Query psy11433
Match_columns 941
No_of_seqs 471 out of 2750
Neff 6.7
Searched_HMMs 46136
Date Fri Aug 16 18:19:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11433.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11433hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1131|consensus 100.0 2E-139 4E-144 1147.9 38.4 625 1-935 121-751 (755)
2 KOG1133|consensus 100.0 2.9E-87 6.3E-92 759.1 25.8 570 1-906 237-817 (821)
3 TIGR00604 rad3 DNA repair heli 100.0 8.1E-72 1.8E-76 681.8 29.9 582 3-897 116-703 (705)
4 KOG1132|consensus 100.0 3.7E-64 8.1E-69 585.1 26.4 578 2-910 155-763 (945)
5 KOG1131|consensus 100.0 2.8E-50 6.2E-55 444.0 23.7 312 424-852 1-315 (755)
6 KOG1133|consensus 100.0 4.6E-48 1E-52 440.0 19.9 332 431-886 8-469 (821)
7 TIGR00604 rad3 DNA repair heli 100.0 9.1E-45 2E-49 443.9 23.1 283 431-829 2-287 (705)
8 KOG1132|consensus 100.0 2.2E-42 4.8E-47 403.5 17.2 232 428-795 10-280 (945)
9 smart00488 DEXDc2 DEAD-like he 100.0 1.1E-40 2.4E-45 366.5 20.2 259 432-807 2-281 (289)
10 smart00489 DEXDc3 DEAD-like he 100.0 1.1E-40 2.4E-45 366.5 20.2 259 432-807 2-281 (289)
11 COG1199 DinG Rad3-related DNA 100.0 5.5E-31 1.2E-35 321.3 22.0 86 62-147 175-260 (654)
12 PF06777 DUF1227: Protein of u 100.0 1.6E-29 3.4E-34 244.8 11.0 144 150-337 3-146 (146)
13 TIGR01407 dinG_rel DnaQ family 99.9 1.2E-25 2.7E-30 280.6 21.6 82 61-144 396-477 (850)
14 PRK11747 dinG ATP-dependent DN 99.9 2E-24 4.3E-29 263.5 25.5 82 63-145 201-284 (697)
15 COG1199 DinG Rad3-related DNA 99.9 4.8E-25 1E-29 269.3 19.0 254 432-803 8-261 (654)
16 PRK11747 dinG ATP-dependent DN 99.9 4.1E-24 8.8E-29 260.8 22.4 250 435-801 21-285 (697)
17 PF06733 DEAD_2: DEAD_2; Inte 99.9 1.2E-25 2.6E-30 229.9 2.8 102 689-791 71-174 (174)
18 PRK08074 bifunctional ATP-depe 99.9 7.8E-23 1.7E-27 256.8 27.2 81 62-144 412-492 (928)
19 PRK08074 bifunctional ATP-depe 99.9 4.4E-23 9.6E-28 259.0 23.3 235 435-799 253-492 (928)
20 TIGR01407 dinG_rel DnaQ family 99.9 4.4E-23 9.6E-28 257.8 16.8 227 440-798 246-476 (850)
21 smart00488 DEXDc2 DEAD-like he 99.9 8.9E-23 1.9E-27 224.8 11.5 146 9-155 139-284 (289)
22 smart00489 DEXDc3 DEAD-like he 99.9 8.9E-23 1.9E-27 224.8 11.5 146 9-155 139-284 (289)
23 PF06733 DEAD_2: DEAD_2; Inte 99.9 3.7E-23 8E-28 211.5 2.7 123 5-136 50-174 (174)
24 TIGR03117 cas_csf4 CRISPR-asso 99.8 1.8E-20 3.8E-25 223.2 16.4 233 443-798 1-242 (636)
25 PRK07246 bifunctional ATP-depe 99.8 7.3E-19 1.6E-23 217.7 23.7 75 63-140 395-469 (820)
26 PRK07246 bifunctional ATP-depe 99.8 5.6E-19 1.2E-23 218.7 21.2 220 439-795 245-469 (820)
27 PF13307 Helicase_C_2: Helicas 99.6 3.5E-17 7.6E-22 166.5 -3.2 166 601-882 2-167 (167)
28 TIGR03117 cas_csf4 CRISPR-asso 99.6 2.5E-13 5.3E-18 162.5 25.9 73 69-143 167-242 (636)
29 smart00491 HELICc2 helicase su 99.4 3.3E-14 7.1E-19 140.7 -1.4 82 618-729 1-82 (142)
30 smart00492 HELICc3 helicase su 99.2 3.4E-12 7.4E-17 126.2 -0.6 74 618-706 1-74 (141)
31 cd00268 DEADc DEAD-box helicas 98.3 3.4E-06 7.3E-11 87.9 10.1 76 435-514 17-93 (203)
32 PRK04837 ATP-dependent RNA hel 98.1 1.5E-05 3.2E-10 93.1 10.5 76 435-514 26-107 (423)
33 PF04851 ResIII: Type III rest 98.0 9.7E-06 2.1E-10 82.2 7.4 68 439-513 3-73 (184)
34 PF00270 DEAD: DEAD/DEAH box h 98.0 1.6E-05 3.6E-10 79.8 8.8 67 441-513 1-67 (169)
35 PRK11192 ATP-dependent RNA hel 98.0 2.2E-05 4.7E-10 92.1 10.3 77 435-515 19-98 (434)
36 PRK11776 ATP-dependent RNA hel 97.9 2.2E-05 4.8E-10 92.7 8.9 76 435-515 22-97 (460)
37 PLN00206 DEAD-box ATP-dependen 97.9 3.4E-05 7.3E-10 92.6 10.4 76 435-514 139-220 (518)
38 PRK10590 ATP-dependent RNA hel 97.9 3.6E-05 7.8E-10 90.9 10.1 77 435-515 19-100 (456)
39 PRK04537 ATP-dependent RNA hel 97.9 3.7E-05 8E-10 93.2 10.2 76 435-514 27-108 (572)
40 PRK11634 ATP-dependent RNA hel 97.9 4.2E-05 9.1E-10 93.5 10.4 76 435-515 24-99 (629)
41 PTZ00424 helicase 45; Provisio 97.8 4.1E-05 8.9E-10 88.5 9.0 76 434-514 45-120 (401)
42 TIGR03817 DECH_helic helicase/ 97.8 4.5E-05 9.8E-10 95.0 8.8 72 436-513 33-104 (742)
43 PTZ00110 helicase; Provisional 97.8 5.3E-05 1.2E-09 91.4 8.8 76 435-514 148-227 (545)
44 PRK01297 ATP-dependent RNA hel 97.8 6.7E-05 1.5E-09 89.0 9.1 76 435-514 105-186 (475)
45 TIGR00614 recQ_fam ATP-depende 97.7 7.1E-05 1.5E-09 88.8 8.7 69 433-512 5-73 (470)
46 PRK10917 ATP-dependent DNA hel 97.6 0.00018 4E-09 89.0 10.3 77 434-515 257-335 (681)
47 COG0513 SrmB Superfamily II DN 97.6 0.00021 4.6E-09 85.6 9.8 77 436-516 48-125 (513)
48 TIGR00580 mfd transcription-re 97.5 0.00027 5.8E-09 89.6 10.4 78 433-515 446-525 (926)
49 smart00487 DEXDc DEAD-like hel 97.5 0.0002 4.4E-09 72.5 7.7 74 435-513 4-77 (201)
50 TIGR01389 recQ ATP-dependent D 97.5 0.00017 3.7E-09 88.0 8.0 69 433-512 7-75 (591)
51 PRK11057 ATP-dependent DNA hel 97.5 0.0002 4.3E-09 87.6 7.7 69 433-512 19-87 (607)
52 TIGR00643 recG ATP-dependent D 97.5 0.00041 8.8E-09 85.3 10.2 77 434-515 231-309 (630)
53 PRK13767 ATP-dependent helicas 97.5 0.00031 6.7E-09 89.3 9.4 71 437-511 30-105 (876)
54 PRK13766 Hef nuclease; Provisi 97.4 0.00049 1.1E-08 86.7 10.8 66 439-512 15-80 (773)
55 KOG0348|consensus 97.4 0.00043 9.2E-09 79.8 8.5 110 369-515 122-236 (708)
56 PRK02362 ski2-like helicase; P 97.4 0.00034 7.3E-09 87.6 8.2 71 436-513 20-90 (737)
57 KOG0335|consensus 97.3 0.00023 5E-09 82.3 5.1 87 437-534 94-189 (482)
58 TIGR02621 cas3_GSU0051 CRISPR- 97.3 0.00061 1.3E-08 84.6 9.0 73 440-517 16-89 (844)
59 KOG0345|consensus 97.3 0.001 2.2E-08 75.9 9.8 78 435-516 24-105 (567)
60 PLN03137 ATP-dependent DNA hel 97.3 0.0006 1.3E-08 86.3 8.8 67 433-510 454-520 (1195)
61 KOG0331|consensus 97.3 0.00044 9.5E-09 81.2 6.8 74 437-514 111-189 (519)
62 PRK00254 ski2-like helicase; P 97.2 0.00065 1.4E-08 84.8 8.6 73 435-513 19-91 (720)
63 PRK01172 ski2-like helicase; P 97.2 0.00061 1.3E-08 84.5 8.2 70 435-513 19-88 (674)
64 KOG0344|consensus 97.2 0.00047 1E-08 80.6 6.1 77 434-514 153-233 (593)
65 KOG0350|consensus 97.1 0.001 2.2E-08 76.4 7.4 74 441-514 161-239 (620)
66 KOG0342|consensus 97.1 0.00068 1.5E-08 77.7 5.6 76 437-516 102-180 (543)
67 COG1201 Lhr Lhr-like helicases 97.0 0.0019 4.1E-08 79.9 8.9 61 437-501 20-84 (814)
68 KOG0330|consensus 96.9 0.0024 5.1E-08 71.5 8.1 91 437-539 81-171 (476)
69 PRK10689 transcription-repair 96.8 0.0032 7E-08 81.7 9.1 77 433-514 595-673 (1147)
70 PRK11448 hsdR type I restricti 96.7 0.0036 7.9E-08 81.0 8.7 73 439-513 413-486 (1123)
71 PHA02558 uvsW UvsW helicase; P 96.7 0.0044 9.6E-08 74.2 8.4 68 439-513 114-181 (501)
72 COG4889 Predicted helicase [Ge 96.7 0.019 4E-07 69.9 13.2 74 431-511 154-227 (1518)
73 PRK09694 helicase Cas3; Provis 96.5 0.0053 1.1E-07 77.5 8.3 73 437-515 284-356 (878)
74 PRK09401 reverse gyrase; Revie 96.5 0.0053 1.2E-07 79.9 8.4 69 439-515 80-148 (1176)
75 PRK12899 secA preprotein trans 96.5 0.0073 1.6E-07 75.3 9.0 69 440-516 93-161 (970)
76 PF13245 AAA_19: Part of AAA d 96.5 0.0088 1.9E-07 53.0 6.9 61 450-510 2-62 (76)
77 PRK14701 reverse gyrase; Provi 96.4 0.0069 1.5E-07 80.9 8.3 73 434-515 75-147 (1638)
78 PRK05580 primosome assembly pr 96.4 0.0087 1.9E-07 74.2 8.6 69 440-513 145-213 (679)
79 KOG0340|consensus 96.3 0.011 2.3E-07 65.8 7.8 100 414-536 14-114 (442)
80 TIGR00348 hsdR type I site-spe 96.3 0.0093 2E-07 73.8 8.1 72 440-513 239-316 (667)
81 TIGR01054 rgy reverse gyrase. 96.2 0.0095 2.1E-07 77.7 8.1 69 439-515 78-146 (1171)
82 TIGR03714 secA2 accessory Sec 96.2 0.0086 1.9E-07 74.0 7.3 52 461-516 86-137 (762)
83 COG1205 Distinct helicase fami 96.2 0.012 2.6E-07 74.4 8.5 70 440-515 71-140 (851)
84 KOG0346|consensus 96.2 0.0094 2E-07 67.8 6.6 80 437-520 39-123 (569)
85 PRK12898 secA preprotein trans 96.1 0.017 3.7E-07 70.5 8.9 67 440-516 104-170 (656)
86 cd00046 DEXDc DEAD-like helica 96.1 0.013 2.8E-07 55.5 6.3 53 459-513 1-53 (144)
87 PF13086 AAA_11: AAA domain; P 96.0 0.0096 2.1E-07 62.6 5.8 67 442-512 4-75 (236)
88 COG1204 Superfamily II helicas 96.0 0.012 2.7E-07 73.3 7.2 69 439-513 31-99 (766)
89 TIGR01587 cas3_core CRISPR-ass 95.9 0.012 2.6E-07 67.1 6.2 52 461-514 2-53 (358)
90 PF02562 PhoH: PhoH-like prote 95.8 0.021 4.5E-07 60.3 6.8 55 441-501 6-60 (205)
91 KOG0354|consensus 95.6 0.026 5.6E-07 68.9 7.4 68 439-513 62-129 (746)
92 PHA02653 RNA helicase NPH-II; 95.4 0.033 7.1E-07 68.7 7.9 75 440-514 161-246 (675)
93 TIGR03158 cas3_cyano CRISPR-as 95.4 0.031 6.7E-07 64.1 7.1 59 450-515 4-64 (357)
94 COG1061 SSL2 DNA or RNA helica 95.4 0.032 6.8E-07 65.9 7.1 68 439-513 36-103 (442)
95 COG4581 Superfamily II RNA hel 95.3 0.037 7.9E-07 70.1 7.9 73 434-515 115-187 (1041)
96 PRK09200 preprotein translocas 95.2 0.049 1.1E-06 67.9 8.5 67 440-516 79-145 (790)
97 TIGR00963 secA preprotein tran 95.2 0.043 9.4E-07 67.6 7.7 66 440-516 57-123 (745)
98 KOG0338|consensus 94.9 0.038 8.3E-07 64.0 5.9 75 436-514 200-276 (691)
99 PRK13104 secA preprotein trans 94.9 0.051 1.1E-06 68.0 7.4 52 461-516 98-149 (896)
100 KOG1802|consensus 94.8 0.095 2.1E-06 62.5 8.8 102 384-513 376-477 (935)
101 KOG0952|consensus 94.6 0.073 1.6E-06 66.4 7.6 77 433-512 104-186 (1230)
102 KOG0333|consensus 94.6 0.063 1.4E-06 62.5 6.5 113 371-515 226-347 (673)
103 PRK11664 ATP-dependent RNA hel 94.5 0.071 1.5E-06 67.4 7.3 62 446-511 8-69 (812)
104 TIGR00603 rad25 DNA repair hel 94.4 0.079 1.7E-06 65.6 7.4 65 439-513 255-321 (732)
105 COG0514 RecQ Superfamily II DN 94.3 0.033 7.2E-07 66.9 3.8 46 433-482 11-56 (590)
106 TIGR01970 DEAH_box_HrpB ATP-de 94.0 0.11 2.4E-06 65.6 7.7 62 446-511 5-66 (819)
107 PF13604 AAA_30: AAA domain; P 94.0 0.15 3.2E-06 53.5 7.5 63 441-509 3-65 (196)
108 KOG0334|consensus 93.9 0.1 2.3E-06 65.3 7.0 78 434-515 382-463 (997)
109 TIGR00376 DNA helicase, putati 93.9 0.17 3.6E-06 62.5 8.7 67 439-512 157-223 (637)
110 PRK04914 ATP-dependent helicas 93.7 0.35 7.7E-06 61.9 11.3 38 440-479 153-190 (956)
111 COG1111 MPH1 ERCC4-like helica 93.6 0.18 3.9E-06 58.9 7.7 68 439-514 15-82 (542)
112 PRK12904 preprotein translocas 93.6 0.15 3.3E-06 63.7 7.5 66 440-516 82-148 (830)
113 KOG0343|consensus 93.4 0.095 2.1E-06 61.4 5.1 73 439-515 91-166 (758)
114 PRK13107 preprotein translocas 93.2 0.14 3E-06 64.2 6.3 67 440-516 83-149 (908)
115 TIGR02640 gas_vesic_GvpN gas v 93.0 0.14 2.9E-06 56.3 5.4 40 440-479 3-42 (262)
116 COG1203 CRISPR-associated heli 93.0 0.18 4E-06 63.2 7.1 74 440-513 196-269 (733)
117 KOG0336|consensus 92.8 0.073 1.6E-06 60.2 2.9 73 437-513 240-317 (629)
118 COG4096 HsdR Type I site-speci 92.7 0.22 4.9E-06 61.2 7.0 73 439-513 165-238 (875)
119 PRK09751 putative ATP-dependen 92.6 0.13 2.8E-06 68.2 5.3 51 463-513 1-60 (1490)
120 PRK10536 hypothetical protein; 92.6 0.31 6.8E-06 53.2 7.3 42 440-485 60-101 (262)
121 PF00580 UvrD-helicase: UvrD/R 92.3 0.34 7.5E-06 53.4 7.5 66 441-512 2-67 (315)
122 TIGR00595 priA primosomal prot 91.1 0.27 5.9E-06 59.0 5.3 48 462-513 1-48 (505)
123 PRK08769 DNA polymerase III su 91.0 0.83 1.8E-05 51.7 8.7 45 439-483 4-51 (319)
124 PRK15483 type III restriction- 90.8 1.1 2.4E-05 57.0 10.5 46 459-506 60-105 (986)
125 COG0714 MoxR-like ATPases [Gen 90.7 0.44 9.4E-06 54.0 6.3 52 443-499 28-79 (329)
126 PRK12906 secA preprotein trans 90.5 0.79 1.7E-05 57.4 8.6 67 440-516 81-147 (796)
127 KOG1803|consensus 90.0 0.49 1.1E-05 56.5 6.0 63 442-511 188-250 (649)
128 PHA02244 ATPase-like protein 89.6 0.73 1.6E-05 52.9 6.8 49 426-474 86-135 (383)
129 KOG0328|consensus 89.3 0.28 6.1E-06 53.3 3.0 75 434-513 44-118 (400)
130 KOG0326|consensus 89.2 0.22 4.9E-06 54.9 2.2 87 436-537 104-193 (459)
131 PRK13531 regulatory ATPase Rav 89.2 0.34 7.4E-06 57.3 3.9 35 443-477 24-58 (498)
132 KOG0339|consensus 88.8 0.5 1.1E-05 55.1 4.7 87 437-534 243-333 (731)
133 cd00009 AAA The AAA+ (ATPases 88.6 0.61 1.3E-05 44.4 4.6 31 444-474 3-35 (151)
134 KOG0347|consensus 88.6 0.4 8.6E-06 56.5 3.7 76 437-515 201-288 (731)
135 KOG0337|consensus 88.0 0.5 1.1E-05 54.1 4.0 68 437-508 41-108 (529)
136 PRK12326 preprotein translocas 87.7 1.3 2.9E-05 54.7 7.6 67 440-516 79-145 (764)
137 KOG0989|consensus 86.7 0.82 1.8E-05 50.7 4.6 39 443-481 40-80 (346)
138 PF01695 IstB_IS21: IstB-like 86.0 1.3 2.8E-05 45.7 5.6 50 435-484 22-73 (178)
139 PF05673 DUF815: Protein of un 85.6 6.8 0.00015 42.6 10.8 68 440-511 31-102 (249)
140 PF06309 Torsin: Torsin; Inte 85.4 4.4 9.5E-05 39.6 8.4 54 459-512 52-111 (127)
141 KOG0351|consensus 85.4 0.33 7.2E-06 61.8 1.0 46 433-482 258-303 (941)
142 KOG0389|consensus 85.0 0.65 1.4E-05 56.9 3.1 67 57-124 464-541 (941)
143 PRK13894 conjugal transfer ATP 84.9 1.8 3.9E-05 49.0 6.4 38 442-483 135-172 (319)
144 cd00046 DEXDc DEAD-like helica 84.5 0.48 1E-05 44.6 1.4 44 76-121 74-117 (144)
145 PF13177 DNA_pol3_delta2: DNA 84.2 5.1 0.00011 40.6 8.8 41 443-483 1-44 (162)
146 KOG4284|consensus 84.1 0.63 1.4E-05 55.7 2.4 73 437-514 45-117 (980)
147 PRK13103 secA preprotein trans 84.1 1.7 3.7E-05 54.9 6.2 67 440-516 83-149 (913)
148 PF01078 Mg_chelatase: Magnesi 84.1 0.89 1.9E-05 48.1 3.3 33 443-475 7-39 (206)
149 PF12340 DUF3638: Protein of u 83.9 2.2 4.9E-05 45.8 6.2 69 440-513 24-92 (229)
150 PRK06835 DNA replication prote 83.7 2.4 5.3E-05 48.2 6.8 54 440-497 161-218 (329)
151 PF04851 ResIII: Type III rest 83.3 0.48 1.1E-05 47.7 1.0 56 68-123 98-162 (184)
152 KOG0327|consensus 83.2 0.66 1.4E-05 52.6 2.0 46 434-483 43-88 (397)
153 PRK13407 bchI magnesium chelat 82.8 0.94 2E-05 51.5 3.1 40 435-475 5-46 (334)
154 smart00382 AAA ATPases associa 82.4 0.99 2.2E-05 42.3 2.7 22 458-479 2-23 (148)
155 PRK12402 replication factor C 82.4 1.3 2.9E-05 49.7 4.2 37 443-479 19-57 (337)
156 PF07517 SecA_DEAD: SecA DEAD- 82.3 3.5 7.7E-05 45.4 7.2 67 440-516 78-144 (266)
157 COG0556 UvrB Helicase subunit 82.2 2.9 6.2E-05 49.6 6.7 72 435-514 9-81 (663)
158 KOG0991|consensus 82.2 1.8 3.8E-05 46.4 4.5 39 446-484 34-74 (333)
159 KOG0352|consensus 81.9 2.5 5.3E-05 48.7 5.8 27 455-481 33-59 (641)
160 COG1110 Reverse gyrase [DNA re 81.7 4 8.7E-05 51.8 8.0 68 440-515 83-150 (1187)
161 CHL00122 secA preprotein trans 81.7 2.8 6E-05 52.8 6.8 67 440-516 77-143 (870)
162 PF12775 AAA_7: P-loop contain 81.6 1.6 3.4E-05 48.4 4.2 38 440-477 15-52 (272)
163 PRK11331 5-methylcytosine-spec 81.1 3.2 6.9E-05 49.0 6.6 29 447-475 183-211 (459)
164 PRK07993 DNA polymerase III su 81.0 11 0.00023 43.1 10.7 44 440-483 3-49 (334)
165 COG1474 CDC6 Cdc6-related prot 80.3 1.9 4.2E-05 49.7 4.5 39 440-478 21-62 (366)
166 PLN03025 replication factor C 80.2 1.9 4E-05 48.7 4.3 37 443-479 17-55 (319)
167 PRK06871 DNA polymerase III su 80.2 7.2 0.00016 44.3 9.0 44 440-483 3-49 (325)
168 COG2805 PilT Tfp pilus assembl 80.0 2.7 5.9E-05 46.7 5.2 47 440-487 106-153 (353)
169 COG1202 Superfamily II helicas 79.6 2 4.3E-05 51.2 4.2 72 438-515 215-286 (830)
170 COG1198 PriA Primosomal protei 79.5 5.7 0.00012 49.6 8.4 69 441-513 200-268 (730)
171 PF01580 FtsK_SpoIIIE: FtsK/Sp 79.2 2.5 5.5E-05 44.2 4.7 40 457-496 37-76 (205)
172 PF06745 KaiC: KaiC; InterPro 78.6 4 8.6E-05 43.4 6.0 51 457-512 18-69 (226)
173 PRK06090 DNA polymerase III su 78.3 18 0.00039 41.0 11.3 43 440-482 4-49 (319)
174 KOG0329|consensus 77.9 3.4 7.3E-05 44.6 5.0 74 440-518 65-138 (387)
175 PF05970 PIF1: PIF1-like helic 77.7 4.4 9.5E-05 46.7 6.4 55 441-499 3-59 (364)
176 PRK08181 transposase; Validate 77.4 6.2 0.00013 43.6 7.2 35 442-476 90-124 (269)
177 TIGR02928 orc1/cdc6 family rep 77.2 7.4 0.00016 44.4 8.1 41 441-482 20-63 (365)
178 PRK13900 type IV secretion sys 77.0 2.3 5.1E-05 48.4 3.8 39 444-483 146-184 (332)
179 PF09848 DUF2075: Uncharacteri 76.9 3.5 7.5E-05 47.2 5.3 52 459-512 2-53 (352)
180 PRK11131 ATP-dependent RNA hel 76.8 4 8.6E-05 53.9 6.3 61 448-512 79-144 (1294)
181 COG2804 PulE Type II secretory 76.7 3.2 6.9E-05 49.2 4.9 30 457-487 257-286 (500)
182 cd01124 KaiC KaiC is a circadi 76.7 5.3 0.00011 40.7 6.1 26 461-486 2-27 (187)
183 KOG0951|consensus 76.5 8.2 0.00018 50.0 8.5 63 449-511 315-385 (1674)
184 TIGR00631 uvrb excinuclease AB 76.4 6.9 0.00015 48.7 8.0 73 434-514 5-78 (655)
185 PRK06526 transposase; Provisio 76.4 3.3 7E-05 45.4 4.6 27 455-481 95-121 (254)
186 KOG0389|consensus 76.3 2.5 5.5E-05 52.0 3.9 68 713-781 465-543 (941)
187 TIGR01650 PD_CobS cobaltochela 76.3 2.9 6.4E-05 47.3 4.3 31 447-477 53-83 (327)
188 TIGR02030 BchI-ChlI magnesium 76.2 3.5 7.5E-05 47.1 5.0 44 435-479 1-46 (337)
189 PRK13851 type IV secretion sys 75.9 2.3 4.9E-05 48.7 3.4 29 446-474 150-178 (344)
190 KOG0353|consensus 75.9 2.7 5.8E-05 47.4 3.8 52 435-496 90-141 (695)
191 PRK13833 conjugal transfer pro 75.9 2.4 5.2E-05 48.1 3.5 38 442-483 131-168 (323)
192 KOG0391|consensus 75.9 3.9 8.4E-05 52.3 5.4 61 59-123 683-753 (1958)
193 TIGR02782 TrbB_P P-type conjug 75.3 2.5 5.4E-05 47.4 3.4 36 449-485 123-158 (299)
194 COG0606 Predicted ATPase with 75.3 2.4 5.3E-05 49.8 3.4 32 443-474 183-214 (490)
195 PF02399 Herpes_ori_bp: Origin 75.2 4 8.8E-05 51.0 5.4 52 457-511 48-99 (824)
196 PF00270 DEAD: DEAD/DEAH box h 75.1 1.3 2.9E-05 44.0 1.1 40 80-121 94-133 (169)
197 smart00487 DEXDc DEAD-like hel 75.0 1.8 3.9E-05 43.5 2.0 50 70-121 93-143 (201)
198 PRK14955 DNA polymerase III su 74.7 3.5 7.5E-05 48.1 4.6 37 443-479 20-59 (397)
199 PF00448 SRP54: SRP54-type pro 74.7 4.9 0.00011 42.2 5.3 26 460-485 3-28 (196)
200 TIGR02524 dot_icm_DotB Dot/Icm 74.5 5.7 0.00012 45.7 6.2 28 457-485 133-160 (358)
201 PF00437 T2SE: Type II/IV secr 74.5 2.9 6.3E-05 45.8 3.7 39 447-486 116-154 (270)
202 PRK12902 secA preprotein trans 74.5 7.4 0.00016 49.3 7.4 41 440-486 86-126 (939)
203 PRK14961 DNA polymerase III su 74.4 3.6 7.8E-05 47.4 4.6 37 443-479 20-59 (363)
204 KOG0947|consensus 74.2 6.4 0.00014 49.7 6.6 75 432-515 291-365 (1248)
205 TIGR02880 cbbX_cfxQ probable R 74.1 4.4 9.5E-05 45.1 5.0 18 458-475 58-75 (284)
206 COG2256 MGS1 ATPase related to 73.2 7.3 0.00016 45.0 6.4 67 443-514 28-100 (436)
207 COG1419 FlhF Flagellar GTP-bin 73.1 7.8 0.00017 45.0 6.7 41 458-499 203-243 (407)
208 PF00158 Sigma54_activat: Sigm 73.0 3.9 8.5E-05 41.8 4.0 30 445-474 9-38 (168)
209 cd00984 DnaB_C DnaB helicase C 72.9 3.4 7.4E-05 44.2 3.7 41 454-497 9-49 (242)
210 KOG0948|consensus 72.9 6 0.00013 48.6 5.9 72 434-514 125-196 (1041)
211 PF07726 AAA_3: ATPase family 72.6 1.9 4.1E-05 42.2 1.4 20 460-479 1-20 (131)
212 PRK09183 transposase/IS protei 72.4 5.5 0.00012 43.7 5.2 25 455-479 99-123 (259)
213 TIGR03420 DnaA_homol_Hda DnaA 72.3 4.8 0.0001 42.5 4.6 35 443-477 21-57 (226)
214 cd01130 VirB11-like_ATPase Typ 71.8 4.1 8.9E-05 42.1 3.8 30 442-474 12-41 (186)
215 PRK06921 hypothetical protein; 71.7 12 0.00027 41.2 7.7 38 457-497 116-153 (266)
216 PRK14952 DNA polymerase III su 71.6 4 8.6E-05 50.0 4.2 39 443-481 17-58 (584)
217 PRK14962 DNA polymerase III su 71.6 4.3 9.4E-05 48.4 4.5 37 443-479 18-57 (472)
218 PRK14956 DNA polymerase III su 71.6 4.3 9.4E-05 48.3 4.4 38 443-480 22-62 (484)
219 COG1223 Predicted ATPase (AAA+ 71.6 2.1 4.5E-05 46.6 1.6 17 458-474 151-167 (368)
220 PRK05707 DNA polymerase III su 71.5 18 0.0004 41.1 9.3 43 440-483 4-47 (328)
221 PF00176 SNF2_N: SNF2 family N 71.4 15 0.00033 40.0 8.5 70 443-513 1-80 (299)
222 PF13401 AAA_22: AAA domain; P 71.3 2.2 4.8E-05 40.7 1.6 20 457-476 3-22 (131)
223 PRK06645 DNA polymerase III su 71.3 4.4 9.4E-05 48.8 4.4 40 443-482 25-67 (507)
224 PRK07952 DNA replication prote 70.5 12 0.00027 40.7 7.3 51 442-496 79-133 (244)
225 TIGR01967 DEAH_box_HrpA ATP-de 70.5 6.9 0.00015 51.8 6.2 33 448-482 72-104 (1283)
226 TIGR03877 thermo_KaiC_1 KaiC d 70.2 8.9 0.00019 41.3 6.2 50 457-511 20-69 (237)
227 PRK00411 cdc6 cell division co 70.1 16 0.00034 42.2 8.6 39 441-479 35-76 (394)
228 TIGR03015 pepcterm_ATPase puta 69.8 7 0.00015 42.4 5.3 37 440-476 24-61 (269)
229 PRK08533 flagellar accessory p 69.5 8.8 0.00019 41.3 5.9 50 457-511 23-72 (230)
230 PRK10875 recD exonuclease V su 69.4 16 0.00034 45.3 8.6 67 441-511 154-220 (615)
231 PRK05298 excinuclease ABC subu 69.3 13 0.00027 46.4 8.0 71 435-513 9-80 (652)
232 PRK12377 putative replication 69.1 14 0.0003 40.4 7.3 37 442-478 81-121 (248)
233 TIGR00635 ruvB Holliday juncti 68.9 6.1 0.00013 43.9 4.7 35 443-477 8-49 (305)
234 PRK10436 hypothetical protein; 68.8 6.5 0.00014 46.8 5.1 28 457-485 217-244 (462)
235 COG0630 VirB11 Type IV secreto 68.8 7.3 0.00016 44.0 5.3 40 440-483 128-167 (312)
236 TIGR02881 spore_V_K stage V sp 68.5 6.2 0.00013 43.1 4.6 20 459-478 43-62 (261)
237 PRK14958 DNA polymerase III su 68.5 5.1 0.00011 48.3 4.2 37 443-479 20-59 (509)
238 PF13191 AAA_16: AAA ATPase do 68.2 2.3 5E-05 43.0 1.0 35 441-475 5-41 (185)
239 COG1643 HrpA HrpA-like helicas 67.9 4.2 9.1E-05 51.6 3.4 35 446-480 53-87 (845)
240 TIGR01447 recD exodeoxyribonuc 67.9 16 0.00036 44.8 8.4 65 442-510 148-213 (586)
241 PRK05342 clpX ATP-dependent pr 67.9 4.8 0.0001 47.2 3.7 18 458-475 108-125 (412)
242 PF07728 AAA_5: AAA domain (dy 67.7 3.8 8.3E-05 39.8 2.4 17 460-476 1-17 (139)
243 TIGR00764 lon_rel lon-related 67.5 6.3 0.00014 48.6 4.7 35 443-477 22-56 (608)
244 TIGR00382 clpX endopeptidase C 67.4 5.1 0.00011 46.9 3.8 34 443-476 81-134 (413)
245 PRK08939 primosomal protein Dn 67.3 15 0.00033 41.3 7.4 41 443-483 135-181 (306)
246 TIGR02902 spore_lonB ATP-depen 67.0 4.8 0.0001 48.9 3.5 33 443-475 69-103 (531)
247 PRK00080 ruvB Holliday junctio 66.6 6.3 0.00014 44.6 4.3 36 443-478 29-71 (328)
248 TIGR00390 hslU ATP-dependent p 66.2 7.1 0.00015 45.7 4.5 32 443-474 16-63 (441)
249 TIGR03346 chaperone_ClpB ATP-d 66.2 8.5 0.00018 49.5 5.7 32 443-474 569-611 (852)
250 PTZ00112 origin recognition co 66.2 6.8 0.00015 49.7 4.6 48 429-479 751-802 (1164)
251 PRK00440 rfc replication facto 65.9 6.8 0.00015 43.6 4.3 36 443-478 21-58 (319)
252 PRK14963 DNA polymerase III su 65.9 6.4 0.00014 47.4 4.3 39 443-481 18-59 (504)
253 PF14532 Sigma54_activ_2: Sigm 65.8 8 0.00017 37.8 4.3 29 446-474 9-37 (138)
254 CHL00181 cbbX CbbX; Provisiona 65.7 8.6 0.00019 42.9 5.0 23 458-480 59-81 (287)
255 COG0470 HolB ATPase involved i 65.6 7.4 0.00016 43.3 4.5 43 441-483 4-49 (325)
256 COG1200 RecG RecG-like helicas 65.1 18 0.00039 44.5 7.8 76 435-515 259-336 (677)
257 PF00308 Bac_DnaA: Bacterial d 65.1 13 0.00028 39.6 6.1 36 460-497 36-71 (219)
258 PRK14960 DNA polymerase III su 64.8 6.9 0.00015 48.3 4.3 39 443-481 19-60 (702)
259 PF13481 AAA_25: AAA domain; P 64.6 15 0.00033 37.6 6.3 45 457-501 31-81 (193)
260 KOG0744|consensus 64.4 4.6 9.9E-05 45.4 2.4 24 457-482 176-199 (423)
261 PF06777 DUF1227: Protein of u 64.2 11 0.00024 37.8 4.8 48 805-852 3-50 (146)
262 PRK14969 DNA polymerase III su 64.2 7.2 0.00016 47.3 4.3 37 443-479 20-59 (527)
263 TIGR02525 plasmid_TraJ plasmid 64.0 12 0.00026 43.4 5.8 30 456-486 147-176 (372)
264 PRK14954 DNA polymerase III su 64.0 7.4 0.00016 48.0 4.4 37 443-479 20-59 (620)
265 PRK10919 ATP-dependent DNA hel 63.7 15 0.00032 46.0 7.0 59 440-505 3-62 (672)
266 PF05729 NACHT: NACHT domain 63.3 10 0.00023 37.2 4.7 28 460-487 2-29 (166)
267 PRK04914 ATP-dependent helicas 63.2 5.2 0.00011 51.7 3.0 38 81-120 247-285 (956)
268 TIGR02538 type_IV_pilB type IV 63.2 9.6 0.00021 46.6 5.2 39 442-484 302-341 (564)
269 PLN03142 Probable chromatin-re 63.2 15 0.00032 48.0 6.9 71 439-512 169-240 (1033)
270 PRK14722 flhF flagellar biosyn 62.8 8.4 0.00018 44.6 4.3 29 457-485 136-164 (374)
271 PRK08058 DNA polymerase III su 62.7 55 0.0012 37.2 10.9 38 442-479 9-49 (329)
272 PRK13342 recombination factor 62.6 6.1 0.00013 46.3 3.3 35 443-477 16-55 (413)
273 PRK04328 hypothetical protein; 62.4 15 0.00033 39.9 6.1 50 457-512 22-72 (249)
274 PRK14950 DNA polymerase III su 62.3 7.5 0.00016 47.8 4.1 37 443-479 20-59 (585)
275 TIGR02759 TraD_Ftype type IV c 62.3 11 0.00023 46.3 5.3 30 457-487 175-204 (566)
276 TIGR02785 addA_Gpos recombinat 62.1 17 0.00037 48.7 7.5 57 440-503 2-58 (1232)
277 PRK14957 DNA polymerase III su 62.0 8.7 0.00019 46.7 4.5 37 443-479 20-59 (546)
278 TIGR01448 recD_rel helicase, p 61.8 22 0.00047 44.9 8.1 61 440-506 324-384 (720)
279 PRK14949 DNA polymerase III su 61.6 8.3 0.00018 49.1 4.2 37 443-479 20-59 (944)
280 PRK06067 flagellar accessory p 61.5 18 0.00038 38.7 6.3 51 457-512 24-74 (234)
281 TIGR02768 TraA_Ti Ti-type conj 61.5 16 0.00035 46.3 6.8 57 440-503 353-409 (744)
282 TIGR03881 KaiC_arch_4 KaiC dom 61.4 16 0.00035 38.8 5.9 29 457-485 19-47 (229)
283 COG1484 DnaC DNA replication p 61.4 23 0.0005 38.7 7.3 35 449-483 96-130 (254)
284 COG1219 ClpX ATP-dependent pro 61.3 4.5 9.7E-05 45.3 1.7 27 457-485 96-122 (408)
285 cd01122 GP4d_helicase GP4d_hel 61.3 8.8 0.00019 41.9 4.0 40 455-497 27-66 (271)
286 PF00176 SNF2_N: SNF2 family N 61.3 3.5 7.6E-05 45.1 0.9 61 57-119 74-146 (299)
287 PRK09111 DNA polymerase III su 61.2 8.8 0.00019 47.2 4.3 39 443-481 28-69 (598)
288 PRK13765 ATP-dependent proteas 61.1 9.3 0.0002 47.3 4.6 35 443-477 35-69 (637)
289 KOG1805|consensus 60.2 15 0.00033 46.5 6.1 65 442-513 672-736 (1100)
290 COG4098 comFA Superfamily II D 59.9 19 0.0004 40.9 6.1 44 443-487 101-144 (441)
291 PRK05973 replicative DNA helic 59.7 15 0.00032 39.9 5.3 32 454-485 60-91 (237)
292 CHL00081 chlI Mg-protoporyphyr 59.5 6.2 0.00013 45.2 2.5 41 433-474 12-54 (350)
293 PRK12323 DNA polymerase III su 59.5 9.7 0.00021 47.0 4.2 37 443-479 20-59 (700)
294 TIGR02974 phageshock_pspF psp 59.5 18 0.00039 41.2 6.2 53 446-500 10-62 (329)
295 PRK05201 hslU ATP-dependent pr 59.1 12 0.00026 44.0 4.7 31 443-473 19-65 (443)
296 TIGR03880 KaiC_arch_3 KaiC dom 59.0 21 0.00046 37.8 6.3 51 457-512 15-65 (224)
297 PRK08691 DNA polymerase III su 58.9 10 0.00022 47.1 4.3 38 443-480 20-60 (709)
298 PRK15429 formate hydrogenlyase 58.8 18 0.0004 45.3 6.7 51 447-499 388-438 (686)
299 PF00004 AAA: ATPase family as 58.7 7.9 0.00017 36.6 2.8 17 461-477 1-17 (132)
300 TIGR02655 circ_KaiC circadian 58.7 15 0.00033 44.1 5.7 51 457-512 262-312 (484)
301 TIGR02397 dnaX_nterm DNA polym 58.6 10 0.00022 43.0 4.1 39 443-481 18-59 (355)
302 PRK12903 secA preprotein trans 58.4 23 0.0005 45.0 7.2 36 440-481 79-114 (925)
303 PRK05896 DNA polymerase III su 58.4 9.8 0.00021 46.6 4.0 39 443-481 20-61 (605)
304 PRK14964 DNA polymerase III su 58.3 10 0.00022 45.5 4.1 38 443-480 17-57 (491)
305 TIGR02788 VirB11 P-type DNA tr 58.2 9.6 0.00021 42.9 3.7 29 447-475 133-161 (308)
306 TIGR01074 rep ATP-dependent DN 58.1 21 0.00044 44.6 7.0 64 441-510 3-66 (664)
307 KOG0745|consensus 57.9 16 0.00034 42.8 5.2 49 457-512 225-281 (564)
308 PRK11773 uvrD DNA-dependent he 57.9 21 0.00045 45.1 7.0 64 440-510 10-74 (721)
309 KOG0923|consensus 57.9 6.2 0.00013 47.9 2.2 26 449-474 271-296 (902)
310 PRK14948 DNA polymerase III su 57.8 11 0.00023 46.8 4.3 40 443-482 20-62 (620)
311 TIGR02639 ClpA ATP-dependent C 57.6 10 0.00022 47.9 4.2 31 443-473 458-499 (731)
312 PRK07003 DNA polymerase III su 57.4 11 0.00023 47.3 4.2 37 443-479 20-59 (830)
313 PF02367 UPF0079: Uncharacteri 57.3 8.1 0.00018 37.6 2.5 28 446-473 3-30 (123)
314 TIGR03878 thermo_KaiC_2 KaiC d 56.8 13 0.00029 40.6 4.4 29 457-485 35-63 (259)
315 PRK10590 ATP-dependent RNA hel 56.7 5.6 0.00012 47.2 1.6 41 79-121 123-163 (456)
316 PRK11034 clpA ATP-dependent Cl 56.7 11 0.00024 47.7 4.2 33 443-475 462-505 (758)
317 PRK06305 DNA polymerase III su 56.6 12 0.00027 44.4 4.5 40 443-482 21-63 (451)
318 PRK11608 pspF phage shock prot 56.4 12 0.00027 42.4 4.2 56 442-499 13-68 (326)
319 PRK10865 protein disaggregatio 56.2 10 0.00022 48.7 3.9 34 443-476 572-616 (857)
320 TIGR00150 HI0065_YjeE ATPase, 56.1 9.2 0.0002 37.7 2.7 28 446-473 10-37 (133)
321 TIGR02533 type_II_gspE general 56.0 14 0.0003 44.4 4.7 33 451-484 234-267 (486)
322 PHA02533 17 large terminase pr 55.9 40 0.00087 41.0 8.7 75 435-516 56-130 (534)
323 cd00268 DEADc DEAD-box helicas 55.8 7.3 0.00016 40.3 2.1 38 81-120 119-156 (203)
324 PRK07994 DNA polymerase III su 55.6 12 0.00027 46.2 4.3 38 443-480 20-60 (647)
325 COG1202 Superfamily II helicas 55.5 8.1 0.00018 46.3 2.5 41 79-122 313-353 (830)
326 COG0467 RAD55 RecA-superfamily 55.5 14 0.00031 40.1 4.5 44 455-501 20-63 (260)
327 KOG0729|consensus 55.5 10 0.00023 41.4 3.2 34 442-475 183-228 (435)
328 PRK09361 radB DNA repair and r 55.3 14 0.0003 39.2 4.2 29 457-485 22-50 (225)
329 PF05496 RuvB_N: Holliday junc 55.3 9 0.00019 41.2 2.7 33 441-473 26-65 (233)
330 PRK13889 conjugal transfer rel 55.3 24 0.00052 45.9 6.9 59 440-505 347-405 (988)
331 PF05872 DUF853: Bacterial pro 55.1 5.2 0.00011 46.9 0.9 29 457-485 18-46 (502)
332 TIGR03499 FlhF flagellar biosy 54.9 27 0.00059 38.7 6.6 28 457-484 193-220 (282)
333 cd01129 PulE-GspE PulE/GspE Th 54.8 15 0.00033 40.4 4.5 33 451-484 72-105 (264)
334 KOG1807|consensus 54.8 17 0.00037 45.0 5.1 29 457-485 392-420 (1025)
335 PRK14953 DNA polymerase III su 54.7 14 0.00029 44.5 4.4 37 443-479 20-59 (486)
336 TIGR01075 uvrD DNA helicase II 54.5 23 0.00051 44.6 6.7 59 440-505 5-64 (715)
337 PRK05564 DNA polymerase III su 54.4 69 0.0015 35.9 9.8 39 443-481 8-49 (313)
338 COG1222 RPT1 ATP-dependent 26S 54.4 7.3 0.00016 44.4 1.9 16 458-473 185-200 (406)
339 TIGR02688 conserved hypothetic 54.3 22 0.00047 41.9 5.7 35 443-477 194-228 (449)
340 PRK09112 DNA polymerase III su 53.9 15 0.00033 42.2 4.5 37 443-479 27-66 (351)
341 COG2519 GCD14 tRNA(1-methylade 53.6 1.2E+02 0.0026 33.3 10.8 50 457-513 93-142 (256)
342 PRK07133 DNA polymerase III su 53.4 13 0.00029 46.4 4.1 38 443-480 22-62 (725)
343 PRK07940 DNA polymerase III su 52.6 16 0.00036 42.6 4.5 39 443-481 9-59 (394)
344 cd01131 PilT Pilus retraction 52.6 20 0.00044 37.4 4.9 26 459-485 2-27 (198)
345 PF12846 AAA_10: AAA-like doma 52.6 13 0.00029 40.5 3.6 28 458-485 1-28 (304)
346 PRK08903 DnaA regulatory inact 52.4 11 0.00024 39.9 2.9 28 447-474 28-58 (227)
347 PRK05563 DNA polymerase III su 52.3 16 0.00035 44.6 4.6 41 443-483 20-63 (559)
348 cd01120 RecA-like_NTPases RecA 52.1 20 0.00044 34.8 4.6 25 460-484 1-25 (165)
349 TIGR01817 nifA Nif-specific re 51.8 13 0.00028 45.1 3.6 52 446-499 207-258 (534)
350 PRK12723 flagellar biosynthesi 51.6 34 0.00074 39.9 6.9 26 458-483 174-199 (388)
351 PRK08116 hypothetical protein; 51.3 43 0.00094 36.9 7.4 26 459-485 115-140 (268)
352 PRK14970 DNA polymerase III su 51.2 17 0.00036 41.8 4.3 40 443-483 21-63 (367)
353 TIGR02237 recomb_radB DNA repa 51.2 21 0.00045 37.3 4.7 29 457-485 11-39 (209)
354 PRK07764 DNA polymerase III su 51.1 16 0.00034 46.8 4.3 40 443-482 19-61 (824)
355 PRK14951 DNA polymerase III su 51.0 17 0.00036 45.0 4.4 37 443-479 20-59 (618)
356 KOG4439|consensus 50.9 4.9 0.00011 49.0 -0.2 40 79-121 429-477 (901)
357 COG1221 PspF Transcriptional r 50.9 11 0.00024 44.0 2.6 21 457-477 100-120 (403)
358 TIGR01420 pilT_fam pilus retra 50.5 17 0.00037 41.5 4.2 27 457-484 121-147 (343)
359 PF02534 T4SS-DNA_transf: Type 50.4 6.4 0.00014 46.7 0.7 22 459-480 45-66 (469)
360 PRK14965 DNA polymerase III su 50.3 17 0.00036 44.7 4.3 38 443-480 20-60 (576)
361 PRK13764 ATPase; Provisional 50.2 20 0.00044 44.0 4.9 29 456-485 255-283 (602)
362 PRK04296 thymidine kinase; Pro 50.2 19 0.0004 37.5 4.1 28 458-485 2-29 (190)
363 PRK10263 DNA translocase FtsK; 50.1 37 0.00081 45.0 7.4 36 457-492 1009-1044(1355)
364 PTZ00361 26 proteosome regulat 49.9 20 0.00043 42.5 4.6 20 458-477 217-236 (438)
365 PRK06647 DNA polymerase III su 49.6 16 0.00036 44.6 4.0 40 443-482 20-62 (563)
366 TIGR03819 heli_sec_ATPase heli 49.6 17 0.00036 41.7 3.9 37 442-482 165-201 (340)
367 KOG0742|consensus 49.5 8.6 0.00019 44.4 1.5 52 459-515 385-436 (630)
368 TIGR02442 Cob-chelat-sub cobal 49.4 15 0.00033 45.6 3.8 40 435-475 1-42 (633)
369 cd01126 TraG_VirD4 The TraG/Tr 49.1 4.9 0.00011 46.5 -0.5 22 460-481 1-22 (384)
370 PRK12900 secA preprotein trans 49.0 19 0.00042 46.2 4.6 40 440-485 139-178 (1025)
371 TIGR03263 guanyl_kin guanylate 48.9 9.5 0.00021 38.7 1.6 16 458-473 1-16 (180)
372 KOG0385|consensus 48.7 11 0.00024 46.6 2.3 59 57-119 233-301 (971)
373 PRK05703 flhF flagellar biosyn 48.4 21 0.00046 42.1 4.6 27 457-483 220-246 (424)
374 CHL00095 clpC Clp protease ATP 48.1 17 0.00038 46.5 4.1 31 443-473 513-554 (821)
375 PRK13826 Dtr system oriT relax 48.0 44 0.00095 44.0 7.6 61 440-507 382-442 (1102)
376 PRK07471 DNA polymerase III su 47.8 26 0.00056 40.5 5.1 41 443-483 23-66 (365)
377 COG5271 MDN1 AAA ATPase contai 47.7 20 0.00043 48.3 4.3 37 443-479 873-909 (4600)
378 KOG0922|consensus 47.7 16 0.00035 44.6 3.4 29 446-474 54-82 (674)
379 COG4962 CpaF Flp pilus assembl 47.7 17 0.00036 41.5 3.4 41 439-483 157-197 (355)
380 cd03115 SRP The signal recogni 47.5 25 0.00054 35.5 4.5 26 460-485 2-27 (173)
381 PF01745 IPT: Isopentenyl tran 47.4 12 0.00027 39.8 2.2 20 460-479 3-22 (233)
382 TIGR03238 dnd_assoc_3 dnd syst 47.4 11 0.00024 44.8 2.0 73 440-517 11-87 (504)
383 PRK04195 replication factor C 47.1 20 0.00043 43.0 4.2 20 458-477 39-58 (482)
384 PRK08727 hypothetical protein; 46.9 44 0.00095 35.9 6.4 35 459-497 42-76 (233)
385 smart00763 AAA_PrkA PrkA AAA d 46.8 46 0.00099 38.4 6.8 34 442-475 58-95 (361)
386 PTZ00424 helicase 45; Provisio 46.8 11 0.00023 43.7 1.8 40 80-121 145-184 (401)
387 PLN03142 Probable chromatin-re 46.7 8.4 0.00018 50.1 1.0 37 81-121 269-305 (1033)
388 PRK12901 secA preprotein trans 46.6 24 0.00052 45.6 4.8 40 440-485 170-209 (1112)
389 PF13872 AAA_34: P-loop contai 45.9 7.7 0.00017 43.4 0.4 64 59-122 110-187 (303)
390 PRK04537 ATP-dependent RNA hel 45.8 11 0.00025 46.1 1.9 50 71-121 123-173 (572)
391 PRK08084 DNA replication initi 45.5 21 0.00046 38.4 3.7 30 445-474 30-61 (235)
392 KOG0920|consensus 45.5 45 0.00097 42.8 6.9 54 447-502 177-232 (924)
393 KOG1806|consensus 45.3 35 0.00076 43.7 5.8 76 434-513 727-806 (1320)
394 PRK14087 dnaA chromosomal repl 45.1 44 0.00095 39.8 6.6 37 459-497 142-178 (450)
395 PF06068 TIP49: TIP49 C-termin 45.0 29 0.00062 40.1 4.7 31 443-473 31-65 (398)
396 PRK11192 ATP-dependent RNA hel 44.9 14 0.00031 43.3 2.6 51 69-121 110-161 (434)
397 cd01125 repA Hexameric Replica 44.8 43 0.00092 36.0 5.9 26 458-483 1-26 (239)
398 PRK14959 DNA polymerase III su 44.7 23 0.0005 43.7 4.3 39 443-481 20-61 (624)
399 PF07724 AAA_2: AAA domain (Cd 44.7 12 0.00026 38.4 1.6 15 459-473 4-18 (171)
400 PRK12727 flagellar biosynthesi 44.7 24 0.00053 42.6 4.3 30 456-485 348-377 (559)
401 PHA02544 44 clamp loader, smal 44.7 24 0.00051 39.4 4.1 35 443-477 25-62 (316)
402 PRK13766 Hef nuclease; Provisi 44.4 13 0.00028 47.3 2.1 42 77-120 103-144 (773)
403 PF13238 AAA_18: AAA domain; P 44.4 11 0.00025 35.3 1.3 13 461-473 1-13 (129)
404 TIGR00678 holB DNA polymerase 44.4 26 0.00056 36.0 4.1 29 450-478 3-34 (188)
405 PRK03992 proteasome-activating 44.3 16 0.00034 42.6 2.7 16 459-474 166-181 (389)
406 PRK09302 circadian clock prote 44.1 39 0.00084 40.8 6.1 51 457-511 30-80 (509)
407 CHL00176 ftsH cell division pr 43.9 21 0.00045 44.4 3.7 17 459-475 217-233 (638)
408 COG0542 clpA ATP-binding subun 43.8 18 0.00039 45.5 3.2 31 443-473 495-536 (786)
409 PRK13341 recombination factor 43.8 23 0.0005 44.6 4.2 35 443-477 32-71 (725)
410 TIGR01073 pcrA ATP-dependent D 43.8 46 0.00099 42.1 6.9 56 440-501 5-60 (726)
411 PRK14729 miaA tRNA delta(2)-is 43.8 14 0.00031 41.5 2.1 21 457-477 3-23 (300)
412 PF13207 AAA_17: AAA domain; P 43.7 12 0.00025 35.2 1.3 13 461-473 2-14 (121)
413 PF03796 DnaB_C: DnaB-like hel 43.7 24 0.00053 38.3 3.9 43 454-499 15-57 (259)
414 PRK06893 DNA replication initi 43.5 58 0.0013 34.9 6.7 38 446-483 25-64 (229)
415 PRK07399 DNA polymerase III su 43.4 29 0.00064 39.2 4.6 41 443-483 8-51 (314)
416 PRK13897 type IV secretion sys 43.3 8.7 0.00019 47.3 0.4 25 458-482 158-182 (606)
417 cd01127 TrwB Bacterial conjuga 43.2 29 0.00062 40.7 4.6 29 457-486 41-69 (410)
418 PF13173 AAA_14: AAA domain 43.1 20 0.00042 34.6 2.7 23 457-479 1-23 (128)
419 PRK05022 anaerobic nitric oxid 42.9 22 0.00047 43.0 3.6 29 446-474 198-226 (509)
420 PRK13850 type IV secretion sys 42.8 10 0.00022 47.2 0.9 25 457-481 138-162 (670)
421 PF02562 PhoH: PhoH-like prote 42.7 21 0.00045 37.9 3.0 39 728-775 94-132 (205)
422 KOG0731|consensus 42.5 16 0.00036 45.6 2.5 18 459-476 345-362 (774)
423 PRK13876 conjugal transfer cou 42.0 10 0.00022 47.2 0.6 25 457-481 143-167 (663)
424 KOG0738|consensus 42.0 13 0.00028 42.8 1.4 15 459-473 246-260 (491)
425 TIGR01242 26Sp45 26S proteasom 41.8 29 0.00064 39.8 4.4 17 459-475 157-173 (364)
426 TIGR01241 FtsH_fam ATP-depende 41.8 24 0.00053 42.4 3.8 17 459-475 89-105 (495)
427 KOG0743|consensus 41.7 15 0.00033 43.0 2.0 25 460-485 237-261 (457)
428 cd01394 radB RadB. The archaea 41.5 31 0.00068 36.2 4.2 29 457-485 18-46 (218)
429 PRK10820 DNA-binding transcrip 41.4 24 0.00052 42.8 3.7 30 445-474 214-243 (520)
430 COG1061 SSL2 DNA or RNA helica 41.3 18 0.00039 42.9 2.6 37 82-121 123-160 (442)
431 PRK00300 gmk guanylate kinase; 41.0 15 0.00032 38.2 1.6 17 457-473 4-20 (205)
432 cd01393 recA_like RecA is a b 40.9 52 0.0011 34.6 5.8 29 457-485 18-46 (226)
433 COG3587 Restriction endonuclea 40.8 17 0.00037 45.6 2.3 39 459-499 75-113 (985)
434 TIGR02655 circ_KaiC circadian 40.8 39 0.00084 40.6 5.3 29 457-485 20-48 (484)
435 TIGR00665 DnaB replicative DNA 40.7 25 0.00055 41.4 3.7 42 453-497 190-231 (434)
436 PRK01297 ATP-dependent RNA hel 40.6 11 0.00023 45.0 0.6 39 81-121 213-251 (475)
437 COG1224 TIP49 DNA helicase TIP 40.5 34 0.00073 39.3 4.3 29 446-474 49-81 (450)
438 PTZ00454 26S protease regulato 40.4 20 0.00044 41.9 2.8 18 458-475 179-196 (398)
439 PRK11823 DNA repair protein Ra 40.1 46 0.001 39.6 5.7 39 457-499 79-117 (446)
440 PF00931 NB-ARC: NB-ARC domain 40.1 75 0.0016 34.6 7.1 34 446-479 3-40 (287)
441 TIGR03600 phage_DnaB phage rep 39.9 30 0.00065 40.6 4.1 37 449-485 185-221 (421)
442 PRK08451 DNA polymerase III su 39.8 29 0.00063 42.2 4.0 39 443-481 18-59 (535)
443 TIGR00763 lon ATP-dependent pr 39.8 31 0.00068 43.9 4.5 18 458-475 347-364 (775)
444 PHA00729 NTP-binding motif con 39.7 37 0.0008 36.6 4.4 25 449-473 6-32 (226)
445 COG1111 MPH1 ERCC4-like helica 39.7 16 0.00034 43.4 1.6 42 76-119 102-143 (542)
446 TIGR02903 spore_lon_C ATP-depe 39.6 23 0.0005 43.9 3.2 32 443-474 158-191 (615)
447 PF13555 AAA_29: P-loop contai 39.5 18 0.00039 30.9 1.6 25 458-484 23-47 (62)
448 PTZ00110 helicase; Provisional 39.4 14 0.0003 45.1 1.3 44 76-121 248-291 (545)
449 smart00350 MCM minichromosome 39.4 24 0.00052 42.6 3.3 15 460-474 238-252 (509)
450 COG1197 Mfd Transcription-repa 39.2 97 0.0021 40.7 8.6 73 433-510 589-663 (1139)
451 PRK14088 dnaA chromosomal repl 38.9 63 0.0014 38.3 6.6 37 459-497 131-167 (440)
452 COG1875 NYN ribonuclease and A 38.4 36 0.00079 39.1 4.2 42 459-501 246-287 (436)
453 COG2607 Predicted ATPase (AAA+ 38.4 3.2E+02 0.0069 30.1 10.9 67 441-511 65-135 (287)
454 TIGR00368 Mg chelatase-related 38.3 21 0.00045 43.1 2.5 33 443-475 196-228 (499)
455 PRK04837 ATP-dependent RNA hel 38.3 16 0.00034 42.9 1.5 49 71-121 122-171 (423)
456 COG5271 MDN1 AAA ATPase contai 38.1 32 0.00069 46.6 4.0 35 440-474 1832-1866(4600)
457 PF12774 AAA_6: Hydrolytic ATP 38.1 35 0.00075 36.9 3.9 55 442-501 16-70 (231)
458 PRK06995 flhF flagellar biosyn 38.1 35 0.00075 41.0 4.2 30 457-486 255-284 (484)
459 PRK12422 chromosomal replicati 38.1 60 0.0013 38.6 6.2 35 459-497 142-176 (445)
460 PRK09302 circadian clock prote 38.0 49 0.0011 39.9 5.7 50 457-511 272-321 (509)
461 CHL00195 ycf46 Ycf46; Provisio 37.9 25 0.00055 42.2 3.1 20 458-477 259-278 (489)
462 PRK11776 ATP-dependent RNA hel 37.8 14 0.0003 43.9 0.9 41 79-121 121-161 (460)
463 TIGR00603 rad25 DNA repair hel 37.7 21 0.00047 44.8 2.5 41 81-121 343-389 (732)
464 PRK09200 preprotein translocas 37.6 35 0.00077 43.3 4.4 64 56-119 135-211 (790)
465 TIGR03345 VI_ClpV1 type VI sec 37.5 33 0.00072 44.2 4.2 33 443-475 570-613 (852)
466 PRK12726 flagellar biosynthesi 37.3 45 0.00098 38.9 4.8 28 457-484 205-232 (407)
467 PRK13880 conjugal transfer cou 37.2 9.6 0.00021 47.3 -0.6 25 457-481 174-198 (636)
468 PF13476 AAA_23: AAA domain; P 37.1 24 0.00052 35.9 2.4 27 458-486 19-45 (202)
469 PF07652 Flavi_DEAD: Flaviviru 37.0 16 0.00035 36.6 1.1 31 84-117 75-105 (148)
470 COG1875 NYN ribonuclease and A 37.0 78 0.0017 36.6 6.4 105 3-120 253-364 (436)
471 PRK11388 DNA-binding transcrip 37.0 30 0.00066 42.9 3.7 30 445-474 335-364 (638)
472 PF14516 AAA_35: AAA-like doma 36.9 63 0.0014 36.8 6.0 48 435-486 10-58 (331)
473 PLN00206 DEAD-box ATP-dependen 36.9 16 0.00034 44.2 1.2 43 77-121 242-284 (518)
474 PF01637 Arch_ATPase: Archaeal 36.6 26 0.00056 36.4 2.7 26 448-473 8-35 (234)
475 TIGR00609 recB exodeoxyribonuc 36.5 50 0.0011 43.8 5.8 44 459-502 10-54 (1087)
476 TIGR00041 DTMP_kinase thymidyl 36.3 18 0.0004 37.2 1.4 16 458-473 3-18 (195)
477 PRK06620 hypothetical protein; 36.2 19 0.00042 38.2 1.6 17 459-475 45-61 (214)
478 PRK15424 propionate catabolism 36.1 33 0.00072 41.7 3.7 28 447-474 227-258 (538)
479 TIGR02767 TraG-Ti Ti-type conj 35.9 15 0.00032 45.4 0.8 23 459-481 212-234 (623)
480 PRK13822 conjugal transfer cou 35.8 14 0.00031 45.8 0.6 24 458-481 224-247 (641)
481 KOG0349|consensus 35.8 9.4 0.0002 44.1 -0.9 39 440-482 25-63 (725)
482 TIGR00362 DnaA chromosomal rep 35.6 79 0.0017 36.9 6.7 37 459-497 137-173 (405)
483 PF03215 Rad17: Rad17 cell cyc 35.5 39 0.00085 40.9 4.2 32 448-479 28-66 (519)
484 PRK00149 dnaA chromosomal repl 35.5 81 0.0018 37.4 6.8 19 459-477 149-167 (450)
485 KOG0652|consensus 35.4 20 0.00044 39.1 1.6 17 459-475 206-222 (424)
486 PF09848 DUF2075: Uncharacteri 35.4 36 0.00077 39.0 3.7 16 106-121 82-97 (352)
487 PRK00698 tmk thymidylate kinas 35.4 19 0.00042 37.2 1.4 16 458-473 3-18 (205)
488 PF10236 DAP3: Mitochondrial r 35.2 60 0.0013 36.6 5.4 46 441-487 4-51 (309)
489 PF03237 Terminase_6: Terminas 35.1 51 0.0011 36.8 4.9 46 462-509 1-46 (384)
490 KOG0332|consensus 35.0 24 0.00052 40.4 2.1 27 459-485 130-156 (477)
491 cd00071 GMPK Guanosine monopho 34.6 22 0.00047 35.0 1.6 13 461-473 2-14 (137)
492 PRK08699 DNA polymerase III su 34.6 38 0.00082 38.5 3.7 42 441-482 3-45 (325)
493 PRK11634 ATP-dependent RNA hel 34.3 18 0.0004 44.8 1.2 43 77-121 121-163 (629)
494 KOG0734|consensus 34.3 22 0.00047 42.7 1.7 15 459-473 338-352 (752)
495 PRK10923 glnG nitrogen regulat 34.2 67 0.0015 38.0 5.9 53 445-499 148-200 (469)
496 TIGR03689 pup_AAA proteasome A 34.0 28 0.0006 42.1 2.6 17 458-474 216-232 (512)
497 TIGR02639 ClpA ATP-dependent C 33.7 35 0.00076 43.2 3.5 41 443-483 186-228 (731)
498 KOG0390|consensus 33.6 73 0.0016 40.3 6.1 50 439-488 238-293 (776)
499 COG0610 Type I site-specific r 33.4 1.1E+02 0.0024 40.0 8.0 73 440-514 249-327 (962)
500 PF13671 AAA_33: AAA domain; P 33.4 21 0.00046 34.5 1.3 13 461-473 2-14 (143)
No 1
>KOG1131|consensus
Probab=100.00 E-value=1.9e-139 Score=1147.86 Aligned_cols=625 Identities=57% Similarity=0.959 Sum_probs=592.7
Q ss_pred CCCCCchhhHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhh
Q psy11433 1 VSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAII 80 (941)
Q Consensus 1 ~~~~~~~~~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~ 80 (941)
|+++++|+.||++|++||++|+|+|...+++.+.|.||+|++. ....++.|+|++|||+++|++.++||||.+|+++.
T Consensus 121 v~~~r~g~~VD~~Cr~ltas~vr~~~~ed~~~~~C~f~en~~~--~~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~ 198 (755)
T KOG1131|consen 121 VLKERNGNVVDAACRKLTASYVRAKLAEDPNVELCDFFENLED--KESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIP 198 (755)
T ss_pred HHHHhcCCchhHHHHHHhHHHHHHHHhcCCCcchhhHHhhhhc--ccccCCcccccHHHHHHhhhcCCcChHHHHHHhhh
Confidence 5788999999999999999999999999999999999999976 45678899999999999999999999999999999
Q ss_pred cCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHHHHHHHHHHHHhHhhHHH
Q psy11433 81 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAK 160 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l~~~~~~~~rlk~~~~~~ 160 (941)
.|+|||++||||+||.+.+.++..+.++++|||||||||+++|++++|+.|+..++++|.+.|..+++.+.|+|+.+.++
T Consensus 199 ~~nvivYsYhYllDPkIa~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k~~d~~k 278 (755)
T KOG1131|consen 199 FANVIVYSYHYLLDPKIAELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRRTLERASRNLNSLEQLVNRVKETDSQK 278 (755)
T ss_pred cccEEEEehhhhcChHHHHHHHHhhCcCcEEEecccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhcchhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhcccchhhhcCCCCchhHhhhhcCCCccchhhHHHHHHHHHHHHHHHhhhhhhcccCccccccc
Q psy11433 161 LREEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTRLRVQQVVQESPATFLKD 240 (941)
Q Consensus 161 L~~~~~~l~~~l~~~~~~~~~d~~~~n~~~~~~il~e~~p~ni~~~~~f~~~l~~li~~lk~~~~~~~~~~~~~~~~~~~ 240 (941)
|+.+|++|++||+.+...+.+|.+++||++|++++.|++|||||+++||+.||++|++|+|+||++.|
T Consensus 279 l~~eY~klvegL~~~~~~~~~d~~lanPvLP~dvl~EavPGniR~aeHFv~fLkR~~ey~ktrl~~~h------------ 346 (755)
T KOG1131|consen 279 LQDEYEKLVEGLKDASAERDEDQFLANPVLPDDVLKEAVPGNIRRAEHFVSFLKRLLEYLKTRLKVHH------------ 346 (755)
T ss_pred HHHHHHHHHHHhhccccccCccchhcCCCCchhhhhhhCCcchhhHHHHHHHHHHHHHHHHHhhhhee------------
Confidence 99999999999999998999999999999999999999999999999999999999999999998765
Q ss_pred cCCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhccchhhHHhhhchhhhhhccchhhhHHHHHHHHHhhhhcccCCCch
Q psy11433 241 ISSKPAPSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIERKPLRFCAERLASLLRTLEITNLTDFSS 320 (941)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~l~f~~~rl~~l~~tl~~~~~~~~~~ 320 (941)
+++|||.+|++++.+.+||++||+|||++||.++++||++++.+||++
T Consensus 347 --------------------------------v~~Esp~sFl~~i~~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~ 394 (755)
T KOG1131|consen 347 --------------------------------VIQESPASFLKSIKSLTFIERKPLRFCAERLSSLVRTLEITDVEDFGA 394 (755)
T ss_pred --------------------------------eeccCcHHHHHHHHHhhhhhccchHHHHHHHHHHHHHhccCchhhhhH
Confidence 889999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhhcccCCceEEEEccCCCCCCCCCCCEEEEEecCccccchHHhhhccEEEEecCCCCCCCchhhhhccccc
Q psy11433 321 LVVITHLATLVSSYTKGFAIIVEPFSDKAPTVPNPVLYFCCLDSSLAIKPVFDRFQTVVITSGTLSPLDMYPKILNFQPV 400 (941)
Q Consensus 321 ~~~~~~~~~l~~~~~~gf~ii~e~~~~~~~~~~~~~L~~~cLdPs~~fk~I~~~~rSVILtSGTLsPl~~y~~~L~f~p~ 400 (941)
|..+++|+||+++|++||.+|+||+++..+++++|+|+|.|||+|+|++|||++|+|||+|||||||+++||++|+|.|+
T Consensus 395 l~~v~~faTlVstY~kGF~iIiEPfd~~~~tv~npil~~sClDaSiAikPVf~RFqsViITSGTlspldmyPk~lnf~pv 474 (755)
T KOG1131|consen 395 LKTVADFATLVSTYSKGFSIIIEPFDDRNPTVPNPILRFSCLDASIAIKPVFERFQSVIITSGTLSPLDMYPKILNFGPV 474 (755)
T ss_pred HHHHHHHHHHHHHHhcCcEEEEcccccCCCCCCCCeeEEeecccchhhhHHHHhhheEEEecCcccccccCchhhccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHH
Q psy11433 401 IMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 401 ~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al 480 (941)
.+.||+|+|+|+|++|++..
T Consensus 475 ~~~s~~mtLaR~c~~Pmiit------------------------------------------------------------ 494 (755)
T KOG1131|consen 475 VGASFTMTLARNCLLPLIIT------------------------------------------------------------ 494 (755)
T ss_pred cchhhheecccccccceeee------------------------------------------------------------
Confidence 99999999999999999981
Q ss_pred HHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecccccccccccccccchhhhhhhcccccc
Q psy11433 481 AYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLV 560 (941)
Q Consensus 481 ~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~ 560 (941)
+|++|+.+
T Consensus 495 --------------------------------------rG~Dqv~i---------------------------------- 502 (755)
T KOG1131|consen 495 --------------------------------------RGNDQVAI---------------------------------- 502 (755)
T ss_pred --------------------------------------cCCcchhh----------------------------------
Confidence 33444433
Q ss_pred ccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhc
Q psy11433 561 DIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKR 640 (941)
Q Consensus 561 ~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~ 640 (941)
++.|+.|.++.+.+++|+.+.++++.+|||++||||||.||+++++.|+.+||++++.+.
T Consensus 503 --------------------ss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~ei~k~ 562 (755)
T KOG1131|consen 503 --------------------SSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDEIMKY 562 (755)
T ss_pred --------------------hhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHHHhhC
Confidence 467889999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccchhhhhhhccc-cccCcccccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhc
Q psy11433 641 KLLFIETQDALDSRSVSKERDGK-IVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMG 719 (941)
Q Consensus 641 K~if~E~~~~~~~~~~~l~~y~~-~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g 719 (941)
|++|||++|..+++ .++++|.. |.+||||+|++| .|||+||||| |.+ ++||+ |+|
T Consensus 563 KL~fIetpD~~ETs-~al~ny~~aC~~gRGavl~sV---argkVsEgid---F~h---hyGR~-ViM------------- 618 (755)
T KOG1131|consen 563 KLLFIETPDFRETS-LALANYRYACDNGRGAVLLSV---ARGKVSEGID---FDH---HYGRE-VIM------------- 618 (755)
T ss_pred ceEEEeCCchhhhH-HHHHHHHHHhcCCCCceEEEE---ecCccccCcc---ccc---ccCce-EEE-------------
Confidence 99999999999988 99999987 999999999999 9999999999 999 99999 999
Q ss_pred hhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHH
Q psy11433 720 RELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQ 799 (941)
Q Consensus 720 ~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~ 799 (941)
.| .||......+..|.
T Consensus 619 --~g-IP~qytesriLkar------------------------------------------------------------- 634 (755)
T KOG1131|consen 619 --EG-IPYQYTESRILKAR------------------------------------------------------------- 634 (755)
T ss_pred --Ee-ccchhhHHHHHHHH-------------------------------------------------------------
Confidence 78 88877443332221
Q ss_pred HHHhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCC-----ChhhhhhcCCCceEEEechhhhccccccCC
Q psy11433 800 TLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPV-----LPDEILQGKTDYGIMIFADKRFARSDKRSK 874 (941)
Q Consensus 800 ~~~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~-----~igr~ir~~~d~~~~il~d~r~~~~~~~~k 874 (941)
++||+++++++||+++.+++| |.||++|+++|||+|||+|+||++.++++|
T Consensus 635 ------------------------le~Lrd~~~irE~dflTFDAmRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~k 690 (755)
T KOG1131|consen 635 ------------------------LEYLRDQFQIRENDFLTFDAMRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSK 690 (755)
T ss_pred ------------------------HHHHHHHhcccccceechHhHHHHHHHHHHHHhccccceeeEeeehhhccccchhh
Confidence 289999999999999888877 999999999999999999999999999999
Q ss_pred chHHHHhhhccccCCCCHHHHHHHHHHHHHhcCCCCCccccccccccCHHHHHHHHHHhHh
Q psy11433 875 LPKWIQEYLTDNLTNLSTEEAVQLSKRWLRQMAQPFTREDMLGVALLSLDQLLEKEHARAE 935 (941)
Q Consensus 875 l~~wi~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 935 (941)
||+||++++.+...|+|+++|++..++|+|.|||||+++|++|++|||++||+..+..+.+
T Consensus 691 lp~wi~~~l~~~~~nlstd~a~~varrflR~maQp~~k~dq~G~Sll~~edle~~~~~~~~ 751 (755)
T KOG1131|consen 691 LPKWIRNHLFDAKLNLSTDMANQVARRFLRLMAQPFDKEDQLGVSLLSLEDLEKMQEEKLK 751 (755)
T ss_pred hhHHHHhhhhhhccCCCcchhHHHHHHHHHHhcCCCCcccccccccccHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999977665443
No 2
>KOG1133|consensus
Probab=100.00 E-value=2.9e-87 Score=759.14 Aligned_cols=570 Identities=25% Similarity=0.408 Sum_probs=448.5
Q ss_pred CCCCCchhhHHHHhhhhhhhhhhh------hhhcCCCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHH
Q psy11433 1 VSKERDGKIVDGRCHSLTSSSVRD------RHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFL 74 (941)
Q Consensus 1 ~~~~~~~~~i~~~C~~L~~~~~~~------~~~~~~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~ 74 (941)
|.|++...+|||+|.+|++++... +.++.+....||||++.......+....+++|||||++.|+..+.||||+
T Consensus 237 V~Klk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd~~l~e~~DiEdLv~lGk~~~~CPYY~ 316 (821)
T KOG1133|consen 237 VKKLKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRDEALSEVLDIEDLVALGKELRGCPYYA 316 (821)
T ss_pred hccccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHHHHhhhhccHHHHHHhhhhcCCCCchh
Confidence 678999999999999999886532 23344566789999655433222333359999999999999999999999
Q ss_pred HHHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHHHHHHHHH-HHH
Q psy11433 75 ARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTL-KEM 153 (941)
Q Consensus 75 aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l~~~~~~~-~rl 153 (941)
+|+++++|++|++||++||+..+|+++++.| +++||||||||||.|++.+++|.+||..+|.+|...+..|...+ .|+
T Consensus 317 SR~avp~aqlV~LPYQ~LL~~stR~slgI~L-kdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~rl 395 (821)
T KOG1133|consen 317 SRRAVPQAQLVTLPYQLLLHESTRKSLGISL-KDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGKRL 395 (821)
T ss_pred hhhccccccEEeccHHHHHhHHHHHhcCccc-cccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999999999 79999999999999999999999999999999999998764432 233
Q ss_pred hHhhHHHHHHHHHHHHHHHHhhhhcccchhhhcCCCCchhHhhhhcCCCccchhhHHHHHHHHHHHHHHHhhhhhhcccC
Q psy11433 154 KEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTRLRVQQVVQES 233 (941)
Q Consensus 154 k~~~~~~L~~~~~~l~~~l~~~~~~~~~d~~~~n~~~~~~il~e~~p~ni~~~~~f~~~l~~li~~lk~~~~~~~~~~~~ 233 (941)
+ ++|..++++++.++.+++.|+-...+...
T Consensus 396 ~---------------------------------------------~~N~~~l~ql~~l~~~ll~fl~~~~~~~~----- 425 (821)
T KOG1133|consen 396 K---------------------------------------------AKNLMYLKQLLSLLRRLLKFLDSNCELNG----- 425 (821)
T ss_pred C---------------------------------------------ccchhHHHHHHHHHHHHHHHHHhhhhhCC-----
Confidence 3 45666666777777788777754432210
Q ss_pred ccccccccCCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhccchhhHHhhhchhhhhh--ccchhhhHHHHHHHHHhhh
Q psy11433 234 PATFLKDISSKPAPSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIE--RKPLRFCAERLASLLRTLE 311 (941)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~--~~~l~f~~~rl~~l~~tl~ 311 (941)
.+ .-....+|+|+.+.|++|+++|+.|+..|.++.+.+.+....-+ .+|++-...+- +...+
T Consensus 426 --------~~-----~~~~~~dfl~~~~id~iNL~kl~~Yi~~S~i~rKv~G~~~r~~~~~s~plq~l~~~~---~~~~e 489 (821)
T KOG1133|consen 426 --------NG-----ESLMRNDFLFSSGIDNINLFKLLDYIEKSKIARKVDGFGERLSEVFSQPLQSLQKKR---VEAEE 489 (821)
T ss_pred --------cc-----cccchhhhhhhcCccceeHHHHHHHHHHhhHHHHhcchhhcchhhccchhhHhhhcc---ccchh
Confidence 11 11223489999999999999999999999999988876542111 12211100000 00001
Q ss_pred hcccCCCchhHHH-HHHHhhhcccCCceEEEEccCCCCCCCCCCCEEEEEecCccccchHHhhhccEEEEecCCCCCCCc
Q psy11433 312 ITNLTDFSSLVVI-THLATLVSSYTKGFAIIVEPFSDKAPTVPNPVLYFCCLDSSLAIKPVFDRFQTVVITSGTLSPLDM 390 (941)
Q Consensus 312 ~~~~~~~~~~~~~-~~~~~l~~~~~~gf~ii~e~~~~~~~~~~~~~L~~~cLdPs~~fk~I~~~~rSVILtSGTLsPl~~ 390 (941)
...+. .++|.-+ .++.+|.+...+| +||+++.. .++|+|++|||+.+|.+|+.+||+|||+||||+|+++
T Consensus 490 e~~~~-ps~l~~l~~FL~~LTn~~~dG-ri~~~k~~-------s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e 560 (821)
T KOG1133|consen 490 ESQLK-PSPLFELSSFLGALTNNNEDG-RIFYSKQG-------SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDE 560 (821)
T ss_pred cccCC-CchhHHHHHHHHHHhCCCCCC-cEEEeccC-------CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHH
Confidence 11111 2567655 5667999999999 68888633 2799999999999999999999999999999999999
Q ss_pred hhhhhccccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCc
Q psy11433 391 YPKILNFQPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTG 470 (941)
Q Consensus 391 y~~~L~f~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTG 470 (941)
+...| +|.+++
T Consensus 561 ~~e~L-------------------~~~~~~-------------------------------------------------- 571 (821)
T KOG1133|consen 561 LREQL-------------------FPGCPE-------------------------------------------------- 571 (821)
T ss_pred HHHHh-------------------cccchh--------------------------------------------------
Confidence 87764 344441
Q ss_pred hhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecccccccccccccccchhh
Q psy11433 471 KTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDIS 550 (941)
Q Consensus 471 KTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~ 550 (941)
.+.-++|.|++|.- ++..++
T Consensus 572 -------------------~i~~fsc~Hvip~e---------------------~il~~v-------------------- 591 (821)
T KOG1133|consen 572 -------------------RISPFSCSHVIPPE---------------------NILPLV-------------------- 591 (821)
T ss_pred -------------------hccceecccccChh---------------------heeeee--------------------
Confidence 25678999999951 232222
Q ss_pred hhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhh
Q psy11433 551 VIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYD 630 (941)
Q Consensus 551 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~ 630 (941)
.|.||+|.. |+++|++|+.+.+++++|..+.+++.+||+|||||||||.|+..+.+.|.+
T Consensus 592 ------------v~~gpsg~p--------~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~ 651 (821)
T KOG1133|consen 592 ------------VSSGPSGQP--------LEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQ 651 (821)
T ss_pred ------------eccCCCCCc--------eEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHh
Confidence 356788874 799999999999999999999999999999999999999999999999999
Q ss_pred cCchhhhhhcccccccccccccchhhhhhhccc-cccCcccccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCC
Q psy11433 631 QGIIDNLQKRKLLFIETQDALDSRSVSKERDGK-IVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGV 709 (941)
Q Consensus 631 ~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~-~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v 709 (941)
.|++.+|..+|.+|.|+++.. . ..++.|.+ +..|+||+|||| +|||+||||| |.| ++||| |+|
T Consensus 652 ~gil~ri~~kK~vF~E~k~~~--~-dvl~~Ya~a~~~g~GaiLlaV---VGGKlSEGIN---F~D---~LgRa-Vvv--- 715 (821)
T KOG1133|consen 652 NGILARIVGKKKVFYEPKDTV--E-DVLEGYAEAAERGRGAILLAV---VGGKLSEGIN---FSD---DLGRA-VVV--- 715 (821)
T ss_pred cchHHHhhccchhhccCcccH--H-HHHHHHHHHhhcCCCeEEEEE---eccccccccc---ccc---ccccE-EEE---
Confidence 999999999999999999873 2 67889988 567899999999 9999999999 999 99999 999
Q ss_pred CCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHH
Q psy11433 710 YSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRR 789 (941)
Q Consensus 710 ~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~ 789 (941)
+| .||+..++...+..+ .||
T Consensus 716 ------------VG-lPyPN~~s~EL~er~-----k~l------------------------------------------ 735 (821)
T KOG1133|consen 716 ------------VG-LPYPNIQSVELQERM-----KHL------------------------------------------ 735 (821)
T ss_pred ------------ee-cCCCCCCCHHHHHHH-----HHh------------------------------------------
Confidence 89 999986655444433 110
Q ss_pred HHHHHHHHHHHHHhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCCChhhhhhcCCCceEEEechhhhccc
Q psy11433 790 TIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQGKTDYGIMIFADKRFARS 869 (941)
Q Consensus 790 ~l~~a~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~igr~ir~~~d~~~~il~d~r~~~~ 869 (941)
.+++.. ....+++|++ .||+++||+|||+|||.+||+.++|+|+||+++
T Consensus 736 ------------~~k~~~-----~gagke~yEn--------------lCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p 784 (821)
T KOG1133|consen 736 ------------DGKLPT-----PGAGKELYEN--------------LCMKAVNQSIGRAIRHRKDYASIYLLDKRYARP 784 (821)
T ss_pred ------------hhccCC-----CCchHHHHHH--------------HHHHHHHHHHHHHHhhhccceeEEEehhhhcCc
Confidence 000000 0123556654 489999999999999999999999999999977
Q ss_pred cccCCchHHHHhhhccccCCCCHHHHHHHHHHHHHhc
Q psy11433 870 DKRSKLPKWIQEYLTDNLTNLSTEEAVQLSKRWLRQM 906 (941)
Q Consensus 870 ~~~~kl~~wi~~~~~~~~~~~~~~~~~~~~~~f~~~~ 906 (941)
..+ |||+||+..++.. .++|+++..++.||+..
T Consensus 785 ~~R-KLp~WI~~~v~s~---~~~G~~ir~~~~ff~~k 817 (821)
T KOG1133|consen 785 LSR-KLPKWIRKRVHSK---AGFGPAIRATRKFFRAK 817 (821)
T ss_pred hhh-hccHHHHhHhccc---cCccHHHHHHHHHHHHh
Confidence 666 9999998888764 66999999999999865
No 3
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=8.1e-72 Score=681.85 Aligned_cols=582 Identities=43% Similarity=0.737 Sum_probs=422.7
Q ss_pred CCCchhhHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccc-cccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhhc
Q psy11433 3 KERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAV-GREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIH 81 (941)
Q Consensus 3 ~~~~~~~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~-~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~~ 81 (941)
+..+...+|+.|++|++++.++++.++.....|+||++.... .....+..+++|+|||+++|++++.||||++|+++++
T Consensus 116 ~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~C~yy~~~~~~~~~~~~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~ 195 (705)
T TIGR00604 116 KERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENFDELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPF 195 (705)
T ss_pred hhcchhhHHHHHHHHHhhhhcccccccCCCCCCCCCchhhhhhhhhhhcccCCCCHHHHHHhcccCCCCccHHHHHhhhc
Confidence 345667899999999987655433333456789999987543 2234455789999999999999999999999999999
Q ss_pred CcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHHHHHHHHHHHHhHhhHHHH
Q psy11433 82 AKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKL 161 (941)
Q Consensus 82 AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l~~~~~~~~rlk~~~~~~L 161 (941)
|||||+||||||||.+|+.+++.+ ++++|||||||||+++|++++|++|+..+|..|.+++.++.+....-...+...+
T Consensus 196 advIi~pYnyl~dp~~r~~~~~~l-~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~ 274 (705)
T TIGR00604 196 ANIVLLPYQYLLDPKIRSAVSIEL-KDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKL 274 (705)
T ss_pred CCEEEechHHhcCHHHHHHhhccc-ccCEEEEECccchHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHH
Confidence 999999999999999999999888 6899999999999999999999999999999999999987654432223333445
Q ss_pred HHHHHHHHHHHHhhhhcccchhhhcCCCCchhHhhhhcCCCccchhhHHHHHHHHHHHHHHHhhhhhhcccCcccccccc
Q psy11433 162 REEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTRLRVQQVVQESPATFLKDI 241 (941)
Q Consensus 162 ~~~~~~l~~~l~~~~~~~~~d~~~~n~~~~~~il~e~~p~ni~~~~~f~~~l~~li~~lk~~~~~~~~~~~~~~~~~~~~ 241 (941)
.+.+.++++++.+.......+.+..++..+..+....++++++...+|+..+.++++..+...
T Consensus 275 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~----------------- 337 (705)
T TIGR00604 275 LDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDAL----------------- 337 (705)
T ss_pred HHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCchHHHHHHHHHHHHHHHHHH-----------------
Confidence 556777777775432211112233455555555556688888888888887777665332111
Q ss_pred CCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhccchhhHHhhhchhhhhhccchhhhHHHHHHHHHhhhhcccCCCchh
Q psy11433 242 SSKPAPSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIERKPLRFCAERLASLLRTLEITNLTDFSSL 321 (941)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~l~f~~~rl~~l~~tl~~~~~~~~~~~ 321 (941)
++..++.+....|...+++...++. .+++|.+++.....++.++...+++++
T Consensus 338 ---------------------------~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 389 (705)
T TIGR00604 338 ---------------------------KVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSAL 389 (705)
T ss_pred ---------------------------HHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccc
Confidence 1112333344445444444444444 778899999888888777666677776
Q ss_pred HHHHHHHhhhccc----CCceEEEEccCCCCCCCCCCCEEEEEecCccccchHHhhhccEEEEecCCCCCCCchhhhhcc
Q psy11433 322 VVITHLATLVSSY----TKGFAIIVEPFSDKAPTVPNPVLYFCCLDSSLAIKPVFDRFQTVVITSGTLSPLDMYPKILNF 397 (941)
Q Consensus 322 ~~~~~~~~l~~~~----~~gf~ii~e~~~~~~~~~~~~~L~~~cLdPs~~fk~I~~~~rSVILtSGTLsPl~~y~~~L~f 397 (941)
..+..+.+++..+ .+|+.. ++. .+..+++|++|||||+.+|+++++++||||||||||+|++.|.++||+
T Consensus 390 ~~~~~~~~~~~~~~~~~~~~~~~-~~~-----~~~~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg~ 463 (705)
T TIGR00604 390 VLLFTFATLVLTYTNGFLEGIEP-YEN-----KTVPNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGF 463 (705)
T ss_pred hHHHHHHHHHHHhccccccceeE-eec-----CCCCCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhCC
Confidence 6666666665444 445322 221 123468999999999999999999999999999999999999999986
Q ss_pred ccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 398 QPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 398 ~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
++.+..+. |+ |++ +.|
T Consensus 464 ~~~~~~~~----------~~------------------~~~---~~~--------------------------------- 479 (705)
T TIGR00604 464 NPVSQDSP----------TH------------------ILK---REN--------------------------------- 479 (705)
T ss_pred CCccceec----------Cc------------------ccc---hHH---------------------------------
Confidence 42211100 11 110 001
Q ss_pred HHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecccccccccccccccchhhhhhhccc
Q psy11433 478 LIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQ 557 (941)
Q Consensus 478 ~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~ 557 (941)
+.+ .+
T Consensus 480 ----------------------------------------------~~~--~i--------------------------- 484 (705)
T TIGR00604 480 ----------------------------------------------LLT--LI--------------------------- 484 (705)
T ss_pred ----------------------------------------------eEE--EE---------------------------
Confidence 111 11
Q ss_pred cccccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhh
Q psy11433 558 LLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNL 637 (941)
Q Consensus 558 ~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l 637 (941)
...+|+|. .|+++|..|++.++++++|+.+.++++.+|+|++||||||.+|+.+...|.+.|+|+++
T Consensus 485 -----~~~~~~~~--------~l~~~~~~r~~~~~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i 551 (705)
T TIGR00604 485 -----VTRGSDQV--------PLSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENI 551 (705)
T ss_pred -----EeeCCCCC--------eeeeehhccCCHHHHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHH
Confidence 11234443 36788999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccccccccccccchhhhhhhccc-cccCcccccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHH
Q psy11433 638 QKRKLLFIETQDALDSRSVSKERDGK-IVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLK 716 (941)
Q Consensus 638 ~~~K~if~E~~~~~~~~~~~l~~y~~-~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~ 716 (941)
.+.|.+|+|+++..+.. ..++.|.+ +..++|++|||| +|||++|||| |.+ +.+|+ |++
T Consensus 552 ~~~k~i~~E~~~~~~~~-~~l~~f~~~~~~~~gavL~av---~gGk~sEGID---f~~---~~~r~-Vii---------- 610 (705)
T TIGR00604 552 EKKKLIFVETKDAQETS-DALERYKQAVSEGRGAVLLSV---AGGKVSEGID---FCD---DLGRA-VIM---------- 610 (705)
T ss_pred hcCCCEEEeCCCcchHH-HHHHHHHHHHhcCCceEEEEe---cCCcccCccc---cCC---CCCcE-EEE----------
Confidence 99999999998765444 67777876 466789999999 9999999999 999 99999 887
Q ss_pred HhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHH
Q psy11433 717 EMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVG 796 (941)
Q Consensus 717 ~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~ 796 (941)
.| -||... .++......
T Consensus 611 -----vG-lPf~~~-----------------~~~~~~~~~---------------------------------------- 627 (705)
T TIGR00604 611 -----VG-IPYEYT-----------------ESRILLARL---------------------------------------- 627 (705)
T ss_pred -----Ec-cCCCCC-----------------CCHHHHHHH----------------------------------------
Confidence 78 888431 122211100
Q ss_pred HHHHHHhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCCChhhhhhcCCCceEEEechhhhccccccCCch
Q psy11433 797 NIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQGKTDYGIMIFADKRFARSDKRSKLP 876 (941)
Q Consensus 797 ~l~~~~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~igr~ir~~~d~~~~il~d~r~~~~~~~~kl~ 876 (941)
+.+.++... .-. ..|+. .++|+..+|++||+|||++|||+++|+|.||.+...+++||
T Consensus 628 --~~~~~~~~~-------~~~------~~~y~-------~~a~~~v~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp 685 (705)
T TIGR00604 628 --EFLRDQYPI-------REN------QDFYE-------FDAMRAVNQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLP 685 (705)
T ss_pred --HHHHhhcCC-------Ccc------HHHHH-------HHHHHHHHHHhCccccCcCceEEEEEEehhcCCcchhhhcC
Confidence 000000000 000 01221 13566778899999999999999999999999999999999
Q ss_pred HHHHhhhccccCCCCHHHHHH
Q psy11433 877 KWIQEYLTDNLTNLSTEEAVQ 897 (941)
Q Consensus 877 ~wi~~~~~~~~~~~~~~~~~~ 897 (941)
+|++.++.... ++++++.
T Consensus 686 ~W~~~~~~~~~---~~~~~i~ 703 (705)
T TIGR00604 686 KWIQDTIQSSD---LNGMAIS 703 (705)
T ss_pred HHHHhhccccC---CCcchhc
Confidence 99999998753 4677764
No 4
>KOG1132|consensus
Probab=100.00 E-value=3.7e-64 Score=585.11 Aligned_cols=578 Identities=24% Similarity=0.397 Sum_probs=351.9
Q ss_pred CCCCchhhHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhhc
Q psy11433 2 SKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIH 81 (941)
Q Consensus 2 ~~~~~~~~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~~ 81 (941)
.++.+...-+..|.++..+ ..|.||...........+..+++|||||++.|++...||||++|.+.++
T Consensus 155 ~k~~~~~~~~~~C~k~~~~------------~~C~f~~~~~~~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~ed 222 (945)
T KOG1132|consen 155 KKLEGNALQNHVCKKLVKS------------RSCHFYKIVEEKSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKED 222 (945)
T ss_pred hhhhcchhhhhHHHhhccc------------ccccccccccccccccccCCCcccHHHHHHhCccCcCCcchhhhhhccc
Confidence 3444445556778777754 4799998776655555566789999999999999999999999999999
Q ss_pred CcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHH---HHHHHHHHHHH-------
Q psy11433 82 AKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAV---GNIQTLEGTLK------- 151 (941)
Q Consensus 82 AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~---~~l~~~~~~~~------- 151 (941)
||||+||||||+||.+|++..++| +++||||||||||++.|+++.|++++..+|.... .++........
T Consensus 223 AdIIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~~~~~~~pl~ 301 (945)
T KOG1132|consen 223 ADIIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTKAAAIYEPLR 301 (945)
T ss_pred CcEEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhhhhhhcCchh
Confidence 999999999999999999999998 7999999999999999999999999987777533 33333211100
Q ss_pred HHhHhhHHHH--H-HHHHHHHHHH-------HhhhhcccchhhhcCCCCchhHhhhhcCCCccch---hhHHHHHHHHHH
Q psy11433 152 EMKEADSAKL--R-EEYARLVEGL-------RDAQSARETDVVLANPVLPDEILQEVVPGNIRTA---EHFVGFLKRFIE 218 (941)
Q Consensus 152 rlk~~~~~~L--~-~~~~~l~~~l-------~~~~~~~~~d~~~~n~~~~~~il~e~~p~ni~~~---~~f~~~l~~li~ 218 (941)
++.......| + +.+.++...+ .+......... .+.|..| ++.+.+..-+.+. ....+.+...+.
T Consensus 302 ev~~~l~s~l~~~~e~La~l~~~~~~~~~~~d~~~~~~~~~g-iT~~~~~--~l~e~~~~a~~t~e~~~~i~~~~~~~v~ 378 (945)
T KOG1132|consen 302 EVSLDLISWLELELEDLAKLKEILLFLEEAIDKVLLPLDDSG-ITRPGSP--ILYEEFAKALITSETAEKIVDSLDIAVQ 378 (945)
T ss_pred hhhhccchhhhcchHHHHHHHHHHHHhhhhcchhcccccccc-ccCCCcH--HHHHHHHHhccCccccccchhhHHHHHH
Confidence 1110000100 0 0111111111 00000000000 0111111 2222211111111 112222222222
Q ss_pred HHHHHhhhhhhcccCccccccccCCCCC--CcchhhhhhhhhhhhhhhhhhhhhhhhhccchhhHHhhhchhhhhhccch
Q psy11433 219 YLKTRLRVQQVVQESPATFLKDISSKPA--PSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIERKPL 296 (941)
Q Consensus 219 ~lk~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~l 296 (941)
++.... ++..+..+ ..++.++.+++|+.- ++....... .
T Consensus 379 ~le~~~--------------q~~~t~~~s~~~~~~dlld~~fs~~------------~~~g~~~~~-------------~ 419 (945)
T KOG1132|consen 379 HLEGEK--------------QGTATNTGSLWCIFADLLDISFSVI------------LQNGSFSSD-------------A 419 (945)
T ss_pred Hhhccc--------------ccchhcccchHHHHHHHHHHHhhcc------------ccCCccccc-------------h
Confidence 221100 00000000 011122333333210 000000000 0
Q ss_pred hhhHHHHHHHHHhhhhcccCCCchhHHHHHHHhhhcccCCceEEEEccCCCCCCC--CCCCEEEEEecCccccchHHhhh
Q psy11433 297 RFCAERLASLLRTLEITNLTDFSSLVVITHLATLVSSYTKGFAIIVEPFSDKAPT--VPNPVLYFCCLDSSLAIKPVFDR 374 (941)
Q Consensus 297 ~f~~~rl~~l~~tl~~~~~~~~~~~~~~~~~~~l~~~~~~gf~ii~e~~~~~~~~--~~~~~L~~~cLdPs~~fk~I~~~ 374 (941)
.+ +..++....+..+... ......| .+.- .+..+ ..-|+++|||++|+++|.+++.+
T Consensus 420 ~~------~~e~s~~~~~~~d~~~----------~~~~~~~-~v~~----~~~s~~~~~~~vi~~wcf~p~~sf~d~~~k 478 (945)
T KOG1132|consen 420 SF------SVEQSYSFGNHLDAPH----------VINANLG-DVWK----GKSSRKLGNYPVINFWCFSPGYSFRDLLGK 478 (945)
T ss_pred hh------hhhhhhcccccCCccc----------ccccccc-cccc----cccccccCcccceeeeecCcchhHHHHhcc
Confidence 00 0000110000000000 0000001 0100 11111 22478999999999999999975
Q ss_pred -ccEEEEecCCCCCCCchhhhhccccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHHHHHH
Q psy11433 375 -FQTVVITSGTLSPLDMYPKILNFQPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKK 453 (941)
Q Consensus 375 -~rSVILtSGTLsPl~~y~~~L~f~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~ 453 (941)
+||||||||||+||+.|...||. -|...|
T Consensus 479 ~vrsIiLtSGTLsP~~s~~~El~~------~f~~~l-------------------------------------------- 508 (945)
T KOG1132|consen 479 GVRSIILTSGTLSPMDSFASELGL------EFKIQL-------------------------------------------- 508 (945)
T ss_pred cceeEEEecccccCchhHHHHhCC------ccceee--------------------------------------------
Confidence 99999999999999866655442 122222
Q ss_pred HHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecc
Q psy11433 454 ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSS 533 (941)
Q Consensus 454 al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~s 533 (941)
|+|-|. . ..++++
T Consensus 509 ----------En~hii-------------------------------~-------------------~~qv~~------- 521 (945)
T KOG1132|consen 509 ----------ENPHII-------------------------------N-------------------KSQVWV------- 521 (945)
T ss_pred ----------ecchhc-------------------------------c-------------------ccceEE-------
Confidence 222111 0 112222
Q ss_pred cccccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEE
Q psy11433 534 RKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVC 613 (941)
Q Consensus 534 r~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~ 613 (941)
+...+||+|.+ |.++|.+|++..+..++|+++.+.|++||.|++|
T Consensus 522 ---------------------------~vv~~Gp~~~q--------l~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~ 566 (945)
T KOG1132|consen 522 ---------------------------GVVPKGPDGAQ--------LDSTYGNRFTPEYLSELGEAILNVARVVPYGLLI 566 (945)
T ss_pred ---------------------------EeeccCCCccc--------cccccccccCHHHHHHHHHHHHHHHhhcccceEE
Confidence 22335666654 6899999999999999999999999999999999
Q ss_pred eccchHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccc---cCcccccccchhhcccccCCCCCCC
Q psy11433 614 FFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIV---DGRCHSLTSSSVRDRHKAGENIPVC 690 (941)
Q Consensus 614 Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~---~~~Ga~L~av~~~~rGK~sEGid~C 690 (941)
|||||..|+++..+|...|.|+++...|.+++||+...++. ..+..|.+++ ...||+|++| ||||+|||+|
T Consensus 567 FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f~-e~m~~y~~~i~~pes~ga~~~aV---cRGKVSEGlD-- 640 (945)
T KOG1132|consen 567 FFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEFT-EVMSRYYNAIADPESSGAVFFAV---CRGKVSEGLD-- 640 (945)
T ss_pred eccchHHHHHHHHHHHcchHHHHhhcccCceeccCCccchH-HHHHHHHHHhhCccccceEEEEE---ecccccCCCC--
Confidence 99999999999999999999999999999999999888887 4455555533 4679999999 9999999988
Q ss_pred CCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeC
Q psy11433 691 DFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDE 770 (941)
Q Consensus 691 ~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDE 770 (941)
|.| ..||+ ||. .| .||+...+.-..... .|
T Consensus 641 -FsD---~~~Ra-VI~---------------tG-lPyP~~~D~~V~lK~-----~y------------------------ 670 (945)
T KOG1132|consen 641 -FSD---DNGRA-VII---------------TG-LPYPPVMDPRVKLKK-----QY------------------------ 670 (945)
T ss_pred -ccc---cCCce-eEE---------------ec-CCCCCCCCHHHHHHH-----Hh------------------------
Confidence 999 99999 988 88 999884433222211 00
Q ss_pred CcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCCChhhhh
Q psy11433 771 AHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEIL 850 (941)
Q Consensus 771 AHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~igr~i 850 (941)
++...++.+. + ..+-.--+|+..+ .+|++||+|||+|
T Consensus 671 ---------------------------~D~~~~~~g~-~--------s~~lsg~eWY~~q-------A~RAvNQAiGRvi 707 (945)
T KOG1132|consen 671 ---------------------------LDENSSLKGA-K--------SQLLSGQEWYSQQ-------AYRAVNQAIGRVI 707 (945)
T ss_pred ---------------------------hhhhcccccc-c--------cccccchHHHHhh-------HHHHHHHHHHHHH
Confidence 0000000000 0 0000011454433 3578899999999
Q ss_pred hcCCCceEEEechhhhccccccCCchHHHHhhhccccCCCCHHHHHHHHHHHHHhcCCCC
Q psy11433 851 QGKTDYGIMIFADKRFARSDKRSKLPKWIQEYLTDNLTNLSTEEAVQLSKRWLRQMAQPF 910 (941)
Q Consensus 851 r~~~d~~~~il~d~r~~~~~~~~kl~~wi~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~ 910 (941)
||++|||+++|+|.||++...++.||+||++..-+ .-..+.+..+-++||...+.+
T Consensus 708 RHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~~~~~----~~~~~~~~~~~r~~r~~~~nn 763 (945)
T KOG1132|consen 708 RHRNDYGAVILCDDRFENADARSQLSKWIRSVKCD----SRYCEVISSLARKFRTHRSNN 763 (945)
T ss_pred hhhcccceeeEeechhhcCccccccchhhhccccc----cccccccchhhhhhhcccccc
Confidence 99999999999999999999999999999994333 224556666667777655543
No 5
>KOG1131|consensus
Probab=100.00 E-value=2.8e-50 Score=444.00 Aligned_cols=312 Identities=60% Similarity=0.982 Sum_probs=269.3
Q ss_pred cccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchh
Q psy11433 424 MGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEI 503 (941)
Q Consensus 424 ~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~ 503 (941)
|+|.|+|+.++|||+..||+|.+||.+++++|++++|+++|+|+|||||.|+|+.+++|+..++....|++||+||+|++
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEi 80 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEI 80 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHH
Confidence 78999999999999999999999999999999999999999999999999999999999999887788999999999999
Q ss_pred HHHHHHHHHHHHHHhhcc-cccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCccccccccccccc
Q psy11433 504 EKVVEELARLFDYYIKHN-EEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLES 582 (941)
Q Consensus 504 ~q~i~el~~~~~~~~~~~-~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~ 582 (941)
++.++||+++..|+.++. .+..+.++.++||+|+|+|+.+.+. .....+|..|.
T Consensus 81 eK~l~El~~l~~y~~k~~g~~~~flglglssRKNlCi~~~v~~~--------r~g~~VD~~Cr----------------- 135 (755)
T KOG1131|consen 81 EKALEELKRLMDYREKHLGYPEPFLGLGLSSRKNLCIHPEVLKE--------RNGNVVDAACR----------------- 135 (755)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCceeeeeeccccccccCHHHHHH--------hcCCchhHHHH-----------------
Confidence 999999999999998874 4567888999999999999876422 11111222221
Q ss_pred cccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhcc
Q psy11433 583 VFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDG 662 (941)
Q Consensus 583 ~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~ 662 (941)
+..+.|
T Consensus 136 ----------------------------------------~ltas~---------------------------------- 141 (755)
T KOG1131|consen 136 ----------------------------------------KLTASY---------------------------------- 141 (755)
T ss_pred ----------------------------------------HHhHHH----------------------------------
Confidence 111222
Q ss_pred ccccCcccccccchhhcccccCCC--CCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEE
Q psy11433 663 KIVDGRCHSLTSSSVRDRHKAGEN--IPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIV 740 (941)
Q Consensus 663 ~~~~~~Ga~L~av~~~~rGK~sEG--id~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiI 740 (941)
+|.|..|+ ...|.|++|++. +...+..++|+.|||+++|++.|.||||.+|.++..|+||
T Consensus 142 ----------------vr~~~~ed~~~~~C~f~en~~~--~~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~~~nvi 203 (755)
T KOG1131|consen 142 ----------------VRAKLAEDPNVELCDFFENLED--KESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIPFANVI 203 (755)
T ss_pred ----------------HHHHHhcCCCcchhhHHhhhhc--ccccCCcccccHHHHHHhhhcCCcChHHHHHHhhhcccEE
Confidence 12222232 236999997766 2324677999999999999999999999999999999999
Q ss_pred EeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHHhhHHhHHHHHHHH
Q psy11433 741 VYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEY 820 (941)
Q Consensus 741 i~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~~~~~~~~~l~~~~ 820 (941)
|.+|+||+||.+.+....++.++++|||||||||..+|.++.|+.|+..++++|.+.+..+++.+.+.+..+.++|+..|
T Consensus 204 vYsYhYllDPkIa~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k~~d~~kl~~eY 283 (755)
T KOG1131|consen 204 VYSYHYLLDPKIAELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRRTLERASRNLNSLEQLVNRVKETDSQKLQDEY 283 (755)
T ss_pred EEehhhhcChHHHHHHHHhhCcCcEEEecccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhcchhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhccccccccccCCCChhhhhhc
Q psy11433 821 ARLVEGLRDAQSARETDVVLANPVLPDEILQG 852 (941)
Q Consensus 821 ~~l~~~l~~~~~~~~~~~~~~~~~~igr~ir~ 852 (941)
++|+++|......+.++...+.++.+++++.+
T Consensus 284 ~klvegL~~~~~~~~~d~~lanPvLP~dvl~E 315 (755)
T KOG1131|consen 284 EKLVEGLKDASAERDEDQFLANPVLPDDVLKE 315 (755)
T ss_pred HHHHHHhhccccccCccchhcCCCCchhhhhh
Confidence 99999999887777777777787877776654
No 6
>KOG1133|consensus
Probab=100.00 E-value=4.6e-48 Score=439.99 Aligned_cols=332 Identities=25% Similarity=0.381 Sum_probs=264.6
Q ss_pred ccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC-----------------------
Q psy11433 431 LPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----------------------- 487 (941)
Q Consensus 431 ~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----------------------- 487 (941)
..|+|||+ ||++|.++|+++|+.|++|+++|||||||||||||+||++|+|++.+.
T Consensus 8 ~~F~fPy~-PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~kd 86 (821)
T KOG1133|consen 8 IEFPFPYT-PYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDEKD 86 (821)
T ss_pred cccCCCCC-chhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCccccccc
Confidence 35889997 999999999999999999999999999999999999999999997530
Q ss_pred ---------------------------------------------------------C----C-----------------
Q psy11433 488 ---------------------------------------------------------L----D----------------- 489 (941)
Q Consensus 488 ---------------------------------------------------------~----~----------------- 489 (941)
. +
T Consensus 87 e~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg~~eq~ 166 (821)
T KOG1133|consen 87 ESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPGRLEQL 166 (821)
T ss_pred cccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCccchhhh
Confidence 0 0
Q ss_pred ------------------------CceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecccccccccccccc
Q psy11433 490 ------------------------VTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFET 545 (941)
Q Consensus 490 ------------------------~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~ 545 (941)
..||+||+|||+|+.|++.||++. .....++.++++||+++|+|+.+..
T Consensus 167 e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt-------~f~~~vr~vsL~SRk~LCiNe~V~K 239 (821)
T KOG1133|consen 167 ESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKT-------PFGKKVRSVSLGSRKNLCINEDVKK 239 (821)
T ss_pred hcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhc-------ccccCceEEeecchhhcccCHHhcc
Confidence 178999999999999999999985 1234677899999999999998876
Q ss_pred cchhhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHH
Q psy11433 546 RDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVV 625 (941)
Q Consensus 546 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l 625 (941)
....+++++ .| .
T Consensus 240 lk~~~~iNE--------~C------------------------------------l------------------------ 251 (821)
T KOG1133|consen 240 LKSVDAINE--------RC------------------------------------L------------------------ 251 (821)
T ss_pred ccchhHHHH--------HH------------------------------------H------------------------
Confidence 533222211 11 1
Q ss_pred HHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhh-hhhccCCC
Q psy11433 626 ASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKF-DAVGREAP 704 (941)
Q Consensus 626 ~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~-~~~gR~~v 704 (941)
-|. +.|.--.+.+ | .+-+-.+-.-.|||++.. -...|+ -
T Consensus 252 -dlq---------~s~~~~~~~~--------------------~---------~~~~~~~~~~~Cpf~~~~q~~~~rd-~ 291 (821)
T KOG1133|consen 252 -DLQ---------KSKHSLKPSK--------------------K---------MRMTRTKATARCPFYNHTQMEDLRD-E 291 (821)
T ss_pred -HHH---------hccCcccccc--------------------c---------chhcccccccCCCccchhHHHHHHH-H
Confidence 111 1111000000 0 000000111269999631 123466 4
Q ss_pred CCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhccc
Q psy11433 705 LAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSV 784 (941)
Q Consensus 705 i~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~ 784 (941)
+..++.|||||+.+|+..+.||||.+|+++.+|++|++||++||...+|+++++.| +++||||||||||.|++.+++|.
T Consensus 292 ~l~e~~DiEdLv~lGk~~~~CPYY~SR~avp~aqlV~LPYQ~LL~~stR~slgI~L-kdsIvIiDEAHNlidti~smhsa 370 (821)
T KOG1133|consen 292 ALSEVLDIEDLVALGKELRGCPYYASRRAVPQAQLVTLPYQLLLHESTRKSLGISL-KDSIVIIDEAHNLIDTICSMHSA 370 (821)
T ss_pred HhhhhccHHHHHHhhhhcCCCCchhhhhccccccEEeccHHHHHhHHHHHhcCccc-cccEEEEechhHHHHHHHHhhhh
Confidence 44599999999999999999999999999999999999999999999999999998 89999999999999999999999
Q ss_pred ccCHHHHHHHHHHHHHH----HhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCCChhhhhhcCCCceEEE
Q psy11433 785 RINRRTIEKAVGNIQTL----EGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQGKTDYGIMI 860 (941)
Q Consensus 785 ~ls~~~l~~a~~~l~~~----~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~igr~ir~~~d~~~~i 860 (941)
.|+..+|..|..+|..| .+++...|+.+++++..++.+++.||........|.+ .+...+++-..+.+.+|+
T Consensus 371 ~Is~~ql~~a~~~i~~Y~~rf~~rl~~~N~~~l~ql~~l~~~ll~fl~~~~~~~~~~~----~~~~~dfl~~~~id~iNL 446 (821)
T KOG1133|consen 371 EISFSQLCRAHKQIQQYFERFGKRLKAKNLMYLKQLLSLLRRLLKFLDSNCELNGNGE----SLMRNDFLFSSGIDNINL 446 (821)
T ss_pred heeHHHHHHHHHHHHHHHHHHHHhhCccchhHHHHHHHHHHHHHHHHHhhhhhCCccc----ccchhhhhhhcCccceeH
Confidence 99999999999999988 5678888999999999999999999987655444322 223457888999999999
Q ss_pred echhhhccccccCCchHHHHhhhccc
Q psy11433 861 FADKRFARSDKRSKLPKWIQEYLTDN 886 (941)
Q Consensus 861 l~d~r~~~~~~~~kl~~wi~~~~~~~ 886 (941)
+ ++.+|..+|+|.+++.+|-...
T Consensus 447 ~---kl~~Yi~~S~i~rKv~G~~~r~ 469 (821)
T KOG1133|consen 447 F---KLLDYIEKSKIARKVDGFGERL 469 (821)
T ss_pred H---HHHHHHHHhhHHHHhcchhhcc
Confidence 9 8899999999999999998754
No 7
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=9.1e-45 Score=443.94 Aligned_cols=283 Identities=45% Similarity=0.771 Sum_probs=215.5
Q ss_pred ccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 431 LPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 431 ~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
+.++|||+.+||+|+++|+.|++++++|+++++|||||||||+|+|||+|+|+..++ ...||+||||||+|+.|+++|+
T Consensus 2 ~~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~-~~~kIiy~sRThsQl~q~i~El 80 (705)
T TIGR00604 2 LLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP-EVRKIIYASRTHSQLEQATEEL 80 (705)
T ss_pred CceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc-ccccEEEEcccchHHHHHHHHH
Confidence 578999998899999999999999999999999999999999999999999998654 3469999999999999999999
Q ss_pred HHHHHHHhhc-ccccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCcccccccccccccccccccc
Q psy11433 511 ARLFDYYIKH-NEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDD 589 (941)
Q Consensus 511 ~~~~~~~~~~-~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~ 589 (941)
+++..++... .....+++++++||+++|+|+.+......
T Consensus 81 k~~~~~~~~~~~~~~~i~~v~L~SR~~lCin~~v~~~~~~---------------------------------------- 120 (705)
T TIGR00604 81 RKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEVSKERQG---------------------------------------- 120 (705)
T ss_pred HhhhhccccccccCCceeEEEechHhhcccChHHHhhcch----------------------------------------
Confidence 9985432211 11125788999999999999865321000
Q ss_pred HHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcc
Q psy11433 590 ISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRC 669 (941)
Q Consensus 590 ~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~G 669 (941)
..+++ .|. .....|.. + .
T Consensus 121 -~~~~~-------~C~-----------------~l~~~~~~--------~-------~---------------------- 138 (705)
T TIGR00604 121 -KVVNG-------KCI-----------------KLTVSKIK--------E-------Q---------------------- 138 (705)
T ss_pred -hhHHH-------HHH-----------------HHHhhhhc--------c-------c----------------------
Confidence 00000 110 00000100 0 0
Q ss_pred cccccchhhcccccCCCCCCCCCchhhhhh--ccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccc
Q psy11433 670 HSLTSSSVRDRHKAGENIPVCDFYEKFDAV--GREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYL 747 (941)
Q Consensus 670 a~L~av~~~~rGK~sEGid~C~F~d~~~~~--gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yL 747 (941)
...+ .....|+||++.+.. .+. .+..+++|+|||+++|++.++||||.+|+.+..|||||+|||||
T Consensus 139 ---------~~~~--~~~~~C~yy~~~~~~~~~~~-~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~advIi~pYnyl 206 (705)
T TIGR00604 139 ---------RTEK--PNVESCEFYENFDELREVED-LLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYL 206 (705)
T ss_pred ---------cccc--CCCCCCCCCchhhhhhhhhh-hcccCCCCHHHHHHhcccCCCCccHHHHHhhhcCCEEEechHHh
Confidence 0000 112469999975443 233 55678999999999999999999999999999999999999999
Q ss_pred cCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHHhhHHhHHHHHHHHHHHHHHH
Q psy11433 748 LDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGL 827 (941)
Q Consensus 748 ld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~~l 827 (941)
|||.+|+.+++++ ++++|||||||||+|+|++++|++|+..+|..|.+++.++.+++......+...+.+.+.+++.++
T Consensus 207 ~dp~~r~~~~~~l-~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l 285 (705)
T TIGR00604 207 LDPKIRSAVSIEL-KDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGL 285 (705)
T ss_pred cCHHHHHHhhccc-ccCEEEEECccchHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHH
Confidence 9999999998877 789999999999999999999999999999999999999877664332222333444455555555
Q ss_pred HH
Q psy11433 828 RD 829 (941)
Q Consensus 828 ~~ 829 (941)
.+
T Consensus 286 ~~ 287 (705)
T TIGR00604 286 KQ 287 (705)
T ss_pred HH
Confidence 43
No 8
>KOG1132|consensus
Probab=100.00 E-value=2.2e-42 Score=403.47 Aligned_cols=232 Identities=34% Similarity=0.600 Sum_probs=188.8
Q ss_pred cC-CccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC-------------------
Q psy11433 428 ID-DLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP------------------- 487 (941)
Q Consensus 428 ~~-~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~------------------- 487 (941)
|. |+++.|||+ ||+.|+.||..|.++|+.+.++++|||||||||||+||.+|+|.+..+
T Consensus 10 i~~Gv~V~fP~q-pY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~ 88 (945)
T KOG1132|consen 10 INIGVPVEFPFQ-PYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQ 88 (945)
T ss_pred eccCceeeccCC-cchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCC
Confidence 44 999999998 999999999999999999999999999999999999999999987521
Q ss_pred -------------------CCCceEEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEecccccccccccccccch
Q psy11433 488 -------------------LDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRDD 548 (941)
Q Consensus 488 -------------------~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~ 548 (941)
...++|+|++|||+|+.|+++|+++.. .+++.++|+||+++|+|+++....+
T Consensus 89 ~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~---------Y~vkmtVLgSReq~Cinpev~k~~~ 159 (945)
T KOG1132|consen 89 PSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTG---------YRVKMTVLGSREQLCINPEVKKLEG 159 (945)
T ss_pred CccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhcC---------CCCceEEeecchhhccCHHHhhhhc
Confidence 125789999999999999999999872 2577899999999999998754321
Q ss_pred hhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHH
Q psy11433 549 ISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASW 628 (941)
Q Consensus 549 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w 628 (941)
. .+.+ |
T Consensus 160 ~-------------------------------------------------~~~~-----------------~-------- 165 (945)
T KOG1132|consen 160 N-------------------------------------------------ALQN-----------------H-------- 165 (945)
T ss_pred c-------------------------------------------------hhhh-----------------h--------
Confidence 0 0000 0
Q ss_pred hhcCchhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCC
Q psy11433 629 YDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPG 708 (941)
Q Consensus 629 ~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~ 708 (941)
+ |++.+.- ..|.|++......-..-+-.+
T Consensus 166 ----------------------------------------------~---C~k~~~~--~~C~f~~~~~~~sl~~~l~~~ 194 (945)
T KOG1132|consen 166 ----------------------------------------------V---CKKLVKS--RSCHFYKIVEEKSLQPRLHDE 194 (945)
T ss_pred ----------------------------------------------H---HHhhccc--ccccccccccccccccccCCC
Confidence 0 2222211 146676532221111123346
Q ss_pred CCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCH
Q psy11433 709 VYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINR 788 (941)
Q Consensus 709 v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~ 788 (941)
++|||||++.|+..+.||||.+|.+.++||||+||||||+||.+|++..++| +++||||||||||||+|+++.|++|+.
T Consensus 195 i~DIEDLVk~Gk~~~~CPYfaSR~l~edAdIIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts 273 (945)
T KOG1132|consen 195 IFDIEDLVKIGKKSRGCPYFASRELKEDADIIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTS 273 (945)
T ss_pred cccHHHHHHhCccCcCCcchhhhhhcccCcEEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccH
Confidence 9999999999999999999999999999999999999999999999999988 899999999999999999999999998
Q ss_pred HHHHHHH
Q psy11433 789 RTIEKAV 795 (941)
Q Consensus 789 ~~l~~a~ 795 (941)
..|....
T Consensus 274 ~~l~~~~ 280 (945)
T KOG1132|consen 274 SDLASGL 280 (945)
T ss_pred HHHHHHH
Confidence 7777544
No 9
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.1e-40 Score=366.55 Aligned_cols=259 Identities=44% Similarity=0.713 Sum_probs=198.6
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC--CCceEEEeccccchhHHHHHH
Q psy11433 432 PVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL--DVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 432 ~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~--~~~ki~~ct~t~~q~~q~i~e 509 (941)
.|+|||+ |||+|.+||+.|++++.+|+++++|||||||||+++|+|++.|+..++. ...+++|||+|+++++|++.+
T Consensus 2 ~~~FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00488 2 LFYFPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 5789998 7999999999999999999999999999999999999999999987653 124899999999999999999
Q ss_pred HHHHHH------------------HHhhcccccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCcc
Q psy11433 510 LARLFD------------------YYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVV 571 (941)
Q Consensus 510 l~~~~~------------------~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 571 (941)
++++.. .+.+ ...+++.++++||+++|+++.+...... +
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~--~~~~~~~~~l~sR~~lCin~~v~~~~~~-------------------~-- 137 (289)
T smart00488 81 LRKLMQKVEYESDEESEKQAQLLHELGR--EKPKVLGLSLTSRKNLCLNPEVRTLKQN-------------------G-- 137 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhc--cCCCcceeEeechhhcCCChHHhhcccc-------------------c--
Confidence 987631 1110 2336778899999999999865321000 0
Q ss_pred ccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccc
Q psy11433 572 CFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDAL 651 (941)
Q Consensus 572 ~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~ 651 (941)
........++ ...|..
T Consensus 138 ---------------~~~~~~C~~l----------------------------~~~~~~--------------------- 153 (289)
T smart00488 138 ---------------LVVDEVCRSL----------------------------TASKAR--------------------- 153 (289)
T ss_pred ---------------chHHHHHHHH----------------------------Hhhccc---------------------
Confidence 0000000000 011110
Q ss_pred cchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhhhhhc-cCCCCCCCCCCHHHHHHhchhcCcCChHHH
Q psy11433 652 DSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVG-REAPLAPGVYSITKLKEMGRELGLCPYFLA 730 (941)
Q Consensus 652 ~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~g-R~~vi~~~v~diedL~~~g~~~g~CPY~~~ 730 (941)
.+.. -.|+ .+.|+|+.+..... +. .+..+++|+|++..+|++.+.|||+.+
T Consensus 154 --------~~~~---------------~~~~----~~~c~~~~~~~~~~~~~-~~~~~~~d~e~l~~~~~~~~~CpY~~~ 205 (289)
T smart00488 154 --------KYRY---------------ENPK----VERCPFYENTEFLLVRD-LLPAEVYDIEDLLELGKRLGGCPYFAS 205 (289)
T ss_pred --------cccc---------------cccC----CCCCCccchhhhhhhhh-hcccCCCCHHHHHHhcccCCCChhHHH
Confidence 0000 0011 23588987543222 22 344689999999999999999999999
Q ss_pred HHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHH
Q psy11433 731 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKE 807 (941)
Q Consensus 731 r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~ 807 (941)
|+.+.+|||||+||+|||++.+++.+++.+ ++++|||||||||+|+|++++|.+|+..+|..+.++|..|..+...
T Consensus 206 r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00488 206 RKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred HHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998877766 6999999999999999999999999999999999999988776654
No 10
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.1e-40 Score=366.55 Aligned_cols=259 Identities=44% Similarity=0.713 Sum_probs=198.6
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC--CCceEEEeccccchhHHHHHH
Q psy11433 432 PVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL--DVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 432 ~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~--~~~ki~~ct~t~~q~~q~i~e 509 (941)
.|+|||+ |||+|.+||+.|++++.+|+++++|||||||||+++|+|++.|+..++. ...+++|||+|+++++|++.+
T Consensus 2 ~~~FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00489 2 LFYFPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 5789998 7999999999999999999999999999999999999999999987653 124899999999999999999
Q ss_pred HHHHHH------------------HHhhcccccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCcc
Q psy11433 510 LARLFD------------------YYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVV 571 (941)
Q Consensus 510 l~~~~~------------------~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 571 (941)
++++.. .+.+ ...+++.++++||+++|+++.+...... +
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~--~~~~~~~~~l~sR~~lCin~~v~~~~~~-------------------~-- 137 (289)
T smart00489 81 LRKLMQKVEYESDEESEKQAQLLHELGR--EKPKVLGLSLTSRKNLCLNPEVRTLKQN-------------------G-- 137 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhc--cCCCcceeEeechhhcCCChHHhhcccc-------------------c--
Confidence 987631 1110 2336778899999999999865321000 0
Q ss_pred ccccccccccccccccccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccc
Q psy11433 572 CFFTSYLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDAL 651 (941)
Q Consensus 572 ~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~ 651 (941)
........++ ...|..
T Consensus 138 ---------------~~~~~~C~~l----------------------------~~~~~~--------------------- 153 (289)
T smart00489 138 ---------------LVVDEVCRSL----------------------------TASKAR--------------------- 153 (289)
T ss_pred ---------------chHHHHHHHH----------------------------Hhhccc---------------------
Confidence 0000000000 011110
Q ss_pred cchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhhhhhc-cCCCCCCCCCCHHHHHHhchhcCcCChHHH
Q psy11433 652 DSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVG-REAPLAPGVYSITKLKEMGRELGLCPYFLA 730 (941)
Q Consensus 652 ~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~g-R~~vi~~~v~diedL~~~g~~~g~CPY~~~ 730 (941)
.+.. -.|+ .+.|+|+.+..... +. .+..+++|+|++..+|++.+.|||+.+
T Consensus 154 --------~~~~---------------~~~~----~~~c~~~~~~~~~~~~~-~~~~~~~d~e~l~~~~~~~~~CpY~~~ 205 (289)
T smart00489 154 --------KYRY---------------ENPK----VERCPFYENTEFLLVRD-LLPAEVYDIEDLLELGKRLGGCPYFAS 205 (289)
T ss_pred --------cccc---------------cccC----CCCCCccchhhhhhhhh-hcccCCCCHHHHHHhcccCCCChhHHH
Confidence 0000 0011 23588987543222 22 344689999999999999999999999
Q ss_pred HHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHH
Q psy11433 731 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKE 807 (941)
Q Consensus 731 r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~ 807 (941)
|+.+.+|||||+||+|||++.+++.+++.+ ++++|||||||||+|+|++++|.+|+..+|..+.++|..|..+...
T Consensus 206 r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00489 206 RKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred HHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998877766 6999999999999999999999999999999999999988776654
No 11
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=5.5e-31 Score=321.32 Aligned_cols=86 Identities=35% Similarity=0.462 Sum_probs=77.1
Q ss_pred HhchhCCCCHHHHHHHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHH
Q psy11433 62 EMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVG 141 (941)
Q Consensus 62 ~~g~~~~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~ 141 (941)
..|..+..|||+.+|+.++.||+||+||+|++...........++++.++||||||||++.|+++.|..|+..+|+.+..
T Consensus 175 ~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d~a~~~~s~~l~~~~L~~~~~ 254 (654)
T COG1199 175 EDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLPDIARSALSIRLSERTLERLLK 254 (654)
T ss_pred cCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccccchHHHHHHHHHHhhHHHHHHHHH
Confidence 56888899999999999999999999999999988776544325788999999999999999999999999999999999
Q ss_pred HHHHHH
Q psy11433 142 NIQTLE 147 (941)
Q Consensus 142 ~l~~~~ 147 (941)
++..+.
T Consensus 255 ~~~~~~ 260 (654)
T COG1199 255 EIQALG 260 (654)
T ss_pred HHHHhh
Confidence 988765
No 12
>PF06777 DUF1227: Protein of unknown function (DUF1227); InterPro: IPR010643 This domain represents a conserved region within a number of eukaryotic DNA repair helicases.; GO: 0005634 nucleus
Probab=99.96 E-value=1.6e-29 Score=244.76 Aligned_cols=144 Identities=66% Similarity=1.097 Sum_probs=138.3
Q ss_pred HHHHhHhhHHHHHHHHHHHHHHHHhhhhcccchhhhcCCCCchhHhhhhcCCCccchhhHHHHHHHHHHHHHHHhhhhhh
Q psy11433 150 LKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTRLRVQQV 229 (941)
Q Consensus 150 ~~rlk~~~~~~L~~~~~~l~~~l~~~~~~~~~d~~~~n~~~~~~il~e~~p~ni~~~~~f~~~l~~li~~lk~~~~~~~~ 229 (941)
+.++|..+.++|+++|.+|++||+..+..++++.+++||++|+++++|+||||||+++||+.||++|++|+|++|++++
T Consensus 3 i~~~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~eaVPGnIR~AeHFv~flkR~veylk~rlrv~~- 81 (146)
T PF06777_consen 3 IDEIKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKEAVPGNIRRAEHFVAFLKRFVEYLKTRLRVQH- 81 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhhcCCchHHhHHHHHHHHHHHHHHHHHHhhhcc-
Confidence 5678999999999999999999999998888999999999999999999999999999999999999999999997655
Q ss_pred cccCccccccccCCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhccchhhHHhhhchhhhhhccchhhhHHHHHHHHHh
Q psy11433 230 VQESPATFLKDISSKPAPSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIERKPLRFCAERLASLLRT 309 (941)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~l~f~~~rl~~l~~t 309 (941)
+++|+|.+|+.++++.++|++++++||++||.++++|
T Consensus 82 -------------------------------------------v~~e~P~sFL~~~~~~~~id~k~LrFc~eRL~sLl~T 118 (146)
T PF06777_consen 82 -------------------------------------------VISESPLSFLQHLKDETFIDRKPLRFCSERLSSLLRT 118 (146)
T ss_pred -------------------------------------------eeecCHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHH
Confidence 7889999999999999999999999999999999999
Q ss_pred hhhcccCCCchhHHHHHHHhhhcccCCc
Q psy11433 310 LEITNLTDFSSLVVITHLATLVSSYTKG 337 (941)
Q Consensus 310 l~~~~~~~~~~~~~~~~~~~l~~~~~~g 337 (941)
|++++.++|++|..|++|+||+++|.+|
T Consensus 119 Lei~d~~df~~L~~Va~FaTLv~tY~~G 146 (146)
T PF06777_consen 119 LEITDIDDFSALQLVADFATLVSTYSKG 146 (146)
T ss_pred HCCCcHhhhhHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999988
No 13
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.93 E-value=1.2e-25 Score=280.61 Aligned_cols=82 Identities=17% Similarity=0.241 Sum_probs=70.8
Q ss_pred HHhchhCCCCHHHHHHHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHH
Q psy11433 61 KEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAV 140 (941)
Q Consensus 61 ~~~g~~~~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~ 140 (941)
.+.|..++.|||+.+|+.+++|||||+||+||+++.... ...+++..++||||||||++++++++|.+++..++..+.
T Consensus 396 ~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~--~~ilp~~~~lIiDEAH~L~d~a~~~~~~~ls~~~~~~~l 473 (850)
T TIGR01407 396 SKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDN--PELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQI 473 (850)
T ss_pred CCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcc--cccCCCCCEEEEECcchHHHHHHHHhcceeCHHHHHHHH
Confidence 345667789999999999999999999999999986543 223577889999999999999999999999999998887
Q ss_pred HHHH
Q psy11433 141 GNIQ 144 (941)
Q Consensus 141 ~~l~ 144 (941)
+.+.
T Consensus 474 ~~l~ 477 (850)
T TIGR01407 474 DLIG 477 (850)
T ss_pred HHHH
Confidence 7763
No 14
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.93 E-value=2e-24 Score=263.54 Aligned_cols=82 Identities=21% Similarity=0.283 Sum_probs=68.0
Q ss_pred hchhCCCCHHHHHHHHhhcCcEEEEccccccChhhhhHhhhhcC--CCcEEEEecCccccHHhhhhcccccCHHHHHHHH
Q psy11433 63 MGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELA--RSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAV 140 (941)
Q Consensus 63 ~g~~~~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~--~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~ 140 (941)
-|..++.|||+.+|+.+..|||||+||+|||.+...+ .+..|| +.+++||||||||+++|.++++.+++...+....
T Consensus 201 ~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~-~~~iLp~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l 279 (697)
T PRK11747 201 NCPYFRECPFFKARREIDEADVVVANHDLVLADLELG-GGVVLPDPENLLYVLDEGHHLPDVARDHFAASAELKGTADWL 279 (697)
T ss_pred CCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhcc-CCcccCCCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHH
Confidence 3556678999999999999999999999999865321 123455 3789999999999999999999999998888777
Q ss_pred HHHHH
Q psy11433 141 GNIQT 145 (941)
Q Consensus 141 ~~l~~ 145 (941)
+.+..
T Consensus 280 ~~l~~ 284 (697)
T PRK11747 280 EKLLK 284 (697)
T ss_pred HHHHH
Confidence 77654
No 15
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.93 E-value=4.8e-25 Score=269.28 Aligned_cols=254 Identities=27% Similarity=0.318 Sum_probs=171.4
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 432 PVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 432 ~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
...||+.+||+.|.+||..|.+++.+++++++|||||||||++||+|++.|.+.++ .+++++|+|+.+++|+++|..
T Consensus 8 ~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~---~~viist~t~~lq~q~~~~~~ 84 (654)
T COG1199 8 AVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG---KKVIISTRTKALQEQLLEEDL 84 (654)
T ss_pred HhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcC---CcEEEECCCHHHHHHHHHhhc
Confidence 45789999999999999999999999999999999999999999999999999876 789999999999999999998
Q ss_pred HHHHHHhhcccccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHH
Q psy11433 512 RLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDIS 591 (941)
Q Consensus 512 ~~~~~~~~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~ 591 (941)
.+....... ......+.||.|+|+........ ........
T Consensus 85 ~~~~~~~~~----~~~~~~~kgr~n~~~~~~~~~~~------------------------------------~~~~~~~~ 124 (654)
T COG1199 85 PIHKLLKKL----GGKFALLKGRSNYLCLSRLERLA------------------------------------QLGGDDDD 124 (654)
T ss_pred chhhhhhhh----hhHHHHHhccccccchHHHHHHH------------------------------------HccCcchh
Confidence 874432211 22346788999998876432100 00000000
Q ss_pred HHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcccc
Q psy11433 592 VIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHS 671 (941)
Q Consensus 592 ~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~ 671 (941)
.+..+. -..+.. +..|....-+...+....... .+..
T Consensus 125 ~~~~~~--------------------~~~~~~-~~~~~~~~~~~~~~~~~~~~~----------------------~~~~ 161 (654)
T COG1199 125 YLQSLA--------------------LKALAD-LLVWLTETKTGDLRELTPKAL----------------------DDPL 161 (654)
T ss_pred HHhhhh--------------------HHHHHH-HHHHhhcCCCCChhhcccccc----------------------ccch
Confidence 000000 000001 222321111111111000000 0000
Q ss_pred cccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHH
Q psy11433 672 LTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPK 751 (941)
Q Consensus 672 L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~ 751 (941)
...+ ...+-.+.+ ..||| ...|||+.+++.+..||++|+||++++...
T Consensus 162 ~~~~--~~~~~~~~~-~~cp~-----------------------------~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~ 209 (654)
T COG1199 162 WTLV--TDDKDSCLG-EDCPY-----------------------------YTECFYFPARKEAENADLVVTNHALLLADV 209 (654)
T ss_pred hhhh--hcccccccc-cCCcc-----------------------------hhhhHHHHHHHHHhhCCEEEEccHHHHhHH
Confidence 0000 000001111 22433 335999999999999999999999999988
Q ss_pred HhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHh
Q psy11433 752 IANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEG 803 (941)
Q Consensus 752 ~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~ 803 (941)
........++++.++||||||||++.|+++.|..++..+|+.+.+++..+..
T Consensus 210 ~~~~~~~~~p~~~v~v~DEAH~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~ 261 (654)
T COG1199 210 ALEESRILLPENDVVVFDEAHNLPDIARSALSIRLSERTLERLLKEIQALGE 261 (654)
T ss_pred HhhhhhccCCcccEEEEeccccchHHHHHHHHHHhhHHHHHHHHHHHHHhhh
Confidence 7765544367899999999999999999999999999999999999987764
No 16
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.92 E-value=4.1e-24 Score=260.81 Aligned_cols=250 Identities=19% Similarity=0.243 Sum_probs=160.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh-----cCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHH-
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDA-----KGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVE- 508 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~-----~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~- 508 (941)
+|--++|+.|.+||..|++++.+ ++++++|||||||||++||.|++.|+..++ .++++.|+|+..|+|++.
T Consensus 21 ~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~---k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 21 LPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEK---KKLVISTATVALQEQLVSK 97 (697)
T ss_pred CCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcC---CeEEEEcCCHHHHHHHHhh
Confidence 45335999999999999999998 589999999999999999999999998765 789999999999999994
Q ss_pred HHHHHHHHHhhcccccceeeEEeccccc-ccccccccccchhhhhhhccccccccccccCCCcccccccccccccccccc
Q psy11433 509 ELARLFDYYIKHNEEINMTGLVLSSRKN-LCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETR 587 (941)
Q Consensus 509 el~~~~~~~~~~~~~~~~~~~~l~sr~~-lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r 587 (941)
+++.+.+. -...+++++++||.| +|++.-.....+ +... +. +..-|+..
T Consensus 98 DlP~l~~~-----l~~~~~~~llKGr~nYlCl~r~~~~l~~------------------~~~~------~~-~~~~~~~~ 147 (697)
T PRK11747 98 DLPLLLKI-----SGLDFKFTLAKGRGRYVCPRKLAALASD------------------EGTQ------QD-LLLFLDDE 147 (697)
T ss_pred hhhHHHHH-----cCCCceEEEEcCccccccHHHHHHHhcc------------------cccc------ch-hhhhcccc
Confidence 56665432 234688899999999 777542110000 0000 00 00000000
Q ss_pred ---ccHHHHHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhh---cCchhhhhhcccccccccccccchhhhhhhc
Q psy11433 588 ---DDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYD---QGIIDNLQKRKLLFIETQDALDSRSVSKERD 661 (941)
Q Consensus 588 ---~~~~~l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~---~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y 661 (941)
.....+.. +..+...|.. +|-++++... .....+
T Consensus 148 ~~~~~~~~~~~-------------------------l~~l~~~~~~~t~tGD~del~~~---------------~~~~~w 187 (697)
T PRK11747 148 LTPPDEEEQKL-------------------------LARLAKALATGKWDGDRDHWPEP---------------IDDSLW 187 (697)
T ss_pred ccCCCHHHHHH-------------------------HHHHHHHHhcCCCcCcHhhCcCC---------------CcHHHH
Confidence 00000000 0111222321 2333222110 000000
Q ss_pred cccccCcccccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEE
Q psy11433 662 GKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVV 741 (941)
Q Consensus 662 ~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi 741 (941)
.. +...+.-|-| ..|||++ .|||+.+|+.+..|||||
T Consensus 188 ~~-------------v~~~~~~C~~-~~Cp~~~-----------------------------~Cf~~~ar~~a~~AdivV 224 (697)
T PRK11747 188 QR-------------ITTDKHSCLG-RNCPYFR-----------------------------ECPFFKARREIDEADVVV 224 (697)
T ss_pred HH-------------hhcCccccCC-CCCCCCc-----------------------------cChHHHHHHHHhhCCEEE
Confidence 01 1111112222 2477776 499999999999999999
Q ss_pred eccccccCHHHhhHhhhhcc--CCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHH
Q psy11433 742 YSYHYLLDPKIANVVSKELA--RSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTL 801 (941)
Q Consensus 742 ~ny~yLld~~~~~~~~~~l~--~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~ 801 (941)
+||+|||.....+ .+.-|| +.+++||||||||+|++.++++.+++...+....+.+...
T Consensus 225 tNH~LLladl~~~-~~~iLp~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~ 285 (697)
T PRK11747 225 ANHDLVLADLELG-GGVVLPDPENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKL 285 (697)
T ss_pred ECcHHHHhhhhcc-CCcccCCCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHH
Confidence 9999999765321 122344 4789999999999999999999999998888777776543
No 17
>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=99.91 E-value=1.2e-25 Score=229.88 Aligned_cols=102 Identities=35% Similarity=0.732 Sum_probs=81.9
Q ss_pred CCCCchhhhhhc--cCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEE
Q psy11433 689 VCDFYEKFDAVG--REAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVV 766 (941)
Q Consensus 689 ~C~F~d~~~~~g--R~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~il 766 (941)
.|+|+.+..... .. .+...++|+++|++.|+..+.||||.+|..+.+|||||+||+|||+|.++..+....+++.+|
T Consensus 71 ~C~~~~~~~~~~~~~~-~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~iv 149 (174)
T PF06733_consen 71 SCPYYNNFDEIEELSD-LSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIV 149 (174)
T ss_dssp CSTTTTGGGG-HHHHH-HHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEE
T ss_pred ccchhHHHHhHHHhhh-hcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcEE
Confidence 588887431110 12 344588999999999999999999999999999999999999999999998886223478999
Q ss_pred EEeCCcCchHHhhhhcccccCHHHH
Q psy11433 767 VFDEAHNIDNVCVDSLSVRINRRTI 791 (941)
Q Consensus 767 IiDEAHNL~d~~~~~~S~~ls~~~l 791 (941)
||||||||+++|++++|++|+..+|
T Consensus 150 I~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 150 IFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp EETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred EEecccchHHHHHHHhcceechhhC
Confidence 9999999999999999999998875
No 18
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.91 E-value=7.8e-23 Score=256.77 Aligned_cols=81 Identities=16% Similarity=0.236 Sum_probs=69.2
Q ss_pred HhchhCCCCHHHHHHHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHH
Q psy11433 62 EMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVG 141 (941)
Q Consensus 62 ~~g~~~~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~ 141 (941)
..|..++.|||+.+|+.++.|||||+||+||+.+...+ ...||+..++||||||||+++|.++++..++...+....+
T Consensus 412 ~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~--~~ilp~~~~lViDEAH~l~d~A~~~~~~~~s~~~~~~~l~ 489 (928)
T PRK08074 412 KQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSE--EPLLPSYEHIIIDEAHHFEEAASRHLGEQFSYMSFQLLLS 489 (928)
T ss_pred CCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhh--cccCCCCCeEEEECCchHHHHHHHHhcceecHHHHHHHHH
Confidence 34556678999999999999999999999999865332 2246888999999999999999999999999999888877
Q ss_pred HHH
Q psy11433 142 NIQ 144 (941)
Q Consensus 142 ~l~ 144 (941)
.+.
T Consensus 490 ~l~ 492 (928)
T PRK08074 490 RLG 492 (928)
T ss_pred HHh
Confidence 764
No 19
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.90 E-value=4.4e-23 Score=258.99 Aligned_cols=235 Identities=17% Similarity=0.245 Sum_probs=162.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHH-HHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVE-ELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~-el~~~ 513 (941)
+|--++||.|.+||..|++++.+++++++|||||||||++||.|++.|+..++ .+++++|+|+..++|++. +++.+
T Consensus 253 ~~~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~---~~vvIsT~T~~LQ~Ql~~kDiP~L 329 (928)
T PRK08074 253 MPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKE---EPVVISTYTIQLQQQLLEKDIPLL 329 (928)
T ss_pred CCCCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccC---CeEEEEcCCHHHHHHHHHhhHHHH
Confidence 34335999999999999999999999999999999999999999999987654 789999999999999985 56665
Q ss_pred HHHHhhcccccceeeEEeccccc-ccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHHH
Q psy11433 514 FDYYIKHNEEINMTGLVLSSRKN-LCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISV 592 (941)
Q Consensus 514 ~~~~~~~~~~~~~~~~~l~sr~~-lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~ 592 (941)
.+. -...+++++++||.| +|+..-.... .....+++.
T Consensus 330 ~~~-----~~~~~~~~~lKGr~nYlcl~k~~~~l----------------------------------~~~~~~~~~--- 367 (928)
T PRK08074 330 QKI-----FPFPVEAALLKGRSHYLCLRKFEQAL----------------------------------QEEDDNYDV--- 367 (928)
T ss_pred HHH-----cCCCceEEEEEcccccccHHHHHHHH----------------------------------hccCCCHHH---
Confidence 432 234678899999999 6664311000 000000000
Q ss_pred HHHHhhhHhhhhcccCCceEEeccchHHHHHHHHHHhh---cCchhhhhhcccccccccccccchhhhhhhccccccCcc
Q psy11433 593 IRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYD---QGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRC 669 (941)
Q Consensus 593 l~~lg~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~---~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~G 669 (941)
..+..++..|.. +|=++++... ..+
T Consensus 368 --------------------------~~~~~~ll~Wl~~T~tGD~dEl~~~--------------------------~~~ 395 (928)
T PRK08074 368 --------------------------ALTKAQLLVWLTETETGDLDELNLP--------------------------SGG 395 (928)
T ss_pred --------------------------HHHHHHHHHHHccCCCCCHHHccCC--------------------------CCC
Confidence 001134556752 2333332110 000
Q ss_pred cccccchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccC
Q psy11433 670 HSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLD 749 (941)
Q Consensus 670 a~L~av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld 749 (941)
..+... ++..|.-+-| ..|||++ .|||+.+|+.+..|||||+||+||+.
T Consensus 396 ~~~w~~-i~~~~~~c~~-~~cp~~~-----------------------------~Cf~~~ar~~a~~AdivItNHalLl~ 444 (928)
T PRK08074 396 KLLWNR-IASDGESDGG-KQSPWFS-----------------------------RCFYQRAKNRAKFADLVITNHALLLT 444 (928)
T ss_pred cchHHH-hhccCcccCC-CCCCccc-----------------------------ccHHHHHHHHHhcCCEEEECHHHHHH
Confidence 100000 1111222222 2477765 49999999999999999999999997
Q ss_pred HHHhhHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHH
Q psy11433 750 PKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQ 799 (941)
Q Consensus 750 ~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~ 799 (941)
....+. ..+|+..++||||||||+|++.++++..++...+....+.+.
T Consensus 445 dl~~~~--~ilp~~~~lViDEAH~l~d~A~~~~~~~~s~~~~~~~l~~l~ 492 (928)
T PRK08074 445 DLTSEE--PLLPSYEHIIIDEAHHFEEAASRHLGEQFSYMSFQLLLSRLG 492 (928)
T ss_pred HHhhhc--ccCCCCCeEEEECCchHHHHHHHHhcceecHHHHHHHHHHHh
Confidence 653221 236788999999999999999999999999999888877654
No 20
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.89 E-value=4.4e-23 Score=257.77 Aligned_cols=227 Identities=20% Similarity=0.299 Sum_probs=156.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHH-HHHHHHHHHh
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVE-ELARLFDYYI 518 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~-el~~~~~~~~ 518 (941)
+||+|.+||..|++++.+|+++++|||||||||++||.|++.|+. + ..+++++|+|+..++|++. +++.+.+.+
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~---~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~- 320 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-T---EKPVVISTNTKVLQSQLLEKDIPLLNEIL- 320 (850)
T ss_pred cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-C---CCeEEEEeCcHHHHHHHHHHHHHHHHHHc-
Confidence 899999999999999999999999999999999999999999987 2 2589999999999999875 677764321
Q ss_pred hcccccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhh
Q psy11433 519 KHNEEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQ 598 (941)
Q Consensus 519 ~~~~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~ 598 (941)
...++.++++||.|+|+....... +.....+.+
T Consensus 321 ----~~~~~~~~~kG~~~ylcl~k~~~~---------------------------------l~~~~~~~~---------- 353 (850)
T TIGR01407 321 ----NFKINAALIKGKSNYLSLGKFSQI---------------------------------LKDNTDNYE---------- 353 (850)
T ss_pred ----CCCceEEEEEcchhhccHHHHHHH---------------------------------HhcCCCcHH----------
Confidence 235778999999998775322100 000000000
Q ss_pred hHhhhhcccCCceEEeccchHHHHHHHHHHhh---cCchhhhhhcccccccccccccchhhhhhhccccccCcccccccc
Q psy11433 599 LLVDIACVVPDGVVCFFTSYLYLESVVASWYD---QGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSS 675 (941)
Q Consensus 599 ~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~---~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av 675 (941)
.......+..|.. +|-++++... ..+..++.-
T Consensus 354 -------------------~~~~~~~~~~wl~~T~tGD~~el~~~--------------------------~~~~~~~~~ 388 (850)
T TIGR01407 354 -------------------FNIFKMQVLVWLTETETGDLDELNLK--------------------------GGNKMFFAQ 388 (850)
T ss_pred -------------------HHHHHHHHHHHhccCCccCHhhccCC--------------------------CcchhhHHH
Confidence 0001123455642 1222222110 000000000
Q ss_pred hhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhH
Q psy11433 676 SVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANV 755 (941)
Q Consensus 676 ~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~ 755 (941)
+...| +-| ..|+|++ .|||+.+|+.+.+|||||+||+|||++.....
T Consensus 389 -i~~~~--~l~-~~c~~~~-----------------------------~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~~ 435 (850)
T TIGR01407 389 -VRHDG--NLS-KKDLFYE-----------------------------VDFYNRAQKNAEQAQILITNHAYLITRLVDNP 435 (850)
T ss_pred -hhcCC--CCC-CCCCCcc-----------------------------ccHHHHHHHHHhcCCEEEecHHHHHHHhhccc
Confidence 00011 111 1355544 69999999999999999999999998864431
Q ss_pred hhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHH
Q psy11433 756 VSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNI 798 (941)
Q Consensus 756 ~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l 798 (941)
..+++..++||||||||+|+++++++..++...+....+.+
T Consensus 436 --~ilp~~~~lIiDEAH~L~d~a~~~~~~~ls~~~~~~~l~~l 476 (850)
T TIGR01407 436 --ELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQIDLI 476 (850)
T ss_pred --ccCCCCCEEEEECcchHHHHHHHHhcceeCHHHHHHHHHHH
Confidence 23567789999999999999999999999999998887776
No 21
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.88 E-value=8.9e-23 Score=224.84 Aligned_cols=146 Identities=43% Similarity=0.760 Sum_probs=123.2
Q ss_pred hHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhhcCcEEEEc
Q psy11433 9 IVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYS 88 (941)
Q Consensus 9 ~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~~AdIVv~~ 88 (941)
..++.|++|+..|.+.+...+.+...|+|+++.........+..+++|+||++.+|++++.||||.+|+.+++|||||+|
T Consensus 139 ~~~~~C~~l~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~n 218 (289)
T smart00488 139 VVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLP 218 (289)
T ss_pred hHHHHHHHHHhhccccccccccCCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEEC
Confidence 45589999998876544333345568999988654322334557899999999999999999999999999999999999
Q ss_pred cccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHHHHHHHHHHHHhH
Q psy11433 89 YHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKE 155 (941)
Q Consensus 89 y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l~~~~~~~~rlk~ 155 (941)
|+|||+|.+++.+++.+ ++++|||||||||+++|++++|.+|+..+|..+..+|..+...+..++.
T Consensus 219 y~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~ 284 (289)
T smart00488 219 YQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEKIRE 284 (289)
T ss_pred HHHHhcHHHHHHhcccc-cccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999998888877 5899999999999999999999999999999999999988776655443
No 22
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.88 E-value=8.9e-23 Score=224.84 Aligned_cols=146 Identities=43% Similarity=0.760 Sum_probs=123.2
Q ss_pred hHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhhcCcEEEEc
Q psy11433 9 IVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYS 88 (941)
Q Consensus 9 ~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~~AdIVv~~ 88 (941)
..++.|++|+..|.+.+...+.+...|+|+++.........+..+++|+||++.+|++++.||||.+|+.+++|||||+|
T Consensus 139 ~~~~~C~~l~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~n 218 (289)
T smart00489 139 VVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLP 218 (289)
T ss_pred hHHHHHHHHHhhccccccccccCCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEEC
Confidence 45589999998876544333345568999988654322334557899999999999999999999999999999999999
Q ss_pred cccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHHHHHHHHHHHHhH
Q psy11433 89 YHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKE 155 (941)
Q Consensus 89 y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l~~~~~~~~rlk~ 155 (941)
|+|||+|.+++.+++.+ ++++|||||||||+++|++++|.+|+..+|..+..+|..+...+..++.
T Consensus 219 y~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~ 284 (289)
T smart00489 219 YQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEKIRE 284 (289)
T ss_pred HHHHhcHHHHHHhcccc-cccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999998888877 5899999999999999999999999999999999999988776655443
No 23
>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=99.86 E-value=3.7e-23 Score=211.54 Aligned_cols=123 Identities=33% Similarity=0.692 Sum_probs=99.5
Q ss_pred CchhhHHHHhhhhhhhhhhhhhhcCCCCCCCcCccCcccc-cccCCCCCCCCCHHHHHHhchhCCCCHHHHHHHHhhcCc
Q psy11433 5 RDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAV-GREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAK 83 (941)
Q Consensus 5 ~~~~~i~~~C~~L~~~~~~~~~~~~~~~~~C~fy~~~~~~-~~~~~l~~~i~diEdL~~~g~~~~~CPY~~aR~~~~~Ad 83 (941)
..++.+++.|.+|.+.+.+. ..|+||.+.... ........+++|+|+|++.|+.++.||||.+|..+.+||
T Consensus 50 ~~~~~~~~~C~~l~~~~~~~--------~~C~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~ad 121 (174)
T PF06733_consen 50 ANNEDINEFCRELRKSGKRK--------ESCPYYNNFDEIEELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNAD 121 (174)
T ss_dssp -SHHHHHHHHHHHHHHHHCT--------CCSTTTTGGGG-HHHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-S
T ss_pred hhhhhHHHHHHHhhcccccc--------cccchhHHHHhHHHhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCC
Confidence 34788999999999875422 479999887321 112334578999999999999999999999999999999
Q ss_pred EEEEccccccChhhhhHhh-hhcCCCcEEEEecCccccHHhhhhcccccCHHHH
Q psy11433 84 IVVYSYHYLLDPKIANVVS-KELARSSVVVFDEAHNIDNVCVDSLSVRINRRTI 136 (941)
Q Consensus 84 IVv~~y~yLl~~~~r~~~~-~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l 136 (941)
|||+||+|||+|.++..+. +.+ ++.+|||||||||+++|++++|++|+..+|
T Consensus 122 ivi~~y~yl~~~~~~~~~~~~~~-~~~ivI~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 122 IVICNYNYLFDPSIRKSLFGIDL-KDNIVIFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp EEEEETHHHHSHHHHHHHCT--C-CCEEEEETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred EEEeCHHHHhhHHHHhhhccccc-cCcEEEEecccchHHHHHHHhcceechhhC
Confidence 9999999999999998876 544 789999999999999999999999998876
No 24
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=99.84 E-value=1.8e-20 Score=223.23 Aligned_cols=233 Identities=16% Similarity=0.166 Sum_probs=153.5
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH-HHHhhcc
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF-DYYIKHN 521 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~-~~~~~~~ 521 (941)
+|.+||+.|++++.+++++++|||||||||++||+|++.|+..+. ..+++++|+|+.+++|++++++.+. +.
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~--~~rvlIstpT~~Lq~Ql~~~l~~l~~~~----- 73 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP--DQKIAIAVPTLALMGQLWSELERLTAEG----- 73 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc--CceEEEECCcHHHHHHHHHHHHHHHHhh-----
Confidence 599999999999999999999999999999999999999987431 3789999999999999999998875 22
Q ss_pred cccceeeEEecccccccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHHhhhHh
Q psy11433 522 EEINMTGLVLSSRKNLCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNYGQLLV 601 (941)
Q Consensus 522 ~~~~~~~~~l~sr~~lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~lg~~l~ 601 (941)
-...++++.++||.|+|+....... +...+
T Consensus 74 l~~~i~~~~lkGr~nYlCl~rl~~~-------------------------------------l~~~~------------- 103 (636)
T TIGR03117 74 LAGPVQAGFFPGSQEFVSPGALQEL-------------------------------------LDQSG------------- 103 (636)
T ss_pred cCCCeeEEEEECCcccccHHHHHHH-------------------------------------hcccc-------------
Confidence 1236778899999997775432100 00000
Q ss_pred hhhcccCCceEEeccchHHHHHHHHHHhhcC--chhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhc
Q psy11433 602 DIACVVPDGVVCFFTSYLYLESVVASWYDQG--IIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRD 679 (941)
Q Consensus 602 ~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~g--i~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~ 679 (941)
..++ ..+..|.... .+-+...++ .+.. .+.-.+. .
T Consensus 104 ----------------~~~~-~~i~~W~~~T~~~~~~~~~~~------------------~~~~-----~~~~~~~---~ 140 (636)
T TIGR03117 104 ----------------YDKD-PAVQLWIGQGGPLIHEAALIR------------------CMSD-----APTKMHW---M 140 (636)
T ss_pred ----------------hhHH-HHHHHHHhcCCccccccchhc------------------cccc-----hhhccCC---C
Confidence 0111 2234575321 000000000 0000 0000000 1
Q ss_pred ccccCC---CCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHH---HHccCEEEeccccccCHHHh
Q psy11433 680 RHKAGE---NIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQA---IIHAKIVVYSYHYLLDPKIA 753 (941)
Q Consensus 680 rGK~sE---Gid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~---~~~AdiIi~ny~yLld~~~~ 753 (941)
.|..+| ..+.|++.. ..-++ ...+ |+|..+|+. +..|||||+||++|+. ..+
T Consensus 141 tGD~~el~~~~~~~~~~~---~~~~~-----------------~~~~-~~~~~aR~~~~~a~~AdivItNHalL~~-~~~ 198 (636)
T TIGR03117 141 THDLKAVATLLNRQDDVT---LAIRE-----------------DDED-KRLVESREYEAEARRCRILFCTHAMLGL-AFR 198 (636)
T ss_pred CCCHhhccCCcCcchhhh---ccccC-----------------CCcc-cHHHHHHHHhhccccCCEEEECHHHHHH-Hhh
Confidence 122222 111121111 00111 1123 889999999 9999999999999996 444
Q ss_pred hHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHH
Q psy11433 754 NVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNI 798 (941)
Q Consensus 754 ~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l 798 (941)
...+ .+++.++|||||||||++++.++++..++..++....+.+
T Consensus 199 ~~~~-iLP~~~~lIiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l 242 (636)
T TIGR03117 199 DKWG-LLPQPDILIVDEAHLFEQNISRVYSNALSLRRLHLYVEKR 242 (636)
T ss_pred hhcC-CCCCCCEEEEeCCcchHHHHHHHhccEECHHHHHHHHHHH
Confidence 4333 4678899999999999999999999999999988888755
No 25
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.81 E-value=7.3e-19 Score=217.74 Aligned_cols=75 Identities=17% Similarity=0.193 Sum_probs=60.0
Q ss_pred hchhCCCCHHHHHHHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHH
Q psy11433 63 MGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAV 140 (941)
Q Consensus 63 ~g~~~~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~ 140 (941)
-|..++.|+|+.+|+.++.|||||+||+||++..... ..+|...+|||||||||++++....+..++...+....
T Consensus 395 ~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l 469 (820)
T PRK07246 395 SSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTI 469 (820)
T ss_pred CCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHH
Confidence 3566678999999999999999999999999854222 23678899999999999998776666667777766443
No 26
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.81 E-value=5.6e-19 Score=218.73 Aligned_cols=220 Identities=16% Similarity=0.253 Sum_probs=145.3
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHH-HHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVV-EELARLFDYY 517 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i-~el~~~~~~~ 517 (941)
++|+.|.+||..|++++.+++++++|||||||||++||.|++.+.. ..++++.|+|...++|++ ++++.+.+.
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~-----~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~- 318 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD-----QRQIIVSVPTKILQDQIMAEEVKAIQEV- 318 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC-----CCcEEEEeCcHHHHHHHHHHHHHHHHHh-
Confidence 4999999999999999999999999999999999999999988652 367999999999999997 667766432
Q ss_pred hhcccccceeeEEeccccc-ccccccccccchhhhhhhccccccccccccCCCccccccccccccccccccccHHHHHHH
Q psy11433 518 IKHNEEINMTGLVLSSRKN-LCIHSEFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRDDISVIRNY 596 (941)
Q Consensus 518 ~~~~~~~~~~~~~l~sr~~-lC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~r~~~~~l~~l 596 (941)
..++...++|+.| +|...-..... .++ .+++.
T Consensus 319 ------~~~~~~~~kg~~~ylcl~k~~~~l~------------------~~~----------------~~~~~------- 351 (820)
T PRK07246 319 ------FHIDCHSLKGPQNYLKLDAFYDSLQ------------------QND----------------DNRLV------- 351 (820)
T ss_pred ------cCCcEEEEECCcccccHHHHHHHhh------------------ccC----------------cchHH-------
Confidence 2445567888888 66643110000 000 00000
Q ss_pred hhhHhhhhcccCCceEEeccchHHHHHHHHHHhh---cCchhhhhhcccccccccccccchhhhhhhccccccCcccccc
Q psy11433 597 GQLLVDIACVVPDGVVCFFTSYLYLESVVASWYD---QGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLT 673 (941)
Q Consensus 597 g~~l~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~---~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~ 673 (941)
...-..+-.|.. +|-++++... ..+..+.
T Consensus 352 ----------------------~~~~~~il~Wl~~T~tGD~~El~~~--------------------------~~~~~~w 383 (820)
T PRK07246 352 ----------------------NRYKMQLLVWLTETETGDLDEIKQK--------------------------QRYAAYF 383 (820)
T ss_pred ----------------------HHHHHHHHHHHhcCCCCCHhhccCC--------------------------ccccHHH
Confidence 000123456742 2333332210 0000000
Q ss_pred cchhhcccccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHh
Q psy11433 674 SSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIA 753 (941)
Q Consensus 674 av~~~~rGK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~ 753 (941)
.- ++..|.+ | ..|||++ .|+|..+|+.+++|||||+||+||+.....
T Consensus 384 ~~-i~~~~~~--~-~~cp~~~-----------------------------~cf~~~ar~~a~~AdivItNHall~~~~~~ 430 (820)
T PRK07246 384 DQ-LKHDGNL--S-QSSLFYD-----------------------------YDFWKRSYEKAKTARLLITNHAYFLTRVQD 430 (820)
T ss_pred HH-hhccCCC--C-CCCCcch-----------------------------hhHHHHHHHHHHhCCEEEEchHHHHHHHhh
Confidence 00 0011111 1 1477766 499999999999999999999999874422
Q ss_pred hHhhhhccCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHH
Q psy11433 754 NVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAV 795 (941)
Q Consensus 754 ~~~~~~l~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~ 795 (941)
. ..+++..+|||||||+|++++.......++...+....
T Consensus 431 ~---~~~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l 469 (820)
T PRK07246 431 D---KDFARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTI 469 (820)
T ss_pred c---cCCCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHH
Confidence 2 23678899999999999999887777667666665543
No 27
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=99.60 E-value=3.5e-17 Score=166.46 Aligned_cols=166 Identities=22% Similarity=0.349 Sum_probs=96.9
Q ss_pred hhhhcccCCceEEeccchHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhcc
Q psy11433 601 VDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDR 680 (941)
Q Consensus 601 ~~~~~~vp~Gi~~Ff~Sy~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~r 680 (941)
.++++.+|+|++||||||.+|+.+...|.+.+. ...+.+|.|.. .+.. ..++.|.+ +.|++|++| .|
T Consensus 2 ~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----~~~~~v~~q~~--~~~~-~~l~~~~~---~~~~il~~v---~~ 68 (167)
T PF13307_consen 2 LELISAVPGGVLVFFPSYRRLEKVYERLKERLE----EKGIPVFVQGS--KSRD-ELLEEFKR---GEGAILLAV---AG 68 (167)
T ss_dssp HHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEESTC--CHHH-HHHHHHCC---SSSEEEEEE---TT
T ss_pred hHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----cccceeeecCc--chHH-HHHHHHHh---ccCeEEEEE---ec
Confidence 356788999999999999999999999976442 22346777742 2222 45555555 679999999 99
Q ss_pred cccCCCCCCCCCchhhhhhccCCCCCCCCCCHHHHHHhchhcCcCChHHHHHHHHccCEEEeccccccCHHHhhHhhhhc
Q psy11433 681 HKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKEL 760 (941)
Q Consensus 681 GK~sEGid~C~F~d~~~~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l 760 (941)
|+++|||| |.+ +..|+ |++ .| -||+...+....+..
T Consensus 69 g~~~EGiD---~~~---~~~r~-vii---------------~g-lPfp~~~d~~~~~~~--------------------- 104 (167)
T PF13307_consen 69 GSFSEGID---FPG---DLLRA-VII---------------VG-LPFPPPSDPLVQAKR--------------------- 104 (167)
T ss_dssp SCCGSSS-----EC---ESEEE-EEE---------------ES------TTCHHHHHHH---------------------
T ss_pred ccEEEeec---CCC---chhhe-eee---------------cC-CCCCCCCCHHHHHHH---------------------
Confidence 99999999 998 88898 777 67 888653211111000
Q ss_pred cCCcEEEEeCCcCchHHhhhhcccccCHHHHHHHHHHHHHHHhHHHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccc
Q psy11433 761 ARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVL 840 (941)
Q Consensus 761 ~~~~ilIiDEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~ 840 (941)
.|.++... .... +|+.. ..++
T Consensus 105 ---------------------------------------~~~~~~~~------~~~~-------~~~~~-------~a~~ 125 (167)
T PF13307_consen 105 ---------------------------------------EYLDKQGK------NPFR-------DWYLP-------PAIR 125 (167)
T ss_dssp ---------------------------------------HHHHHCCT------TCHH-------HHTHH-------HHHH
T ss_pred ---------------------------------------HHHHHHhc------cchh-------hHhhH-------HHHH
Confidence 00000000 0000 11111 1122
Q ss_pred cCCCChhhhhhcCCCceEEEechhhhccccccCCchHHHHhh
Q psy11433 841 ANPVLPDEILQGKTDYGIMIFADKRFARSDKRSKLPKWIQEY 882 (941)
Q Consensus 841 ~~~~~igr~ir~~~d~~~~il~d~r~~~~~~~~kl~~wi~~~ 882 (941)
...|++||+|||.+|||+++++|+||......+.||.|++++
T Consensus 126 ~l~Qa~GR~iR~~~D~g~i~llD~R~~~~~y~~~l~~~l~~~ 167 (167)
T PF13307_consen 126 KLKQAIGRLIRSEDDYGVIILLDSRFLSKRYGKYLPKWLPPY 167 (167)
T ss_dssp HHHHHHHCC--STT-EEEEEEESGGGGGHHHHHH-T------
T ss_pred HHhhhcCcceeccCCcEEEEEEcCccccchhhhcCccccccC
Confidence 345679999999999999999999999988899999999875
No 28
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=99.58 E-value=2.5e-13 Score=162.55 Aligned_cols=73 Identities=15% Similarity=0.107 Sum_probs=64.0
Q ss_pred CCHHHHHHHH---hhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhhhhcccccCHHHHHHHHHHH
Q psy11433 69 LCPYFLARQA---IIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNI 143 (941)
Q Consensus 69 ~CPY~~aR~~---~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~~~~S~~is~~~l~~a~~~l 143 (941)
.|+|+.+|+. ++.|||||+||+||+. ..++..+ .||+.++|||||||||++++.+.++..++..+|......+
T Consensus 167 ~~~~~~aR~~~~~a~~AdivItNHalL~~-~~~~~~~-iLP~~~~lIiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l 242 (636)
T TIGR03117 167 DKRLVESREYEAEARRCRILFCTHAMLGL-AFRDKWG-LLPQPDILIVDEAHLFEQNISRVYSNALSLRRLHLYVEKR 242 (636)
T ss_pred ccHHHHHHHHhhccccCCEEEECHHHHHH-HhhhhcC-CCCCCCEEEEeCCcchHHHHHHHhccEECHHHHHHHHHHH
Confidence 4789999999 9999999999999997 4555443 4688899999999999999999999999999988887765
No 29
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.38 E-value=3.3e-14 Score=140.71 Aligned_cols=82 Identities=32% Similarity=0.520 Sum_probs=67.4
Q ss_pred hHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhhh
Q psy11433 618 YLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFD 697 (941)
Q Consensus 618 y~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~ 697 (941)
|.+|+.+.+.|.+++++ .+.|.+|+|+++..+.. ..++.|.+..+..|++|++| ++||++|||| |.+
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~-~~l~~f~~~~~~~g~iL~~v---~~G~~~EGiD---~~g--- 67 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETE-ELLEKYSAACEARGALLLAV---ARGKVSEGID---FPD--- 67 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHH-HHHHHHHHhcCCCCEEEEEE---eCCeeeccee---cCC---
Confidence 67899999999988776 45688999998766543 56777877544449999999 9999999999 999
Q ss_pred hhccCCCCCCCCCCHHHHHHhchhcCcCChHH
Q psy11433 698 AVGREAPLAPGVYSITKLKEMGRELGLCPYFL 729 (941)
Q Consensus 698 ~~gR~~vi~~~v~diedL~~~g~~~g~CPY~~ 729 (941)
+.+|+ |++ .| -||+.
T Consensus 68 ~~~r~-vii---------------~g-lPfp~ 82 (142)
T smart00491 68 DLGRA-VII---------------VG-IPFPN 82 (142)
T ss_pred CccEE-EEE---------------Ee-cCCCC
Confidence 88899 877 67 78876
No 30
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.17 E-value=3.4e-12 Score=126.20 Aligned_cols=74 Identities=26% Similarity=0.412 Sum_probs=61.7
Q ss_pred hHHHHHHHHHHhhcCchhhhhhcccccccccccccchhhhhhhccccccCcccccccchhhcccccCCCCCCCCCchhhh
Q psy11433 618 YLYLESVVASWYDQGIIDNLQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFD 697 (941)
Q Consensus 618 y~~~~~~l~~w~~~gi~~~l~~~K~if~E~~~~~~~~~~~l~~y~~~~~~~Ga~L~av~~~~rGK~sEGid~C~F~d~~~ 697 (941)
|.+|+.+.+.|.+.|.|++|.+.|.+|+|+++..+.. ..++.|.+. ..+++|++| ++ ++||+| |.+
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~-~~l~~f~~~--~~~~iL~~~---~~--~~EGiD---~~g--- 66 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETG-KLLEKYVEA--CENAILLAT---AR--FSEGVD---FPG--- 66 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHH-HHHHHHHHc--CCCEEEEEc---cc--eeccee---cCC---
Confidence 6789999999999999999999999999998765544 566667653 223899999 65 999999 999
Q ss_pred hhccCCCCC
Q psy11433 698 AVGREAPLA 706 (941)
Q Consensus 698 ~~gR~~vi~ 706 (941)
+.+|+ |++
T Consensus 67 ~~~r~-vii 74 (141)
T smart00492 67 DYLRA-VII 74 (141)
T ss_pred CCeeE-EEE
Confidence 88898 777
No 31
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.28 E-value=3.4e-06 Score=87.94 Aligned_cols=76 Identities=21% Similarity=0.213 Sum_probs=63.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC-CCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP-LDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~-~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+.++.||+.|.+.+..+.+ |+++++++|||+|||++++.|++..+.... ....++++.+++.....|..++++.+
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 4667799999888877665 899999999999999999999998777641 13468899999999999999888876
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
.
T Consensus 93 ~ 93 (203)
T cd00268 93 G 93 (203)
T ss_pred h
Confidence 4
No 32
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.06 E-value=1.5e-05 Score=93.13 Aligned_cols=76 Identities=20% Similarity=0.206 Sum_probs=62.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC------CCCceEEEeccccchhHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP------LDVTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~------~~~~ki~~ct~t~~q~~q~i~ 508 (941)
+.|..|+|+|.+.+ ..+..|+++++.||||||||++|+.|++..+...+ ....++++.++|.....|+.+
T Consensus 26 ~g~~~pt~iQ~~ai----p~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~ 101 (423)
T PRK04837 26 KGFHNCTPIQALAL----PLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHA 101 (423)
T ss_pred CCCCCCCHHHHHHH----HHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHH
Confidence 56778999997655 45667899999999999999999999998775432 124678999999999999999
Q ss_pred HHHHHH
Q psy11433 509 ELARLF 514 (941)
Q Consensus 509 el~~~~ 514 (941)
++..+.
T Consensus 102 ~~~~l~ 107 (423)
T PRK04837 102 DAEPLA 107 (423)
T ss_pred HHHHHh
Confidence 888774
No 33
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.04 E-value=9.7e-06 Score=82.23 Aligned_cols=68 Identities=26% Similarity=0.440 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHHHHHHHhc---CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAK---GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~---~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
++||.|.+.+..+.+.++.+ +++++.+|||+|||...+..+....+ ++++.+++.....|..+++...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~-------~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR-------KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC-------EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc-------ceeEecCHHHHHHHHHHHHHHh
Confidence 37999999999999999975 99999999999999999976655543 7888888888888998888544
No 34
>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=98.03 E-value=1.6e-05 Score=79.81 Aligned_cols=67 Identities=19% Similarity=0.265 Sum_probs=56.3
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+|.|.+.+..+. +|+++++.||||+|||.+++.+++..+.+.+ ..++++...+.....|..+++...
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~~--~~~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEGK--DARVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTTS--SSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccCC--CceEEEEeeccccccccccccccc
Confidence 478877777665 6899999999999999999999998887652 258899999999999999888776
No 35
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.00 E-value=2.2e-05 Score=92.06 Aligned_cols=77 Identities=19% Similarity=0.144 Sum_probs=62.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC---CCCceEEEeccccchhHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP---LDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~---~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.-|..|+++|.+.+..+ .+|+.+++.||||+|||++|+.|++.++...+ ....+++++++|.....|+.+.+.
T Consensus 19 ~g~~~p~~iQ~~ai~~~----~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~ 94 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPA----LDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAR 94 (434)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHH
Confidence 45678999997766554 46889999999999999999999999886532 123689999999999999999888
Q ss_pred HHHH
Q psy11433 512 RLFD 515 (941)
Q Consensus 512 ~~~~ 515 (941)
.+..
T Consensus 95 ~l~~ 98 (434)
T PRK11192 95 ELAK 98 (434)
T ss_pred HHHc
Confidence 7743
No 36
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=97.94 E-value=2.2e-05 Score=92.72 Aligned_cols=76 Identities=18% Similarity=0.200 Sum_probs=62.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
..|++|+|+|.+.+.. +.+|+++++.||||||||++|+.|++..+.... ...++++.+.|.....|+.++++.+.
T Consensus 22 ~g~~~~t~iQ~~ai~~----~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~-~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 22 LGYTEMTPIQAQSLPA----ILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKR-FRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCCCCHHHHHHHHH----HhcCCCEEEECCCCCcHHHHHHHHHHHHhhhcc-CCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 4567799999666654 457899999999999999999999999886432 23578888999999999999998875
Q ss_pred H
Q psy11433 515 D 515 (941)
Q Consensus 515 ~ 515 (941)
.
T Consensus 97 ~ 97 (460)
T PRK11776 97 R 97 (460)
T ss_pred h
Confidence 3
No 37
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.93 E-value=3.4e-05 Score=92.57 Aligned_cols=76 Identities=20% Similarity=0.133 Sum_probs=60.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC------CCCCceEEEeccccchhHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH------PLDVTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~------~~~~~ki~~ct~t~~q~~q~i~ 508 (941)
..|+.|+|+|.+.+..+ ..|+++++.||||+|||++|+.|++..+... .....++++.+.|.....|+.+
T Consensus 139 ~g~~~ptpiQ~~aip~i----l~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~ 214 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAA----LSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVED 214 (518)
T ss_pred cCCCCCCHHHHHHHHHH----hcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHH
Confidence 45788999997776554 4789999999999999999999999876431 1134678999999999889888
Q ss_pred HHHHHH
Q psy11433 509 ELARLF 514 (941)
Q Consensus 509 el~~~~ 514 (941)
+++.+.
T Consensus 215 ~~~~l~ 220 (518)
T PLN00206 215 QAKVLG 220 (518)
T ss_pred HHHHHh
Confidence 877663
No 38
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=97.91 E-value=3.6e-05 Score=90.90 Aligned_cols=77 Identities=14% Similarity=0.090 Sum_probs=62.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC-----CCceEEEeccccchhHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL-----DVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~-----~~~ki~~ct~t~~q~~q~i~e 509 (941)
+-|..|+|+|.+.+.. +.+|+.+|+.||||||||++|+.|++..+..... ...++++.++|.....|+.++
T Consensus 19 ~g~~~pt~iQ~~ai~~----il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~ 94 (456)
T PRK10590 19 QGYREPTPIQQQAIPA----VLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGEN 94 (456)
T ss_pred CCCCCCCHHHHHHHHH----HhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHH
Confidence 4567799999777654 4568999999999999999999999988765321 235789999999999999999
Q ss_pred HHHHHH
Q psy11433 510 LARLFD 515 (941)
Q Consensus 510 l~~~~~ 515 (941)
++.+..
T Consensus 95 ~~~~~~ 100 (456)
T PRK10590 95 VRDYSK 100 (456)
T ss_pred HHHHhc
Confidence 887743
No 39
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.90 E-value=3.7e-05 Score=93.20 Aligned_cols=76 Identities=16% Similarity=0.150 Sum_probs=62.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC------CCCceEEEeccccchhHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP------LDVTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~------~~~~ki~~ct~t~~q~~q~i~ 508 (941)
+-|+.|+|+|.+.+- .+..|+.+++.||||||||++|+.|++..+...+ ....++++.+.|.....|+.+
T Consensus 27 ~g~~~ptpiQ~~~ip----~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~ 102 (572)
T PRK04537 27 AGFTRCTPIQALTLP----VALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHK 102 (572)
T ss_pred CCCCCCCHHHHHHHH----HHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHH
Confidence 567789999977664 4557899999999999999999999998765321 123689999999999999999
Q ss_pred HHHHHH
Q psy11433 509 ELARLF 514 (941)
Q Consensus 509 el~~~~ 514 (941)
++.++.
T Consensus 103 ~~~~l~ 108 (572)
T PRK04537 103 DAVKFG 108 (572)
T ss_pred HHHHHh
Confidence 988764
No 40
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=97.89 E-value=4.2e-05 Score=93.49 Aligned_cols=76 Identities=18% Similarity=0.187 Sum_probs=62.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
..|++|+|+|.+.+. .+..|+.+|+.||||||||++++.|++..+.... ...++++.++|.....|+.+++..+.
T Consensus 24 ~G~~~ptpiQ~~ai~----~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~-~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 24 LGYEKPSPIQAECIP----HLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPEL-KAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCCCCCHHHHHHHH----HHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhcc-CCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 567789999977654 4457899999999999999999999998775432 34678999999999999999988775
Q ss_pred H
Q psy11433 515 D 515 (941)
Q Consensus 515 ~ 515 (941)
.
T Consensus 99 ~ 99 (629)
T PRK11634 99 K 99 (629)
T ss_pred h
Confidence 4
No 41
>PTZ00424 helicase 45; Provisional
Probab=97.85 E-value=4.1e-05 Score=88.51 Aligned_cols=76 Identities=16% Similarity=0.121 Sum_probs=60.8
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+.|+.|+|+|.+.+.. +.+|...++.||||+|||++|+.|++.++... ....++++.+++.....|+.+.+..+
T Consensus 45 ~~~~~~~~~~Q~~ai~~----i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~-~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 45 SYGFEKPSAIQQRGIKP----ILDGYDTIGQAQSGTGKTATFVIAALQLIDYD-LNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred HcCCCCCCHHHHHHHHH----HhCCCCEEEECCCCChHHHHHHHHHHHHhcCC-CCCceEEEECCCHHHHHHHHHHHHHH
Confidence 36677899999766655 45688999999999999999999999887643 23467899999998888887777665
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
.
T Consensus 120 ~ 120 (401)
T PTZ00424 120 G 120 (401)
T ss_pred h
Confidence 3
No 42
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=97.80 E-value=4.5e-05 Score=94.99 Aligned_cols=72 Identities=14% Similarity=0.158 Sum_probs=60.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 436 PYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 436 Py~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
-|+.||++|.+.+. ++.+|+++++.||||||||++|+.|+|..+..++ ..+++|.+.|.....|..++++.+
T Consensus 33 g~~~p~~~Q~~ai~----~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~--~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 33 GIHRPWQHQARAAE----LAHAGRHVVVATGTASGKSLAYQLPVLSALADDP--RATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CCCcCCHHHHHHHH----HHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC--CcEEEEEcChHHHHHHHHHHHHHh
Confidence 45679999966554 5568999999999999999999999999886542 468899999999999999888876
No 43
>PTZ00110 helicase; Provisional
Probab=97.78 E-value=5.3e-05 Score=91.38 Aligned_cols=76 Identities=20% Similarity=0.119 Sum_probs=61.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC----CCCceEEEeccccchhHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----LDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----~~~~ki~~ct~t~~q~~q~i~el 510 (941)
.-|++|+|+|.+.+ ..+..|+.+|+.||||+|||++|+.|++..+...+ .+...+++.++|.....|+.+++
T Consensus 148 ~g~~~pt~iQ~~ai----p~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~ 223 (545)
T PTZ00110 148 AGFTEPTPIQVQGW----PIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQC 223 (545)
T ss_pred CCCCCCCHHHHHHH----HHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHH
Confidence 35678999997765 45567899999999999999999999998775432 12456889999999999999988
Q ss_pred HHHH
Q psy11433 511 ARLF 514 (941)
Q Consensus 511 ~~~~ 514 (941)
.++.
T Consensus 224 ~~~~ 227 (545)
T PTZ00110 224 NKFG 227 (545)
T ss_pred HHHh
Confidence 8774
No 44
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.76 E-value=6.7e-05 Score=89.04 Aligned_cols=76 Identities=21% Similarity=0.229 Sum_probs=62.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCC------CceEEEeccccchhHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLD------VTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~------~~ki~~ct~t~~q~~q~i~ 508 (941)
+-|+.||++|.+.+. .+.+|+++|+.||||||||++|+.|++.-+...+.. ..+++|...|.....|+.+
T Consensus 105 ~g~~~~~~iQ~~ai~----~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~ 180 (475)
T PRK01297 105 LGFPYCTPIQAQVLG----YTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAK 180 (475)
T ss_pred CCCCCCCHHHHHHHH----HHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHH
Confidence 456679999976654 556789999999999999999999999877654311 3578999999999999999
Q ss_pred HHHHHH
Q psy11433 509 ELARLF 514 (941)
Q Consensus 509 el~~~~ 514 (941)
+++.+.
T Consensus 181 ~~~~l~ 186 (475)
T PRK01297 181 DAAALT 186 (475)
T ss_pred HHHHhh
Confidence 888774
No 45
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.73 E-value=7.1e-05 Score=88.77 Aligned_cols=69 Identities=20% Similarity=0.229 Sum_probs=54.4
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
-.|.|+.+||.|.+.+.. +.+|+.+++.||||+|||++|+.|++.. ....++.+++...+.|.++.+..
T Consensus 5 ~~~g~~~~r~~Q~~ai~~----~l~g~dvlv~apTGsGKTl~y~lp~l~~-------~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINA----VLLGRDCFVVMPTGGGKSLCYQLPALCS-------DGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred hhcCCCCCCHHHHHHHHH----HHcCCCEEEEcCCCCcHhHHHHHHHHHc-------CCcEEEEecHHHHHHHHHHHHHH
Confidence 468899999999776654 4568899999999999999999999852 13567778888887777766653
No 46
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.62 E-value=0.00018 Score=88.97 Aligned_cols=77 Identities=23% Similarity=0.239 Sum_probs=67.4
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.+||+ |++.|.+.+..+..-+..+ .+.++.||||+|||++++.|++..+... .++++.++|.....|..+.++
T Consensus 257 ~l~f~-lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g----~q~lilaPT~~LA~Q~~~~l~ 331 (681)
T PRK10917 257 SLPFE-LTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG----YQAALMAPTEILAEQHYENLK 331 (681)
T ss_pred hCCCC-CCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC----CeEEEEeccHHHHHHHHHHHH
Confidence 47885 9999999999999988765 4789999999999999999999887643 578899999999999999999
Q ss_pred HHHH
Q psy11433 512 RLFD 515 (941)
Q Consensus 512 ~~~~ 515 (941)
++..
T Consensus 332 ~l~~ 335 (681)
T PRK10917 332 KLLE 335 (681)
T ss_pred HHHh
Confidence 8764
No 47
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.58 E-value=0.00021 Score=85.57 Aligned_cols=77 Identities=23% Similarity=0.191 Sum_probs=60.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC-CCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 436 PYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH-PLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 436 Py~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~-~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
-|++|+|+|.+.+ ..+-.|+.++..|+||||||+||+.|+|..+... .......++.++|.....|+.++++.+.
T Consensus 48 gf~~pt~IQ~~~I----P~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~ 123 (513)
T COG0513 48 GFEEPTPIQLAAI----PLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLG 123 (513)
T ss_pred CCCCCCHHHHHHH----HHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHH
Confidence 3567999996555 4555679999999999999999999999987642 1111217888899999999999999986
Q ss_pred HH
Q psy11433 515 DY 516 (941)
Q Consensus 515 ~~ 516 (941)
.+
T Consensus 124 ~~ 125 (513)
T COG0513 124 KN 125 (513)
T ss_pred hh
Confidence 53
No 48
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=97.55 E-value=0.00027 Score=89.57 Aligned_cols=78 Identities=19% Similarity=0.199 Sum_probs=68.2
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
-.|||+ |+|.|.+.+..+...+..+ ...++.||||+|||.+++.|++..+... .++++.++|.....|..+.+
T Consensus 446 ~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g----~qvlvLvPT~~LA~Q~~~~f 520 (926)
T TIGR00580 446 DSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG----KQVAVLVPTTLLAQQHFETF 520 (926)
T ss_pred HhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC----CeEEEEeCcHHHHHHHHHHH
Confidence 369996 9999999999999988865 5789999999999999999998777543 57999999999999999999
Q ss_pred HHHHH
Q psy11433 511 ARLFD 515 (941)
Q Consensus 511 ~~~~~ 515 (941)
++...
T Consensus 521 ~~~~~ 525 (926)
T TIGR00580 521 KERFA 525 (926)
T ss_pred HHHhc
Confidence 88653
No 49
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.54 E-value=0.0002 Score=72.54 Aligned_cols=74 Identities=27% Similarity=0.329 Sum_probs=59.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+++.++++.|.+++..+.... +++++.+|||||||.+++.+++..+...+ ..++++.+.+.....|..+++...
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~~--~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGK--GKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcccC--CCcEEEEeCCHHHHHHHHHHHHHH
Confidence 445569999998887665433 89999999999999999999888877653 357888888888888888777765
No 50
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.52 E-value=0.00017 Score=87.98 Aligned_cols=69 Identities=19% Similarity=0.240 Sum_probs=54.3
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
-.|.|+++||.|.+.+..+ .+|+.+++.||||+|||++|+.|++.. . ..+++.+++++.+.|-++.++.
T Consensus 7 ~~fg~~~fr~~Q~~~i~~i----l~g~dvlv~~PTG~GKTl~y~lpal~~---~----g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 7 RTFGYDDFRPGQEEIISHV----LDGRDVLVVMPTGGGKSLCYQVPALLL---K----GLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred HhcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCccHhHHHHHHHHHc---C----CcEEEEcCCHHHHHHHHHHHHH
Confidence 3689999999997766554 568899999999999999999999842 1 3456678888887777766654
No 51
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.47 E-value=0.0002 Score=87.63 Aligned_cols=69 Identities=22% Similarity=0.312 Sum_probs=54.0
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
-.|.|+.+||+|.+.+.. +.+|+.+++-+|||+|||++|+.|++.. . ..+++.+++++.+.|.++.++.
T Consensus 19 ~~fG~~~~r~~Q~~ai~~----il~g~dvlv~apTGsGKTl~y~lpal~~---~----g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 19 ETFGYQQFRPGQQEIIDA----VLSGRDCLVVMPTGGGKSLCYQIPALVL---D----GLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred HHcCCCCCCHHHHHHHHH----HHcCCCEEEEcCCCchHHHHHHHHHHHc---C----CCEEEEecHHHHHHHHHHHHHH
Confidence 358999999999777664 4578999999999999999999998842 1 3466777887777776666553
No 52
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.46 E-value=0.00041 Score=85.28 Aligned_cols=77 Identities=21% Similarity=0.223 Sum_probs=65.4
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.+||+ +++.|.+.+.++...+... .+.++.||||+|||++++.|++..+... .++++.++|.....|..++++
T Consensus 231 ~lpf~-lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g----~qvlilaPT~~LA~Q~~~~~~ 305 (630)
T TIGR00643 231 SLPFK-LTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG----YQVALMAPTEILAEQHYNSLR 305 (630)
T ss_pred hCCCC-CCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC----CcEEEECCHHHHHHHHHHHHH
Confidence 36774 9999999999999887654 4689999999999999999998876543 578999999999999999999
Q ss_pred HHHH
Q psy11433 512 RLFD 515 (941)
Q Consensus 512 ~~~~ 515 (941)
++..
T Consensus 306 ~l~~ 309 (630)
T TIGR00643 306 NLLA 309 (630)
T ss_pred HHhc
Confidence 8753
No 53
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.46 E-value=0.00031 Score=89.29 Aligned_cols=71 Identities=20% Similarity=0.219 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC-----CCCceEEEeccccchhHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP-----LDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~-----~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
|..|+|.|.+.+.. +.+|+++++.||||+|||++++.|++..+.... .+..+++|.+.+.....|..+.+.
T Consensus 30 ~~~~tpiQ~~Ai~~----il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 30 FGTFTPPQRYAIPL----IHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred cCCCCHHHHHHHHH----HHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 45699999876654 467899999999999999999999998765321 234679999999888877776554
No 54
>PRK13766 Hef nuclease; Provisional
Probab=97.44 E-value=0.00049 Score=86.69 Aligned_cols=66 Identities=23% Similarity=0.229 Sum_probs=45.4
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
+||+.|.++...+. . +++++-+|||+|||++++.+++..+... ..++++.++|.+...|..++++.
T Consensus 15 ~~r~yQ~~~~~~~l---~--~n~lv~~ptG~GKT~~a~~~i~~~l~~~---~~~vLvl~Pt~~L~~Q~~~~~~~ 80 (773)
T PRK13766 15 EARLYQQLLAATAL---K--KNTLVVLPTGLGKTAIALLVIAERLHKK---GGKVLILAPTKPLVEQHAEFFRK 80 (773)
T ss_pred CccHHHHHHHHHHh---c--CCeEEEcCCCccHHHHHHHHHHHHHHhC---CCeEEEEeCcHHHHHHHHHHHHH
Confidence 48999988776543 2 3899999999999999888877665322 24566666666655555544443
No 55
>KOG0348|consensus
Probab=97.40 E-value=0.00043 Score=79.84 Aligned_cols=110 Identities=20% Similarity=0.203 Sum_probs=77.8
Q ss_pred hHHhhhccEEEEecCCCCCCCchhhhhccccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHH
Q psy11433 369 KPVFDRFQTVVITSGTLSPLDMYPKILNFQPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYM 448 (941)
Q Consensus 369 k~I~~~~rSVILtSGTLsPl~~y~~~L~f~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M 448 (941)
++++..+.--++||--.+-+. |-|.++..+.-.+ -+..|+.+|.+.+
T Consensus 122 ~~vvk~v~e~~fts~~f~~LG------------------------L~~~lv~~L~~~m---------~i~~pTsVQkq~I 168 (708)
T KOG0348|consen 122 RPVVKQVSEAPFTSAAFASLG------------------------LHPHLVSHLNTKM---------KISAPTSVQKQAI 168 (708)
T ss_pred chhhccccccccccccchhcC------------------------CCHHHHHHHHHHh---------ccCccchHhhcch
Confidence 457788888888887666553 2344443332222 2345899997766
Q ss_pred HHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCC-----CceEEEeccccchhHHHHHHHHHHHH
Q psy11433 449 VELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLD-----VTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 449 ~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~-----~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
-.+. +|+.++++|+||+||||||+.|++.-+....+. .+=.++-..|.....|+.+-+.+++.
T Consensus 169 P~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~ 236 (708)
T KOG0348|consen 169 PVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLK 236 (708)
T ss_pred hhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhc
Confidence 5544 499999999999999999999999998876532 22234555777778888888888764
No 56
>PRK02362 ski2-like helicase; Provisional
Probab=97.37 E-value=0.00034 Score=87.57 Aligned_cols=71 Identities=23% Similarity=0.232 Sum_probs=60.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 436 PYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 436 Py~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.|+++||.|.+.+.. .+.+|+++++.||||+|||++++.|++..+.. ..+++|++++.....|..++++++
T Consensus 20 g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~~----~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 20 GIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIAR----GGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHhc----CCcEEEEeChHHHHHHHHHHHHHh
Confidence 456799999887754 35689999999999999999999999877653 368999999999999999998865
No 57
>KOG0335|consensus
Probab=97.31 E-value=0.00023 Score=82.34 Aligned_cols=87 Identities=17% Similarity=0.188 Sum_probs=67.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC---------CCceEEEeccccchhHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL---------DVTKLLYCSRTVPEIEKVV 507 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~---------~~~ki~~ct~t~~q~~q~i 507 (941)
|..|+|+|.- -+..+..|+.++.+||||+|||.|+|.|++.+++.... -++..++.+.|+....|+.
T Consensus 94 ~~~ptpvQk~----sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ 169 (482)
T KOG0335|consen 94 YTKPTPVQKY----SIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIY 169 (482)
T ss_pred ccCCCcceee----ccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHH
Confidence 4568888843 34556689999999999999999999999999987532 2477889999999999999
Q ss_pred HHHHHHHHHHhhcccccceeeEEeccc
Q psy11433 508 EELARLFDYYIKHNEEINMTGLVLSSR 534 (941)
Q Consensus 508 ~el~~~~~~~~~~~~~~~~~~~~l~sr 534 (941)
+|.+++. -+.+++.++..|.
T Consensus 170 nea~k~~-------~~s~~~~~~~ygg 189 (482)
T KOG0335|consen 170 NEARKFS-------YLSGMKSVVVYGG 189 (482)
T ss_pred HHHHhhc-------ccccceeeeeeCC
Confidence 9999873 2234555555554
No 58
>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=97.30 E-value=0.00061 Score=84.61 Aligned_cols=73 Identities=19% Similarity=0.242 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHHHHHHHhcC-ceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKG-HCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYY 517 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~-~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~ 517 (941)
|||+|.+.+..+. .|+ ..++.||||||||.++..+.+..... .....+++||++|.....|+.++++++.+.+
T Consensus 16 PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~~-~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 16 PFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEIG-AKVPRRLVYVVNRRTVVDQVTEEAEKIGERL 89 (844)
T ss_pred CCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhcccccc-ccccceEEEeCchHHHHHHHHHHHHHHHHHh
Confidence 8999988887743 555 78889999999999776555533211 1123467889999999999999999887654
No 59
>KOG0345|consensus
Probab=97.29 E-value=0.001 Score=75.86 Aligned_cols=78 Identities=19% Similarity=0.191 Sum_probs=55.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH-hcC-C--CCCceEEEeccccchhHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM-NAH-P--LDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~-~~~-~--~~~~ki~~ct~t~~q~~q~i~el 510 (941)
+-|+..+|.|..-+ ..+..++.+++|||||+|||||++.|.+.-+ +.+ . +..+..++-+.|.....|+.+=+
T Consensus 24 ~GF~~mTpVQa~tI----Plll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~ 99 (567)
T KOG0345|consen 24 SGFEKMTPVQAATI----PLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVA 99 (567)
T ss_pred cCCcccCHHHHhhh----HHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHH
Confidence 44566999995544 4556789999999999999999999999887 322 1 11234566677777766766666
Q ss_pred HHHHHH
Q psy11433 511 ARLFDY 516 (941)
Q Consensus 511 ~~~~~~ 516 (941)
....+.
T Consensus 100 ~~F~~~ 105 (567)
T KOG0345|consen 100 QPFLEH 105 (567)
T ss_pred HHHHHh
Confidence 555544
No 60
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=97.28 E-value=0.0006 Score=86.29 Aligned_cols=67 Identities=21% Similarity=0.180 Sum_probs=51.5
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
-.|.|..+||.|.+.+. ++..|+.+++-||||+|||++|+.|+|.. ...+++-+.++..+.+-+..+
T Consensus 454 ~~FG~~sFRp~Q~eaI~----aiL~GrDVLVimPTGSGKSLcYQLPAL~~-------~GiTLVISPLiSLmqDQV~~L 520 (1195)
T PLN03137 454 KVFGNHSFRPNQREIIN----ATMSGYDVFVLMPTGGGKSLTYQLPALIC-------PGITLVISPLVSLIQDQIMNL 520 (1195)
T ss_pred HHcCCCCCCHHHHHHHH----HHHcCCCEEEEcCCCccHHHHHHHHHHHc-------CCcEEEEeCHHHHHHHHHHHH
Confidence 46889999999976554 55688999999999999999999999852 134667777777765333333
No 61
>KOG0331|consensus
Probab=97.26 E-value=0.00044 Score=81.20 Aligned_cols=74 Identities=19% Similarity=0.044 Sum_probs=59.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC-----CCCCceEEEeccccchhHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH-----PLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~-----~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
|+.|+|+|.+.. ..+..|+.++.-|-|||||||||+.|++.++..+ ..+.+.+++.+.|.....|+-.+.+
T Consensus 111 ~~~PtpIQaq~w----p~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~ 186 (519)
T KOG0331|consen 111 FEKPTPIQAQGW----PIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAR 186 (519)
T ss_pred CCCCchhhhccc----ceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHH
Confidence 345888995544 3344789999999999999999999999999873 2345789999999999999998888
Q ss_pred HHH
Q psy11433 512 RLF 514 (941)
Q Consensus 512 ~~~ 514 (941)
.+-
T Consensus 187 ~~~ 189 (519)
T KOG0331|consen 187 EFG 189 (519)
T ss_pred HHc
Confidence 763
No 62
>PRK00254 ski2-like helicase; Provisional
Probab=97.25 E-value=0.00065 Score=84.83 Aligned_cols=73 Identities=19% Similarity=0.197 Sum_probs=59.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
..|+++||.|.+.+.. .+.+|+++++.||||+|||+++..|++..+..++ .+++|.+++.....|..+++..+
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~---~~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREG---GKAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcC---CeEEEEeChHHHHHHHHHHHHHH
Confidence 3467799999877654 3568899999999999999999999987665432 68999999999988888888754
No 63
>PRK01172 ski2-like helicase; Provisional
Probab=97.24 E-value=0.00061 Score=84.46 Aligned_cols=70 Identities=26% Similarity=0.300 Sum_probs=57.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+|+ +||.|.+.+.. +.+|+++++.||||+|||++++.+++..+... .+++|++.+.....|..+++.++
T Consensus 19 ~~~~-l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lail~~l~~~----~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 19 NDFE-LYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLAG----LKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCC-CCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHhC----CcEEEEechHHHHHHHHHHHHHH
Confidence 3555 89999887765 46789999999999999999998888765543 57899999999999999988865
No 64
>KOG0344|consensus
Probab=97.20 E-value=0.00047 Score=80.56 Aligned_cols=77 Identities=18% Similarity=0.133 Sum_probs=65.1
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC----CCCceEEEeccccchhHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----LDVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----~~~~ki~~ct~t~~q~~q~i~e 509 (941)
.-+|..|.|+|. .+...+-.+..++..+|||.|||+||++|.+..++.+. ....+.++.+.|.+...|+..|
T Consensus 153 ~~~F~~Pt~iq~----~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re 228 (593)
T KOG0344|consen 153 ELGFDEPTPIQK----QAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYRE 228 (593)
T ss_pred hCCCCCCCcccc----hhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHH
Confidence 346778999996 55567778899999999999999999999999988765 4456778888999999999999
Q ss_pred HHHHH
Q psy11433 510 LARLF 514 (941)
Q Consensus 510 l~~~~ 514 (941)
.+++.
T Consensus 229 ~~k~~ 233 (593)
T KOG0344|consen 229 MRKYS 233 (593)
T ss_pred HHhcC
Confidence 98874
No 65
>KOG0350|consensus
Probab=97.10 E-value=0.001 Score=76.38 Aligned_cols=74 Identities=23% Similarity=0.360 Sum_probs=60.2
Q ss_pred CHHHHHHHHHHHHHHH-----hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALD-----AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~-----~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
.|.|.+.+-.+...+. .++.+.+.||||+||||||-.|.+.-+...+.+..+.++-..|.....|+.+++.++.
T Consensus 161 FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~ 239 (620)
T KOG0350|consen 161 FPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLN 239 (620)
T ss_pred cchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhc
Confidence 3457777766666666 3578889999999999999999999888776666777777888888999999999884
No 66
>KOG0342|consensus
Probab=97.07 E-value=0.00068 Score=77.73 Aligned_cols=76 Identities=22% Similarity=0.237 Sum_probs=61.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC---CCCceEEEeccccchhHHHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP---LDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~---~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
|++.++.|.. ...-+-.|+.++.-|-||||||+|+|.|++.|+...+ ...+.+++++.|.....|...|++.+
T Consensus 102 F~~MT~VQ~~----ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~L 177 (543)
T KOG0342|consen 102 FETMTPVQQK----TIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKEL 177 (543)
T ss_pred ccchhHHHHh----hcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHH
Confidence 3457778833 3334456789999999999999999999999998643 34577899999999999999999999
Q ss_pred HHH
Q psy11433 514 FDY 516 (941)
Q Consensus 514 ~~~ 516 (941)
..+
T Consensus 178 l~~ 180 (543)
T KOG0342|consen 178 LKY 180 (543)
T ss_pred Hhh
Confidence 865
No 67
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.99 E-value=0.0019 Score=79.95 Aligned_cols=61 Identities=21% Similarity=0.277 Sum_probs=48.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC----CCCceEEEeccccc
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----LDVTKLLYCSRTVP 501 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----~~~~ki~~ct~t~~ 501 (941)
|.+|+|.|.+.+..+ ..|+++++-||||+|||+|.+.|++.-+...+ .+.+.++|-|.-..
T Consensus 20 ~~~~t~~Q~~a~~~i----~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkA 84 (814)
T COG1201 20 FTSLTPPQRYAIPEI----HSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKA 84 (814)
T ss_pred cCCCCHHHHHHHHHH----hCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHH
Confidence 788999998777655 48999999999999999999999998887762 23455666554433
No 68
>KOG0330|consensus
Probab=96.93 E-value=0.0024 Score=71.54 Aligned_cols=91 Identities=15% Similarity=0.133 Sum_probs=69.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
+..|+++|.+.| ...-+|+++|.-|-||+|||++|+.|.+..+.+++. .....+.+.|.....|+-+....+
T Consensus 81 ~~~PT~IQ~~ai----P~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~-~~~~lVLtPtRELA~QI~e~fe~L--- 152 (476)
T KOG0330|consen 81 WKKPTKIQSEAI----PVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPK-LFFALVLTPTRELAQQIAEQFEAL--- 152 (476)
T ss_pred cCCCchhhhhhc----chhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCC-CceEEEecCcHHHHHHHHHHHHHh---
Confidence 456999997666 445579999999999999999999999998887653 255566678888888887777766
Q ss_pred HhhcccccceeeEEecccccccc
Q psy11433 517 YIKHNEEINMTGLVLSSRKNLCI 539 (941)
Q Consensus 517 ~~~~~~~~~~~~~~l~sr~~lC~ 539 (941)
...+.++..++.|.-++-.
T Consensus 153 ----g~~iglr~~~lvGG~~m~~ 171 (476)
T KOG0330|consen 153 ----GSGIGLRVAVLVGGMDMML 171 (476)
T ss_pred ----ccccCeEEEEEecCchHHH
Confidence 2345777777777666543
No 69
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.80 E-value=0.0032 Score=81.73 Aligned_cols=77 Identities=16% Similarity=0.133 Sum_probs=64.5
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
-.|||+ |++.|.+.+..+..-++.+ ...++.||||+|||.+++.++...+.. ..++++.+.|.....|..+.+
T Consensus 595 ~~~~~~-~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~----g~qvlvLvPT~eLA~Q~~~~f 669 (1147)
T PRK10689 595 DSFPFE-TTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN----HKQVAVLVPTTLLAQQHYDNF 669 (1147)
T ss_pred HhCCCC-CCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc----CCeEEEEeCcHHHHHHHHHHH
Confidence 469995 9999999999998887754 689999999999999998887665543 367899999999999999988
Q ss_pred HHHH
Q psy11433 511 ARLF 514 (941)
Q Consensus 511 ~~~~ 514 (941)
++..
T Consensus 670 ~~~~ 673 (1147)
T PRK10689 670 RDRF 673 (1147)
T ss_pred HHhh
Confidence 8643
No 70
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.72 E-value=0.0036 Score=81.02 Aligned_cols=73 Identities=21% Similarity=0.252 Sum_probs=59.6
Q ss_pred CCCHHHHHHHHHHHHHHHhc-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAK-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+|+.|.+.+..+.+++.+| +.+++.+|||||||...+..+..+++... ..+|++.+++.....|..+++...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~--~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKR--FRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCc--cCeEEEEecHHHHHHHHHHHHHhc
Confidence 48999999999999999865 67899999999999986665544444432 368999999999999999888754
No 71
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.66 E-value=0.0044 Score=74.21 Aligned_cols=68 Identities=21% Similarity=0.227 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.|||.|.+....+ + .+..+++.+|||+|||+..... +.|..... ..++++.++|.....|..+++.+.
T Consensus 114 ~~r~~Q~~av~~~---l-~~~~~il~apTGsGKT~i~~~l-~~~~~~~~--~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 114 EPHWYQYDAVYEG---L-KNNRRLLNLPTSAGKSLIQYLL-SRYYLENY--EGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCHHHHHHHHHH---H-hcCceEEEeCCCCCHHHHHHHH-HHHHHhcC--CCeEEEEECcHHHHHHHHHHHHHh
Confidence 4999998765433 3 3567899999999999975433 33333322 248999999999999999998875
No 72
>COG4889 Predicted helicase [General function prediction only]
Probab=96.66 E-value=0.019 Score=69.94 Aligned_cols=74 Identities=23% Similarity=0.329 Sum_probs=53.5
Q ss_pred ccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 431 LPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 431 ~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
+++.=|++ |||+|.+.++.+.+.+..+.-+=+-+.+|||||...|-.+=+-.. .++++....++.+.|.++|.
T Consensus 154 l~l~~~kk-~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~------~~iL~LvPSIsLLsQTlrew 226 (1518)
T COG4889 154 LPLKKPKK-PRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA------ARILFLVPSISLLSQTLREW 226 (1518)
T ss_pred cccCCCCC-CChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh------hheEeecchHHHHHHHHHHH
Confidence 34555775 999999999999999997766666678999999876654432221 45667777777766666665
Q ss_pred H
Q psy11433 511 A 511 (941)
Q Consensus 511 ~ 511 (941)
.
T Consensus 227 ~ 227 (1518)
T COG4889 227 T 227 (1518)
T ss_pred h
Confidence 4
No 73
>PRK09694 helicase Cas3; Provisional
Probab=96.54 E-value=0.0053 Score=77.46 Aligned_cols=73 Identities=16% Similarity=0.151 Sum_probs=55.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
...|||.|...+.. ..+++..|+|||||+|||.+.|.++...+.... ..+++|+..|..-..+..+.++...+
T Consensus 284 ~~~p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~--~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 284 GYQPRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGL--ADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCCChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCC--CCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 34699999866432 135789999999999999999998776554432 35899999998888888888876543
No 74
>PRK09401 reverse gyrase; Reviewed
Probab=96.52 E-value=0.0053 Score=79.94 Aligned_cols=69 Identities=23% Similarity=0.206 Sum_probs=54.2
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
+|++.|.+.+.. +..|+.+++-||||+|||.. +.+.+.|+... ..++++.++|.....|+.+.++.+..
T Consensus 80 ~pt~iQ~~~i~~----il~g~dv~i~ApTGsGKT~f-~l~~~~~l~~~---g~~alIL~PTreLa~Qi~~~l~~l~~ 148 (1176)
T PRK09401 80 KPWSLQRTWAKR----LLLGESFAIIAPTGVGKTTF-GLVMSLYLAKK---GKKSYIIFPTRLLVEQVVEKLEKFGE 148 (1176)
T ss_pred CCcHHHHHHHHH----HHCCCcEEEEcCCCCCHHHH-HHHHHHHHHhc---CCeEEEEeccHHHHHHHHHHHHHHhh
Confidence 489999765544 45789999999999999964 44555555433 36899999999999999999988754
No 75
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.51 E-value=0.0073 Score=75.33 Aligned_cols=69 Identities=12% Similarity=0.121 Sum_probs=50.8
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
.+|.|.+.+-. +..+...|.||+||||||++++.|++.-+.... .+.+.|.|.-...|..+.+.++.++
T Consensus 93 ~tp~qvQ~I~~----i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~----~v~IVTpTrELA~Qdae~m~~L~k~ 161 (970)
T PRK12899 93 MVPYDVQILGA----IAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK----PVHLVTVNDYLAQRDCEWVGSVLRW 161 (970)
T ss_pred CChHHHHHhhh----hhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC----CeEEEeCCHHHHHHHHHHHHHHHhh
Confidence 36777666644 445677999999999999999999997664332 2445566666788888888888654
No 76
>PF13245 AAA_19: Part of AAA domain
Probab=96.46 E-value=0.0088 Score=53.01 Aligned_cols=61 Identities=26% Similarity=0.364 Sum_probs=41.3
Q ss_pred HHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 450 ELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 450 ~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
.|..++.+++.+++.+|+|||||-.++-.+..+.........++.+++.+......+.+.+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 3455677556777899999999987777777766432112457888888877655444444
No 77
>PRK14701 reverse gyrase; Provisional
Probab=96.38 E-value=0.0069 Score=80.89 Aligned_cols=73 Identities=14% Similarity=0.119 Sum_probs=57.7
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+.| +|++.|.+.+..+ -.|+.+++-||||+|||+.++.+++..... ..++++.+.|.....|+.+.++.+
T Consensus 75 ~~G~-~pt~iQ~~~i~~i----l~G~d~li~APTGsGKTl~~~~~al~~~~~----g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 75 ITGF-EFWSIQKTWAKRI----LRGKSFSIVAPTGMGKSTFGAFIALFLALK----GKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred hhCC-CCCHHHHHHHHHH----HcCCCEEEEEcCCCCHHHHHHHHHHHHHhc----CCeEEEEECHHHHHHHHHHHHHHH
Confidence 3677 4999997776554 458999999999999999777666654332 257889999999999999999886
Q ss_pred HH
Q psy11433 514 FD 515 (941)
Q Consensus 514 ~~ 515 (941)
.+
T Consensus 146 ~~ 147 (1638)
T PRK14701 146 CE 147 (1638)
T ss_pred Hh
Confidence 54
No 78
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.36 E-value=0.0087 Score=74.23 Aligned_cols=69 Identities=20% Similarity=0.249 Sum_probs=57.3
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+++.|.+.++.+.+.+ .++..++.||||+|||.+|+.++...+... .++++...++....|..+.++..
T Consensus 145 Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g----~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 145 LNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQG----KQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHcC----CeEEEEeCcHHHHHHHHHHHHHH
Confidence 7899998888877654 467899999999999999998877666543 57899999999999998888753
No 79
>KOG0340|consensus
Probab=96.30 E-value=0.011 Score=65.79 Aligned_cols=100 Identities=20% Similarity=0.238 Sum_probs=72.7
Q ss_pred CCCchhhhh-hcccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCce
Q psy11433 414 LLPMVRENY-AMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTK 492 (941)
Q Consensus 414 l~p~~~~~~-~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~k 492 (941)
|.|++.+.. .|++ ..|+|+| ...+..|-+|..||=.|-||+|||.++-.|.|.-+..++.. .=
T Consensus 14 l~~Wlve~l~~l~i-----------~~pTpiQ----~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~g-iF 77 (442)
T KOG0340|consen 14 LSPWLVEQLKALGI-----------KKPTPIQ----QACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYG-IF 77 (442)
T ss_pred ccHHHHHHHHHhcC-----------CCCCchH----hhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCc-ce
Confidence 678888654 3322 3599999 55667778899999999999999999999999988877632 22
Q ss_pred EEEeccccchhHHHHHHHHHHHHHHhhcccccceeeEEeccccc
Q psy11433 493 LLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKN 536 (941)
Q Consensus 493 i~~ct~t~~q~~q~i~el~~~~~~~~~~~~~~~~~~~~l~sr~~ 536 (941)
-++.|.|+...-|+-+.+..+- ....++..++.|...
T Consensus 78 alvlTPTrELA~QiaEQF~alG-------k~l~lK~~vivGG~d 114 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFIALG-------KLLNLKVSVIVGGTD 114 (442)
T ss_pred EEEecchHHHHHHHHHHHHHhc-------ccccceEEEEEccHH
Confidence 3456788888888888887662 234566555555444
No 80
>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=96.26 E-value=0.0093 Score=73.84 Aligned_cols=72 Identities=15% Similarity=0.164 Sum_probs=60.0
Q ss_pred CCHHHHHHHHHHHHHHHh------cCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDA------KGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~------~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
||+.|.....++.+.+.. ++.+++..|||||||+..+..+...++.. ...++++.++......|..+++...
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--KNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc--CCCeEEEEECcHHHHHHHHHHHHhh
Confidence 789999999999999876 35899999999999998887775544332 3468999999999999999998875
No 81
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=96.22 E-value=0.0095 Score=77.71 Aligned_cols=69 Identities=16% Similarity=0.160 Sum_probs=54.5
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
.|++.|.+.+. .+..|+.+++.||||+|||+ +..+++.++... ..++++.++|.....|+.++++.+..
T Consensus 78 ~p~~iQ~~~i~----~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~---g~~vLIL~PTreLa~Qi~~~l~~l~~ 146 (1171)
T TIGR01054 78 EPWSIQKMWAK----RVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAKK---GKRCYIILPTTLLVIQVAEKISSLAE 146 (1171)
T ss_pred CCcHHHHHHHH----HHhCCCeEEEECCCCCCHHH-HHHHHHHHHHhc---CCeEEEEeCHHHHHHHHHHHHHHHHH
Confidence 48899965554 45578999999999999997 555666665443 36899999999999999999988754
No 82
>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=96.22 E-value=0.0086 Score=73.96 Aligned_cols=52 Identities=15% Similarity=0.215 Sum_probs=42.9
Q ss_pred eeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 461 CLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 461 ~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
.|+|++||+|||++++.|++..+... ..++++|.+.-...|..+++..+.+.
T Consensus 86 ~Iaem~TGeGKTLta~Lpa~l~aL~g----~~V~VVTpn~yLA~Rdae~m~~l~~~ 137 (762)
T TIGR03714 86 NIAEMKTGEGKTLTATMPLYLNALTG----KGAMLVTTNDYLAKRDAEEMGPVYEW 137 (762)
T ss_pred ceeEecCCcchHHHHHHHHHHHhhcC----CceEEeCCCHHHHHHHHHHHHHHHhh
Confidence 69999999999999999986555433 35888898888888888988888654
No 83
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=96.18 E-value=0.012 Score=74.42 Aligned_cols=70 Identities=21% Similarity=0.283 Sum_probs=52.0
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
+|++|.+.++ .+.+|+++|+-+|||+|||.||+.|++.-+...+. -+.++.-.|.....--.++++++..
T Consensus 71 lY~HQ~~A~~----~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~--a~AL~lYPtnALa~DQ~~rl~~~~~ 140 (851)
T COG1205 71 LYSHQVDALR----LIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPS--ARALLLYPTNALANDQAERLRELIS 140 (851)
T ss_pred ccHHHHHHHH----HHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcC--ccEEEEechhhhHhhHHHHHHHHHH
Confidence 7889966665 55678999999999999999999999988877653 2556666776665444555555543
No 84
>KOG0346|consensus
Probab=96.15 E-value=0.0094 Score=67.75 Aligned_cols=80 Identities=16% Similarity=0.120 Sum_probs=61.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC-----CCceEEEeccccchhHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL-----DVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~-----~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
++.|+-+| ..++.-+-+|+.++.-|-||+|||++||.|.+.-+...+. ..+..++...|....+|+...+.
T Consensus 39 ~ekpTlIQ----s~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~vie 114 (569)
T KOG0346|consen 39 WEKPTLIQ----SSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIE 114 (569)
T ss_pred cCCcchhh----hcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHH
Confidence 44577777 3444555678999999999999999999999987765432 23456778899888999999888
Q ss_pred HHHHHHhhc
Q psy11433 512 RLFDYYIKH 520 (941)
Q Consensus 512 ~~~~~~~~~ 520 (941)
++.++-.+.
T Consensus 115 kL~~~c~k~ 123 (569)
T KOG0346|consen 115 KLVEYCSKD 123 (569)
T ss_pred HHHHHHHHh
Confidence 887765543
No 85
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.08 E-value=0.017 Score=70.47 Aligned_cols=67 Identities=19% Similarity=0.066 Sum_probs=53.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
|||.|..-.-.+ -.|+ |.||.||+|||++++.|++..+... ..+.+.|.|.-...|..+++.++.+.
T Consensus 104 p~~VQ~~~~~~l----l~G~--Iae~~TGeGKTla~~lp~~~~al~G----~~v~VvTptreLA~qdae~~~~l~~~ 170 (656)
T PRK12898 104 HFDVQLMGGLAL----LSGR--LAEMQTGEGKTLTATLPAGTAALAG----LPVHVITVNDYLAERDAELMRPLYEA 170 (656)
T ss_pred CChHHHHHHHHH----hCCC--eeeeeCCCCcHHHHHHHHHHHhhcC----CeEEEEcCcHHHHHHHHHHHHHHHhh
Confidence 778996555433 2455 9999999999999999999766543 57888999999999999999988754
No 86
>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=96.06 E-value=0.013 Score=55.52 Aligned_cols=53 Identities=28% Similarity=0.370 Sum_probs=41.7
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+++++.+|||+|||..++..+......+. ..++++++.+.....|..+.+...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~--~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLK--GGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhccc--CCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999999887766532 357888888887777777766654
No 87
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.03 E-value=0.0096 Score=62.58 Aligned_cols=67 Identities=30% Similarity=0.426 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHh-----cCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMN-----AHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~-----~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
+.|.+.+ ..++..+...++.||+|||||-.+. .++..+. .......++++|+.++.....+++.+.+
T Consensus 4 ~~Q~~Ai---~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 4 ESQREAI---QSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp HHHHHHH---HHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred HHHHHHH---HHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 4565444 3344444459999999999995444 4444441 0112347899999999999999988877
No 88
>COG1204 Superfamily II helicase [General function prediction only]
Probab=95.97 E-value=0.012 Score=73.34 Aligned_cols=69 Identities=26% Similarity=0.342 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+.|+.|.+. |++.+..|+++|+.+|||+|||+-.+.+++.-+.+++ .+++|...+.+...+..+|+.++
T Consensus 31 el~~~qq~a---v~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~---~k~vYivPlkALa~Ek~~~~~~~ 99 (766)
T COG1204 31 ELFNPQQEA---VEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGG---GKVVYIVPLKALAEEKYEEFSRL 99 (766)
T ss_pred HhhHHHHHH---hhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcC---CcEEEEeChHHHHHHHHHHhhhH
Confidence 456666544 4444555899999999999999999999999888763 78999999999999999999844
No 89
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=95.89 E-value=0.012 Score=67.12 Aligned_cols=52 Identities=21% Similarity=0.366 Sum_probs=43.4
Q ss_pred eeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 461 CLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 461 ~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
+++.||||+|||++++.+++..+.... ..+++|...+.+...|..+.+..+.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~--~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQK--ADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCC--CCeEEEEeehHHHHHHHHHHHHHHh
Confidence 689999999999999999997765432 4689999999998888888887763
No 90
>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=95.77 E-value=0.021 Score=60.26 Aligned_cols=55 Identities=22% Similarity=0.236 Sum_probs=39.2
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP 501 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~ 501 (941)
.+.|..+++.+. +...+++.+|.|||||+..+..++..+.+.. +.++++.-.+++
T Consensus 6 ~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~--~~kiii~Rp~v~ 60 (205)
T PF02562_consen 6 NEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGE--YDKIIITRPPVE 60 (205)
T ss_dssp SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS---SEEEEEE-S--
T ss_pred CHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCC--CcEEEEEecCCC
Confidence 478999888776 7789999999999999999999999888743 456665544443
No 91
>KOG0354|consensus
Probab=95.55 E-value=0.026 Score=68.90 Aligned_cols=68 Identities=18% Similarity=0.290 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+|+.|.++ +..|| |++.|+-+|||.|||......++.|.+..+ ..||++.+.+.|...|-+..+...
T Consensus 62 ~lR~YQ~ei---vq~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p--~~KiVF~aP~~pLv~QQ~a~~~~~ 129 (746)
T KOG0354|consen 62 ELRNYQEEL---VQPAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRP--KGKVVFLAPTRPLVNQQIACFSIY 129 (746)
T ss_pred cccHHHHHH---hHHhh--cCCeEEEeecCCCccchHHHHHHHHHhcCC--cceEEEeeCCchHHHHHHHHHhhc
Confidence 378899555 45667 999999999999999999999999999876 389999999999988877555543
No 92
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.45 E-value=0.033 Score=68.72 Aligned_cols=75 Identities=13% Similarity=0.069 Sum_probs=56.6
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHH---------HHHHHHHHHhc-C-CCCCceEEEeccccchhHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTS---------LLSLIVAYMNA-H-PLDVTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls---------~L~~al~~~~~-~-~~~~~ki~~ct~t~~q~~q~i~ 508 (941)
.++-|.+.-+++.+++.+|+.+|+.||||+|||.+ |+.|.+.++.. + .....++++...+.....|+..
T Consensus 161 l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~ 240 (675)
T PHA02653 161 LASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSI 240 (675)
T ss_pred CCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHH
Confidence 57888889999999999999999999999999997 55566666532 1 1122467777788777778777
Q ss_pred HHHHHH
Q psy11433 509 ELARLF 514 (941)
Q Consensus 509 el~~~~ 514 (941)
++.+..
T Consensus 241 ~i~~~v 246 (675)
T PHA02653 241 TLLKSL 246 (675)
T ss_pred HHHHHh
Confidence 776543
No 93
>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=95.40 E-value=0.031 Score=64.10 Aligned_cols=59 Identities=24% Similarity=0.274 Sum_probs=44.4
Q ss_pred HHHHHHHhcC--ceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 450 ELKKALDAKG--HCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 450 ~v~~al~~~~--~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
++++++.++. ++++.||||+|||.+++.|++. . ..+.+|..++.+...|..+.++....
T Consensus 4 ~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~---~~~~~~~~P~~aL~~~~~~~~~~~~~ 64 (357)
T TIGR03158 4 ATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----G---ENDTIALYPTNALIEDQTEAIKEFVD 64 (357)
T ss_pred HHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----c---CCCEEEEeChHHHHHHHHHHHHHHHH
Confidence 3455555554 5889999999999999999874 1 24678888888888887777777643
No 94
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=95.35 E-value=0.032 Score=65.89 Aligned_cols=68 Identities=21% Similarity=0.234 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+||.|.+.++++.+..+.++-+++-+|||+|||+..+..+-... .++++.+|+...+.|-.+.+.+.
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~-------~~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK-------RSTLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc-------CCEEEEECcHHHHHHHHHHHHHh
Confidence 499999999999998888899999999999999998776654432 33888999999998888766654
No 95
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=95.34 E-value=0.037 Score=70.14 Aligned_cols=73 Identities=22% Similarity=0.293 Sum_probs=60.5
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.|||+ +.+.|. +...+|+.|..++++||||.|||+.--.+.---++.+ .++||.+.+...-.|..+|+...
T Consensus 115 ~~~F~-LD~fQ~----~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~----qrviYTsPIKALsNQKyrdl~~~ 185 (1041)
T COG4581 115 EYPFE-LDPFQQ----EAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDG----QRVIYTSPIKALSNQKYRDLLAK 185 (1041)
T ss_pred hCCCC-cCHHHH----HHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcC----CceEeccchhhhhhhHHHHHHHH
Confidence 58886 899994 5567889999999999999999998877765555544 56999999999999999998876
Q ss_pred HH
Q psy11433 514 FD 515 (941)
Q Consensus 514 ~~ 515 (941)
..
T Consensus 186 fg 187 (1041)
T COG4581 186 FG 187 (1041)
T ss_pred hh
Confidence 54
No 96
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.22 E-value=0.049 Score=67.94 Aligned_cols=67 Identities=16% Similarity=0.196 Sum_probs=50.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|..-.- ++-.|. |.|+.||+|||++++.|++..+... ..+.++|.|.-...|..+++.++.+.
T Consensus 79 p~~vQl~~~~----~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G----~~v~VvTpt~~LA~qd~e~~~~l~~~ 145 (790)
T PRK09200 79 PYDVQLIGAL----VLHEGN--IAEMQTGEGKTLTATMPLYLNALEG----KGVHLITVNDYLAKRDAEEMGQVYEF 145 (790)
T ss_pred CchHHHHhHH----HHcCCc--eeeecCCCcchHHHHHHHHHHHHcC----CCeEEEeCCHHHHHHHHHHHHHHHhh
Confidence 5667743322 223444 9999999999999999998554432 46888899988889999999888764
No 97
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=95.18 E-value=0.043 Score=67.60 Aligned_cols=66 Identities=14% Similarity=0.127 Sum_probs=48.5
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHH-HHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIV-AYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al-~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|..-.-. +-.|. |.|++||+|||+++..|++ ..+. . ..+.+.|.|.-...|..+++.++.+.
T Consensus 57 p~~vQlig~~~----l~~G~--Iaem~TGeGKTLva~lpa~l~aL~-G----~~V~VvTpt~~LA~qdae~~~~l~~~ 123 (745)
T TIGR00963 57 PFDVQLIGGIA----LHKGK--IAEMKTGEGKTLTATLPAYLNALT-G----KGVHVVTVNDYLAQRDAEWMGQVYRF 123 (745)
T ss_pred ccchHHhhhhh----hcCCc--eeeecCCCccHHHHHHHHHHHHHh-C----CCEEEEcCCHHHHHHHHHHHHHHhcc
Confidence 56677443322 22343 9999999999999999995 4443 2 35778888888899999999988754
No 98
>KOG0338|consensus
Probab=94.93 E-value=0.038 Score=63.99 Aligned_cols=75 Identities=20% Similarity=0.111 Sum_probs=55.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCC--CceEEEeccccchhHHHHHHHHHH
Q psy11433 436 PYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLD--VTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 436 Py~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~--~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
-|..|+|+|.+.+- .-..|+.+...|-||||||.|+..|+|..+...+.. ..+|++.+.|....-|+..=.+++
T Consensus 200 Gy~~PTpIQ~a~IP----vallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~ql 275 (691)
T KOG0338|consen 200 GYKKPTPIQVATIP----VALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQL 275 (691)
T ss_pred CCCCCCchhhhccc----HHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHH
Confidence 46779999966553 334678888999999999999999999998876532 345677777776666666555555
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
.
T Consensus 276 a 276 (691)
T KOG0338|consen 276 A 276 (691)
T ss_pred H
Confidence 4
No 99
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=94.93 E-value=0.051 Score=68.02 Aligned_cols=52 Identities=12% Similarity=0.082 Sum_probs=42.6
Q ss_pred eeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 461 CLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 461 ~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
-|.||+||+|||+++..|++..+... ..+.+.|.|.-...|..+++.++.+.
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al~G----~~V~VvTpn~yLA~qd~e~m~~l~~~ 149 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAISG----RGVHIVTVNDYLAKRDSQWMKPIYEF 149 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcC----CCEEEEcCCHHHHHHHHHHHHHHhcc
Confidence 37899999999999999999665443 35778888888889999999988654
No 100
>KOG1802|consensus
Probab=94.82 E-value=0.095 Score=62.54 Aligned_cols=102 Identities=23% Similarity=0.365 Sum_probs=69.8
Q ss_pred CCCCCCchhhhhccccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHHHHHHHHHhcCceee
Q psy11433 384 TLSPLDMYPKILNFQPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLL 463 (941)
Q Consensus 384 TLsPl~~y~~~L~f~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~~v~~al~~~~~~ii 463 (941)
-+|+ -.|-++||- |+...++.-.|.+....|..+ ..-..|... |. +.-++..-||
T Consensus 376 ~vs~-y~y~klLgh-~~~~~~~k~~LP~~~s~~~lp-------------------kLN~SQ~~A---V~-~VL~rplsLI 430 (935)
T KOG1802|consen 376 KVSG-YLYHKLLGH-PVEDSSLKKLLPRRFSVPNLP-------------------KLNASQSNA---VK-HVLQRPLSLI 430 (935)
T ss_pred cchh-hhhhHHhcC-cchhhhhcccCchhhcCCCch-------------------hhchHHHHH---HH-HHHcCCceee
Confidence 3455 456777774 676667777776655555555 345567433 33 3345689999
Q ss_pred eCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 464 EMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 464 EaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
++|+|||||...-.....-++.+. ..|++|....-...|+.+.+.+.
T Consensus 431 QGPPGTGKTvtsa~IVyhl~~~~~---~~VLvcApSNiAVDqLaeKIh~t 477 (935)
T KOG1802|consen 431 QGPPGTGKTVTSATIVYHLARQHA---GPVLVCAPSNIAVDQLAEKIHKT 477 (935)
T ss_pred ecCCCCCceehhHHHHHHHHHhcC---CceEEEcccchhHHHHHHHHHhc
Confidence 999999999876665555555554 78999998877788888877654
No 101
>KOG0952|consensus
Probab=94.64 E-value=0.073 Score=66.42 Aligned_cols=77 Identities=21% Similarity=0.294 Sum_probs=56.9
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC------CCCCceEEEeccccchhHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH------PLDVTKLLYCSRTVPEIEKV 506 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~------~~~~~ki~~ct~t~~q~~q~ 506 (941)
-+|+|++.-.+|-+.-..+| ..+.++|+.||||+|||...+...|.-.+++ ..+..||+|-..........
T Consensus 104 ~~f~f~~fN~iQS~vFp~aY---~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em 180 (1230)
T KOG0952|consen 104 GFFSFEEFNRIQSEVFPVAY---KSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEM 180 (1230)
T ss_pred hcccHHHHHHHHHHhhhhhh---cCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHH
Confidence 35777766777755444444 3789999999999999999999988877752 24568999999888776555
Q ss_pred HHHHHH
Q psy11433 507 VEELAR 512 (941)
Q Consensus 507 i~el~~ 512 (941)
++...+
T Consensus 181 ~~~~~k 186 (1230)
T KOG0952|consen 181 VDKFSK 186 (1230)
T ss_pred HHHHhh
Confidence 555443
No 102
>KOG0333|consensus
Probab=94.59 E-value=0.063 Score=62.51 Aligned_cols=113 Identities=18% Similarity=0.223 Sum_probs=77.0
Q ss_pred HhhhccEEEEecCCC-CCCCchhhhhccccceeccccccccccCCCCchhhhhhcccccCCccccCCCCCCCHHHHHHHH
Q psy11433 371 VFDRFQTVVITSGTL-SPLDMYPKILNFQPVIMHSFSMTLARPCLLPMVRENYAMGLMIDDLPVFFPYEYIYPEQYAYMV 449 (941)
Q Consensus 371 I~~~~rSVILtSGTL-sPl~~y~~~L~f~p~~~~sf~~~l~~~~l~p~~~~~~~~~~~~~~~~~~FPy~~py~~Q~~~M~ 449 (941)
||..--++.++||++ +|+-.+..- .|+.++-. .| -.--|.+|.|+|++.+-
T Consensus 226 i~redynis~kg~~lpnplrnwEE~---------~~P~e~l~-----~I--------------~~~~y~eptpIqR~aip 277 (673)
T KOG0333|consen 226 IFREDYNISIKGGRLPNPLRNWEES---------GFPLELLS-----VI--------------KKPGYKEPTPIQRQAIP 277 (673)
T ss_pred eeecceeeeecCCCCCccccChhhc---------CCCHHHHH-----HH--------------HhcCCCCCchHHHhhcc
Confidence 444555788999998 577666541 23333211 11 12346789999976654
Q ss_pred HHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC--------CCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 450 ELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL--------DVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 450 ~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~--------~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
.....+..|.-|-||+|||++++.|+|.|+...++ ..+..+....|....+|+.+|-.++..
T Consensus 278 ----l~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~ 347 (673)
T KOG0333|consen 278 ----LGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGK 347 (673)
T ss_pred ----chhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhcc
Confidence 45567888889999999999999999999987552 234456666777777788888777643
No 103
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=94.48 E-value=0.071 Score=67.37 Aligned_cols=62 Identities=27% Similarity=0.309 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
+.+.++.+++.+++++++.||||+|||.++..+++..... ..++++...+.-...|+.+.+.
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~----~~~ilvlqPrR~aA~qia~rva 69 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI----NGKIIMLEPRRLAARNVAQRLA 69 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc----CCeEEEECChHHHHHHHHHHHH
Confidence 4578899999999999999999999999999988863221 2477777777776666666554
No 104
>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=94.44 E-value=0.079 Score=65.58 Aligned_cols=65 Identities=15% Similarity=0.270 Sum_probs=46.5
Q ss_pred CCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+||.|.+.+... +.+| +.+++.+|||+|||+..+.++.... ...+|.| ++.....|-.+|+.+.
T Consensus 255 ~LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa~~l~------k~tLILv-ps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 255 QIRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAACTVK------KSCLVLC-TSAVSVEQWKQQFKMW 321 (732)
T ss_pred CcCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHHHHhC------CCEEEEe-CcHHHHHHHHHHHHHh
Confidence 4899999876655 3455 4799999999999999997765531 1345555 4555567777787764
No 105
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=94.34 E-value=0.033 Score=66.93 Aligned_cols=46 Identities=28% Similarity=0.363 Sum_probs=40.4
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
-.|-|+..|+.|. +|++++-+|++++.=.|||.|||+||-.|++-.
T Consensus 11 ~~fGy~~FR~gQ~----evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 11 QVFGYASFRPGQQ----EIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred HHhCccccCCCHH----HHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 4678889999995 666777788999999999999999999999875
No 106
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.03 E-value=0.11 Score=65.64 Aligned_cols=62 Identities=24% Similarity=0.315 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
+++.++.++|.++.++|+.||||+|||.++..+++..... ..++++...+.-...|+.+.+.
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~----~~~ilvlqPrR~aA~qiA~rva 66 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGI----GGKIIMLEPRRLAARSAAQRLA 66 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhcc----CCeEEEEeCcHHHHHHHHHHHH
Confidence 4567889999999999999999999999999999865422 2577777777666666665553
No 107
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.02 E-value=0.15 Score=53.49 Aligned_cols=63 Identities=22% Similarity=0.262 Sum_probs=42.9
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~e 509 (941)
.++|.+.++.+.. ..++..++.+|.|||||-. |..+...+...+ .+++.|+.|+.....+-++
T Consensus 3 ~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~~g---~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 3 NEEQREAVRAILT--SGDRVSVLQGPAGTGKTTL-LKALAEALEAAG---KRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHH-HHHHHHHHHHTT-----EEEEESSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHH-HHHHHHHHHhCC---CeEEEECCcHHHHHHHHHh
Confidence 4789888877643 1336899999999999975 444555555543 7899999999876554433
No 108
>KOG0334|consensus
Probab=93.94 E-value=0.1 Score=65.28 Aligned_cols=78 Identities=18% Similarity=0.174 Sum_probs=61.7
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC----CCceEEEeccccchhHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL----DVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~----~~~ki~~ct~t~~q~~q~i~e 509 (941)
.+-|..|+|+|.+++ .++..|+.+|--|-||+|||++|+.|.+......++ +.+--++.+.|-.+..|+-++
T Consensus 382 kl~y~k~~~IQ~qAi----P~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~ 457 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAI----PAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHRE 457 (997)
T ss_pred HhcCCCCcchhhhhc----chhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHH
Confidence 356778999996655 667789999999999999999999999966554321 345566777888888898898
Q ss_pred HHHHHH
Q psy11433 510 LARLFD 515 (941)
Q Consensus 510 l~~~~~ 515 (941)
++++..
T Consensus 458 ~~kf~k 463 (997)
T KOG0334|consen 458 VRKFLK 463 (997)
T ss_pred HHHHHh
Confidence 888764
No 109
>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=93.89 E-value=0.17 Score=62.55 Aligned_cols=67 Identities=27% Similarity=0.362 Sum_probs=50.1
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
..-+.|.+.. ..++......++.+|+|||||-.+...+..+...+ .+|.+|+.|......+++.+..
T Consensus 157 ~ln~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g----~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRG----LRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcC----CCEEEEcCcHHHHHHHHHHHHh
Confidence 4578887755 44566668999999999999976655555555433 4899999999988888777754
No 110
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=93.72 E-value=0.35 Score=61.93 Aligned_cols=38 Identities=26% Similarity=0.281 Sum_probs=28.1
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~a 479 (941)
|+|+|......+... ...-+|+--..|.|||+-.+..+
T Consensus 153 l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil 190 (956)
T PRK04914 153 LIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMII 190 (956)
T ss_pred CCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHH
Confidence 889999987655332 34567888999999998775554
No 111
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=93.62 E-value=0.18 Score=58.89 Aligned_cols=68 Identities=19% Similarity=0.137 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
+||..|..+...... ++.++-.|||-|||...+.-++.+++..+ .|+++...|.|...|=.+-++++.
T Consensus 15 e~R~YQ~~i~a~al~-----~NtLvvlPTGLGKT~IA~~V~~~~l~~~~---~kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 15 EPRLYQLNIAAKALF-----KNTLVVLPTGLGKTFIAAMVIANRLRWFG---GKVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred cHHHHHHHHHHHHhh-----cCeEEEecCCccHHHHHHHHHHHHHHhcC---CeEEEecCCchHHHHHHHHHHHHh
Confidence 588888777655432 49999999999999999998889999876 389999999999888888777663
No 112
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=93.55 E-value=0.15 Score=63.72 Aligned_cols=66 Identities=15% Similarity=0.167 Sum_probs=47.9
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHH-HHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIV-AYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al-~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+ |..+ +|-.| -|.|++||+|||+++..|++ .++... .+.+.|.|.-...|-.+++.++.+.
T Consensus 82 ~~dvQl--ig~l--~L~~G--~Iaem~TGeGKTLva~lpa~l~aL~G~-----~V~IvTpn~yLA~rd~e~~~~l~~~ 148 (830)
T PRK12904 82 HFDVQL--IGGM--VLHEG--KIAEMKTGEGKTLVATLPAYLNALTGK-----GVHVVTVNDYLAKRDAEWMGPLYEF 148 (830)
T ss_pred CCccHH--HhhH--HhcCC--chhhhhcCCCcHHHHHHHHHHHHHcCC-----CEEEEecCHHHHHHHHHHHHHHHhh
Confidence 566773 3333 33344 48999999999999999995 555432 3567788888888888898888764
No 113
>KOG0343|consensus
Probab=93.44 E-value=0.095 Score=61.42 Aligned_cols=73 Identities=19% Similarity=0.096 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc---CCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA---HPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~---~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
.++++|.+.+- .--.|+.++--|-||+|||||+|.|+|..+-. .+.+..-.++-+.|....-|..+-|.++-.
T Consensus 91 ~~teiQ~~~Ip----~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk 166 (758)
T KOG0343|consen 91 KMTEIQRDTIP----MALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGK 166 (758)
T ss_pred cHHHHHHhhcc----hhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhh
Confidence 46777755442 22367888999999999999999999976543 234556677788888888999999888754
No 114
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=93.20 E-value=0.14 Score=64.23 Aligned_cols=67 Identities=15% Similarity=0.107 Sum_probs=47.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+ |. ++.-..--|.|++||+||||++..|++..+... ..+.+.|.+.-...|..+.+..+.++
T Consensus 83 ~ydVQl--iG----gl~L~~G~IaEm~TGEGKTL~a~lp~~l~al~g----~~VhIvT~ndyLA~RD~e~m~~l~~~ 149 (908)
T PRK13107 83 HFDVQL--LG----GMVLDSNRIAEMRTGEGKTLTATLPAYLNALTG----KGVHVITVNDYLARRDAENNRPLFEF 149 (908)
T ss_pred cCchHH--hc----chHhcCCccccccCCCCchHHHHHHHHHHHhcC----CCEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 567774 22 222233457899999999999999998666543 34777777777777888888888765
No 115
>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=93.00 E-value=0.14 Score=56.25 Aligned_cols=40 Identities=23% Similarity=0.141 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~a 479 (941)
+.|...++.+.+..++..|.++++++|+|||||...-..+
T Consensus 3 ~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la 42 (262)
T TIGR02640 3 ETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVA 42 (262)
T ss_pred CCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHH
Confidence 4677888999999999999999999999999998665443
No 116
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=92.98 E-value=0.18 Score=63.25 Aligned_cols=74 Identities=20% Similarity=0.204 Sum_probs=57.9
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.++.|...++.+...-..+..++++||||-|||.+.+.++..-+........++|+...+.+-.++..+.++..
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhh
Confidence 57788888777766666555999999999999999999998877763224578898888877777777776654
No 117
>KOG0336|consensus
Probab=92.84 E-value=0.073 Score=60.16 Aligned_cols=73 Identities=19% Similarity=0.107 Sum_probs=53.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC-----CCceEEEeccccchhHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL-----DVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~-----~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
|..|+|+|-|+ ...+-.|..++--|-|||||||++|.|.+-.+...+. ....+++.+.|.....|+-.|..
T Consensus 240 FqKPtPIqSQa----WPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~ 315 (629)
T KOG0336|consen 240 FQKPTPIQSQA----WPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVK 315 (629)
T ss_pred CCCCCcchhcc----cceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHh
Confidence 45688998554 4556688999999999999999999999876655431 23556777777776666666665
Q ss_pred HH
Q psy11433 512 RL 513 (941)
Q Consensus 512 ~~ 513 (941)
+.
T Consensus 316 ky 317 (629)
T KOG0336|consen 316 KY 317 (629)
T ss_pred Hh
Confidence 53
No 118
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=92.73 E-value=0.22 Score=61.22 Aligned_cols=73 Identities=18% Similarity=0.234 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHHHHHHHhc-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAK-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+|..|...+..+.+++..| .-+|+-+.||||||-..+...=--++.+ ...+|.+.+....+.+|..++..+.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~--~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSG--WVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcc--hhheeeEEechHHHHHHHHHHHHHh
Confidence 38999999999999999977 4699999999999987766543333333 3578999999999999999886654
No 119
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=92.60 E-value=0.13 Score=68.19 Aligned_cols=51 Identities=20% Similarity=0.223 Sum_probs=41.3
Q ss_pred eeCCCCCchhHHHHHHHHHHHhcCC---------CCCceEEEeccccchhHHHHHHHHHH
Q psy11433 463 LEMPSGTGKTTSLLSLIVAYMNAHP---------LDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 463 iEaPTGTGKTls~L~~al~~~~~~~---------~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
+.||||+|||++++.|+|..+.... .+..+++|.+.+.....|+.+.++..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~p 60 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIP 60 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHH
Confidence 3589999999999999998775421 23578999999999988888888753
No 120
>PRK10536 hypothetical protein; Provisional
Probab=92.60 E-value=0.31 Score=53.16 Aligned_cols=42 Identities=17% Similarity=0.105 Sum_probs=33.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
-...|..++..+ ..+..+++.+|+|||||...++.++..+..
T Consensus 60 ~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 60 RNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred CCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 346787777744 557899999999999999988888876644
No 121
>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=92.30 E-value=0.34 Score=53.40 Aligned_cols=66 Identities=23% Similarity=0.287 Sum_probs=43.6
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.++|.+++.. ..+++++.|+.|||||.+++.-++..+...+.+..+|++.|.|......+.+-+..
T Consensus 2 ~~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 2 TDEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp -HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CHHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 3677555532 46899999999999999877766655555434557788888887754444444443
No 122
>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=91.10 E-value=0.27 Score=59.03 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=38.2
Q ss_pred eeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 462 LLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 462 iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
++.+|||+|||..|+.++...+... .++++.+.++....|..+.++..
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g----~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALG----KSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcC----CeEEEEeCcHHHHHHHHHHHHHH
Confidence 4789999999999987755554432 57899999999999998888753
No 123
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=91.01 E-value=0.83 Score=51.66 Aligned_cols=45 Identities=31% Similarity=0.285 Sum_probs=37.2
Q ss_pred CCCHHHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
.+||.|......+..++..|+ | .+|.+|.|+||+......+-..+
T Consensus 4 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll 51 (319)
T PRK08769 4 AFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVL 51 (319)
T ss_pred cccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHh
Confidence 479999999999999999875 4 78999999999987766554444
No 124
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=90.84 E-value=1.1 Score=57.02 Aligned_cols=46 Identities=22% Similarity=0.199 Sum_probs=33.4
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKV 506 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~ 506 (941)
-++.++++||||||..||...+......+ ..+.++.+++.+=.+.+
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~--~~~fii~vp~~aI~egv 105 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYG--LFKFIIVVPTPAIKEGT 105 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcC--CcEEEEEeCCHHHHHHH
Confidence 47999999999999999999887766654 35566666554443333
No 125
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=90.74 E-value=0.44 Score=54.02 Aligned_cols=52 Identities=31% Similarity=0.280 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
++.+.+..+..++..|+|+++|+|+|||||+ |.-+++....- ....+-||..
T Consensus 28 g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~~---~~~~i~~t~~ 79 (329)
T COG0714 28 GDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALGL---PFVRIQCTPD 79 (329)
T ss_pred ccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhCC---CeEEEecCCC
Confidence 4888999999999999999999999999997 44444444432 2566777744
No 126
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=90.47 E-value=0.79 Score=57.37 Aligned_cols=67 Identities=15% Similarity=0.165 Sum_probs=47.0
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+ |..+ +|-.|. |.|+.||.|||+....|++..+... ..+.++|.+.=...|=.+++.++.+.
T Consensus 81 ~~dvQl--ig~l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~G----~~v~vvT~neyLA~Rd~e~~~~~~~~ 147 (796)
T PRK12906 81 PFDVQI--IGGI--VLHEGN--IAEMKTGEGKTLTATLPVYLNALTG----KGVHVVTVNEYLSSRDATEMGELYRW 147 (796)
T ss_pred CchhHH--HHHH--HHhcCC--cccccCCCCCcHHHHHHHHHHHHcC----CCeEEEeccHHHHHhhHHHHHHHHHh
Confidence 567774 3333 334444 8999999999999888877665544 35666777776777777788877664
No 127
>KOG1803|consensus
Probab=90.03 E-value=0.49 Score=56.46 Aligned_cols=63 Identities=27% Similarity=0.492 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
+.|.+.. .-++..+...++.+|+|||||-.+.-....-...+ .+|++|..|.-...-+++-+.
T Consensus 188 ~SQk~Av---~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~----k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 188 SSQKAAV---SFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQK----KRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred HHHHHHH---HHHhccCCceEeeCCCCCCceeeHHHHHHHHHHcC----CeEEEEcCchHHHHHHHHHhc
Confidence 4564433 33444568999999999999987766655555544 689999999888777777543
No 128
>PHA02244 ATPase-like protein
Probab=89.64 E-value=0.73 Score=52.86 Aligned_cols=49 Identities=16% Similarity=0.104 Sum_probs=37.2
Q ss_pred cccCCcc-ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 426 LMIDDLP-VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 426 ~~~~~~~-~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
-..+++. +.|||-..-|.+......+.+.+..+.++++.+|||||||..
T Consensus 86 ~~~~~l~~~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtL 135 (383)
T PHA02244 86 KPAGDISGIDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHI 135 (383)
T ss_pred CCcCchhhCCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHH
Confidence 3344444 567777666666666667788999999999999999999964
No 129
>KOG0328|consensus
Probab=89.33 E-value=0.28 Score=53.34 Aligned_cols=75 Identities=17% Similarity=0.145 Sum_probs=53.9
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.+-|+.|..+|...+ ..+-.|+.+|.+|-.|||||.++-|+.|.-+.-.. +...+.+.+.|.....|+-+-+..+
T Consensus 44 ~yGfekPS~IQqrAi----~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~-r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAI----PQILKGRDVIAQAQSGTGKTATFSISVLQSLDISV-RETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred HhccCCchHHHhhhh----hhhhcccceEEEecCCCCceEEEEeeeeeeccccc-ceeeEEEecChHHHHHHHHHHHHHh
Confidence 477889999995444 44557899999999999999999888876544322 3356777788776666655555444
No 130
>KOG0326|consensus
Probab=89.24 E-value=0.22 Score=54.87 Aligned_cols=87 Identities=18% Similarity=0.225 Sum_probs=56.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc---hhHHHHHHHHH
Q psy11433 436 PYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP---EIEKVVEELAR 512 (941)
Q Consensus 436 Py~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~---q~~q~i~el~~ 512 (941)
-|+.|.|+|.+-+- ..-.|+.++.-|-.|||||-||..|.|.-+.... +.+..++...|.. |..|+..|+.+
T Consensus 104 G~ekPSPiQeesIP----iaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~-~~IQ~~ilVPtrelALQtSqvc~~lsk 178 (459)
T KOG0326|consen 104 GFEKPSPIQEESIP----IALTGRDILARAKNGTGKTAAYCIPVLEKIDPKK-NVIQAIILVPTRELALQTSQVCKELSK 178 (459)
T ss_pred ccCCCCCccccccc----eeecchhhhhhccCCCCCccceechhhhhcCccc-cceeEEEEeecchhhHHHHHHHHHHhc
Confidence 35567888855443 3347889999999999999999999999876543 4455555554433 35566666543
Q ss_pred HHHHHhhcccccceeeEEecccccc
Q psy11433 513 LFDYYIKHNEEINMTGLVLSSRKNL 537 (941)
Q Consensus 513 ~~~~~~~~~~~~~~~~~~l~sr~~l 537 (941)
- ..++..+..|..++
T Consensus 179 h----------~~i~vmvttGGT~l 193 (459)
T KOG0326|consen 179 H----------LGIKVMVTTGGTSL 193 (459)
T ss_pred c----------cCeEEEEecCCccc
Confidence 2 24555555555443
No 131
>PRK13531 regulatory ATPase RavA; Provisional
Probab=89.22 E-value=0.34 Score=57.34 Aligned_cols=35 Identities=17% Similarity=0.008 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
+|.+.++.+..++..|+|+++++|+|||||+..-.
T Consensus 24 gre~vI~lll~aalag~hVLL~GpPGTGKT~LAra 58 (498)
T PRK13531 24 ERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARR 58 (498)
T ss_pred CcHHHHHHHHHHHccCCCEEEECCCChhHHHHHHH
Confidence 68889999999999999999999999999985533
No 132
>KOG0339|consensus
Probab=88.81 E-value=0.5 Score=55.14 Aligned_cols=87 Identities=13% Similarity=0.086 Sum_probs=64.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC----CCCceEEEeccccchhHHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----LDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
|+.|||+|.+.... .-.|..++=-|-||+|||-|++-|.+......+ -+.+-.++|..|.....|+..|.++
T Consensus 243 y~kptpiq~qalpt----alsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKk 318 (731)
T KOG0339|consen 243 YEKPTPIQCQALPT----ALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKK 318 (731)
T ss_pred cccCCccccccccc----ccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHH
Confidence 66788999655433 335677777899999999999999998877643 2345678999999999999999999
Q ss_pred HHHHHhhcccccceeeEEeccc
Q psy11433 513 LFDYYIKHNEEINMTGLVLSSR 534 (941)
Q Consensus 513 ~~~~~~~~~~~~~~~~~~l~sr 534 (941)
+-+. ..+..+.+.|.
T Consensus 319 f~K~-------ygl~~v~~ygG 333 (731)
T KOG0339|consen 319 FGKA-------YGLRVVAVYGG 333 (731)
T ss_pred hhhh-------ccceEEEeecC
Confidence 8543 24555555443
No 133
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=88.57 E-value=0.61 Score=44.40 Aligned_cols=31 Identities=42% Similarity=0.472 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHh--cCceeeeCCCCCchhHH
Q psy11433 444 QYAYMVELKKALDA--KGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 444 Q~~~M~~v~~al~~--~~~~iiEaPTGTGKTls 474 (941)
|...+..+...+.. +.++++-+|+|+|||..
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 55667777788776 78999999999999953
No 134
>KOG0347|consensus
Probab=88.55 E-value=0.4 Score=56.46 Aligned_cols=76 Identities=20% Similarity=0.142 Sum_probs=53.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC----------CCCce--EEEeccccchhH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP----------LDVTK--LLYCSRTVPEIE 504 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~----------~~~~k--i~~ct~t~~q~~ 504 (941)
|..|+++|.-.+ -.|+..+..+|=-|-||+|||||+-+|.+.-+.... ..+++ .++.|.|....-
T Consensus 201 Fs~Pt~IQsl~l---p~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~ 277 (731)
T KOG0347|consen 201 FSRPTEIQSLVL---PAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAH 277 (731)
T ss_pred CCCCccchhhcc---cHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHH
Confidence 556889994332 233334467788899999999999999998544321 12344 567788888888
Q ss_pred HHHHHHHHHHH
Q psy11433 505 KVVEELARLFD 515 (941)
Q Consensus 505 q~i~el~~~~~ 515 (941)
|+..-+..+..
T Consensus 278 QV~~Hl~ai~~ 288 (731)
T KOG0347|consen 278 QVKQHLKAIAE 288 (731)
T ss_pred HHHHHHHHhcc
Confidence 88888887743
No 135
>KOG0337|consensus
Probab=87.95 E-value=0.5 Score=54.06 Aligned_cols=68 Identities=16% Similarity=0.155 Sum_probs=50.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVE 508 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~ 508 (941)
|..|+|+|+.-| ..+-+|+.++--|-||+|||.|++.|++..+..+.....+....+.|.....|.++
T Consensus 41 ~~~ptpiqRKTi----pliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlk 108 (529)
T KOG0337|consen 41 FNTPTPIQRKTI----PLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLK 108 (529)
T ss_pred cCCCCchhcccc----cceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHH
Confidence 556889995544 45556777888899999999999999999998876455666666666555555443
No 136
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=87.67 E-value=1.3 Score=54.65 Aligned_cols=67 Identities=18% Similarity=0.140 Sum_probs=50.6
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+--|-.+. .| -|.|+.||.|||+....|+...+... ..+.++|.+.-...|-.+++.++.+.
T Consensus 79 ~ydvQlig~l~Ll----~G--~VaEM~TGEGKTLvA~l~a~l~AL~G----~~VhvvT~NdyLA~RDae~m~~ly~~ 145 (764)
T PRK12326 79 PFDVQLLGALRLL----AG--DVIEMATGEGKTLAGAIAAAGYALQG----RRVHVITVNDYLARRDAEWMGPLYEA 145 (764)
T ss_pred cchHHHHHHHHHh----CC--CcccccCCCCHHHHHHHHHHHHHHcC----CCeEEEcCCHHHHHHHHHHHHHHHHh
Confidence 6788977775553 33 46799999999999998888766543 45777787777777888888887764
No 137
>KOG0989|consensus
Probab=86.71 E-value=0.82 Score=50.71 Aligned_cols=39 Identities=38% Similarity=0.384 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHh--cCceeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDA--KGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~--~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
+|...-..+.+++.. .-|.+|-+|.|||||-+.+..+-+
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~ 80 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARA 80 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHH
Confidence 577777778888875 469999999999999988877644
No 138
>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=86.01 E-value=1.3 Score=45.74 Aligned_cols=50 Identities=20% Similarity=0.260 Sum_probs=24.4
Q ss_pred CCCCCCCHHHHHHHHHHHH--HHHhcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 435 FPYEYIYPEQYAYMVELKK--ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~--al~~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
|.|....+.+...+..+.. -++++.++++-+|||||||.-..+.+-..+.
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~ 73 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEAIR 73 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHhcc
Confidence 3344344455555555522 2346789999999999999866555545554
No 139
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=85.56 E-value=6.8 Score=42.61 Aligned_cols=68 Identities=19% Similarity=0.275 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHHHHHHhc---CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc-cchhHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAK---GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT-VPEIEKVVEELA 511 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~---~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t-~~q~~q~i~el~ 511 (941)
-|+.|++.+.+=..++..| .|+++-++.|||||..+-...-.|.... .+++-..+. ...+..+++.++
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~~L~~l~~l~~~l~ 102 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHHHhccHHHHHHHHh
Confidence 3568888888877777776 4999999999999876666554555432 666655432 333444444443
No 140
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=85.42 E-value=4.4 Score=39.60 Aligned_cols=54 Identities=15% Similarity=0.183 Sum_probs=33.0
Q ss_pred Ccee--eeCCCCCchhHHHHHHHHH-HHhcCCCCCceEEEeccccch---hHHHHHHHHH
Q psy11433 459 GHCL--LEMPSGTGKTTSLLSLIVA-YMNAHPLDVTKLLYCSRTVPE---IEKVVEELAR 512 (941)
Q Consensus 459 ~~~i--iEaPTGTGKTls~L~~al~-~~~~~~~~~~ki~~ct~t~~q---~~q~i~el~~ 512 (941)
++++ |-+|||||||...=..|=. |....+++.+..++.+.-=|. +.+.-++|+.
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~ 111 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKS 111 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHH
Confidence 4555 9999999999754333333 555556667778888754433 3333444444
No 141
>KOG0351|consensus
Probab=85.42 E-value=0.33 Score=61.79 Aligned_cols=46 Identities=22% Similarity=0.283 Sum_probs=38.6
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
..|-+...||.|.+.+. +...|+.+++.+|||-||+|+|-.|++-+
T Consensus 258 ~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~ 303 (941)
T KOG0351|consen 258 EVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL 303 (941)
T ss_pred HHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc
Confidence 35777778999977665 67789999999999999999998888754
No 142
>KOG0389|consensus
Probab=85.00 E-value=0.65 Score=56.86 Aligned_cols=67 Identities=18% Similarity=0.326 Sum_probs=49.4
Q ss_pred HHHHHHhchhCCCCHHHHHH-------HHhh----cCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHhh
Q psy11433 57 ITKLKEMGRELGLCPYFLAR-------QAII----HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCV 124 (941)
Q Consensus 57 iEdL~~~g~~~~~CPY~~aR-------~~~~----~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~~ 124 (941)
+-|+.++|....+=|||.+. ..+. .-||+++.|+..-...--..+...+ +-++||+||||-|=+...
T Consensus 464 lrEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~-~~n~viyDEgHmLKN~~S 541 (941)
T KOG0389|consen 464 LREFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQ-KFNYVIYDEGHMLKNRTS 541 (941)
T ss_pred HHHHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhc-cccEEEecchhhhhccch
Confidence 44888888888888898753 2332 4599999999988766544455555 678999999999965443
No 143
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=84.86 E-value=1.8 Score=49.02 Aligned_cols=38 Identities=29% Similarity=0.355 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+.|.+++ ..++..++++++-+|||+||| .++-+.+.+.
T Consensus 135 ~~~~~~L---~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 135 AAQREAI---IAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHHHH---HHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 4565554 556678999999999999999 6666666654
No 144
>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=84.45 E-value=0.48 Score=44.63 Aligned_cols=44 Identities=30% Similarity=0.277 Sum_probs=31.0
Q ss_pred HHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 76 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 76 R~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
+......+|++++|+.+.......... .....++||||||++..
T Consensus 74 ~~~~~~~~i~i~t~~~~~~~~~~~~~~--~~~~~~iiiDE~h~~~~ 117 (144)
T cd00046 74 KLLSGKTDIVVGTPGRLLDELERLKLS--LKKLDLLILDEAHRLLN 117 (144)
T ss_pred HHhcCCCCEEEECcHHHHHHHHcCCcc--hhcCCEEEEeCHHHHhh
Confidence 444668899999999886544332111 23568999999999965
No 145
>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=84.21 E-value=5.1 Score=40.62 Aligned_cols=41 Identities=32% Similarity=0.397 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhc--Cc-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GH-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|.+..+.+.+.+..+ .| .||++|.|+||+...+..+-..+
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHc
Confidence 4788889999999987 35 59999999999877666554433
No 146
>KOG4284|consensus
Probab=84.13 E-value=0.63 Score=55.75 Aligned_cols=73 Identities=19% Similarity=0.167 Sum_probs=53.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 437 YEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 437 y~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
|..|+++|... +.++..|-.+|++|-.|||||+.|-..++.-+..+. ..+.+++.+.|..-.-|+-+.++.+.
T Consensus 45 f~~ptkiQaaA----IP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~-~~~q~~Iv~PTREiaVQI~~tv~~v~ 117 (980)
T KOG4284|consen 45 FALPTKIQAAA----IPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRS-SHIQKVIVTPTREIAVQIKETVRKVA 117 (980)
T ss_pred ccCCCchhhhh----hhhhhcccceEEEecCCCCceEEEEeeeehhcCccc-CcceeEEEecchhhhhHHHHHHHHhc
Confidence 45688899544 445567788999999999999999998887665432 34666777777666666666666654
No 147
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=84.12 E-value=1.7 Score=54.92 Aligned_cols=67 Identities=12% Similarity=0.076 Sum_probs=43.3
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+ |.. +.-..--|.|+.||.|||++...|++..+... ..+.+.|.+.=..+|=.+.+.++.+.
T Consensus 83 ~ydVQl--iGg----~~Lh~G~iaEM~TGEGKTLvA~l~a~l~al~G----~~VhvvT~ndyLA~RD~e~m~~l~~~ 149 (913)
T PRK13103 83 HFDVQL--IGG----MTLHEGKIAEMRTGEGKTLVGTLAVYLNALSG----KGVHVVTVNDYLARRDANWMRPLYEF 149 (913)
T ss_pred cchhHH--Hhh----hHhccCccccccCCCCChHHHHHHHHHHHHcC----CCEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 667774 332 22223457899999999999888887555443 34555666655566666677776543
No 148
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=84.08 E-value=0.89 Score=48.07 Aligned_cols=33 Identities=36% Similarity=0.278 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~ 475 (941)
+|.+.-+++.-|...+.++++.+|.|||||+..
T Consensus 7 GQe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 7 GQEEAKRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp STHHHHHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred CcHHHHHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 577777777777778899999999999999853
No 149
>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=83.86 E-value=2.2 Score=45.78 Aligned_cols=69 Identities=19% Similarity=0.218 Sum_probs=49.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.||.|.++..++.+. ..|++.+.+.-.|-|||- .|.|.++++.+++.. ++-..=-.|+.+|...-|+.-
T Consensus 24 iR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTs-VI~Pmla~~LAdg~~---LvrviVpk~Ll~q~~~~L~~~ 92 (229)
T PF12340_consen 24 IRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTS-VIVPMLALALADGSR---LVRVIVPKALLEQMRQMLRSR 92 (229)
T ss_pred eeHHHHHHHHHHhCC-CCCCCeEeeecccCCccc-hHHHHHHHHHcCCCc---EEEEEcCHHHHHHHHHHHHHH
Confidence 689999999998875 578899999999999995 678888888776533 322222345566665555543
No 150
>PRK06835 DNA replication protein DnaC; Validated
Probab=83.69 E-value=2.4 Score=48.16 Aligned_cols=54 Identities=15% Similarity=0.161 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHHHHHHH----hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 440 IYPEQYAYMVELKKALD----AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~----~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
||..+...+....+-++ .+.+++|-+|||||||--..+.+-..+.. + ..|+|.+
T Consensus 161 ~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~-g---~~V~y~t 218 (329)
T PRK06835 161 PRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDR-G---KSVIYRT 218 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHC-C---CeEEEEE
Confidence 44444444443333333 46899999999999998444443333332 2 3555544
No 151
>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=83.30 E-value=0.48 Score=47.67 Aligned_cols=56 Identities=14% Similarity=0.037 Sum_probs=36.8
Q ss_pred CCCHHHHHHHHhhcCcEEEEccccccChhhh---------hHhhhhcCCCcEEEEecCccccHHh
Q psy11433 68 GLCPYFLARQAIIHAKIVVYSYHYLLDPKIA---------NVVSKELARSSVVVFDEAHNIDNVC 123 (941)
Q Consensus 68 ~~CPY~~aR~~~~~AdIVv~~y~yLl~~~~r---------~~~~~~l~~~~ivI~DEAHNL~d~~ 123 (941)
..|............++++++|+-|...... ...........+|||||||+....-
T Consensus 98 ~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~ 162 (184)
T PF04851_consen 98 QDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDS 162 (184)
T ss_dssp TTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHH
T ss_pred ccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHH
Confidence 3455555666677889999999988765322 1112223456899999999997654
No 152
>KOG0327|consensus
Probab=83.18 E-value=0.66 Score=52.58 Aligned_cols=46 Identities=22% Similarity=0.206 Sum_probs=37.3
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
-|-|+.|..+|...+ -.+-.|.++++.+++|||||.+++++++.-.
T Consensus 43 ~yGFekPSaIQqraI----~p~i~G~dv~~qaqsgTgKt~af~i~iLq~i 88 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAI----LPCIKGHDVIAQAQSGTGKTAAFLISILQQI 88 (397)
T ss_pred hhccCCchHHHhccc----cccccCCceeEeeeccccchhhhHHHHHhhc
Confidence 478899999994332 3344689999999999999999999998765
No 153
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=82.83 E-value=0.94 Score=51.54 Aligned_cols=40 Identities=30% Similarity=0.412 Sum_probs=29.2
Q ss_pred CCCCCCCHHHHHHHHHHHH-HHHhc-CceeeeCCCCCchhHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKK-ALDAK-GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~-al~~~-~~~iiEaPTGTGKTls~ 475 (941)
|||. -.-+|.+..+.+.- ++..| +|+++++|+|||||...
T Consensus 5 ~~f~-~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~la 46 (334)
T PRK13407 5 FPFS-AIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAV 46 (334)
T ss_pred CCHH-HhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHH
Confidence 4443 33468888887775 44455 89999999999999644
No 154
>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=82.44 E-value=0.99 Score=42.32 Aligned_cols=22 Identities=36% Similarity=0.397 Sum_probs=17.9
Q ss_pred cCceeeeCCCCCchhHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~a 479 (941)
+.++++-+|+|||||..+...+
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~ 23 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALA 23 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHH
Confidence 5689999999999998665544
No 155
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=82.39 E-value=1.3 Score=49.72 Aligned_cols=37 Identities=32% Similarity=0.516 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhcC--ceeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~iiEaPTGTGKTls~L~~a 479 (941)
+|.+..+.+..++..+. ++++.+|+|||||......+
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~ 57 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALA 57 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 45667777888888877 99999999999997655543
No 156
>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=82.34 E-value=3.5 Score=45.40 Aligned_cols=67 Identities=18% Similarity=0.149 Sum_probs=42.6
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+--.-.+ ..|. |.|+-||-|||+....|+...+... ..|.++|-..-..++=.+++..+.+.
T Consensus 78 p~~vQll~~l~L----~~G~--laEm~TGEGKTli~~l~a~~~AL~G----~~V~vvT~NdyLA~RD~~~~~~~y~~ 144 (266)
T PF07517_consen 78 PYDVQLLGALAL----HKGR--LAEMKTGEGKTLIAALPAALNALQG----KGVHVVTSNDYLAKRDAEEMRPFYEF 144 (266)
T ss_dssp --HHHHHHHHHH----HTTS--EEEESTTSHHHHHHHHHHHHHHTTS----S-EEEEESSHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHhhhhhc----ccce--eEEecCCCCcHHHHHHHHHHHHHhc----CCcEEEeccHHHhhccHHHHHHHHHH
Confidence 677785444333 3333 9999999999999988877665543 34555555555566666777777654
No 157
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=82.23 E-value=2.9 Score=49.59 Aligned_cols=72 Identities=21% Similarity=0.242 Sum_probs=56.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhc-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAK-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
=||+ |.--|=+.++++.+.+.+| ++-.+=+-||||||.. +++..+.- ....++..|-.....|+..|++.+
T Consensus 9 s~f~-PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT-----~AnVI~~~--~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 9 SPFK-PAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFT-----MANVIAKV--QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred cCCC-CCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhH-----HHHHHHHh--CCCeEEEecchhHHHHHHHHHHHh
Confidence 3665 8888999999999999987 7899999999999964 34433321 134667788899999999999977
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
.
T Consensus 81 F 81 (663)
T COG0556 81 F 81 (663)
T ss_pred C
Confidence 4
No 158
>KOG0991|consensus
Probab=82.17 E-value=1.8 Score=46.39 Aligned_cols=39 Identities=28% Similarity=0.373 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 446 AYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 446 ~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
+.|+.+.-...+| .|.++-+|+|||||-|.+|.+=..+-
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 4455554444555 59999999999999999998765543
No 159
>KOG0352|consensus
Probab=81.94 E-value=2.5 Score=48.68 Aligned_cols=27 Identities=22% Similarity=0.385 Sum_probs=23.9
Q ss_pred HHhcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 455 LDAKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 455 l~~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
+..++.+.+.+|||.||+|+|-.|+|-
T Consensus 33 VK~k~DVyVsMPTGaGKSLCyQLPaL~ 59 (641)
T KOG0352|consen 33 VKRKCDVYVSMPTGAGKSLCYQLPALV 59 (641)
T ss_pred HhccCcEEEeccCCCchhhhhhchHHH
Confidence 346789999999999999999999886
No 160
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=81.74 E-value=4 Score=51.76 Aligned_cols=68 Identities=19% Similarity=0.224 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
|+..|+--...+ -.|+..-+-||||+|||---+..++-++... .+..+-..|.+...|+.+.+..+.+
T Consensus 83 ~ws~QR~WakR~----~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg----kr~yii~PT~~Lv~Q~~~kl~~~~e 150 (1187)
T COG1110 83 PWSAQRVWAKRL----VRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG----KRVYIIVPTTTLVRQVYERLKKFAE 150 (1187)
T ss_pred chHHHHHHHHHH----HcCCceEEEcCCCCchhHHHHHHHHHHHhcC----CeEEEEecCHHHHHHHHHHHHHHHh
Confidence 778887776654 4578888899999999988888777766554 5788888999999999999998864
No 161
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=81.74 E-value=2.8 Score=52.83 Aligned_cols=67 Identities=13% Similarity=0.058 Sum_probs=41.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDY 516 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~ 516 (941)
||+.|+-- ++.-.+--|.|+.||-||||+...|+...+... ..+.++|-..-...+-.+.+..+.+.
T Consensus 77 ~ydvQlig------~l~L~~G~IaEm~TGEGKTL~a~l~ayl~aL~G----~~VhVvT~NdyLA~RD~e~m~pvy~~ 143 (870)
T CHL00122 77 HFDVQLIG------GLVLNDGKIAEMKTGEGKTLVATLPAYLNALTG----KGVHIVTVNDYLAKRDQEWMGQIYRF 143 (870)
T ss_pred CCchHhhh------hHhhcCCccccccCCCCchHHHHHHHHHHHhcC----CceEEEeCCHHHHHHHHHHHHHHHHH
Confidence 56677432 223234578999999999999888875433322 34555555544455555666666554
No 162
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=81.59 E-value=1.6 Score=48.36 Aligned_cols=38 Identities=32% Similarity=0.306 Sum_probs=26.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
|+..-..+..-+.-.+..|.++++-||||||||...-.
T Consensus 15 pT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li~~ 52 (272)
T PF12775_consen 15 PTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLIQN 52 (272)
T ss_dssp --HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHHHh
Confidence 44444445555555677899999999999999984433
No 163
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=81.10 E-value=3.2 Score=48.99 Aligned_cols=29 Identities=31% Similarity=0.401 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHH
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~ 475 (941)
..+.+..++..++++++.+|+|||||...
T Consensus 183 ~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 183 TIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 34567788889999999999999999644
No 164
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=80.95 E-value=11 Score=43.14 Aligned_cols=44 Identities=23% Similarity=0.269 Sum_probs=35.3
Q ss_pred CCHHHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al~~~ 483 (941)
+||.|...-+.+..++..|+ |+ +|.||.|+||+...+..+-..+
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~Ll 49 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLM 49 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHc
Confidence 68889999999999999874 55 4999999999987777654443
No 165
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=80.29 E-value=1.9 Score=49.69 Aligned_cols=39 Identities=18% Similarity=0.218 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHHHHHHhc---CceeeeCCCCCchhHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAK---GHCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~---~~~iiEaPTGTGKTls~L~~ 478 (941)
-|+.|.+-+..+....-.| .++++-+|||||||...-.-
T Consensus 21 ~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v 62 (366)
T COG1474 21 HREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFV 62 (366)
T ss_pred ccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHH
Confidence 3788877666555544433 47999999999999865543
No 166
>PLN03025 replication factor C subunit; Provisional
Probab=80.21 E-value=1.9 Score=48.71 Aligned_cols=37 Identities=32% Similarity=0.385 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~a 479 (941)
+|.+.+..+...+..+ .|++|.||+|||||....+.+
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la 55 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALA 55 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHH
Confidence 4666777777777765 589999999999997655543
No 167
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=80.19 E-value=7.2 Score=44.28 Aligned_cols=44 Identities=23% Similarity=0.315 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHHHHHhcC--cee-eeCCCCCchhHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKG--HCL-LEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~--~~i-iEaPTGTGKTls~L~~al~~~ 483 (941)
.||.|...-..+..++..|+ |++ |+||.|+||+......+-..+
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~ll 49 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLM 49 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence 57889999999999999874 555 999999999987666554443
No 168
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=79.97 E-value=2.7 Score=46.73 Aligned_cols=47 Identities=26% Similarity=0.461 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHHHHH-hcCceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 440 IYPEQYAYMVELKKALD-AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~-~~~~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
|.-.|+-+=..+.+.++ ..+.+++-+|||+|||- .|.+.+.|.+.+.
T Consensus 106 ~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKST-TlAamId~iN~~~ 153 (353)
T COG2805 106 PTLEELGLPPIVRELAESPRGLILVTGPTGSGKST-TLAAMIDYINKHK 153 (353)
T ss_pred CCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHH-HHHHHHHHHhccC
Confidence 44445544455555444 45899999999999995 5778889998875
No 169
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=79.56 E-value=2 Score=51.16 Aligned_cols=72 Identities=17% Similarity=0.179 Sum_probs=57.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 438 EYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 438 ~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
++..|.| ...|...|-+|.+.++-|+|+|||||.-=.+-+.-+...+ .|.+|.+.-+....|-.++++.-++
T Consensus 215 ~eLlPVQ---~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g---~KmlfLvPLVALANQKy~dF~~rYs 286 (830)
T COG1202 215 EELLPVQ---VLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGG---KKMLFLVPLVALANQKYEDFKERYS 286 (830)
T ss_pred ceecchh---hhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCC---CeEEEEehhHHhhcchHHHHHHHhh
Confidence 3455666 3566777889999999999999999987777777666543 6899999999999999998886543
No 170
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=79.52 E-value=5.7 Score=49.63 Aligned_cols=69 Identities=19% Similarity=0.214 Sum_probs=57.2
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
-+.|......+...+..-...++.+.||+|||-.||-.+-..+... ..+++....+....|++..++..
T Consensus 200 n~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G----kqvLvLVPEI~Ltpq~~~rf~~r 268 (730)
T COG1198 200 NQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG----KQVLVLVPEIALTPQLLARFKAR 268 (730)
T ss_pred CHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcC----CEEEEEeccccchHHHHHHHHHH
Confidence 3678888888888773348999999999999999999999988875 46888888888888888877743
No 171
>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=79.16 E-value=2.5 Score=44.15 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=26.7
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEe
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYC 496 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~c 496 (941)
...|+++-++||+|||..+-+.++..+..+.++...++.+
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~ii 76 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYII 76 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEE
Confidence 5569999999999999999988888777554444444444
No 172
>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=78.60 E-value=4 Score=43.38 Aligned_cols=51 Identities=29% Similarity=0.463 Sum_probs=34.4
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc-CCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA-HPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~-~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.|...++++|+|||||.-.+-.+...++. . .+++|.+=..+. +++++.++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~g----e~vlyvs~ee~~-~~l~~~~~s 69 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFG----EKVLYVSFEEPP-EELIENMKS 69 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT------EEEEESSS-H-HHHHHHHHT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcC----CcEEEEEecCCH-HHHHHHHHH
Confidence 67899999999999999888878777776 4 345555423222 556665553
No 173
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=78.34 E-value=18 Score=41.04 Aligned_cols=43 Identities=26% Similarity=0.206 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~~ 482 (941)
+||.|.+.-..+.++++.|+ -.+|.+|.|+||+......+-..
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~l 49 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRAL 49 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHH
Confidence 78999999999999999875 57899999999996555544433
No 174
>KOG0329|consensus
Probab=77.88 E-value=3.4 Score=44.61 Aligned_cols=74 Identities=16% Similarity=0.111 Sum_probs=56.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHHHHh
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYI 518 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~~~~ 518 (941)
|.+.|-+-+-..+ -|..++.+|-+|.|||..+..++|..+..-+ ....+++..||....-|+-.|..+..+|++
T Consensus 65 psevqhecipqai----lgmdvlcqaksgmgktavfvl~tlqqiepv~-g~vsvlvmchtrelafqi~~ey~rfskymP 138 (387)
T KOG0329|consen 65 PSEVQHECIPQAI----LGMDVLCQAKSGMGKTAVFVLATLQQIEPVD-GQVSVLVMCHTRELAFQISKEYERFSKYMP 138 (387)
T ss_pred chHhhhhhhhHHh----hcchhheecccCCCceeeeehhhhhhcCCCC-CeEEEEEEeccHHHHHHHHHHHHHHHhhCC
Confidence 5567755443322 4678899999999999999999988776543 346677777999999999999999887764
No 175
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=77.71 E-value=4.4 Score=46.72 Aligned_cols=55 Identities=22% Similarity=0.335 Sum_probs=39.2
Q ss_pred CHHHHHHHHHHHHHHH--hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 441 YPEQYAYMVELKKALD--AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~--~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
-++|...++.|.+++. .+.++.+.+|-|||||..+=+. ..+++.. ...++.|..|
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i-~~~~~~~---~~~~~~~a~t 59 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAI-IDYLRSR---GKKVLVTAPT 59 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHH-HHHhccc---cceEEEecch
Confidence 3689999999988885 6788999999999999755333 3444432 2456656555
No 176
>PRK08181 transposase; Validated
Probab=77.44 E-value=6.2 Score=43.64 Aligned_cols=35 Identities=23% Similarity=0.157 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L 476 (941)
+.|..-.....+-++.+.+++|-+|+|||||--..
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~ 124 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAA 124 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHH
Confidence 34444443333446688999999999999996433
No 177
>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=77.21 E-value=7.4 Score=44.38 Aligned_cols=41 Identities=20% Similarity=0.251 Sum_probs=25.4
Q ss_pred CHHHHHHHHHH-HHHHHh--cCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 441 YPEQYAYMVEL-KKALDA--KGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 441 y~~Q~~~M~~v-~~al~~--~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
|+.|.+-+... .+++.. +..+++-+|+|||||..+ ..++..
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~-~~~~~~ 63 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT-KYVMKE 63 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH-HHHHHH
Confidence 56665444443 333433 258999999999999654 333333
No 178
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=76.96 E-value=2.3 Score=48.36 Aligned_cols=39 Identities=21% Similarity=0.143 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 444 QYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 444 Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+.+++.-+..++..++++++-+|||+|||-.+ -+.+.++
T Consensus 146 ~~~~~~~L~~~v~~~~nili~G~tgSGKTTll-~aL~~~i 184 (332)
T PRK13900 146 EKKIKEFLEHAVISKKNIIISGGTSTGKTTFT-NAALREI 184 (332)
T ss_pred hHHHHHHHHHHHHcCCcEEEECCCCCCHHHHH-HHHHhhC
Confidence 44566677788889999999999999999644 4445544
No 179
>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=76.90 E-value=3.5 Score=47.24 Aligned_cols=52 Identities=33% Similarity=0.389 Sum_probs=34.9
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
..+++++..|||||+.++..+-...... ...++++.+..++....+-+.+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~--~~~~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSE--EGKKVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccc--cCCceEEEEecchHHHHHHHHHhh
Confidence 5789999999999998877766651111 235666777777766555555543
No 180
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=76.84 E-value=4 Score=53.92 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=39.4
Q ss_pred HHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEecc-----ccchhHHHHHHHHH
Q psy11433 448 MVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSR-----TVPEIEKVVEELAR 512 (941)
Q Consensus 448 M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~-----t~~q~~q~i~el~~ 512 (941)
.+++.++++++.++++.|+||+|||.. .|.+-+.... .....+.||. +.+-..|+-+|+..
T Consensus 79 r~~Il~ai~~~~VviI~GeTGSGKTTq--lPq~lle~g~--g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 79 KQDILEAIRDHQVVIVAGETGSGKTTQ--LPKICLELGR--GVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHHHH--HHHHHHHcCC--CCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 467888889999999999999999994 4643322211 1123566762 24445666666653
No 181
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=76.70 E-value=3.2 Score=49.22 Aligned_cols=30 Identities=33% Similarity=0.492 Sum_probs=24.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
..+.+++-+|||+|||- .|.++|.++....
T Consensus 257 p~GliLvTGPTGSGKTT-TLY~~L~~ln~~~ 286 (500)
T COG2804 257 PQGLILVTGPTGSGKTT-TLYAALSELNTPE 286 (500)
T ss_pred CCeEEEEeCCCCCCHHH-HHHHHHHHhcCCC
Confidence 34899999999999996 5677788887654
No 182
>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=76.68 E-value=5.3 Score=40.68 Aligned_cols=26 Identities=38% Similarity=0.382 Sum_probs=21.5
Q ss_pred eeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 461 CLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 461 ~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
.++.+|+|||||.-.+..+...++..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g 27 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARG 27 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence 58899999999998888777777543
No 183
>KOG0951|consensus
Probab=76.54 E-value=8.2 Score=50.04 Aligned_cols=63 Identities=21% Similarity=0.288 Sum_probs=44.2
Q ss_pred HHHHHHHH-hcCceeeeCCCCCchhHHHHHHHHHHHhcCCC-------CCceEEEeccccchhHHHHHHHH
Q psy11433 449 VELKKALD-AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL-------DVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 449 ~~v~~al~-~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~-------~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
..|+++-- ...++++.||||.|||...+.-+|.-+..|.. ...||+|-.......+-.++.+-
T Consensus 315 S~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfS 385 (1674)
T KOG0951|consen 315 SKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFS 385 (1674)
T ss_pred HHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHH
Confidence 34555444 55899999999999999999988888776542 23578887766665544444443
No 184
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=76.40 E-value=6.9 Score=48.69 Aligned_cols=73 Identities=19% Similarity=0.274 Sum_probs=56.4
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhc-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAK-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
+=||+ |.-.|-+...++.+.+..| ++.++-+.||+|||+..... +. ..+ ..+++-++...+..|+..|++.
T Consensus 5 ~~~~~-~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~-~~--~~~----~p~Lvi~~n~~~A~ql~~el~~ 76 (655)
T TIGR00631 5 HSPFQ-PAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANV-IA--QVN----RPTLVIAHNKTLAAQLYNEFKE 76 (655)
T ss_pred ccCCC-CChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHH-HH--HhC----CCEEEEECCHHHHHHHHHHHHH
Confidence 34675 8999999999999999876 47789999999999864322 11 111 3577888999999999999988
Q ss_pred HH
Q psy11433 513 LF 514 (941)
Q Consensus 513 ~~ 514 (941)
+.
T Consensus 77 f~ 78 (655)
T TIGR00631 77 FF 78 (655)
T ss_pred hC
Confidence 73
No 185
>PRK06526 transposase; Provisional
Probab=76.35 E-value=3.3 Score=45.38 Aligned_cols=27 Identities=30% Similarity=0.426 Sum_probs=20.7
Q ss_pred HHhcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 455 LDAKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 455 l~~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
++.+.++++-+|+|||||-.....+..
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHHHH
Confidence 457789999999999999755544433
No 186
>KOG0389|consensus
Probab=76.28 E-value=2.5 Score=52.01 Aligned_cols=68 Identities=18% Similarity=0.316 Sum_probs=48.1
Q ss_pred HHHHHhchhcCcCChHHHHH-------HHH----ccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCchHHhhhh
Q psy11433 713 TKLKEMGRELGLCPYFLARQ-------AII----HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDS 781 (941)
Q Consensus 713 edL~~~g~~~g~CPY~~~r~-------~~~----~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~d~~~~~ 781 (941)
-++.+||-...+-|||.+.+ .+. .-||+++.|+..-...--..+.... +-+++|+||||-|-+...+-
T Consensus 465 rEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~-~~n~viyDEgHmLKN~~SeR 543 (941)
T KOG0389|consen 465 REFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQ-KFNYVIYDEGHMLKNRTSER 543 (941)
T ss_pred HHHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhc-cccEEEecchhhhhccchHH
Confidence 36778888888888998542 222 3489999999877555444444433 56899999999887765443
No 187
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=76.26 E-value=2.9 Score=47.30 Aligned_cols=31 Identities=16% Similarity=0.194 Sum_probs=24.8
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
....|..++..++++++++|+|||||...-.
T Consensus 53 ~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~ 83 (327)
T TIGR01650 53 TTKAICAGFAYDRRVMVQGYHGTGKSTHIEQ 83 (327)
T ss_pred HHHHHHHHHhcCCcEEEEeCCCChHHHHHHH
Confidence 3445777888899999999999999975443
No 188
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=76.23 E-value=3.5 Score=47.07 Aligned_cols=44 Identities=25% Similarity=0.320 Sum_probs=32.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh--cCceeeeCCCCCchhHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDA--KGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~--~~~~iiEaPTGTGKTls~L~~a 479 (941)
|||. .--+|.++...+.-++-. .+++++++|+|||||..+=+.+
T Consensus 1 ~pf~-~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~ 46 (337)
T TIGR02030 1 FPFT-AIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALA 46 (337)
T ss_pred CCcc-ccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHH
Confidence 5565 233788888887666665 6899999999999997554444
No 189
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=75.93 E-value=2.3 Score=48.68 Aligned_cols=29 Identities=31% Similarity=0.314 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
++..-+..++..++++++-+|||+|||-.
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHH
Confidence 34566677788999999999999999963
No 190
>KOG0353|consensus
Probab=75.87 E-value=2.7 Score=47.39 Aligned_cols=52 Identities=29% Similarity=0.364 Sum_probs=38.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEe
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYC 496 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~c 496 (941)
|-.+..||-|++.+ .+...|+.+++-.|||-||+|+|-.|+|-- +....++|
T Consensus 90 f~lekfrplq~~ai----n~~ma~ed~~lil~tgggkslcyqlpal~a------dg~alvi~ 141 (695)
T KOG0353|consen 90 FHLEKFRPLQLAAI----NATMAGEDAFLILPTGGGKSLCYQLPALCA------DGFALVIC 141 (695)
T ss_pred hhHHhcChhHHHHh----hhhhccCceEEEEeCCCccchhhhhhHHhc------CCceEeec
Confidence 44445788896654 455678999999999999999999998752 33555555
No 191
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=75.87 E-value=2.4 Score=48.07 Aligned_cols=38 Identities=24% Similarity=0.386 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+.|.++ +..++..++++++-+|||+|||-.+ -+.+.+.
T Consensus 131 ~~~~~~---L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i 168 (323)
T PRK13833 131 EAQASV---IRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEI 168 (323)
T ss_pred HHHHHH---HHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence 456555 5567778999999999999999643 4455544
No 192
>KOG0391|consensus
Probab=75.85 E-value=3.9 Score=52.31 Aligned_cols=61 Identities=26% Similarity=0.351 Sum_probs=39.2
Q ss_pred HHHHhchhCCCCHHHHHHHHhh---------cC-cEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHHh
Q psy11433 59 KLKEMGRELGLCPYFLARQAII---------HA-KIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVC 123 (941)
Q Consensus 59 dL~~~g~~~~~CPY~~aR~~~~---------~A-dIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~~ 123 (941)
+|+.+|...++=-||.+-+-.+ +| .|+|+.|..++.....- -...| .++|+||||||-+.-
T Consensus 683 ElKRwcPglKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~AF-krkrW---qyLvLDEaqnIKnfk 753 (1958)
T KOG0391|consen 683 ELKRWCPGLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLTAF-KRKRW---QYLVLDEAQNIKNFK 753 (1958)
T ss_pred HHhhhCCcceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHHHH-Hhhcc---ceeehhhhhhhcchh
Confidence 4555555555555887533221 33 89999999999865321 12222 489999999995543
No 193
>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=75.33 E-value=2.5 Score=47.42 Aligned_cols=36 Identities=28% Similarity=0.308 Sum_probs=25.8
Q ss_pred HHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 449 VELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 449 ~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
..+..++..++++++-+|||+|||-.+ -+.+.++..
T Consensus 123 ~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~ 158 (299)
T TIGR02782 123 DVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAK 158 (299)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhc
Confidence 345556778899999999999999643 445555443
No 194
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=75.28 E-value=2.4 Score=49.77 Aligned_cols=32 Identities=34% Similarity=0.256 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
+|.+.=+.+.-|...|.++++.+|+|||||+.
T Consensus 183 GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 183 GQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred CcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 57777777777777899999999999999984
No 195
>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=75.17 E-value=4 Score=50.95 Aligned_cols=52 Identities=23% Similarity=0.349 Sum_probs=38.0
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.++..++-||.|||||-+++-..-.|+... ..++++-++-.+..+++.+.+.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~---~~~VLvVShRrSL~~sL~~rf~ 99 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRWLKDALKNP---DKSVLVVSHRRSLTKSLAERFK 99 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHHHHHhccCC---CCeEEEEEhHHHHHHHHHHHHh
Confidence 678999999999999988766554444322 2677777887777766666665
No 196
>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=75.10 E-value=1.3 Score=44.03 Aligned_cols=40 Identities=33% Similarity=0.468 Sum_probs=29.3
Q ss_pred hcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 80 IHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 80 ~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
..++|+|+++..|++....... .+....+|||||+|.+.+
T Consensus 94 ~~~~ilv~T~~~l~~~~~~~~~--~~~~~~~iViDE~h~l~~ 133 (169)
T PF00270_consen 94 NQADILVTTPEQLLDLISNGKI--NISRLSLIVIDEAHHLSD 133 (169)
T ss_dssp TTSSEEEEEHHHHHHHHHTTSS--TGTTESEEEEETHHHHHH
T ss_pred ccccccccCcchhhcccccccc--ccccceeeccCccccccc
Confidence 4699999999998865433111 233468999999999966
No 197
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=75.01 E-value=1.8 Score=43.46 Aligned_cols=50 Identities=26% Similarity=0.246 Sum_probs=32.7
Q ss_pred CHHHHHHHHhhcC-cEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 70 CPYFLARQAIIHA-KIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 70 CPY~~aR~~~~~A-dIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
++....+...... +|++++|..+.+...... .......++|+||||++..
T Consensus 93 ~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~--~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 93 SKREQLRKLESGKTDILVTTPGRLLDLLENDL--LELSNVDLVILDEAHRLLD 143 (201)
T ss_pred chHHHHHHHhcCCCCEEEeChHHHHHHHHcCC--cCHhHCCEEEEECHHHHhc
Confidence 3344444455555 999999998877543321 1223456999999999965
No 198
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.73 E-value=3.5 Score=48.11 Aligned_cols=37 Identities=22% Similarity=0.242 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~a 479 (941)
+|....+.+..++.+|+ | .||.+|.|+|||....+.+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a 59 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFA 59 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHH
Confidence 68888999999999873 4 7899999999998776654
No 199
>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=74.69 E-value=4.9 Score=42.21 Aligned_cols=26 Identities=31% Similarity=0.333 Sum_probs=20.3
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+.++-+|||+|||-.+.=-+..+...
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~ 28 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK 28 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc
Confidence 57889999999998877666555554
No 200
>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=74.55 E-value=5.7 Score=45.71 Aligned_cols=28 Identities=25% Similarity=0.458 Sum_probs=22.2
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.++.+++-+|||+|||-.+ .+.+.++..
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHhh
Confidence 7899999999999999754 556666644
No 201
>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=74.50 E-value=2.9 Score=45.77 Aligned_cols=39 Identities=28% Similarity=0.468 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
+.+.+..+++.++++++-+|||+|||-.+ .+.+.++...
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~~ 154 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPPE 154 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHTT
T ss_pred HHHHHhhccccceEEEEECCCccccchHH-HHHhhhcccc
Confidence 34445556678899999999999999755 5556665543
No 202
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=74.47 E-value=7.4 Score=49.30 Aligned_cols=41 Identities=17% Similarity=0.063 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
||+.|+ |. ++.-..--|.|+.||-||||+...|+...+...
T Consensus 86 ~ydVQl--iG----gl~Lh~G~IAEM~TGEGKTL~atlpaylnAL~G 126 (939)
T PRK12902 86 HFDVQL--IG----GMVLHEGQIAEMKTGEGKTLVATLPSYLNALTG 126 (939)
T ss_pred cchhHH--Hh----hhhhcCCceeeecCCCChhHHHHHHHHHHhhcC
Confidence 566773 22 233234567899999999999888876655443
No 203
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.44 E-value=3.6 Score=47.36 Aligned_cols=37 Identities=30% Similarity=0.305 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|....+.+..++..|+ |+ +|.||+|||||......+
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la 59 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLA 59 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHH
Confidence 68899999999999874 54 899999999997655543
No 204
>KOG0947|consensus
Probab=74.19 E-value=6.4 Score=49.65 Aligned_cols=75 Identities=17% Similarity=0.263 Sum_probs=58.9
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 432 PVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 432 ~~~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
...|||+ +=.-|++.+ -+++.|..+++-|+|-.|||+..=.++.. +..|. .+.||.+.....-.|-.++++
T Consensus 291 a~~~pFe-lD~FQk~Ai----~~lerg~SVFVAAHTSAGKTvVAEYAial-aq~h~---TR~iYTSPIKALSNQKfRDFk 361 (1248)
T KOG0947|consen 291 ALIYPFE-LDTFQKEAI----YHLERGDSVFVAAHTSAGKTVVAEYAIAL-AQKHM---TRTIYTSPIKALSNQKFRDFK 361 (1248)
T ss_pred HhhCCCC-ccHHHHHHH----HHHHcCCeEEEEecCCCCcchHHHHHHHH-HHhhc---cceEecchhhhhccchHHHHH
Confidence 3578996 778886554 57889999999999999999976655433 33343 789999999999999999998
Q ss_pred HHHH
Q psy11433 512 RLFD 515 (941)
Q Consensus 512 ~~~~ 515 (941)
....
T Consensus 362 ~tF~ 365 (1248)
T KOG0947|consen 362 ETFG 365 (1248)
T ss_pred Hhcc
Confidence 7754
No 205
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=74.12 E-value=4.4 Score=45.05 Aligned_cols=18 Identities=39% Similarity=0.340 Sum_probs=15.4
Q ss_pred cCceeeeCCCCCchhHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~ 475 (941)
+.+++|.+|+|||||...
T Consensus 58 ~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 348999999999999755
No 206
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=73.19 E-value=7.3 Score=44.99 Aligned_cols=67 Identities=27% Similarity=0.344 Sum_probs=43.3
Q ss_pred HHHHHH---HHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEe-ccccchhHHHHHHHHHHH
Q psy11433 443 EQYAYM---VELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYC-SRTVPEIEKVVEELARLF 514 (941)
Q Consensus 443 ~Q~~~M---~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~c-t~t~~q~~q~i~el~~~~ 514 (941)
+|.-+. .-+.++++.| ...||-+|+|||||- |.-+|+..-. .+ +..++. +..+.++++++++.++..
T Consensus 28 GQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT--lA~liA~~~~--~~-f~~~sAv~~gvkdlr~i~e~a~~~~ 100 (436)
T COG2256 28 GQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT--LARLIAGTTN--AA-FEALSAVTSGVKDLREIIEEARKNR 100 (436)
T ss_pred ChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH--HHHHHHHhhC--Cc-eEEeccccccHHHHHHHHHHHHHHH
Confidence 455555 2367778877 589999999999995 2333332211 11 333444 477888999999887653
No 207
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=73.08 E-value=7.8 Score=44.96 Aligned_cols=41 Identities=29% Similarity=0.340 Sum_probs=27.5
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
++++++=+|||.|||-.+-=-|..|....+...+. ++.+.|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVa-iITtDt 243 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVA-IITTDT 243 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceE-EEEecc
Confidence 89999999999999987766666666333322333 444433
No 208
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=73.00 E-value=3.9 Score=41.83 Aligned_cols=30 Identities=23% Similarity=0.196 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 445 YAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 445 ~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
.++++.+..+.....+++|++++||||++.
T Consensus 9 ~~~~~~~~~~a~~~~pVlI~GE~GtGK~~l 38 (168)
T PF00158_consen 9 KRLREQAKRAASSDLPVLITGETGTGKELL 38 (168)
T ss_dssp HHHHHHHHHHTTSTS-EEEECSTTSSHHHH
T ss_pred HHHHHHHHHHhCCCCCEEEEcCCCCcHHHH
Confidence 455566666666779999999999999973
No 209
>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=72.93 E-value=3.4 Score=44.19 Aligned_cols=41 Identities=17% Similarity=0.245 Sum_probs=30.8
Q ss_pred HHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 454 ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 454 al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.+..|...++-||||+|||.-.+-.+..++..++ .+++|.+
T Consensus 9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g---~~vly~s 49 (242)
T cd00984 9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQG---KPVLFFS 49 (242)
T ss_pred CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCC---CceEEEe
Confidence 3447789999999999999888877777777632 3455555
No 210
>KOG0948|consensus
Probab=72.88 E-value=6 Score=48.61 Aligned_cols=72 Identities=21% Similarity=0.290 Sum_probs=59.0
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
.|||+ .=|-| ...+.|++++..+++-|-|-.|||.+.=.+...-++++ .+|+|.+.......|-.+||..-
T Consensus 125 ~YPF~-LDpFQ----~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k----QRVIYTSPIKALSNQKYREl~~E 195 (1041)
T KOG0948|consen 125 TYPFT-LDPFQ----STAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREK----QRVIYTSPIKALSNQKYRELLEE 195 (1041)
T ss_pred CCCcc-cCchH----hhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhc----CeEEeeChhhhhcchhHHHHHHH
Confidence 46664 55556 45668999999999999999999999888877777765 58999999999999999998754
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
.
T Consensus 196 F 196 (1041)
T KOG0948|consen 196 F 196 (1041)
T ss_pred h
Confidence 3
No 211
>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=72.55 E-value=1.9 Score=42.25 Aligned_cols=20 Identities=50% Similarity=0.551 Sum_probs=13.0
Q ss_pred ceeeeCCCCCchhHHHHHHH
Q psy11433 460 HCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~a 479 (941)
|+++|+++|+|||...-..+
T Consensus 1 HvLleg~PG~GKT~la~~lA 20 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKALA 20 (131)
T ss_dssp -EEEES---HHHHHHHHHHH
T ss_pred CEeeECCCccHHHHHHHHHH
Confidence 78999999999998766444
No 212
>PRK09183 transposase/IS protein; Provisional
Probab=72.44 E-value=5.5 Score=43.68 Aligned_cols=25 Identities=32% Similarity=0.441 Sum_probs=20.0
Q ss_pred HHhcCceeeeCCCCCchhHHHHHHH
Q psy11433 455 LDAKGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 455 l~~~~~~iiEaPTGTGKTls~L~~a 479 (941)
+..|.++++-+|+|||||.-..+.+
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~ 123 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALG 123 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHH
Confidence 6688999999999999996544443
No 213
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=72.30 E-value=4.8 Score=42.47 Aligned_cols=35 Identities=20% Similarity=0.220 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHH--hcCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALD--AKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~--~~~~~iiEaPTGTGKTls~L~ 477 (941)
.+.+.+..+...+. .+.++++.+|+|||||...-.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~ 57 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQA 57 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHH
Confidence 45566667766543 457899999999999975443
No 214
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=71.75 E-value=4.1 Score=42.12 Aligned_cols=30 Identities=40% Similarity=0.543 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
+.|.+++. .++..|+..++-+|||+|||-.
T Consensus 12 ~~~~~~l~---~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 12 PLQAAYLW---LAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHHHHH---HHHhCCCEEEEECCCCCCHHHH
Confidence 45555554 5567899999999999999964
No 215
>PRK06921 hypothetical protein; Provisional
Probab=71.70 E-value=12 Score=41.17 Aligned_cols=38 Identities=24% Similarity=0.225 Sum_probs=24.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.+..++|-+|||||||--+.+. +..+.... ...++|.+
T Consensus 116 ~~~~l~l~G~~G~GKThLa~ai-a~~l~~~~--g~~v~y~~ 153 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAA-ANELMRKK--GVPVLYFP 153 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHH-HHHHhhhc--CceEEEEE
Confidence 3678999999999999754433 33333320 25566665
No 216
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.63 E-value=4 Score=49.97 Aligned_cols=39 Identities=38% Similarity=0.383 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~al~ 481 (941)
+|....+.+..++..|+ | .||.+|.|||||....+.+-.
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 68888899999999874 6 489999999999887776543
No 217
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.63 E-value=4.3 Score=48.43 Aligned_cols=37 Identities=30% Similarity=0.249 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhcCc---eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGH---CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~---~iiEaPTGTGKTls~L~~a 479 (941)
+|......+..++..|+. .||.||+|||||....+.+
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA 57 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILA 57 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 577788888888988753 6999999999997655543
No 218
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.59 E-value=4.3 Score=48.31 Aligned_cols=38 Identities=29% Similarity=0.232 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhcCc---eeeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGH---CLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~---~iiEaPTGTGKTls~L~~al 480 (941)
+|...+..+..++..++. .||.+|.|||||......+-
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk 62 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAK 62 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 688889999999998863 59999999999977665543
No 219
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=71.58 E-value=2.1 Score=46.56 Aligned_cols=17 Identities=41% Similarity=0.524 Sum_probs=15.3
Q ss_pred cCceeeeCCCCCchhHH
Q psy11433 458 KGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls 474 (941)
-++++|-+|||||||+.
T Consensus 151 PknVLFyGppGTGKTm~ 167 (368)
T COG1223 151 PKNVLFYGPPGTGKTMM 167 (368)
T ss_pred cceeEEECCCCccHHHH
Confidence 47999999999999984
No 220
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=71.51 E-value=18 Score=41.10 Aligned_cols=43 Identities=33% Similarity=0.422 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCc-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGH-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
.||.|....+.+... ..-.| .+|.+|.|+|||......+-..+
T Consensus 4 ~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~~A~~ll 47 (328)
T PRK05707 4 IYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAERLAAALL 47 (328)
T ss_pred CCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHHHHHHHc
Confidence 578888888887664 22245 66999999999977666554443
No 221
>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=71.42 E-value=15 Score=40.02 Aligned_cols=70 Identities=21% Similarity=0.191 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHH---------HhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCC-CceEEEeccccchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKAL---------DAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLD-VTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 443 ~Q~~~M~~v~~al---------~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~-~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.|++.+.-+.+-. ...+-+|+--.+|+|||+..+..+.......+.. ..++++.+.. +.+.|-.+|+.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 3666677776666 4667889999999999998888877544433211 1134445544 556778888877
Q ss_pred H
Q psy11433 513 L 513 (941)
Q Consensus 513 ~ 513 (941)
.
T Consensus 80 ~ 80 (299)
T PF00176_consen 80 W 80 (299)
T ss_dssp H
T ss_pred c
Confidence 6
No 222
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=71.32 E-value=2.2 Score=40.66 Aligned_cols=20 Identities=30% Similarity=0.479 Sum_probs=13.0
Q ss_pred hcCceeeeCCCCCchhHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L 476 (941)
+++++++.||+|+|||..+-
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp ----EEEEE-TTSSHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHH
Confidence 57899999999999997543
No 223
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=71.31 E-value=4.4 Score=48.81 Aligned_cols=40 Identities=28% Similarity=0.149 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~~ 482 (941)
+|..+...+..++.+|+ ..||.+|.|||||....+.+-..
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 79999999999999886 68999999999998776655443
No 224
>PRK07952 DNA replication protein DnaC; Validated
Probab=70.54 E-value=12 Score=40.69 Aligned_cols=51 Identities=12% Similarity=0.171 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHh---c-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEe
Q psy11433 442 PEQYAYMVELKKALDA---K-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYC 496 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~---~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~c 496 (941)
+.|......+.+.+++ + ..+++-+|+|||||.-..+. ..++...+ .++++.
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~ai-a~~l~~~g---~~v~~i 133 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAI-CNELLLRG---KSVLII 133 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHH-HHHHHhcC---CeEEEE
Confidence 4566566555554442 2 47899999999999744433 33443332 455555
No 225
>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=70.48 E-value=6.9 Score=51.84 Aligned_cols=33 Identities=18% Similarity=0.291 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 448 MVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 448 M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
..++.++|+++.++|+.||||+|||-- .|.+-+
T Consensus 72 ~~~Il~~l~~~~vvii~g~TGSGKTTq--lPq~ll 104 (1283)
T TIGR01967 72 REDIAEAIAENQVVIIAGETGSGKTTQ--LPKICL 104 (1283)
T ss_pred HHHHHHHHHhCceEEEeCCCCCCcHHH--HHHHHH
Confidence 477888999999999999999999984 365443
No 226
>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=70.22 E-value=8.9 Score=41.26 Aligned_cols=50 Identities=18% Similarity=0.169 Sum_probs=32.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.|...++.+|+|+|||.-.+-.+...++.. .+++|.|-.. ...++++.+.
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~g----e~~lyvs~ee-~~~~i~~~~~ 69 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMG----EPGIYVALEE-HPVQVRRNMA 69 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC----CcEEEEEeeC-CHHHHHHHHH
Confidence 678999999999999987666665555432 4555555222 2234555444
No 227
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=70.05 E-value=16 Score=42.20 Aligned_cols=39 Identities=33% Similarity=0.396 Sum_probs=26.3
Q ss_pred CHHHHHH-HHHHHHHHHhc--CceeeeCCCCCchhHHHHHHH
Q psy11433 441 YPEQYAY-MVELKKALDAK--GHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 441 y~~Q~~~-M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~a 479 (941)
|+.|.+- ...+.+++.++ .++++-||+|||||..+-..+
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~ 76 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVF 76 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHH
Confidence 4555444 44444555532 579999999999998766554
No 228
>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=69.75 E-value=7 Score=42.43 Aligned_cols=37 Identities=24% Similarity=0.208 Sum_probs=28.8
Q ss_pred CCHHHHHHHHHHHHHHHhcC-ceeeeCCCCCchhHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKG-HCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~-~~iiEaPTGTGKTls~L 476 (941)
+.+.+.+.+..+...+..+. .+++-+|+|+|||..+-
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 55677778888877777654 78999999999996433
No 229
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=69.50 E-value=8.8 Score=41.27 Aligned_cols=50 Identities=20% Similarity=0.251 Sum_probs=31.6
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.|...++.+|+|||||.-.+-.+...+... .+++|.+ +.....++++.+.
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g----~~~~yi~-~e~~~~~~~~~~~ 72 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNG----YSVSYVS-TQLTTTEFIKQMM 72 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCC----CcEEEEe-CCCCHHHHHHHHH
Confidence 678999999999999987665555544432 3444444 2222345555554
No 230
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=69.38 E-value=16 Score=45.25 Aligned_cols=67 Identities=21% Similarity=0.215 Sum_probs=42.8
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
-+.|++.... ++ .++..++-+|+|||||-.+-.....++...+....+|..|+.|.....++-+-+.
T Consensus 154 ~d~Qk~Av~~---a~-~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 154 VDWQKVAAAV---AL-TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred CHHHHHHHHH---Hh-cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 4678654432 22 4689999999999999765444444433222223578888888877655555443
No 231
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=69.33 E-value=13 Score=46.43 Aligned_cols=71 Identities=21% Similarity=0.247 Sum_probs=55.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhc-CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAK-GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~-~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
=||. |++.|......+.+++..| +..++.+.||+|||+.+...+ ...+ ..+++-+++..+..|+.++|+.+
T Consensus 9 ~~~~-~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~----~~~~---r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 9 SPYK-PAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVI----ARLQ---RPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred cCCC-CChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHH----HHhC---CCEEEEECCHHHHHHHHHHHHHh
Confidence 3665 9999999999999999866 367799999999998754321 1111 35778888888899999999876
No 232
>PRK12377 putative replication protein; Provisional
Probab=69.15 E-value=14 Score=40.44 Aligned_cols=37 Identities=19% Similarity=0.175 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHH---h-cCceeeeCCCCCchhHHHHHH
Q psy11433 442 PEQYAYMVELKKALD---A-KGHCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~---~-~~~~iiEaPTGTGKTls~L~~ 478 (941)
+.|...+..+.+-.. . ...++|-+|+|||||--..+.
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AI 121 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAI 121 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHH
Confidence 456554444433333 3 367899999999999644333
No 233
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=68.94 E-value=6.1 Score=43.91 Aligned_cols=35 Identities=34% Similarity=0.292 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHh-------cCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDA-------KGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~-------~~~~iiEaPTGTGKTls~L~ 477 (941)
+|......+...+.. ..++++.+|+|||||.....
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ 49 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHI 49 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHH
Confidence 455555666655552 24799999999999965443
No 234
>PRK10436 hypothetical protein; Provisional
Probab=68.80 E-value=6.5 Score=46.81 Aligned_cols=28 Identities=32% Similarity=0.533 Sum_probs=22.7
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.++.+++-+|||+|||-.+ .++|.++..
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~~~ 244 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTLNT 244 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhhCC
Confidence 6689999999999999866 566777644
No 235
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=68.80 E-value=7.3 Score=43.98 Aligned_cols=40 Identities=35% Similarity=0.520 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+.+.|.++ ++.++++++.+++-+|||+|||-. |-+++...
T Consensus 128 ~~~~~~ay---L~~~ie~~~siii~G~t~sGKTt~-lnall~~I 167 (312)
T COG0630 128 ISPEQAAY---LWLAIEARKSIIICGGTASGKTTL-LNALLDFI 167 (312)
T ss_pred CCHHHHHH---HHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC
Confidence 44556555 899999999999999999999964 34444443
No 236
>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=68.54 E-value=6.2 Score=43.10 Aligned_cols=20 Identities=40% Similarity=0.408 Sum_probs=16.2
Q ss_pred CceeeeCCCCCchhHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~ 478 (941)
.+++|.+|+|||||...-..
T Consensus 43 ~~vll~GppGtGKTtlA~~i 62 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARIL 62 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHH
Confidence 58899999999999755443
No 237
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.53 E-value=5.1 Score=48.33 Aligned_cols=37 Identities=35% Similarity=0.352 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhc--Cc-eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GH-CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~-~iiEaPTGTGKTls~L~~a 479 (941)
+|...+..+..++..+ .| .||.||.|||||....+.+
T Consensus 20 Gq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lA 59 (509)
T PRK14958 20 GQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILA 59 (509)
T ss_pred CCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHH
Confidence 6889999999999987 35 4899999999997665544
No 238
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=68.18 E-value=2.3 Score=43.02 Aligned_cols=35 Identities=31% Similarity=0.359 Sum_probs=18.4
Q ss_pred CHHHHHHHHHHHHHHH--hcCceeeeCCCCCchhHHH
Q psy11433 441 YPEQYAYMVELKKALD--AKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~--~~~~~iiEaPTGTGKTls~ 475 (941)
|+.|.+-+....++.. .+.++++.||+|+|||--+
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHH
Confidence 4556555555443222 4578999999999999643
No 239
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=67.92 E-value=4.2 Score=51.56 Aligned_cols=35 Identities=29% Similarity=0.406 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al 480 (941)
+...++.+++.+...+++.+|||.|||-.+=-..+
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~ll 87 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLL 87 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHH
Confidence 45678889999999999999999999976543333
No 240
>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=67.90 E-value=16 Score=44.82 Aligned_cols=65 Identities=25% Similarity=0.297 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCC-CCceEEEeccccchhHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL-DVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~-~~~ki~~ct~t~~q~~q~i~el 510 (941)
+.|++. +..++ .++..++.+|.|||||-.+-..+..+....+. ...+|..|+.|.....++-+-+
T Consensus 148 ~~Qk~A---~~~al-~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVA---VALAL-KSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHH---HHHHh-hCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 567543 33333 46899999999999998665554444433221 1257888999887755544433
No 241
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=67.85 E-value=4.8 Score=47.20 Aligned_cols=18 Identities=44% Similarity=0.564 Sum_probs=15.5
Q ss_pred cCceeeeCCCCCchhHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~ 475 (941)
+.++++.+|||||||...
T Consensus 108 ~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLA 125 (412)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 468999999999999754
No 242
>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=67.73 E-value=3.8 Score=39.82 Aligned_cols=17 Identities=53% Similarity=0.548 Sum_probs=14.0
Q ss_pred ceeeeCCCCCchhHHHH
Q psy11433 460 HCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L 476 (941)
++++.+|+|||||...-
T Consensus 1 ~vlL~G~~G~GKt~l~~ 17 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLAR 17 (139)
T ss_dssp EEEEEESSSSSHHHHHH
T ss_pred CEEEECCCCCCHHHHHH
Confidence 47999999999996443
No 243
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=67.48 E-value=6.3 Score=48.64 Aligned_cols=35 Identities=29% Similarity=0.219 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
+|.+.+..+..++..++++++-+|+|||||...-.
T Consensus 22 G~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~~ 56 (608)
T TIGR00764 22 GQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAKA 56 (608)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHH
Confidence 68899999999999999999999999999975544
No 244
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=67.38 E-value=5.1 Score=46.93 Aligned_cols=34 Identities=32% Similarity=0.252 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHH--------------------hcCceeeeCCCCCchhHHHH
Q psy11433 443 EQYAYMVELKKALD--------------------AKGHCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 443 ~Q~~~M~~v~~al~--------------------~~~~~iiEaPTGTGKTls~L 476 (941)
+|.+..+.+..++. .++++++.+|||||||...=
T Consensus 81 GQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAr 134 (413)
T TIGR00382 81 GQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQ 134 (413)
T ss_pred CHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHH
Confidence 57777776655551 13689999999999997543
No 245
>PRK08939 primosomal protein DnaI; Reviewed
Probab=67.30 E-value=15 Score=41.33 Aligned_cols=41 Identities=15% Similarity=0.106 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHH------hcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALD------AKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~------~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
.+.+++..+.+-++ .++.+++-||+|||||--+-+.+-..+
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~ 181 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA 181 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 45555555555555 346899999999999975444433333
No 246
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=66.96 E-value=4.8 Score=48.86 Aligned_cols=33 Identities=33% Similarity=0.382 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHH
Q psy11433 443 EQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~ 475 (941)
+|...|..+..++... .+++|.+|+|||||...
T Consensus 69 Gqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 69 GQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred CcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 4667788888777643 79999999999999743
No 247
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=66.65 E-value=6.3 Score=44.57 Aligned_cols=36 Identities=36% Similarity=0.322 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHh-------cCceeeeCCCCCchhHHHHHH
Q psy11433 443 EQYAYMVELKKALDA-------KGHCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~-------~~~~iiEaPTGTGKTls~L~~ 478 (941)
+|.+.+..+...+.. ..+++|.+|+|||||......
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~i 71 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANII 71 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHH
Confidence 455555555555542 258999999999999765533
No 248
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=66.20 E-value=7.1 Score=45.75 Aligned_cols=32 Identities=28% Similarity=0.285 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHhc----------------CceeeeCCCCCchhHH
Q psy11433 443 EQYAYMVELKKALDAK----------------GHCLLEMPSGTGKTTS 474 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~----------------~~~iiEaPTGTGKTls 474 (941)
+|.+.-+.+.-|+.++ +++++.+|||+|||..
T Consensus 16 GQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~l 63 (441)
T TIGR00390 16 GQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEI 63 (441)
T ss_pred CHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHH
Confidence 6877777777777753 7999999999999964
No 249
>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=66.19 E-value=8.5 Score=49.49 Aligned_cols=32 Identities=28% Similarity=0.361 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHhc-----------CceeeeCCCCCchhHH
Q psy11433 443 EQYAYMVELKKALDAK-----------GHCLLEMPSGTGKTTS 474 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~-----------~~~iiEaPTGTGKTls 474 (941)
+|-+.|..|.+++... ..++|.+|||||||..
T Consensus 569 GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~l 611 (852)
T TIGR03346 569 GQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL 611 (852)
T ss_pred CChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHH
Confidence 7899999999999852 3589999999999953
No 250
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=66.18 E-value=6.8 Score=49.65 Aligned_cols=48 Identities=25% Similarity=0.427 Sum_probs=29.9
Q ss_pred CCccccCCCCCCCHHHHHHH-HHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 429 DDLPVFFPYEYIYPEQYAYM-VELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 429 ~~~~~~FPy~~py~~Q~~~M-~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+-++-..|+ |+.|.+-+ ..+..++.+.+ .+ .|-+|||||||+++-..+
T Consensus 751 DYVPD~LPh---REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VL 802 (1164)
T PTZ00112 751 DVVPKYLPC---REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVI 802 (1164)
T ss_pred ccCCCcCCC---hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHH
Confidence 333334454 56665555 44555666332 33 599999999999876643
No 251
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=65.91 E-value=6.8 Score=43.58 Aligned_cols=36 Identities=42% Similarity=0.515 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~ 478 (941)
+|.+.++.+...+..+ .+++|.||+|||||...-+.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l 58 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALAL 58 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHH
Confidence 5777888888888876 46999999999999766544
No 252
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.86 E-value=6.4 Score=47.45 Aligned_cols=39 Identities=33% Similarity=0.321 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al~ 481 (941)
+|......+...+..++ |+ +|.+|+|||||....+.+-.
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~ 59 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMA 59 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 58888888888888875 44 99999999999887655433
No 253
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=65.79 E-value=8 Score=37.83 Aligned_cols=29 Identities=21% Similarity=0.278 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
++-+.+......+.+++|.+++||||+..
T Consensus 9 ~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 9 RLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 34455555556789999999999999973
No 254
>CHL00181 cbbX CbbX; Provisional
Probab=65.67 E-value=8.6 Score=42.89 Aligned_cols=23 Identities=35% Similarity=0.314 Sum_probs=18.2
Q ss_pred cCceeeeCCCCCchhHHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al 480 (941)
|-|++|-+|+|||||...-+-+-
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~ 81 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMAD 81 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHH
Confidence 45789999999999986665543
No 255
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=65.61 E-value=7.4 Score=43.30 Aligned_cols=43 Identities=37% Similarity=0.393 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHHHHh--cCc-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDA--KGH-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~--~~~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
++.|.........+... ..| .+|.+|.|||||.+.++.+=...
T Consensus 4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELL 49 (325)
T ss_pred ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHh
Confidence 34444444444445543 467 99999999999998888765444
No 256
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=65.15 E-value=18 Score=44.46 Aligned_cols=76 Identities=22% Similarity=0.256 Sum_probs=61.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
-||+ ++..|.....+|..-+... .+=++++--|+|||+..+++.+.-.... .+...-..|.=..+|-.+.+.+
T Consensus 259 LPF~-LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G----~Q~ALMAPTEILA~QH~~~~~~ 333 (677)
T COG1200 259 LPFK-LTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG----YQAALMAPTEILAEQHYESLRK 333 (677)
T ss_pred CCCC-ccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC----CeeEEeccHHHHHHHHHHHHHH
Confidence 4665 8899999999999988866 4678999999999999999998876654 3555566777778888888888
Q ss_pred HHH
Q psy11433 513 LFD 515 (941)
Q Consensus 513 ~~~ 515 (941)
+..
T Consensus 334 ~l~ 336 (677)
T COG1200 334 WLE 336 (677)
T ss_pred Hhh
Confidence 764
No 257
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=65.12 E-value=13 Score=39.64 Aligned_cols=36 Identities=33% Similarity=0.384 Sum_probs=24.3
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.+.+-||+|+|||- +|.++...+....+ ..+++|.+
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~-~~~v~y~~ 71 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQHP-GKRVVYLS 71 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHHCT-TS-EEEEE
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhccc-cccceeec
Confidence 58999999999999 66666655443221 35677665
No 258
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.85 E-value=6.9 Score=48.32 Aligned_cols=39 Identities=31% Similarity=0.267 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al~ 481 (941)
+|....+.+..++..|+ |+ ||.||.|+|||....+.+-.
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 68888889999999884 45 99999999999776655433
No 259
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=64.61 E-value=15 Score=37.57 Aligned_cols=45 Identities=31% Similarity=0.383 Sum_probs=30.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCC------CCCceEEEeccccc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP------LDVTKLLYCSRTVP 501 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~------~~~~ki~~ct~t~~ 501 (941)
.|...++-||+|+|||...+--++.++...+ ....+++|.+-..+
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~ 81 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS 81 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence 6789999999999999999999988886321 12356666664433
No 260
>KOG0744|consensus
Probab=64.42 E-value=4.6 Score=45.35 Aligned_cols=24 Identities=42% Similarity=0.455 Sum_probs=20.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
.++.+++.+|+|||||- ||-+|+.
T Consensus 176 ~NRliLlhGPPGTGKTS--LCKaLaQ 199 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTS--LCKALAQ 199 (423)
T ss_pred eeeEEEEeCCCCCChhH--HHHHHHH
Confidence 36789999999999995 8888764
No 261
>PF06777 DUF1227: Protein of unknown function (DUF1227); InterPro: IPR010643 This domain represents a conserved region within a number of eukaryotic DNA repair helicases.; GO: 0005634 nucleus
Probab=64.21 E-value=11 Score=37.76 Aligned_cols=48 Identities=63% Similarity=1.030 Sum_probs=37.0
Q ss_pred HHHhhHHhHHHHHHHHHHHHHHHHHhhccccccccccCCCChhhhhhc
Q psy11433 805 LKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQG 852 (941)
Q Consensus 805 l~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~igr~ir~ 852 (941)
+.+.+..+.++|++.|++|+++|+.....++++.+.+.++.+.+++..
T Consensus 3 i~~~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~e 50 (146)
T PF06777_consen 3 IDEIKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKE 50 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhh
Confidence 445567888999999999999999888777666666777766666543
No 262
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.15 E-value=7.2 Score=47.27 Aligned_cols=37 Identities=32% Similarity=0.337 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|......+..++..++ |+ ||.||.|+|||....+.+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lA 59 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILA 59 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHH
Confidence 68888889999999874 55 899999999997665544
No 263
>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=64.03 E-value=12 Score=43.41 Aligned_cols=30 Identities=27% Similarity=0.253 Sum_probs=22.7
Q ss_pred HhcCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 456 DAKGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 456 ~~~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
..++.+++-+|||+|||-.+ .+.+.+...+
T Consensus 147 ~~~GlilI~G~TGSGKTT~l-~al~~~i~~~ 176 (372)
T TIGR02525 147 PAAGLGLICGETGSGKSTLA-ASIYQHCGET 176 (372)
T ss_pred hcCCEEEEECCCCCCHHHHH-HHHHHHHHhc
Confidence 36678999999999999754 5566766543
No 264
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.01 E-value=7.4 Score=48.05 Aligned_cols=37 Identities=22% Similarity=0.257 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~a 479 (941)
+|......+.+++..|+ | .||.+|.|+|||....+.+
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lA 59 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFA 59 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHH
Confidence 68888999999998873 4 7799999999998766654
No 265
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=63.67 E-value=15 Score=46.01 Aligned_cols=59 Identities=20% Similarity=0.236 Sum_probs=38.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc-CCCCCceEEEeccccchhHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA-HPLDVTKLLYCSRTVPEIEK 505 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~-~~~~~~ki~~ct~t~~q~~q 505 (941)
..|.|.+.... ..+++++-|+.|||||-.+..-+ .|+.. .+.+..+|+..|-|......
T Consensus 3 Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~Ri-a~Li~~~~v~p~~IL~lTFT~kAA~e 62 (672)
T PRK10919 3 LNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNKI-AHLIRGCGYQARHIAAVTFTNKAARE 62 (672)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHH-HHHHHhcCCCHHHeeeEechHHHHHH
Confidence 34677543321 35889999999999998755554 55443 34344568888877665443
No 266
>PF05729 NACHT: NACHT domain
Probab=63.30 E-value=10 Score=37.20 Aligned_cols=28 Identities=25% Similarity=0.318 Sum_probs=21.8
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
.+++.|++|+|||..+-..+-.|...+.
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~~ 29 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEEP 29 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcCc
Confidence 5789999999999877666666666654
No 267
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=63.23 E-value=5.2 Score=51.66 Aligned_cols=38 Identities=24% Similarity=0.336 Sum_probs=26.7
Q ss_pred cCcEEEEccccccCh-hhhhHhhhhcCCCcEEEEecCcccc
Q psy11433 81 HAKIVVYSYHYLLDP-KIANVVSKELARSSVVVFDEAHNID 120 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~-~~r~~~~~~l~~~~ivI~DEAHNL~ 120 (941)
..+++|++|.++-.. ...+.+.. ..-.+|||||||+|-
T Consensus 247 ~~~~vI~S~~~l~~~~~~~~~l~~--~~wdlvIvDEAH~lk 285 (956)
T PRK04914 247 TEQLVICSLDFLRRNKQRLEQALA--AEWDLLVVDEAHHLV 285 (956)
T ss_pred cCcEEEEEHHHhhhCHHHHHHHhh--cCCCEEEEechhhhc
Confidence 468999999999763 33333322 134699999999994
No 268
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=63.21 E-value=9.6 Score=46.65 Aligned_cols=39 Identities=36% Similarity=0.582 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHH-hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 442 PEQYAYMVELKKALD-AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~-~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
+.|.+.+ .+++. .++.+++-+|||+|||-.+ .+++.++.
T Consensus 302 ~~~~~~l---~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 302 PDQKALF---LEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHHHHH---HHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 3444444 34444 5688999999999999775 66777764
No 269
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=63.16 E-value=15 Score=48.01 Aligned_cols=71 Identities=18% Similarity=0.251 Sum_probs=48.8
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc-CCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA-HPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~-~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
..||.|.+-..-+.....+|..+|+--..|.|||+..|+.+ .|+.. .+.....+|+|-. +.+.+-.+|+.+
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL-~~L~~~~~~~gp~LIVvP~--SlL~nW~~Ei~k 240 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLL-GYLHEYRGITGPHMVVAPK--STLGNWMNEIRR 240 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHH-HHHHHhcCCCCCEEEEeCh--HHHHHHHHHHHH
Confidence 36889999999999888999999999999999999887664 44433 2222344555541 223444555544
No 270
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=62.84 E-value=8.4 Score=44.60 Aligned_cols=29 Identities=31% Similarity=0.346 Sum_probs=23.0
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|++.+|-+|||+|||..+.--+..+...
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~ 164 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCVMR 164 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 68899999999999998776666555443
No 271
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=62.72 E-value=55 Score=37.21 Aligned_cols=38 Identities=29% Similarity=0.365 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHhc--Cce-eeeCCCCCchhHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAK--GHC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~--~~~-iiEaPTGTGKTls~L~~a 479 (941)
-.|...++.+...+..| .|+ +|.+|.|+|||......+
T Consensus 9 ~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la 49 (329)
T PRK08058 9 ALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLA 49 (329)
T ss_pred hhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHH
Confidence 35888999999999977 465 999999999987655543
No 272
>PRK13342 recombination factor protein RarA; Reviewed
Probab=62.64 E-value=6.1 Score=46.31 Aligned_cols=35 Identities=31% Similarity=0.329 Sum_probs=26.4
Q ss_pred HHHHHHHH---HHHHHHhcC--ceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVE---LKKALDAKG--HCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~---v~~al~~~~--~~iiEaPTGTGKTls~L~ 477 (941)
+|...+.. +...++.+. +++|-+|+|||||...-.
T Consensus 16 Gq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ 55 (413)
T PRK13342 16 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARI 55 (413)
T ss_pred CcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHH
Confidence 46666555 788887664 799999999999965443
No 273
>PRK04328 hypothetical protein; Provisional
Probab=62.37 E-value=15 Score=39.93 Aligned_cols=50 Identities=18% Similarity=0.234 Sum_probs=31.2
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec-cccchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS-RTVPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct-~t~~q~~q~i~el~~ 512 (941)
.|...++.+|+|||||.-.+-.+...+... .+++|.+ ...|+ ++++.+..
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~g----e~~lyis~ee~~~--~i~~~~~~ 72 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMG----EPGVYVALEEHPV--QVRRNMRQ 72 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcC----CcEEEEEeeCCHH--HHHHHHHH
Confidence 578999999999999886666555555443 3455554 33332 35554443
No 274
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.31 E-value=7.5 Score=47.78 Aligned_cols=37 Identities=30% Similarity=0.387 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~a 479 (941)
+|......+..++..|+ | .||.||.|+|||....+.+
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA 59 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILA 59 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHH
Confidence 68888899999999874 3 3899999999998776654
No 275
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=62.31 E-value=11 Score=46.28 Aligned_cols=30 Identities=17% Similarity=0.420 Sum_probs=24.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
+..|.++-||||+|||. ++-..|.|.+..+
T Consensus 175 e~~h~li~G~tGsGKs~-~i~~ll~~~~~~g 204 (566)
T TIGR02759 175 ETQHILIHGTTGSGKSV-AIRKLLRWIRQRG 204 (566)
T ss_pred cccceEEEcCCCCCHHH-HHHHHHHHHHhcC
Confidence 45799999999999995 5666788887654
No 276
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=62.15 E-value=17 Score=48.74 Aligned_cols=57 Identities=23% Similarity=0.308 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchh
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEI 503 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~ 503 (941)
+++.|.+.+. ..|+++++.|+-|||||.++..-++..+... .+..++++.|-|....
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~-~~~~~il~~tFt~~aa 58 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRG-VDIDRLLVVTFTNAAA 58 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcC-CCHhhEEEEeccHHHH
Confidence 5678866664 3678999999999999999988888777644 3334577888776553
No 277
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.00 E-value=8.7 Score=46.67 Aligned_cols=37 Identities=32% Similarity=0.295 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~a 479 (941)
+|......+..++..|+ | .||.||.|+|||......+
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lA 59 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLA 59 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 68888888999999865 3 6899999999998666554
No 278
>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=61.81 E-value=22 Score=44.91 Aligned_cols=61 Identities=18% Similarity=0.105 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKV 506 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~ 506 (941)
..+.|.+.+..+ ..++..++.++.|||||-.+- .++..+...+ ...+++.|..|.....++
T Consensus 324 l~~~Q~~Ai~~~----~~~~~~iitGgpGTGKTt~l~-~i~~~~~~~~-~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 324 LSEEQKQALDTA----IQHKVVILTGGPGTGKTTITR-AIIELAEELG-GLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred CCHHHHHHHHHH----HhCCeEEEECCCCCCHHHHHH-HHHHHHHHcC-CCceEEEEeCchHHHHHH
Confidence 568998877665 356799999999999997543 3333333321 124677788887765443
No 279
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.58 E-value=8.3 Score=49.14 Aligned_cols=37 Identities=27% Similarity=0.298 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhc--Cce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GHC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~-iiEaPTGTGKTls~L~~a 479 (941)
+|......+.+++..| .|+ ||.||.|||||....+.+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLA 59 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFA 59 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 6888888899999987 466 899999999998766654
No 280
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=61.49 E-value=18 Score=38.71 Aligned_cols=51 Identities=14% Similarity=0.193 Sum_probs=33.4
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.|...++.+|+|+|||.-.+-.+...+... .+++|.+-..+. .++++.+..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g----~~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQG----KKVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhCC----CEEEEEEcCCCH-HHHHHHHHH
Confidence 678999999999999987766666665532 466666543332 345554433
No 281
>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=61.46 E-value=16 Score=46.27 Aligned_cols=57 Identities=18% Similarity=0.166 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchh
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEI 503 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~ 503 (941)
..+.|.+.+..+. ..++..++.+|.|||||-. |.+++..+...+ .+++.|..|....
T Consensus 353 Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtl-l~~i~~~~~~~g---~~V~~~ApTg~Aa 409 (744)
T TIGR02768 353 LSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTM-LKAAREAWEAAG---YRVIGAALSGKAA 409 (744)
T ss_pred CCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHH-HHHHHHHHHhCC---CeEEEEeCcHHHH
Confidence 4589988776653 3457999999999999865 344444444332 5788888776543
No 282
>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=61.40 E-value=16 Score=38.80 Aligned_cols=29 Identities=21% Similarity=0.102 Sum_probs=22.9
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|...++.+|+|+|||.-.+..+...+..
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~ 47 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRD 47 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHhc
Confidence 67899999999999998776666555543
No 283
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=61.39 E-value=23 Score=38.74 Aligned_cols=35 Identities=20% Similarity=0.278 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 449 VELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 449 ~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
....+-+..++.++|-+|+|||||--+.+.+..-+
T Consensus 96 ~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~ 130 (254)
T COG1484 96 ASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL 130 (254)
T ss_pred HHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence 33445556889999999999999975555544444
No 284
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=61.29 E-value=4.5 Score=45.33 Aligned_cols=27 Identities=37% Similarity=0.482 Sum_probs=21.2
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.+.++++=+|||+|||+ |.-+|+...+
T Consensus 96 ~KSNILLiGPTGsGKTl--LAqTLAk~Ln 122 (408)
T COG1219 96 SKSNILLIGPTGSGKTL--LAQTLAKILN 122 (408)
T ss_pred eeccEEEECCCCCcHHH--HHHHHHHHhC
Confidence 57899999999999996 5566665544
No 285
>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=61.27 E-value=8.8 Score=41.86 Aligned_cols=40 Identities=25% Similarity=0.269 Sum_probs=28.9
Q ss_pred HHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 455 LDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 455 l~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
+..|...++-||||+|||.-.+-.+..++..++ .+++|.+
T Consensus 27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g---~~vl~iS 66 (271)
T cd01122 27 LRKGELIILTAGTGVGKTTFLREYALDLITQHG---VRVGTIS 66 (271)
T ss_pred EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcC---ceEEEEE
Confidence 347889999999999999877776666665532 3455444
No 286
>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=61.25 E-value=3.5 Score=45.12 Aligned_cols=61 Identities=18% Similarity=0.245 Sum_probs=36.4
Q ss_pred HHHHHHhch--hCCCCHHHHH-------HHHhhcCcEEEEcccccc---ChhhhhHhhhhcCCCcEEEEecCccc
Q psy11433 57 ITKLKEMGR--ELGLCPYFLA-------RQAIIHAKIVVYSYHYLL---DPKIANVVSKELARSSVVVFDEAHNI 119 (941)
Q Consensus 57 iEdL~~~g~--~~~~CPY~~a-------R~~~~~AdIVv~~y~yLl---~~~~r~~~~~~l~~~~ivI~DEAHNL 119 (941)
.+++.+++. ...+..|... .......++++++|..+. .+...+.+.. . +-..||+||||++
T Consensus 74 ~~E~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~-~-~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 74 KEEIEKWFDPDSLRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQ-I-KWDRVIVDEAHRL 146 (299)
T ss_dssp HHHHHHHSGT-TS-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHT-S-EEEEEEETTGGGG
T ss_pred hhhhccccccccccccccccccccccccccccccceeeecccccccccccccccccccc-c-cceeEEEeccccc
Confidence 456666663 2333333322 234456799999999998 1112222322 2 3579999999999
No 287
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=61.24 E-value=8.8 Score=47.24 Aligned_cols=39 Identities=31% Similarity=0.278 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~ 481 (941)
+|..+++.+..++..|+ ..||.+|.|+|||....+.+-.
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~ 69 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARA 69 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 68999999999999885 5899999999999877665543
No 288
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=61.15 E-value=9.3 Score=47.30 Aligned_cols=35 Identities=26% Similarity=0.269 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
+|.+.+..+..++..+.++++.+|+|||||...-.
T Consensus 35 gq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~ 69 (637)
T PRK13765 35 GQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA 69 (637)
T ss_pred ChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH
Confidence 68899999999999999999999999999976544
No 289
>KOG1805|consensus
Probab=60.23 E-value=15 Score=46.54 Aligned_cols=65 Identities=31% Similarity=0.366 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
..|++.| .+++....+.+|.+=+|||||- +||.++.-+-..+ .+|.-.+-||+...-++-.|+..
T Consensus 672 ~dQr~A~---~k~L~aedy~LI~GMPGTGKTT-tI~~LIkiL~~~g---kkVLLtsyThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 672 NDQRQAL---LKALAAEDYALILGMPGTGKTT-TISLLIKILVALG---KKVLLTSYTHSAVDNILIKLKGF 736 (1100)
T ss_pred HHHHHHH---HHHHhccchheeecCCCCCchh-hHHHHHHHHHHcC---CeEEEEehhhHHHHHHHHHHhcc
Confidence 4676655 5667788899999999999984 4555555554433 56777777777766665555543
No 290
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=59.90 E-value=19 Score=40.91 Aligned_cols=44 Identities=18% Similarity=0.091 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
+|......+...+..++..|+-|-||.|||=. +..++.++...+
T Consensus 101 ~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~G 144 (441)
T COG4098 101 GQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQG 144 (441)
T ss_pred hHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhcC
Confidence 46667778888999999999999999999975 445566665544
No 291
>PRK05973 replicative DNA helicase; Provisional
Probab=59.66 E-value=15 Score=39.90 Aligned_cols=32 Identities=34% Similarity=0.348 Sum_probs=25.3
Q ss_pred HHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 454 ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 454 al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.+..|...++-|++|+|||.-.+-.+..-+..
T Consensus 60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~ 91 (237)
T PRK05973 60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKS 91 (237)
T ss_pred CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence 44478899999999999999877776666554
No 292
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=59.52 E-value=6.2 Score=45.24 Aligned_cols=41 Identities=24% Similarity=0.322 Sum_probs=30.7
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTS 474 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls 474 (941)
.+|||. -=-+|.++..++..++.+. +.+++.+|+|||||..
T Consensus 12 ~~~pf~-~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ 54 (350)
T CHL00081 12 PVFPFT-AIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTT 54 (350)
T ss_pred CCCCHH-HHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHH
Confidence 356665 3347888888888877652 5688999999999963
No 293
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.52 E-value=9.7 Score=46.98 Aligned_cols=37 Identities=32% Similarity=0.328 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|....+.+.+++.+|+ |+ ||.+|.|||||....+.+
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLA 59 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILA 59 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHH
Confidence 68899999999999885 55 999999999997665544
No 294
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=59.52 E-value=18 Score=41.16 Aligned_cols=53 Identities=15% Similarity=0.159 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEecccc
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTV 500 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~ 500 (941)
++.+.+..+...+.+++|.++|||||++. .-++.............+-|+...
T Consensus 10 ~~~~~~~~~a~~~~pVLI~GE~GtGK~~l--Ar~iH~~s~r~~~pfv~vnc~~~~ 62 (329)
T TIGR02974 10 EVLEQVSRLAPLDRPVLIIGERGTGKELI--AARLHYLSKRWQGPLVKLNCAALS 62 (329)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCChHHHH--HHHHHHhcCccCCCeEEEeCCCCC
Confidence 44555666666789999999999999973 333333222111235567777543
No 295
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=59.14 E-value=12 Score=43.98 Aligned_cols=31 Identities=29% Similarity=0.273 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHh----------------cCceeeeCCCCCchhH
Q psy11433 443 EQYAYMVELKKALDA----------------KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~----------------~~~~iiEaPTGTGKTl 473 (941)
+|.+..+.+..++.+ .+++++.+|||+|||.
T Consensus 19 GQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 19 GQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred CHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 688888888877754 4799999999999994
No 296
>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=58.95 E-value=21 Score=37.80 Aligned_cols=51 Identities=22% Similarity=0.170 Sum_probs=32.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.|...++.+|+|+|||.-.+-.+...+... .+++|.+-..+ ..++++.+..
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~g----~~~~y~s~e~~-~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKNG----EKAMYISLEER-EERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCC----CeEEEEECCCC-HHHHHHHHHH
Confidence 567889999999999886665555555442 35555553333 3455555543
No 297
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=58.94 E-value=10 Score=47.14 Aligned_cols=38 Identities=37% Similarity=0.337 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~al 480 (941)
+|......+..++..|+ | .||.+|.|+|||....+.+-
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk 60 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAK 60 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence 68889999999999875 4 59999999999976655443
No 298
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=58.79 E-value=18 Score=45.27 Aligned_cols=51 Identities=12% Similarity=0.215 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
+.+.+..+...+.+++|.++||||||+ +.-++.............+-|...
T Consensus 388 ~~~~~~~~a~~~~pVLI~GE~GTGK~~--lA~~ih~~s~r~~~~~v~i~c~~~ 438 (686)
T PRK15429 388 VLKQVEMVAQSDSTVLILGETGTGKEL--IARAIHNLSGRNNRRMVKMNCAAM 438 (686)
T ss_pred HHHHHHHHhCCCCCEEEECCCCcCHHH--HHHHHHHhcCCCCCCeEEEecccC
Confidence 333444444567899999999999997 333443322211122445667654
No 299
>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=58.72 E-value=7.9 Score=36.60 Aligned_cols=17 Identities=53% Similarity=0.614 Sum_probs=13.3
Q ss_pred eeeeCCCCCchhHHHHH
Q psy11433 461 CLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 461 ~iiEaPTGTGKTls~L~ 477 (941)
+++.+|+|||||...-.
T Consensus 1 ill~G~~G~GKT~l~~~ 17 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARA 17 (132)
T ss_dssp EEEESSTTSSHHHHHHH
T ss_pred CEEECcCCCCeeHHHHH
Confidence 47899999999974433
No 300
>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=58.69 E-value=15 Score=44.05 Aligned_cols=51 Identities=12% Similarity=0.113 Sum_probs=35.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~ 512 (941)
.|...++.+|+|||||.-.+-.+...++.. .+++|.+-.++ ..|+++....
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~g----e~~~y~s~eEs-~~~i~~~~~~ 312 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANK----ERAILFAYEES-RAQLLRNAYS 312 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCC----CeEEEEEeeCC-HHHHHHHHHH
Confidence 678999999999999997777666665532 46777774433 3455555544
No 301
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=58.56 E-value=10 Score=43.01 Aligned_cols=39 Identities=31% Similarity=0.306 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~ 481 (941)
+|.+.+..+...+.+|+ ..+|.||+|+|||......+-.
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~ 59 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKA 59 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 57788888888898875 3589999999999766554433
No 302
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=58.42 E-value=23 Score=44.97 Aligned_cols=36 Identities=28% Similarity=0.380 Sum_probs=24.6
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
||+.| +|..+ +|-.| -|.|+.||-||||+...|+..
T Consensus 79 ~ydVQ--liGgl--vLh~G--~IAEMkTGEGKTLvAtLpayL 114 (925)
T PRK12903 79 PYDVQ--IIGGI--ILDLG--SVAEMKTGEGKTITSIAPVYL 114 (925)
T ss_pred cCchH--HHHHH--HHhcC--CeeeecCCCCccHHHHHHHHH
Confidence 55667 44444 23344 479999999999987777643
No 303
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=58.41 E-value=9.8 Score=46.60 Aligned_cols=39 Identities=26% Similarity=0.210 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhc--Cc-eeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GH-CLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~-~iiEaPTGTGKTls~L~~al~ 481 (941)
+|......+..++..| .| .||.||.|+|||......+-.
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 6888888999999876 34 679999999999877766533
No 304
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.32 E-value=10 Score=45.46 Aligned_cols=38 Identities=29% Similarity=0.260 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al 480 (941)
+|..+.+.+..++..|+ ..||.+|.|||||......+-
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence 58888889999999874 589999999999986655543
No 305
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=58.20 E-value=9.6 Score=42.86 Aligned_cols=29 Identities=28% Similarity=0.354 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHH
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~ 475 (941)
+.+-+.-++..|+++++-+|||+|||-.+
T Consensus 133 ~~~~l~~~v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 133 IKEFLRLAIASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCHHHHH
Confidence 34456667789999999999999999743
No 306
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=58.15 E-value=21 Score=44.58 Aligned_cols=64 Identities=19% Similarity=0.258 Sum_probs=40.2
Q ss_pred CHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
.|.|.+.... ..+++++-|+.|||||-.++.-+...+...+.+..+|+..|=|......+.+.+
T Consensus 3 n~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl 66 (664)
T TIGR01074 3 NPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERV 66 (664)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHH
Confidence 4677543321 358999999999999998887776666543333355666665554433333333
No 307
>KOG0745|consensus
Probab=57.94 E-value=16 Score=42.76 Aligned_cols=49 Identities=31% Similarity=0.474 Sum_probs=31.6
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc--------cchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT--------VPEIEKVVEELAR 512 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t--------~~q~~q~i~el~~ 512 (941)
++.++|+=+|||+|||+ |.-+|+-... +.+.+|.-| -.+.+.++..|-.
T Consensus 225 eKSNvLllGPtGsGKTl--laqTLAr~ld-----VPfaIcDcTtLTQAGYVGeDVEsvi~KLl~ 281 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTL--LAQTLARVLD-----VPFAICDCTTLTQAGYVGEDVESVIQKLLQ 281 (564)
T ss_pred ecccEEEECCCCCchhH--HHHHHHHHhC-----CCeEEecccchhhcccccccHHHHHHHHHH
Confidence 67899999999999997 5555655543 334455422 3335666665544
No 308
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=57.94 E-value=21 Score=45.14 Aligned_cols=64 Identities=16% Similarity=0.219 Sum_probs=40.9
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc-CCCCCceEEEeccccchhHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA-HPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~-~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
..|.|++... ...+++++-|+.|||||-++..= ++|+.. .+.+..+|+..|-|......+.+-+
T Consensus 10 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~vl~~R-ia~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl 74 (721)
T PRK11773 10 LNDKQREAVA------APLGNMLVLAGAGSGKTRVLVHR-IAWLMQVENASPYSIMAVTFTNKAAAEMRHRI 74 (721)
T ss_pred cCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCChhHeEeeeccHHHHHHHHHHH
Confidence 4578855443 13589999999999999876554 445543 3333456777787766544333333
No 309
>KOG0923|consensus
Probab=57.91 E-value=6.2 Score=47.89 Aligned_cols=26 Identities=35% Similarity=0.397 Sum_probs=23.6
Q ss_pred HHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 449 VELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 449 ~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
+++..++.+..++||++-||+|||--
T Consensus 271 dell~av~e~QVLiI~GeTGSGKTTQ 296 (902)
T KOG0923|consen 271 DELLKAVKEHQVLIIVGETGSGKTTQ 296 (902)
T ss_pred HHHHHHHHhCcEEEEEcCCCCCcccc
Confidence 67888999999999999999999964
No 310
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.84 E-value=11 Score=46.75 Aligned_cols=40 Identities=38% Similarity=0.356 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~~ 482 (941)
+|.+....+..++..++ ..||.||.|||||......+-..
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L 62 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL 62 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence 68888888999999875 45899999999998776655443
No 311
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=57.56 E-value=10 Score=47.90 Aligned_cols=31 Identities=29% Similarity=0.419 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHhc-----------CceeeeCCCCCchhH
Q psy11433 443 EQYAYMVELKKALDAK-----------GHCLLEMPSGTGKTT 473 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~-----------~~~iiEaPTGTGKTl 473 (941)
+|.+.++.+.+++... ++++|.+|||||||.
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~ 499 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTE 499 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHH
Confidence 6888888888888842 247999999999995
No 312
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=57.42 E-value=11 Score=47.32 Aligned_cols=37 Identities=32% Similarity=0.311 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|....+.+.+.++.|+ |. ||.+|.|||||......+
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLA 59 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFA 59 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 68889999999999874 55 899999999997655543
No 313
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=57.25 E-value=8.1 Score=37.61 Aligned_cols=28 Identities=32% Similarity=0.324 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTT 473 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTl 473 (941)
++.+.+.+.+..|..++++++-|+|||-
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaGKTt 30 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAGKTT 30 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSSHHH
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCCHHH
Confidence 5677888888899999999999999995
No 314
>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=56.80 E-value=13 Score=40.65 Aligned_cols=29 Identities=21% Similarity=0.091 Sum_probs=23.6
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|...++.+|+|||||.-.+-.+...+..
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~ 63 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASR 63 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhC
Confidence 67899999999999999777766666554
No 315
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=56.70 E-value=5.6 Score=47.21 Aligned_cols=41 Identities=24% Similarity=0.270 Sum_probs=29.1
Q ss_pred hhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 79 IIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 79 ~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
....||||++...|++...... ..+..-.+|||||||.+.+
T Consensus 123 ~~~~~IiV~TP~rL~~~~~~~~--~~l~~v~~lViDEah~ll~ 163 (456)
T PRK10590 123 RGGVDVLVATPGRLLDLEHQNA--VKLDQVEILVLDEADRMLD 163 (456)
T ss_pred cCCCcEEEEChHHHHHHHHcCC--cccccceEEEeecHHHHhc
Confidence 3467999999888876443322 2344567999999998854
No 316
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=56.66 E-value=11 Score=47.66 Aligned_cols=33 Identities=30% Similarity=0.422 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHh--------c---CceeeeCCCCCchhHHH
Q psy11433 443 EQYAYMVELKKALDA--------K---GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~--------~---~~~iiEaPTGTGKTls~ 475 (941)
+|.+.++.|.+++.. + +.++|.+|||+|||...
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 688999999988883 1 36899999999999654
No 317
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=56.62 E-value=12 Score=44.37 Aligned_cols=40 Identities=38% Similarity=0.299 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~al~~ 482 (941)
+|...+..+..++..|+ | .||.||+|+|||....+.+-..
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l 63 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL 63 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence 68888999999999874 4 6899999999998776655433
No 318
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=56.39 E-value=12 Score=42.37 Aligned_cols=56 Identities=14% Similarity=0.118 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
+.-.++.+.+.++...+.+++|.+++||||+... -++.............+-|...
T Consensus 13 ~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA--~~iH~~s~r~~~pfv~v~c~~~ 68 (326)
T PRK11608 13 NSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIA--SRLHYLSSRWQGPFISLNCAAL 68 (326)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHH--HHHHHhCCccCCCeEEEeCCCC
Confidence 3445566777777778899999999999999742 2333222211123455666643
No 319
>PRK10865 protein disaggregation chaperone; Provisional
Probab=56.15 E-value=10 Score=48.73 Aligned_cols=34 Identities=26% Similarity=0.321 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhc-----------CceeeeCCCCCchhHHHH
Q psy11433 443 EQYAYMVELKKALDAK-----------GHCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~-----------~~~iiEaPTGTGKTls~L 476 (941)
+|...|..|.+++... ++.+|.+|||||||...-
T Consensus 572 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~ 616 (857)
T PRK10865 572 GQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCK 616 (857)
T ss_pred CCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHH
Confidence 7888899988888742 368999999999998543
No 320
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=56.12 E-value=9.2 Score=37.73 Aligned_cols=28 Identities=36% Similarity=0.379 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTT 473 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTl 473 (941)
++.+.+.+.+..|..+++.++.|+|||.
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKTt 37 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKTT 37 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHHH
Confidence 4566677777788999999999999985
No 321
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=56.03 E-value=14 Score=44.41 Aligned_cols=33 Identities=30% Similarity=0.555 Sum_probs=22.6
Q ss_pred HHHHHH-hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 451 LKKALD-AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 451 v~~al~-~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
+..++. .++.+++-+|||+|||-.+ .+++.++.
T Consensus 234 l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 234 FERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred HHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 334444 3467899999999999765 44455554
No 322
>PHA02533 17 large terminase protein; Provisional
Probab=55.86 E-value=40 Score=41.01 Aligned_cols=75 Identities=9% Similarity=0.115 Sum_probs=57.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLF 514 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~ 514 (941)
.||+ ++|.|.+++..+. .++-.++..|-..|||-.....++.++..++ ...+.+++++..|...++++++.+.
T Consensus 56 ~Pf~-L~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~--~~~v~i~A~~~~QA~~vF~~ik~~i 128 (534)
T PHA02533 56 IKVQ-MRDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK--DKNVGILAHKASMAAEVLDRTKQAI 128 (534)
T ss_pred eecC-CcHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC--CCEEEEEeCCHHHHHHHHHHHHHHH
Confidence 4665 8899999887763 4567789999999999887766665554433 3478888899999999999988776
Q ss_pred HH
Q psy11433 515 DY 516 (941)
Q Consensus 515 ~~ 516 (941)
+.
T Consensus 129 e~ 130 (534)
T PHA02533 129 EL 130 (534)
T ss_pred Hh
Confidence 54
No 323
>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=55.78 E-value=7.3 Score=40.28 Aligned_cols=38 Identities=29% Similarity=0.269 Sum_probs=25.6
Q ss_pred cCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCcccc
Q psy11433 81 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNID 120 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~ 120 (941)
.++|+|++...|++-..+.. ..+..-..+||||||.+.
T Consensus 119 ~~~iiv~T~~~l~~~l~~~~--~~~~~l~~lIvDE~h~~~ 156 (203)
T cd00268 119 GPHIVVATPGRLLDLLERGK--LDLSKVKYLVLDEADRML 156 (203)
T ss_pred CCCEEEEChHHHHHHHHcCC--CChhhCCEEEEeChHHhh
Confidence 78999999776644222221 223345789999999985
No 324
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=55.56 E-value=12 Score=46.23 Aligned_cols=38 Identities=32% Similarity=0.248 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcCc---eeeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGH---CLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~---~iiEaPTGTGKTls~L~~al 480 (941)
+|......+..++..|+. .||.+|.|+|||....+.+-
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk 60 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAK 60 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 688888999999998864 59999999999986655543
No 325
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=55.52 E-value=8.1 Score=46.31 Aligned_cols=41 Identities=29% Similarity=0.430 Sum_probs=29.3
Q ss_pred hhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccHH
Q psy11433 79 IIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNV 122 (941)
Q Consensus 79 ~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d~ 122 (941)
...|||||.+|-=+ |...|. +..+.+-..|||||.|-|+|-
T Consensus 313 ~~dADIIVGTYEGi-D~lLRt--g~~lgdiGtVVIDEiHtL~de 353 (830)
T COG1202 313 SPDADIIVGTYEGI-DYLLRT--GKDLGDIGTVVIDEIHTLEDE 353 (830)
T ss_pred CCCCcEEEeechhH-HHHHHc--CCcccccceEEeeeeeeccch
Confidence 34899999999733 333333 244556678999999999873
No 326
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=55.49 E-value=14 Score=40.14 Aligned_cols=44 Identities=25% Similarity=0.289 Sum_probs=32.4
Q ss_pred HHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc
Q psy11433 455 LDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP 501 (941)
Q Consensus 455 l~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~ 501 (941)
+..|+..++.+|+|||||.-.+-.+...++.. ..-+++.+...|
T Consensus 20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~g---e~vlyvs~~e~~ 63 (260)
T COG0467 20 LPRGSVVLITGPPGTGKTIFALQFLYEGAREG---EPVLYVSTEESP 63 (260)
T ss_pred CcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcC---CcEEEEEecCCH
Confidence 33789999999999999998888888777762 234444445544
No 327
>KOG0729|consensus
Probab=55.47 E-value=10 Score=41.37 Aligned_cols=34 Identities=35% Similarity=0.402 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHH------------HHhcCceeeeCCCCCchhHHH
Q psy11433 442 PEQYAYMVELKKA------------LDAKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 442 ~~Q~~~M~~v~~a------------l~~~~~~iiEaPTGTGKTls~ 475 (941)
.+|.+-+++|.+. ++--+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 4677766666543 223467899999999999864
No 328
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=55.32 E-value=14 Score=39.21 Aligned_cols=29 Identities=28% Similarity=0.272 Sum_probs=24.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|...++.+|+|||||.-.+..+...+..
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~ 50 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVEAAKN 50 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 57799999999999999888777776654
No 329
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=55.29 E-value=9 Score=41.23 Aligned_cols=33 Identities=33% Similarity=0.356 Sum_probs=22.7
Q ss_pred CHHHHHHHHHHHHHHH---h-c---CceeeeCCCCCchhH
Q psy11433 441 YPEQYAYMVELKKALD---A-K---GHCLLEMPSGTGKTT 473 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~---~-~---~~~iiEaPTGTGKTl 473 (941)
+-+|..+...+.-.++ . + .|+||-+|+|+|||.
T Consensus 26 fiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 26 FIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp S-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred ccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 4478888887654444 2 2 389999999999984
No 330
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=55.27 E-value=24 Score=45.93 Aligned_cols=59 Identities=17% Similarity=0.111 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEK 505 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q 505 (941)
..++|.+.+..+ +..+..+++.++.|||||-. |-++...+...+ .+|+.|..|......
T Consensus 347 Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~G---~~V~~~ApTGkAA~~ 405 (988)
T PRK13889 347 LSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEAAG---YEVRGAALSGIAAEN 405 (988)
T ss_pred CCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHcC---CeEEEecCcHHHHHH
Confidence 468998876654 34456899999999999986 444554444433 578888887665433
No 331
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=55.12 E-value=5.2 Score=46.93 Aligned_cols=29 Identities=38% Similarity=0.518 Sum_probs=23.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.++|++|-+.||||||..+=.-+=.+...
T Consensus 18 ~NRHGLIaGATGTGKTvTLqvlAE~fS~~ 46 (502)
T PF05872_consen 18 ANRHGLIAGATGTGKTVTLQVLAEQFSDA 46 (502)
T ss_pred ccccceeeccCCCCceehHHHHHHHhhhc
Confidence 57899999999999999877666555443
No 332
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=54.92 E-value=27 Score=38.75 Aligned_cols=28 Identities=36% Similarity=0.488 Sum_probs=20.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
.+++++|-+|||+|||-...--+..+..
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~ 220 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVL 220 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4568888999999999866555444443
No 333
>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=54.84 E-value=15 Score=40.39 Aligned_cols=33 Identities=36% Similarity=0.599 Sum_probs=22.8
Q ss_pred HHHHHH-hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 451 LKKALD-AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 451 v~~al~-~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
+.+++. .++.++|-+|||+|||-.+ .+.+.++.
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~ 105 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELN 105 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhC
Confidence 344454 4578999999999999755 44445543
No 334
>KOG1807|consensus
Probab=54.76 E-value=17 Score=45.05 Aligned_cols=29 Identities=28% Similarity=0.345 Sum_probs=23.9
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+.+..|+.+|+|||||+..+-+.=+-+..
T Consensus 392 tyelsliqgppGTgkt~vtlkav~tLL~n 420 (1025)
T KOG1807|consen 392 TYELSLIQGPPGTGKTLVTLKAVDTLLLN 420 (1025)
T ss_pred hhhhheeecCCCCCceeehHHHHHHHHhc
Confidence 56789999999999999988876665554
No 335
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.65 E-value=14 Score=44.48 Aligned_cols=37 Identities=35% Similarity=0.375 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|...+..+..++..|+ |+ +|.||.|+|||......+
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lA 59 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILA 59 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 78899999999999874 54 789999999987665544
No 336
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=54.49 E-value=23 Score=44.57 Aligned_cols=59 Identities=17% Similarity=0.219 Sum_probs=38.9
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc-CCCCCceEEEeccccchhHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA-HPLDVTKLLYCSRTVPEIEK 505 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~-~~~~~~ki~~ct~t~~q~~q 505 (941)
..|.|++... ...+++++-|+.|||||-++..= ++|+.. .+.+..+|+..|=|......
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~L~~R-ia~Li~~~~v~p~~IL~lTFTnkAA~e 64 (715)
T TIGR01075 5 LNDKQREAVA------APPGNLLVLAGAGSGKTRVLTHR-IAWLLSVENASPHSIMAVTFTNKAAAE 64 (715)
T ss_pred cCHHHHHHHc------CCCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCCHHHeEeeeccHHHHHH
Confidence 5577855432 13589999999999999876554 455554 33344567878877665433
No 337
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=54.43 E-value=69 Score=35.92 Aligned_cols=39 Identities=13% Similarity=0.179 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al~ 481 (941)
+|....+.+..++..|+ |+ +|.||-|+|||......+-.
T Consensus 8 g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~ 49 (313)
T PRK05564 8 GHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALK 49 (313)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHH
Confidence 57788888999998763 55 89999999999876665533
No 338
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=54.42 E-value=7.3 Score=44.38 Aligned_cols=16 Identities=50% Similarity=0.559 Sum_probs=14.3
Q ss_pred cCceeeeCCCCCchhH
Q psy11433 458 KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTl 473 (941)
-+-+++-+|+||||||
T Consensus 185 PKGVLLYGPPGTGKTL 200 (406)
T COG1222 185 PKGVLLYGPPGTGKTL 200 (406)
T ss_pred CCceEeeCCCCCcHHH
Confidence 3678999999999998
No 339
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=54.33 E-value=22 Score=41.87 Aligned_cols=35 Identities=17% Similarity=0.218 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~ 477 (941)
.+...+..+..-++++.++++=+|+|||||--+..
T Consensus 194 ~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~ 228 (449)
T TIGR02688 194 QKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNN 228 (449)
T ss_pred HHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHH
Confidence 44444555556678999999999999999954443
No 340
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=53.91 E-value=15 Score=42.17 Aligned_cols=37 Identities=27% Similarity=0.244 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~a 479 (941)
+|.+....+..++..|+ -.+|.+|+|+|||......+
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA 66 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLA 66 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHH
Confidence 57888889999999886 48999999999997655443
No 341
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=53.59 E-value=1.2e+02 Score=33.25 Aligned_cols=50 Identities=18% Similarity=0.195 Sum_probs=28.4
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
..+.-++||+||+|= |+++|+|+.... .+++.--....-++...+.++..
T Consensus 93 ~pg~rVlEAGtGSG~----lt~~La~~vg~~---G~v~tyE~r~d~~k~A~~Nl~~~ 142 (256)
T COG2519 93 SPGSRVLEAGTGSGA----LTAYLARAVGPE---GHVTTYEIREDFAKTARENLSEF 142 (256)
T ss_pred CCCCEEEEcccCchH----HHHHHHHhhCCC---ceEEEEEecHHHHHHHHHHHHHh
Confidence 346789999999984 555566554431 34443333333344555555543
No 342
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=53.37 E-value=13 Score=46.45 Aligned_cols=38 Identities=29% Similarity=0.377 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhc--Cce-eeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GHC-LLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~-iiEaPTGTGKTls~L~~al 480 (941)
+|......+..++..| .|+ ||.||.|+|||......+-
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk 62 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFAN 62 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence 6888888999999987 454 8999999999987766543
No 343
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=52.61 E-value=16 Score=42.57 Aligned_cols=39 Identities=31% Similarity=0.435 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcC-----------c-eeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG-----------H-CLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~-----------~-~iiEaPTGTGKTls~L~~al~ 481 (941)
+|....+.+..++..+. | .+|.+|.|+|||......+-.
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 68888888999998754 3 779999999999776665544
No 344
>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=52.59 E-value=20 Score=37.42 Aligned_cols=26 Identities=38% Similarity=0.799 Sum_probs=19.2
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+.+++-+|||+|||-.+ ...+.++..
T Consensus 2 GlilI~GptGSGKTTll-~~ll~~~~~ 27 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL-AAMIDYINK 27 (198)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHHhhh
Confidence 57899999999999875 444555543
No 345
>PF12846 AAA_10: AAA-like domain
Probab=52.58 E-value=13 Score=40.49 Aligned_cols=28 Identities=32% Similarity=0.437 Sum_probs=21.3
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+.|.++-|+||+|||..+...+...+..
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~ 28 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRR 28 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 3689999999999998887555444444
No 346
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=52.40 E-value=11 Score=39.95 Aligned_cols=28 Identities=18% Similarity=0.259 Sum_probs=19.5
Q ss_pred HHHHHHHHHH---hcCceeeeCCCCCchhHH
Q psy11433 447 YMVELKKALD---AKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 447 ~M~~v~~al~---~~~~~iiEaPTGTGKTls 474 (941)
....+.+... .+.++++-+|+|||||--
T Consensus 28 ~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~L 58 (227)
T PRK08903 28 LVARLRELAAGPVADRFFYLWGEAGSGRSHL 58 (227)
T ss_pred HHHHHHHHHhccCCCCeEEEECCCCCCHHHH
Confidence 3344444433 456899999999999953
No 347
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=52.26 E-value=16 Score=44.62 Aligned_cols=41 Identities=32% Similarity=0.336 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhc--Cc-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GH-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|......+..++..+ .| .||.||.|||||...-+.+-.+.
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 6888889999999876 45 57899999999988777765544
No 348
>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=52.14 E-value=20 Score=34.78 Aligned_cols=25 Identities=36% Similarity=0.429 Sum_probs=18.1
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
+.++-+|+|+|||.-+...+.....
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~ 25 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIAT 25 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHh
Confidence 3678999999999866555544433
No 349
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=51.76 E-value=13 Score=45.12 Aligned_cols=52 Identities=17% Similarity=0.232 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
++.+.+..+...+.+++|.++||||||.. .-++.............+-|...
T Consensus 207 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~l--A~~ih~~s~r~~~pfv~i~c~~~ 258 (534)
T TIGR01817 207 QVVDQARVVARSNSTVLLRGESGTGKELI--AKAIHYLSPRAKRPFVKVNCAAL 258 (534)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCccHHHH--HHHHHHhCCCCCCCeEEeecCCC
Confidence 44455555555788999999999999973 22333222111123556677654
No 350
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=51.59 E-value=34 Score=39.89 Aligned_cols=26 Identities=38% Similarity=0.530 Sum_probs=20.4
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
++++++-+|||+|||-...--+..+.
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46899999999999988766554444
No 351
>PRK08116 hypothetical protein; Validated
Probab=51.32 E-value=43 Score=36.91 Aligned_cols=26 Identities=31% Similarity=0.125 Sum_probs=17.7
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
..++|-+|+|||||.-.-+ +...+..
T Consensus 115 ~gl~l~G~~GtGKThLa~a-ia~~l~~ 140 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAAC-IANELIE 140 (268)
T ss_pred ceEEEECCCCCCHHHHHHH-HHHHHHH
Confidence 3499999999999874433 3344443
No 352
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.21 E-value=17 Score=41.79 Aligned_cols=40 Identities=28% Similarity=0.252 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|....+.+...+..|. +.+|.||+|+|||...... ..++
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~l-a~~l 63 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARIL-ARKI 63 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH-HHHh
Confidence 67888889999998774 6889999999999655444 4444
No 353
>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=51.16 E-value=21 Score=37.29 Aligned_cols=29 Identities=24% Similarity=0.227 Sum_probs=23.6
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|....+.+|+|+|||.-.+-.+..-+..
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~ 39 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAARQ 39 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 57789999999999999887776665544
No 354
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=51.11 E-value=16 Score=46.79 Aligned_cols=40 Identities=35% Similarity=0.375 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHhc--Cc-eeeeCCCCCchhHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAK--GH-CLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~-~iiEaPTGTGKTls~L~~al~~ 482 (941)
+|....+.+..++..| .| .||.+|.|+|||.+..+.+-..
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 5888888899999876 36 5899999999998887776443
No 355
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.00 E-value=17 Score=45.00 Aligned_cols=37 Identities=32% Similarity=0.319 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~a 479 (941)
+|...+..+.+++..++ |+ ||.+|.|+|||....+.+
T Consensus 20 GQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lA 59 (618)
T PRK14951 20 GQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILA 59 (618)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 68999999999999874 45 999999999998766654
No 356
>KOG4439|consensus
Probab=50.89 E-value=4.9 Score=49.04 Aligned_cols=40 Identities=28% Similarity=0.400 Sum_probs=25.8
Q ss_pred hhcCcEEEEccccccChhhh--------hH-hhhhcCCCcEEEEecCccccH
Q psy11433 79 IIHAKIVVYSYHYLLDPKIA--------NV-VSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 79 ~~~AdIVv~~y~yLl~~~~r--------~~-~~~~l~~~~ivI~DEAHNL~d 121 (941)
+..-||||++|+.+-..... .. ..+.+ +-||+||||||=+
T Consensus 429 L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W---~RVILDEAH~IrN 477 (901)
T KOG4439|consen 429 LRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAW---SRVILDEAHNIRN 477 (901)
T ss_pred HhhcceEEEeeeccccCCchhhhcccCccHHHHhhH---HHhhhhhhhhhcc
Confidence 44669999999998761110 11 12222 4599999999943
No 357
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=50.88 E-value=11 Score=43.96 Aligned_cols=21 Identities=24% Similarity=0.086 Sum_probs=18.1
Q ss_pred hcCceeeeCCCCCchhHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~ 477 (941)
.|.++++.++|||||++..-.
T Consensus 100 ~~~~vLi~GetGtGKel~A~~ 120 (403)
T COG1221 100 SGLPVLIIGETGTGKELFARL 120 (403)
T ss_pred CCCcEEEecCCCccHHHHHHH
Confidence 789999999999999985444
No 358
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=50.50 E-value=17 Score=41.54 Aligned_cols=27 Identities=37% Similarity=0.786 Sum_probs=20.7
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
.++.+++-+|||+|||-.+ .+.+.++.
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i~ 147 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYIN 147 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhhC
Confidence 5789999999999999765 34455544
No 359
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=50.40 E-value=6.4 Score=46.74 Aligned_cols=22 Identities=41% Similarity=0.567 Sum_probs=20.5
Q ss_pred CceeeeCCCCCchhHHHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al 480 (941)
.|+++-||||+|||-+++.|.|
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l 66 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL 66 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH
Confidence 4899999999999999999987
No 360
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.31 E-value=17 Score=44.67 Aligned_cols=38 Identities=29% Similarity=0.315 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIV 480 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al 480 (941)
+|......+..++..|+ |+ ||.+|.|+|||....+.+-
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak 60 (576)
T PRK14965 20 GQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAK 60 (576)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 68888899999999874 54 8999999999987766543
No 361
>PRK13764 ATPase; Provisional
Probab=50.21 E-value=20 Score=44.01 Aligned_cols=29 Identities=17% Similarity=0.296 Sum_probs=22.4
Q ss_pred HhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 456 DAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 456 ~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
..++.+++-+|||+|||-.+ .+++.++..
T Consensus 255 ~~~~~ILIsG~TGSGKTTll-~AL~~~i~~ 283 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTFA-QALAEFYAD 283 (602)
T ss_pred hcCCEEEEECCCCCCHHHHH-HHHHHHHhh
Confidence 45788999999999999744 566666654
No 362
>PRK04296 thymidine kinase; Provisional
Probab=50.20 E-value=19 Score=37.51 Aligned_cols=28 Identities=21% Similarity=0.203 Sum_probs=21.7
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
|...++-+|+|+|||..++-.+..+...
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~ 29 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEER 29 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHc
Confidence 4567899999999998877776666544
No 363
>PRK10263 DNA translocase FtsK; Provisional
Probab=50.14 E-value=37 Score=44.96 Aligned_cols=36 Identities=17% Similarity=0.320 Sum_probs=28.0
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCce
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTK 492 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~k 492 (941)
...|+++-+-||+|||.++-+.+++.+..+.++..+
T Consensus 1009 k~PHLLIAGaTGSGKSv~LntLIlSLl~~~sPeeVr 1044 (1355)
T PRK10263 1009 KMPHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVR 1044 (1355)
T ss_pred cCCcEEEecCCCCCHHHHHHHHHHHHHHhCCccceE
Confidence 447999999999999999888888777655434333
No 364
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=49.91 E-value=20 Score=42.50 Aligned_cols=20 Identities=35% Similarity=0.356 Sum_probs=16.0
Q ss_pred cCceeeeCCCCCchhHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~ 477 (941)
.+.++|.+|+|||||+..=+
T Consensus 217 p~gVLL~GPPGTGKT~LAra 236 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKA 236 (438)
T ss_pred CcEEEEECCCCCCHHHHHHH
Confidence 45789999999999985433
No 365
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=49.64 E-value=16 Score=44.60 Aligned_cols=40 Identities=23% Similarity=0.307 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhcCc---eeeeCCCCCchhHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGH---CLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~---~iiEaPTGTGKTls~L~~al~~ 482 (941)
+|......+..++.+|+. .||.||.|+|||.+..+.+-..
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L 62 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL 62 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence 688888999999998743 5899999999998877755443
No 366
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=49.61 E-value=17 Score=41.68 Aligned_cols=37 Identities=30% Similarity=0.394 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
+.+.+++ ..++..++++++-+|||+|||-.+ .+++.+
T Consensus 165 ~~~~~~L---~~~v~~~~~ili~G~tGsGKTTll-~al~~~ 201 (340)
T TIGR03819 165 PGVARLL---RAIVAARLAFLISGGTGSGKTTLL-SALLAL 201 (340)
T ss_pred HHHHHHH---HHHHhCCCeEEEECCCCCCHHHHH-HHHHcc
Confidence 3454554 445668899999999999998633 333343
No 367
>KOG0742|consensus
Probab=49.48 E-value=8.6 Score=44.37 Aligned_cols=52 Identities=29% Similarity=0.376 Sum_probs=31.8
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFD 515 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~~~ 515 (941)
.+++|-+|+||||||..=..+ +..+.|+ -++-.+.+-|.=.|.+-.+.++..
T Consensus 385 RNilfyGPPGTGKTm~ArelA----r~SGlDY-A~mTGGDVAPlG~qaVTkiH~lFD 436 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMFARELA----RHSGLDY-AIMTGGDVAPLGAQAVTKIHKLFD 436 (630)
T ss_pred hheeeeCCCCCCchHHHHHHH----hhcCCce-ehhcCCCccccchHHHHHHHHHHH
Confidence 489999999999999654433 2222221 122334566666666666666654
No 368
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=49.37 E-value=15 Score=45.57 Aligned_cols=40 Identities=25% Similarity=0.296 Sum_probs=29.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhc--CceeeeCCCCCchhHHH
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDAK--GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls~ 475 (941)
|||. .--+|..+...+.-++.+. ++++|++|+|||||...
T Consensus 1 ~pf~-~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~la 42 (633)
T TIGR02442 1 FPFT-AIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAA 42 (633)
T ss_pred CCcc-hhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHH
Confidence 5554 2335877777776666643 57999999999999754
No 369
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=49.13 E-value=4.9 Score=46.55 Aligned_cols=22 Identities=23% Similarity=0.356 Sum_probs=19.4
Q ss_pred ceeeeCCCCCchhHHHHHHHHH
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~ 481 (941)
|.++-||||+|||.+++.|.+-
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 6789999999999999888765
No 370
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=48.99 E-value=19 Score=46.23 Aligned_cols=40 Identities=20% Similarity=0.132 Sum_probs=26.0
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
||+.|+ | -++.-..--|.|+.||-||||+.-.|+..-+..
T Consensus 139 ~ydVQL--i----GgivLh~G~IAEM~TGEGKTLvatlp~yLnAL~ 178 (1025)
T PRK12900 139 PYDVQL--I----GGIVLHSGKISEMATGEGKTLVSTLPTFLNALT 178 (1025)
T ss_pred ccchHH--h----hhHHhhcCCccccCCCCCcchHhHHHHHHHHHc
Confidence 567773 2 222222345689999999999988777544443
No 371
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=48.89 E-value=9.5 Score=38.74 Aligned_cols=16 Identities=38% Similarity=0.480 Sum_probs=14.3
Q ss_pred cCceeeeCCCCCchhH
Q psy11433 458 KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTl 473 (941)
|+..++.+|+|+|||-
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 5788999999999996
No 372
>KOG0385|consensus
Probab=48.65 E-value=11 Score=46.65 Aligned_cols=59 Identities=25% Similarity=0.459 Sum_probs=0.0
Q ss_pred HHHHHHhchhCCCCHHH--------HHHHHhhcC--cEEEEccccccChhhhhHhhhhcCCCcEEEEecCccc
Q psy11433 57 ITKLKEMGRELGLCPYF--------LARQAIIHA--KIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNI 119 (941)
Q Consensus 57 iEdL~~~g~~~~~CPY~--------~aR~~~~~A--dIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL 119 (941)
..++..++.....+-|+ ..|..+... ||+|++|-..+... .+...++. .++||||||.|
T Consensus 233 ~~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk---~~lk~~~W-~ylvIDEaHRi 301 (971)
T KOG0385|consen 233 MNEFKRFTPSLNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKDK---SFLKKFNW-RYLVIDEAHRI 301 (971)
T ss_pred HHHHHHhCCCcceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhhH---HHHhcCCc-eEEEechhhhh
No 373
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=48.41 E-value=21 Score=42.06 Aligned_cols=27 Identities=41% Similarity=0.561 Sum_probs=21.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
.|+..+|-+|||+|||-....-+..+.
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~~ 246 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARYA 246 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 467888899999999987776655554
No 374
>CHL00095 clpC Clp protease ATP binding subunit
Probab=48.13 E-value=17 Score=46.49 Aligned_cols=31 Identities=32% Similarity=0.442 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHhc-----------CceeeeCCCCCchhH
Q psy11433 443 EQYAYMVELKKALDAK-----------GHCLLEMPSGTGKTT 473 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~-----------~~~iiEaPTGTGKTl 473 (941)
+|.+.+..|.+++... ...+|-+|||+|||.
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~ 554 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTE 554 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHH
Confidence 7999999999998732 246899999999994
No 375
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=48.01 E-value=44 Score=44.00 Aligned_cols=61 Identities=16% Similarity=0.086 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVV 507 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i 507 (941)
..++|.+.+..+. ..++.+++.++-|||||-.+-...-.|... + .+|+-|..|......+-
T Consensus 382 Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~-G---~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 382 LSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAWEAA-G---YRVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHHHHc-C---CeEEEEcCcHHHHHHHH
Confidence 5689999887763 457899999999999997766655455433 2 57888887776654443
No 376
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=47.78 E-value=26 Score=40.55 Aligned_cols=41 Identities=24% Similarity=0.255 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHhcC--c-eeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--H-CLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~-~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|.+....+.+++..|+ | .||.+|.|+||+...+..+-..+
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll 66 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLL 66 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 78999999999999874 5 78999999999987666554443
No 377
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=47.75 E-value=20 Score=48.35 Aligned_cols=37 Identities=27% Similarity=0.350 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~a 479 (941)
.|..||..+..|.-..-++++++||.+|||...+..+
T Consensus 873 Vqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI~yla 909 (4600)
T COG5271 873 VQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMILYLA 909 (4600)
T ss_pred HHHHHHHHHHHHhhcCCcEEEecCCCCCcchHHHHHH
Confidence 6889999999999999999999999999998766544
No 378
>KOG0922|consensus
Probab=47.72 E-value=16 Score=44.59 Aligned_cols=29 Identities=21% Similarity=0.318 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
++.+++..+++.+.++|+-++||+|||--
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQ 82 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKSTQ 82 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCcccc
Confidence 57788999999999999999999999964
No 379
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=47.71 E-value=17 Score=41.46 Aligned_cols=41 Identities=22% Similarity=0.473 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 439 YIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
...+.|.++. ..++....+.++-++||+|||- +|-+.+.|.
T Consensus 157 t~~~~~a~~L---~~av~~r~NILisGGTGSGKTT-lLNal~~~i 197 (355)
T COG4962 157 TMIRRAAKFL---RRAVGIRCNILISGGTGSGKTT-LLNALSGFI 197 (355)
T ss_pred CcCHHHHHHH---HHHHhhceeEEEeCCCCCCHHH-HHHHHHhcC
Confidence 3455565554 4555566899999999999995 333444443
No 380
>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=47.48 E-value=25 Score=35.52 Aligned_cols=26 Identities=31% Similarity=0.255 Sum_probs=19.7
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
..++.+|+|+|||......+..+...
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 36789999999999876666555543
No 381
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=47.44 E-value=12 Score=39.82 Aligned_cols=20 Identities=40% Similarity=0.564 Sum_probs=14.2
Q ss_pred ceeeeCCCCCchhHHHHHHH
Q psy11433 460 HCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~a 479 (941)
..+|-+|||||||--.+..+
T Consensus 3 v~~i~GpT~tGKt~~ai~lA 22 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAIALA 22 (233)
T ss_dssp EEEEE-STTSSHHHHHHHHH
T ss_pred EEEEECCCCCChhHHHHHHH
Confidence 46788999999997554443
No 382
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=47.37 E-value=11 Score=44.80 Aligned_cols=73 Identities=19% Similarity=0.161 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHHH---HHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec-cccchhHHHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKK---ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS-RTVPEIEKVVEELARLFD 515 (941)
Q Consensus 440 py~~Q~~~M~~v~~---al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct-~t~~q~~q~i~el~~~~~ 515 (941)
-|++|.+++..+.+ .+..|..+.+-||.|.|||--+= .. ...+.....|.+.. +....-+..+..++-+.+
T Consensus 11 ~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLLr----~~-l~~~~sGg~I~ldg~~~~~~~~~ai~~LR~VFQ 85 (504)
T TIGR03238 11 KRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEILA----EN-KRKFSEGYEFFLDATHSFSPNKNAMETLDEIFD 85 (504)
T ss_pred chHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHHh----cC-CCCCCCCCEEEECCEECCCCCHHHHHHHHHHHH
Confidence 47899988877765 35589999999999999996333 11 11122223466554 333333455566665555
Q ss_pred HH
Q psy11433 516 YY 517 (941)
Q Consensus 516 ~~ 517 (941)
.+
T Consensus 86 ~f 87 (504)
T TIGR03238 86 GF 87 (504)
T ss_pred hh
Confidence 44
No 383
>PRK04195 replication factor C large subunit; Provisional
Probab=47.08 E-value=20 Score=42.97 Aligned_cols=20 Identities=40% Similarity=0.433 Sum_probs=16.4
Q ss_pred cCceeeeCCCCCchhHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~ 477 (941)
.++++|-+|+|||||...-+
T Consensus 39 ~~~lLL~GppG~GKTtla~a 58 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHA 58 (482)
T ss_pred CCeEEEECCCCCCHHHHHHH
Confidence 47899999999999965443
No 384
>PRK08727 hypothetical protein; Validated
Probab=46.91 E-value=44 Score=35.94 Aligned_cols=35 Identities=29% Similarity=0.303 Sum_probs=21.2
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
..+++-+|+|||||--+- ++...+...+ .++.|.+
T Consensus 42 ~~l~l~G~~G~GKThL~~-a~~~~~~~~~---~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLAL-ALCAAAEQAG---RSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHcC---CcEEEEe
Confidence 358999999999996333 3333334332 3455544
No 385
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=46.80 E-value=46 Score=38.40 Aligned_cols=34 Identities=24% Similarity=0.234 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHH----hcCceeeeCCCCCchhHHH
Q psy11433 442 PEQYAYMVELKKALD----AKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~----~~~~~iiEaPTGTGKTls~ 475 (941)
+...+++..+..+.. .++.++|.+|+|+|||...
T Consensus 58 ~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla 95 (361)
T smart00763 58 EAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLV 95 (361)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHH
Confidence 445556666666555 2478899999999999643
No 386
>PTZ00424 helicase 45; Provisional
Probab=46.79 E-value=11 Score=43.67 Aligned_cols=40 Identities=15% Similarity=0.094 Sum_probs=27.0
Q ss_pred hcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 80 IHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 80 ~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
..++|||++...|++...+.. ..+.+-.+|||||||.+.+
T Consensus 145 ~~~~Ivv~Tp~~l~~~l~~~~--~~l~~i~lvViDEah~~~~ 184 (401)
T PTZ00424 145 AGVHMVVGTPGRVYDMIDKRH--LRVDDLKLFILDEADEMLS 184 (401)
T ss_pred CCCCEEEECcHHHHHHHHhCC--cccccccEEEEecHHHHHh
Confidence 346999999887765433222 2234457999999998743
No 387
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=46.71 E-value=8.4 Score=50.14 Aligned_cols=37 Identities=24% Similarity=0.457 Sum_probs=25.7
Q ss_pred cCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 81 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
..||||++|..+.... ..+.. . .-.+|||||||.|-+
T Consensus 269 ~~dVvITSYe~l~~e~--~~L~k-~-~W~~VIvDEAHrIKN 305 (1033)
T PLN03142 269 KFDVCVTSFEMAIKEK--TALKR-F-SWRYIIIDEAHRIKN 305 (1033)
T ss_pred CCCcceecHHHHHHHH--HHhcc-C-CCCEEEEcCccccCC
Confidence 5699999999876532 22221 2 246999999999844
No 388
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=46.61 E-value=24 Score=45.57 Aligned_cols=40 Identities=23% Similarity=0.146 Sum_probs=26.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
||+.| +.-++.-..--|.|+.||-||||+.-.|+..-+..
T Consensus 170 ~yDVQ------liGgivLh~G~IAEM~TGEGKTLvAtlp~yLnAL~ 209 (1112)
T PRK12901 170 HYDVQ------LIGGVVLHQGKIAEMATGEGKTLVATLPVYLNALT 209 (1112)
T ss_pred ccchH------HhhhhhhcCCceeeecCCCCchhHHHHHHHHHHHc
Confidence 56677 22333323445789999999999888777544443
No 389
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=45.92 E-value=7.7 Score=43.37 Aligned_cols=64 Identities=19% Similarity=0.336 Sum_probs=37.4
Q ss_pred HHHHhchhC-CCCHHHHHHHH---hhcCcEEEEccccccChhh-----hhHhh---hhc--CCCcEEEEecCccccHH
Q psy11433 59 KLKEMGREL-GLCPYFLARQA---IIHAKIVVYSYHYLLDPKI-----ANVVS---KEL--ARSSVVVFDEAHNIDNV 122 (941)
Q Consensus 59 dL~~~g~~~-~~CPY~~aR~~---~~~AdIVv~~y~yLl~~~~-----r~~~~---~~l--~~~~ivI~DEAHNL~d~ 122 (941)
||..+|... .+.|....+.. -....||+++|+-|....- +..+. .++ ..+.++||||+|+.-+.
T Consensus 110 Dl~DIG~~~i~v~~l~~~~~~~~~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~ 187 (303)
T PF13872_consen 110 DLRDIGADNIPVHPLNKFKYGDIIRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNL 187 (303)
T ss_pred HHHHhCCCcccceechhhccCcCCCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCC
Confidence 566666432 23333333222 2256899999999987731 12222 122 23679999999998554
No 390
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=45.77 E-value=11 Score=46.09 Aligned_cols=50 Identities=18% Similarity=0.213 Sum_probs=30.4
Q ss_pred HHHHHHHHh-hcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 71 PYFLARQAI-IHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 71 PY~~aR~~~-~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
.|...+..+ ..+||||++-.-|++.. .......+..-.+|||||||.+.+
T Consensus 123 ~~~~q~~~l~~~~dIiV~TP~rL~~~l-~~~~~~~l~~v~~lViDEAh~lld 173 (572)
T PRK04537 123 DYDKQRELLQQGVDVIIATPGRLIDYV-KQHKVVSLHACEICVLDEADRMFD 173 (572)
T ss_pred CHHHHHHHHhCCCCEEEECHHHHHHHH-HhccccchhheeeeEecCHHHHhh
Confidence 444444444 35799999977766532 211112233456899999999854
No 391
>PRK08084 DNA replication initiation factor; Provisional
Probab=45.48 E-value=21 Score=38.41 Aligned_cols=30 Identities=23% Similarity=0.328 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHH--hcCceeeeCCCCCchhHH
Q psy11433 445 YAYMVELKKALD--AKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 445 ~~~M~~v~~al~--~~~~~iiEaPTGTGKTls 474 (941)
......+..... .+.++++-+|+|+|||--
T Consensus 30 ~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThL 61 (235)
T PRK08084 30 DSLLAALQNALRQEHSGYIYLWSREGAGRSHL 61 (235)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 334444444443 336899999999999953
No 392
>KOG0920|consensus
Probab=45.47 E-value=45 Score=42.85 Aligned_cols=54 Identities=17% Similarity=0.265 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec--cccch
Q psy11433 447 YMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS--RTVPE 502 (941)
Q Consensus 447 ~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct--~t~~q 502 (941)
+-+++.+++.++.++++-+-||.|||--+--..|.+....+ ...-++|| |-++.
T Consensus 177 ~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~--~~~~IicTQPRRIsA 232 (924)
T KOG0920|consen 177 MRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESG--AACNIICTQPRRISA 232 (924)
T ss_pred HHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcC--CCCeEEecCCchHHH
Confidence 34678899999999999999999999999999998876655 23347888 54443
No 393
>KOG1806|consensus
Probab=45.27 E-value=35 Score=43.70 Aligned_cols=76 Identities=22% Similarity=0.368 Sum_probs=50.6
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHhc---CceeeeCCCCCchhHHHHHH-HHHHHhcCCCCCceEEEeccccchhHHHHHH
Q psy11433 434 FFPYEYIYPEQYAYMVELKKALDAK---GHCLLEMPSGTGKTTSLLSL-IVAYMNAHPLDVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 434 ~FPy~~py~~Q~~~M~~v~~al~~~---~~~iiEaPTGTGKTls~L~~-al~~~~~~~~~~~ki~~ct~t~~q~~q~i~e 509 (941)
.+||. |...|..+=-...+++..| +.-+.-+|||||||-..-=. ..-|.+. ...+..+.||....+.|..+.
T Consensus 727 py~y~-p~~n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn~---p~qrTlivthsnqaln~lfeK 802 (1320)
T KOG1806|consen 727 PYPYN-PKKNQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHNS---PNQRTLIVTHSNQALNQLFEK 802 (1320)
T ss_pred CCCcC-cccchhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhcC---CCcceEEEEecccchhHHHHH
Confidence 36666 7777777776667777766 67888999999999643211 1122221 235677788888888887777
Q ss_pred HHHH
Q psy11433 510 LARL 513 (941)
Q Consensus 510 l~~~ 513 (941)
+.++
T Consensus 803 i~~~ 806 (1320)
T KOG1806|consen 803 IMAL 806 (1320)
T ss_pred HHhc
Confidence 6654
No 394
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=45.11 E-value=44 Score=39.80 Aligned_cols=37 Identities=30% Similarity=0.323 Sum_probs=24.1
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.++++-||+|+||| -++.++..++....+ ..+++|.+
T Consensus 142 npl~i~G~~G~GKT-HLl~Ai~~~l~~~~~-~~~v~yv~ 178 (450)
T PRK14087 142 NPLFIYGESGMGKT-HLLKAAKNYIESNFS-DLKVSYMS 178 (450)
T ss_pred CceEEECCCCCcHH-HHHHHHHHHHHHhCC-CCeEEEEE
Confidence 46889999999999 344555565554321 24666655
No 395
>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=45.05 E-value=29 Score=40.10 Aligned_cols=31 Identities=23% Similarity=0.258 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHh----cCceeeeCCCCCchhH
Q psy11433 443 EQYAYMVELKKALDA----KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~----~~~~iiEaPTGTGKTl 473 (941)
..++.+.-|.+-+.+ |+.+++-+|+|||||.
T Consensus 31 ~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTA 65 (398)
T PF06068_consen 31 KAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTA 65 (398)
T ss_dssp HHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHH
T ss_pred HHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchH
Confidence 345566667777764 5789999999999995
No 396
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=44.94 E-value=14 Score=43.27 Aligned_cols=51 Identities=18% Similarity=0.124 Sum_probs=31.6
Q ss_pred CCHHHHHHHH-hhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 69 LCPYFLARQA-IIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 69 ~CPY~~aR~~-~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
..+|...... ...+||||++..-|++...... ..+..-.+|||||||.+.+
T Consensus 110 g~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~--~~~~~v~~lViDEah~~l~ 161 (434)
T PRK11192 110 GVAYMNHAEVFSENQDIVVATPGRLLQYIKEEN--FDCRAVETLILDEADRMLD 161 (434)
T ss_pred CCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCC--cCcccCCEEEEECHHHHhC
Confidence 3445443333 3467999999877765332221 2234457899999998754
No 397
>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=44.75 E-value=43 Score=35.98 Aligned_cols=26 Identities=38% Similarity=0.443 Sum_probs=22.1
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
|...++-||.|+|||.-.+..+++.+
T Consensus 1 g~~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred CceeEEEcCCCCCHHHHHHHHHHHHh
Confidence 45789999999999999998888654
No 398
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.73 E-value=23 Score=43.66 Aligned_cols=39 Identities=26% Similarity=0.181 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~ 481 (941)
+|......+.+++.+++ ..||.+|.|||||....+.+-.
T Consensus 20 GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 57778888899998875 4668999999999877665533
No 399
>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=44.72 E-value=12 Score=38.44 Aligned_cols=15 Identities=53% Similarity=0.753 Sum_probs=13.3
Q ss_pred CceeeeCCCCCchhH
Q psy11433 459 GHCLLEMPSGTGKTT 473 (941)
Q Consensus 459 ~~~iiEaPTGTGKTl 473 (941)
.++++-+|||+|||-
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 478999999999995
No 400
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=44.71 E-value=24 Score=42.65 Aligned_cols=30 Identities=30% Similarity=0.459 Sum_probs=21.4
Q ss_pred HhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 456 DAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 456 ~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
..|+.++|-+|||+|||-.+.-.+..+...
T Consensus 348 ~~G~vIaLVGPtGvGKTTtaakLAa~la~~ 377 (559)
T PRK12727 348 ERGGVIALVGPTGAGKTTTIAKLAQRFAAQ 377 (559)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 367888899999999997664444444443
No 401
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=44.69 E-value=24 Score=39.43 Aligned_cols=35 Identities=29% Similarity=0.220 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhcC--ceee-eCCCCCchhHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HCLL-EMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~ii-EaPTGTGKTls~L~ 477 (941)
+|.+.-..+...+..|. ++++ .||+|+|||...-+
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~ 62 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKA 62 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHH
Confidence 45566666777777663 4555 99999999975433
No 402
>PRK13766 Hef nuclease; Provisional
Probab=44.42 E-value=13 Score=47.26 Aligned_cols=42 Identities=29% Similarity=0.378 Sum_probs=28.6
Q ss_pred HHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCcccc
Q psy11433 77 QAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNID 120 (941)
Q Consensus 77 ~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~ 120 (941)
.....++|||+++..+........+ .+..-..|||||||++.
T Consensus 103 ~~~~~~~iiv~T~~~l~~~l~~~~~--~~~~~~liVvDEaH~~~ 144 (773)
T PRK13766 103 ELWEKAKVIVATPQVIENDLIAGRI--SLEDVSLLIFDEAHRAV 144 (773)
T ss_pred HHHhCCCEEEECHHHHHHHHHcCCC--ChhhCcEEEEECCcccc
Confidence 3445789999999877654333222 22345799999999984
No 403
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=44.41 E-value=11 Score=35.33 Aligned_cols=13 Identities=38% Similarity=0.378 Sum_probs=11.3
Q ss_pred eeeeCCCCCchhH
Q psy11433 461 CLLEMPSGTGKTT 473 (941)
Q Consensus 461 ~iiEaPTGTGKTl 473 (941)
+++.+++|+|||-
T Consensus 1 I~i~G~~GsGKtT 13 (129)
T PF13238_consen 1 IGISGIPGSGKTT 13 (129)
T ss_dssp EEEEESTTSSHHH
T ss_pred CEEECCCCCCHHH
Confidence 4688999999995
No 404
>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=44.38 E-value=26 Score=36.02 Aligned_cols=29 Identities=38% Similarity=0.552 Sum_probs=20.7
Q ss_pred HHHHHHHhcC---ceeeeCCCCCchhHHHHHH
Q psy11433 450 ELKKALDAKG---HCLLEMPSGTGKTTSLLSL 478 (941)
Q Consensus 450 ~v~~al~~~~---~~iiEaPTGTGKTls~L~~ 478 (941)
.+.+.+..|+ ..+|.+|+|+|||......
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~ 34 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELLALAL 34 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3556666663 4889999999999754443
No 405
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=44.32 E-value=16 Score=42.62 Aligned_cols=16 Identities=50% Similarity=0.528 Sum_probs=14.1
Q ss_pred CceeeeCCCCCchhHH
Q psy11433 459 GHCLLEMPSGTGKTTS 474 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls 474 (941)
+.+++.+|+|||||+.
T Consensus 166 ~gvLL~GppGtGKT~l 181 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL 181 (389)
T ss_pred CceEEECCCCCChHHH
Confidence 5689999999999974
No 406
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=44.12 E-value=39 Score=40.79 Aligned_cols=51 Identities=20% Similarity=0.246 Sum_probs=33.5
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.|...++.+|+|||||.-.+-.+...+..++ .+++|.+=.++ .+++++.+.
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~g---e~~lyis~ee~-~~~i~~~~~ 80 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRFD---EPGVFVTFEES-PEDIIRNVA 80 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcC---CCEEEEEccCC-HHHHHHHHH
Confidence 6789999999999999988877777776532 34544442222 234444443
No 407
>CHL00176 ftsH cell division protein; Validated
Probab=43.95 E-value=21 Score=44.41 Aligned_cols=17 Identities=47% Similarity=0.489 Sum_probs=14.5
Q ss_pred CceeeeCCCCCchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~ 475 (941)
+.+++.+|+|||||+..
T Consensus 217 ~gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLA 233 (638)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 36899999999999743
No 408
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=43.84 E-value=18 Score=45.51 Aligned_cols=31 Identities=29% Similarity=0.389 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHhc-----------CceeeeCCCCCchhH
Q psy11433 443 EQYAYMVELKKALDAK-----------GHCLLEMPSGTGKTT 473 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~-----------~~~iiEaPTGTGKTl 473 (941)
+|.+....|.+++... +..+|-+|||+|||-
T Consensus 495 GQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE 536 (786)
T COG0542 495 GQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE 536 (786)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH
Confidence 7999999999999841 478999999999996
No 409
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=43.80 E-value=23 Score=44.61 Aligned_cols=35 Identities=34% Similarity=0.381 Sum_probs=25.0
Q ss_pred HHHHHHH---HHHHHHHhc--CceeeeCCCCCchhHHHHH
Q psy11433 443 EQYAYMV---ELKKALDAK--GHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 443 ~Q~~~M~---~v~~al~~~--~~~iiEaPTGTGKTls~L~ 477 (941)
+|...+. .+.+.+..+ .+++|-+|+|||||...-.
T Consensus 32 GQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~a 71 (725)
T PRK13341 32 GQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARI 71 (725)
T ss_pred CcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHH
Confidence 4666663 466666655 4899999999999964433
No 410
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=43.78 E-value=46 Score=42.08 Aligned_cols=56 Identities=23% Similarity=0.262 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP 501 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~ 501 (941)
..|.|++... ...+++++-|+.|||||-.++.=+...+...+...-+|+..|=|..
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~k 60 (726)
T TIGR01073 5 LNPEQREAVK------TTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNK 60 (726)
T ss_pred cCHHHHHHHh------CCCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHH
Confidence 4577855443 1358999999999999988777665555433333345666665543
No 411
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=43.75 E-value=14 Score=41.49 Aligned_cols=21 Identities=19% Similarity=0.324 Sum_probs=16.5
Q ss_pred hcCceeeeCCCCCchhHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~ 477 (941)
.++.+++-+|||+|||--.+-
T Consensus 3 ~~~ii~I~GpTasGKS~LAl~ 23 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSNILFH 23 (300)
T ss_pred CCcEEEEECCCccCHHHHHHH
Confidence 346789999999999974443
No 412
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=43.72 E-value=12 Score=35.25 Aligned_cols=13 Identities=38% Similarity=0.797 Sum_probs=11.6
Q ss_pred eeeeCCCCCchhH
Q psy11433 461 CLLEMPSGTGKTT 473 (941)
Q Consensus 461 ~iiEaPTGTGKTl 473 (941)
+++.+|+|+|||-
T Consensus 2 I~I~G~~gsGKST 14 (121)
T PF13207_consen 2 IIISGPPGSGKST 14 (121)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6789999999995
No 413
>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=43.71 E-value=24 Score=38.31 Aligned_cols=43 Identities=21% Similarity=0.217 Sum_probs=32.5
Q ss_pred HHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 454 ALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 454 al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
.+..|...+|-|+||.|||.-.+-.+..++..++ ..++|.+--
T Consensus 15 G~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~---~~vly~SlE 57 (259)
T PF03796_consen 15 GLRPGELTVIAARPGVGKTAFALQIALNAALNGG---YPVLYFSLE 57 (259)
T ss_dssp SB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTS---SEEEEEESS
T ss_pred CCCcCcEEEEEecccCCchHHHHHHHHHHHHhcC---CeEEEEcCC
Confidence 3446789999999999999999999999888653 456665533
No 414
>PRK06893 DNA replication initiation factor; Validated
Probab=43.51 E-value=58 Score=34.87 Aligned_cols=38 Identities=16% Similarity=0.149 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHhc--CceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 446 AYMVELKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 446 ~~M~~v~~al~~~--~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
.++..+.+..... ..+++-+|+|||||--+-+.+-...
T Consensus 25 ~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~ 64 (229)
T PRK06893 25 LLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYL 64 (229)
T ss_pred HHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3445555554432 3468999999999964444333333
No 415
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=43.35 E-value=29 Score=39.20 Aligned_cols=41 Identities=22% Similarity=0.305 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHhcC---ceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG---HCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~---~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|.+....+..++..|+ ..+|.||.|+||+...++.+-..+
T Consensus 8 Gq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~ll 51 (314)
T PRK07399 8 GQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLL 51 (314)
T ss_pred CHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence 68888899999999884 789999999999987766654433
No 416
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=43.27 E-value=8.7 Score=47.26 Aligned_cols=25 Identities=28% Similarity=0.461 Sum_probs=22.3
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
..|+++-||||+|||.++..|.|-.
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~ 182 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLF 182 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHh
Confidence 3689999999999999999998754
No 417
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=43.20 E-value=29 Score=40.72 Aligned_cols=29 Identities=31% Similarity=0.495 Sum_probs=22.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
..+|+++=+|||+|||.. |-..+.++...
T Consensus 41 ~~~h~~i~g~tGsGKt~~-i~~l~~~~~~~ 69 (410)
T cd01127 41 EEAHTMIIGTTGTGKTTQ-IRELLASIRAR 69 (410)
T ss_pred hhccEEEEcCCCCCHHHH-HHHHHHHHHhc
Confidence 347999999999999985 55556666554
No 418
>PF13173 AAA_14: AAA domain
Probab=43.15 E-value=20 Score=34.56 Aligned_cols=23 Identities=39% Similarity=0.482 Sum_probs=18.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~a 479 (941)
+++..++.+|.|+|||-.+.-.+
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~ 23 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLA 23 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHH
Confidence 36789999999999997655444
No 419
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=42.86 E-value=22 Score=43.01 Aligned_cols=29 Identities=17% Similarity=0.176 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 446 AYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 446 ~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
++.+.+..+-..+.+++|.+++||||+..
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~ 226 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELV 226 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHHH
Confidence 33444444444778999999999999974
No 420
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=42.84 E-value=10 Score=47.20 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=22.1
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
...|+++-||||+|||.+++.|.|-
T Consensus 138 ~~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 138 EQPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CCceEEEEecCCCCceeeehHhHHh
Confidence 3479999999999999999999864
No 421
>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=42.72 E-value=21 Score=37.91 Aligned_cols=39 Identities=18% Similarity=0.313 Sum_probs=25.5
Q ss_pred HHHHHHHHccCEEEeccccccCHHHhhHhhhhccCCcEEEEeCCcCch
Q psy11433 728 FLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNID 775 (941)
Q Consensus 728 ~~~r~~~~~AdiIi~ny~yLld~~~~~~~~~~l~~~~ilIiDEAHNL~ 775 (941)
...........|-+.+.+|+-... + .+++||+|||+|+-
T Consensus 94 ~~~~~~~~~~~Ie~~~~~~iRGrt--------~-~~~~iIvDEaQN~t 132 (205)
T PF02562_consen 94 EKLEELIQNGKIEIEPLAFIRGRT--------F-DNAFIIVDEAQNLT 132 (205)
T ss_dssp TCHHHHHHTTSEEEEEGGGGTT----------B--SEEEEE-SGGG--
T ss_pred HhHHHHhhcCeEEEEehhhhcCcc--------c-cceEEEEecccCCC
Confidence 345566677789999998864433 2 57999999999873
No 422
>KOG0731|consensus
Probab=42.50 E-value=16 Score=45.62 Aligned_cols=18 Identities=44% Similarity=0.423 Sum_probs=15.1
Q ss_pred CceeeeCCCCCchhHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLL 476 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L 476 (941)
+-+|+.+|+||||||-.-
T Consensus 345 kGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CceEEECCCCCcHHHHHH
Confidence 579999999999998433
No 423
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=42.05 E-value=10 Score=47.24 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=22.5
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
...|+++-||||+|||.++..|.|-
T Consensus 143 g~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 143 GPEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CCceEEEEecCCCCcceeEehhhHH
Confidence 3479999999999999999999875
No 424
>KOG0738|consensus
Probab=42.03 E-value=13 Score=42.85 Aligned_cols=15 Identities=47% Similarity=0.600 Sum_probs=13.4
Q ss_pred CceeeeCCCCCchhH
Q psy11433 459 GHCLLEMPSGTGKTT 473 (941)
Q Consensus 459 ~~~iiEaPTGTGKTl 473 (941)
+-+++-+|+||||||
T Consensus 246 kgvLm~GPPGTGKTl 260 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTL 260 (491)
T ss_pred ceeeeeCCCCCcHHH
Confidence 568889999999998
No 425
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=41.84 E-value=29 Score=39.84 Aligned_cols=17 Identities=47% Similarity=0.473 Sum_probs=14.2
Q ss_pred CceeeeCCCCCchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~ 475 (941)
+.+++-+|+|||||...
T Consensus 157 ~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLA 173 (364)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 45899999999999643
No 426
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=41.77 E-value=24 Score=42.37 Aligned_cols=17 Identities=47% Similarity=0.489 Sum_probs=14.5
Q ss_pred CceeeeCCCCCchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~ 475 (941)
+.+++.+|+|||||...
T Consensus 89 ~giLL~GppGtGKT~la 105 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLLA 105 (495)
T ss_pred CcEEEECCCCCCHHHHH
Confidence 46999999999999743
No 427
>KOG0743|consensus
Probab=41.75 E-value=15 Score=43.00 Aligned_cols=25 Identities=40% Similarity=0.663 Sum_probs=19.0
Q ss_pred ceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 460 HCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 460 ~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
--++-+|+||||| +++.|...|+..
T Consensus 237 GYLLYGPPGTGKS-S~IaAmAn~L~y 261 (457)
T KOG0743|consen 237 GYLLYGPPGTGKS-SFIAAMANYLNY 261 (457)
T ss_pred cceeeCCCCCCHH-HHHHHHHhhcCC
Confidence 5689999999998 456666666654
No 428
>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=41.54 E-value=31 Score=36.23 Aligned_cols=29 Identities=28% Similarity=0.264 Sum_probs=23.5
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|...++.+|+|+|||.-.+..+..-+..
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~ 46 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ 46 (218)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 57789999999999999887777665543
No 429
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=41.37 E-value=24 Score=42.78 Aligned_cols=30 Identities=20% Similarity=0.161 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 445 YAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 445 ~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
.+..+.+.++...+.+++|.++|||||++.
T Consensus 214 ~~~~~~~~~~A~~~~pvlI~GE~GtGK~~l 243 (520)
T PRK10820 214 RQVVEQARKLAMLDAPLLITGDTGTGKDLL 243 (520)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCccHHHH
Confidence 345555666666789999999999999974
No 430
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=41.29 E-value=18 Score=42.86 Aligned_cols=37 Identities=24% Similarity=0.442 Sum_probs=25.6
Q ss_pred CcEEEEccccccChhhhhHhhhhcC-CCcEEEEecCccccH
Q psy11433 82 AKIVVYSYHYLLDPKIANVVSKELA-RSSVVVFDEAHNIDN 121 (941)
Q Consensus 82 AdIVv~~y~yLl~~~~r~~~~~~l~-~~~ivI~DEAHNL~d 121 (941)
++|+|.+|+-+.-.. .+..... +...|||||+||++.
T Consensus 123 ~~i~vat~qtl~~~~---~l~~~~~~~~~liI~DE~Hh~~a 160 (442)
T COG1061 123 AKVTVATVQTLARRQ---LLDEFLGNEFGLIIFDEVHHLPA 160 (442)
T ss_pred CcEEEEEhHHHhhhh---hhhhhcccccCEEEEEccccCCc
Confidence 679999999775532 1111112 468999999999975
No 431
>PRK00300 gmk guanylate kinase; Provisional
Probab=41.02 E-value=15 Score=38.22 Aligned_cols=17 Identities=41% Similarity=0.475 Sum_probs=15.3
Q ss_pred hcCceeeeCCCCCchhH
Q psy11433 457 AKGHCLLEMPSGTGKTT 473 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTl 473 (941)
.|..+++.+|+|+|||-
T Consensus 4 ~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 4 RGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 57899999999999994
No 432
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=40.92 E-value=52 Score=34.65 Aligned_cols=29 Identities=24% Similarity=0.080 Sum_probs=24.2
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|....+.+|+|+|||.-.+..+...+..
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~ 46 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLP 46 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhcc
Confidence 67899999999999999888777766544
No 433
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=40.85 E-value=17 Score=45.60 Aligned_cols=39 Identities=21% Similarity=0.215 Sum_probs=27.3
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
-++=+++-||||||-+||--....-+..+ ..|.++...+
T Consensus 75 lNiDI~METGTGKTy~YlrtmfeLhk~YG--~~KFIivVPs 113 (985)
T COG3587 75 LNIDILMETGTGKTYTYLRTMFELHKKYG--LFKFIIVVPS 113 (985)
T ss_pred ceeeEEEecCCCceeeHHHHHHHHHHHhC--ceeEEEEecc
Confidence 35568999999999999987766555554 3455555444
No 434
>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=40.84 E-value=39 Score=40.60 Aligned_cols=29 Identities=24% Similarity=0.205 Sum_probs=23.7
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
.|...++.+|+|||||.-.+-.+..-+++
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~ 48 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIH 48 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHh
Confidence 57899999999999998777776665554
No 435
>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=40.71 E-value=25 Score=41.37 Aligned_cols=42 Identities=17% Similarity=0.171 Sum_probs=30.2
Q ss_pred HHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 453 KALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 453 ~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
..+..|...++-|+||+|||.-.+-.+...+..++ ..+.|.+
T Consensus 190 ~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g---~~vl~~S 231 (434)
T TIGR00665 190 SGLQPSDLIILAARPSMGKTAFALNIAENAAIKEG---KPVAFFS 231 (434)
T ss_pred CCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCC---CeEEEEe
Confidence 34557889999999999999888877776665432 3455554
No 436
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=40.62 E-value=11 Score=45.00 Aligned_cols=39 Identities=28% Similarity=0.286 Sum_probs=27.1
Q ss_pred cCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 81 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
.+||||++...|++...+. ...+..-.+|||||||.+.+
T Consensus 213 ~~~Iiv~TP~~Ll~~~~~~--~~~l~~l~~lViDEah~l~~ 251 (475)
T PRK01297 213 FCDILVATPGRLLDFNQRG--EVHLDMVEVMVLDEADRMLD 251 (475)
T ss_pred CCCEEEECHHHHHHHHHcC--CcccccCceEEechHHHHHh
Confidence 5799999988876533222 22344557999999998744
No 437
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=40.53 E-value=34 Score=39.26 Aligned_cols=29 Identities=28% Similarity=0.269 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHh----cCceeeeCCCCCchhHH
Q psy11433 446 AYMVELKKALDA----KGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 446 ~~M~~v~~al~~----~~~~iiEaPTGTGKTls 474 (941)
+.+.-+.+-+.+ |+-+++-+|+|||||.-
T Consensus 49 eAaGvIv~mik~gk~aGrgiLi~GppgTGKTAl 81 (450)
T COG1224 49 EAAGVIVKMIKQGKMAGRGILIVGPPGTGKTAL 81 (450)
T ss_pred HhhhHHHHHHHhCcccccEEEEECCCCCcHHHH
Confidence 344445566654 57889999999999953
No 438
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=40.41 E-value=20 Score=41.90 Aligned_cols=18 Identities=44% Similarity=0.451 Sum_probs=15.6
Q ss_pred cCceeeeCCCCCchhHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~ 475 (941)
.+.+++.+|+|||||+..
T Consensus 179 pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 468999999999999854
No 439
>PRK11823 DNA repair protein RadA; Provisional
Probab=40.13 E-value=46 Score=39.55 Aligned_cols=39 Identities=31% Similarity=0.369 Sum_probs=29.9
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
.|...++.+|+|+|||.-.+-.+..++... .+++|.+-.
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g----~~vlYvs~E 117 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLAAAG----GKVLYVSGE 117 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHhcC----CeEEEEEcc
Confidence 567999999999999998888777776432 467776643
No 440
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=40.05 E-value=75 Score=34.58 Aligned_cols=34 Identities=24% Similarity=0.086 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHh----cCceeeeCCCCCchhHHHHHHH
Q psy11433 446 AYMVELKKALDA----KGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 446 ~~M~~v~~al~~----~~~~iiEaPTGTGKTls~L~~a 479 (941)
..+++|.+.|.. .+.+.+-|+.|+|||--..-.+
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~ 40 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVA 40 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecc
Confidence 346677777776 4789999999999997554433
No 441
>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=39.93 E-value=30 Score=40.62 Aligned_cols=37 Identities=19% Similarity=0.117 Sum_probs=28.7
Q ss_pred HHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 449 VELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 449 ~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+.+...+..|...++-|+||+|||.-.+-.+...+..
T Consensus 185 D~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~ 221 (421)
T TIGR03600 185 DRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALR 221 (421)
T ss_pred HHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 3334455578899999999999999888888777643
No 442
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=39.83 E-value=29 Score=42.16 Aligned_cols=39 Identities=33% Similarity=0.308 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--ce-eeeCCCCCchhHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDAKG--HC-LLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~--~~-iiEaPTGTGKTls~L~~al~ 481 (941)
+|......+..++..|+ |+ ||.||.|+|||.+....+-.
T Consensus 18 Gqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~ 59 (535)
T PRK08451 18 GQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARA 59 (535)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHH
Confidence 57788888999998885 33 89999999999876665433
No 443
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=39.76 E-value=31 Score=43.93 Aligned_cols=18 Identities=33% Similarity=0.235 Sum_probs=15.1
Q ss_pred cCceeeeCCCCCchhHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~ 475 (941)
|.+++|-+|+|||||...
T Consensus 347 ~~~lll~GppG~GKT~lA 364 (775)
T TIGR00763 347 GPILCLVGPPGVGKTSLG 364 (775)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 468999999999999543
No 444
>PHA00729 NTP-binding motif containing protein
Probab=39.67 E-value=37 Score=36.62 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=18.0
Q ss_pred HHHHHHHHhc--CceeeeCCCCCchhH
Q psy11433 449 VELKKALDAK--GHCLLEMPSGTGKTT 473 (941)
Q Consensus 449 ~~v~~al~~~--~~~iiEaPTGTGKTl 473 (941)
..+.+.+.++ .++++-+|+|||||-
T Consensus 6 k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 6 KKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 3444455444 479999999999995
No 445
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=39.67 E-value=16 Score=43.44 Aligned_cols=42 Identities=24% Similarity=0.294 Sum_probs=30.8
Q ss_pred HHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccc
Q psy11433 76 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNI 119 (941)
Q Consensus 76 R~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL 119 (941)
......+.|+|.+=+-+.++..... +++.+-+.+||||||.-
T Consensus 102 ~~~w~~~kVfvaTPQvveNDl~~Gr--id~~dv~~lifDEAHRA 143 (542)
T COG1111 102 EELWAKKKVFVATPQVVENDLKAGR--IDLDDVSLLIFDEAHRA 143 (542)
T ss_pred HHHHhhCCEEEeccHHHHhHHhcCc--cChHHceEEEechhhhc
Confidence 3445688999999887777655443 34456789999999976
No 446
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=39.55 E-value=23 Score=43.88 Aligned_cols=32 Identities=31% Similarity=0.369 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHhc--CceeeeCCCCCchhHH
Q psy11433 443 EQYAYMVELKKALDAK--GHCLLEMPSGTGKTTS 474 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~--~~~iiEaPTGTGKTls 474 (941)
+|...|..+.+.+..+ .+++|-+|+|||||..
T Consensus 158 Gqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTL 191 (615)
T TIGR02903 158 GQERAIKALLAKVASPFPQHIILYGPPGVGKTTA 191 (615)
T ss_pred eCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 4556666666666633 5799999999999964
No 447
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=39.51 E-value=18 Score=30.89 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=18.3
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
|...+|-+|+|+|||- |.=|+.|+.
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L 47 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVL 47 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHH
Confidence 4589999999999985 444455544
No 448
>PTZ00110 helicase; Provisional
Probab=39.43 E-value=14 Score=45.07 Aligned_cols=44 Identities=23% Similarity=0.206 Sum_probs=29.0
Q ss_pred HHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 76 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 76 R~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
+.....+||||++-..|++-..+. ...+..-.+|||||||.+.+
T Consensus 248 ~~l~~~~~IlVaTPgrL~d~l~~~--~~~l~~v~~lViDEAd~mld 291 (545)
T PTZ00110 248 YALRRGVEILIACPGRLIDFLESN--VTNLRRVTYLVLDEADRMLD 291 (545)
T ss_pred HHHHcCCCEEEECHHHHHHHHHcC--CCChhhCcEEEeehHHhhhh
Confidence 344457899999987776533222 12244567999999997744
No 449
>smart00350 MCM minichromosome maintenance proteins.
Probab=39.39 E-value=24 Score=42.65 Aligned_cols=15 Identities=33% Similarity=0.306 Sum_probs=13.9
Q ss_pred ceeeeCCCCCchhHH
Q psy11433 460 HCLLEMPSGTGKTTS 474 (941)
Q Consensus 460 ~~iiEaPTGTGKTls 474 (941)
|+++++++|||||..
T Consensus 238 ~vLL~G~pGtGKs~l 252 (509)
T smart00350 238 NILLLGDPGTAKSQL 252 (509)
T ss_pred eEEEeCCCChhHHHH
Confidence 899999999999974
No 450
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=39.23 E-value=97 Score=40.71 Aligned_cols=73 Identities=21% Similarity=0.239 Sum_probs=55.7
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHhcC--ceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHH
Q psy11433 433 VFFPYEYIYPEQYAYMVELKKALDAKG--HCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510 (941)
Q Consensus 433 ~~FPy~~py~~Q~~~M~~v~~al~~~~--~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el 510 (941)
-.|||+ -+|-|...+++|++=++.++ .=++.+--|.|||=..+-+|..-...+ ..|.+.+.|-=..+|=.+-+
T Consensus 589 ~~FPye-ET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G----KQVAvLVPTTlLA~QHy~tF 663 (1139)
T COG1197 589 ASFPYE-ETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG----KQVAVLVPTTLLAQQHYETF 663 (1139)
T ss_pred hcCCCc-CCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC----CeEEEEcccHHhHHHHHHHH
Confidence 369997 89999999999999999886 459999999999999999988766654 34555555544334433333
No 451
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=38.92 E-value=63 Score=38.32 Aligned_cols=37 Identities=22% Similarity=0.240 Sum_probs=22.9
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.++++-||+|+|||.-+- ++...+....+ ..+++|.+
T Consensus 131 n~l~lyG~~G~GKTHLl~-ai~~~l~~~~~-~~~v~yi~ 167 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQ-SIGNYVVQNEP-DLRVMYIT 167 (440)
T ss_pred CeEEEEcCCCCcHHHHHH-HHHHHHHHhCC-CCeEEEEE
Confidence 368999999999996443 33333333221 24666665
No 452
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=38.40 E-value=36 Score=39.12 Aligned_cols=42 Identities=26% Similarity=0.233 Sum_probs=29.4
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP 501 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~ 501 (941)
+.+.+-++-|||||+-.||++|......+ .+.|+++.-.+.|
T Consensus 246 ~lV~L~G~AGtGKTlLALaAgleqv~e~~-~y~KiiVtRp~vp 287 (436)
T COG1875 246 DLVSLGGKAGTGKTLLALAAGLEQVLERK-RYRKIIVTRPTVP 287 (436)
T ss_pred CeEEeeccCCccHhHHHHHHHHHHHHHHh-hhceEEEecCCcC
Confidence 67888999999999999999987655432 2344554433333
No 453
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=38.38 E-value=3.2e+02 Score=30.11 Aligned_cols=67 Identities=21% Similarity=0.285 Sum_probs=41.1
Q ss_pred CHHHHHHHHHHHHHHHhc---CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec-cccchhHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAK---GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS-RTVPEIEKVVEELA 511 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~---~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct-~t~~q~~q~i~el~ 511 (941)
++-|++...+=...+.+| .|+++-+.-|||||..+=...-.|.... .+++-.+ +....+-.++++|+
T Consensus 65 vd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~g----lrLVEV~k~dl~~Lp~l~~~Lr 135 (287)
T COG2607 65 VDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEG----LRLVEVDKEDLATLPDLVELLR 135 (287)
T ss_pred chHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcC----CeEEEEcHHHHhhHHHHHHHHh
Confidence 457887777777777776 4999999999999965444444454433 3444333 22333444444444
No 454
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=38.29 E-value=21 Score=43.09 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHhcCceeeeCCCCCchhHHH
Q psy11433 443 EQYAYMVELKKALDAKGHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~ 475 (941)
+|....+.+.-++..|.++++-+|+|||||...
T Consensus 196 Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 196 GQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred CcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 577777788888888999999999999999754
No 455
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=38.28 E-value=16 Score=42.87 Aligned_cols=49 Identities=24% Similarity=0.236 Sum_probs=30.4
Q ss_pred HHHHHHHHh-hcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 71 PYFLARQAI-IHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 71 PY~~aR~~~-~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
++...+..+ ...||||++..-|++-.... ...+.+-.+|||||||.+.+
T Consensus 122 ~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~--~~~l~~v~~lViDEad~l~~ 171 (423)
T PRK04837 122 GYDKQLKVLESGVDILIGTTGRLIDYAKQN--HINLGAIQVVVLDEADRMFD 171 (423)
T ss_pred CHHHHHHHhcCCCCEEEECHHHHHHHHHcC--CcccccccEEEEecHHHHhh
Confidence 344433333 35799999987776532222 22344567999999998744
No 456
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=38.15 E-value=32 Score=46.60 Aligned_cols=35 Identities=17% Similarity=0.259 Sum_probs=31.8
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
|-..|.+..+.|.+||..+=++|+-+|||+|||-.
T Consensus 1832 ~l~sql~vlEsV~~cIn~nwPlIlvG~t~~GKt~~ 1866 (4600)
T COG5271 1832 LLHSQLQVLESVMRCINMNWPLILVGDTGVGKTSL 1866 (4600)
T ss_pred hhhhhhHHHHHHHHHHhcCCCEEEEcCCCCchHHH
Confidence 34589999999999999999999999999999953
No 457
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=38.14 E-value=35 Score=36.90 Aligned_cols=55 Identities=25% Similarity=0.337 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccc
Q psy11433 442 PEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVP 501 (941)
Q Consensus 442 ~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~ 501 (941)
|-=......+..|+..+..+.+.+|+|||||-..=. |+.+.. ...-+|.|+....
T Consensus 16 plt~r~~~~l~~al~~~~~~~~~GpagtGKtetik~--La~~lG---~~~~vfnc~~~~~ 70 (231)
T PF12774_consen 16 PLTDRCFLTLTQALSLNLGGALSGPAGTGKTETIKD--LARALG---RFVVVFNCSEQMD 70 (231)
T ss_dssp HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHHHHH--HHHCTT-----EEEEETTSSS-
T ss_pred hHHHHHHHHHHHHhccCCCCCCcCCCCCCchhHHHH--HHHHhC---CeEEEeccccccc
Confidence 333445556777788888899999999999976332 222222 1255677775433
No 458
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=38.12 E-value=35 Score=40.98 Aligned_cols=30 Identities=33% Similarity=0.401 Sum_probs=23.4
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
.|++.+|=+|||.|||-.+..-+-.+...+
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~ 284 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRH 284 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhc
Confidence 567899999999999988777665554443
No 459
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=38.07 E-value=60 Score=38.63 Aligned_cols=35 Identities=29% Similarity=0.380 Sum_probs=23.1
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
.+++|-||+|+|||-- +.++..++...+ .+++|.+
T Consensus 142 npl~L~G~~G~GKTHL-l~Ai~~~l~~~~---~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPEGSGKTHL-MQAAVHALRESG---GKILYVR 176 (445)
T ss_pred ceEEEEcCCCCCHHHH-HHHHHHHHHHcC---CCEEEee
Confidence 4689999999999963 334444444332 5677765
No 460
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=38.05 E-value=49 Score=39.89 Aligned_cols=50 Identities=16% Similarity=0.105 Sum_probs=32.4
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELA 511 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~ 511 (941)
.|...++.+|+|+|||.-.+..+...+... .+++|.+-..+ .+++++.+.
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~~~g----~~~~yis~e~~-~~~i~~~~~ 321 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAACRRG----ERCLLFAFEES-RAQLIRNAR 321 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCC----CcEEEEEecCC-HHHHHHHHH
Confidence 567889999999999987777666555433 35555553333 334555444
No 461
>CHL00195 ycf46 Ycf46; Provisional
Probab=37.91 E-value=25 Score=42.23 Aligned_cols=20 Identities=30% Similarity=0.237 Sum_probs=15.9
Q ss_pred cCceeeeCCCCCchhHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~ 477 (941)
.+.+++-+|+|||||+..=+
T Consensus 259 pkGILL~GPpGTGKTllAka 278 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKA 278 (489)
T ss_pred CceEEEECCCCCcHHHHHHH
Confidence 35789999999999975433
No 462
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=37.77 E-value=14 Score=43.87 Aligned_cols=41 Identities=24% Similarity=0.214 Sum_probs=28.4
Q ss_pred hhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 79 IIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 79 ~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
-..+||||++...|++...+.. ..+.+-..|||||||.+.+
T Consensus 121 ~~~~~IvV~Tp~rl~~~l~~~~--~~l~~l~~lViDEad~~l~ 161 (460)
T PRK11776 121 EHGAHIIVGTPGRILDHLRKGT--LDLDALNTLVLDEADRMLD 161 (460)
T ss_pred cCCCCEEEEChHHHHHHHHcCC--ccHHHCCEEEEECHHHHhC
Confidence 3567999999988876543332 2233457899999997743
No 463
>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=37.73 E-value=21 Score=44.76 Aligned_cols=41 Identities=22% Similarity=0.319 Sum_probs=25.4
Q ss_pred cCcEEEEccccccChhhhh----HhhhhcC--CCcEEEEecCccccH
Q psy11433 81 HAKIVVYSYHYLLDPKIAN----VVSKELA--RSSVVVFDEAHNIDN 121 (941)
Q Consensus 81 ~AdIVv~~y~yLl~~~~r~----~~~~~l~--~~~ivI~DEAHNL~d 121 (941)
.++|+|++|+.+-....+. .....+. .-.+||+||||+++.
T Consensus 343 ~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA 389 (732)
T TIGR00603 343 EAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA 389 (732)
T ss_pred CCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH
Confidence 3789999999775422121 1111121 246899999999954
No 464
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=37.63 E-value=35 Score=43.31 Aligned_cols=64 Identities=19% Similarity=0.125 Sum_probs=41.1
Q ss_pred CHHHHHHhchhCC--------CCHHHHHHHHhhcCcEEEEccccc-----cChhhhhHhhhhcCCCcEEEEecCccc
Q psy11433 56 SITKLKEMGRELG--------LCPYFLARQAIIHAKIVVYSYHYL-----LDPKIANVVSKELARSSVVVFDEAHNI 119 (941)
Q Consensus 56 diEdL~~~g~~~~--------~CPY~~aR~~~~~AdIVv~~y~yL-----l~~~~r~~~~~~l~~~~ivI~DEAHNL 119 (941)
|.+.+..+....+ .-++-..|+.+..+||+++++.=| .|..........+..-.++|+||||.+
T Consensus 135 d~e~~~~l~~~lGl~v~~i~g~~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsi 211 (790)
T PRK09200 135 DAEEMGQVYEFLGLTVGLNFSDIDDASEKKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSI 211 (790)
T ss_pred HHHHHHHHHhhcCCeEEEEeCCCCcHHHHHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccc
Confidence 5566666666544 245466677888999999996544 443322211223345679999999987
No 465
>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=37.54 E-value=33 Score=44.17 Aligned_cols=33 Identities=30% Similarity=0.378 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHh---c--------CceeeeCCCCCchhHHH
Q psy11433 443 EQYAYMVELKKALDA---K--------GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~---~--------~~~iiEaPTGTGKTls~ 475 (941)
+|-+.+..|.+++.. | +.++|-+|||+|||...
T Consensus 570 GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 570 GQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETA 613 (852)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHH
Confidence 788999999888863 1 24799999999999744
No 466
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=37.32 E-value=45 Score=38.87 Aligned_cols=28 Identities=29% Similarity=0.265 Sum_probs=21.6
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHHHHh
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVAYMN 484 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~~~~ 484 (941)
.+++.++-+|||+|||-.+.-.+..+..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~ 232 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLK 232 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 5688999999999999877666654433
No 467
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=37.21 E-value=9.6 Score=47.27 Aligned_cols=25 Identities=24% Similarity=0.343 Sum_probs=22.3
Q ss_pred hcCceeeeCCCCCchhHHHHHHHHH
Q psy11433 457 AKGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 457 ~~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
...|+++-||||+|||.+++.|.|-
T Consensus 174 g~~HvlviapTgSGKgvg~ViPnLL 198 (636)
T PRK13880 174 GPEHVLTYAPTRSGKGVGLVVPTLL 198 (636)
T ss_pred CCceEEEEecCCCCCceEEEccchh
Confidence 3479999999999999999999874
No 468
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=37.10 E-value=24 Score=35.89 Aligned_cols=27 Identities=30% Similarity=0.438 Sum_probs=20.3
Q ss_pred cCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
.+.-+|-||+|||||.-+ -++.|+...
T Consensus 19 ~g~~vi~G~Ng~GKStil--~ai~~~L~~ 45 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTIL--EAIRYALGG 45 (202)
T ss_dssp SEEEEEEESTTSSHHHHH--HHHHHHHHS
T ss_pred CCcEEEECCCCCCHHHHH--HHHHHHHcC
Confidence 367889999999999643 666776644
No 469
>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=37.02 E-value=16 Score=36.59 Aligned_cols=31 Identities=23% Similarity=0.202 Sum_probs=0.0
Q ss_pred EEEEccccccChhhhhHhhhhcCCCcEEEEecCc
Q psy11433 84 IVVYSYHYLLDPKIANVVSKELARSSVVVFDEAH 117 (941)
Q Consensus 84 IVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAH 117 (941)
|-++.|..+..-... +..+.+.+++|+||+|
T Consensus 75 i~vMc~at~~~~~~~---p~~~~~yd~II~DEcH 105 (148)
T PF07652_consen 75 IDVMCHATYGHFLLN---PCRLKNYDVIIMDECH 105 (148)
T ss_dssp EEEEEHHHHHHHHHT---SSCTTS-SEEEECTTT
T ss_pred ccccccHHHHHHhcC---cccccCccEEEEeccc
No 470
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=36.99 E-value=78 Score=36.58 Aligned_cols=105 Identities=17% Similarity=0.105 Sum_probs=59.4
Q ss_pred CCCchhhHHHHhhhhhhhhhhhhhhcC-------CCCCCCcCccCcccccccCCCCCCCCCHHHHHHhchhCCCCHHHHH
Q psy11433 3 KERDGKIVDGRCHSLTSSSVRDRHKAG-------ENIPVCDFYEKFDAVGREAPLAPGVYSITKLKEMGRELGLCPYFLA 75 (941)
Q Consensus 3 ~~~~~~~i~~~C~~L~~~~~~~~~~~~-------~~~~~C~fy~~~~~~~~~~~l~~~i~diEdL~~~g~~~~~CPY~~a 75 (941)
+.++|+.+=+-|-.|-+-..+.+.++- +-...-.|.++.++.....++. . |-|=.++-...+.|--...
T Consensus 253 ~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~PWmq-~---i~DnLE~L~~~~~~~~~~l 328 (436)
T COG1875 253 KAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMGPWMQ-A---IFDNLEVLFSPNEPGDRAL 328 (436)
T ss_pred cCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhccchHH-H---HHhHHHHHhcccccchHHH
Confidence 347888888888888654443333221 1123455666655543333432 2 2333333334444654445
Q ss_pred HHHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCcccc
Q psy11433 76 RQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNID 120 (941)
Q Consensus 76 R~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~ 120 (941)
...+...-|=|-+.+|+ |. ..++ ++++|||||+||.
T Consensus 329 ~~~l~~~~iev~alt~I-----RG---RSl~-~~FiIIDEaQNLT 364 (436)
T COG1875 329 EEILSRGRIEVEALTYI-----RG---RSLP-DSFIIIDEAQNLT 364 (436)
T ss_pred HHHHhccceeeeeeeee-----cc---cccc-cceEEEehhhccC
Confidence 55555667777777765 32 2354 6899999999993
No 471
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=36.98 E-value=30 Score=42.91 Aligned_cols=30 Identities=20% Similarity=0.062 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhcCceeeeCCCCCchhHH
Q psy11433 445 YAYMVELKKALDAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 445 ~~~M~~v~~al~~~~~~iiEaPTGTGKTls 474 (941)
.++.+.+.++...+.+++|.++|||||++.
T Consensus 335 ~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~ 364 (638)
T PRK11388 335 RRLIHFGRQAAKSSFPVLLCGEEGVGKALL 364 (638)
T ss_pred HHHHHHHHHHhCcCCCEEEECCCCcCHHHH
Confidence 345556666666789999999999999974
No 472
>PF14516 AAA_35: AAA-like domain
Probab=36.87 E-value=63 Score=36.75 Aligned_cols=48 Identities=19% Similarity=0.232 Sum_probs=33.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh-cCceeeeCCCCCchhHHHHHHHHHHHhcC
Q psy11433 435 FPYEYIYPEQYAYMVELKKALDA-KGHCLLEMPSGTGKTTSLLSLIVAYMNAH 486 (941)
Q Consensus 435 FPy~~py~~Q~~~M~~v~~al~~-~~~~iiEaPTGTGKTls~L~~al~~~~~~ 486 (941)
-||.-.|+ ...+.++++|.+ |..+.+-||-.+|||. +|..++..++..
T Consensus 10 ~~~Yi~R~---~~e~~~~~~i~~~G~~~~I~apRq~GKTS-ll~~l~~~l~~~ 58 (331)
T PF14516_consen 10 SPFYIERP---PAEQECYQEIVQPGSYIRIKAPRQMGKTS-LLLRLLERLQQQ 58 (331)
T ss_pred CCcccCch---HHHHHHHHHHhcCCCEEEEECcccCCHHH-HHHHHHHHHHHC
Confidence 44444555 234567777776 9999999999999995 455556666554
No 473
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=36.86 E-value=16 Score=44.24 Aligned_cols=43 Identities=23% Similarity=0.216 Sum_probs=28.6
Q ss_pred HHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 77 QAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 77 ~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
.....+||||++..-|++-..+. ...+.+-.+|||||||.+.+
T Consensus 242 ~l~~~~~IiV~TPgrL~~~l~~~--~~~l~~v~~lViDEad~ml~ 284 (518)
T PLN00206 242 RIQQGVELIVGTPGRLIDLLSKH--DIELDNVSVLVLDEVDCMLE 284 (518)
T ss_pred HhcCCCCEEEECHHHHHHHHHcC--CccchheeEEEeecHHHHhh
Confidence 33456899999977665533222 23344567999999998754
No 474
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=36.57 E-value=26 Score=36.42 Aligned_cols=26 Identities=42% Similarity=0.670 Sum_probs=20.5
Q ss_pred HHHHHHHHHh--cCceeeeCCCCCchhH
Q psy11433 448 MVELKKALDA--KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 448 M~~v~~al~~--~~~~iiEaPTGTGKTl 473 (941)
++.+.+.+.. +.++++-||.|+|||-
T Consensus 8 l~~l~~~l~~~~~~~~~l~G~rg~GKTs 35 (234)
T PF01637_consen 8 LEKLKELLESGPSQHILLYGPRGSGKTS 35 (234)
T ss_dssp HHHHHHCHHH--SSEEEEEESTTSSHHH
T ss_pred HHHHHHHHHhhcCcEEEEEcCCcCCHHH
Confidence 4555666665 4899999999999996
No 475
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.51 E-value=50 Score=43.77 Aligned_cols=44 Identities=32% Similarity=0.477 Sum_probs=33.1
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcC-CCCCceEEEeccccch
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAH-PLDVTKLLYCSRTVPE 502 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~-~~~~~ki~~ct~t~~q 502 (941)
+..+|||.-|||||-++-.-.+..+..+ .....+|.+.|=|...
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aA 54 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAA 54 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHH
Confidence 6899999999999998877777777655 2344567777766554
No 476
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=36.29 E-value=18 Score=37.17 Aligned_cols=16 Identities=38% Similarity=0.393 Sum_probs=14.4
Q ss_pred cCceeeeCCCCCchhH
Q psy11433 458 KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTl 473 (941)
|..++||+|.|+|||-
T Consensus 3 g~~IvieG~~GsGKsT 18 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTT 18 (195)
T ss_pred ceEEEEECCCCCCHHH
Confidence 6789999999999994
No 477
>PRK06620 hypothetical protein; Validated
Probab=36.20 E-value=19 Score=38.22 Aligned_cols=17 Identities=35% Similarity=0.319 Sum_probs=14.1
Q ss_pred CceeeeCCCCCchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~ 475 (941)
..+++-+|+|+|||--+
T Consensus 45 ~~l~l~Gp~G~GKThLl 61 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLT 61 (214)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 34899999999999643
No 478
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=36.07 E-value=33 Score=41.73 Aligned_cols=28 Identities=21% Similarity=0.442 Sum_probs=20.6
Q ss_pred HHHHHHHHH----HhcCceeeeCCCCCchhHH
Q psy11433 447 YMVELKKAL----DAKGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 447 ~M~~v~~al----~~~~~~iiEaPTGTGKTls 474 (941)
.|..+.+.+ ..+.+++|.++|||||++.
T Consensus 227 ~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~ 258 (538)
T PRK15424 227 QMEQVRQTILLYARSSAAVLIQGETGTGKELA 258 (538)
T ss_pred HHHHHHHHHHHHhCCCCcEEEECCCCCCHHHH
Confidence 344444444 3678999999999999974
No 479
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=35.94 E-value=15 Score=45.43 Aligned_cols=23 Identities=30% Similarity=0.206 Sum_probs=21.2
Q ss_pred CceeeeCCCCCchhHHHHHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~ 481 (941)
.|+++-||||+|||.++..|.+-
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL 234 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTAL 234 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhh
Confidence 79999999999999999999853
No 480
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=35.84 E-value=14 Score=45.81 Aligned_cols=24 Identities=33% Similarity=0.198 Sum_probs=21.8
Q ss_pred cCceeeeCCCCCchhHHHHHHHHH
Q psy11433 458 KGHCLLEMPSGTGKTTSLLSLIVA 481 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls~L~~al~ 481 (941)
..|+++-||||+|||.+++.|.|-
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL 247 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL 247 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh
Confidence 479999999999999999999863
No 481
>KOG0349|consensus
Probab=35.83 E-value=9.4 Score=44.12 Aligned_cols=39 Identities=21% Similarity=0.221 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~ 482 (941)
|++.|.+.+ ..|-.|+.++.-|.||+|||-++-.|.|.-
T Consensus 25 ptdvqaeai----plilgggdvlmaaetgsgktgaf~lpilqi 63 (725)
T KOG0349|consen 25 PTDVQAEAI----PLILGGGDVLMAAETGSGKTGAFCLPILQI 63 (725)
T ss_pred ccccccccc----cEEecCCcEEEEeccCCCCccceehhhHHH
Confidence 667774433 345588999999999999999999998753
No 482
>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=35.57 E-value=79 Score=36.88 Aligned_cols=37 Identities=24% Similarity=0.199 Sum_probs=22.2
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEec
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct 497 (941)
..+++-||+|||||.-+- ++...+.... ...+++|.+
T Consensus 137 n~l~l~G~~G~GKThL~~-ai~~~l~~~~-~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLH-AIGNEILENN-PNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHHhC-CCCcEEEEE
Confidence 367899999999997553 3333333321 124555554
No 483
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=35.52 E-value=39 Score=40.93 Aligned_cols=32 Identities=41% Similarity=0.501 Sum_probs=22.5
Q ss_pred HHHHHHHHHh-------cCceeeeCCCCCchhHHHHHHH
Q psy11433 448 MVELKKALDA-------KGHCLLEMPSGTGKTTSLLSLI 479 (941)
Q Consensus 448 M~~v~~al~~-------~~~~iiEaPTGTGKTls~L~~a 479 (941)
.++|...|++ ++++++-+|+|+|||-++-+.+
T Consensus 28 v~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La 66 (519)
T PF03215_consen 28 VEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLA 66 (519)
T ss_pred HHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHH
Confidence 3455555553 3579999999999998765543
No 484
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=35.47 E-value=81 Score=37.41 Aligned_cols=19 Identities=26% Similarity=0.216 Sum_probs=15.3
Q ss_pred CceeeeCCCCCchhHHHHH
Q psy11433 459 GHCLLEMPSGTGKTTSLLS 477 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~ 477 (941)
..+++-||+|+|||.-+-.
T Consensus 149 ~~l~l~G~~G~GKThL~~a 167 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHA 167 (450)
T ss_pred CeEEEECCCCCCHHHHHHH
Confidence 4689999999999975433
No 485
>KOG0652|consensus
Probab=35.43 E-value=20 Score=39.09 Aligned_cols=17 Identities=41% Similarity=0.464 Sum_probs=14.5
Q ss_pred CceeeeCCCCCchhHHH
Q psy11433 459 GHCLLEMPSGTGKTTSL 475 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~ 475 (941)
+-+++-+|+||||||-.
T Consensus 206 KGvLmYGPPGTGKTlmA 222 (424)
T KOG0652|consen 206 KGVLMYGPPGTGKTLMA 222 (424)
T ss_pred CceEeeCCCCCcHHHHH
Confidence 56889999999999854
No 486
>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=35.39 E-value=36 Score=38.98 Aligned_cols=16 Identities=25% Similarity=0.540 Sum_probs=13.8
Q ss_pred CCCcEEEEecCccccH
Q psy11433 106 ARSSVVVFDEAHNIDN 121 (941)
Q Consensus 106 ~~~~ivI~DEAHNL~d 121 (941)
+...+|||||||.|-+
T Consensus 82 ~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRT 97 (352)
T ss_pred CcCCEEEEehhHhhhh
Confidence 4578999999999966
No 487
>PRK00698 tmk thymidylate kinase; Validated
Probab=35.37 E-value=19 Score=37.18 Aligned_cols=16 Identities=31% Similarity=0.308 Sum_probs=14.4
Q ss_pred cCceeeeCCCCCchhH
Q psy11433 458 KGHCLLEMPSGTGKTT 473 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTl 473 (941)
|..++||+|.|+|||-
T Consensus 3 ~~~I~ieG~~gsGKsT 18 (205)
T PRK00698 3 GMFITIEGIDGAGKST 18 (205)
T ss_pred ceEEEEECCCCCCHHH
Confidence 6789999999999995
No 488
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=35.21 E-value=60 Score=36.64 Aligned_cols=46 Identities=22% Similarity=0.283 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHHHh--cCceeeeCCCCCchhHHHHHHHHHHHhcCC
Q psy11433 441 YPEQYAYMVELKKALDA--KGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~--~~~~iiEaPTGTGKTls~L~~al~~~~~~~ 487 (941)
|+.=.+++..+.++-.. ....++-++.|+|||.+++- ++.|+..++
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q-~~~~A~~~~ 51 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLAQ-AVHYARENG 51 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHHH-HHHHHHhCC
Confidence 44445666666666332 25789999999999986554 457777653
No 489
>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=35.08 E-value=51 Score=36.83 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=30.8
Q ss_pred eeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHH
Q psy11433 462 LLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEE 509 (941)
Q Consensus 462 iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~e 509 (941)
+|.+|.|.|||......++.|+...+. .+.+++.++.+++...+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~--~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPP--GRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS----EEEEEESSHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCC--CcEEEEecCHHHHHHHHHH
Confidence 578999999999998888888877652 2344444888887775443
No 490
>KOG0332|consensus
Probab=35.00 E-value=24 Score=40.41 Aligned_cols=27 Identities=22% Similarity=0.418 Sum_probs=23.2
Q ss_pred CceeeeCCCCCchhHHHHHHHHHHHhc
Q psy11433 459 GHCLLEMPSGTGKTTSLLSLIVAYMNA 485 (941)
Q Consensus 459 ~~~iiEaPTGTGKTls~L~~al~~~~~ 485 (941)
+++|.+|-.|||||.|+...-|+....
T Consensus 130 ~nlIaQsqsGtGKTaaFvL~MLsrvd~ 156 (477)
T KOG0332|consen 130 QNLIAQSQSGTGKTAAFVLTMLSRVDP 156 (477)
T ss_pred hhhhhhhcCCCchhHHHHHHHHHhcCc
Confidence 689999999999999998888876543
No 491
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=34.64 E-value=22 Score=34.96 Aligned_cols=13 Identities=54% Similarity=0.810 Sum_probs=11.4
Q ss_pred eeeeCCCCCchhH
Q psy11433 461 CLLEMPSGTGKTT 473 (941)
Q Consensus 461 ~iiEaPTGTGKTl 473 (941)
+++.+|||+|||-
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 5788999999995
No 492
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=34.62 E-value=38 Score=38.53 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=28.7
Q ss_pred CHHHHHHHHHHHHHHHhcCc-eeeeCCCCCchhHHHHHHHHHH
Q psy11433 441 YPEQYAYMVELKKALDAKGH-CLLEMPSGTGKTTSLLSLIVAY 482 (941)
Q Consensus 441 y~~Q~~~M~~v~~al~~~~~-~iiEaPTGTGKTls~L~~al~~ 482 (941)
||.|...-..+......-.| .+|.+|.|+|||......+-..
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~l 45 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQAL 45 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHH
Confidence 56666666666665434455 5699999999998766665443
No 493
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=34.32 E-value=18 Score=44.81 Aligned_cols=43 Identities=28% Similarity=0.242 Sum_probs=29.5
Q ss_pred HHhhcCcEEEEccccccChhhhhHhhhhcCCCcEEEEecCccccH
Q psy11433 77 QAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121 (941)
Q Consensus 77 ~~~~~AdIVv~~y~yLl~~~~r~~~~~~l~~~~ivI~DEAHNL~d 121 (941)
..-..++|||++-.-|++...+..+ .+..-..||+||||.+.+
T Consensus 121 ~l~~~~~IVVgTPgrl~d~l~r~~l--~l~~l~~lVlDEAd~ml~ 163 (629)
T PRK11634 121 ALRQGPQIVVGTPGRLLDHLKRGTL--DLSKLSGLVLDEADEMLR 163 (629)
T ss_pred HhcCCCCEEEECHHHHHHHHHcCCc--chhhceEEEeccHHHHhh
Confidence 3344689999998877765444322 234557899999998743
No 494
>KOG0734|consensus
Probab=34.25 E-value=22 Score=42.66 Aligned_cols=15 Identities=53% Similarity=0.627 Sum_probs=13.7
Q ss_pred CceeeeCCCCCchhH
Q psy11433 459 GHCLLEMPSGTGKTT 473 (941)
Q Consensus 459 ~~~iiEaPTGTGKTl 473 (941)
+-+++-+|+||||||
T Consensus 338 KGVLLvGPPGTGKTl 352 (752)
T KOG0734|consen 338 KGVLLVGPPGTGKTL 352 (752)
T ss_pred CceEEeCCCCCchhH
Confidence 578999999999998
No 495
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=34.20 E-value=67 Score=38.04 Aligned_cols=53 Identities=13% Similarity=0.026 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhcCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccc
Q psy11433 445 YAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRT 499 (941)
Q Consensus 445 ~~~M~~v~~al~~~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t 499 (941)
.++++.+......+.++++.+++|||||+. .-++.............+-|...
T Consensus 148 ~~l~~~~~~~~~~~~~vli~Ge~GtGK~~l--A~~ih~~s~~~~~~~i~i~c~~~ 200 (469)
T PRK10923 148 QDVFRIIGRLSRSSISVLINGESGTGKELV--AHALHRHSPRAKAPFIALNMAAI 200 (469)
T ss_pred HHHHHHHHHHhccCCeEEEEeCCCCcHHHH--HHHHHhcCCCCCCCeEeeeCCCC
Confidence 345555555666788999999999999953 33333322111122445666554
No 496
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=34.00 E-value=28 Score=42.10 Aligned_cols=17 Identities=41% Similarity=0.432 Sum_probs=14.7
Q ss_pred cCceeeeCCCCCchhHH
Q psy11433 458 KGHCLLEMPSGTGKTTS 474 (941)
Q Consensus 458 ~~~~iiEaPTGTGKTls 474 (941)
.+.++|-+|+|||||+.
T Consensus 216 p~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLI 232 (512)
T ss_pred CcceEEECCCCCcHHHH
Confidence 35799999999999984
No 497
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=33.68 E-value=35 Score=43.20 Aligned_cols=41 Identities=22% Similarity=0.132 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHh--cCceeeeCCCCCchhHHHHHHHHHHH
Q psy11433 443 EQYAYMVELKKALDA--KGHCLLEMPSGTGKTTSLLSLIVAYM 483 (941)
Q Consensus 443 ~Q~~~M~~v~~al~~--~~~~iiEaPTGTGKTls~L~~al~~~ 483 (941)
+|...++.+...|.. +.+.++-+|+|||||...-..+-...
T Consensus 186 gr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~ 228 (731)
T TIGR02639 186 GREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIA 228 (731)
T ss_pred CcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence 466666677777764 46899999999999987554444443
No 498
>KOG0390|consensus
Probab=33.65 E-value=73 Score=40.25 Aligned_cols=50 Identities=26% Similarity=0.378 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHHHHHh-----cCc-eeeeCCCCCchhHHHHHHHHHHHhcCCC
Q psy11433 439 YIYPEQYAYMVELKKALDA-----KGH-CLLEMPSGTGKTTSLLSLIVAYMNAHPL 488 (941)
Q Consensus 439 ~py~~Q~~~M~~v~~al~~-----~~~-~iiEaPTGTGKTls~L~~al~~~~~~~~ 488 (941)
..||+|.+--+-+++++.. +.+ ||+-=-.|+|||+-.|+..=+|++..+.
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~ 293 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQ 293 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcC
Confidence 5899999999999999983 333 4444456999999999988899998763
No 499
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=33.45 E-value=1.1e+02 Score=40.05 Aligned_cols=73 Identities=16% Similarity=0.140 Sum_probs=48.6
Q ss_pred CCHHHHHHHHHHHHHHH-h-----cCceeeeCCCCCchhHHHHHHHHHHHhcCCCCCceEEEeccccchhHHHHHHHHHH
Q psy11433 440 IYPEQYAYMVELKKALD-A-----KGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARL 513 (941)
Q Consensus 440 py~~Q~~~M~~v~~al~-~-----~~~~iiEaPTGTGKTls~L~~al~~~~~~~~~~~ki~~ct~t~~q~~q~i~el~~~ 513 (941)
++-.|...+....+.+. . ++.++|-==||+|||++-+..|-...+. ....+|++-|...-.-.|..+++...
T Consensus 249 ~~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~--~~~~~v~fvvDR~dLd~Q~~~~f~~~ 326 (962)
T COG0610 249 QRYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLEL--PKNPKVLFVVDRKDLDDQTSDEFQSF 326 (962)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHHhc--cCCCeEEEEechHHHHHHHHHHHHHH
Confidence 34456666663333333 2 3459999999999999988776544444 35678888887777777777776654
Q ss_pred H
Q psy11433 514 F 514 (941)
Q Consensus 514 ~ 514 (941)
-
T Consensus 327 ~ 327 (962)
T COG0610 327 G 327 (962)
T ss_pred H
Confidence 3
No 500
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=33.42 E-value=21 Score=34.47 Aligned_cols=13 Identities=46% Similarity=0.746 Sum_probs=11.6
Q ss_pred eeeeCCCCCchhH
Q psy11433 461 CLLEMPSGTGKTT 473 (941)
Q Consensus 461 ~iiEaPTGTGKTl 473 (941)
+++-+|+|+|||-
T Consensus 2 ii~~G~pgsGKSt 14 (143)
T PF13671_consen 2 IILCGPPGSGKST 14 (143)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6889999999995
Done!