 Aligned_cols=66 Identities=11% Similarity=0.219 Sum_probs=39.9
Q ss_pred CCCeEEEecHHHHHhchh-ccccccccEEEEeCCcccCCcccHHH-HHHhc--------------cccccEEEEeccCCC
Q psy1090 97 KLPLILVTTPQIIENDFG-FLKKITWNCIIVDEGHSVKNKKSKLS-IKLTA--------------LRATFKVLLTGWYYP 160 (169)
Q Consensus 97 ~~~ii~i~ty~~~~~~~~-~~~~~~~~~vi~DEah~~k~~~~~~~-~~~~~--------------l~~~~~~~lT~TP~~ 160 (169)
...| -+.|-..+.+... .|.-..|..+|+||||. ++-++... -++.+ ++.-..++||||.--
T Consensus 349 ~T~I-kFMTDGVLLrEi~~DflL~kYSvIIlDEAHE-RSvnTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLRV 426 (1172)
T KOG0926|consen 349 DTSI-KFMTDGVLLREIENDFLLTKYSVIILDEAHE-RSVNTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLRV 426 (1172)
T ss_pred Ccee-EEecchHHHHHHHHhHhhhhceeEEechhhh-ccchHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEEe
Confidence 3344 8888888877653 44456889999999995 22233221 11111 123346899999765
Q ss_pred CCch
Q psy1090 161 NKWS 164 (169)
Q Consensus 161 n~~~ 164 (169)
.++.
T Consensus 427 sDFt 430 (1172)
T KOG0926|consen 427 SDFT 430 (1172)
T ss_pred cccc
Confidence 5544
No 164
>PF13245 AAA_19: Part of AAA domain
Probab=97.18 E-value=0.0013 Score=38.74 Aligned_cols=40 Identities=15% Similarity=0.263 Sum_probs=30.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh--CCCCceEEEecCcchH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE--QALEPNLIVCPLSVLN 43 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~--~~~~~~Liv~P~~~l~ 43 (169)
++.-.+|+|||.+++..+..+... ...+++|+++|+....
T Consensus 14 vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa 55 (76)
T PF13245_consen 14 VVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAA 55 (76)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHH
Confidence 347789999999999888887743 3356899999985443
No 165
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.16 E-value=0.007 Score=50.34 Aligned_cols=38 Identities=18% Similarity=0.311 Sum_probs=26.9
Q ss_pred CCCCeEEEecHHHHHhchhc-----cccccccEEEEeCCcccCC
Q psy1090 96 LKLPLILVTTPQIIENDFGF-----LKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~-----~~~~~~~~vi~DEah~~k~ 134 (169)
...|+ +|++++.+-.+... +-..+++.+|+||||++-.
T Consensus 218 ~~Adi-vVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d 260 (697)
T PRK11747 218 DEADV-VVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPD 260 (697)
T ss_pred hhCCE-EEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHH
Confidence 44566 99999988776531 1122478899999999853
No 166
>KOG0351|consensus
Probab=97.14 E-value=0.00053 Score=58.05 Aligned_cols=136 Identities=15% Similarity=0.117 Sum_probs=75.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHH--HHHHHhhhcC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIER--KALQSEALSL 78 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~--~~~~~~~~~~ 78 (169)
+++-..+|.||+++. +.-. -..+-+|||.|. ++++-....+.+. +++.....+.+... ..+......
T Consensus 282 ~fvlmpTG~GKSLCY------QlPA~l~~gitvVISPL~SLm~DQv~~L~~~--~I~a~~L~s~q~~~~~~~i~q~l~~- 352 (941)
T KOG0351|consen 282 CFVLMPTGGGKSLCY------QLPALLLGGVTVVISPLISLMQDQVTHLSKK--GIPACFLSSIQTAAERLAILQKLAN- 352 (941)
T ss_pred eEEEeecCCceeeEe------eccccccCCceEEeccHHHHHHHHHHhhhhc--CcceeeccccccHHHHHHHHHHHhC-
Confidence 677789999999543 1111 112468889997 6776545555322 45555555544432 222222111
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhcc---ccc----cccEEEEeCCcccCCcccHH---HHHHh----
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFL---KKI----TWNCIIVDEGHSVKNKKSKL---SIKLT---- 144 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~---~~~----~~~~vi~DEah~~k~~~~~~---~~~~~---- 144 (169)
. .....+ +-.|++.+....... ... ..-++|+||||+........ ++.+.
T Consensus 353 -~--------------~~~iki-lYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFRp~Yk~l~~l~~ 416 (941)
T KOG0351|consen 353 -G--------------NPIIKI-LYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYKRLGLLRI 416 (941)
T ss_pred -C--------------CCeEEE-EEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhcccccHHHHHHHHHHh
Confidence 0 024555 778888886543221 111 25789999999877644221 22222
Q ss_pred ccccccEEEEeccCCCCCc
Q psy1090 145 ALRATFKVLLTGWYYPNKW 163 (169)
Q Consensus 145 ~l~~~~~~~lT~TP~~n~~ 163 (169)
.+...-.++||||-...--
T Consensus 417 ~~~~vP~iALTATAT~~v~ 435 (941)
T KOG0351|consen 417 RFPGVPFIALTATATERVR 435 (941)
T ss_pred hCCCCCeEEeehhccHHHH
Confidence 2344467999999754433
No 167
>KOG0948|consensus
Probab=97.14 E-value=0.001 Score=54.56 Aligned_cols=119 Identities=17% Similarity=0.118 Sum_probs=69.1
Q ss_pred cCCCCCcHHHHHH-HHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccc
Q psy1090 6 PDPTRYRKSGKVI-AFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKV 83 (169)
Q Consensus 6 ~de~G~GKT~~~i-~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 83 (169)
.--+.+|||+.|= |+++.+.+ + .+++.-.|-- +=+|=++|+..=+. .+..++|+-...
T Consensus 150 SAHTSAGKTVVAeYAIA~sLr~-k--QRVIYTSPIKALSNQKYREl~~EF~--DVGLMTGDVTIn--------------- 209 (1041)
T KOG0948|consen 150 SAHTSAGKTVVAEYAIAMSLRE-K--QRVIYTSPIKALSNQKYRELLEEFK--DVGLMTGDVTIN--------------- 209 (1041)
T ss_pred EeecCCCcchHHHHHHHHHHHh-c--CeEEeeChhhhhcchhHHHHHHHhc--ccceeecceeeC---------------
Confidence 3447789998764 33333333 2 5788888864 44576677654332 344456643210
Q ss_pred ccccCCccccccCCCCeEEEecHHHHHh----chhccccccccEEEEeCCcccCCcccH-HH-HHHhcc-ccccEEEEec
Q psy1090 84 PAKKGKTKKQISLKLPLILVTTPQIIEN----DFGFLKKITWNCIIVDEGHSVKNKKSK-LS-IKLTAL-RATFKVLLTG 156 (169)
Q Consensus 84 ~~~~~~~~~~~~~~~~ii~i~ty~~~~~----~~~~~~~~~~~~vi~DEah~~k~~~~~-~~-~~~~~l-~~~~~~~lT~ 156 (169)
..... ++.|-+.++. ..+.++ +..+||+||.|+++...-- .+ .-+..+ +..+-++|||
T Consensus 210 ------------P~ASC-LVMTTEILRsMLYRGSEvmr--EVaWVIFDEIHYMRDkERGVVWEETIIllP~~vr~VFLSA 274 (1041)
T KOG0948|consen 210 ------------PDASC-LVMTTEILRSMLYRGSEVMR--EVAWVIFDEIHYMRDKERGVVWEETIILLPDNVRFVFLSA 274 (1041)
T ss_pred ------------CCCce-eeeHHHHHHHHHhccchHhh--eeeeEEeeeehhccccccceeeeeeEEeccccceEEEEec
Confidence 33333 7777777653 334444 5567999999999863211 11 223334 4556688999
Q ss_pred cCC
Q psy1090 157 WYY 159 (169)
Q Consensus 157 TP~ 159 (169)
|-.
T Consensus 275 TiP 277 (1041)
T KOG0948|consen 275 TIP 277 (1041)
T ss_pred cCC
Confidence 954
No 168
>KOG0920|consensus
Probab=97.12 E-value=0.0048 Score=52.11 Aligned_cols=137 Identities=19% Similarity=0.127 Sum_probs=72.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCC-ceEEEecCc--c--hHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALE-PNLIVCPLS--V--LNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSL 78 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~-~~Liv~P~~--~--l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 78 (169)
++..|+|.|||.++-.+|..-....... ++++--|.- . +.+++..=+....+ +.+-|.-.-..+.
T Consensus 192 vIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g-~~VGYqvrl~~~~--------- 261 (924)
T KOG0920|consen 192 VISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLG-EEVGYQVRLESKR--------- 261 (924)
T ss_pred EEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccC-CeeeEEEeeeccc---------
Confidence 5778999999999999987654333222 322222542 2 23444322211122 2221111100000
Q ss_pred CCcccccccCCccccccCCCCeEEEecHHHHHhchhc-cccccccEEEEeCCcccCCcccHH-HHHHhcc----ccccEE
Q psy1090 79 PTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF-LKKITWNCIIVDEGHSVKNKKSKL-SIKLTAL----RATFKV 152 (169)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~-~~~~~~~~vi~DEah~~k~~~~~~-~~~~~~l----~~~~~~ 152 (169)
..... +.++|...+-+.... -.-....-+|+||+|. ++-.+.. ...++.+ +.-+.+
T Consensus 262 ----------------s~~t~-L~fcTtGvLLr~L~~~~~l~~vthiivDEVHE-R~i~~DflLi~lk~lL~~~p~LkvI 323 (924)
T KOG0920|consen 262 ----------------SRETR-LLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHE-RSINTDFLLILLKDLLPRNPDLKVI 323 (924)
T ss_pred ----------------CCcee-EEEecHHHHHHHhccCcccccCceeeeeeEEE-ccCCcccHHHHHHHHhhhCCCceEE
Confidence 02233 378888877664432 2223567899999995 2333332 3333332 345579
Q ss_pred EEeccCCCCCchhhcc
Q psy1090 153 LLTGWYYPNKWSKQCT 168 (169)
Q Consensus 153 ~lT~TP~~n~~~el~~ 168 (169)
+||||--...+++.|.
T Consensus 324 LMSAT~dae~fs~YF~ 339 (924)
T KOG0920|consen 324 LMSATLDAELFSDYFG 339 (924)
T ss_pred EeeeecchHHHHHHhC
Confidence 9999988666666653
No 169
>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=97.09 E-value=0.0015 Score=54.06 Aligned_cols=125 Identities=18% Similarity=0.202 Sum_probs=69.0
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhC-CCceEEEEeCCHHHHHHHHHhhhcCCCcc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFA-PFVRTVKYYGNAIERKALQSEALSLPTIK 82 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 82 (169)
+--.||+|||...+-++..... .+..++|+|.=. +++.+-...++... + ....|....... +..
T Consensus 54 VRSpMGTGKTtaLi~wLk~~l~-~~~~~VLvVShRrSL~~sL~~rf~~~~l~--gFv~Y~d~~~~~--i~~--------- 119 (824)
T PF02399_consen 54 VRSPMGTGKTTALIRWLKDALK-NPDKSVLVVSHRRSLTKSLAERFKKAGLS--GFVNYLDSDDYI--IDG--------- 119 (824)
T ss_pred EECCCCCCcHHHHHHHHHHhcc-CCCCeEEEEEhHHHHHHHHHHHHhhcCCC--cceeeecccccc--ccc---------
Confidence 4468999999887777655432 345678888664 66677666665442 2 222233221110 000
Q ss_pred cccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCC----cc----cHHHHHHhcc--ccccEE
Q psy1090 83 VPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKN----KK----SKLSIKLTAL--RATFKV 152 (169)
Q Consensus 83 ~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~----~~----~~~~~~~~~l--~~~~~~ 152 (169)
...+- +++..+++.+....+. .+||+||+||+-..-+ +. ......+..+ +++..+
T Consensus 120 -------------~~~~r-LivqIdSL~R~~~~~l-~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI 184 (824)
T PF02399_consen 120 -------------RPYDR-LIVQIDSLHRLDGSLL-DRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVI 184 (824)
T ss_pred -------------cccCe-EEEEehhhhhcccccc-cccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEE
Confidence 12334 7777777766544311 2499999999753211 11 1112222222 688888
Q ss_pred EEeccC
Q psy1090 153 LLTGWY 158 (169)
Q Consensus 153 ~lT~TP 158 (169)
+|-||-
T Consensus 185 ~~DA~l 190 (824)
T PF02399_consen 185 VMDADL 190 (824)
T ss_pred EecCCC
Confidence 888774
No 170
>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=97.05 E-value=0.01 Score=50.84 Aligned_cols=66 Identities=9% Similarity=-0.095 Sum_probs=39.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec-CcchHHHHHHHHHhC--CCceEEEEeCCHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP-LSVLNNWEAEFRKFA--PFVRTVKYYGNAIERK 69 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P-~~~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~ 69 (169)
+-.-.+|.|||+.=.-++..+......-+.-|..= .++.-|-.+++++-. .+...-+..|+...+.
T Consensus 435 vNMASTGcGKT~aNARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L~~ddLAVlIGs~Av~~ 503 (1110)
T TIGR02562 435 VNMASTGCGKTLANARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNLSDDDLAVLIGGTAVQT 503 (1110)
T ss_pred EEecCCCcchHHHHHHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCCCccceEEEECHHHHHH
Confidence 44568999999765444444433333234444443 355567778877544 4566677777665544
No 171
>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=97.04 E-value=0.0029 Score=46.19 Aligned_cols=24 Identities=8% Similarity=-0.115 Sum_probs=17.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.+|.-++|+|||..+-++...+..
T Consensus 45 vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHh
Confidence 467889999999888776655433
No 172
>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=97.02 E-value=0.0041 Score=43.51 Aligned_cols=34 Identities=9% Similarity=0.109 Sum_probs=23.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
+|.-.+|.|||.++.-+..++..+ ..++.+++-.
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D 38 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK--GKKVALISAD 38 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEES
T ss_pred EEECCCCCchHhHHHHHHHHHhhc--cccceeecCC
Confidence 456789999999998888777655 4556666654
No 173
>KOG0334|consensus
Probab=97.02 E-value=0.0037 Score=52.79 Aligned_cols=137 Identities=19% Similarity=0.244 Sum_probs=77.3
Q ss_pred ccccCCCCCcHHHHHH-HHHHHHHHhCC----CCc-eEEEecC-cchHHHHHHHHHhC--CCceEEEEeCCHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVI-AFFCKIIEEQA----LEP-NLIVCPL-SVLNNWEAEFRKFA--PFVRTVKYYGNAIERKALQS 73 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i-~~i~~~~~~~~----~~~-~Liv~P~-~~l~qW~~e~~~~~--~~~~~~~~~g~~~~~~~~~~ 73 (169)
+|=.-.+|+|||+.-+ -.+..+..+.+ .+| .+|+||. .+..|-.+++.+|. -+.+++..+|......++..
T Consensus 405 vIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~qiae 484 (997)
T KOG0334|consen 405 VIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAE 484 (997)
T ss_pred eEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHHHHH
Confidence 4445679999997652 22333332221 255 5899997 66667666666665 35666666655444444443
Q ss_pred hhhcCCCcccccccCCccccccCCCCeEEEecHHHH----Hhchhccccc-cccEEEEeCCcccCC--cccHHHHHHhcc
Q psy1090 74 EALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQII----ENDFGFLKKI-TWNCIIVDEGHSVKN--KKSKLSIKLTAL 146 (169)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~----~~~~~~~~~~-~~~~vi~DEah~~k~--~~~~~~~~~~~l 146 (169)
.. ....| +|.|.... ..+...+.++ ..-++|+|||.++-. ...+..+.+..+
T Consensus 485 lk--------------------Rg~eI-vV~tpGRmiD~l~~n~grvtnlrR~t~lv~deaDrmfdmgfePq~~~Ii~nl 543 (997)
T KOG0334|consen 485 LK--------------------RGAEI-VVCTPGRMIDILCANSGRVTNLRRVTYLVLDEADRMFDMGFEPQITRILQNL 543 (997)
T ss_pred Hh--------------------cCCce-EEeccchhhhhHhhcCCccccccccceeeechhhhhheeccCcccchHHhhc
Confidence 32 23556 66665443 3333333333 355899999998642 234445566666
Q ss_pred cc-ccEEEEeccCCC
Q psy1090 147 RA-TFKVLLTGWYYP 160 (169)
Q Consensus 147 ~~-~~~~~lT~TP~~ 160 (169)
+. +..++.|||-+.
T Consensus 544 rpdrQtvlfSatfpr 558 (997)
T KOG0334|consen 544 RPDRQTVLFSATFPR 558 (997)
T ss_pred chhhhhhhhhhhhhH
Confidence 43 334556666543
No 174
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=97.00 E-value=0.0081 Score=51.07 Aligned_cols=60 Identities=7% Similarity=-0.087 Sum_probs=36.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH---HHHHHHHHhCCCceEEEEeC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN---NWEAEFRKFAPFVRTVKYYG 63 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~---qW~~e~~~~~~~~~~~~~~g 63 (169)
|.|--+.+|=|||+++..-+ ++-.-...+-.+|-+...+.. +|...+-+|. ++.+.....
T Consensus 153 G~IAEM~TGEGKTLvatlp~-yLnAL~G~gVHvVTvNDYLA~RDaewm~p~y~fl-GLtVg~i~~ 215 (1025)
T PRK12900 153 GKISEMATGEGKTLVSTLPT-FLNALTGRGVHVVTVNDYLAQRDKEWMNPVFEFH-GLSVGVILN 215 (1025)
T ss_pred CCccccCCCCCcchHhHHHH-HHHHHcCCCcEEEeechHhhhhhHHHHHHHHHHh-CCeeeeeCC
Confidence 55667889999998754222 111112234455555556653 7999999998 666665543
No 175
>PRK06526 transposase; Provisional
Probab=96.98 E-value=0.0048 Score=44.93 Aligned_cols=43 Identities=16% Similarity=0.225 Sum_probs=27.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
+.+|...+|+|||..+.++.......+ .+++++. ..+|.+++.
T Consensus 100 nlll~Gp~GtGKThLa~al~~~a~~~g--~~v~f~t----~~~l~~~l~ 142 (254)
T PRK06526 100 NVVFLGPPGTGKTHLAIGLGIRACQAG--HRVLFAT----AAQWVARLA 142 (254)
T ss_pred eEEEEeCCCCchHHHHHHHHHHHHHCC--Cchhhhh----HHHHHHHHH
Confidence 456778999999999988876655433 3444432 234555553
No 176
>KOG0344|consensus
Probab=96.96 E-value=0.00056 Score=54.15 Aligned_cols=113 Identities=19% Similarity=0.198 Sum_probs=64.2
Q ss_pred ccccCCCCCcHHHHHHHH-HHHHHHhC----CC-CceEEEecC-cchHHHHHHHHHhC--CCc--eEEEEeCCHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAF-FCKIIEEQ----AL-EPNLIVCPL-SVLNNWEAEFRKFA--PFV--RTVKYYGNAIERKAL 71 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~-i~~~~~~~----~~-~~~Liv~P~-~~l~qW~~e~~~~~--~~~--~~~~~~g~~~~~~~~ 71 (169)
++-+-.+|.|||+.-..= +..+.... .. -..+|+.|. .+..|-++|..++. +.. ....+..+.....
T Consensus 176 ~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~q-- 253 (593)
T KOG0344|consen 176 VLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQ-- 253 (593)
T ss_pred eEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhh--
Confidence 455678999998654433 22332222 22 378999997 67789999998886 211 1111111100000
Q ss_pred HHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchhc----cccccccEEEEeCCcccCCc
Q psy1090 72 QSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGF----LKKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~----~~~~~~~~vi~DEah~~k~~ 135 (169)
+.........|+ ++.|+..+...... +.-....++|+|||..+..+
T Consensus 254 -----------------k~a~~~~~k~di-li~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD~lfe~ 303 (593)
T KOG0344|consen 254 -----------------KPAFLSDEKYDI-LISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLLFEP 303 (593)
T ss_pred -----------------ccchhHHHHHHH-HhcCHHHHHHHhcCCCccchhheeeeEeechHHhhhCh
Confidence 000011144455 88888777665543 22335678999999999887
No 177
>KOG0333|consensus
Probab=96.95 E-value=0.0021 Score=50.70 Aligned_cols=111 Identities=17% Similarity=0.232 Sum_probs=65.4
Q ss_pred ccccCCCCCcHHHH----HHHHHHHHH-----HhCCCC-ceEEEecC-cchHHHHHHHHHhCC--CceEEEEeCCHHHHH
Q psy1090 3 TVIPDPTRYRKSGK----VIAFFCKII-----EEQALE-PNLIVCPL-SVLNNWEAEFRKFAP--FVRTVKYYGNAIERK 69 (169)
Q Consensus 3 ~iL~de~G~GKT~~----~i~~i~~~~-----~~~~~~-~~Liv~P~-~~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~ 69 (169)
-|..-|+|+|||.. .+..|..+- +....+ ..+|++|. .+.+|-.+|-.+|.. +.+++...|...-..
T Consensus 285 ~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EE 364 (673)
T KOG0333|consen 285 PIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEE 364 (673)
T ss_pred eeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchhh
Confidence 45667999999932 333333221 122223 57999997 666788888888873 456665555433222
Q ss_pred HHHHhhhcCCCcccccccCCccccccCCCCeEEEecHHHHHhchh--ccccccccEEEEeCCcccCC
Q psy1090 70 ALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFG--FLKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~--~~~~~~~~~vi~DEah~~k~ 134 (169)
+-... ...+.+ ++.|+..+..-.+ .+...+-.++|+|||.++-.
T Consensus 365 q~fql--------------------s~gcei-viatPgrLid~Lenr~lvl~qctyvvldeadrmiD 410 (673)
T KOG0333|consen 365 QGFQL--------------------SMGCEI-VIATPGRLIDSLENRYLVLNQCTYVVLDEADRMID 410 (673)
T ss_pred hhhhh--------------------hcccee-eecCchHHHHHHHHHHHHhccCceEeccchhhhhc
Confidence 11111 156677 8888877654322 12223556899999997654
No 178
>KOG0332|consensus
Probab=96.94 E-value=0.0016 Score=49.30 Aligned_cols=132 Identities=11% Similarity=0.159 Sum_probs=69.2
Q ss_pred cCCCCCcHHHH-HHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccc
Q psy1090 6 PDPTRYRKSGK-VIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKV 83 (169)
Q Consensus 6 ~de~G~GKT~~-~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 83 (169)
....|+|||.. +++.++.....-..-..+-++|. .+..|-.+-+.+......+-..+.-.+.+..
T Consensus 135 QsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~------------- 201 (477)
T KOG0332|consen 135 QSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAK------------- 201 (477)
T ss_pred hhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHHHHHHHHHhcCceeeeEEEEecCcccc-------------
Confidence 45689999965 33333322222222235556897 6667766666655532222222221111100
Q ss_pred ccccCCccccccCCCCeEEEecHHHHHhchhcccc---ccccEEEEeCCcccCCcc---cHHHHHHhccc-cccEEEEec
Q psy1090 84 PAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKK---ITWNCIIVDEGHSVKNKK---SKLSIKLTALR-ATFKVLLTG 156 (169)
Q Consensus 84 ~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~---~~~~~vi~DEah~~k~~~---~~~~~~~~~l~-~~~~~~lT~ 156 (169)
....-..+ |++-|...+......+.. .....+++|||..+-+.. -...+.-+.+. ....++.||
T Consensus 202 --------rG~~i~eq-IviGTPGtv~Dlm~klk~id~~kikvfVlDEAD~Mi~tqG~~D~S~rI~~~lP~~~QllLFSA 272 (477)
T KOG0332|consen 202 --------RGNKLTEQ-IVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSLPRNQQLLLFSA 272 (477)
T ss_pred --------cCCcchhh-eeeCCCccHHHHHHHHHhhChhhceEEEecchhhhhhcccccccchhhhhhcCCcceEEeeec
Confidence 00002223 488888887766555443 356799999999765533 11223333443 556788898
Q ss_pred cCC
Q psy1090 157 WYY 159 (169)
Q Consensus 157 TP~ 159 (169)
|-.
T Consensus 273 Tf~ 275 (477)
T KOG0332|consen 273 TFV 275 (477)
T ss_pred hhH
Confidence 854
No 179
>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=96.91 E-value=0.0082 Score=38.90 Aligned_cols=41 Identities=20% Similarity=0.122 Sum_probs=25.0
Q ss_pred cccEEEEeCCcccCCcc-cHHHHHHhcc------ccccEEEEeccCCC
Q psy1090 120 TWNCIIVDEGHSVKNKK-SKLSIKLTAL------RATFKVLLTGWYYP 160 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~-~~~~~~~~~l------~~~~~~~lT~TP~~ 160 (169)
+..++++||++.+.... ......+..+ .....+++++.+..
T Consensus 84 ~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 84 KPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred CCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 45689999999873222 2223334433 24667888888665
No 180
>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=96.88 E-value=0.013 Score=45.04 Aligned_cols=46 Identities=11% Similarity=0.030 Sum_probs=31.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRK 51 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~ 51 (169)
++.-++|.|||..++.++...... .++++++.-.....|......+
T Consensus 86 LI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs~~qi~~Ra~r 131 (372)
T cd01121 86 LIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEESPEQIKLRADR 131 (372)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCcCHHHHHHHHHH
Confidence 567799999998888877655443 2578888766555665544443
No 181
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.85 E-value=0.0097 Score=49.09 Aligned_cols=53 Identities=15% Similarity=0.199 Sum_probs=40.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCCCceEEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAPFVRTVKY 61 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~~~~~~~~ 61 (169)
+|..-+|+|||+++..++.. ..+|+|||+|+. ...||..|++.|+|+-.+..|
T Consensus 33 ~l~Gvtgs~kt~~~a~~~~~-----~~~p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f 86 (655)
T TIGR00631 33 TLLGVTGSGKTFTMANVIAQ-----VNRPTLVIAHNKTLAAQLYNEFKEFFPENAVEYF 86 (655)
T ss_pred EEECCCCcHHHHHHHHHHHH-----hCCCEEEEECCHHHHHHHHHHHHHhCCCCeEEEE
Confidence 35566899999988766543 246999999985 556999999999987545544
No 182
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.80 E-value=0.023 Score=44.00 Aligned_cols=33 Identities=9% Similarity=0.073 Sum_probs=22.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
.|....|+|||.++..+...+... ..++.++..
T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~~~--GkkVglI~a 277 (436)
T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFHGK--KKTVGFITT 277 (436)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHc--CCcEEEEec
Confidence 456679999998888776655432 245655554
No 183
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=96.80 E-value=0.012 Score=50.28 Aligned_cols=59 Identities=7% Similarity=-0.051 Sum_probs=36.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH---HHHHHHHHhCCCceEEEEe
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN---NWEAEFRKFAPFVRTVKYY 62 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~---qW~~e~~~~~~~~~~~~~~ 62 (169)
|.|--+.+|=|||+++..-+. +-.-...+-.+|-+...+.. +|...+-+|. ++.+....
T Consensus 184 G~IAEM~TGEGKTLvAtlp~y-LnAL~GkgVHvVTVNDYLA~RDaewmgply~fL-GLsvg~i~ 245 (1112)
T PRK12901 184 GKIAEMATGEGKTLVATLPVY-LNALTGNGVHVVTVNDYLAKRDSEWMGPLYEFH-GLSVDCID 245 (1112)
T ss_pred CceeeecCCCCchhHHHHHHH-HHHHcCCCcEEEEechhhhhccHHHHHHHHHHh-CCceeecC
Confidence 556678899999987643221 11112234455555556653 7999999998 67666553
No 184
>KOG0951|consensus
Probab=96.79 E-value=0.006 Score=52.84 Aligned_cols=104 Identities=20% Similarity=0.270 Sum_probs=70.0
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-----HHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-----NNWEAEFRKFAPFVRTVKYYGNAIERKALQSEAL 76 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-----~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 76 (169)
+.+++-..|+|||+++--.+.. ....++++-++|.+.+ ..|...|... .+..+...+|...-..++.
T Consensus 1161 ~v~vga~~gsgkt~~ae~a~l~---~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~~~l~ge~s~~lkl~---- 1232 (1674)
T KOG0951|consen 1161 NVLVGAPNGSGKTACAELALLR---PDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRIVKLTGETSLDLKLL---- 1232 (1674)
T ss_pred eEEEecCCCCchhHHHHHHhcC---CccceEEEEecchHHHHHHHHHHHHHhhccc-cCceEEecCCccccchHHh----
Confidence 3578889999999766433222 3345688999998754 3577777666 4777787887654433222
Q ss_pred cCCCcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcc
Q psy1090 77 SLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKK 136 (169)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~ 136 (169)
...++ +|.|++...... .-...++.|+||.|.+.+..
T Consensus 1233 -------------------~~~~v-ii~tpe~~d~lq---~iQ~v~l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1233 -------------------QKGQV-IISTPEQWDLLQ---SIQQVDLFIVDELHLIGGVY 1269 (1674)
T ss_pred -------------------hhcce-EEechhHHHHHh---hhhhcceEeeehhhhhcccC
Confidence 44555 888887765442 23467899999999987644
No 185
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.79 E-value=0.0043 Score=47.05 Aligned_cols=41 Identities=27% Similarity=0.275 Sum_probs=29.4
Q ss_pred cccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCC
Q psy1090 118 KITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYP 160 (169)
Q Consensus 118 ~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~ 160 (169)
.++-.++|+||||.+.- ...--.+.+.-...++++||-|-|
T Consensus 349 Sl~~~FiIIDEaQNLTp--heikTiltR~G~GsKIVl~gd~aQ 389 (436)
T COG1875 349 SLPDSFIIIDEAQNLTP--HELKTILTRAGEGSKIVLTGDPAQ 389 (436)
T ss_pred ccccceEEEehhhccCH--HHHHHHHHhccCCCEEEEcCCHHH
Confidence 34556899999999852 233344556677889999998875
No 186
>KOG0326|consensus
Probab=96.74 E-value=0.0035 Score=46.68 Aligned_cols=128 Identities=15% Similarity=0.127 Sum_probs=75.6
Q ss_pred CCCCcHHHHHH-HHHHHHHHhCCCCceEEEecC-cch---HHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcc
Q psy1090 8 PTRYRKSGKVI-AFFCKIIEEQALEPNLIVCPL-SVL---NNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIK 82 (169)
Q Consensus 8 e~G~GKT~~~i-~~i~~~~~~~~~~~~Liv~P~-~~l---~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 82 (169)
-.|+|||-..+ -.+..+......=..+|++|. .+. .|-..++.++. +..+++.+|...-+..+-...
T Consensus 130 KNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~-~i~vmvttGGT~lrDDI~Rl~------- 201 (459)
T KOG0326|consen 130 KNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHL-GIKVMVTTGGTSLRDDIMRLN------- 201 (459)
T ss_pred cCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHHHhccc-CeEEEEecCCcccccceeeec-------
Confidence 46999995422 222222222222368999996 332 35667777777 688888888655444332211
Q ss_pred cccccCCccccccCCCCeEEEecHHHHHhchh----ccccccccEEEEeCCcccCCccc--HHHHHHhcc-ccccEEEEe
Q psy1090 83 VPAKKGKTKKQISLKLPLILVTTPQIIENDFG----FLKKITWNCIIVDEGHSVKNKKS--KLSIKLTAL-RATFKVLLT 155 (169)
Q Consensus 83 ~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~----~~~~~~~~~vi~DEah~~k~~~~--~~~~~~~~l-~~~~~~~lT 155 (169)
....+ ++.|+..+..... .++ +-.++|+|||..+-+.+- ...+.+..+ +.+..++.|
T Consensus 202 -------------~~VH~-~vgTPGRIlDL~~KgVa~ls--~c~~lV~DEADKlLs~~F~~~~e~li~~lP~~rQillyS 265 (459)
T KOG0326|consen 202 -------------QTVHL-VVGTPGRILDLAKKGVADLS--DCVILVMDEADKLLSVDFQPIVEKLISFLPKERQILLYS 265 (459)
T ss_pred -------------CceEE-EEcCChhHHHHHhcccccch--hceEEEechhhhhhchhhhhHHHHHHHhCCccceeeEEe
Confidence 33344 8888877654332 222 345899999998765332 223444445 566678889
Q ss_pred ccCC
Q psy1090 156 GWYY 159 (169)
Q Consensus 156 ~TP~ 159 (169)
||-.
T Consensus 266 ATFP 269 (459)
T KOG0326|consen 266 ATFP 269 (459)
T ss_pred cccc
Confidence 9854
No 187
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=96.74 E-value=0.01 Score=49.81 Aligned_cols=59 Identities=10% Similarity=-0.102 Sum_probs=36.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-ch---HHHHHHHHHhCCCceEEEEeC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VL---NNWEAEFRKFAPFVRTVKYYG 63 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l---~qW~~e~~~~~~~~~~~~~~g 63 (169)
|.|--+.+|=|||+++..-+ + ...-..+.+=||..+. +. .+|...+-+|. ++.+.+...
T Consensus 93 G~IAEMkTGEGKTLvAtLpa-y-LnAL~GkgVhVVTvNdYLA~RDae~mg~vy~fL-GLsvG~i~~ 155 (925)
T PRK12903 93 GSVAEMKTGEGKTITSIAPV-Y-LNALTGKGVIVSTVNEYLAERDAEEMGKVFNFL-GLSVGINKA 155 (925)
T ss_pred CCeeeecCCCCccHHHHHHH-H-HHHhcCCceEEEecchhhhhhhHHHHHHHHHHh-CCceeeeCC
Confidence 55667889999998764322 2 1111124455555554 43 37999999888 666665543
No 188
>KOG1132|consensus
Probab=96.74 E-value=0.037 Score=46.42 Aligned_cols=37 Identities=11% Similarity=0.159 Sum_probs=23.9
Q ss_pred CCCCeEEEecHHHHHhch-hccc--cccccEEEEeCCcccC
Q psy1090 96 LKLPLILVTTPQIIENDF-GFLK--KITWNCIIVDEGHSVK 133 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~-~~~~--~~~~~~vi~DEah~~k 133 (169)
...|+ +++.|+.+.+.. .... +++-.+||+||||.+-
T Consensus 221 edAdI-IF~PYnYLiDp~iR~~~~v~LknsIVIfDEAHNiE 260 (945)
T KOG1132|consen 221 EDADI-IFCPYNYLIDPKIRRSHKVDLKNSIVIFDEAHNIE 260 (945)
T ss_pred ccCcE-EEechhhhcCHhhhccccccccccEEEEeccccHH
Confidence 45566 889998886432 1111 2334599999999863
No 189
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.018 Score=44.40 Aligned_cols=87 Identities=11% Similarity=0.103 Sum_probs=59.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKV 83 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 83 (169)
+++-|+|.||+...+-+++.+..++ ++|.|.=....+||.-...+..-
T Consensus 97 LIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES~~QiklRA~RL~~----------------------------- 144 (456)
T COG1066 97 LIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEESLQQIKLRADRLGL----------------------------- 144 (456)
T ss_pred EEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcCHHHHHHHHHHhCC-----------------------------
Confidence 5788999999977776666554433 89999999999999988877641
Q ss_pred ccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCc
Q psy1090 84 PAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 84 ~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~ 135 (169)
...++ .+.....+..-...+.+.+++++|+|-.|.+-++
T Consensus 145 ------------~~~~l-~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~ 183 (456)
T COG1066 145 ------------PTNNL-YLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSE 183 (456)
T ss_pred ------------Cccce-EEehhcCHHHHHHHHHhcCCCEEEEeccceeecc
Confidence 11112 4444444444445555678888888888876543
No 190
>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=96.58 E-value=0.013 Score=45.51 Aligned_cols=38 Identities=16% Similarity=0.197 Sum_probs=22.0
Q ss_pred ccEEEEeCCcccCCcccH---HHHHHhcc-ccccEEEEeccC
Q psy1090 121 WNCIIVDEGHSVKNKKSK---LSIKLTAL-RATFKVLLTGWY 158 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~---~~~~~~~l-~~~~~~~lT~TP 158 (169)
.+++++||.|.+.+.... ....+..+ .....+++|++-
T Consensus 200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~ 241 (405)
T TIGR00362 200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR 241 (405)
T ss_pred CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence 578999999988653221 12222222 334567777763
No 191
>PRK08116 hypothetical protein; Validated
Probab=96.54 E-value=0.015 Score=42.69 Aligned_cols=34 Identities=15% Similarity=0.110 Sum_probs=25.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
|.+|.-++|+|||..+.+++..+...+ .+++++-
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~--~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKG--VPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEE
Confidence 467888999999999988887776542 4555444
No 192
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.54 E-value=0.036 Score=43.46 Aligned_cols=34 Identities=9% Similarity=0.077 Sum_probs=21.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
.+.-.+|+|||.++..++..+.......++.+|.
T Consensus 225 ~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~ 258 (424)
T PRK05703 225 ALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT 258 (424)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence 3556799999999888776654122224555554
No 193
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.47 E-value=0.014 Score=46.05 Aligned_cols=40 Identities=18% Similarity=0.164 Sum_probs=22.3
Q ss_pred cccEEEEeCCcccCCcccHHHHHHh---cc-ccccEEEEeccCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLT---AL-RATFKVLLTGWYY 159 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~---~l-~~~~~~~lT~TP~ 159 (169)
..+++++||.|.+.+........+. .+ .....+++|++-.
T Consensus 211 ~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~ 254 (450)
T PRK00149 211 SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRP 254 (450)
T ss_pred cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCC
Confidence 4678999999998653321112222 22 2334577776543
No 194
>PRK14974 cell division protein FtsY; Provisional
Probab=96.44 E-value=0.031 Score=42.43 Aligned_cols=45 Identities=9% Similarity=0.028 Sum_probs=27.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC----cchHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL----SVLNNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~----~~l~qW~~e~~ 50 (169)
++...+|+|||.++..++..+...+ .+++++... ....||.....
T Consensus 144 ~~~G~~GvGKTTtiakLA~~l~~~g--~~V~li~~Dt~R~~a~eqL~~~a~ 192 (336)
T PRK14974 144 VFVGVNGTGKTTTIAKLAYYLKKNG--FSVVIAAGDTFRAGAIEQLEEHAE 192 (336)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcCcHHHHHHHHHHHH
Confidence 3566899999988877766554332 456555543 23456654444
No 195
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.44 E-value=0.018 Score=45.45 Aligned_cols=38 Identities=13% Similarity=0.182 Sum_probs=21.5
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEecc
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGW 157 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~T 157 (169)
..+++|+||.|.+.+.....-..+..+ .....+++|+.
T Consensus 206 ~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd 247 (450)
T PRK14087 206 QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSD 247 (450)
T ss_pred cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECC
Confidence 457899999998865332212222222 33446777743
No 196
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.40 E-value=0.066 Score=41.36 Aligned_cols=121 Identities=13% Similarity=0.186 Sum_probs=64.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCce-EEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPN-LIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIK 82 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~-Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 82 (169)
.|...+|.|||.+..-++..+......+++ +|-.-+.-+. -.++++.|+. .
T Consensus 207 ~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIG-A~EQLk~Ya~--------------------i------- 258 (407)
T COG1419 207 ALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIG-AVEQLKTYAD--------------------I------- 258 (407)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhh-HHHHHHHHHH--------------------H-------
Confidence 467799999998877776655522223344 4433343322 1223433320 0
Q ss_pred cccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccC
Q psy1090 83 VPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWY 158 (169)
Q Consensus 83 ~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP 158 (169)
-..++.++.+..-+......+.+ .|+|.+|=+-+...+..+..+.-..+ .....+.||+|-
T Consensus 259 -------------m~vp~~vv~~~~el~~ai~~l~~--~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~ 323 (407)
T COG1419 259 -------------MGVPLEVVYSPKELAEAIEALRD--CDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT 323 (407)
T ss_pred -------------hCCceEEecCHHHHHHHHHHhhc--CCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc
Confidence 22233366666666665555553 37888887665443333322222212 345568888887
Q ss_pred CCCCchhhc
Q psy1090 159 YPNKWSKQC 167 (169)
Q Consensus 159 ~~n~~~el~ 167 (169)
=.+++.++|
T Consensus 324 K~~dlkei~ 332 (407)
T COG1419 324 KYEDLKEII 332 (407)
T ss_pred chHHHHHHH
Confidence 777766654
No 197
>PRK08727 hypothetical protein; Validated
Probab=96.36 E-value=0.038 Score=39.69 Aligned_cols=22 Identities=14% Similarity=0.166 Sum_probs=15.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
+|..++|+|||-.+-++.....
T Consensus 45 ~l~G~~G~GKThL~~a~~~~~~ 66 (233)
T PRK08727 45 YLSGPAGTGKTHLALALCAAAE 66 (233)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 5677889999977766655543
No 198
>KOG0924|consensus
Probab=96.35 E-value=0.0056 Score=49.97 Aligned_cols=48 Identities=19% Similarity=0.195 Sum_probs=28.2
Q ss_pred ccccEEEEeCCcccCCcccHH-HHHHhcc----ccccEEEEeccCCCCCchhhc
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKL-SIKLTAL----RATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~-~~~~~~l----~~~~~~~lT~TP~~n~~~el~ 167 (169)
.++.++|+||||.=. -++.. .-.++.+ +.-..++.|||.=...+.++|
T Consensus 467 ~kYSviImDEAHERs-lNtDilfGllk~~larRrdlKliVtSATm~a~kf~nfF 519 (1042)
T KOG0924|consen 467 DKYSVIIMDEAHERS-LNTDILFGLLKKVLARRRDLKLIVTSATMDAQKFSNFF 519 (1042)
T ss_pred hheeEEEechhhhcc-cchHHHHHHHHHHHHhhccceEEEeeccccHHHHHHHh
Confidence 378899999999521 22322 2223322 222357788998766666655
No 199
>PLN03025 replication factor C subunit; Provisional
Probab=96.30 E-value=0.033 Score=41.92 Aligned_cols=42 Identities=14% Similarity=0.143 Sum_probs=24.7
Q ss_pred cccEEEEeCCcccCCcccHH-HHHHhccccccEEEEeccCCCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKL-SIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~-~~~~~~l~~~~~~~lT~TP~~n 161 (169)
.+.++|+||+|.+....... .+.+.......+++++.++...
T Consensus 99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~ 141 (319)
T PLN03025 99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSK 141 (319)
T ss_pred CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccc
Confidence 57899999999985322111 1222222444567777766543
No 200
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=96.30 E-value=0.031 Score=45.87 Aligned_cols=118 Identities=9% Similarity=0.058 Sum_probs=62.5
Q ss_pred CcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHH----hCCCceEEEEeCCHHHHHHHHHhhhcCCCccccc
Q psy1090 11 YRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRK----FAPFVRTVKYYGNAIERKALQSEALSLPTIKVPA 85 (169)
Q Consensus 11 ~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~----~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 85 (169)
-|||..+...+..+...-..-.+++++|. .+.+.-.+|+.. |+|...+-...|. ...+...
T Consensus 265 ~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkGe--------~I~i~f~------ 330 (738)
T PHA03368 265 HGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKGE--------TISFSFP------ 330 (738)
T ss_pred CCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecCc--------EEEEEec------
Confidence 59998777666666554445678999986 555566666654 4332222111110 0000000
Q ss_pred ccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHH--hccccccEEEEecc
Q psy1090 86 KKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKL--TALRATFKVLLTGW 157 (169)
Q Consensus 86 ~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~--~~l~~~~~~~lT~T 157 (169)
.+....|.+.| . ++.+..+...++++|+||||.++. ......+ ..-.....+.+|-|
T Consensus 331 ---------nG~kstI~FaS---a-rntNsiRGqtfDLLIVDEAqFIk~--~al~~ilp~l~~~n~k~I~ISS~ 389 (738)
T PHA03368 331 ---------DGSRSTIVFAS---S-HNTNGIRGQDFNLLFVDEANFIRP--DAVQTIMGFLNQTNCKIIFVSST 389 (738)
T ss_pred ---------CCCccEEEEEe---c-cCCCCccCCcccEEEEechhhCCH--HHHHHHHHHHhccCccEEEEecC
Confidence 01111224431 1 333455667999999999999974 2222222 22245667777755
No 201
>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=96.20 E-value=0.04 Score=39.06 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=22.8
Q ss_pred cEEEEeCCcccCCccc---HHHHHHhcc-ccccEEEEeccCCC
Q psy1090 122 NCIIVDEGHSVKNKKS---KLSIKLTAL-RATFKVLLTGWYYP 160 (169)
Q Consensus 122 ~~vi~DEah~~k~~~~---~~~~~~~~l-~~~~~~~lT~TP~~ 160 (169)
+++|+||+|.+..... .....+... ..+.++++|++...
T Consensus 92 ~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~ 134 (226)
T TIGR03420 92 DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAP 134 (226)
T ss_pred CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCCh
Confidence 6799999998864321 122222222 23457888887543
No 202
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.17 E-value=0.027 Score=44.42 Aligned_cols=47 Identities=11% Similarity=0.045 Sum_probs=33.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-++|+|||..++.++...... ..+++.+.-.....|......++
T Consensus 84 lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees~~qi~~ra~rl 130 (446)
T PRK11823 84 LIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEESASQIKLRAERL 130 (446)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccccHHHHHHHHHHc
Confidence 578899999998888887655432 35788888776666665555544
No 203
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.16 E-value=0.032 Score=40.71 Aligned_cols=46 Identities=20% Similarity=0.247 Sum_probs=31.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
|.+|--.+|+|||..+.|+...+... ..+++++.-+.++.+....+
T Consensus 107 nl~l~G~~G~GKThLa~Ai~~~l~~~--g~sv~f~~~~el~~~Lk~~~ 152 (254)
T COG1484 107 NLVLLGPPGVGKTHLAIAIGNELLKA--GISVLFITAPDLLSKLKAAF 152 (254)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHHHHHHH
Confidence 46778899999999999988877632 24566665555555544444
No 204
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.15 E-value=0.042 Score=44.83 Aligned_cols=40 Identities=15% Similarity=0.179 Sum_probs=22.9
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWYY 159 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP~ 159 (169)
..|++|+|+.|.+.+........+..+ .....+++|+.-.
T Consensus 377 ~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~ 420 (617)
T PRK14086 377 EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRP 420 (617)
T ss_pred cCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCC
Confidence 358899999998876443222222222 2344566666543
No 205
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.06 E-value=0.018 Score=39.33 Aligned_cols=54 Identities=15% Similarity=0.144 Sum_probs=34.7
Q ss_pred hccccccccEEEEeCCcccCCc----ccHHHHHHhccccccEEEEeccCCCCCchhhc
Q psy1090 114 GFLKKITWNCIIVDEGHSVKNK----KSKLSIKLTALRATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 114 ~~~~~~~~~~vi~DEah~~k~~----~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~ 167 (169)
..+..-++|++|+||.-..-+. .......+..-+...-++|||--.+..+.|+.
T Consensus 91 ~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~A 148 (173)
T TIGR00708 91 EMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELA 148 (173)
T ss_pred HHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhC
Confidence 3344568999999998743332 23344555555566689999987766555543
No 206
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.04 E-value=0.048 Score=45.60 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=25.8
Q ss_pred ccccEEEEeCCcccCCcccHHHHHHhcc---ccccEEEEeccCCCC
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKLSIKLTAL---RATFKVLLTGWYYPN 161 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~~~~~~~l---~~~~~~~lT~TP~~n 161 (169)
-+|.++||||+|.+... .....++.+ ....+++|+.|-.+.
T Consensus 118 gr~KVIIIDEah~LT~~--A~NALLKtLEEPP~~v~FILaTtd~~K 161 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNH--AFNAMLKTLEEPPPHVKFILATTDPQK 161 (830)
T ss_pred CCceEEEEeChhhCCHH--HHHHHHHHHHhcCCCeEEEEEECChhh
Confidence 36789999999999542 233344444 344567777665443
No 207
>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=96.03 E-value=0.024 Score=38.90 Aligned_cols=47 Identities=13% Similarity=0.103 Sum_probs=36.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-++|+|||..++.++...... ..+++++.......+..+.+..+
T Consensus 3 li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 3 LLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCCCHHHHHHHHHHc
Confidence 567899999999998887765533 36889998887777777666655
No 208
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.03 E-value=0.037 Score=42.29 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=19.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.++..+.|+|||..+..++..+..
T Consensus 48 ~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 48 LLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred EeeECCCCCCHHHHHHHHHHHHcC
Confidence 456889999999999888777665
No 209
>KOG0327|consensus
Probab=95.93 E-value=0.013 Score=44.47 Aligned_cols=137 Identities=16% Similarity=0.172 Sum_probs=72.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH-hCCCCceEEEecCcchHH-HHHHHHHhCCCceEEE--EeC-CHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE-EQALEPNLIVCPLSVLNN-WEAEFRKFAPFVRTVK--YYG-NAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~-~~~~~~~Liv~P~~~l~q-W~~e~~~~~~~~~~~~--~~g-~~~~~~~~~~~~~~ 77 (169)
.+..-+.|+|||.+-...+..... .....-+|+++|..-+.+ -..-...+.+..++.+ ..| ....+....-..
T Consensus 66 v~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~-- 143 (397)
T KOG0327|consen 66 VIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLK-- 143 (397)
T ss_pred eeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhc--
Confidence 344567899999873322222211 122236899999976654 3333333433333322 223 221111111110
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhch--hccccccccEEEEeCCcccCCc--ccHHHHHHhccc-cccEE
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNK--KSKLSIKLTALR-ATFKV 152 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~--~~~~~~~~~~l~-~~~~~ 152 (169)
....+ ++.|+..+..-. ..+..-...++++||+..+... ..+.+..+..++ ....+
T Consensus 144 ------------------~~~hi-vvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~ 204 (397)
T KOG0327|consen 144 ------------------DKPHI-VVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVV 204 (397)
T ss_pred ------------------cCcee-ecCCchhHHHhhccccccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhhe
Confidence 22333 777764443221 2445556789999999975543 344555556664 45678
Q ss_pred EEeccCCC
Q psy1090 153 LLTGWYYP 160 (169)
Q Consensus 153 ~lT~TP~~ 160 (169)
++|||...
T Consensus 205 l~SAT~p~ 212 (397)
T KOG0327|consen 205 LLSATMPS 212 (397)
T ss_pred eecccCcH
Confidence 88999763
No 210
>PTZ00293 thymidine kinase; Provisional
Probab=95.92 E-value=0.085 Score=37.30 Aligned_cols=34 Identities=9% Similarity=0.070 Sum_probs=24.3
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
+--.|++|||.+.|-.+...... .++++++-|..
T Consensus 9 i~GpMfSGKTteLLr~i~~y~~a--g~kv~~~kp~~ 42 (211)
T PTZ00293 9 IIGPMFSGKTTELMRLVKRFTYS--EKKCVVIKYSK 42 (211)
T ss_pred EECCCCChHHHHHHHHHHHHHHc--CCceEEEEecc
Confidence 45689999998777766544433 36788888864
No 211
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.90 E-value=0.055 Score=43.46 Aligned_cols=23 Identities=4% Similarity=-0.168 Sum_probs=18.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++....|+|||..+..+...+..
T Consensus 42 Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 42 LFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred EEECCCCCCHHHHHHHHHHHhcC
Confidence 57788999999888877766544
No 212
>KOG0925|consensus
Probab=95.87 E-value=0.011 Score=46.45 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=27.8
Q ss_pred ccccEEEEeCCcccCCcccHHHH-HHhcc----ccccEEEEeccCCCCCchhhc
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKLSI-KLTAL----RATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~~~-~~~~l----~~~~~~~lT~TP~~n~~~el~ 167 (169)
-.|+++|+||||.=. -.+.... .++.+ .--+.++||+|.....+...|
T Consensus 158 ~~y~viiLDeahERt-lATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf 210 (699)
T KOG0925|consen 158 GRYGVIILDEAHERT-LATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYF 210 (699)
T ss_pred ccccEEEechhhhhh-HHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHh
Confidence 379999999999621 1122211 11221 233468899998766555544
No 213
>KOG0989|consensus
Probab=95.83 E-value=0.0074 Score=44.74 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=16.8
Q ss_pred ccCCCCCcHHHHHHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~ 25 (169)
+-..+|+|||.++.++...+.
T Consensus 62 FyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 62 FYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred eeCCCCCcHhHHHHHHHHHhc
Confidence 345789999999999877654
No 214
>CHL00181 cbbX CbbX; Provisional
Probab=95.81 E-value=0.03 Score=41.60 Aligned_cols=25 Identities=4% Similarity=-0.063 Sum_probs=18.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
.+|.-++|+|||..|-++...+...
T Consensus 62 ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3677899999998887776655443
No 215
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=95.78 E-value=0.28 Score=33.12 Aligned_cols=53 Identities=17% Similarity=0.208 Sum_probs=34.2
Q ss_pred ccccccccEEEEeCCcccCC----cccHHHHHHhccccccEEEEeccCCCCCchhhc
Q psy1090 115 FLKKITWNCIIVDEGHSVKN----KKSKLSIKLTALRATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 115 ~~~~~~~~~vi~DEah~~k~----~~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~ 167 (169)
.+..-++|++|+||.-..-+ +.......+..-+...-++|||--.+..+.|+.
T Consensus 90 ~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~A 146 (159)
T cd00561 90 AIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAA 146 (159)
T ss_pred HHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhC
Confidence 33456899999999775422 223344555555566689999987766655543
No 216
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.73 E-value=0.063 Score=44.22 Aligned_cols=23 Identities=4% Similarity=-0.126 Sum_probs=18.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
+|..+.|+|||..+..+...+..
T Consensus 42 LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 42 LFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred EEECCCCCCHHHHHHHHHHHhcC
Confidence 56789999999998888776654
No 217
>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=95.71 E-value=0.044 Score=43.36 Aligned_cols=47 Identities=15% Similarity=0.159 Sum_probs=34.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-++|+|||..++.++...... .+++|.+.......|......++
T Consensus 98 lI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EEs~~qi~~ra~rl 144 (454)
T TIGR00416 98 LIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEESLQQIKMRAIRL 144 (454)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcCCHHHHHHHHHHc
Confidence 577899999998888876655443 35788888877777766555544
No 218
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.65 E-value=0.075 Score=42.20 Aligned_cols=23 Identities=9% Similarity=-0.002 Sum_probs=18.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..++..+..
T Consensus 44 Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 44 IFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred EEECCCCCCHHHHHHHHHHhcCc
Confidence 67889999999888887766543
No 219
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.64 E-value=0.037 Score=41.74 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=18.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.++..++|+|||..+-++...+.
T Consensus 39 lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 39 LLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 36778999999999888876654
No 220
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.61 E-value=0.077 Score=38.17 Aligned_cols=37 Identities=11% Similarity=0.144 Sum_probs=21.2
Q ss_pred ccEEEEeCCcccCCcccH---HHHHHhcc-cc-ccEEEEecc
Q psy1090 121 WNCIIVDEGHSVKNKKSK---LSIKLTAL-RA-TFKVLLTGW 157 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~---~~~~~~~l-~~-~~~~~lT~T 157 (169)
.+++++||.|.+...... ....+..+ .. +.++++|++
T Consensus 98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~ 139 (235)
T PRK08084 98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGD 139 (235)
T ss_pred CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCC
Confidence 478999999998643211 11222222 22 346888887
No 221
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.61 E-value=0.073 Score=42.05 Aligned_cols=39 Identities=3% Similarity=0.066 Sum_probs=22.8
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWY 158 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP 158 (169)
..+++++||.|.+.+........+..+ .....+++|++-
T Consensus 202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~ 244 (445)
T PRK12422 202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTC 244 (445)
T ss_pred cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCC
Confidence 467899999999865332222222221 234567787753
No 222
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.60 E-value=0.12 Score=40.87 Aligned_cols=16 Identities=13% Similarity=0.297 Sum_probs=12.7
Q ss_pred cccEEEEeCCcccCCc
Q psy1090 120 TWNCIIVDEGHSVKNK 135 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~ 135 (169)
..+++++||.|.+.+.
T Consensus 194 ~~dvLlIDDi~~l~~~ 209 (440)
T PRK14088 194 KVDVLLIDDVQFLIGK 209 (440)
T ss_pred cCCEEEEechhhhcCc
Confidence 4688999999987543
No 223
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=95.58 E-value=0.0073 Score=41.31 Aligned_cols=38 Identities=16% Similarity=0.200 Sum_probs=24.7
Q ss_pred CCCCeEEEecHHHHHhchh--cc--ccccccEEEEeCCcccCC
Q psy1090 96 LKLPLILVTTPQIIENDFG--FL--KKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~--~~--~~~~~~~vi~DEah~~k~ 134 (169)
...|+ ++.+|..+-.... .+ ...+-.++|+||||.+-+
T Consensus 118 ~~adi-vi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 118 KNADI-VICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp GG-SE-EEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred ccCCE-EEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 66777 9999998865322 11 223556899999999843
No 224
>PRK08181 transposase; Validated
Probab=95.57 E-value=0.07 Score=39.27 Aligned_cols=24 Identities=25% Similarity=0.130 Sum_probs=17.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.+|..++|+|||..+.++......
T Consensus 109 lll~Gp~GtGKTHLa~Aia~~a~~ 132 (269)
T PRK08181 109 LLLFGPPGGGKSHLAAAIGLALIE 132 (269)
T ss_pred EEEEecCCCcHHHHHHHHHHHHHH
Confidence 467778899999887777665544
No 225
>KOG0923|consensus
Probab=95.56 E-value=0.023 Score=46.38 Aligned_cols=66 Identities=18% Similarity=0.132 Sum_probs=35.5
Q ss_pred EEecHHHHHhchh-ccccccccEEEEeCCcccCCcccHHHHHHhc---cccc-cEEEEeccCCCCCchhhc
Q psy1090 102 LVTTPQIIENDFG-FLKKITWNCIIVDEGHSVKNKKSKLSIKLTA---LRAT-FKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 102 ~i~ty~~~~~~~~-~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~---l~~~-~~~~lT~TP~~n~~~el~ 167 (169)
=..|-.++.+..- ...--.+.++|+||||.=.-..-..+-.++. ++.. ..++.|||.=...++++|
T Consensus 359 KYMTDGmLlREfL~epdLasYSViiiDEAHERTL~TDILfgLvKDIar~RpdLKllIsSAT~DAekFS~fF 429 (902)
T KOG0923|consen 359 KYMTDGMLLREFLSEPDLASYSVIIVDEAHERTLHTDILFGLVKDIARFRPDLKLLISSATMDAEKFSAFF 429 (902)
T ss_pred eeecchhHHHHHhccccccceeEEEeehhhhhhhhhhHHHHHHHHHHhhCCcceEEeeccccCHHHHHHhc
Confidence 3355556655332 2222367899999999622122222333333 3333 346678997666666554
No 226
>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=95.55 E-value=0.066 Score=39.00 Aligned_cols=39 Identities=15% Similarity=0.215 Sum_probs=22.6
Q ss_pred ccEEEEeCCcccCCcccHHHHHHhccc----cccEEEEeccCC
Q psy1090 121 WNCIIVDEGHSVKNKKSKLSIKLTALR----ATFKVLLTGWYY 159 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~~~~~~~~l~----~~~~~~lT~TP~ 159 (169)
.-++|+||+|.+....-...+.+.... ....++++|+|-
T Consensus 124 ~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~ 166 (269)
T TIGR03015 124 RALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE 166 (269)
T ss_pred CeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH
Confidence 357999999998533222222333322 223568999884
No 227
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=95.55 E-value=0.067 Score=39.79 Aligned_cols=45 Identities=20% Similarity=0.215 Sum_probs=26.8
Q ss_pred hccccccccEEEEeCCcccC-CcccHH---HHHHhccc--cccEEEEeccC
Q psy1090 114 GFLKKITWNCIIVDEGHSVK-NKKSKL---SIKLTALR--ATFKVLLTGWY 158 (169)
Q Consensus 114 ~~~~~~~~~~vi~DEah~~k-~~~~~~---~~~~~~l~--~~~~~~lT~TP 158 (169)
..+...+..++|+||.|++- +...+. ..+++.+. -+--+++-||+
T Consensus 139 ~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 139 RLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 45566788999999999853 333332 23334442 23345666775
No 228
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.54 E-value=0.11 Score=39.10 Aligned_cols=30 Identities=7% Similarity=0.006 Sum_probs=19.5
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
=.|+|||.+.--+..++..++ .++++.+--
T Consensus 147 VNG~GKTTTIaKLA~~l~~~g--~~VllaA~D 176 (340)
T COG0552 147 VNGVGKTTTIAKLAKYLKQQG--KSVLLAAGD 176 (340)
T ss_pred cCCCchHhHHHHHHHHHHHCC--CeEEEEecc
Confidence 469999988777666655443 555555543
No 229
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=95.54 E-value=0.1 Score=36.27 Aligned_cols=34 Identities=18% Similarity=0.100 Sum_probs=22.7
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
....|.+|||.+.|-.+......+ .++++..|..
T Consensus 9 i~gpM~SGKT~eLl~r~~~~~~~g--~~v~vfkp~i 42 (201)
T COG1435 9 IYGPMFSGKTEELLRRARRYKEAG--MKVLVFKPAI 42 (201)
T ss_pred EEccCcCcchHHHHHHHHHHHHcC--CeEEEEeccc
Confidence 456899999987766554443333 5778877763
No 230
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=95.48 E-value=0.11 Score=42.36 Aligned_cols=119 Identities=15% Similarity=0.112 Sum_probs=60.5
Q ss_pred CcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHH----HHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCccccc
Q psy1090 11 YRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNN----WEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPA 85 (169)
Q Consensus 11 ~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~q----W~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 85 (169)
-|||...+.+|+.++..-..=.+..++-. ++.+- -...+++|+|.-++..-.+.. ..+..++
T Consensus 213 HGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~k~~t--------I~~s~pg----- 279 (668)
T PHA03372 213 HGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIENKDNV--------ISIDHRG----- 279 (668)
T ss_pred CCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeeecCcE--------EEEecCC-----
Confidence 38998777777766653322356666653 44333 333456788755543221110 0000000
Q ss_pred ccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhccccccEEEEecc
Q psy1090 86 KKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGW 157 (169)
Q Consensus 86 ~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~T 157 (169)
.+.-. ++.+ ..+.+.++...|+++++||||-++.+.-...--+...+....+.+|.|
T Consensus 280 ----------~Kst~-~fas----c~n~NsiRGQ~fnll~VDEA~FI~~~a~~tilgfm~q~~~KiIfISS~ 336 (668)
T PHA03372 280 ----------AKSTA-LFAS----CYNTNSIRGQNFHLLLVDEAHFIKKDAFNTILGFLAQNTTKIIFISST 336 (668)
T ss_pred ----------Cccee-eehh----hccCccccCCCCCEEEEehhhccCHHHHHHhhhhhcccCceEEEEeCC
Confidence 11111 2222 022346667899999999999987433222222333355566666654
No 231
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.45 E-value=0.028 Score=43.66 Aligned_cols=33 Identities=9% Similarity=-0.071 Sum_probs=22.8
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
++-=.|+|||.++.-+..++.. . ..++++|+-.
T Consensus 105 mvGLQGsGKTTt~~KLA~~lkk-~-~~kvllVaaD 137 (451)
T COG0541 105 MVGLQGSGKTTTAGKLAKYLKK-K-GKKVLLVAAD 137 (451)
T ss_pred EEeccCCChHhHHHHHHHHHHH-c-CCceEEEecc
Confidence 3444799999999888888776 3 3555555543
No 232
>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=95.37 E-value=0.2 Score=35.62 Aligned_cols=36 Identities=17% Similarity=0.244 Sum_probs=22.8
Q ss_pred cccEEEEeCCcccCCcccHHHHHHh-cc----ccccEEEEec
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLT-AL----RATFKVLLTG 156 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~-~l----~~~~~~~lT~ 156 (169)
..|++++|..|.+.+... +-..+. .+ .....+++|+
T Consensus 97 ~~DlL~iDDi~~l~~~~~-~q~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 97 SADLLIIDDIQFLAGKQR-TQEELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp TSSEEEEETGGGGTTHHH-HHHHHHHHHHHHHHTTSEEEEEE
T ss_pred cCCEEEEecchhhcCchH-HHHHHHHHHHHHHhhCCeEEEEe
Confidence 678999999999986432 222222 22 3456777776
No 233
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.37 E-value=0.12 Score=42.78 Aligned_cols=22 Identities=5% Similarity=-0.114 Sum_probs=17.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++....|+|||..|..++..+.
T Consensus 41 LF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 41 LFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred EEECCCCCCHHHHHHHHHHHhC
Confidence 6788999999988887766654
No 234
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=95.34 E-value=0.075 Score=40.10 Aligned_cols=57 Identities=21% Similarity=0.274 Sum_probs=33.4
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHH-HHHHH----HHhCCCceEEEEeCCHH
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNN-WEAEF----RKFAPFVRTVKYYGNAI 66 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~q-W~~e~----~~~~~~~~~~~~~g~~~ 66 (169)
-=|.|||.++.|+.....+.+ +++|+|. |.+-+.+ ...|+ ++-.|++..........
T Consensus 10 KGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAhsL~d~f~~elg~~~~~I~~nL~a~eiD~~~~ 73 (322)
T COG0003 10 KGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAHSLGDVFDLELGHDPRKVGPNLDALELDPEKA 73 (322)
T ss_pred CCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCCchHhhhccccCCchhhcCCCCceeeecHHHH
Confidence 458999999999877776666 3366653 5565543 22222 23335566555554433
No 235
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.30 E-value=0.11 Score=41.81 Aligned_cols=24 Identities=4% Similarity=-0.130 Sum_probs=19.1
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.+|..+.|+|||..+-.++..+..
T Consensus 46 ~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 46 YLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcC
Confidence 467889999999998888766544
No 236
>KOG0952|consensus
Probab=95.27 E-value=0.03 Score=47.86 Aligned_cols=107 Identities=14% Similarity=0.185 Sum_probs=68.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchH----HHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLN----NWEAEFRKFAPFVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~----qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
..+.+.+|.|||+.+-..+-......+.+++++++|. .++. .|...+. .|+.+++..+|.......-
T Consensus 946 ~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~--~~g~k~ie~tgd~~pd~~~------ 1017 (1230)
T KOG0952|consen 946 FLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDE--LPGIKVIELTGDVTPDVKA------ 1017 (1230)
T ss_pred hhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcc--cCCceeEeccCccCCChhh------
Confidence 4678899999998876665555566667899999996 4443 4543332 3567777777654432110
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchhcc-c-c--ccccEEEEeCCcccCCc
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFL-K-K--ITWNCIIVDEGHSVKNK 135 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~-~-~--~~~~~vi~DEah~~k~~ 135 (169)
....++ +++|++........- . + .....+++||.|.++.+
T Consensus 1018 -----------------v~~~~~-~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1018 -----------------VREADI-VITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred -----------------eecCce-EEcccccccCccccccchhhhccccceeecccccccCC
Confidence 144455 899988764432210 0 1 14557999999998764
No 237
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=95.23 E-value=0.13 Score=43.35 Aligned_cols=39 Identities=10% Similarity=-0.216 Sum_probs=26.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN 43 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~ 43 (169)
.+|....|+|||...-+++..+... ..++++++|.....
T Consensus 371 ~il~G~aGTGKTtll~~i~~~~~~~--g~~V~~~ApTg~Aa 409 (744)
T TIGR02768 371 AVVVGRAGTGKSTMLKAAREAWEAA--GYRVIGAALSGKAA 409 (744)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHhC--CCeEEEEeCcHHHH
Confidence 3677789999997766655443332 35788888987554
No 238
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=95.22 E-value=0.19 Score=36.06 Aligned_cols=44 Identities=11% Similarity=0.218 Sum_probs=31.8
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHHHHHHHH
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNWEAEFRK 51 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW~~e~~~ 51 (169)
..-=|.|||..+++++..+..++ +++.++= |+.-+..|.+...+
T Consensus 8 s~KGGaGKTT~~~~LAs~la~~G--~~V~lIDaDpn~pl~~W~~~a~~ 53 (231)
T PF07015_consen 8 SSKGGAGKTTAAMALASELAARG--ARVALIDADPNQPLAKWAENAQR 53 (231)
T ss_pred cCCCCCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCcHHHHHHhccc
Confidence 34459999999999888876655 4555554 67778899776544
No 239
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=95.21 E-value=0.077 Score=36.89 Aligned_cols=54 Identities=17% Similarity=0.188 Sum_probs=34.9
Q ss_pred hccccccccEEEEeCCcccCCc----ccHHHHHHhccccccEEEEeccCCCCCchhhc
Q psy1090 114 GFLKKITWNCIIVDEGHSVKNK----KSKLSIKLTALRATFKVLLTGWYYPNKWSKQC 167 (169)
Q Consensus 114 ~~~~~~~~~~vi~DEah~~k~~----~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el~ 167 (169)
..+..-+||++|+||.-..-+. .......+..-+...-++|||--.+..+.|+.
T Consensus 109 ~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~A 166 (191)
T PRK05986 109 RMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEAA 166 (191)
T ss_pred HHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhC
Confidence 3444668999999997754332 23344555554556689999987666555543
No 240
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.20 E-value=0.12 Score=41.04 Aligned_cols=45 Identities=7% Similarity=-0.034 Sum_probs=30.7
Q ss_pred CCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch-HHHHHHHHHhC
Q psy1090 9 TRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL-NNWEAEFRKFA 53 (169)
Q Consensus 9 ~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l-~qW~~e~~~~~ 53 (169)
-|+|||.....=+..+...++..+++|-+-.-++ ++..+-+.+|+
T Consensus 185 AGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~ 230 (660)
T COG3972 185 AGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFF 230 (660)
T ss_pred cCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHH
Confidence 4899997655555666667888899999976544 45555455543
No 241
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=95.19 E-value=0.11 Score=40.36 Aligned_cols=97 Identities=11% Similarity=0.088 Sum_probs=53.4
Q ss_pred CCceEEEecC-----cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEe
Q psy1090 30 LEPNLIVCPL-----SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVT 104 (169)
Q Consensus 30 ~~~~Liv~P~-----~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ 104 (169)
..|.+|..|. |+++-|..++....|+.+++..+....-........ --
T Consensus 113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~---------------------------~~ 165 (408)
T COG0593 113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALR---------------------------DN 165 (408)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHH---------------------------hh
Confidence 3466666664 366778888888877777766554433222211110 00
Q ss_pred cHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEec--cCC
Q psy1090 105 TPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTG--WYY 159 (169)
Q Consensus 105 ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~--TP~ 159 (169)
+.+.+.+ . ...|++++|..|.+.+....--..+.-+ .....+++|+ +|-
T Consensus 166 ~~~~Fk~---~---y~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~ 220 (408)
T COG0593 166 EMEKFKE---K---YSLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPK 220 (408)
T ss_pred hHHHHHH---h---hccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCch
Confidence 1112222 1 1568899999999877543333334433 3444788888 554
No 242
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.14 E-value=0.42 Score=36.90 Aligned_cols=36 Identities=8% Similarity=0.063 Sum_probs=23.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
+|...+|+|||.++..++..........++.++...
T Consensus 141 ~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D 176 (374)
T PRK14722 141 ALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTD 176 (374)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecc
Confidence 467789999999988887765433222345555543
No 243
>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=95.11 E-value=0.1 Score=39.86 Aligned_cols=24 Identities=17% Similarity=0.032 Sum_probs=18.4
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.++.-++|+|||..+-.++..+.+
T Consensus 43 i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 43 VFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 567788999999888777765543
No 244
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.01 E-value=0.24 Score=39.63 Aligned_cols=23 Identities=4% Similarity=-0.104 Sum_probs=17.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
-++....|+|||..+..+...+.
T Consensus 38 ~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 38 ILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred EEEECCCCccHHHHHHHHHHHHc
Confidence 35778899999988877765544
No 245
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=94.99 E-value=0.18 Score=42.45 Aligned_cols=58 Identities=10% Similarity=-0.042 Sum_probs=36.8
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cch---HHHHHHHHHhCCCceEEEEe
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVL---NNWEAEFRKFAPFVRTVKYY 62 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l---~qW~~e~~~~~~~~~~~~~~ 62 (169)
|.|.-+-+|=|||+++..-.. ...=..+.+.+|..+ .+. ..|...+-+|. ++.+.+..
T Consensus 95 g~iaEM~TGEGKTL~atlp~y--lnaL~gkgVhvVTvNdYLA~RDae~m~~l~~~L-GlsvG~~~ 156 (822)
T COG0653 95 GDIAEMRTGEGKTLVATLPAY--LNALAGKGVHVVTVNDYLARRDAEWMGPLYEFL-GLSVGVIL 156 (822)
T ss_pred CceeeeecCCchHHHHHHHHH--HHhcCCCCcEEeeehHHhhhhCHHHHHHHHHHc-CCceeecc
Confidence 567778899999988754322 222122456666665 444 37999999998 55555533
No 246
>KOG0780|consensus
Probab=94.92 E-value=0.048 Score=41.91 Aligned_cols=32 Identities=6% Similarity=-0.029 Sum_probs=20.3
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
-=.|.|||.+.-.++.++..++ .++.||++-.
T Consensus 108 GLqG~GKTTtc~KlA~y~kkkG-~K~~LvcaDT 139 (483)
T KOG0780|consen 108 GLQGSGKTTTCTKLAYYYKKKG-YKVALVCADT 139 (483)
T ss_pred eccCCCcceeHHHHHHHHHhcC-CceeEEeecc
Confidence 3469999988777776665444 4445555443
No 247
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.90 E-value=0.34 Score=41.61 Aligned_cols=22 Identities=14% Similarity=0.060 Sum_probs=17.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++...+|+|||.++-.++..+.
T Consensus 785 YIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 785 YISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 3788999999999887766554
No 248
>PRK05642 DNA replication initiation factor; Validated
Probab=94.90 E-value=0.21 Score=35.91 Aligned_cols=39 Identities=10% Similarity=0.124 Sum_probs=22.7
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWY 158 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP 158 (169)
+.+++|+|+.|.+.+........+.-+ ....++++|++-
T Consensus 97 ~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~ 139 (234)
T PRK05642 97 QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASK 139 (234)
T ss_pred hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCC
Confidence 347899999998764322112222222 245678888874
No 249
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.88 E-value=0.37 Score=37.05 Aligned_cols=22 Identities=5% Similarity=-0.044 Sum_probs=17.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++..+.|+|||..+-+++..+.
T Consensus 42 L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 42 LLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEecCCCCCHHHHHHHHHHHhc
Confidence 6788999999988888776554
No 250
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.88 E-value=0.11 Score=44.39 Aligned_cols=23 Identities=9% Similarity=-0.039 Sum_probs=18.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+-.++..+..
T Consensus 42 LFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 42 LFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEECCCCCCHHHHHHHHHHhccC
Confidence 57889999999988888766543
No 251
>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=94.86 E-value=0.76 Score=31.13 Aligned_cols=32 Identities=9% Similarity=0.079 Sum_probs=21.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
++..++|+|||..+..++..+...+ .+++++.
T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~g--~~v~~i~ 35 (173)
T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKKG--KKVLLVA 35 (173)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEE
Confidence 4567899999999888876655442 3444443
No 252
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=94.84 E-value=0.063 Score=38.92 Aligned_cols=38 Identities=24% Similarity=0.308 Sum_probs=23.4
Q ss_pred cEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccCC
Q psy1090 122 NCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWYY 159 (169)
Q Consensus 122 ~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP~ 159 (169)
-.+++||+|.+..+.-...+.+.++ ....++++-|-|-
T Consensus 133 v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~ 174 (269)
T COG3267 133 VVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPK 174 (269)
T ss_pred eEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcc
Confidence 5689999999875544444444443 2234566666664
No 253
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=94.81 E-value=0.081 Score=43.70 Aligned_cols=44 Identities=9% Similarity=0.043 Sum_probs=25.8
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHh
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKF 52 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~ 52 (169)
+=|-|||..+..++..+.... ...+++.+|. +..++-.+++++.
T Consensus 195 PRqrGKS~iVgi~l~~La~f~-Gi~IlvTAH~~~ts~evF~rv~~~ 239 (752)
T PHA03333 195 PRRCGKTTIMAIILAAMISFL-EIDIVVQAQRKTMCLTLYNRVETV 239 (752)
T ss_pred ccCCCcHHHHHHHHHHHHHhc-CCeEEEECCChhhHHHHHHHHHHH
Confidence 458899977665554444322 3578888896 4444444444433
No 254
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=94.81 E-value=0.21 Score=38.87 Aligned_cols=24 Identities=17% Similarity=0.151 Sum_probs=18.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
++..+.|+|||..+.++...+...
T Consensus 40 Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 40 LFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred EEECCCCCcHHHHHHHHHHHhCCC
Confidence 467889999999888887665543
No 255
>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=94.65 E-value=0.091 Score=37.38 Aligned_cols=48 Identities=17% Similarity=0.219 Sum_probs=35.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh-CCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE-QALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~-~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++.-++|+|||.-++.++.....+ + .++++|.-.....+..+++..+.
T Consensus 23 li~G~~GsGKT~l~~q~l~~~~~~~g--e~vlyvs~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 23 LISGPPGSGKTTLALQFLYNGLKNFG--EKVLYVSFEEPPEELIENMKSFG 71 (226)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHHHT----EEEEESSS-HHHHHHHHHTTT
T ss_pred EEEeCCCCCcHHHHHHHHHHhhhhcC--CcEEEEEecCCHHHHHHHHHHcC
Confidence 466799999999999888766555 4 57888887777777777777654
No 256
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.64 E-value=0.45 Score=39.02 Aligned_cols=23 Identities=9% Similarity=0.073 Sum_probs=18.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++....|+|||..+..++..+..
T Consensus 39 Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 39 LFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred EEECCCCCCHHHHHHHHHHHhcc
Confidence 57789999999999888776654
No 257
>PRK06893 DNA replication initiation factor; Validated
Probab=94.60 E-value=0.29 Score=35.04 Aligned_cols=15 Identities=13% Similarity=0.197 Sum_probs=12.1
Q ss_pred cccEEEEeCCcccCC
Q psy1090 120 TWNCIIVDEGHSVKN 134 (169)
Q Consensus 120 ~~~~vi~DEah~~k~ 134 (169)
+.+++++||.|.+.+
T Consensus 91 ~~dlLilDDi~~~~~ 105 (229)
T PRK06893 91 QQDLVCLDDLQAVIG 105 (229)
T ss_pred cCCEEEEeChhhhcC
Confidence 457899999998754
No 258
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=94.57 E-value=0.35 Score=40.06 Aligned_cols=24 Identities=8% Similarity=-0.074 Sum_probs=19.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
++..+.|+|||..+..+...+...
T Consensus 42 Lf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 42 LFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred EEECCCCCCHHHHHHHHHHhhhhc
Confidence 577899999999988887766543
No 259
>KOG0950|consensus
Probab=94.54 E-value=0.19 Score=42.70 Aligned_cols=135 Identities=13% Similarity=0.104 Sum_probs=72.6
Q ss_pred CccccCCCCCcHHHHHHHH-HHHHHHhCCCCceEEEecCc-chHHHHHHHHHhCC--CceEEEEeCCHHHHHHHHHhhhc
Q psy1090 2 DTVIPDPTRYRKSGKVIAF-FCKIIEEQALEPNLIVCPLS-VLNNWEAEFRKFAP--FVRTVKYYGNAIERKALQSEALS 77 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~-i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~ 77 (169)
++|.+-.++.|||+.+=-+ +...... .+.++.+.|-- ++..=..++..|.. ++.+--|.|....
T Consensus 242 nliys~Pts~gktlvaeilml~~~l~~--rr~~llilp~vsiv~Ek~~~l~~~~~~~G~~ve~y~g~~~p---------- 309 (1008)
T KOG0950|consen 242 NLIYSLPTSAGKTLVAEILMLREVLCR--RRNVLLILPYVSIVQEKISALSPFSIDLGFPVEEYAGRFPP---------- 309 (1008)
T ss_pred ceEEeCCCccchHHHHHHHHHHHHHHH--hhceeEecceeehhHHHHhhhhhhccccCCcchhhcccCCC----------
Confidence 4678889999999754222 2222222 24688888864 33333344444432 3333334432111
Q ss_pred CCCcccccccCCccccccCCCCeEEEecHHHHHhchhcccc----ccccEEEEeCCcccCCcccH-HHHH-Hhcc---c-
Q psy1090 78 LPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKK----ITWNCIIVDEGHSVKNKKSK-LSIK-LTAL---R- 147 (169)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~----~~~~~vi~DEah~~k~~~~~-~~~~-~~~l---~- 147 (169)
.....+..+ .++|-+......+.+.. ...++||+||-|.+....-- .... +..+ .
T Consensus 310 --------------~~~~k~~sv-~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k~~y~~~ 374 (1008)
T KOG0950|consen 310 --------------EKRRKRESV-AIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLLAKILYENL 374 (1008)
T ss_pred --------------CCcccceee-eeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccccchHHHHHHHHHHHhcc
Confidence 011144445 88887777665554332 35689999999988643211 1111 1111 1
Q ss_pred --cccEEEEeccCCCCCc
Q psy1090 148 --ATFKVLLTGWYYPNKW 163 (169)
Q Consensus 148 --~~~~~~lT~TP~~n~~ 163 (169)
.-..++||||...|+.
T Consensus 375 ~~~~~iIGMSATi~N~~l 392 (1008)
T KOG0950|consen 375 ETSVQIIGMSATIPNNSL 392 (1008)
T ss_pred ccceeEeeeecccCChHH
Confidence 1236999999887754
No 260
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.50 E-value=1.8 Score=34.04 Aligned_cols=52 Identities=13% Similarity=0.098 Sum_probs=29.8
Q ss_pred HHHHHhchhccccccccEEE---EeCCcccCCcccHHHHHHhccccccEEEEeccCCCC
Q psy1090 106 PQIIENDFGFLKKITWNCII---VDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 106 y~~~~~~~~~~~~~~~~~vi---~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n 161 (169)
++.+......+...+.+-+| +||+.++. .....+...+.+-.++-+|.-+++
T Consensus 313 ~~~~~~~~~~f~~~~~~~~I~TKlDEt~~~G----~~l~~~~~~~lPi~yvt~Gq~VP~ 367 (420)
T PRK14721 313 GDTLDEVISAYQGHGIHGCIITKVDEAASLG----IALDAVIRRKLVLHYVTNGQKVPE 367 (420)
T ss_pred HHHHHHHHHHhcCCCCCEEEEEeeeCCCCcc----HHHHHHHHhCCCEEEEECCCCchh
Confidence 44455555666667777666 79987653 234444444555555555544433
No 261
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=94.40 E-value=0.32 Score=36.45 Aligned_cols=40 Identities=18% Similarity=0.128 Sum_probs=23.2
Q ss_pred cccEEEEeCCcccCCcccH--HHHHHhccccccEEEEeccCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSK--LSIKLTALRATFKVLLTGWYY 159 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~--~~~~~~~l~~~~~~~lT~TP~ 159 (169)
+.+++|+||+|.+...... ....+.......++++|++..
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence 4578999999988332211 111123334566788877654
No 262
>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=94.36 E-value=0.044 Score=37.70 Aligned_cols=38 Identities=13% Similarity=0.176 Sum_probs=25.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV 41 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~ 41 (169)
|.+|..++|+|||..+.+++......+ .+++++--..+
T Consensus 49 ~l~l~G~~G~GKThLa~ai~~~~~~~g--~~v~f~~~~~L 86 (178)
T PF01695_consen 49 NLILYGPPGTGKTHLAVAIANEAIRKG--YSVLFITASDL 86 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEHHHH
T ss_pred EEEEEhhHhHHHHHHHHHHHHHhccCC--cceeEeecCce
Confidence 456777899999999999887766633 45666544333
No 263
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.33 E-value=0.13 Score=38.90 Aligned_cols=25 Identities=12% Similarity=0.177 Sum_probs=20.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+|||..+..++..+...+
T Consensus 26 Lf~G~~G~GK~~~A~~~A~~llC~~ 50 (328)
T PRK05707 26 LLHGPAGIGKRALAERLAAALLCEA 50 (328)
T ss_pred eeECCCCCCHHHHHHHHHHHHcCCC
Confidence 4678899999999999988777543
No 264
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.24 E-value=0.7 Score=37.43 Aligned_cols=33 Identities=15% Similarity=0.182 Sum_probs=21.5
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
|....|.|||.++..++..+...+..+++.++.
T Consensus 355 LVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 355 LVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred EECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 446789999988877766554443334555554
No 265
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.21 E-value=1 Score=33.22 Aligned_cols=44 Identities=7% Similarity=0.038 Sum_probs=24.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC----cchHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL----SVLNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~----~~l~qW~~e~ 49 (169)
.+....|+|||.....+...+... ..++.++... ..+.||....
T Consensus 79 ~~~G~~g~GKTtl~~~l~~~l~~~--~~~v~~i~~D~~ri~~~~ql~~~~ 126 (270)
T PRK06731 79 ALIGPTGVGKTTTLAKMAWQFHGK--KKTVGFITTDHSRIGTVQQLQDYV 126 (270)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEecCCCCHHHHHHHHHHh
Confidence 355679999997766555443322 2445555542 2455665433
No 266
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.20 E-value=0.32 Score=37.87 Aligned_cols=23 Identities=9% Similarity=-0.015 Sum_probs=18.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..+...+..
T Consensus 42 lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 42 IFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred EEECCCCCCHHHHHHHHHHHhcC
Confidence 46779999999999888776654
No 267
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.18 E-value=0.54 Score=40.13 Aligned_cols=23 Identities=9% Similarity=0.073 Sum_probs=18.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
+|.-..|+|||..+..+...+..
T Consensus 41 Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 41 LFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred EEECCCCCCHHHHHHHHHHHhCc
Confidence 57788999999998888776654
No 268
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.11 E-value=0.36 Score=39.81 Aligned_cols=23 Identities=4% Similarity=-0.120 Sum_probs=18.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++....|+|||..+..+...+..
T Consensus 42 Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 42 LFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred EEECCCCCCHHHHHHHHHHHhcC
Confidence 56778999999988888766654
No 269
>KOG0991|consensus
Probab=94.11 E-value=0.14 Score=36.95 Aligned_cols=17 Identities=29% Similarity=0.319 Sum_probs=13.3
Q ss_pred cccccEEEEeCCcccCC
Q psy1090 118 KITWNCIIVDEGHSVKN 134 (169)
Q Consensus 118 ~~~~~~vi~DEah~~k~ 134 (169)
.-.+..+|+|||..+..
T Consensus 111 ~grhKIiILDEADSMT~ 127 (333)
T KOG0991|consen 111 PGRHKIIILDEADSMTA 127 (333)
T ss_pred CCceeEEEeeccchhhh
Confidence 34677899999998754
No 270
>PHA00012 I assembly protein
Probab=94.02 E-value=0.25 Score=37.32 Aligned_cols=24 Identities=4% Similarity=-0.067 Sum_probs=17.9
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
+.--+|+|||..+++-|.....++
T Consensus 6 ITGkPGSGKSl~aV~~I~~~L~~G 29 (361)
T PHA00012 6 VTGKLGAGKTLVAVSRIQDKLVKG 29 (361)
T ss_pred EecCCCCCchHHHHHHHHHHHHcC
Confidence 445689999999998766655555
No 271
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=94.01 E-value=0.095 Score=39.56 Aligned_cols=44 Identities=18% Similarity=0.227 Sum_probs=31.8
Q ss_pred ccccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCch
Q psy1090 119 ITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKWS 164 (169)
Q Consensus 119 ~~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~~ 164 (169)
++--+||+||||. . .-.+--+.+.++-...+..+||.+.|=++.
T Consensus 242 L~dAfVIlDEaQN-t-T~~QmKMfLTRiGf~skmvItGD~tQiDLp 285 (348)
T COG1702 242 LNDAFVILDEAQN-T-TVGQMKMFLTRIGFESKMVITGDITQIDLP 285 (348)
T ss_pred CCCeEEEEecccc-c-chhhhceeeeeecCCceEEEEcCcccccCC
Confidence 4556899999998 2 233444556677888899999999876553
No 272
>PRK05973 replicative DNA helicase; Provisional
Probab=94.00 E-value=0.18 Score=36.36 Aligned_cols=47 Identities=4% Similarity=-0.014 Sum_probs=33.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
+++-.+|+|||.-++.++.....+ ..+++++.-...-.+-.+.+..+
T Consensus 68 LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes~~~i~~R~~s~ 114 (237)
T PRK05973 68 LLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLEYTEQDVRDRLRAL 114 (237)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCCHHHHHHHHHHc
Confidence 678899999999998887765543 36788888766555555555444
No 273
>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=94.00 E-value=0.08 Score=37.85 Aligned_cols=50 Identities=10% Similarity=0.185 Sum_probs=36.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
+.++..-||-|||...+=+++....++ ..=+-+++|+.++.|-.+.++.-
T Consensus 43 n~v~QlnMGeGKTsVI~Pmla~~LAdg-~~LvrviVpk~Ll~q~~~~L~~~ 92 (229)
T PF12340_consen 43 NSVMQLNMGEGKTSVIVPMLALALADG-SRLVRVIVPKALLEQMRQMLRSR 92 (229)
T ss_pred CeEeeecccCCccchHHHHHHHHHcCC-CcEEEEEcCHHHHHHHHHHHHHH
Confidence 467788899999977766665555443 34577888999999888777644
No 274
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=93.97 E-value=0.029 Score=45.56 Aligned_cols=132 Identities=11% Similarity=0.090 Sum_probs=70.5
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHH-HHHHhC---CCceEEEEeC-CHHHHHHHHHhhhcCC
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEA-EFRKFA---PFVRTVKYYG-NAIERKALQSEALSLP 79 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~-e~~~~~---~~~~~~~~~g-~~~~~~~~~~~~~~~~ 79 (169)
.-..-+|||..++.++.+.... ...|+|++.|. .....|.. .|...+ |.++-.+... .++..+.+....+
T Consensus 39 ~k~aQ~GkT~~~~n~~g~~i~~-~P~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp~l~~~~~~~~~~~~~~t~~~k~f--- 114 (557)
T PF05876_consen 39 MKSAQVGKTELLLNWIGYSIDQ-DPGPMLYVQPTDDAAKDFSKERLDPMIRASPVLRRKLSPSKSRDSGNTILYKRF--- 114 (557)
T ss_pred EEcchhhHhHHHHhhceEEEEe-CCCCEEEEEEcHHHHHHHHHHHHHHHHHhCHHHHHHhCchhhcccCCchhheec---
Confidence 3456689999887777765544 35899999998 45566763 344333 2222111110 0000000000000
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccC----CcccHHHHH---HhccccccEE
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVK----NKKSKLSIK---LTALRATFKV 152 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k----~~~~~~~~~---~~~l~~~~~~ 152 (169)
....+ .+....+ ...+.....+++++||....- +...-...+ ...+....++
T Consensus 115 ----------------~gg~l-~~~ga~S----~~~l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~ 173 (557)
T PF05876_consen 115 ----------------PGGFL-YLVGANS----PSNLRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKI 173 (557)
T ss_pred ----------------CCCEE-EEEeCCC----CcccccCCcCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEE
Confidence 11222 3333222 234556788999999999773 222222222 2334567899
Q ss_pred EEeccCCCCC
Q psy1090 153 LLTGWYYPNK 162 (169)
Q Consensus 153 ~lT~TP~~n~ 162 (169)
++..||...+
T Consensus 174 ~~~STPt~~~ 183 (557)
T PF05876_consen 174 LRISTPTIEG 183 (557)
T ss_pred EEeCCCCCCC
Confidence 9999999764
No 275
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.97 E-value=0.52 Score=38.19 Aligned_cols=23 Identities=4% Similarity=-0.110 Sum_probs=18.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+-.++..+..
T Consensus 42 Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 42 LFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred EEECCCCCCHHHHHHHHHHHhcC
Confidence 57789999999888877766543
No 276
>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=93.96 E-value=0.25 Score=39.56 Aligned_cols=48 Identities=10% Similarity=0.004 Sum_probs=36.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++.-++|+|||..++.++.....+ ..+++++.-.....|-......+.
T Consensus 267 li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eEs~~~i~~~~~~lg 314 (484)
T TIGR02655 267 LATGATGTGKTLLVSKFLENACAN--KERAILFAYEESRAQLLRNAYSWG 314 (484)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEeeCCHHHHHHHHHHcC
Confidence 577899999999988887765543 368899888888887777766553
No 277
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=93.94 E-value=0.17 Score=43.27 Aligned_cols=23 Identities=13% Similarity=0.219 Sum_probs=17.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~ 24 (169)
+.+|.-|+|+|||..+=+++..+
T Consensus 210 n~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 210 NPILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred ceeEECCCCCCHHHHHHHHHHHH
Confidence 46788999999997776655544
No 278
>PRK04195 replication factor C large subunit; Provisional
Probab=93.93 E-value=0.17 Score=40.41 Aligned_cols=15 Identities=20% Similarity=0.357 Sum_probs=12.4
Q ss_pred cccEEEEeCCcccCC
Q psy1090 120 TWNCIIVDEGHSVKN 134 (169)
Q Consensus 120 ~~~~vi~DEah~~k~ 134 (169)
+..+||+||+|.+..
T Consensus 98 ~~kvIiIDEaD~L~~ 112 (482)
T PRK04195 98 RRKLILLDEVDGIHG 112 (482)
T ss_pred CCeEEEEecCccccc
Confidence 467899999999864
No 279
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.90 E-value=0.49 Score=37.13 Aligned_cols=33 Identities=12% Similarity=0.059 Sum_probs=21.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
++.-..|+|||.++..++....... ..++.++.
T Consensus 227 ~lvGptGvGKTTtaaKLA~~~~~~~-G~~V~Lit 259 (432)
T PRK12724 227 FFVGPTGSGKTTSIAKLAAKYFLHM-GKSVSLYT 259 (432)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHhc-CCeEEEec
Confidence 3567899999999888876543222 23444444
No 280
>PRK10867 signal recognition particle protein; Provisional
Probab=93.78 E-value=0.38 Score=37.94 Aligned_cols=34 Identities=9% Similarity=0.017 Sum_probs=23.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
++.-.+|+|||.++..++.++.... ..++++|+-
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~~-G~kV~lV~~ 137 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKKK-KKKVLLVAA 137 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhc-CCcEEEEEc
Confidence 4567899999999988887766552 245555553
No 281
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=93.77 E-value=0.23 Score=37.62 Aligned_cols=23 Identities=4% Similarity=0.001 Sum_probs=16.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|.|||..+..++..+..
T Consensus 32 Lf~G~~G~gk~~~a~~la~~l~c 54 (329)
T PRK08058 32 LFEGAKGTGKKATALWLAKSLFC 54 (329)
T ss_pred EEECCCCCCHHHHHHHHHHHHCC
Confidence 46677888888777777666554
No 282
>PHA02533 17 large terminase protein; Provisional
Probab=93.75 E-value=0.18 Score=40.79 Aligned_cols=43 Identities=14% Similarity=0.209 Sum_probs=26.8
Q ss_pred cccccccEEEEeCCcccCCcccHHHHHHhc-cc--cccEEEEeccCC
Q psy1090 116 LKKITWNCIIVDEGHSVKNKKSKLSIKLTA-LR--ATFKVLLTGWYY 159 (169)
Q Consensus 116 ~~~~~~~~vi~DEah~~k~~~~~~~~~~~~-l~--~~~~~~lT~TP~ 159 (169)
.+....+++++||+|..++.. +...++.. +. ...++.+..||.
T Consensus 165 ~rG~~~~~liiDE~a~~~~~~-e~~~ai~p~lasg~~~r~iiiSTp~ 210 (534)
T PHA02533 165 VRGNSFAMIYIDECAFIPNFI-DFWLAIQPVISSGRSSKIIITSTPN 210 (534)
T ss_pred cCCCCCceEEEeccccCCCHH-HHHHHHHHHHHcCCCceEEEEECCC
Confidence 445677899999999887532 33333322 22 224678888884
No 283
>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=93.73 E-value=0.12 Score=40.16 Aligned_cols=38 Identities=11% Similarity=0.084 Sum_probs=25.8
Q ss_pred ccEEEEeCCcccCCcccHHHHHHhccc---cccEEEEeccCCC
Q psy1090 121 WNCIIVDEGHSVKNKKSKLSIKLTALR---ATFKVLLTGWYYP 160 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~~~~~~~~l~---~~~~~~lT~TP~~ 160 (169)
++++.+|||..+.. ....+....++ .+.++++|.||-.
T Consensus 102 ~~~~~idEa~~~~~--~~~~~l~~rlr~~~~~~~i~~t~NP~~ 142 (396)
T TIGR01547 102 IAIIWFEEASQLTF--EDIKELIPRLRETGGKKFIIFSSNPES 142 (396)
T ss_pred eeeehhhhhhhcCH--HHHHHHHHHhhccCCccEEEEEcCcCC
Confidence 58999999998842 34444444454 2235999999964
No 284
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=93.72 E-value=0.64 Score=36.72 Aligned_cols=33 Identities=6% Similarity=-0.080 Sum_probs=22.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
++...+|+|||.++..++..+...+ .++++|..
T Consensus 99 ~lvG~~GsGKTTtaakLA~~L~~~g--~kV~lV~~ 131 (437)
T PRK00771 99 MLVGLQGSGKTTTAAKLARYFKKKG--LKVGLVAA 131 (437)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHcC--CeEEEecC
Confidence 4567899999999988877665433 35555544
No 285
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=93.71 E-value=0.39 Score=39.49 Aligned_cols=24 Identities=8% Similarity=-0.024 Sum_probs=19.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
+|....|+|||..+..++..+...
T Consensus 50 L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 50 MLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred EEECCCCCCHHHHHHHHHHhhCcC
Confidence 566789999999998887776544
No 286
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=93.69 E-value=0.64 Score=34.45 Aligned_cols=34 Identities=12% Similarity=0.214 Sum_probs=22.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
.+...+|+|||.++..++.++.......++.+|.
T Consensus 198 ~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~ 231 (282)
T TIGR03499 198 ALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231 (282)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence 3556799999999988877765442223555554
No 287
>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=93.66 E-value=0.52 Score=37.08 Aligned_cols=33 Identities=9% Similarity=0.039 Sum_probs=22.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
.+.--+|+|||.++..++.++...+ .++++|+-
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~~G--~kV~lV~~ 136 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQRKG--FKPCLVCA 136 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEcC
Confidence 3556799999999888877655433 45666654
No 288
>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=93.62 E-value=1 Score=32.95 Aligned_cols=46 Identities=7% Similarity=-0.053 Sum_probs=30.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
.+++-.+|+|||..++.++...... ...+++++.-.....+....+
T Consensus 33 ~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~~~~~~~r~ 78 (271)
T cd01122 33 IILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEEPVVRTARRL 78 (271)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEcccCHHHHHHHH
Confidence 3678899999998888877655433 135777777655444444444
No 289
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=93.47 E-value=0.56 Score=40.80 Aligned_cols=42 Identities=24% Similarity=0.218 Sum_probs=28.2
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEEeccCCCCCc
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLLTGWYYPNKW 163 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~lT~TP~~n~~ 163 (169)
+.+++|+||+..+.. ....+.++.. ....+++|.|=|-|-.+
T Consensus 433 ~~~vlIVDEASMv~~--~~m~~LL~~a~~~garvVLVGD~~QLps 475 (988)
T PRK13889 433 SRDVLVIDEAGMVGT--RQLERVLSHAADAGAKVVLVGDPQQLQA 475 (988)
T ss_pred cCcEEEEECcccCCH--HHHHHHHHhhhhCCCEEEEECCHHHcCC
Confidence 557899999998843 2334444433 56778999887766543
No 290
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=93.44 E-value=0.035 Score=38.15 Aligned_cols=33 Identities=24% Similarity=0.245 Sum_probs=18.9
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhccccccEEEEecc
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGW 157 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~T 157 (169)
..|++|+|||-.+- -....+. ++...++++|.|
T Consensus 90 ~~DlliVDEAAaIp--~p~L~~l---l~~~~~vv~stT 122 (177)
T PF05127_consen 90 QADLLIVDEAAAIP--LPLLKQL---LRRFPRVVFSTT 122 (177)
T ss_dssp --SCEEECTGGGS---HHHHHHH---HCCSSEEEEEEE
T ss_pred CCCEEEEechhcCC--HHHHHHH---HhhCCEEEEEee
Confidence 46999999998873 2222222 344556777665
No 291
>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=93.43 E-value=0.29 Score=34.76 Aligned_cols=48 Identities=8% Similarity=-0.025 Sum_probs=35.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++..++|+|||.-++.++.....+ ..+++++.......+-.+.+..+.
T Consensus 20 li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~~~~~l~~~~~~~~ 67 (224)
T TIGR03880 20 VVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEEREERILGYAKSKG 67 (224)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCHHHHHHHHHHcC
Confidence 457789999999888887654433 478889888877777666666553
No 292
>CHL00095 clpC Clp protease ATP binding subunit
Probab=93.39 E-value=0.3 Score=41.72 Aligned_cols=24 Identities=8% Similarity=0.145 Sum_probs=18.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
+.+|..++|+|||..+-+++..+.
T Consensus 202 n~lL~G~pGvGKTal~~~la~~i~ 225 (821)
T CHL00095 202 NPILIGEPGVGKTAIAEGLAQRIV 225 (821)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHH
Confidence 457889999999988766665544
No 293
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.38 E-value=0.78 Score=36.98 Aligned_cols=25 Identities=8% Similarity=0.025 Sum_probs=19.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+|||..+.+++..+...+
T Consensus 40 Lf~GppGtGKTTlA~~lA~~l~c~~ 64 (504)
T PRK14963 40 LFSGPRGVGKTTTARLIAMAVNCSG 64 (504)
T ss_pred EEECCCCCCHHHHHHHHHHHHhccC
Confidence 6778999999999988877765433
No 294
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=93.38 E-value=0.79 Score=37.46 Aligned_cols=22 Identities=14% Similarity=0.161 Sum_probs=16.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++..+.|+|||..+-.+...+.
T Consensus 42 Lf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 42 LFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred EEECCCCCCHHHHHHHHHHHhc
Confidence 4578899999988877765544
No 295
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.36 E-value=0.32 Score=34.92 Aligned_cols=46 Identities=9% Similarity=-0.032 Sum_probs=30.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRK 51 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~ 51 (169)
++..++|+|||..++.++......+ .+.+.++......+-.+++..
T Consensus 28 ~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e~~~~~~~~~~~~ 73 (230)
T PRK08533 28 LIEGDESTGKSILSQRLAYGFLQNG--YSVSYVSTQLTTTEFIKQMMS 73 (230)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCCCCHHHHHHHHHH
Confidence 4678999999998888877654433 577777766554444444433
No 296
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.35 E-value=0.99 Score=33.67 Aligned_cols=38 Identities=13% Similarity=0.264 Sum_probs=21.5
Q ss_pred cccEEEEeCCcccCCccc-HHHHHHhccccccEEEEecc
Q psy1090 120 TWNCIIVDEGHSVKNKKS-KLSIKLTALRATFKVLLTGW 157 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~-~~~~~~~~l~~~~~~~lT~T 157 (169)
+..++++||+|.+..... ...+.+.......+++++++
T Consensus 102 ~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~ 140 (319)
T PRK00440 102 PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCN 140 (319)
T ss_pred CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeC
Confidence 456899999998854221 12222333344456666654
No 297
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.33 E-value=1.1 Score=34.88 Aligned_cols=44 Identities=5% Similarity=0.095 Sum_probs=27.8
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC----cchHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL----SVLNNWEAEFR 50 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~----~~l~qW~~e~~ 50 (169)
+....|+|||.++..+...+...+ .++.+|.-. ..+.||..-..
T Consensus 211 lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae 258 (407)
T PRK12726 211 LIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYAD 258 (407)
T ss_pred EECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhh
Confidence 556789999998888776554433 455555532 23667765444
No 298
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.29 E-value=0.17 Score=36.70 Aligned_cols=33 Identities=12% Similarity=0.134 Sum_probs=24.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
|-+|...+|+|||..+.+++..+...+ .+++++
T Consensus 101 ~~~l~G~~GtGKThLa~aia~~l~~~g--~~v~~i 133 (244)
T PRK07952 101 SFIFSGKPGTGKNHLAAAICNELLLRG--KSVLII 133 (244)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEE
Confidence 357888999999999999888776543 445555
No 299
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.27 E-value=0.49 Score=37.82 Aligned_cols=33 Identities=9% Similarity=0.144 Sum_probs=21.0
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
|.-..|.|||.++..+...+.......++.+|.
T Consensus 261 LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 261 LMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred EECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 566899999988877776654433223444333
No 300
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.26 E-value=0.72 Score=37.50 Aligned_cols=23 Identities=4% Similarity=-0.207 Sum_probs=18.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..++..+..
T Consensus 42 Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 42 LFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred EEECCCCCCHHHHHHHHHHHhCC
Confidence 57789999999988888766553
No 301
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=93.19 E-value=0.14 Score=37.84 Aligned_cols=37 Identities=11% Similarity=0.085 Sum_probs=27.5
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhC--CCCceEEEecCcc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQ--ALEPNLIVCPLSV 41 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~--~~~~~Liv~P~~~ 41 (169)
+.-..|+|||.+.+.-+.++...+ ....+|+++++..
T Consensus 18 V~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~ 56 (315)
T PF00580_consen 18 VNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNA 56 (315)
T ss_dssp EEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHH
T ss_pred EEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHH
Confidence 344589999999988888777665 3457899998753
No 302
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=93.09 E-value=0.28 Score=41.41 Aligned_cols=23 Identities=9% Similarity=0.140 Sum_probs=16.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~ 24 (169)
+.+|.-++|+|||..+=++...+
T Consensus 209 n~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 209 NPLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred CeEEECCCCCCHHHHHHHHHHHH
Confidence 35778899999997766665443
No 303
>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=93.05 E-value=0.36 Score=34.73 Aligned_cols=47 Identities=15% Similarity=0.081 Sum_probs=33.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-++|+|||..++.++.....+ ..++++|.-.....+-.+.+..+
T Consensus 25 lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 25 LLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEEHPVQVRRNMAQF 71 (237)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeCCHHHHHHHHHHh
Confidence 467899999999988887665433 36788888766665555555443
No 304
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.00 E-value=0.59 Score=38.53 Aligned_cols=23 Identities=9% Similarity=-0.041 Sum_probs=18.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..++..+..
T Consensus 42 Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 42 LFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred EEECCCCCCHHHHHHHHHHhccc
Confidence 46789999999998888766653
No 305
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=92.96 E-value=0.99 Score=34.12 Aligned_cols=32 Identities=9% Similarity=-0.006 Sum_probs=22.1
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
+.-..|.|||.++..++..+... .++++++.-
T Consensus 119 lvGpnGsGKTTt~~kLA~~l~~~--g~~V~Li~~ 150 (318)
T PRK10416 119 VVGVNGVGKTTTIGKLAHKYKAQ--GKKVLLAAG 150 (318)
T ss_pred EECCCCCcHHHHHHHHHHHHHhc--CCeEEEEec
Confidence 34589999999888877665533 356666653
No 306
>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=92.90 E-value=1.6 Score=32.95 Aligned_cols=36 Identities=11% Similarity=0.051 Sum_probs=19.1
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
+.-..|+|||......+.......+..+.++++|..
T Consensus 2 i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~ 37 (384)
T PF03237_consen 2 INGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTY 37 (384)
T ss_dssp EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESS
T ss_pred CcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCH
Confidence 344679999987655544444444444566666653
No 307
>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
Probab=92.88 E-value=0.54 Score=33.64 Aligned_cols=27 Identities=26% Similarity=0.429 Sum_probs=18.8
Q ss_pred cHHHHHhchhccccccccEEEEeCCcc
Q psy1090 105 TPQIIENDFGFLKKITWNCIIVDEGHS 131 (169)
Q Consensus 105 ty~~~~~~~~~~~~~~~~~vi~DEah~ 131 (169)
|.+.+..-.+.+....||++|||----
T Consensus 98 t~E~v~~vv~eL~~~~fDyIi~DsPAG 124 (272)
T COG2894 98 TPEGVKKVVNELKAMDFDYIIIDSPAG 124 (272)
T ss_pred CHHHHHHHHHHHHhcCCCEEEecCcch
Confidence 555666666666667888999887543
No 308
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=92.82 E-value=0.41 Score=36.87 Aligned_cols=25 Identities=12% Similarity=0.111 Sum_probs=21.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++.-..|+||+..+.+++..+...+
T Consensus 45 Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 45 LIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred EEECCCCCCHHHHHHHHHHHHhCCC
Confidence 4677899999999999998887654
No 309
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.78 E-value=0.63 Score=34.78 Aligned_cols=25 Identities=16% Similarity=0.240 Sum_probs=20.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+|||..+.++...+...+
T Consensus 28 L~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 28 LFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 5667889999999999988877554
No 310
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.75 E-value=0.8 Score=36.60 Aligned_cols=22 Identities=9% Similarity=0.060 Sum_probs=17.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++..++|+|||..+-.++..+.
T Consensus 40 Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 40 IFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred EEECCCCCCHHHHHHHHHHHhc
Confidence 6788999999988877766554
No 311
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.72 E-value=0.33 Score=34.48 Aligned_cols=41 Identities=20% Similarity=0.304 Sum_probs=25.3
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCCCc
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNKW 163 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n~~ 163 (169)
..+.+++||++.+-. . ....+........+.+-|=|.|-..
T Consensus 62 ~~~~liiDE~~~~~~--g-~l~~l~~~~~~~~~~l~GDp~Q~~~ 102 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPP--G-YLLLLLSLSPAKNVILFGDPLQIPY 102 (234)
T ss_pred cCCEEEEeccccCCh--H-HHHHHHhhccCcceEEEECchhccC
Confidence 578899999998632 1 2233444433446677787777544
No 312
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=92.71 E-value=1.4 Score=35.82 Aligned_cols=23 Identities=9% Similarity=0.060 Sum_probs=18.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+-.++..+..
T Consensus 40 Lf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 40 LFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred EEECCCCCcHHHHHHHHHHHhcC
Confidence 57789999999888888776654
No 313
>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=92.70 E-value=1 Score=30.41 Aligned_cols=29 Identities=17% Similarity=0.211 Sum_probs=20.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEP 32 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~ 32 (169)
++..+.|.||+..+.+++..+........
T Consensus 23 L~~G~~g~gk~~~a~~~a~~ll~~~~~~~ 51 (162)
T PF13177_consen 23 LFHGPSGSGKKTLALAFARALLCSNPNED 51 (162)
T ss_dssp EEECSTTSSHHHHHHHHHHHHC-TT-CTT
T ss_pred EEECCCCCCHHHHHHHHHHHHcCCCCCCC
Confidence 45667899999888888887776554433
No 314
>PRK08506 replicative DNA helicase; Provisional
Probab=92.57 E-value=1 Score=36.02 Aligned_cols=45 Identities=7% Similarity=-0.042 Sum_probs=33.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
+++-.+|+|||.-++.++..... ...+++++.......|....+.
T Consensus 196 vIaarpg~GKT~fal~ia~~~~~--~g~~V~~fSlEMs~~ql~~Rll 240 (472)
T PRK08506 196 IIAARPSMGKTTLCLNMALKALN--QDKGVAFFSLEMPAEQLMLRML 240 (472)
T ss_pred EEEcCCCCChHHHHHHHHHHHHh--cCCcEEEEeCcCCHHHHHHHHH
Confidence 67889999999988888766543 2468888887766666665553
No 315
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=92.43 E-value=0.37 Score=32.99 Aligned_cols=54 Identities=17% Similarity=0.202 Sum_probs=28.7
Q ss_pred hhccccccccEEEEeCCcccCC----cccHHHHHHhccccccEEEEeccCCCCCchhh
Q psy1090 113 FGFLKKITWNCIIVDEGHSVKN----KKSKLSIKLTALRATFKVLLTGWYYPNKWSKQ 166 (169)
Q Consensus 113 ~~~~~~~~~~~vi~DEah~~k~----~~~~~~~~~~~l~~~~~~~lT~TP~~n~~~el 166 (169)
...+..-.||++|+||.-..-+ +.......+..-+...-++|||--.+..+.|+
T Consensus 89 ~~~i~~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~ 146 (172)
T PF02572_consen 89 KEAISSGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEA 146 (172)
T ss_dssp HHHTT-TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH
T ss_pred HHHHhCCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHh
Confidence 3444567899999999764322 12333444554456678999997766555444
No 316
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=92.40 E-value=0.48 Score=39.43 Aligned_cols=53 Identities=15% Similarity=0.217 Sum_probs=39.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cchHHHHHHHHHhCCCceEEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKY 61 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~ 61 (169)
++..-.|+|||+.+.+++.. ..+|+|||+|. ....+|.+++..|.|+..+..|
T Consensus 36 ll~Gl~gs~ka~lia~l~~~-----~~r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f 89 (652)
T PRK05298 36 TLLGVTGSGKTFTMANVIAR-----LQRPTLVLAHNKTLAAQLYSEFKEFFPENAVEYF 89 (652)
T ss_pred EEEcCCCcHHHHHHHHHHHH-----hCCCEEEEECCHHHHHHHHHHHHHhcCCCeEEEe
Confidence 35566899999886654432 24689999998 5567999999999887656555
No 317
>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=92.25 E-value=0.53 Score=33.51 Aligned_cols=46 Identities=11% Similarity=0.052 Sum_probs=30.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRK 51 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~ 51 (169)
++.-++|+|||..+..++...... ..+++++.......+..+....
T Consensus 24 ~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~~~~i~~~~~~ 69 (229)
T TIGR03881 24 AVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEESRESIIRQAAQ 69 (229)
T ss_pred EEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccCCHHHHHHHHHH
Confidence 467899999998888776544432 3577777766555554444433
No 318
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.24 E-value=1.4 Score=37.36 Aligned_cols=35 Identities=9% Similarity=0.188 Sum_probs=21.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
.|....|.|||.+...+...+......+++.++.-
T Consensus 189 ~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~ 223 (767)
T PRK14723 189 ALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT 223 (767)
T ss_pred EEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC
Confidence 46778999999887777655533332234544443
No 319
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.17 E-value=1.1 Score=37.10 Aligned_cols=24 Identities=8% Similarity=-0.000 Sum_probs=19.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
++..+.|+|||..+.+++..+...
T Consensus 42 Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 42 LFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred EEECCCCCChHHHHHHHHHHhcCC
Confidence 577899999999999888776643
No 320
>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=92.16 E-value=0.81 Score=35.91 Aligned_cols=45 Identities=11% Similarity=0.039 Sum_probs=31.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
+++-.+|+|||.-++.++...... ...+++++....--.+....+
T Consensus 198 viag~pg~GKT~~al~ia~~~a~~-~g~~v~~fSlEm~~~~l~~Rl 242 (421)
T TIGR03600 198 VIGARPSMGKTTLALNIAENVALR-EGKPVLFFSLEMSAEQLGERL 242 (421)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCCCHHHHHHHH
Confidence 678899999998888887554322 246788888665555555444
No 321
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=92.05 E-value=1.3 Score=38.97 Aligned_cols=41 Identities=22% Similarity=0.220 Sum_probs=28.5
Q ss_pred ccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEEeccCCCCCc
Q psy1090 121 WNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLLTGWYYPNKW 163 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~lT~TP~~n~~ 163 (169)
-+++|+||+..+.. ......++.. +...+++|-|=|-|-.+
T Consensus 469 ~~vlVIDEAsMv~~--~~m~~Ll~~~~~~garvVLVGD~~QL~~ 510 (1102)
T PRK13826 469 KTVFVLDEAGMVAS--RQMALFVEAVTRAGAKLVLVGDPEQLQP 510 (1102)
T ss_pred CcEEEEECcccCCH--HHHHHHHHHHHhcCCEEEEECCHHHcCC
Confidence 46899999998842 3334555555 46789999988776543
No 322
>PHA00350 putative assembly protein
Probab=92.03 E-value=0.49 Score=36.85 Aligned_cols=15 Identities=13% Similarity=0.087 Sum_probs=12.2
Q ss_pred cCCCCCcHHHHHHHH
Q psy1090 6 PDPTRYRKSGKVIAF 20 (169)
Q Consensus 6 ~de~G~GKT~~~i~~ 20 (169)
---+|+|||..++..
T Consensus 7 tG~pGSGKT~~aV~~ 21 (399)
T PHA00350 7 VGRPGSYKSYEAVVY 21 (399)
T ss_pred ecCCCCchhHHHHHH
Confidence 345899999999875
No 323
>PRK13342 recombination factor protein RarA; Reviewed
Probab=92.01 E-value=1.1 Score=35.18 Aligned_cols=19 Identities=11% Similarity=0.025 Sum_probs=13.9
Q ss_pred ccccCCCCCcHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFF 21 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i 21 (169)
.+|.-++|+|||..+-.+.
T Consensus 39 ilL~GppGtGKTtLA~~ia 57 (413)
T PRK13342 39 MILWGPPGTGKTTLARIIA 57 (413)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4667889999997665553
No 324
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=91.99 E-value=0.56 Score=33.55 Aligned_cols=47 Identities=9% Similarity=0.074 Sum_probs=34.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++..++|+|||.-+..++.....+ ..+++++.-.....+..+++..+
T Consensus 29 ~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~~~~~~~~~~~~ 75 (234)
T PRK06067 29 LIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENTSKSYLKQMESV 75 (234)
T ss_pred EEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCCHHHHHHHHHHC
Confidence 566899999999988887654432 46788888777777777766655
No 325
>PRK10865 protein disaggregation chaperone; Provisional
Probab=91.99 E-value=0.75 Score=39.57 Aligned_cols=24 Identities=21% Similarity=0.207 Sum_probs=18.3
Q ss_pred CccccCCCCCcHHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
+.+|..++|+|||..+-++...+.
T Consensus 201 n~lL~G~pGvGKT~l~~~la~~i~ 224 (857)
T PRK10865 201 NPVLIGEPGVGKTAIVEGLAQRII 224 (857)
T ss_pred ceEEECCCCCCHHHHHHHHHHHhh
Confidence 467889999999988766665543
No 326
>PRK12377 putative replication protein; Provisional
Probab=91.98 E-value=0.35 Score=35.17 Aligned_cols=39 Identities=13% Similarity=0.122 Sum_probs=26.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN 43 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~ 43 (169)
-+|..++|+|||..+.+++..+...+ .+++++.-..++.
T Consensus 104 l~l~G~~GtGKThLa~AIa~~l~~~g--~~v~~i~~~~l~~ 142 (248)
T PRK12377 104 FVFSGKPGTGKNHLAAAIGNRLLAKG--RSVIVVTVPDVMS 142 (248)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcC--CCeEEEEHHHHHH
Confidence 46778899999999998888776543 3454444345544
No 327
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=91.87 E-value=1.6 Score=31.74 Aligned_cols=31 Identities=13% Similarity=0.049 Sum_probs=21.7
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE--ecCc
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV--CPLS 40 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv--~P~~ 40 (169)
-=|.|||..+.++...+...+ +++|+| +|.+
T Consensus 10 kGGvG~TTltAnLA~aL~~~G--~~VlaID~dpqN 42 (243)
T PF06564_consen 10 KGGVGKTTLTANLAWALARLG--ESVLAIDLDPQN 42 (243)
T ss_pred CCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCcHH
Confidence 348999999888887776655 456665 3544
No 328
>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=91.85 E-value=4 Score=30.15 Aligned_cols=32 Identities=9% Similarity=0.100 Sum_probs=22.4
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
+.-.+|.|||.++..++..+...+ .+++++.-
T Consensus 77 l~G~~G~GKTTt~akLA~~l~~~g--~~V~li~~ 108 (272)
T TIGR00064 77 FVGVNGVGKTTTIAKLANKLKKQG--KSVLLAAG 108 (272)
T ss_pred EECCCCCcHHHHHHHHHHHHHhcC--CEEEEEeC
Confidence 346899999999888877664332 56666653
No 329
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=91.83 E-value=0.67 Score=39.82 Aligned_cols=24 Identities=17% Similarity=0.195 Sum_probs=17.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
+.+|.-++|+|||..+-+++..+.
T Consensus 196 n~lL~G~pGvGKT~l~~~la~~i~ 219 (852)
T TIGR03346 196 NPVLIGEPGVGKTAIVEGLAQRIV 219 (852)
T ss_pred ceEEEcCCCCCHHHHHHHHHHHHh
Confidence 356778999999987766655443
No 330
>PRK08760 replicative DNA helicase; Provisional
Probab=91.78 E-value=0.67 Score=37.09 Aligned_cols=48 Identities=2% Similarity=-0.109 Sum_probs=36.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
+++-.+|+|||.-++.++...... ...+++++.......|+...+...
T Consensus 233 vIaarPg~GKTafal~iA~~~a~~-~g~~V~~fSlEMs~~ql~~Rl~a~ 280 (476)
T PRK08760 233 ILAARPAMGKTTFALNIAEYAAIK-SKKGVAVFSMEMSASQLAMRLISS 280 (476)
T ss_pred EEEeCCCCChhHHHHHHHHHHHHh-cCCceEEEeccCCHHHHHHHHHHh
Confidence 678899999999888887665432 235788888888788888776543
No 331
>PRK04132 replication factor C small subunit; Provisional
Probab=91.77 E-value=1.8 Score=37.11 Aligned_cols=42 Identities=12% Similarity=0.252 Sum_probs=26.7
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc---ccccEEEEeccCCCCCc
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL---RATFKVLLTGWYYPNKW 163 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l---~~~~~~~lT~TP~~n~~ 163 (169)
++.++|+||+|.+... .....++.+ ....++++..++...-+
T Consensus 630 ~~KVvIIDEaD~Lt~~--AQnALLk~lEep~~~~~FILi~N~~~kIi 674 (846)
T PRK04132 630 SFKIIFLDEADALTQD--AQQALRRTMEMFSSNVRFILSCNYSSKII 674 (846)
T ss_pred CCEEEEEECcccCCHH--HHHHHHHHhhCCCCCeEEEEEeCChhhCc
Confidence 5789999999998532 222222233 45668888888765443
No 332
>KOG0739|consensus
Probab=91.69 E-value=0.21 Score=37.42 Aligned_cols=47 Identities=19% Similarity=0.195 Sum_probs=31.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
|.+|-..+|+||+..+=++.. ......+=|..+.++..|.-|-++..
T Consensus 168 giLLyGPPGTGKSYLAKAVAT-----EAnSTFFSvSSSDLvSKWmGESEkLV 214 (439)
T KOG0739|consen 168 GILLYGPPGTGKSYLAKAVAT-----EANSTFFSVSSSDLVSKWMGESEKLV 214 (439)
T ss_pred eEEEeCCCCCcHHHHHHHHHh-----hcCCceEEeehHHHHHHHhccHHHHH
Confidence 557788999999966555432 22244555555678889998876553
No 333
>PRK04328 hypothetical protein; Provisional
Probab=91.64 E-value=0.66 Score=33.71 Aligned_cols=47 Identities=17% Similarity=0.111 Sum_probs=31.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-++|+|||..++.++...... ..+.++|.-...-.+-.+.+..+
T Consensus 27 li~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~~~~i~~~~~~~ 73 (249)
T PRK04328 27 LLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEEHPVQVRRNMRQF 73 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCCHHHHHHHHHHc
Confidence 367899999999888887664433 36777777655555544444444
No 334
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.60 E-value=0.36 Score=40.08 Aligned_cols=48 Identities=15% Similarity=-0.021 Sum_probs=32.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc-hHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV-LNNWEAEFRK 51 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~-l~qW~~e~~~ 51 (169)
+++--++|+|||+..++......... ..+++|.++... ..|-.++...
T Consensus 37 ~~iEapTGtGKTl~yL~~al~~~~~~-~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 37 LLIEAPTGTGKTLAYLLPALAYAREE-GKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHc-CCcEEEECCCHHHHHHHHHhhcc
Confidence 56778999999999887766555443 256666666654 4466666543
No 335
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=91.58 E-value=0.74 Score=33.54 Aligned_cols=48 Identities=23% Similarity=0.228 Sum_probs=34.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++.-++|+|||.-++.++...... ..|++.|.-...-.+-.+.+..|.
T Consensus 27 lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~~~~l~~~~~~~g 74 (260)
T COG0467 27 LITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEESPEELLENARSFG 74 (260)
T ss_pred EEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCCHHHHHHHHHHcC
Confidence 456789999999999998877665 478999987665554444444443
No 336
>PHA00673 acetyltransferase domain containing protein
Probab=91.51 E-value=0.27 Score=33.02 Aligned_cols=45 Identities=18% Similarity=0.037 Sum_probs=35.2
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhcc---ccccEEEEeccCCCCCch
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTAL---RATFKVLLTGWYYPNKWS 164 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l---~~~~~~~lT~TP~~n~~~ 164 (169)
..+.+.+|+.|+=++-..+..+.+... .-..++.+||||.+|.+.
T Consensus 87 ~Ie~l~V~~~~RGqGIG~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~ 134 (154)
T PHA00673 87 TTESIFVAAAHRPGGAGMALLRATEALARDLGATGLYVSGPTEGRLVQ 134 (154)
T ss_pred EEEEEEEChhccCCCHHHHHHHHHHHHHHHCCCCEEEEecCCCccchH
Confidence 467899999999877777666665543 456899999999999764
No 337
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=91.47 E-value=2.4 Score=26.90 Aligned_cols=45 Identities=11% Similarity=0.025 Sum_probs=26.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++.-..|.|||..+..+...+.+. ..+++++--.. +++.+++...
T Consensus 3 ~~~GkgG~GKTt~a~~la~~l~~~--g~~V~~id~D~--~~~~~~~~~~ 47 (116)
T cd02034 3 AITGKGGVGKTTIAALLARYLAEK--GKPVLAIDADP--DDLPERLSVE 47 (116)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCc--hhhHHHHhhc
Confidence 355678999998887776665443 34565555322 4444444433
No 338
>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=91.43 E-value=0.28 Score=36.35 Aligned_cols=27 Identities=4% Similarity=-0.102 Sum_probs=20.4
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
+.+|..++|+|||..|-++...+...+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 346778999999998877776665543
No 339
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=91.42 E-value=0.19 Score=39.04 Aligned_cols=22 Identities=18% Similarity=0.157 Sum_probs=14.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.+.-+.|+|||..+-.+...+.
T Consensus 173 lIvgppGvGKTTLaK~Ian~I~ 194 (416)
T PRK09376 173 LIVAPPKAGKTVLLQNIANSIT 194 (416)
T ss_pred EEeCCCCCChhHHHHHHHHHHH
Confidence 4456789999976655544443
No 340
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=91.39 E-value=0.4 Score=39.18 Aligned_cols=44 Identities=14% Similarity=0.188 Sum_probs=29.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCC----CCceEEEecCcchHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQA----LEPNLIVCPLSVLNNWEA 47 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~----~~~~Liv~P~~~l~qW~~ 47 (169)
++....|+|||..|+-=++++....+ .+++||+.|+.+......
T Consensus 230 VVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis 277 (747)
T COG3973 230 VVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYIS 277 (747)
T ss_pred EEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHH
Confidence 45567899999887755555444322 357999999987665543
No 341
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.37 E-value=1.9 Score=35.38 Aligned_cols=23 Identities=4% Similarity=-0.061 Sum_probs=18.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..++..+..
T Consensus 42 Lf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 42 LFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred EEECCCCCCHHHHHHHHHHhhcC
Confidence 46778999999988888766553
No 342
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=91.19 E-value=1.2 Score=33.79 Aligned_cols=25 Identities=4% Similarity=-0.013 Sum_probs=20.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|.||+..+.+++..+...+
T Consensus 28 Lf~G~~G~GK~~lA~~~A~~llC~~ 52 (325)
T PRK06871 28 LFKADSGLGTEQLIRALAQWLMCQT 52 (325)
T ss_pred EeECCCCCCHHHHHHHHHHHHcCCC
Confidence 3677899999999999988877644
No 343
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=91.12 E-value=2.1 Score=29.42 Aligned_cols=23 Identities=13% Similarity=0.131 Sum_probs=18.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+..++..+..
T Consensus 18 L~~G~~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 18 LFAGPEGVGKELLALALAKALLC 40 (188)
T ss_pred EEECCCCCCHHHHHHHHHHHHcC
Confidence 46778999999888888776654
No 344
>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]
Probab=91.08 E-value=0.78 Score=30.67 Aligned_cols=36 Identities=14% Similarity=0.149 Sum_probs=27.3
Q ss_pred eEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHH
Q psy1090 33 NLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIER 68 (169)
Q Consensus 33 ~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~ 68 (169)
..||+=+.+-.+..+.++.-.|++.++...|+....
T Consensus 69 ~~vi~CSALKr~YRD~LR~~~~~~~Fv~L~g~~~~i 104 (161)
T COG3265 69 HVVIACSALKRSYRDLLREANPGLRFVYLDGDFDLI 104 (161)
T ss_pred ceEEecHHHHHHHHHHHhccCCCeEEEEecCCHHHH
Confidence 344444566778888888888999999999987663
No 345
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=91.07 E-value=0.47 Score=31.94 Aligned_cols=33 Identities=18% Similarity=-0.009 Sum_probs=25.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
|.+.++|.|||..+++++..+.+++ .++.++=|
T Consensus 2 I~~t~~~~GKT~va~~L~~~l~~~g--~~V~~~kP 34 (166)
T TIGR00347 2 VTGTDTGVGKTVASSALAAKLKKAG--YSVGYYKP 34 (166)
T ss_pred eecCCCCccHHHHHHHHHHHHHHCC--CcEEEEEe
Confidence 3467899999999999988887655 45666644
No 346
>PF12846 AAA_10: AAA-like domain
Probab=91.03 E-value=0.54 Score=34.54 Aligned_cols=36 Identities=19% Similarity=0.179 Sum_probs=24.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
.++.-.+|+|||..+..++......+ .+++|+=|..
T Consensus 4 ~~i~G~tGsGKT~~~~~l~~~~~~~g--~~~~i~D~~g 39 (304)
T PF12846_consen 4 TLILGKTGSGKTTLLKNLLEQLIRRG--PRVVIFDPKG 39 (304)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcC--CCEEEEcCCc
Confidence 56778999999988877766555444 3445554443
No 347
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=90.96 E-value=0.39 Score=32.46 Aligned_cols=32 Identities=9% Similarity=-0.041 Sum_probs=23.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
+.+-.-|.|||..++.+...+...+ .++|+|-
T Consensus 4 v~s~kgG~GKTt~a~~LA~~la~~g--~~vllvD 35 (169)
T cd02037 4 VMSGKGGVGKSTVAVNLALALAKLG--YKVGLLD 35 (169)
T ss_pred EecCCCcCChhHHHHHHHHHHHHcC--CcEEEEe
Confidence 4566789999999988877665543 5777773
No 348
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=90.94 E-value=0.38 Score=40.93 Aligned_cols=58 Identities=14% Similarity=0.129 Sum_probs=39.8
Q ss_pred EEecHHHHHhch--hccccccccEEEEeCCcccCCcccHHHHHHhcc----ccccEEEEeccCCC
Q psy1090 102 LVTTPQIIENDF--GFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL----RATFKVLLTGWYYP 160 (169)
Q Consensus 102 ~i~ty~~~~~~~--~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l----~~~~~~~lT~TP~~ 160 (169)
++.|...+..|. +.+.--.+..+|+||||++.+..+-.+ .++.+ +..+..++|+.|-.
T Consensus 11 ~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ahr~~~~~~eaF-I~rlyr~~n~~gfIkafSdsP~~ 74 (814)
T TIGR00596 11 FSITSRILVVDLLTGIIPPELITGILVLRADRIIESSQEAF-ILRLYRQKNKTGFIKAFSDNPEA 74 (814)
T ss_pred EEEechhhHhHHhcCCCCHHHccEEEEeecccccccccHHH-HHHHHHHhCCCcceEEecCCCcc
Confidence 778887777654 233334678999999999976444333 22322 46789999999976
No 349
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=90.81 E-value=0.34 Score=35.39 Aligned_cols=27 Identities=11% Similarity=-0.039 Sum_probs=20.0
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.+++.+...+.+.+ +++|+|
T Consensus 8 KGGVGKTT~~~nLA~~La~~g--~rVLli 34 (268)
T TIGR01281 8 KGGIGKSTTSSNLSVAFAKLG--KRVLQI 34 (268)
T ss_pred CCcCcHHHHHHHHHHHHHhCC--CeEEEE
Confidence 569999999988877665443 567776
No 350
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.77 E-value=0.51 Score=35.44 Aligned_cols=38 Identities=8% Similarity=-0.074 Sum_probs=26.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV 41 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~ 41 (169)
|-+|-..+|+|||..+.|++..+...+ .++.++--+.+
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g--~~v~~~~~~~l 195 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKG--VSSTLLHFPEF 195 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC--CCEEEEEHHHH
Confidence 456778899999999988888776443 44555543333
No 351
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=90.77 E-value=0.35 Score=35.51 Aligned_cols=27 Identities=15% Similarity=0.069 Sum_probs=20.5
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.+++.+...+.+.+ +++|+|
T Consensus 9 KGGVGKTT~~~nLA~~La~~G--~rVLlI 35 (274)
T PRK13235 9 KGGIGKSTTTQNTVAGLAEMG--KKVMVV 35 (274)
T ss_pred CCCccHHHHHHHHHHHHHHCC--CcEEEE
Confidence 559999999988877666544 577777
No 352
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=90.65 E-value=2.4 Score=32.01 Aligned_cols=19 Identities=11% Similarity=-0.036 Sum_probs=15.5
Q ss_pred CCcHHHHHHHHHHHHHHhC
Q psy1090 10 RYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 10 G~GKT~~~i~~i~~~~~~~ 28 (169)
|+|||-.++.++..+..++
T Consensus 40 GTGKTP~v~~La~~l~~~G 58 (311)
T TIGR00682 40 GTGKTPVVVWLAELLKDRG 58 (311)
T ss_pred CcChHHHHHHHHHHHHHCC
Confidence 8999999998888776543
No 353
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.65 E-value=2.3 Score=34.23 Aligned_cols=22 Identities=9% Similarity=0.027 Sum_probs=16.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++..+.|+|||..+-.+...+.
T Consensus 42 Lf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 42 IFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred EEECCCCCCHHHHHHHHHHHhc
Confidence 4688999999987777665543
No 354
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=90.64 E-value=2.9 Score=31.76 Aligned_cols=41 Identities=15% Similarity=-0.080 Sum_probs=28.0
Q ss_pred CCcHHHHHHHHHHHHHHhCCC------------C-ceEEEecCcchHHHHHHHH
Q psy1090 10 RYRKSGKVIAFFCKIIEEQAL------------E-PNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 10 G~GKT~~~i~~i~~~~~~~~~------------~-~~Liv~P~~~l~qW~~e~~ 50 (169)
|+|||-.++.++..+.+.+.. + ..++|.|.+.-.+--+|-.
T Consensus 47 GTGKTP~v~~L~~~L~~~G~~~~IlSRGYg~~~~~~~~~v~~~~~~~~~GDEp~ 100 (326)
T PF02606_consen 47 GTGKTPLVIWLARLLQARGYRPAILSRGYGRKSKGEPILVSDGSDAEEVGDEPL 100 (326)
T ss_pred CCCchHHHHHHHHHHHhcCCceEEEcCCCCCCCCCCeEEEeCCCChhhhcCHHH
Confidence 899999999998887765311 1 2677777775555556643
No 355
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=90.58 E-value=0.36 Score=35.56 Aligned_cols=28 Identities=21% Similarity=0.176 Sum_probs=21.1
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
.-=|.|||.+++.+...+...+ +++|+|
T Consensus 8 gKGGVGKTT~a~nLA~~La~~G--~rVLli 35 (279)
T PRK13230 8 GKGGIGKSTTVCNIAAALAESG--KKVLVV 35 (279)
T ss_pred CCCCCcHHHHHHHHHHHHHhCC--CEEEEE
Confidence 3569999999988877776544 567777
No 356
>PRK05636 replicative DNA helicase; Provisional
Probab=90.53 E-value=0.91 Score=36.60 Aligned_cols=45 Identities=9% Similarity=0.034 Sum_probs=31.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
+++-.+|+|||.-++.++...... ...+++++.......|....+
T Consensus 269 iiaarpg~GKT~~al~~a~~~a~~-~g~~v~~fSlEMs~~ql~~R~ 313 (505)
T PRK05636 269 IVAARPGVGKSTLALDFMRSASIK-HNKASVIFSLEMSKSEIVMRL 313 (505)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEEeeCCHHHHHHHH
Confidence 678899999998888776554322 235788887766666665554
No 357
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=90.50 E-value=1.2 Score=33.90 Aligned_cols=25 Identities=12% Similarity=0.073 Sum_probs=20.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+||+..+.++...+...+
T Consensus 28 Lf~G~~G~Gk~~lA~~~A~~LlC~~ 52 (334)
T PRK07993 28 LIQALPGMGDDALIYALSRWLMCQQ 52 (334)
T ss_pred eeECCCCCCHHHHHHHHHHHHcCCC
Confidence 4678899999999999988887643
No 358
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=90.41 E-value=3.2 Score=34.89 Aligned_cols=23 Identities=4% Similarity=-0.084 Sum_probs=17.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
+|....|+|||..+..+...+..
T Consensus 42 Lf~GP~GvGKTTlAriLAk~LnC 64 (709)
T PRK08691 42 LLTGTRGVGKTTIARILAKSLNC 64 (709)
T ss_pred EEECCCCCcHHHHHHHHHHHhcc
Confidence 67788999999888877665543
No 359
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.32 E-value=1.2 Score=36.87 Aligned_cols=23 Identities=9% Similarity=-0.015 Sum_probs=18.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..|..+...+..
T Consensus 42 Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 42 IFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred EEECCCCCCHHHHHHHHHHHhCC
Confidence 46788999999999888776654
No 360
>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=90.29 E-value=0.64 Score=34.95 Aligned_cols=47 Identities=19% Similarity=0.336 Sum_probs=30.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC-cch-----HHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL-SVL-----NNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~-~~l-----~qW~~e~~ 50 (169)
++-..+|.||+--.=.++...+-......+++|+|. ..+ .-|..++.
T Consensus 91 ~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~ 143 (369)
T PF02456_consen 91 VVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLC 143 (369)
T ss_pred EEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHH
Confidence 445689999995444444444444555678999996 444 34777765
No 361
>PRK10037 cell division protein; Provisional
Probab=90.29 E-value=0.42 Score=34.64 Aligned_cols=31 Identities=10% Similarity=-0.036 Sum_probs=22.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+...-=|.|||.+++.+...+.+.+ +++|+|
T Consensus 6 v~n~KGGvGKTT~a~nLA~~La~~G--~rVLlI 36 (250)
T PRK10037 6 LQGVRGGVGTTSITAALAWSLQMLG--ENVLVI 36 (250)
T ss_pred EecCCCCccHHHHHHHHHHHHHhcC--CcEEEE
Confidence 3455669999999988877766544 567777
No 362
>PRK06921 hypothetical protein; Provisional
Probab=89.95 E-value=0.73 Score=33.88 Aligned_cols=39 Identities=10% Similarity=0.006 Sum_probs=25.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL 42 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l 42 (169)
.+|.-++|+|||..+.+++..+.... ...++.+....++
T Consensus 120 l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~~~l~ 158 (266)
T PRK06921 120 IALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPFVEGF 158 (266)
T ss_pred EEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEHHHHH
Confidence 46777999999999888877766542 2344444433433
No 363
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=89.92 E-value=1.6 Score=34.90 Aligned_cols=32 Identities=28% Similarity=0.240 Sum_probs=22.0
Q ss_pred hchhccccccccEEEEeCCcccCCcccHHHHHHh
Q psy1090 111 NDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLT 144 (169)
Q Consensus 111 ~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~ 144 (169)
++.........+++|+||.|..++. ..+.++.
T Consensus 114 ~~~~~~dG~~~~~~i~DE~h~~~~~--~~~~~l~ 145 (477)
T PF03354_consen 114 SDADSLDGLNPSLAIFDELHAHKDD--ELYDALE 145 (477)
T ss_pred cCCCCccCCCCceEEEeCCCCCCCH--HHHHHHH
Confidence 3445555677899999999998753 3455554
No 364
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=89.87 E-value=0.47 Score=34.71 Aligned_cols=28 Identities=11% Similarity=-0.027 Sum_probs=20.9
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
.--|.|||.++..+...+...+ +++|+|
T Consensus 9 ~KGGVGKTT~~~nLA~~la~~G--~kVLli 36 (270)
T PRK13185 9 GKGGIGKSTTSSNLSAAFAKLG--KKVLQI 36 (270)
T ss_pred CCCCCCHHHHHHHHHHHHHHCC--CeEEEE
Confidence 3679999999988877766543 567777
No 365
>PHA02518 ParA-like protein; Provisional
Probab=89.84 E-value=0.84 Score=31.80 Aligned_cols=41 Identities=12% Similarity=0.153 Sum_probs=28.4
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHHHHH
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNWEAE 48 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW~~e 48 (169)
..-=|.|||..++.+...+...+ .++++|- |.....+|...
T Consensus 7 ~~KGGvGKTT~a~~la~~la~~g--~~vlliD~D~q~~~~~~~~~ 49 (211)
T PHA02518 7 NQKGGAGKTTVATNLASWLHADG--HKVLLVDLDPQGSSTDWAEA 49 (211)
T ss_pred cCCCCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCCChHHHHHh
Confidence 34458999999988877665443 5676664 66677788653
No 366
>PRK06835 DNA replication protein DnaC; Validated
Probab=89.81 E-value=0.48 Score=35.97 Aligned_cols=38 Identities=5% Similarity=-0.045 Sum_probs=25.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV 41 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~ 41 (169)
|-+|..++|+|||..+.+++..+...+ ..++.+.-..+
T Consensus 185 ~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~~~l 222 (329)
T PRK06835 185 NLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTADEL 222 (329)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEHHHH
Confidence 346777899999999888877776543 34444433333
No 367
>PRK07004 replicative DNA helicase; Provisional
Probab=89.73 E-value=0.95 Score=36.07 Aligned_cols=45 Identities=7% Similarity=-0.077 Sum_probs=32.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
+++-.+|+|||.-++.++...... ...+++++.....-.|....+
T Consensus 217 viaarpg~GKT~~al~ia~~~a~~-~~~~v~~fSlEM~~~ql~~R~ 261 (460)
T PRK07004 217 IVAGRPSMGKTAFSMNIGEYVAVE-YGLPVAVFSMEMPGTQLAMRM 261 (460)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHH-cCCeEEEEeCCCCHHHHHHHH
Confidence 678899999998888877654332 236788887776666766555
No 368
>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=89.53 E-value=3.6 Score=31.21 Aligned_cols=38 Identities=11% Similarity=0.045 Sum_probs=28.1
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNN 44 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~q 44 (169)
+.-+.|+|||..++.++...... .+++++|-..+...+
T Consensus 60 I~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 60 IYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP 97 (321)
T ss_pred EECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHH
Confidence 66789999999888877665543 467888877766654
No 369
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=89.51 E-value=0.55 Score=33.08 Aligned_cols=27 Identities=19% Similarity=0.035 Sum_probs=20.8
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
--|.|||.++..+...+.+.+ +++|+|
T Consensus 8 KGGvGKTt~~~nLA~~la~~G--~rvLli 34 (212)
T cd02117 8 KGGIGKSTTSQNLSAALAEMG--KKVLQV 34 (212)
T ss_pred CCcCcHHHHHHHHHHHHHHCC--CcEEEE
Confidence 679999998888877776654 567777
No 370
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=89.40 E-value=1.1 Score=34.97 Aligned_cols=21 Identities=14% Similarity=0.074 Sum_probs=14.3
Q ss_pred ccccCCCCCcHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCK 23 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~ 23 (169)
+.+..++|+|||..+-.+...
T Consensus 171 ~~IvG~~g~GKTtL~~~i~~~ 191 (415)
T TIGR00767 171 GLIVAPPKAGKTVLLQKIAQA 191 (415)
T ss_pred EEEECCCCCChhHHHHHHHHh
Confidence 456678999999765554443
No 371
>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=89.39 E-value=3 Score=31.71 Aligned_cols=37 Identities=11% Similarity=0.012 Sum_probs=27.9
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN 43 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~ 43 (169)
+.-+.|+|||..++.++...... .+++++|-+.+...
T Consensus 60 I~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~ 96 (325)
T cd00983 60 IYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALD 96 (325)
T ss_pred EECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHH
Confidence 56689999998888877665443 46888888877665
No 372
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=89.39 E-value=0.53 Score=35.03 Aligned_cols=28 Identities=11% Similarity=-0.025 Sum_probs=20.5
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
-=|.|||.+++.+...+.+.+ +++|+|=
T Consensus 8 KGGVGKTTta~nLA~~La~~G--~rVLlID 35 (290)
T CHL00072 8 KGGIGKSTTSCNISIALARRG--KKVLQIG 35 (290)
T ss_pred CCCCcHHHHHHHHHHHHHHCC--CeEEEEe
Confidence 559999999988877766544 4677663
No 373
>PRK06321 replicative DNA helicase; Provisional
Probab=89.38 E-value=1.7 Score=34.84 Aligned_cols=46 Identities=7% Similarity=-0.026 Sum_probs=32.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
+++--+|+|||.-++.++...... ...+++++.....-.|+.+.+.
T Consensus 230 iiaarPgmGKTafal~ia~~~a~~-~g~~v~~fSLEMs~~ql~~Rll 275 (472)
T PRK06321 230 ILAARPAMGKTALALNIAENFCFQ-NRLPVGIFSLEMTVDQLIHRII 275 (472)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHh-cCCeEEEEeccCCHHHHHHHHH
Confidence 678899999998887765544322 2467888887776777766653
No 374
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=89.36 E-value=0.55 Score=34.31 Aligned_cols=27 Identities=11% Similarity=0.026 Sum_probs=20.0
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
--|.|||.++..+...+.+.+ +++|+|
T Consensus 8 KGGvGKTT~a~nLA~~la~~G--~rvlli 34 (267)
T cd02032 8 KGGIGKSTTSSNLSVALAKRG--KKVLQI 34 (267)
T ss_pred CCCCCHHHHHHHHHHHHHHCC--CcEEEE
Confidence 569999999888877665444 567666
No 375
>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=89.36 E-value=0.63 Score=34.03 Aligned_cols=34 Identities=24% Similarity=0.066 Sum_probs=25.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
+++-++|+|||.-++.++...... ..+++++.-.
T Consensus 40 lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~E 73 (259)
T TIGR03878 40 NITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVE 73 (259)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEec
Confidence 467899999999888887654433 4678888744
No 376
>PRK09165 replicative DNA helicase; Provisional
Probab=89.11 E-value=1.8 Score=34.89 Aligned_cols=48 Identities=2% Similarity=-0.124 Sum_probs=33.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhC-------------CCCceEEEecCcchHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQ-------------ALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~-------------~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
.+++--+|+|||.-++.++....... ...+++++.....-.|....+.
T Consensus 220 ivIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~l 280 (497)
T PRK09165 220 IILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRIL 280 (497)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHH
Confidence 36788999999988888776554331 1357888877766677666653
No 377
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=89.02 E-value=1.1 Score=32.20 Aligned_cols=42 Identities=7% Similarity=0.108 Sum_probs=29.0
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHHHHHH
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNWEAEF 49 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW~~e~ 49 (169)
..-=|.|||.+++.+...+...+ .++++|= |...+..|....
T Consensus 8 n~KGGvGKTT~a~nLA~~la~~G--~~VlliD~DpQ~s~~~w~~~~ 51 (231)
T PRK13849 8 SFKGGAGKTTALMGLCAALASDG--KRVALFEADENRPLTRWKENA 51 (231)
T ss_pred CCCCCccHHHHHHHHHHHHHhCC--CcEEEEeCCCCCCHHHHHHhh
Confidence 34459999999988877766544 4666664 566777887543
No 378
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=88.98 E-value=2.9 Score=34.52 Aligned_cols=24 Identities=17% Similarity=0.091 Sum_probs=19.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
++..+.|+|||..|..++..+...
T Consensus 42 Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 42 IFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred EEECCCCCCHHHHHHHHHHHhcCC
Confidence 467899999999988887766543
No 379
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=88.93 E-value=0.59 Score=34.06 Aligned_cols=27 Identities=19% Similarity=0.105 Sum_probs=19.9
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.++..+...+...+ .++|+|
T Consensus 9 KGGvGKTT~~~nLA~~La~~G--~kVlli 35 (270)
T cd02040 9 KGGIGKSTTTQNLSAALAEMG--KKVMIV 35 (270)
T ss_pred CCcCCHHHHHHHHHHHHHhCC--CeEEEE
Confidence 459999999888877766533 567766
No 380
>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=88.90 E-value=1.9 Score=33.93 Aligned_cols=46 Identities=4% Similarity=-0.033 Sum_probs=32.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
+++-.+|+|||.-++.++...... ...+++++.....-.+..+.+.
T Consensus 199 vi~g~pg~GKT~~~l~~a~~~a~~-~g~~vl~~SlEm~~~~i~~R~~ 244 (434)
T TIGR00665 199 ILAARPSMGKTAFALNIAENAAIK-EGKPVAFFSLEMSAEQLAMRML 244 (434)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHh-CCCeEEEEeCcCCHHHHHHHHH
Confidence 678899999998888887665432 2357888887765555544443
No 381
>KOG1133|consensus
Probab=88.88 E-value=0.3 Score=40.32 Aligned_cols=38 Identities=16% Similarity=0.182 Sum_probs=26.6
Q ss_pred CCCCeEEEecHHHHHhchhc---cccccccEEEEeCCcccCC
Q psy1090 96 LKLPLILVTTPQIIENDFGF---LKKITWNCIIVDEGHSVKN 134 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~---~~~~~~~~vi~DEah~~k~ 134 (169)
...++ |+-.|+.+-..... -..++=.+||+||||++-+
T Consensus 322 p~aql-V~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNlid 362 (821)
T KOG1133|consen 322 PQAQL-VTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLID 362 (821)
T ss_pred ccccE-EeccHHHHHhHHHHHhcCccccccEEEEechhHHHH
Confidence 56677 88999998654321 1234556899999998755
No 382
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=88.81 E-value=0.79 Score=31.89 Aligned_cols=33 Identities=9% Similarity=-0.066 Sum_probs=24.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
|.+.++|.|||..+++++..+.+++ .++-++=|
T Consensus 5 I~~t~t~vGKT~vslgL~~~l~~~g--~~v~~~KP 37 (199)
T PF13500_consen 5 ITGTDTGVGKTVVSLGLARALRRRG--IKVGYFKP 37 (199)
T ss_dssp EEESSSSSSHHHHHHHHHHHHHHTT--SEEEEEEE
T ss_pred EEeCCCCCCHHHHHHHHHHHHHhCC--CceEEEee
Confidence 4578999999999999998887654 34444444
No 383
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=88.76 E-value=0.62 Score=34.20 Aligned_cols=27 Identities=19% Similarity=0.098 Sum_probs=20.5
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.++..+...+...+ +++|+|
T Consensus 8 KGGVGKTT~a~nLA~~La~~G--~~Vlli 34 (275)
T TIGR01287 8 KGGIGKSTTTQNIAAALAEMG--KKVMIV 34 (275)
T ss_pred CCcCcHHHHHHHHHHHHHHCC--CeEEEE
Confidence 459999999988877776554 567775
No 384
>PRK05748 replicative DNA helicase; Provisional
Probab=88.73 E-value=2.1 Score=33.97 Aligned_cols=45 Identities=4% Similarity=-0.032 Sum_probs=32.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
+++-.+|+|||.-++.++...... ...+++++.....-.|....+
T Consensus 207 vIaarpg~GKT~~al~ia~~~a~~-~g~~v~~fSlEms~~~l~~R~ 251 (448)
T PRK05748 207 IVAARPSVGKTAFALNIAQNVATK-TDKNVAIFSLEMGAESLVMRM 251 (448)
T ss_pred EEEeCCCCCchHHHHHHHHHHHHh-CCCeEEEEeCCCCHHHHHHHH
Confidence 678899999998888887654322 235788887776666666555
No 385
>KOG1807|consensus
Probab=88.72 E-value=1.1 Score=37.76 Aligned_cols=60 Identities=13% Similarity=0.165 Sum_probs=41.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhC----CCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQ----ALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYG 63 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~----~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g 63 (169)
.++...+|+|||.+++..+..+.... ...|+||+|-. +.++|....+... ....++...+
T Consensus 396 sliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~~-qrpsImr~gs 460 (1025)
T KOG1807|consen 396 SLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYYH-QRPSIMRQGS 460 (1025)
T ss_pred heeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHhc-CCceEEEecc
Confidence 36778999999999888877776543 34599999975 7888877666542 2334444433
No 386
>KOG0738|consensus
Probab=88.68 E-value=0.66 Score=36.03 Aligned_cols=43 Identities=14% Similarity=0.170 Sum_probs=30.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc-chHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS-VLNNWEAEFR 50 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~-~l~qW~~e~~ 50 (169)
|.++...+|+|||+.|=|+... ++.+++=+.++ +...|.-|-+
T Consensus 247 gvLm~GPPGTGKTlLAKAvATE------c~tTFFNVSsstltSKwRGeSE 290 (491)
T KOG0738|consen 247 GVLMVGPPGTGKTLLAKAVATE------CGTTFFNVSSSTLTSKWRGESE 290 (491)
T ss_pred eeeeeCCCCCcHHHHHHHHHHh------hcCeEEEechhhhhhhhccchH
Confidence 6788999999999877665543 34677777764 5568986643
No 387
>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=88.68 E-value=0.51 Score=39.80 Aligned_cols=39 Identities=15% Similarity=0.124 Sum_probs=23.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNW 45 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW 45 (169)
|.+|.-.+|+|||..+=++.... ..+.+.+-++.++..|
T Consensus 489 giLL~GppGtGKT~lakalA~e~-----~~~fi~v~~~~l~~~~ 527 (733)
T TIGR01243 489 GVLLFGPPGTGKTLLAKAVATES-----GANFIAVRGPEILSKW 527 (733)
T ss_pred eEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHHhhcc
Confidence 56788899999997776654331 1345555554444443
No 388
>PF13173 AAA_14: AAA domain
Probab=88.62 E-value=0.51 Score=30.37 Aligned_cols=41 Identities=20% Similarity=0.106 Sum_probs=25.5
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhccccccEEEEeccCCCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPN 161 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l~~~~~~~lT~TP~~n 161 (169)
+-.++++||+|++.+. ....+.+..-....++++||.-...
T Consensus 61 ~~~~i~iDEiq~~~~~-~~~lk~l~d~~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDW-EDALKFLVDNGPNIKIILTGSSSSL 101 (128)
T ss_pred CCcEEEEehhhhhccH-HHHHHHHHHhccCceEEEEccchHH
Confidence 4567999999998642 2223333332345789998875543
No 389
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=88.61 E-value=7.3 Score=29.65 Aligned_cols=59 Identities=15% Similarity=-0.058 Sum_probs=32.5
Q ss_pred CCcHHHHHHHHHHHHHHhCCC-------------CceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHH
Q psy1090 10 RYRKSGKVIAFFCKIIEEQAL-------------EPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIER 68 (169)
Q Consensus 10 G~GKT~~~i~~i~~~~~~~~~-------------~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~ 68 (169)
|+|||-.++.++..+..++.. +...+|.+.+.-.+--+|-........+.+.-+.++.+
T Consensus 61 GtGKTP~v~~L~~~l~~~g~~~~ilsRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~~~~~V~V~~dR~~ 132 (325)
T PRK00652 61 GTGKTPVVIALAEQLQARGLKPGVVSRGYGGKLEKGPLLVDPDHTAAEVGDEPLLIARRTGAPVAVSPDRVA 132 (325)
T ss_pred CCChHHHHHHHHHHHHHCCCeEEEECCCCCCCcCCCCEEeCCCCChhhhCcHHHHhccCCCceEEEcCcHHH
Confidence 899999998888777653310 11255556554445556654444222334444544443
No 390
>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=88.58 E-value=1.4 Score=35.28 Aligned_cols=49 Identities=18% Similarity=0.135 Sum_probs=35.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++.-++|+|||.-++-++..-..+ ...+.|.|.-.....+..+....+.
T Consensus 25 Li~G~pGsGKT~la~qfl~~g~~~-~ge~~lyvs~eE~~~~l~~~~~~~G 73 (484)
T TIGR02655 25 LVSGTSGTGKTLFSIQFLYNGIIH-FDEPGVFVTFEESPQDIIKNARSFG 73 (484)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHh-CCCCEEEEEEecCHHHHHHHHHHcC
Confidence 467899999999998887654333 1357888887777777776666554
No 391
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=88.57 E-value=1.2 Score=37.75 Aligned_cols=26 Identities=8% Similarity=0.077 Sum_probs=21.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
.+|+..+|.|||..++.-...+++++
T Consensus 25 If~G~apGVGKTyaML~~a~~~~~~G 50 (890)
T COG2205 25 IFLGAAPGVGKTYAMLSEAQRLLAEG 50 (890)
T ss_pred EEeecCCCccHHHHHHHHHHHHHHcC
Confidence 36788999999999988877776655
No 392
>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=88.57 E-value=0.59 Score=34.99 Aligned_cols=25 Identities=16% Similarity=0.177 Sum_probs=19.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
+.+++-.+|+|||..+-+++..+..
T Consensus 134 ~ilI~G~tGSGKTTll~al~~~i~~ 158 (299)
T TIGR02782 134 NILVVGGTGSGKTTLANALLAEIAK 158 (299)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhc
Confidence 4578889999999888777665543
No 393
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=88.57 E-value=0.72 Score=34.65 Aligned_cols=35 Identities=17% Similarity=0.209 Sum_probs=24.2
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHH
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNN 44 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~q 44 (169)
-=|.|||..+.+......+.+ .++|+|. |.+-+..
T Consensus 9 KGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L~d 45 (305)
T PF02374_consen 9 KGGVGKTTVAAALALALARRG--KRTLLVSTDPAHSLSD 45 (305)
T ss_dssp STTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHHHH
T ss_pred CCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccHHH
Confidence 459999999888877666543 6788886 5555543
No 394
>PRK10263 DNA translocase FtsK; Provisional
Probab=88.51 E-value=2.2 Score=38.16 Aligned_cols=38 Identities=16% Similarity=0.151 Sum_probs=27.2
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCC-C-ceEEEecCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQAL-E-PNLIVCPLS 40 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~-~-~~Liv~P~~ 40 (169)
.+++-.+|+|||...-++|..+...... . ++++|=|+.
T Consensus 1013 LLIAGaTGSGKSv~LntLIlSLl~~~sPeeVrl~LIDPK~ 1052 (1355)
T PRK10263 1013 LLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKM 1052 (1355)
T ss_pred EEEecCCCCCHHHHHHHHHHHHHHhCCccceEEEEECCCc
Confidence 5778899999999888888766554332 2 456666775
No 395
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=88.50 E-value=0.69 Score=33.95 Aligned_cols=28 Identities=14% Similarity=0.043 Sum_probs=20.4
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
.-=|.|||.+++.+...+.+.+ +++|+|
T Consensus 8 gKGGVGKTT~a~nLA~~La~~G--~rVllv 35 (273)
T PRK13232 8 GKGGIGKSTTTQNLTAALSTMG--NKILLV 35 (273)
T ss_pred CCCCCcHHHHHHHHHHHHHhhC--CCeEEE
Confidence 3569999999888777665543 567776
No 396
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=88.49 E-value=3.1 Score=28.05 Aligned_cols=51 Identities=14% Similarity=0.023 Sum_probs=31.0
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCC-----------------------------------------CceEEEecCcchH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQAL-----------------------------------------EPNLIVCPLSVLN 43 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~-----------------------------------------~~~Liv~P~~~l~ 43 (169)
|.--.|+|||..+-++-..+...+.. +-++|++..+...
T Consensus 7 ltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~l~~dl~fs~~dR~e~~rr~~~~A~ll~~~G~ivIva~isp~~ 86 (156)
T PF01583_consen 7 LTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHGLNADLGFSKEDREENIRRIAEVAKLLADQGIIVIVAFISPYR 86 (156)
T ss_dssp EESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTTSEEEEE----SH
T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEeeccCch
Confidence 45568999998777776666544322 4566666666667
Q ss_pred HHHHHHHHhCCC
Q psy1090 44 NWEAEFRKFAPF 55 (169)
Q Consensus 44 qW~~e~~~~~~~ 55 (169)
.+.+..++..+.
T Consensus 87 ~~R~~~R~~~~~ 98 (156)
T PF01583_consen 87 EDREWARELIPN 98 (156)
T ss_dssp HHHHHHHHHHHT
T ss_pred HHHHHHHHhCCc
Confidence 777777666653
No 397
>PF05729 NACHT: NACHT domain
Probab=88.33 E-value=0.93 Score=30.00 Aligned_cols=25 Identities=20% Similarity=0.115 Sum_probs=19.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
+|..+.|.|||..+-.++.......
T Consensus 4 ~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 4 WISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEECCCCCChHHHHHHHHHHHHhcC
Confidence 5678999999988877776665554
No 398
>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=88.24 E-value=1.2 Score=29.27 Aligned_cols=37 Identities=14% Similarity=0.023 Sum_probs=25.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL 42 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l 42 (169)
++.-++|+|||..+..++..... ..++++++......
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~ 39 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI 39 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence 45678999999888877665543 34567766655433
No 399
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=88.19 E-value=0.73 Score=34.90 Aligned_cols=24 Identities=25% Similarity=0.246 Sum_probs=18.9
Q ss_pred CccccCCCCCcHHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
+.+++-.+|+|||...-+++..+.
T Consensus 146 nilI~G~tGSGKTTll~aL~~~i~ 169 (323)
T PRK13833 146 NIVISGGTGSGKTTLANAVIAEIV 169 (323)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHh
Confidence 457889999999988877766554
No 400
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=88.05 E-value=1.5 Score=30.12 Aligned_cols=51 Identities=12% Similarity=0.103 Sum_probs=33.1
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh--------CCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE--------QALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~--------~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
.++.-+.|+|||..++.++..+... ....++|++....-..+..+.+....
T Consensus 35 ~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 35 TLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp EEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 3567789999999888887766532 13457888888777667776666554
No 401
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=88.00 E-value=3.9 Score=33.54 Aligned_cols=23 Identities=17% Similarity=0.160 Sum_probs=18.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
++..+.|+|||..+-+++..+..
T Consensus 42 Lf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 42 IFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred EEECCCCCCHHHHHHHHHHhhcc
Confidence 57789999999988888766654
No 402
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=87.92 E-value=0.78 Score=32.94 Aligned_cols=31 Identities=6% Similarity=-0.032 Sum_probs=22.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+.-=|.|||.+++.+...+...+ .++|+|
T Consensus 5 v~~~KGGvGKTt~a~~LA~~la~~g--~~Vlli 35 (251)
T TIGR01969 5 IASGKGGTGKTTITANLGVALAKLG--KKVLAL 35 (251)
T ss_pred EEcCCCCCcHHHHHHHHHHHHHHCC--CeEEEE
Confidence 3445569999999988877666543 567776
No 403
>PRK13236 nitrogenase reductase; Reviewed
Probab=87.89 E-value=0.77 Score=34.26 Aligned_cols=27 Identities=22% Similarity=0.106 Sum_probs=19.7
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.+++.+...+.+.+ +++|+|
T Consensus 14 KGGVGKTt~a~NLA~~La~~G--~rVLli 40 (296)
T PRK13236 14 KGGIGKSTTSQNTLAAMAEMG--QRILIV 40 (296)
T ss_pred CCcCCHHHHHHHHHHHHHHCC--CcEEEE
Confidence 348999999988877766543 566666
No 404
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=87.88 E-value=0.93 Score=31.06 Aligned_cols=33 Identities=9% Similarity=-0.019 Sum_probs=22.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEec
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCP 38 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P 38 (169)
+.+.--|.|||..+..+...+... ..++|++--
T Consensus 3 v~~~kGG~GKTt~a~~la~~la~~--g~~VlliD~ 35 (195)
T PF01656_consen 3 VTSGKGGVGKTTIAANLAQALARK--GKKVLLIDL 35 (195)
T ss_dssp EEESSTTSSHHHHHHHHHHHHHHT--TS-EEEEEE
T ss_pred EEcCCCCccHHHHHHHHHhccccc--ccccccccc
Confidence 345567999999998887777663 366766654
No 405
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=87.78 E-value=1.1 Score=26.56 Aligned_cols=30 Identities=7% Similarity=0.037 Sum_probs=19.7
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
....|+|||..+..++..+.+.+ .+++++-
T Consensus 5 ~g~~G~Gktt~~~~l~~~l~~~g--~~v~~~~ 34 (99)
T cd01983 5 TGKGGVGKTTLAANLAAALAKRG--KRVLLID 34 (99)
T ss_pred ECCCCCCHHHHHHHHHHHHHHCC--CeEEEEC
Confidence 33459999999888877765532 3454443
No 406
>PRK09354 recA recombinase A; Provisional
Probab=87.67 E-value=6.1 Score=30.36 Aligned_cols=38 Identities=11% Similarity=0.045 Sum_probs=28.4
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNN 44 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~q 44 (169)
+.-+.|+|||..++.++...... .+++++|-..+...+
T Consensus 65 I~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~ 102 (349)
T PRK09354 65 IYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP 102 (349)
T ss_pred EECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHH
Confidence 55689999999888877655433 477888888777664
No 407
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=87.54 E-value=2 Score=34.69 Aligned_cols=48 Identities=13% Similarity=-0.006 Sum_probs=34.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++..++|+|||.-++.++...... ..+++++.-.....+-.+.+..+.
T Consensus 277 li~G~~G~GKT~l~~~~~~~~~~~--g~~~~yis~e~~~~~i~~~~~~~g 324 (509)
T PRK09302 277 LVSGATGTGKTLLASKFAEAACRR--GERCLLFAFEESRAQLIRNARSWG 324 (509)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecCCHHHHHHHHHHcC
Confidence 467799999999998887665443 367888877666666555555543
No 408
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=87.28 E-value=2.1 Score=32.47 Aligned_cols=25 Identities=8% Similarity=0.069 Sum_probs=20.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+||+..+..++..+...+
T Consensus 29 L~~G~~G~Gk~~lA~~~a~~llC~~ 53 (319)
T PRK06090 29 LLQSDEGLGVESLVELFSRALLCQN 53 (319)
T ss_pred eeECCCCCCHHHHHHHHHHHHcCCC
Confidence 4677899999999999888877654
No 409
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=87.21 E-value=0.6 Score=38.76 Aligned_cols=38 Identities=18% Similarity=0.323 Sum_probs=26.2
Q ss_pred CCCCeEEEecHHHHHhchhcccc----ccccEEEEeCCcccCC
Q psy1090 96 LKLPLILVTTPQIIENDFGFLKK----ITWNCIIVDEGHSVKN 134 (169)
Q Consensus 96 ~~~~ii~i~ty~~~~~~~~~~~~----~~~~~vi~DEah~~k~ 134 (169)
...++ ++++++.+..+...-.. .+-.++|+||||++-.
T Consensus 193 ~~ad~-vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d 234 (654)
T COG1199 193 ENADL-VVTNHALLLADVALEESRILLPENDVVVFDEAHNLPD 234 (654)
T ss_pred hhCCE-EEEccHHHHhHHHhhhhhccCCcccEEEEeccccchH
Confidence 45677 88888887764432222 2467999999999854
No 410
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=87.13 E-value=4 Score=30.92 Aligned_cols=25 Identities=16% Similarity=0.239 Sum_probs=20.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|+||+..+.+++..+...+
T Consensus 30 Lf~Gp~G~GK~~lA~~lA~~LlC~~ 54 (319)
T PRK08769 30 LICGPEGLGKRAVALALAEHVLASG 54 (319)
T ss_pred eeECCCCCCHHHHHHHHHHHHhCCC
Confidence 4677899999999999988877654
No 411
>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=87.10 E-value=1.2 Score=31.66 Aligned_cols=35 Identities=20% Similarity=0.183 Sum_probs=25.9
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
+.--+|+|||.++-.++..+.. ....+++|+=|..
T Consensus 28 I~G~TGsGKS~~~~~ll~~l~~-~~~~~~ii~D~~G 62 (229)
T PF01935_consen 28 IFGTTGSGKSNTVKVLLEELLK-KKGAKVIIFDPHG 62 (229)
T ss_pred EECCCCCCHHHHHHHHHHHHHh-cCCCCEEEEcCCC
Confidence 4457899999999888887764 3345777777764
No 412
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=87.00 E-value=2.1 Score=33.05 Aligned_cols=25 Identities=24% Similarity=0.239 Sum_probs=17.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE 27 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~ 27 (169)
.++-..+|+|||.++--++..+...
T Consensus 45 ~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 45 IIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred EEEECCCCCCHhHHHHHHHHHHHhh
Confidence 4566789999998886666555443
No 413
>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=86.93 E-value=1.1 Score=31.68 Aligned_cols=34 Identities=9% Similarity=-0.007 Sum_probs=24.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
.+.-++|+|||..++.++...... ..+++++.-.
T Consensus 23 ~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e 56 (218)
T cd01394 23 QVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTE 56 (218)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECC
Confidence 466799999999988887665433 3567777543
No 414
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=86.77 E-value=1.4 Score=30.24 Aligned_cols=33 Identities=18% Similarity=0.116 Sum_probs=22.9
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
.-.|++|||...+..+..+...+ .+++++-|..
T Consensus 7 ~GpM~sGKS~eLi~~~~~~~~~~--~~v~~~kp~~ 39 (176)
T PF00265_consen 7 TGPMFSGKSTELIRRIHRYEIAG--KKVLVFKPAI 39 (176)
T ss_dssp EESTTSSHHHHHHHHHHHHHHTT---EEEEEEEST
T ss_pred ECCcCChhHHHHHHHHHHHHhCC--CeEEEEEecc
Confidence 45799999998887766554333 6677777763
No 415
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=86.73 E-value=1 Score=32.63 Aligned_cols=31 Identities=6% Similarity=0.055 Sum_probs=21.2
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
.--=|.|||.+++-+...+...+ ..++|+|=
T Consensus 9 n~KGGvGKTT~a~nLa~~La~~~-~~kVLliD 39 (259)
T COG1192 9 NQKGGVGKTTTAVNLAAALAKRG-GKKVLLID 39 (259)
T ss_pred ecCCCccHHHHHHHHHHHHHHhc-CCcEEEEe
Confidence 34459999999998877765333 25676665
No 416
>PRK10689 transcription-repair coupling factor; Provisional
Probab=86.61 E-value=24 Score=31.83 Aligned_cols=92 Identities=16% Similarity=0.137 Sum_probs=58.0
Q ss_pred CCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHH--HHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecH
Q psy1090 30 LEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIE--RKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTP 106 (169)
Q Consensus 30 ~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty 106 (169)
.+.++|+||. ..+....+.+.+..|+.++..++|.... +...-..... ++.++ +++|
T Consensus 809 ~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~------------------Gk~~V-LVaT- 868 (1147)
T PRK10689 809 GGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHH------------------QRFNV-LVCT- 868 (1147)
T ss_pred CCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHh------------------cCCCE-EEEC-
Confidence 4689999987 4456677788888888999999986433 3222222221 67788 7777
Q ss_pred HHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc
Q psy1090 107 QIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL 146 (169)
Q Consensus 107 ~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l 146 (169)
+.+.+..+. -+.+.+|++.++++. -++.++...+.
T Consensus 869 dIierGIDI---P~v~~VIi~~ad~fg--laq~~Qr~GRv 903 (1147)
T PRK10689 869 TIIETGIDI---PTANTIIIERADHFG--LAQLHQLRGRV 903 (1147)
T ss_pred chhhccccc---ccCCEEEEecCCCCC--HHHHHHHhhcc
Confidence 445443331 246788998887653 24455555444
No 417
>PHA02542 41 41 helicase; Provisional
Probab=86.59 E-value=1.8 Score=34.60 Aligned_cols=45 Identities=9% Similarity=-0.060 Sum_probs=32.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEF 49 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~ 49 (169)
.+++-.+|+|||.-++.++..... ...+++++.-..-..|+...+
T Consensus 193 iiIaarPgmGKTtfalniA~~~a~--~g~~Vl~fSLEM~~~ql~~Rl 237 (473)
T PHA02542 193 NVLLAGVNVGKSLGLCSLAADYLQ--QGYNVLYISMEMAEEVIAKRI 237 (473)
T ss_pred EEEEcCCCccHHHHHHHHHHHHHh--cCCcEEEEeccCCHHHHHHHH
Confidence 368889999999998888766543 246788886555556665554
No 418
>KOG2825|consensus
Probab=86.54 E-value=3 Score=30.60 Aligned_cols=44 Identities=16% Similarity=0.253 Sum_probs=26.7
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchH-HHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLN-NWEAEFR 50 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~-qW~~e~~ 50 (169)
++.-=|.|||.++.+++..+ .+...++|||. |.|.+. .+.+.|-
T Consensus 24 VGGKGGVGKTTcs~sLAvql--a~~r~~vLiISTDPAHNlSDAF~qkft 70 (323)
T KOG2825|consen 24 VGGKGGVGKTTCSCSLAVQL--AKVRESVLIISTDPAHNLSDAFSQKFT 70 (323)
T ss_pred EcCcCCcCccchhhHHHHHH--hccCCceEEeecCcccchHHHHHHHhc
Confidence 34456999998887765433 33345688887 455554 3444443
No 419
>PRK13695 putative NTPase; Provisional
Probab=86.51 E-value=4.9 Score=27.22 Aligned_cols=130 Identities=17% Similarity=0.047 Sum_probs=0.0
Q ss_pred CCccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhh-cCC
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEAL-SLP 79 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~-~~~ 79 (169)
|-..|..+.|+|||...-.++..+.. ......-+++ +++.............-....+..+....+ ...
T Consensus 1 ~~i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~~---------~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 70 (174)
T PRK13695 1 MKIGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFYT---------EEVREGGKRIGFKIIDLDTGEEGILARVGFPSRP 70 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEEc---------HHHHhcCCccceEEEEcCCCCeEEccccCCCCCC
Q ss_pred CcccccccCCccccccCCCCeEEEecHHHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc-ccccEEEEe
Q psy1090 80 TIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL-RATFKVLLT 155 (169)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~ii~i~ty~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l-~~~~~~~lT 155 (169)
.. ..+-. .+...+.+........-.+.+++++||.-.+-.......+.+..+ .....++++
T Consensus 71 ~~--------------~~~~~-~lsgle~~~~~l~~~~l~~~~~lllDE~~~~e~~~~~~~~~l~~~~~~~~~~i~v 132 (174)
T PRK13695 71 RV--------------GKYVV-NLEDLERIGIPALERALEEADVIIIDEIGKMELKSPKFVKAVEEVLDSEKPVIAT 132 (174)
T ss_pred ce--------------eeEEE-ehHHHHHHHHHHHHhccCCCCEEEEECCCcchhhhHHHHHHHHHHHhCCCeEEEE
No 420
>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=86.44 E-value=2.4 Score=30.28 Aligned_cols=37 Identities=16% Similarity=0.129 Sum_probs=27.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSV 41 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~ 41 (169)
+|+-.+|+|||..++.++....... ..+++++.....
T Consensus 17 lI~G~~G~GKT~~~~~~~~~~~~~~-g~~vly~s~E~~ 53 (242)
T cd00984 17 IIAARPSMGKTAFALNIAENIAKKQ-GKPVLFFSLEMS 53 (242)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhC-CCceEEEeCCCC
Confidence 5788999999988888876655442 467888886543
No 421
>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=86.29 E-value=1.2 Score=34.51 Aligned_cols=24 Identities=21% Similarity=0.068 Sum_probs=19.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.+++-++|+|||.+.-+++.++.+
T Consensus 152 ilI~G~TGSGKTT~l~al~~~i~~ 175 (372)
T TIGR02525 152 GLICGETGSGKSTLAASIYQHCGE 175 (372)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh
Confidence 467889999999988888777654
No 422
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=86.23 E-value=1 Score=35.02 Aligned_cols=31 Identities=10% Similarity=0.060 Sum_probs=23.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+...-=|.|||.+++.+...+...+ .++|+|
T Consensus 111 v~n~KGGVGKTTta~nLA~~LA~~G--~rVLlI 141 (387)
T PHA02519 111 VMSHKGGVYKTSSAVHTAQWLALQG--HRVLLI 141 (387)
T ss_pred EecCCCCCcHHHHHHHHHHHHHhCC--CcEEEE
Confidence 4456679999999988877766544 578777
No 423
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=85.96 E-value=4.9 Score=37.09 Aligned_cols=40 Identities=13% Similarity=0.111 Sum_probs=25.9
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhccc-cccEEEEeccCCCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTALR-ATFKVLLTGWYYPN 161 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l~-~~~~~~lT~TP~~n 161 (169)
+.+++|+|||-.+.+ ....+.+..+. ...|++|-|=+-|.
T Consensus 930 ~~~llIVDEASMV~~--~~m~~ll~~~~~~garvVLVGD~~QL 970 (1623)
T PRK14712 930 SNTLFLLDESSMVGN--TDMARAYALIAAGGGRAVASGDTDQL 970 (1623)
T ss_pred CCcEEEEEccccccH--HHHHHHHHhhhhCCCEEEEEcchhhc
Confidence 457999999999854 23334444443 34688887765544
No 424
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=85.82 E-value=1.2 Score=33.31 Aligned_cols=28 Identities=21% Similarity=0.157 Sum_probs=20.7
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
.--|.|||.++..+...+.+.+ +++|+|
T Consensus 11 ~KGGvGKTt~~~nLa~~la~~g--~kVLli 38 (295)
T PRK13234 11 GKGGIGKSTTSQNTLAALVEMG--QKILIV 38 (295)
T ss_pred CCCCccHHHHHHHHHHHHHHCC--CeEEEE
Confidence 4569999998888776665544 567777
No 425
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=85.79 E-value=1.1 Score=32.80 Aligned_cols=28 Identities=11% Similarity=-0.162 Sum_probs=19.7
Q ss_pred CCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 8 PTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 8 e~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
-=|.|||.+++.+...+.+. ..+++|+|
T Consensus 10 KGGVGKTT~a~nLA~~La~~-~G~rvLli 37 (275)
T PRK13233 10 KGGIGKSTTTQNTAAAMAYF-HDKKVFIH 37 (275)
T ss_pred CCCCcHHHHHHHHHHHHHHh-cCCeEEEe
Confidence 55999999998876666542 12567776
No 426
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=85.78 E-value=2.9 Score=29.61 Aligned_cols=34 Identities=9% Similarity=0.038 Sum_probs=24.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
.+.-++|+|||..++.++...... ..+++++.-.
T Consensus 27 ~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e 60 (225)
T PRK09361 27 QIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE 60 (225)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC
Confidence 467799999999998887765543 3566666655
No 427
>PRK10818 cell division inhibitor MinD; Provisional
Probab=85.72 E-value=1.2 Score=32.55 Aligned_cols=30 Identities=7% Similarity=0.108 Sum_probs=20.5
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
..--=|.|||..++.+...+...+ +++++|
T Consensus 8 ~s~KGGvGKTt~a~nlA~~la~~g--~~vllv 37 (270)
T PRK10818 8 TSGKGGVGKTTSSAAIATGLAQKG--KKTVVI 37 (270)
T ss_pred EeCCCCCcHHHHHHHHHHHHHHCC--CeEEEE
Confidence 344569999999988877665443 455555
No 428
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=85.70 E-value=2.5 Score=34.12 Aligned_cols=49 Identities=14% Similarity=0.139 Sum_probs=35.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFA 53 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~ 53 (169)
++.-++|+|||.-++.++...... ...++++|.-.....+-.+.+..+.
T Consensus 35 li~G~pGsGKT~l~~qf~~~~~~~-~ge~~lyis~ee~~~~i~~~~~~~g 83 (509)
T PRK09302 35 LVSGTAGTGKTLFALQFLVNGIKR-FDEPGVFVTFEESPEDIIRNVASFG 83 (509)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHh-cCCCEEEEEccCCHHHHHHHHHHcC
Confidence 567899999999988887654443 1367888887777666666665553
No 429
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=85.68 E-value=1.2 Score=33.28 Aligned_cols=29 Identities=14% Similarity=-0.081 Sum_probs=21.0
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
.--|.|||.++..+...+.+.+ +++|+|-
T Consensus 7 gKGGvGKTT~a~nLA~~La~~g--~rVLlID 35 (296)
T TIGR02016 7 GKGGSGKSFTTTNLSHMMAEMG--KRVLQLG 35 (296)
T ss_pred CCCCCCHHHHHHHHHHHHHHCC--CeEEEEE
Confidence 3569999999988877766543 5666654
No 430
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=85.60 E-value=1.1 Score=34.81 Aligned_cols=40 Identities=13% Similarity=0.085 Sum_probs=27.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE-e--cCcchHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV-C--PLSVLNNW 45 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv-~--P~~~l~qW 45 (169)
+....=|.|||.+++.+...+...+ .++|+| + |...+..|
T Consensus 111 i~n~KGGVGKTT~a~nLA~~LA~~G--~rVLlID~~DpQ~nlt~~ 153 (388)
T PRK13705 111 VAAHKGGVYKTSVSVHLAQDLALKG--LRVLLVEGNDPQGTASMY 153 (388)
T ss_pred EECCCCCchHHHHHHHHHHHHHhcC--CCeEEEcCCCCCCchhhh
Confidence 4455679999999988877665544 678877 3 65555444
No 431
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=85.53 E-value=5.2 Score=37.30 Aligned_cols=39 Identities=13% Similarity=0.131 Sum_probs=25.7
Q ss_pred cccEEEEeCCcccCCcccHHHHHHhccc-cccEEEEeccCCC
Q psy1090 120 TWNCIIVDEGHSVKNKKSKLSIKLTALR-ATFKVLLTGWYYP 160 (169)
Q Consensus 120 ~~~~vi~DEah~~k~~~~~~~~~~~~l~-~~~~~~lT~TP~~ 160 (169)
.-+++|+||+-.+.+ ......+..+. ...+++|-|=+-|
T Consensus 1062 ~~~llIVDEaSMv~~--~~m~~Ll~~~~~~garvVLVGD~~Q 1101 (1747)
T PRK13709 1062 SNTLFLLDESSMVGN--TDMARAYALIAAGGGRAVSSGDTDQ 1101 (1747)
T ss_pred CCcEEEEEccccccH--HHHHHHHHhhhcCCCEEEEecchHh
Confidence 447899999999853 33344555554 3568888775554
No 432
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=85.44 E-value=2.8 Score=30.13 Aligned_cols=38 Identities=8% Similarity=0.028 Sum_probs=25.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH----------hCCCCceEEEecCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE----------EQALEPNLIVCPLS 40 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~----------~~~~~~~Liv~P~~ 40 (169)
++|+-+.|+|||..++.++..... ....+++|+++-..
T Consensus 4 ~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed 51 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAED 51 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCC
Confidence 578889999999988887665431 12345677777543
No 433
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=85.37 E-value=1.2 Score=34.89 Aligned_cols=41 Identities=15% Similarity=-0.056 Sum_probs=27.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNWE 46 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW~ 46 (169)
+...-=|.|||.+++.+...+...+ .++|+|= |...+..|.
T Consensus 126 v~n~KGGvGKTTta~nLA~~LA~~G--~rVLlIDlDpQ~~lt~~~ 168 (405)
T PRK13869 126 VTNFKGGSGKTTTSAHLAQYLALQG--YRVLAVDLDPQASLSALL 168 (405)
T ss_pred EEcCCCCCCHHHHHHHHHHHHHhcC--CceEEEcCCCCCCHHHHc
Confidence 3445679999999988877665544 5677763 555555553
No 434
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=85.34 E-value=1.5 Score=31.90 Aligned_cols=14 Identities=21% Similarity=0.339 Sum_probs=10.4
Q ss_pred cccCCCCCcHHHHH
Q psy1090 4 VIPDPTRYRKSGKV 17 (169)
Q Consensus 4 iL~de~G~GKT~~~ 17 (169)
.+.-+.|.|||..+
T Consensus 20 ~I~G~~G~GKTTLl 33 (249)
T cd01128 20 LIVAPPKAGKTTLL 33 (249)
T ss_pred EEECCCCCCHHHHH
Confidence 45567999999544
No 435
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=85.27 E-value=6.8 Score=30.05 Aligned_cols=25 Identities=8% Similarity=-0.011 Sum_probs=20.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
++..+.|.||+..+..+...+...+
T Consensus 25 Lf~Gp~G~GK~~lA~~~A~~LlC~~ 49 (342)
T PRK06964 25 LLHGQAGIGKLDFAQHLAQGLLCET 49 (342)
T ss_pred EEECCCCCCHHHHHHHHHHHHcCCC
Confidence 4677899999999999988776644
No 436
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=85.22 E-value=1.7 Score=30.78 Aligned_cols=25 Identities=20% Similarity=0.026 Sum_probs=20.8
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
|.+.++|.|||..+++++..+.+++
T Consensus 4 I~~t~t~~GKT~vs~~L~~~l~~~g 28 (222)
T PRK00090 4 VTGTDTDVGKTVVTAALAQALREAG 28 (222)
T ss_pred EEeCCCCcCHHHHHHHHHHHHHHcC
Confidence 4567899999999999988877665
No 437
>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=85.20 E-value=3.5 Score=28.76 Aligned_cols=35 Identities=9% Similarity=0.019 Sum_probs=24.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
.+.-++|+|||.-++.++...... ..+++.+.-..
T Consensus 16 ~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~ 50 (209)
T TIGR02237 16 QIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG 50 (209)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC
Confidence 356789999999888877655433 35777777654
No 438
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=85.19 E-value=1.3 Score=33.48 Aligned_cols=34 Identities=18% Similarity=0.177 Sum_probs=21.1
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEE
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLI 35 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Li 35 (169)
+.+++-.+|+|||...-+++..+.......++++
T Consensus 150 ~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivt 183 (319)
T PRK13894 150 NILVIGGTGSGKTTLVNAIINEMVIQDPTERVFI 183 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEE
Confidence 3577889999999776666655432233334443
No 439
>PRK11054 helD DNA helicase IV; Provisional
Probab=85.11 E-value=1.7 Score=36.49 Aligned_cols=49 Identities=10% Similarity=-0.022 Sum_probs=33.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCC--CCceEEEecCcchHHHHH-HHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQA--LEPNLIVCPLSVLNNWEA-EFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~--~~~~Liv~P~~~l~qW~~-e~~~~ 52 (169)
++.-..|+|||.+.++-+.++...+. ...+|+++.+.-..+... .+...
T Consensus 213 lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~ 264 (684)
T PRK11054 213 LVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRER 264 (684)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHh
Confidence 34456899999999999888876543 347899998765544333 34433
No 440
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=85.10 E-value=7 Score=29.86 Aligned_cols=47 Identities=17% Similarity=0.181 Sum_probs=27.7
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcc-----hHHHHHHHHHhC
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSV-----LNNWEAEFRKFA 53 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~-----l~qW~~e~~~~~ 53 (169)
+.-.+|+|||...-.++..+...+ .++.|+. |.+. +-.|........
T Consensus 61 i~G~~GaGKSTl~~~l~~~l~~~g--~~v~vi~~Dp~s~~~~gallgd~~r~~~~~ 114 (332)
T PRK09435 61 ITGVPGVGKSTFIEALGMHLIEQG--HKVAVLAVDPSSTRTGGSILGDKTRMERLS 114 (332)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeCCCccccchhhhchHhHHHhhc
Confidence 445689999977666666555433 3444443 5543 345766666544
No 441
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=85.10 E-value=1.6 Score=29.47 Aligned_cols=31 Identities=6% Similarity=-0.007 Sum_probs=23.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+..---|.|||..+..+...+.+.+ .++++|
T Consensus 4 v~~~kgG~GKtt~a~~la~~l~~~g--~~vllv 34 (179)
T cd02036 4 VTSGKGGVGKTTTTANLGTALAQLG--YKVVLI 34 (179)
T ss_pred EeeCCCCCCHHHHHHHHHHHHHhCC--CeEEEE
Confidence 4455679999999988877765543 678887
No 442
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=84.92 E-value=1.6 Score=30.38 Aligned_cols=32 Identities=9% Similarity=0.005 Sum_probs=23.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
+.+-..|.|||..+..+...+.+.+ .++|+|=
T Consensus 22 v~s~kgG~GKTt~a~~LA~~la~~G--~rVllID 53 (204)
T TIGR01007 22 ITSVKPGEGKSTTSANIAVAFAQAG--YKTLLID 53 (204)
T ss_pred EecCCCCCCHHHHHHHHHHHHHhCC--CeEEEEe
Confidence 4456789999999888877665543 5677763
No 443
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=84.86 E-value=10 Score=29.09 Aligned_cols=59 Identities=15% Similarity=-0.033 Sum_probs=32.4
Q ss_pred CCcHHHHHHHHHHHHHHhCCC------------CceEEEecCcchHHHHHHHHHhCCCceEEEEeCCHHHH
Q psy1090 10 RYRKSGKVIAFFCKIIEEQAL------------EPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIER 68 (169)
Q Consensus 10 G~GKT~~~i~~i~~~~~~~~~------------~~~Liv~P~~~l~qW~~e~~~~~~~~~~~~~~g~~~~~ 68 (169)
|+|||-.++.++..+...+.. +...+|.|.+.-.+--+|-........+-+.-+..+.+
T Consensus 68 GTGKTP~v~~La~~l~~~G~~~~IlSRGYg~~~~~~~~v~~~~~~~~~GDEpllla~~~~~~V~V~~dR~~ 138 (338)
T PRK01906 68 GTGKTPTVIALVDALRAAGFTPGVVSRGYGAKIKHPTAVTPASRASDAGDEPLLIARRTDAPVWVCPDRVA 138 (338)
T ss_pred CCChHHHHHHHHHHHHHcCCceEEEecCCCCCCCCCeEEcCCCChhhhCcHHHHhhhcCCCeEEEeCcHHH
Confidence 899999999988877664311 11355666654444445543333222334444444443
No 444
>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=84.62 E-value=3 Score=30.36 Aligned_cols=41 Identities=15% Similarity=-0.019 Sum_probs=30.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNN 44 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~q 44 (169)
.+|+-.+|.|||.-++.++......+ ..+++++.....-.+
T Consensus 22 ~vi~a~pg~GKT~~~l~ia~~~a~~~-~~~vly~SlEm~~~~ 62 (259)
T PF03796_consen 22 TVIAARPGVGKTAFALQIALNAALNG-GYPVLYFSLEMSEEE 62 (259)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT-SSEEEEEESSS-HHH
T ss_pred EEEEecccCCchHHHHHHHHHHHHhc-CCeEEEEcCCCCHHH
Confidence 36788899999999988887766543 278888888755554
No 445
>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=84.43 E-value=7 Score=37.06 Aligned_cols=38 Identities=11% Similarity=-0.097 Sum_probs=26.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN 43 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~ 43 (169)
++.-..|+|||...-+++...... ..++++++|..-..
T Consensus 450 ii~G~aGTGKTt~l~~l~~~~~~~--G~~V~~lAPTgrAA 487 (1960)
T TIGR02760 450 IINGFGGTGSTEIAQLLLHLASEQ--GYEIQIITAGSLSA 487 (1960)
T ss_pred EEEECCCCCHHHHHHHHHHHHHhc--CCeEEEEeCCHHHH
Confidence 556678999997766665544333 36789999987544
No 446
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=84.41 E-value=1.7 Score=31.19 Aligned_cols=32 Identities=13% Similarity=0.033 Sum_probs=22.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
+.+.--|.|||..++.+...+.+.+ .++|+|=
T Consensus 6 v~s~KGGvGKTt~a~nla~~la~~g--~~VlliD 37 (246)
T TIGR03371 6 IVGVKGGVGKTTLTANLASALKLLG--EPVLAID 37 (246)
T ss_pred EEeCCCCccHHHHHHHHHHHHHhCC--CcEEEEe
Confidence 3445679999999988877766543 5666664
No 447
>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=84.33 E-value=0.86 Score=33.34 Aligned_cols=23 Identities=26% Similarity=0.268 Sum_probs=17.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.+++-++|+|||.+.-+++..+.
T Consensus 130 ili~G~tGSGKTT~l~all~~i~ 152 (270)
T PF00437_consen 130 ILISGPTGSGKTTLLNALLEEIP 152 (270)
T ss_dssp EEEEESTTSSHHHHHHHHHHHCH
T ss_pred EEEECCCccccchHHHHHhhhcc
Confidence 46778999999988877765544
No 448
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=83.58 E-value=1.9 Score=31.12 Aligned_cols=31 Identities=3% Similarity=0.018 Sum_probs=22.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+-.-|.|||..+..+...+...+ .++++|
T Consensus 6 v~s~kGGvGKTt~a~~lA~~la~~g--~~vlli 36 (261)
T TIGR01968 6 ITSGKGGVGKTTTTANLGTALARLG--KKVVLI 36 (261)
T ss_pred EecCCCCccHHHHHHHHHHHHHHcC--CeEEEE
Confidence 4456679999999988877666433 456666
No 449
>KOG2028|consensus
Probab=83.23 E-value=3.9 Score=31.79 Aligned_cols=14 Identities=14% Similarity=0.154 Sum_probs=9.1
Q ss_pred cccCCCCCcHHHHH
Q psy1090 4 VIPDPTRYRKSGKV 17 (169)
Q Consensus 4 iL~de~G~GKT~~~ 17 (169)
||=..+|+|||..+
T Consensus 166 IlWGppG~GKTtlA 179 (554)
T KOG2028|consen 166 ILWGPPGTGKTTLA 179 (554)
T ss_pred EEecCCCCchHHHH
Confidence 45567788888443
No 450
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=83.18 E-value=1.5 Score=30.87 Aligned_cols=26 Identities=8% Similarity=0.033 Sum_probs=20.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
.+|+..+|.|||..++.-...+..++
T Consensus 8 IflG~apGVGKTy~ML~ea~~l~~~G 33 (211)
T PF02702_consen 8 IFLGAAPGVGKTYAMLQEAHRLKEQG 33 (211)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTT
T ss_pred EEEecCCCCCHHHHHHHHHHHHHHCC
Confidence 36788999999999988777666554
No 451
>PRK09183 transposase/IS protein; Provisional
Probab=83.03 E-value=2.2 Score=31.24 Aligned_cols=38 Identities=16% Similarity=0.129 Sum_probs=23.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcch
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVL 42 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l 42 (169)
.+|..++|+|||..+.++.......+ .+++++-...++
T Consensus 105 v~l~Gp~GtGKThLa~al~~~a~~~G--~~v~~~~~~~l~ 142 (259)
T PRK09183 105 IVLLGPSGVGKTHLAIALGYEAVRAG--IKVRFTTAADLL 142 (259)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeHHHHH
Confidence 45677999999988887755433322 455555434444
No 452
>PRK07773 replicative DNA helicase; Validated
Probab=82.96 E-value=4.6 Score=35.06 Aligned_cols=48 Identities=6% Similarity=-0.092 Sum_probs=34.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRK 51 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~ 51 (169)
.+++-.+|+|||.-++.++...... ...+++++.-...-.|....+..
T Consensus 220 ivIagrPg~GKT~fal~ia~~~a~~-~~~~V~~fSlEms~~ql~~R~~s 267 (886)
T PRK07773 220 IIVAARPSMGKTTFGLDFARNCAIR-HRLAVAIFSLEMSKEQLVMRLLS 267 (886)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHh-cCCeEEEEecCCCHHHHHHHHHH
Confidence 3678899999999888887665433 23578888776666666655543
No 453
>PRK06904 replicative DNA helicase; Validated
Probab=82.89 E-value=3.6 Score=33.00 Aligned_cols=47 Identities=6% Similarity=0.010 Sum_probs=34.1
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
.+++--+|+|||.-++.++...... ...+++++.....-.|+...+.
T Consensus 224 iiIaarPg~GKTafalnia~~~a~~-~g~~Vl~fSlEMs~~ql~~Rll 270 (472)
T PRK06904 224 IIVAARPSMGKTTFAMNLCENAAMA-SEKPVLVFSLEMPAEQIMMRML 270 (472)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHh-cCCeEEEEeccCCHHHHHHHHH
Confidence 3678899999998887776554322 2468889888877777776654
No 454
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=82.89 E-value=2.2 Score=30.31 Aligned_cols=22 Identities=9% Similarity=-0.046 Sum_probs=14.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~ 24 (169)
-+|..+.|+|||..+-++....
T Consensus 45 ~~l~G~~G~GKT~La~ai~~~~ 66 (227)
T PRK08903 45 FYLWGEAGSGRSHLLQALVADA 66 (227)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 3566788888887666555443
No 455
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=82.85 E-value=2.1 Score=30.27 Aligned_cols=32 Identities=19% Similarity=0.156 Sum_probs=23.2
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
++.-..|.|||..+.++.....+.+ .++++|.
T Consensus 3 ~~~g~~g~Gkt~~~~~la~~~a~~g--~~~~l~~ 34 (217)
T cd02035 3 FFTGKGGVGKTTIAAATAVRLAEEG--KKVLLVS 34 (217)
T ss_pred EEeCCCCchHHHHHHHHHHHHHHCC--CcEEEEE
Confidence 4556789999999888877666544 5666664
No 456
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=82.85 E-value=3.8 Score=27.55 Aligned_cols=44 Identities=20% Similarity=0.197 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHhCCCc
Q psy1090 13 KSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFV 56 (169)
Q Consensus 13 KT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~~~~~ 56 (169)
|+.++..-+...+-++..+|.|||.|..+=++|.+..-++...+
T Consensus 19 K~at~~p~v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekf 62 (170)
T COG1880 19 KTATAVPEVVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKF 62 (170)
T ss_pred chhccccHHHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhc
Confidence 55554433333444555689999999988678988877776433
No 457
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=82.83 E-value=0.54 Score=30.62 Aligned_cols=21 Identities=10% Similarity=-0.015 Sum_probs=13.7
Q ss_pred ccccCCCCCcHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCK 23 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~ 23 (169)
++|-+.+|+|||..+-++...
T Consensus 2 vLleg~PG~GKT~la~~lA~~ 22 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS 22 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH
T ss_pred EeeECCCccHHHHHHHHHHHH
Confidence 467899999999888766544
No 458
>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=82.79 E-value=1.4 Score=28.62 Aligned_cols=22 Identities=9% Similarity=0.105 Sum_probs=16.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~ 24 (169)
.+|.-++|+|||..+-.++..+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4677899999997765555443
No 459
>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=82.75 E-value=2.2 Score=29.76 Aligned_cols=38 Identities=16% Similarity=0.106 Sum_probs=22.9
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHh-CCCCc-eEEEecCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEE-QALEP-NLIVCPLS 40 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~-~~~~~-~Liv~P~~ 40 (169)
.+++-.+|+|||....+++..+... .+..- +.++=|+.
T Consensus 41 ~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~ 80 (205)
T PF01580_consen 41 LLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKG 80 (205)
T ss_dssp EEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTS
T ss_pred EEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCc
Confidence 5678899999999888887776653 22333 34444553
No 460
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=82.75 E-value=4.3 Score=30.50 Aligned_cols=14 Identities=14% Similarity=0.219 Sum_probs=11.6
Q ss_pred cccEEEEeCCcccC
Q psy1090 120 TWNCIIVDEGHSVK 133 (169)
Q Consensus 120 ~~~~vi~DEah~~k 133 (169)
++.++|+||+|.+.
T Consensus 93 ~~kv~iI~~ad~m~ 106 (313)
T PRK05564 93 DKKVIIIYNSEKMT 106 (313)
T ss_pred CceEEEEechhhcC
Confidence 67789999999874
No 461
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.70 E-value=9.5 Score=31.75 Aligned_cols=22 Identities=18% Similarity=0.078 Sum_probs=16.3
Q ss_pred cccCCCCCcHHHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~ 25 (169)
++..+.|+|||..+..+...+.
T Consensus 43 Lf~Gp~G~GKtt~A~~lAk~l~ 64 (614)
T PRK14971 43 LFCGPRGVGKTTCARIFAKTIN 64 (614)
T ss_pred EEECCCCCCHHHHHHHHHHHhC
Confidence 5678899999987766665553
No 462
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=82.57 E-value=1.3 Score=35.61 Aligned_cols=46 Identities=17% Similarity=0.121 Sum_probs=32.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
|.+|...+|+|||+.+-++... ...+.+-+-...++..|.-|..+.
T Consensus 278 giLl~GpPGtGKT~lAkava~~-----~~~~fi~v~~~~l~sk~vGesek~ 323 (494)
T COG0464 278 GVLLYGPPGTGKTLLAKAVALE-----SRSRFISVKGSELLSKWVGESEKN 323 (494)
T ss_pred eeEEECCCCCCHHHHHHHHHhh-----CCCeEEEeeCHHHhccccchHHHH
Confidence 5688999999999887666542 124566555558888898776543
No 463
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=82.47 E-value=1.1 Score=34.57 Aligned_cols=23 Identities=13% Similarity=0.206 Sum_probs=18.6
Q ss_pred CccccCCCCCcHHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~ 24 (169)
|.+++.++|+|||..|+++...+
T Consensus 67 giLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 67 GILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred EEEEECCCCCcHHHHHHHHHHHh
Confidence 46789999999998888876554
No 464
>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=82.45 E-value=2.1 Score=33.78 Aligned_cols=33 Identities=12% Similarity=0.031 Sum_probs=22.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
+++..+|+|||.++..++.++.... ..++++|.
T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~-g~kV~lV~ 135 (428)
T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQ-GKKVLLVA 135 (428)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhC-CCeEEEEe
Confidence 4677899999999988877754333 23455444
No 465
>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=82.38 E-value=2.3 Score=32.71 Aligned_cols=24 Identities=25% Similarity=0.216 Sum_probs=18.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIE 26 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~ 26 (169)
.+++.++|+|||.+.-+++..+..
T Consensus 137 ilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 137 VFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhh
Confidence 467889999999888777766543
No 466
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=82.35 E-value=2 Score=31.30 Aligned_cols=40 Identities=18% Similarity=0.161 Sum_probs=26.5
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNW 45 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW 45 (169)
++.-..|.|||..+.++.......+ .++|+|- |.+.+..+
T Consensus 4 ~~~gkgG~GKtt~a~~la~~~a~~g--~~vLlvd~D~~~sl~~~ 45 (254)
T cd00550 4 FFGGKGGVGKTTISAATAVRLAEQG--KKVLLVSTDPAHSLSDS 45 (254)
T ss_pred EEECCCCchHHHHHHHHHHHHHHCC--CCceEEeCCCcccHHHH
Confidence 3455689999999988877765544 5677664 44444443
No 467
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=82.30 E-value=2.8 Score=25.61 Aligned_cols=31 Identities=10% Similarity=0.116 Sum_probs=21.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+-.-|.|||..+..+...+... ..+++++
T Consensus 4 ~~~~kgG~Gkst~~~~la~~~~~~--~~~vl~~ 34 (104)
T cd02042 4 VANQKGGVGKTTTAVNLAAALARR--GKRVLLI 34 (104)
T ss_pred EEeCCCCcCHHHHHHHHHHHHHhC--CCcEEEE
Confidence 445567999999888877766542 3466665
No 468
>KOG2543|consensus
Probab=82.11 E-value=3.4 Score=32.13 Aligned_cols=41 Identities=17% Similarity=0.199 Sum_probs=30.6
Q ss_pred ccEEEEeCCcccCCcccHHHHHHhcc-----ccccEEEEeccCCCC
Q psy1090 121 WNCIIVDEGHSVKNKKSKLSIKLTAL-----RATFKVLLTGWYYPN 161 (169)
Q Consensus 121 ~~~vi~DEah~~k~~~~~~~~~~~~l-----~~~~~~~lT~TP~~n 161 (169)
--++|+|-++.++..++.....+.++ ....++++++++..+
T Consensus 116 ~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~ 161 (438)
T KOG2543|consen 116 KVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEK 161 (438)
T ss_pred eEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHH
Confidence 34789999999998777766666544 246678888888754
No 469
>PRK05595 replicative DNA helicase; Provisional
Probab=81.80 E-value=4.3 Score=32.19 Aligned_cols=46 Identities=7% Similarity=-0.112 Sum_probs=33.0
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFR 50 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~ 50 (169)
+++-.+|+|||.-++.++...... ...+++++.....-.|....+.
T Consensus 205 viaarpg~GKT~~al~ia~~~a~~-~g~~vl~fSlEms~~~l~~R~~ 250 (444)
T PRK05595 205 LIAARPSMGKTTFALNIAEYAALR-EGKSVAIFSLEMSKEQLAYKLL 250 (444)
T ss_pred EEEecCCCChHHHHHHHHHHHHHH-cCCcEEEEecCCCHHHHHHHHH
Confidence 678899999999888887654322 2367888877766667666643
No 470
>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=81.78 E-value=16 Score=32.06 Aligned_cols=92 Identities=18% Similarity=0.185 Sum_probs=55.4
Q ss_pred CCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHH--HHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecH
Q psy1090 30 LEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAI--ERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTP 106 (169)
Q Consensus 30 ~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty 106 (169)
.+.++|+||. .-+....+.+++..|+.++..++|.-. ++...-..... +..++ +++|
T Consensus 660 g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~------------------Gk~~I-LVaT- 719 (926)
T TIGR00580 660 GGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYK------------------GEFQV-LVCT- 719 (926)
T ss_pred CCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHc------------------CCCCE-EEEC-
Confidence 4689999997 445556677777778899999999643 33322222211 66777 7776
Q ss_pred HHHHhchhccccccccEEEEeCCcccCCcccHHHHHHhcc
Q psy1090 107 QIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTAL 146 (169)
Q Consensus 107 ~~~~~~~~~~~~~~~~~vi~DEah~~k~~~~~~~~~~~~l 146 (169)
+.+.+..+. -+.+.+|++.+++.. -+..++...+.
T Consensus 720 ~iie~GIDI---p~v~~VIi~~a~~~g--ls~l~Qr~GRv 754 (926)
T TIGR00580 720 TIIETGIDI---PNANTIIIERADKFG--LAQLYQLRGRV 754 (926)
T ss_pred Chhhccccc---ccCCEEEEecCCCCC--HHHHHHHhcCC
Confidence 344443332 245678888886642 23444444443
No 471
>PRK13768 GTPase; Provisional
Probab=81.66 E-value=2 Score=31.32 Aligned_cols=31 Identities=16% Similarity=-0.051 Sum_probs=21.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
++....|+|||..+..+...+...+ .++++|
T Consensus 6 ~v~G~~G~GKTt~~~~~~~~l~~~g--~~v~~i 36 (253)
T PRK13768 6 FFLGTAGSGKTTLTKALSDWLEEQG--YDVAIV 36 (253)
T ss_pred EEECCCCccHHHHHHHHHHHHHhcC--CceEEE
Confidence 4566799999998888777665433 455554
No 472
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=81.63 E-value=4.8 Score=31.88 Aligned_cols=48 Identities=6% Similarity=-0.000 Sum_probs=37.1
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHHHHHHHHh
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKF 52 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW~~e~~~~ 52 (169)
++|.=+|+|||.-++.++..... ...+|+.|+.-.-.-.||...+...
T Consensus 200 i~AaRP~mGKTafalnia~n~a~-~~~~~v~iFSLEM~~eql~~R~Ls~ 247 (435)
T COG0305 200 IVAARPGMGKTALALNIALNAAA-DGRKPVAIFSLEMSEEQLVMRLLSS 247 (435)
T ss_pred EEccCCCCChHHHHHHHHHHHHH-hcCCCeEEEEccCCHHHHHHHhhcc
Confidence 67888999999988888877665 3356777777777788988877543
No 473
>CHL00175 minD septum-site determining protein; Validated
Probab=81.14 E-value=2.5 Score=31.09 Aligned_cols=31 Identities=6% Similarity=-0.046 Sum_probs=22.7
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+..-|.|||..+..+...+.+.+ .++|+|
T Consensus 20 v~s~KGGvGKTt~a~nLA~~La~~g--~~vlli 50 (281)
T CHL00175 20 ITSGKGGVGKTTTTANLGMSIARLG--YRVALI 50 (281)
T ss_pred EEcCCCCCcHHHHHHHHHHHHHhCC--CeEEEE
Confidence 4556789999999888877666543 467766
No 474
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=80.83 E-value=2 Score=33.44 Aligned_cols=39 Identities=10% Similarity=0.038 Sum_probs=24.7
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNW 45 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~qW 45 (169)
|.+|.-++|+|||..+-++.... ..+.+.+....+...|
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~-----~~~~i~v~~~~l~~~~ 205 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSELVQKF 205 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh-----CCCEEEeehHHHhHhh
Confidence 56788999999998876664432 2345555444554433
No 475
>PTZ00301 uridine kinase; Provisional
Probab=80.53 E-value=3.4 Score=29.26 Aligned_cols=21 Identities=14% Similarity=0.191 Sum_probs=15.1
Q ss_pred ccCCCCCcHHHHHHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~ 25 (169)
++-.+|+|||..+-.+...+.
T Consensus 8 IaG~SgSGKTTla~~l~~~l~ 28 (210)
T PTZ00301 8 ISGASGSGKSSLSTNIVSELM 28 (210)
T ss_pred EECCCcCCHHHHHHHHHHHHH
Confidence 577899999977755554443
No 476
>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=80.47 E-value=0.75 Score=35.47 Aligned_cols=35 Identities=14% Similarity=0.142 Sum_probs=22.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
-+|+.++|+|||..++++...+ +..-|...+.-+.
T Consensus 53 iLiaGppGtGKTAlA~~ia~eL---G~~~PF~~isgSE 87 (398)
T PF06068_consen 53 ILIAGPPGTGKTALAMAIAKEL---GEDVPFVSISGSE 87 (398)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHC---TTTS-EEEEEGGG
T ss_pred EEEeCCCCCCchHHHHHHHHHh---CCCCCeeEcccce
Confidence 5788999999998887776543 3344666555544
No 477
>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=80.29 E-value=2.4 Score=30.78 Aligned_cols=35 Identities=11% Similarity=0.205 Sum_probs=24.0
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecC
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPL 39 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~ 39 (169)
.++....|+|||...+.++...... ...+++++|.
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~~--f~~I~l~t~~ 50 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRHK--FDHIFLITPE 50 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhccc--CCEEEEEecC
Confidence 4677789999998887777554332 2556666674
No 478
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=80.03 E-value=3.8 Score=26.62 Aligned_cols=34 Identities=12% Similarity=-0.014 Sum_probs=24.3
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
..-++|.|||..+..++..+.+++ .++..+=|..
T Consensus 4 ~~~~~~~Gkt~~~~~l~~~l~~~~--~~v~~~kp~~ 37 (134)
T cd03109 4 FGTGTDIGKTVATAILARALKEKG--YRVAPLKPVQ 37 (134)
T ss_pred EeCCCCcCHHHHHHHHHHHHHHCC--CeEEEEecCC
Confidence 445789999999999988876554 4555555543
No 479
>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=79.78 E-value=1.2 Score=29.79 Aligned_cols=22 Identities=18% Similarity=0.317 Sum_probs=18.0
Q ss_pred CccccCCCCCcHHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCK 23 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~ 23 (169)
|.++.-+.|+|||..+++++..
T Consensus 16 gvLi~G~sG~GKStlal~L~~~ 37 (149)
T cd01918 16 GVLITGPSGIGKSELALELIKR 37 (149)
T ss_pred EEEEEcCCCCCHHHHHHHHHHc
Confidence 5678889999999888877653
No 480
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=79.61 E-value=3.8 Score=26.75 Aligned_cols=31 Identities=10% Similarity=0.038 Sum_probs=21.6
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+-.-|.|||..++.+...+...+ .++++|
T Consensus 4 ~~~~kgg~gkt~~~~~~a~~~~~~~--~~~~~v 34 (139)
T cd02038 4 VTSGKGGVGKTNISANLALALAKLG--KRVLLL 34 (139)
T ss_pred EEcCCCCCcHHHHHHHHHHHHHHCC--CcEEEE
Confidence 4566789999999988877765432 445544
No 481
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=79.53 E-value=3.3 Score=29.63 Aligned_cols=24 Identities=13% Similarity=0.004 Sum_probs=20.2
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
-+-++|.|||..+++++..+.+++
T Consensus 8 t~t~t~vGKT~vt~~L~~~l~~~g 31 (231)
T PRK12374 8 TGTDTSVGKTVVSRALLQALASQG 31 (231)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCC
Confidence 456899999999999998887664
No 482
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=79.35 E-value=3 Score=32.41 Aligned_cols=39 Identities=10% Similarity=-0.068 Sum_probs=26.6
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe--cCcchHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC--PLSVLNNW 45 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~--P~~~l~qW 45 (169)
...--|.|||.+++.+...+...+ .++|+|= |...+..|
T Consensus 110 ~n~KGGvGKTT~a~nLA~~La~~G--~rVLlID~DpQ~~ls~~ 150 (387)
T TIGR03453 110 TNFKGGSGKTTTAAHLAQYLALRG--YRVLAIDLDPQASLSAL 150 (387)
T ss_pred EccCCCcCHHHHHHHHHHHHHhcC--CCEEEEecCCCCCHHHH
Confidence 345669999999988877665543 5676663 55555555
No 483
>PF07475 Hpr_kinase_C: HPr Serine kinase C-terminal domain; InterPro: IPR011104 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the C-terminal kinase domain of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller [].; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 2QMH_C 1KKM_B 1KKL_C 1JB1_A 3TQF_B 1KNX_B 1KO7_A.
Probab=79.35 E-value=0.96 Score=30.89 Aligned_cols=21 Identities=19% Similarity=0.289 Sum_probs=18.3
Q ss_pred CccccCCCCCcHHHHHHHHHH
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFC 22 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~ 22 (169)
|.+|.-+.|.|||-.+++++.
T Consensus 20 GVLi~G~SG~GKS~lAl~Li~ 40 (171)
T PF07475_consen 20 GVLITGPSGIGKSELALELIK 40 (171)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 567889999999999988875
No 484
>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=79.25 E-value=2.6 Score=32.79 Aligned_cols=37 Identities=16% Similarity=0.168 Sum_probs=21.2
Q ss_pred CccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCc
Q psy1090 2 DTVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLS 40 (169)
Q Consensus 2 g~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~ 40 (169)
+.++.-.+|+|||...-.++.....++ .+++|.=|+.
T Consensus 17 ~~li~G~~GsGKT~~i~~ll~~~~~~g--~~~iI~D~kg 53 (386)
T PF10412_consen 17 HILIIGATGSGKTQAIRHLLDQIRARG--DRAIIYDPKG 53 (386)
T ss_dssp -EEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEEEETT
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHcC--CEEEEEECCc
Confidence 345667899999975445444444333 4666666664
No 485
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=79.20 E-value=2.4 Score=30.35 Aligned_cols=23 Identities=13% Similarity=-0.035 Sum_probs=18.6
Q ss_pred cCCCCCcHHHHHHHHHHHHHHhC
Q psy1090 6 PDPTRYRKSGKVIAFFCKIIEEQ 28 (169)
Q Consensus 6 ~de~G~GKT~~~i~~i~~~~~~~ 28 (169)
+-++|.|||+.+-+++.++...+
T Consensus 9 GTDT~VGKTv~S~aL~~~l~~~g 31 (223)
T COG0132 9 GTDTGVGKTVVSAALAQALKQQG 31 (223)
T ss_pred eCCCCccHHHHHHHHHHHHHhCC
Confidence 56899999999988888766544
No 486
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=79.14 E-value=3.3 Score=30.31 Aligned_cols=31 Identities=13% Similarity=0.029 Sum_probs=22.9
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
+.+-..|.|||.++..+...+...+ .++|+|
T Consensus 108 vts~~~g~Gktt~a~nLA~~la~~g--~~VllI 138 (274)
T TIGR03029 108 VVSAKSGEGCSYIAANLAIVFSQLG--EKTLLI 138 (274)
T ss_pred EECCCCCCCHHHHHHHHHHHHHhcC--CeEEEE
Confidence 4456789999999988877765444 577777
No 487
>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=79.11 E-value=4.5 Score=28.83 Aligned_cols=20 Identities=15% Similarity=0.084 Sum_probs=14.0
Q ss_pred ccCCCCCcHHHHHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~ 24 (169)
++-..|+|||..+-.+...+
T Consensus 4 I~G~sGSGKTTla~~L~~~l 23 (220)
T cd02025 4 IAGSVAVGKSTTARVLQALL 23 (220)
T ss_pred eeCCCCCCHHHHHHHHHHHH
Confidence 56789999998775544433
No 488
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=78.83 E-value=16 Score=27.76 Aligned_cols=43 Identities=9% Similarity=0.084 Sum_probs=27.0
Q ss_pred ccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEecCcchH-HHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLN-NWEAEF 49 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~P~~~l~-qW~~e~ 49 (169)
+.-+.|+|||..++.++...... .+.+++|-|.+.+. .|.+.+
T Consensus 58 i~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~~a~~l 101 (322)
T PF00154_consen 58 IYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPEYAESL 101 (322)
T ss_dssp EEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HHHHHHT
T ss_pred EeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchhhHHHhc
Confidence 34467999999888887765443 35677777766554 666655
No 489
>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=78.80 E-value=8.9 Score=24.91 Aligned_cols=47 Identities=11% Similarity=0.110 Sum_probs=27.4
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCce--EEEe----cC-cchHHHHHHHHHhC
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPN--LIVC----PL-SVLNNWEAEFRKFA 53 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~--Liv~----P~-~~l~qW~~e~~~~~ 53 (169)
..+|+|||..+=.++..+..++...+. .++. |. .-+.+..++++.|.
T Consensus 60 G~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I 113 (127)
T PF06309_consen 60 GWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWI 113 (127)
T ss_pred cCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHH
Confidence 468999998876666666665544432 2222 32 23445556666554
No 490
>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=78.78 E-value=2.7 Score=29.33 Aligned_cols=23 Identities=26% Similarity=0.257 Sum_probs=17.7
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.+++-++|+|||...-+++..+.
T Consensus 4 ilI~GptGSGKTTll~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTLAAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHhh
Confidence 35788999999988877666553
No 491
>KOG0731|consensus
Probab=78.73 E-value=1.4 Score=37.08 Aligned_cols=21 Identities=14% Similarity=0.045 Sum_probs=18.0
Q ss_pred CCccccCCCCCcHHHHHHHHH
Q psy1090 1 MDTVIPDPTRYRKSGKVIAFF 21 (169)
Q Consensus 1 ~g~iL~de~G~GKT~~~i~~i 21 (169)
.|++|.-++|+|||+-|-|.+
T Consensus 345 kGvLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred CceEEECCCCCcHHHHHHHHh
Confidence 389999999999998877765
No 492
>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=78.66 E-value=2.3 Score=31.21 Aligned_cols=23 Identities=13% Similarity=0.257 Sum_probs=18.6
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.+++-++|+|||.+.-+++..+.
T Consensus 83 ilisG~tGSGKTT~l~all~~i~ 105 (264)
T cd01129 83 ILVTGPTGSGKTTTLYSALSELN 105 (264)
T ss_pred EEEECCCCCcHHHHHHHHHhhhC
Confidence 46889999999998888776653
No 493
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=78.11 E-value=1.7 Score=32.78 Aligned_cols=21 Identities=19% Similarity=-0.021 Sum_probs=17.3
Q ss_pred ccCCCCCcHHHHHHHHHHHHH
Q psy1090 5 IPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 5 L~de~G~GKT~~~i~~i~~~~ 25 (169)
|.-|.|+|||+++.+++..+.
T Consensus 36 iVGESGsGKS~~~~aim~llp 56 (316)
T COG0444 36 IVGESGSGKSVLAKAIMGLLP 56 (316)
T ss_pred EEcCCCCCHHHHHHHHHhccC
Confidence 567999999999998876554
No 494
>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=78.08 E-value=3.6 Score=28.10 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=17.4
Q ss_pred ccccCCCCCcHHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKII 25 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~ 25 (169)
.+|+-.+|+|||..+-++...+.
T Consensus 6 ~ll~GpsGvGKT~la~~la~~l~ 28 (171)
T PF07724_consen 6 FLLAGPSGVGKTELAKALAELLF 28 (171)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 46788999999987766665543
No 495
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=77.96 E-value=18 Score=27.96 Aligned_cols=83 Identities=23% Similarity=0.263 Sum_probs=51.2
Q ss_pred CCCCceEEEecC-cchHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhhcCCCcccccccCCccccccCCCCeEEEecH
Q psy1090 28 QALEPNLIVCPL-SVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTP 106 (169)
Q Consensus 28 ~~~~~~Liv~P~-~~l~qW~~e~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~ty 106 (169)
+...|+||.+|. ..++|...-+++-.|...+...+.....|...-...-+ +..++ ++||
T Consensus 303 ~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d~~R~EkV~~fR~------------------G~~~l-LiTT- 362 (441)
T COG4098 303 KTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQHRKEKVEAFRD------------------GKITL-LITT- 362 (441)
T ss_pred hcCCcEEEEecchHHHHHHHHHHHhhCCccceeeeeccCccHHHHHHHHHc------------------CceEE-EEEe-
Confidence 445799999998 56678777787777777766666655555433322211 55566 5555
Q ss_pred HHHHhchhccccccccEEEEeCCcccC
Q psy1090 107 QIIENDFGFLKKITWNCIIVDEGHSVK 133 (169)
Q Consensus 107 ~~~~~~~~~~~~~~~~~vi~DEah~~k 133 (169)
..+.+...+ -+.|.+|++--|++-
T Consensus 363 TILERGVTf---p~vdV~Vlgaeh~vf 386 (441)
T COG4098 363 TILERGVTF---PNVDVFVLGAEHRVF 386 (441)
T ss_pred ehhhccccc---ccceEEEecCCcccc
Confidence 344443321 256778888777654
No 496
>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=77.83 E-value=1.8 Score=27.35 Aligned_cols=20 Identities=15% Similarity=0.072 Sum_probs=14.4
Q ss_pred cccCCCCCcHHHHHHHHHHH
Q psy1090 4 VIPDPTRYRKSGKVIAFFCK 23 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~ 23 (169)
+|--++|+|||..+-.++..
T Consensus 2 ll~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHH
T ss_pred EEECcCCCCeeHHHHHHHhh
Confidence 45678999999776555544
No 497
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=77.77 E-value=1.4 Score=32.18 Aligned_cols=27 Identities=15% Similarity=0.090 Sum_probs=19.1
Q ss_pred CCCCCcHHHHHHHHHHHHHHhCCCCceEEE
Q psy1090 7 DPTRYRKSGKVIAFFCKIIEEQALEPNLIV 36 (169)
Q Consensus 7 de~G~GKT~~~i~~i~~~~~~~~~~~~Liv 36 (169)
.--|.|||.++..+...+.+. . ++|+|
T Consensus 9 ~KGGvGKTT~a~nLA~~La~~--G-rVLli 35 (264)
T PRK13231 9 GKGGIGKSTTVSNMAAAYSND--H-RVLVI 35 (264)
T ss_pred CCCCCcHHHHHHHHhcccCCC--C-EEEEE
Confidence 367999999988876655432 2 67766
No 498
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=77.66 E-value=4.3 Score=28.44 Aligned_cols=33 Identities=18% Similarity=0.073 Sum_probs=22.4
Q ss_pred cccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 4 VIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 4 iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
+.+-.-|.|||..+..+...+.... .+++|+|=
T Consensus 40 v~s~kgG~GkSt~a~nLA~~la~~~-g~~VLlvD 72 (207)
T TIGR03018 40 VTSSLPGEGKSFTAINLAISLAQEY-DKTVLLID 72 (207)
T ss_pred EECCCCCCCHHHHHHHHHHHHHHhc-CCeEEEEE
Confidence 4455679999999888877665432 25677763
No 499
>PHA00729 NTP-binding motif containing protein
Probab=77.64 E-value=3.7 Score=29.50 Aligned_cols=22 Identities=14% Similarity=0.048 Sum_probs=17.3
Q ss_pred ccccCCCCCcHHHHHHHHHHHH
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKI 24 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~ 24 (169)
.++.-.+|+|||..+.++...+
T Consensus 20 IlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 20 AVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 4566789999999888876654
No 500
>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=77.60 E-value=2 Score=31.43 Aligned_cols=30 Identities=13% Similarity=0.143 Sum_probs=20.5
Q ss_pred ccccCCCCCcHHHHHHHHHHHHHHhCCCCceEEEe
Q psy1090 3 TVIPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVC 37 (169)
Q Consensus 3 ~iL~de~G~GKT~~~i~~i~~~~~~~~~~~~Liv~ 37 (169)
.+|..++|+|||..+-++.... ..+++.++
T Consensus 24 vLL~G~~GtGKT~lA~~la~~l-----g~~~~~i~ 53 (262)
T TIGR02640 24 VHLRGPAGTGKTTLAMHVARKR-----DRPVMLIN 53 (262)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh-----CCCEEEEe
Confidence 4678899999998887665421 24565553
Done!