Query 000814
Match_columns 1269
No_of_seqs 217 out of 1740
Neff 5.7
Searched_HMMs 46136
Date Tue Apr 2 00:00:38 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000814.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000814hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1132 Helicase of the DEAD s 100.0 8E-131 2E-135 1176.4 41.9 830 9-1258 1-926 (945)
2 KOG1133 Helicase of the DEAD s 100.0 3.6E-95 8E-100 850.0 42.3 646 23-740 8-817 (821)
3 TIGR00604 rad3 DNA repair heli 100.0 4.8E-94 1E-98 899.6 50.2 598 23-730 2-702 (705)
4 KOG1131 RNA polymerase II tran 100.0 1.5E-72 3.2E-77 640.5 46.2 624 16-747 1-729 (755)
5 COG1199 DinG Rad3-related DNA 100.0 1.8E-56 4E-61 557.7 40.9 580 23-728 7-643 (654)
6 PRK11747 dinG ATP-dependent DN 100.0 1.6E-54 3.4E-59 540.8 45.2 587 23-717 17-689 (697)
7 PRK08074 bifunctional ATP-depe 100.0 5.3E-53 1.1E-57 541.5 42.8 589 24-737 250-928 (928)
8 TIGR01407 dinG_rel DnaQ family 100.0 1E-52 2.3E-57 536.2 44.0 554 29-737 244-850 (850)
9 TIGR03117 cas_csf4 CRISPR-asso 100.0 5.4E-47 1.2E-51 462.0 47.6 535 34-718 1-631 (636)
10 PRK07246 bifunctional ATP-depe 100.0 2.6E-46 5.6E-51 473.0 45.3 531 26-738 240-820 (820)
11 smart00488 DEXDc2 DEAD-like he 100.0 5.9E-46 1.3E-50 420.6 21.1 261 24-323 2-276 (289)
12 smart00489 DEXDc3 DEAD-like he 100.0 5.9E-46 1.3E-50 420.6 21.1 261 24-323 2-276 (289)
13 PF06733 DEAD_2: DEAD_2; Inte 100.0 8.7E-33 1.9E-37 291.0 2.2 162 148-312 1-174 (174)
14 smart00491 HELICc2 helicase su 99.9 1.2E-25 2.5E-30 230.1 12.9 130 540-705 1-142 (142)
15 PF13307 Helicase_C_2: Helicas 99.9 3.2E-25 6.9E-30 232.6 7.5 139 538-718 17-166 (167)
16 smart00492 HELICc3 helicase su 99.9 4.8E-23 1E-27 210.6 12.2 128 540-704 1-140 (141)
17 KOG1132 Helicase of the DEAD s 99.0 3.4E-11 7.4E-16 148.1 0.1 147 883-1039 578-727 (945)
18 PF04851 ResIII: Type III rest 98.8 2.9E-08 6.3E-13 103.5 11.5 44 29-74 2-45 (184)
19 PF00270 DEAD: DEAD/DEAH box h 98.8 9.8E-08 2.1E-12 98.7 13.8 67 33-167 2-68 (169)
20 cd00268 DEADc DEAD-box helicas 98.7 1.6E-07 3.4E-12 100.8 13.1 75 27-166 17-92 (203)
21 smart00487 DEXDc DEAD-like hel 98.5 4.6E-07 1E-11 94.2 9.8 73 27-166 5-77 (201)
22 PRK11192 ATP-dependent RNA hel 98.5 8.4E-07 1.8E-11 106.8 13.3 76 28-166 20-96 (434)
23 PRK04837 ATP-dependent RNA hel 98.5 7.1E-07 1.5E-11 107.2 12.5 80 27-166 26-106 (423)
24 PRK04537 ATP-dependent RNA hel 98.5 8.5E-07 1.8E-11 110.6 13.4 81 27-167 27-108 (572)
25 PRK10917 ATP-dependent DNA hel 98.5 1.2E-06 2.6E-11 111.4 14.2 91 23-177 254-346 (681)
26 PLN00206 DEAD-box ATP-dependen 98.4 2E-06 4.3E-11 106.2 13.4 80 28-167 140-220 (518)
27 PRK10590 ATP-dependent RNA hel 98.4 1.6E-06 3.6E-11 105.3 11.6 76 30-166 23-98 (456)
28 TIGR00643 recG ATP-dependent D 98.4 2.5E-06 5.5E-11 107.6 13.5 90 24-177 229-320 (630)
29 PTZ00110 helicase; Provisional 98.3 3.4E-06 7.3E-11 104.8 13.3 77 29-167 150-227 (545)
30 PTZ00424 helicase 45; Provisio 98.3 2.5E-06 5.4E-11 101.3 11.2 44 27-79 46-90 (401)
31 PRK11634 ATP-dependent RNA hel 98.3 3.3E-06 7.1E-11 106.4 12.7 73 27-166 24-97 (629)
32 PRK11776 ATP-dependent RNA hel 98.3 2.6E-06 5.6E-11 103.5 11.4 73 28-167 23-96 (460)
33 PRK01297 ATP-dependent RNA hel 98.2 9.5E-06 2.1E-10 99.1 13.4 79 28-166 106-185 (475)
34 TIGR00614 recQ_fam ATP-depende 98.1 1.2E-05 2.7E-10 98.1 12.4 44 25-77 5-49 (470)
35 cd00046 DEXDc DEAD-like helica 98.1 1.2E-05 2.6E-10 78.5 9.8 45 253-298 74-118 (144)
36 TIGR03817 DECH_helic helicase/ 98.1 1.2E-05 2.7E-10 103.0 12.5 70 30-167 36-105 (742)
37 TIGR01389 recQ ATP-dependent D 98.1 3.1E-05 6.7E-10 97.2 14.9 44 25-77 7-51 (591)
38 PRK01172 ski2-like helicase; P 98.1 1.6E-05 3.4E-10 101.4 11.4 41 28-77 20-60 (674)
39 PRK09694 helicase Cas3; Provis 98.0 2.3E-05 5E-10 101.4 11.2 40 29-77 285-324 (878)
40 PRK13767 ATP-dependent helicas 98.0 3.5E-05 7.5E-10 100.8 12.2 42 30-80 32-73 (876)
41 PRK02362 ski2-like helicase; P 97.9 2.9E-05 6.2E-10 99.9 10.5 68 30-166 23-90 (737)
42 PRK11057 ATP-dependent DNA hel 97.9 7.9E-05 1.7E-09 93.9 13.9 45 24-77 18-63 (607)
43 PRK10689 transcription-repair 97.8 9.8E-05 2.1E-09 98.4 13.4 79 23-165 593-671 (1147)
44 TIGR02621 cas3_GSU0051 CRISPR- 97.8 4.4E-05 9.6E-10 97.6 8.8 74 29-168 14-87 (844)
45 PRK00254 ski2-like helicase; P 97.8 0.00011 2.4E-09 94.4 12.2 68 30-165 23-90 (720)
46 PRK13766 Hef nuclease; Provisi 97.7 0.0002 4.4E-09 92.7 13.3 40 29-78 14-53 (773)
47 TIGR01587 cas3_core CRISPR-ass 97.7 0.00012 2.6E-09 85.9 9.7 51 57-166 2-52 (358)
48 TIGR00348 hsdR type I site-spe 97.7 0.00026 5.7E-09 90.1 13.3 78 31-167 239-317 (667)
49 PRK09401 reverse gyrase; Revie 97.6 0.00043 9.3E-09 92.7 14.3 71 28-168 78-148 (1176)
50 PRK05580 primosome assembly pr 97.5 0.00031 6.8E-09 89.6 11.0 82 27-176 141-222 (679)
51 PRK14701 reverse gyrase; Provi 97.5 0.00066 1.4E-08 93.1 14.0 72 26-167 75-146 (1638)
52 TIGR00580 mfd transcription-re 97.5 0.00037 8E-09 91.2 11.0 89 23-175 444-534 (926)
53 TIGR01054 rgy reverse gyrase. 97.4 0.00056 1.2E-08 91.7 11.7 68 29-166 77-144 (1171)
54 KOG0354 DEAD-box like helicase 97.4 0.00063 1.4E-08 85.4 10.5 47 25-81 55-103 (746)
55 COG1204 Superfamily II helicas 97.4 0.00036 7.9E-09 89.6 8.6 135 30-303 31-166 (766)
56 TIGR00603 rad25 DNA repair hel 97.2 0.0015 3.2E-08 83.2 10.4 42 28-75 253-294 (732)
57 KOG0350 DEAD-box ATP-dependent 97.1 0.0015 3.3E-08 77.9 9.4 61 623-704 482-542 (620)
58 KOG0331 ATP-dependent RNA heli 97.1 0.0011 2.5E-08 80.8 8.4 80 30-170 113-192 (519)
59 TIGR03714 secA2 accessory Sec 97.0 0.0029 6.2E-08 80.8 11.5 21 57-77 86-106 (762)
60 PRK09751 putative ATP-dependen 97.0 0.0019 4.2E-08 87.5 9.5 23 143-165 37-59 (1490)
61 COG1111 MPH1 ERCC4-like helica 96.9 0.0051 1.1E-07 74.0 11.1 40 254-295 103-143 (542)
62 TIGR00595 priA primosomal prot 96.8 0.0025 5.3E-08 78.9 7.5 63 623-699 313-377 (505)
63 PRK09200 preprotein translocas 96.7 0.01 2.2E-07 76.5 12.5 39 29-78 77-115 (790)
64 PRK12899 secA preprotein trans 96.5 0.014 3.1E-07 75.4 12.1 45 26-79 88-132 (970)
65 PLN03137 ATP-dependent DNA hel 96.5 0.0073 1.6E-07 79.5 9.3 42 27-77 456-498 (1195)
66 PRK13104 secA preprotein trans 96.5 0.012 2.7E-07 75.9 11.2 40 29-79 81-120 (896)
67 PRK11448 hsdR type I restricti 96.4 0.0091 2E-07 80.0 10.0 75 29-166 412-486 (1123)
68 COG0513 SrmB Superfamily II DN 96.2 0.014 3.1E-07 72.4 9.6 43 29-80 49-92 (513)
69 KOG0342 ATP-dependent RNA heli 96.2 0.01 2.2E-07 71.1 7.8 28 53-81 119-146 (543)
70 TIGR00963 secA preprotein tran 96.2 0.028 6.1E-07 71.7 11.9 58 619-698 450-512 (745)
71 KOG0335 ATP-dependent RNA heli 96.0 0.015 3.1E-07 70.5 7.8 66 56-169 113-178 (482)
72 PF00176 SNF2_N: SNF2 family N 96.0 0.045 9.8E-07 61.9 11.1 37 258-295 107-146 (299)
73 PF13086 AAA_11: AAA domain; P 95.9 0.021 4.6E-07 61.7 7.7 38 142-179 52-95 (236)
74 COG4889 Predicted helicase [Ge 95.6 0.067 1.4E-06 67.7 11.3 164 24-298 155-319 (1518)
75 PHA02558 uvsW UvsW helicase; P 95.6 0.037 8E-07 68.6 9.1 57 623-701 395-451 (501)
76 KOG0348 ATP-dependent RNA heli 95.4 0.029 6.4E-07 67.8 7.1 44 30-82 159-202 (708)
77 KOG1802 RNA helicase nonsense 95.3 0.12 2.5E-06 64.2 11.6 78 33-181 413-490 (935)
78 PRK04914 ATP-dependent helicas 95.3 0.074 1.6E-06 70.3 10.8 71 629-723 551-622 (956)
79 KOG0345 ATP-dependent RNA heli 95.2 0.044 9.6E-07 65.6 7.6 39 33-80 31-69 (567)
80 COG1201 Lhr Lhr-like helicases 95.1 0.025 5.5E-07 72.8 5.7 45 29-82 20-65 (814)
81 PRK12904 preprotein translocas 95.1 0.11 2.4E-06 67.2 11.2 38 28-76 79-116 (830)
82 KOG0344 ATP-dependent RNA heli 95.0 0.048 1E-06 66.8 7.4 78 30-169 158-235 (593)
83 COG1205 Distinct helicase fami 94.9 0.075 1.6E-06 69.7 9.4 44 29-81 69-112 (851)
84 PHA02653 RNA helicase NPH-II; 94.5 0.11 2.4E-06 66.5 9.2 38 28-70 155-195 (675)
85 KOG1803 DNA helicase [Replicat 94.5 0.13 2.9E-06 63.5 9.2 38 252-294 332-369 (649)
86 PF13245 AAA_19: Part of AAA d 94.4 0.17 3.7E-06 47.0 7.8 33 42-79 3-35 (76)
87 COG4581 Superfamily II RNA hel 93.8 0.13 2.8E-06 67.8 7.8 45 21-74 110-154 (1041)
88 KOG1805 DNA replication helica 93.7 0.41 8.8E-06 62.0 11.6 97 143-296 713-809 (1100)
89 COG4096 HsdR Type I site-speci 93.7 0.18 3.8E-06 64.4 8.4 74 30-166 165-238 (875)
90 TIGR03158 cas3_cyano CRISPR-as 93.5 0.13 2.8E-06 61.2 6.7 32 42-76 5-36 (357)
91 PLN03142 Probable chromatin-re 93.5 0.33 7.1E-06 64.8 10.9 46 30-81 169-214 (1033)
92 COG1203 CRISPR-associated heli 93.3 0.17 3.8E-06 65.6 7.8 76 29-166 194-269 (733)
93 COG1200 RecG RecG-like helicas 93.3 0.28 6E-06 61.8 9.1 53 24-79 256-308 (677)
94 PF02562 PhoH: PhoH-like prote 93.1 0.13 2.8E-06 56.7 5.4 40 33-81 7-46 (205)
95 COG1202 Superfamily II helicas 93.0 0.28 6.1E-06 60.2 8.3 41 257-300 314-355 (830)
96 COG1061 SSL2 DNA or RNA helica 93.0 0.27 5.8E-06 60.2 8.4 43 25-72 31-73 (442)
97 PRK12898 secA preprotein trans 92.9 0.31 6.8E-06 62.0 8.9 40 28-78 101-140 (656)
98 PRK13103 secA preprotein trans 92.1 0.8 1.7E-05 59.9 11.2 39 29-78 81-119 (913)
99 cd00079 HELICc Helicase superf 91.4 0.86 1.9E-05 44.7 8.4 51 623-698 79-130 (131)
100 PF00271 Helicase_C: Helicase 91.3 0.66 1.4E-05 42.2 6.9 43 623-689 34-77 (78)
101 PF13604 AAA_30: AAA domain; P 90.7 0.65 1.4E-05 50.6 7.4 32 33-71 4-35 (196)
102 TIGR00376 DNA helicase, putati 90.6 0.75 1.6E-05 58.9 8.8 34 144-179 202-235 (637)
103 PRK11664 ATP-dependent RNA hel 90.2 0.58 1.2E-05 61.5 7.5 36 37-77 8-43 (812)
104 KOG0330 ATP-dependent RNA heli 89.9 0.81 1.7E-05 54.2 7.5 43 29-80 81-124 (476)
105 KOG0339 ATP-dependent RNA heli 89.5 1.4 3.1E-05 53.6 9.2 64 57-173 263-328 (731)
106 KOG0346 RNA helicase [RNA proc 89.4 0.75 1.6E-05 55.2 6.8 30 53-83 56-85 (569)
107 KOG0952 DNA/RNA helicase MER3/ 89.3 1.8 3.9E-05 56.8 10.4 82 25-165 104-186 (1230)
108 TIGR01970 DEAH_box_HrpB ATP-de 88.9 1 2.2E-05 59.3 8.1 36 37-77 5-40 (819)
109 KOG0334 RNA helicase [RNA proc 88.3 0.77 1.7E-05 60.0 6.4 80 26-167 382-462 (997)
110 smart00490 HELICc helicase sup 88.3 2 4.2E-05 38.4 7.4 44 623-689 38-81 (82)
111 PRK11192 ATP-dependent RNA hel 88.2 9.2 0.0002 46.5 15.4 39 256-295 121-159 (434)
112 KOG0385 Chromatin remodeling c 87.1 3.6 7.9E-05 52.6 10.9 47 30-82 167-213 (971)
113 PHA02558 uvsW UvsW helicase; P 86.8 2.7 5.9E-05 52.4 9.9 34 29-71 113-146 (501)
114 PRK10536 hypothetical protein; 86.8 1.1 2.3E-05 51.3 5.7 41 30-79 58-99 (262)
115 TIGR02640 gas_vesic_GvpN gas v 86.7 1 2.3E-05 51.2 5.7 39 33-78 5-43 (262)
116 KOG0343 RNA Helicase [RNA proc 85.8 1.1 2.4E-05 55.1 5.4 28 53-81 106-133 (758)
117 COG0514 RecQ Superfamily II DN 85.7 0.62 1.4E-05 58.5 3.5 47 23-78 9-56 (590)
118 TIGR00614 recQ_fam ATP-depende 85.1 15 0.00032 45.5 15.1 55 623-701 277-332 (470)
119 KOG0989 Replication factor C, 85.0 1.2 2.6E-05 51.7 5.0 40 33-75 39-78 (346)
120 PHA02244 ATPase-like protein 84.4 1.7 3.7E-05 52.0 6.2 48 24-79 93-142 (383)
121 PRK13531 regulatory ATPase Rav 83.5 1 2.3E-05 55.5 4.0 39 33-78 23-61 (498)
122 COG0714 MoxR-like ATPases [Gen 83.4 1.2 2.7E-05 52.2 4.5 41 32-79 26-66 (329)
123 PRK13107 preprotein translocas 83.3 0.76 1.6E-05 60.0 2.8 42 27-79 79-120 (908)
124 KOG0951 RNA helicase BRR2, DEA 82.8 4.2 9E-05 54.5 9.0 86 41-180 316-403 (1674)
125 PRK13407 bchI magnesium chelat 82.5 0.99 2.1E-05 53.4 3.2 41 26-70 4-45 (334)
126 KOG0333 U5 snRNP-like RNA heli 82.4 2.4 5.2E-05 52.0 6.3 44 29-81 265-309 (673)
127 PRK04537 ATP-dependent RNA hel 82.2 9 0.00019 48.7 11.7 56 623-702 308-364 (572)
128 PF00580 UvrD-helicase: UvrD/R 81.8 2.9 6.2E-05 47.6 6.6 22 56-77 15-36 (315)
129 COG1110 Reverse gyrase [DNA re 81.5 5.1 0.00011 52.8 9.1 70 28-167 80-149 (1187)
130 KOG0389 SNF2 family DNA-depend 81.4 0.81 1.8E-05 58.2 2.0 68 235-302 465-543 (941)
131 PRK11776 ATP-dependent RNA hel 80.9 20 0.00043 44.1 13.8 38 257-295 122-159 (460)
132 TIGR01389 recQ ATP-dependent D 80.8 14 0.0003 47.1 12.7 55 623-700 275-329 (591)
133 PRK15483 type III restriction- 80.6 2.7 5.9E-05 55.7 6.4 27 55-81 60-86 (986)
134 cd00009 AAA The AAA+ (ATPases 80.5 2.4 5.1E-05 41.6 4.7 33 34-69 2-34 (151)
135 COG1197 Mfd Transcription-repa 80.3 11 0.00025 50.6 11.8 51 24-77 588-638 (1139)
136 KOG0336 ATP-dependent RNA heli 78.5 2.1 4.5E-05 51.0 4.0 23 57-79 260-282 (629)
137 PRK13767 ATP-dependent helicas 78.3 21 0.00045 47.9 13.6 58 623-701 339-398 (876)
138 PRK11057 ATP-dependent DNA hel 78.3 30 0.00065 44.4 14.6 55 623-701 287-342 (607)
139 PRK10590 ATP-dependent RNA hel 77.8 21 0.00045 44.0 12.7 39 256-295 123-161 (456)
140 KOG0338 ATP-dependent RNA heli 76.0 4.3 9.3E-05 49.8 5.7 44 29-81 201-245 (691)
141 PLN03025 replication factor C 75.9 3 6.5E-05 48.8 4.4 36 34-72 17-52 (319)
142 COG2804 PulE Type II secretory 75.8 2.7 5.8E-05 51.9 4.1 27 55-82 259-285 (500)
143 COG1474 CDC6 Cdc6-related prot 75.8 3.7 8.1E-05 49.2 5.3 41 30-72 20-60 (366)
144 COG1219 ClpX ATP-dependent pro 75.6 2.1 4.5E-05 50.0 2.9 24 54-79 97-120 (408)
145 smart00382 AAA ATPases associa 75.4 2.4 5.2E-05 40.9 3.0 17 56-72 4-20 (148)
146 PTZ00110 helicase; Provisional 74.1 22 0.00048 44.9 11.7 74 623-721 428-501 (545)
147 PF01695 IstB_IS21: IstB-like 73.8 4.3 9.3E-05 43.7 4.7 21 55-77 48-68 (178)
148 PRK12906 secA preprotein trans 73.8 3 6.5E-05 54.4 4.0 42 28-80 78-119 (796)
149 KOG0991 Replication factor C, 73.4 4.6 0.0001 45.4 4.7 41 36-79 33-73 (333)
150 KOG0352 ATP-dependent DNA heli 73.3 3.4 7.3E-05 49.6 3.9 45 26-78 14-60 (641)
151 PF05496 RuvB_N: Holliday junc 73.2 4.4 9.6E-05 45.5 4.6 41 29-69 23-65 (233)
152 PRK12402 replication factor C 72.8 4.1 8.8E-05 47.4 4.5 35 34-71 19-53 (337)
153 PRK06835 DNA replication prote 71.9 7 0.00015 46.3 6.2 17 55-71 184-200 (329)
154 PF01078 Mg_chelatase: Magnesi 71.9 3.7 8.1E-05 45.4 3.7 33 33-70 6-38 (206)
155 COG1061 SSL2 DNA or RNA helica 71.5 8.5 0.00018 47.4 7.0 38 259-298 123-161 (442)
156 PRK00080 ruvB Holliday junctio 71.1 3.7 8.1E-05 48.2 3.7 43 30-72 25-69 (328)
157 PRK11634 ATP-dependent RNA hel 71.0 56 0.0012 42.3 14.4 40 255-295 122-161 (629)
158 TIGR02030 BchI-ChlI magnesium 70.4 6 0.00013 47.0 5.2 42 27-71 1-42 (337)
159 COG4889 Predicted helicase [Ge 69.6 1.7 3.7E-05 55.9 0.5 46 633-699 537-584 (1518)
160 COG1223 Predicted ATPase (AAA+ 69.2 3.5 7.6E-05 47.0 2.7 21 55-77 152-172 (368)
161 PF05673 DUF815: Protein of un 69.1 20 0.00043 40.9 8.6 41 31-73 31-71 (249)
162 PRK14961 DNA polymerase III su 69.0 5.6 0.00012 47.6 4.6 36 33-71 19-55 (363)
163 PTZ00424 helicase 45; Provisio 68.9 16 0.00034 43.7 8.5 39 258-297 146-184 (401)
164 PRK05342 clpX ATP-dependent pr 68.8 7 0.00015 47.7 5.4 44 33-78 74-130 (412)
165 PRK01297 ATP-dependent RNA hel 67.8 29 0.00063 42.9 10.6 57 623-701 384-441 (475)
166 PRK12326 preprotein translocas 67.6 5.7 0.00012 51.2 4.5 42 28-80 76-117 (764)
167 PRK00440 rfc replication facto 67.5 6.3 0.00014 45.4 4.6 37 33-72 20-56 (319)
168 TIGR00580 mfd transcription-re 67.5 1.1E+02 0.0025 41.3 16.5 28 142-169 235-262 (926)
169 PLN03137 ATP-dependent DNA hel 67.3 49 0.0011 45.2 12.9 53 623-699 731-784 (1195)
170 PF07726 AAA_3: ATPase family 67.1 3.2 7E-05 42.7 1.8 20 56-75 1-20 (131)
171 PF06309 Torsin: Torsin; Inte 66.0 7.9 0.00017 39.8 4.3 32 37-70 36-69 (127)
172 TIGR00382 clpX endopeptidase C 66.0 7.8 0.00017 47.3 5.0 44 33-78 80-138 (413)
173 PF07728 AAA_5: AAA domain (dy 65.5 5.9 0.00013 40.0 3.4 22 56-79 1-22 (139)
174 PRK14955 DNA polymerase III su 65.3 6.6 0.00014 47.6 4.3 38 31-71 17-55 (397)
175 PRK10689 transcription-repair 64.6 59 0.0013 44.9 13.3 55 623-700 862-916 (1147)
176 PF06745 KaiC: KaiC; InterPro 64.5 11 0.00024 41.5 5.6 19 51-70 17-35 (226)
177 PRK08181 transposase; Validate 64.2 11 0.00025 43.3 5.7 21 55-77 107-127 (269)
178 PRK12377 putative replication 64.2 9.4 0.0002 43.5 5.0 42 33-77 81-122 (248)
179 TIGR03420 DnaA_homol_Hda DnaA 64.2 8.4 0.00018 42.1 4.5 34 34-70 21-54 (226)
180 COG1198 PriA Primosomal protei 63.7 18 0.0004 47.1 7.9 63 623-697 535-598 (730)
181 PRK14952 DNA polymerase III su 63.4 7.4 0.00016 49.6 4.3 39 33-74 16-55 (584)
182 PF13191 AAA_16: AAA ATPase do 63.3 3.5 7.6E-05 43.2 1.3 37 31-70 4-40 (185)
183 PRK02362 ski2-like helicase; P 63.1 11 0.00023 49.5 5.8 65 623-701 328-395 (737)
184 TIGR02928 orc1/cdc6 family rep 63.0 11 0.00024 44.5 5.5 38 32-71 20-57 (365)
185 PRK01172 ski2-like helicase; P 62.8 14 0.0003 47.8 6.8 60 623-699 312-374 (674)
186 PF00308 Bac_DnaA: Bacterial d 62.7 15 0.00032 40.9 6.1 41 39-80 19-59 (219)
187 COG1203 CRISPR-associated heli 62.0 62 0.0013 42.6 12.4 55 627-705 497-554 (733)
188 TIGR00631 uvrb excinuclease AB 61.8 30 0.00065 44.8 9.4 43 25-71 4-46 (655)
189 PF00158 Sigma54_activat: Sigm 61.4 11 0.00023 40.4 4.5 31 38-69 7-37 (168)
190 TIGR01650 PD_CobS cobaltochela 61.0 13 0.00028 44.1 5.5 36 36-78 51-86 (327)
191 PRK13894 conjugal transfer ATP 60.9 11 0.00025 44.4 5.0 23 55-78 149-171 (319)
192 KOG0353 ATP-dependent DNA heli 60.9 6.8 0.00015 46.3 3.0 38 31-77 95-132 (695)
193 TIGR00635 ruvB Holliday juncti 60.7 12 0.00026 43.1 5.2 37 34-70 8-46 (305)
194 PF14532 Sigma54_activ_2: Sigm 60.5 13 0.00028 38.0 4.8 31 38-69 6-36 (138)
195 PRK09183 transposase/IS protei 60.2 8.5 0.00019 43.9 3.8 21 56-78 104-124 (259)
196 smart00763 AAA_PrkA PrkA AAA d 60.1 19 0.0004 43.3 6.6 55 22-79 41-101 (361)
197 TIGR02442 Cob-chelat-sub cobal 60.0 8.3 0.00018 49.6 4.0 41 27-70 1-41 (633)
198 TIGR03015 pepcterm_ATPase puta 59.7 11 0.00024 42.3 4.6 34 33-70 26-59 (269)
199 TIGR00390 hslU ATP-dependent p 59.7 11 0.00025 46.0 4.8 45 33-79 15-70 (441)
200 PF05970 PIF1: PIF1-like helic 59.6 11 0.00025 45.0 4.9 36 33-71 4-39 (364)
201 KOG0744 AAA+-type ATPase [Post 59.5 7 0.00015 45.9 2.8 41 35-77 151-198 (423)
202 PRK05201 hslU ATP-dependent pr 59.4 12 0.00026 45.8 4.9 43 33-77 18-71 (443)
203 PF13401 AAA_22: AAA domain; P 59.1 5.8 0.00013 39.3 1.9 17 55-71 5-21 (131)
204 COG0556 UvrB Helicase subunit 59.1 8 0.00017 48.0 3.4 43 24-70 6-48 (663)
205 PTZ00112 origin recognition co 59.1 12 0.00026 49.4 5.1 41 32-74 760-801 (1164)
206 PRK14958 DNA polymerase III su 59.1 9.8 0.00021 47.7 4.3 37 32-71 18-55 (509)
207 PRK03992 proteasome-activating 58.7 18 0.00039 43.8 6.4 21 56-78 167-187 (389)
208 TIGR01447 recD exodeoxyribonuc 58.7 31 0.00067 44.1 8.7 32 33-73 148-179 (586)
209 PF13177 DNA_pol3_delta2: DNA 58.1 13 0.00028 39.4 4.4 35 34-71 1-36 (162)
210 TIGR02880 cbbX_cfxQ probable R 58.0 7.7 0.00017 44.9 2.9 15 56-70 60-74 (284)
211 KOG0351 ATP-dependent DNA heli 57.9 3.8 8.2E-05 54.5 0.5 46 24-78 257-303 (941)
212 KOG4439 RNA polymerase II tran 57.8 2.9 6.4E-05 52.9 -0.5 45 254-298 427-478 (901)
213 cd01124 KaiC KaiC is a circadi 57.6 9.7 0.00021 40.2 3.4 23 57-79 2-24 (187)
214 TIGR00631 uvrb excinuclease AB 57.6 36 0.00078 44.2 9.1 59 623-701 491-552 (655)
215 TIGR02639 ClpA ATP-dependent C 57.5 12 0.00025 49.1 4.8 43 34-78 458-506 (731)
216 PF09848 DUF2075: Uncharacteri 57.4 18 0.0004 43.0 6.0 21 55-75 2-22 (352)
217 PRK14963 DNA polymerase III su 57.0 12 0.00027 46.8 4.6 38 33-73 17-55 (504)
218 TIGR02881 spore_V_K stage V sp 56.3 8.5 0.00018 43.7 2.9 16 55-70 43-58 (261)
219 PF12775 AAA_7: P-loop contain 56.3 13 0.00028 42.9 4.3 16 55-70 34-49 (272)
220 PF03226 Yippee-Mis18: Yippee 56.3 2.4 5.1E-05 41.0 -1.3 40 1162-1204 53-92 (96)
221 PRK04837 ATP-dependent RNA hel 56.1 40 0.00087 41.0 8.8 40 257-297 132-171 (423)
222 PRK08533 flagellar accessory p 56.1 29 0.00063 38.9 7.1 15 56-70 26-40 (230)
223 cd01129 PulE-GspE PulE/GspE Th 56.1 12 0.00026 42.9 4.0 24 55-79 81-104 (264)
224 COG1484 DnaC DNA replication p 55.7 18 0.00039 41.3 5.3 22 55-78 106-127 (254)
225 COG1222 RPT1 ATP-dependent 26S 55.6 8.3 0.00018 45.9 2.7 19 57-77 188-206 (406)
226 PRK06921 hypothetical protein; 55.5 22 0.00048 40.8 6.1 16 55-70 118-133 (266)
227 PRK05298 excinuclease ABC subu 55.4 41 0.00088 43.6 9.1 43 25-71 7-49 (652)
228 PRK00411 cdc6 cell division co 55.3 19 0.00042 43.0 5.8 19 55-73 56-74 (394)
229 PRK13342 recombination factor 55.1 9.7 0.00021 46.3 3.3 36 32-70 14-52 (413)
230 KOG0340 ATP-dependent RNA heli 54.8 32 0.0007 41.0 7.1 41 29-78 28-68 (442)
231 PRK10436 hypothetical protein; 54.7 12 0.00026 46.4 4.0 24 56-80 220-243 (462)
232 KOG0947 Cytoplasmic exosomal R 54.5 23 0.00051 46.7 6.5 48 20-76 287-334 (1248)
233 PRK12900 secA preprotein trans 54.5 11 0.00023 50.3 3.7 50 18-78 126-175 (1025)
234 COG1643 HrpA HrpA-like helicas 54.4 11 0.00023 50.0 3.6 29 38-71 54-82 (845)
235 PF07724 AAA_2: AAA domain (Cd 54.1 12 0.00025 40.2 3.3 22 55-78 4-25 (171)
236 PRK14969 DNA polymerase III su 54.0 14 0.0003 46.6 4.5 36 34-72 20-56 (527)
237 COG0470 HolB ATPase involved i 53.6 16 0.00035 42.0 4.7 20 55-74 24-44 (325)
238 CHL00081 chlI Mg-protoporyphyr 53.5 9.5 0.00021 45.6 2.8 43 24-69 11-53 (350)
239 PRK11331 5-methylcytosine-spec 53.1 14 0.00029 45.7 4.0 33 39-78 184-216 (459)
240 TIGR03346 chaperone_ClpB ATP-d 53.1 16 0.00034 48.8 5.0 46 32-79 567-618 (852)
241 TIGR02902 spore_lonB ATP-depen 52.9 12 0.00026 47.2 3.7 36 32-70 67-102 (531)
242 smart00489 DEXDc3 DEAD-like he 52.7 10 0.00023 43.9 2.9 25 143-167 61-85 (289)
243 smart00488 DEXDc2 DEAD-like he 52.7 10 0.00023 43.9 2.9 25 143-167 61-85 (289)
244 PRK14962 DNA polymerase III su 52.7 15 0.00033 45.6 4.5 36 32-70 16-52 (472)
245 PF07517 SecA_DEAD: SecA DEAD- 52.3 20 0.00044 41.3 5.1 43 26-79 73-115 (266)
246 PRK08769 DNA polymerase III su 52.0 22 0.00047 42.1 5.4 44 30-76 4-48 (319)
247 KOG0745 Putative ATP-dependent 51.8 11 0.00023 45.9 2.8 23 55-79 227-249 (564)
248 PRK08939 primosomal protein Dn 51.7 33 0.00071 40.3 6.8 41 34-77 135-177 (306)
249 PRK14956 DNA polymerase III su 51.6 17 0.00038 45.1 4.7 35 33-70 21-56 (484)
250 PRK12901 secA preprotein trans 51.4 14 0.0003 49.5 3.9 52 15-77 154-205 (1112)
251 TIGR03877 thermo_KaiC_1 KaiC d 51.4 40 0.00087 37.8 7.2 20 49-69 17-36 (237)
252 COG0606 Predicted ATPase with 51.3 13 0.00028 45.8 3.5 32 34-70 183-214 (490)
253 PHA00729 NTP-binding motif con 51.3 22 0.00047 40.1 5.0 36 38-78 4-39 (226)
254 PF00004 AAA: ATPase family as 51.3 13 0.00029 36.4 3.1 20 57-78 1-20 (132)
255 PRK12902 secA preprotein trans 51.2 14 0.00029 48.9 3.8 40 29-79 84-123 (939)
256 PRK14960 DNA polymerase III su 50.7 17 0.00036 46.9 4.4 37 33-72 18-55 (702)
257 TIGR01967 DEAH_box_HrpA ATP-de 50.6 13 0.00027 51.4 3.5 31 40-77 73-103 (1283)
258 CHL00181 cbbX CbbX; Provisiona 50.2 12 0.00027 43.3 3.0 16 56-71 61-76 (287)
259 PRK07952 DNA replication prote 50.2 33 0.00071 39.1 6.3 37 33-70 79-115 (244)
260 PRK14954 DNA polymerase III su 49.4 18 0.00038 46.6 4.4 36 33-71 19-55 (620)
261 CHL00095 clpC Clp protease ATP 49.3 21 0.00045 47.5 5.2 45 33-79 512-562 (821)
262 CHL00122 secA preprotein trans 49.3 13 0.00029 48.9 3.3 37 29-76 75-111 (870)
263 TIGR01241 FtsH_fam ATP-depende 49.0 26 0.00056 43.8 5.7 46 31-78 59-110 (495)
264 PLN00206 DEAD-box ATP-dependen 48.9 23 0.00051 44.4 5.3 53 623-699 419-471 (518)
265 PRK06526 transposase; Provisio 48.9 17 0.00037 41.5 3.8 16 55-70 99-114 (254)
266 KOG0327 Translation initiation 48.9 7.2 0.00016 46.5 0.8 43 27-78 44-87 (397)
267 PRK14950 DNA polymerase III su 48.8 18 0.00039 46.2 4.4 40 32-74 18-58 (585)
268 PF13872 AAA_34: P-loop contai 48.3 7.3 0.00016 45.5 0.7 40 258-298 136-187 (303)
269 PRK08116 hypothetical protein; 48.2 34 0.00073 39.4 6.1 20 56-77 116-135 (268)
270 COG1224 TIP49 DNA helicase TIP 48.1 24 0.00053 42.2 4.8 37 32-69 41-80 (450)
271 PRK14949 DNA polymerase III su 47.9 19 0.00042 47.8 4.4 36 34-72 20-56 (944)
272 PRK06645 DNA polymerase III su 47.7 21 0.00045 44.9 4.5 39 33-73 24-62 (507)
273 TIGR03345 VI_ClpV1 type VI sec 47.1 24 0.00051 47.2 5.2 45 33-79 569-619 (852)
274 TIGR02538 type_IV_pilB type IV 46.6 17 0.00037 46.2 3.7 23 56-79 318-340 (564)
275 PRK11131 ATP-dependent RNA hel 46.5 19 0.0004 49.8 4.1 30 40-76 80-109 (1294)
276 PRK10865 protein disaggregatio 46.2 23 0.00049 47.4 4.9 45 31-77 569-619 (857)
277 PF02534 T4SS-DNA_transf: Type 46.0 8.4 0.00018 47.4 0.8 22 56-77 46-67 (469)
278 CHL00176 ftsH cell division pr 45.8 31 0.00066 44.6 5.8 46 31-78 187-238 (638)
279 PRK07133 DNA polymerase III su 45.8 21 0.00046 46.5 4.4 38 33-73 21-59 (725)
280 PRK12323 DNA polymerase III su 45.8 22 0.00048 45.8 4.4 35 34-71 20-55 (700)
281 PRK11034 clpA ATP-dependent Cl 45.6 26 0.00055 46.2 5.1 37 34-70 462-504 (758)
282 PRK13876 conjugal transfer cou 45.4 8.7 0.00019 49.6 0.9 24 54-77 144-167 (663)
283 TIGR02397 dnaX_nterm DNA polym 44.9 22 0.00047 41.8 4.0 38 32-71 16-53 (355)
284 PRK13897 type IV secretion sys 44.6 8.4 0.00018 49.2 0.6 24 54-77 158-181 (606)
285 PRK07003 DNA polymerase III su 44.5 23 0.0005 46.4 4.3 36 33-71 19-55 (830)
286 KOG0326 ATP-dependent RNA heli 44.5 13 0.00028 43.5 2.0 39 31-78 108-146 (459)
287 PRK07764 DNA polymerase III su 44.4 22 0.00048 47.2 4.3 40 33-75 18-58 (824)
288 PRK14951 DNA polymerase III su 44.1 19 0.00042 46.2 3.6 39 32-73 18-57 (618)
289 COG1221 PspF Transcriptional r 44.0 23 0.0005 43.2 4.0 38 37-78 85-122 (403)
290 PRK05896 DNA polymerase III su 43.9 20 0.00044 45.8 3.7 40 32-74 18-58 (605)
291 PF02367 UPF0079: Uncharacteri 43.8 20 0.00044 36.6 3.0 28 37-69 3-30 (123)
292 PRK10875 recD exonuclease V su 43.8 82 0.0018 40.7 9.0 39 24-71 144-184 (615)
293 PRK08691 DNA polymerase III su 43.6 25 0.00055 45.6 4.5 38 33-73 19-57 (709)
294 KOG1002 Nucleotide excision re 43.6 12 0.00026 45.9 1.5 46 254-299 273-332 (791)
295 TIGR02974 phageshock_pspF psp 43.4 25 0.00054 41.6 4.2 31 38-69 7-37 (329)
296 PRK00254 ski2-like helicase; P 43.2 35 0.00076 44.6 5.8 64 623-701 320-386 (720)
297 PRK14873 primosome assembly pr 43.1 57 0.0012 42.4 7.6 27 672-699 509-535 (665)
298 KOG0343 RNA Helicase [RNA proc 43.1 55 0.0012 41.1 6.9 24 622-649 365-388 (758)
299 PRK14957 DNA polymerase III su 42.8 28 0.0006 44.2 4.6 36 33-71 19-55 (546)
300 PRK13851 type IV secretion sys 42.8 22 0.00047 42.6 3.5 15 55-69 163-177 (344)
301 PRK14970 DNA polymerase III su 42.8 24 0.00051 42.1 3.9 40 30-71 17-56 (367)
302 PRK13850 type IV secretion sys 42.8 11 0.00023 48.9 1.0 24 54-77 139-162 (670)
303 PRK13900 type IV secretion sys 42.6 24 0.00052 42.0 3.8 16 55-70 161-176 (332)
304 PRK14953 DNA polymerase III su 42.5 23 0.0005 44.2 3.9 36 33-71 19-55 (486)
305 cd01126 TraG_VirD4 The TraG/Tr 42.5 6.6 0.00014 47.1 -0.8 22 56-77 1-22 (384)
306 TIGR00764 lon_rel lon-related 42.4 27 0.00059 44.8 4.6 41 30-77 18-58 (608)
307 PF13476 AAA_23: AAA domain; P 42.4 23 0.0005 37.4 3.4 24 56-81 21-44 (202)
308 PRK09112 DNA polymerase III su 42.3 30 0.00065 41.5 4.6 37 33-71 26-62 (351)
309 PRK11608 pspF phage shock prot 42.1 27 0.00059 41.2 4.2 31 38-69 14-44 (326)
310 KOG0738 AAA+-type ATPase [Post 42.1 18 0.00039 43.6 2.6 19 57-77 248-266 (491)
311 cd01120 RecA-like_NTPases RecA 42.0 26 0.00055 35.4 3.5 19 56-74 1-19 (165)
312 PRK04328 hypothetical protein; 41.9 61 0.0013 36.8 6.8 17 52-69 22-38 (249)
313 PRK15429 formate hydrogenlyase 41.8 21 0.00046 46.3 3.6 40 29-69 375-414 (686)
314 PF06068 TIP49: TIP49 C-termin 41.7 39 0.00084 40.8 5.3 35 34-69 31-65 (398)
315 TIGR02639 ClpA ATP-dependent C 41.5 33 0.00072 45.0 5.2 44 29-77 181-224 (731)
316 PRK12903 secA preprotein trans 41.5 27 0.00059 46.1 4.3 38 28-76 76-113 (925)
317 PF01580 FtsK_SpoIIIE: FtsK/Sp 41.4 25 0.00054 38.2 3.5 25 56-80 40-64 (205)
318 PRK06871 DNA polymerase III su 41.3 37 0.00081 40.3 5.1 42 31-75 3-45 (325)
319 PF02399 Herpes_ori_bp: Origin 41.1 46 0.001 43.7 6.2 23 55-81 50-72 (824)
320 PF05729 NACHT: NACHT domain 40.8 28 0.0006 35.5 3.6 24 56-79 2-25 (166)
321 PRK14948 DNA polymerase III su 40.8 28 0.0006 44.9 4.3 39 33-73 19-57 (620)
322 KOG0731 AAA+-type ATPase conta 40.8 18 0.0004 47.0 2.7 13 57-69 347-359 (774)
323 PRK14965 DNA polymerase III su 40.7 29 0.00064 44.2 4.5 39 32-73 18-57 (576)
324 PRK09751 putative ATP-dependen 40.7 5E+02 0.011 37.2 16.2 56 622-699 325-381 (1490)
325 TIGR02767 TraG-Ti Ti-type conj 40.6 12 0.00026 48.0 1.0 25 53-77 210-234 (623)
326 PRK13833 conjugal transfer pro 40.4 25 0.00055 41.7 3.5 16 55-70 145-160 (323)
327 PRK09111 DNA polymerase III su 40.4 31 0.00067 44.2 4.6 39 33-73 27-65 (598)
328 PRK05298 excinuclease ABC subu 40.2 98 0.0021 40.2 9.1 59 623-701 495-556 (652)
329 COG3587 Restriction endonuclea 40.2 12 0.00027 48.6 1.0 27 56-82 76-102 (985)
330 TIGR02782 TrbB_P P-type conjug 40.2 27 0.00059 40.8 3.8 16 55-70 133-148 (299)
331 PRK06305 DNA polymerase III su 40.2 32 0.00069 42.6 4.6 40 32-73 19-58 (451)
332 PRK14964 DNA polymerase III su 40.0 35 0.00076 42.7 4.8 38 34-73 17-54 (491)
333 TIGR02655 circ_KaiC circadian 39.9 74 0.0016 39.8 7.7 24 46-70 256-279 (484)
334 PRK13880 conjugal transfer cou 39.9 8.5 0.00018 49.6 -0.5 25 53-77 174-198 (636)
335 cd01373 KISc_KLP2_like Kinesin 39.8 21 0.00045 42.4 2.8 47 24-71 42-92 (337)
336 TIGR02688 conserved hypothetic 39.7 49 0.0011 40.8 5.8 33 33-70 193-225 (449)
337 PRK05563 DNA polymerase III su 39.1 37 0.00079 43.3 4.9 43 32-77 18-61 (559)
338 COG1204 Superfamily II helicas 39.1 2.4E+02 0.0052 37.5 12.4 67 622-700 338-405 (766)
339 TIGR01817 nifA Nif-specific re 39.1 32 0.0007 43.3 4.5 35 34-69 200-234 (534)
340 COG2805 PilT Tfp pilus assembl 38.9 36 0.00078 40.0 4.3 54 23-81 94-151 (353)
341 PRK07471 DNA polymerase III su 38.9 36 0.00077 41.0 4.6 38 33-73 22-60 (365)
342 PF13481 AAA_25: AAA domain; P 38.8 32 0.00069 36.6 3.8 25 56-80 34-58 (193)
343 PHA02544 44 clamp loader, smal 38.7 33 0.00073 39.7 4.2 34 34-70 25-59 (316)
344 PRK13822 conjugal transfer cou 38.5 12 0.00027 48.1 0.6 25 53-77 223-247 (641)
345 cd01366 KISc_C_terminal Kinesi 38.5 24 0.00052 41.5 3.0 47 24-71 46-95 (329)
346 PF12846 AAA_10: AAA-like doma 38.3 31 0.00067 38.9 3.8 20 56-75 3-22 (304)
347 COG2255 RuvB Holliday junction 38.3 26 0.00056 40.8 3.1 47 23-69 16-67 (332)
348 PRK06067 flagellar accessory p 38.3 94 0.002 34.5 7.5 20 49-69 21-40 (234)
349 KOG0734 AAA+-type ATPase conta 38.2 21 0.00046 44.5 2.5 43 33-77 310-358 (752)
350 TIGR02525 plasmid_TraJ plasmid 38.0 31 0.00067 41.7 3.8 42 34-80 133-174 (372)
351 PRK07994 DNA polymerase III su 37.9 34 0.00073 44.3 4.4 39 33-74 19-58 (647)
352 TIGR02768 TraA_Ti Ti-type conj 37.6 64 0.0014 42.5 6.9 30 33-70 355-384 (744)
353 TIGR01053 LSD1 zinc finger dom 37.6 16 0.00034 28.7 0.8 24 1080-1103 1-24 (31)
354 cd01367 KISc_KIF2_like Kinesin 37.6 23 0.00049 41.8 2.6 44 29-72 59-103 (322)
355 KOG0948 Nuclear exosomal RNA h 37.3 88 0.0019 40.8 7.6 42 24-74 123-164 (1041)
356 cd01130 VirB11-like_ATPase Typ 37.3 37 0.00081 36.5 4.0 30 33-70 12-41 (186)
357 PRK10917 ATP-dependent DNA hel 37.2 1.7E+02 0.0036 38.3 10.6 53 623-700 532-586 (681)
358 KOG0328 Predicted ATP-dependen 37.2 22 0.00048 41.1 2.3 42 27-77 45-87 (400)
359 PF01745 IPT: Isopentenyl tran 37.0 29 0.00062 39.0 3.1 14 56-69 3-16 (233)
360 PF10236 DAP3: Mitochondrial r 36.9 55 0.0012 38.5 5.6 43 35-81 7-49 (309)
361 PF00437 T2SE: Type II/IV secr 36.9 44 0.00094 38.0 4.7 23 55-78 128-150 (270)
362 PRK04914 ATP-dependent helicas 36.8 1.6E+02 0.0035 40.1 10.4 38 258-296 247-285 (956)
363 PLN03188 kinesin-12 family pro 36.5 25 0.00054 47.8 2.9 58 16-73 125-185 (1320)
364 cd01375 KISc_KIF9_like Kinesin 36.5 25 0.00055 41.6 2.8 47 24-72 49-99 (334)
365 KOG0347 RNA helicase [RNA proc 36.4 39 0.00085 42.3 4.3 44 29-80 201-245 (731)
366 PRK13341 recombination factor 36.2 39 0.00084 44.4 4.6 36 32-70 30-68 (725)
367 cd01365 KISc_KIF1A_KIF1B Kines 35.9 26 0.00056 41.9 2.7 39 33-72 67-107 (356)
368 COG1419 FlhF Flagellar GTP-bin 35.4 44 0.00094 40.8 4.5 17 55-71 204-220 (407)
369 TIGR02533 type_II_gspE general 35.2 29 0.00064 43.4 3.2 23 56-79 244-266 (486)
370 cd00984 DnaB_C DnaB helicase C 35.1 46 0.001 36.9 4.4 31 49-80 9-39 (242)
371 PRK13765 ATP-dependent proteas 34.6 43 0.00094 43.3 4.6 37 30-71 31-67 (637)
372 COG4962 CpaF Flp pilus assembl 34.2 48 0.001 39.6 4.5 23 55-78 174-196 (355)
373 PF00225 Kinesin: Kinesin moto 34.2 31 0.00067 40.5 3.0 50 24-74 42-95 (335)
374 TIGR02903 spore_lon_C ATP-depe 34.1 33 0.00072 44.1 3.5 34 33-69 157-190 (615)
375 TIGR03880 KaiC_arch_3 KaiC dom 34.0 1.2E+02 0.0026 33.4 7.4 14 56-69 18-31 (224)
376 PRK07940 DNA polymerase III su 34.0 51 0.0011 40.2 4.9 41 34-74 9-56 (394)
377 cd01370 KISc_KIP3_like Kinesin 34.0 41 0.0009 39.9 4.0 48 24-71 55-105 (338)
378 KOG0922 DEAH-box RNA helicase 33.9 34 0.00074 43.7 3.4 28 37-69 54-81 (674)
379 TIGR03689 pup_AAA proteasome A 33.8 30 0.00064 43.6 2.9 21 56-78 218-238 (512)
380 TIGR00603 rad25 DNA repair hel 33.7 1.1E+02 0.0023 40.4 7.8 46 624-692 544-590 (732)
381 TIGR00150 HI0065_YjeE ATPase, 33.6 34 0.00074 35.5 2.8 28 37-69 10-37 (133)
382 PRK07399 DNA polymerase III su 33.5 55 0.0012 38.6 4.9 40 33-74 7-46 (314)
383 PRK06893 DNA replication initi 33.3 76 0.0016 35.4 5.8 16 56-71 41-56 (229)
384 PRK07993 DNA polymerase III su 33.1 46 0.00099 39.7 4.2 43 31-76 3-46 (334)
385 PRK00149 dnaA chromosomal repl 33.0 80 0.0017 38.9 6.4 35 36-70 130-164 (450)
386 TIGR02524 dot_icm_DotB Dot/Icm 32.9 39 0.00086 40.6 3.6 41 34-79 118-158 (358)
387 KOG0742 AAA+-type ATPase [Post 32.9 23 0.00051 42.8 1.7 16 56-71 386-401 (630)
388 PRK10865 protein disaggregatio 32.7 46 0.001 44.5 4.6 45 29-78 177-221 (857)
389 cd03115 SRP The signal recogni 32.5 45 0.00098 35.1 3.6 23 56-78 2-24 (173)
390 PF13238 AAA_18: AAA domain; P 32.3 25 0.00054 34.3 1.6 20 57-78 1-20 (129)
391 PRK05022 anaerobic nitric oxid 32.3 45 0.00098 41.8 4.2 35 34-69 191-225 (509)
392 PF02562 PhoH: PhoH-like prote 32.2 43 0.00093 37.2 3.5 37 253-297 97-133 (205)
393 TIGR02759 TraD_Ftype type IV c 32.1 39 0.00084 43.1 3.6 26 56-82 178-203 (566)
394 PF13207 AAA_17: AAA domain; P 32.1 26 0.00057 34.2 1.7 19 57-77 2-20 (121)
395 PTZ00361 26 proteosome regulat 32.1 34 0.00075 42.2 3.0 21 56-78 219-239 (438)
396 KOG0728 26S proteasome regulat 31.9 40 0.00087 38.5 3.2 20 57-78 184-203 (404)
397 PRK04195 replication factor C 31.9 56 0.0012 40.7 4.8 36 35-70 19-55 (482)
398 cd01368 KISc_KIF23_like Kinesi 31.9 30 0.00066 41.2 2.5 49 24-72 56-107 (345)
399 PRK06090 DNA polymerase III su 31.8 65 0.0014 38.2 5.1 39 30-71 3-42 (319)
400 KOG1051 Chaperone HSP104 and r 31.7 50 0.0011 44.1 4.5 43 33-78 565-613 (898)
401 PF00448 SRP54: SRP54-type pro 31.3 47 0.001 36.5 3.6 16 56-71 3-18 (196)
402 COG0542 clpA ATP-binding subun 31.2 62 0.0013 42.7 5.1 43 33-78 494-543 (786)
403 cd01376 KISc_KID_like Kinesin 31.0 33 0.00072 40.3 2.6 42 29-71 55-98 (319)
404 KOG0243 Kinesin-like protein [ 30.9 53 0.0011 44.1 4.5 46 25-70 95-145 (1041)
405 TIGR03817 DECH_helic helicase/ 30.9 1.3E+02 0.0028 39.8 8.1 56 623-700 328-384 (742)
406 TIGR03346 chaperone_ClpB ATP-d 30.8 41 0.00089 45.0 3.6 45 29-78 172-216 (852)
407 PF12340 DUF3638: Protein of u 30.7 1.1E+02 0.0023 34.9 6.2 44 30-80 23-66 (229)
408 TIGR00643 recG ATP-dependent D 30.6 1.2E+02 0.0027 39.1 7.7 52 623-699 509-562 (630)
409 PRK14087 dnaA chromosomal repl 30.6 81 0.0017 39.1 5.9 23 56-79 143-165 (450)
410 PRK09361 radB DNA repair and r 30.5 64 0.0014 35.5 4.6 29 46-75 16-44 (225)
411 TIGR03881 KaiC_arch_4 KaiC dom 30.4 62 0.0013 35.7 4.5 26 49-75 16-41 (229)
412 PRK13889 conjugal transfer rel 30.3 1.3E+02 0.0027 41.2 7.9 31 33-71 349-379 (988)
413 COG1875 NYN ribonuclease and A 30.0 77 0.0017 38.3 5.2 47 29-81 226-272 (436)
414 TIGR01242 26Sp45 26S proteasom 29.9 40 0.00087 40.3 3.0 21 56-78 158-178 (364)
415 PF03237 Terminase_6: Terminas 29.9 73 0.0016 36.8 5.1 23 58-80 1-23 (384)
416 PRK10820 DNA-binding transcrip 29.8 52 0.0011 41.4 4.2 32 37-69 211-242 (520)
417 PRK08058 DNA polymerase III su 29.6 72 0.0016 37.8 5.0 37 32-71 8-45 (329)
418 PRK05564 DNA polymerase III su 29.5 60 0.0013 37.9 4.3 38 34-74 8-46 (313)
419 COG5271 MDN1 AAA ATPase contai 29.5 58 0.0013 46.0 4.4 50 17-71 1808-1867(4600)
420 PRK12898 secA preprotein trans 29.4 1.5E+02 0.0032 38.6 8.0 58 620-699 519-582 (656)
421 TIGR03263 guanyl_kin guanylate 29.1 35 0.00075 36.0 2.1 14 56-69 3-16 (180)
422 cd01364 KISc_BimC_Eg5 Kinesin 29.1 42 0.00091 40.0 3.0 48 23-71 48-99 (352)
423 TIGR01587 cas3_core CRISPR-ass 29.0 65 0.0014 38.0 4.6 53 624-702 280-335 (358)
424 TIGR00362 DnaA chromosomal rep 29.0 95 0.0021 37.6 6.1 49 23-71 103-153 (405)
425 KOG0729 26S proteasome regulat 28.9 39 0.00085 38.9 2.5 37 33-70 183-227 (435)
426 KOG1942 DNA helicase, TBP-inte 28.8 75 0.0016 37.2 4.7 33 36-69 47-79 (456)
427 KOG0736 Peroxisome assembly fa 28.7 31 0.00067 44.9 1.9 13 57-69 708-720 (953)
428 KOG0923 mRNA splicing factor A 28.7 44 0.00096 42.7 3.1 24 41-69 272-295 (902)
429 KOG0341 DEAD-box protein abstr 28.7 44 0.00095 40.2 2.9 24 58-81 211-234 (610)
430 PRK15424 propionate catabolism 28.6 46 0.00099 42.2 3.3 40 29-69 218-257 (538)
431 KOG3928 Mitochondrial ribosome 28.5 46 0.00099 40.6 3.1 26 56-82 181-206 (461)
432 PTZ00454 26S protease regulato 28.4 44 0.00095 40.8 3.0 21 56-78 181-201 (398)
433 cd01369 KISc_KHC_KIF5 Kinesin 28.2 43 0.00092 39.4 2.8 48 24-71 44-94 (325)
434 PRK14722 flhF flagellar biosyn 28.2 64 0.0014 39.1 4.3 17 56-72 139-155 (374)
435 PHA02533 17 large terminase pr 28.1 2.3E+02 0.0049 36.2 9.2 43 27-78 56-98 (534)
436 PRK04296 thymidine kinase; Pro 28.1 56 0.0012 35.4 3.5 24 56-79 4-27 (190)
437 PF00931 NB-ARC: NB-ARC domain 28.1 90 0.0019 35.3 5.4 32 37-69 3-34 (287)
438 PRK08451 DNA polymerase III su 28.1 61 0.0013 41.1 4.3 37 33-72 17-54 (535)
439 KOG0337 ATP-dependent RNA heli 28.1 53 0.0011 40.1 3.5 43 30-81 43-85 (529)
440 TIGR01243 CDC48 AAA family ATP 27.9 43 0.00093 44.0 3.0 22 56-79 489-510 (733)
441 KOG0391 SNF2 family DNA-depend 27.9 22 0.00048 47.8 0.4 61 236-301 683-755 (1958)
442 cd01374 KISc_CENP_E Kinesin mo 27.8 50 0.0011 38.8 3.3 47 24-71 41-91 (321)
443 PRK06647 DNA polymerase III su 27.8 65 0.0014 41.1 4.5 39 33-73 19-57 (563)
444 PRK11034 clpA ATP-dependent Cl 27.8 64 0.0014 42.6 4.5 39 36-79 192-230 (758)
445 cd01131 PilT Pilus retraction 27.7 48 0.001 36.2 2.9 16 56-71 3-18 (198)
446 CHL00195 ycf46 Ycf46; Provisio 27.7 49 0.0011 41.5 3.3 21 56-78 261-281 (489)
447 TIGR03499 FlhF flagellar biosy 27.6 68 0.0015 37.1 4.3 16 56-71 196-211 (282)
448 TIGR00763 lon ATP-dependent pr 27.6 73 0.0016 42.2 5.1 43 34-79 324-370 (775)
449 PRK08903 DnaA regulatory inact 27.5 92 0.002 34.3 5.2 15 55-69 43-57 (227)
450 TIGR02788 VirB11 P-type DNA tr 27.5 83 0.0018 36.9 5.0 16 55-70 145-160 (308)
451 cd01372 KISc_KIF4 Kinesin moto 27.4 57 0.0012 38.6 3.7 48 23-71 40-91 (341)
452 cd01122 GP4d_helicase GP4d_hel 27.4 65 0.0014 36.4 4.1 24 56-79 32-55 (271)
453 PF03215 Rad17: Rad17 cell cyc 27.2 78 0.0017 40.0 5.0 35 39-73 28-64 (519)
454 PRK14729 miaA tRNA delta(2)-is 27.2 50 0.0011 38.9 3.1 14 56-69 6-19 (300)
455 TIGR02329 propionate_PrpR prop 26.9 72 0.0016 40.4 4.6 35 34-69 216-250 (526)
456 PF13173 AAA_14: AAA domain 26.8 51 0.0011 33.1 2.8 17 55-71 3-19 (128)
457 PF05872 DUF853: Bacterial pro 26.7 27 0.00059 43.0 0.9 21 55-75 20-40 (502)
458 PRK12723 flagellar biosynthesi 26.7 1.2E+02 0.0026 37.0 6.3 21 55-75 175-195 (388)
459 CHL00095 clpC Clp protease ATP 26.7 55 0.0012 43.6 3.7 45 30-79 179-223 (821)
460 CHL00206 ycf2 Ycf2; Provisiona 26.3 45 0.00097 47.7 2.8 20 57-78 1633-1652(2281)
461 PHA02774 E1; Provisional 26.3 83 0.0018 40.2 4.9 37 37-77 419-455 (613)
462 PHA00547 hypothetical protein 26.1 1.1E+02 0.0025 35.3 5.5 35 41-80 67-101 (337)
463 TIGR03744 traC_PFL_4706 conjug 26.1 2.1E+02 0.0045 38.8 8.9 24 55-78 476-499 (893)
464 PF12774 AAA_6: Hydrolytic ATP 26.0 75 0.0016 35.9 4.1 15 56-70 34-48 (231)
465 COG1202 Superfamily II helicas 25.8 4E+02 0.0087 34.2 10.3 61 628-705 494-558 (830)
466 KOG2373 Predicted mitochondria 25.8 47 0.001 39.6 2.5 20 49-69 269-288 (514)
467 TIGR00602 rad24 checkpoint pro 25.8 80 0.0017 40.9 4.8 41 33-74 87-130 (637)
468 PRK10536 hypothetical protein; 25.7 36 0.00078 39.2 1.6 32 258-297 159-190 (262)
469 PRK00300 gmk guanylate kinase; 25.4 45 0.00098 36.0 2.2 14 56-69 7-20 (205)
470 TIGR00064 ftsY signal recognit 25.3 67 0.0015 37.1 3.7 23 56-78 74-96 (272)
471 TIGR00678 holB DNA polymerase 25.2 85 0.0018 33.6 4.2 27 42-70 4-30 (188)
472 PF13555 AAA_29: P-loop contai 24.8 83 0.0018 28.5 3.4 24 56-81 25-48 (62)
473 KOG1807 Helicases [Replication 24.8 1.9E+02 0.0042 38.0 7.5 24 56-79 395-418 (1025)
474 COG0464 SpoVK ATPases of the A 24.7 52 0.0011 40.9 2.8 19 56-74 278-296 (494)
475 cd00071 GMPK Guanosine monopho 24.5 43 0.00094 34.4 1.8 13 57-69 2-14 (137)
476 PRK11773 uvrD DNA-dependent he 24.5 1.6E+02 0.0035 38.6 7.4 25 56-81 24-48 (721)
477 PRK11827 hypothetical protein; 24.2 19 0.00041 32.4 -0.8 47 1075-1135 1-49 (60)
478 PF09848 DUF2075: Uncharacteri 24.1 68 0.0015 38.2 3.6 16 282-297 82-97 (352)
479 cd01127 TrwB Bacterial conjuga 24.1 69 0.0015 39.1 3.6 25 56-81 44-68 (410)
480 COG2256 MGS1 ATPase related to 24.0 57 0.0012 39.8 2.8 42 31-77 25-69 (436)
481 PRK14959 DNA polymerase III su 24.0 83 0.0018 40.6 4.4 38 34-73 20-57 (624)
482 PRK11823 DNA repair protein Ra 23.9 1.8E+02 0.004 36.0 7.3 23 56-78 82-104 (446)
483 PRK05703 flhF flagellar biosyn 23.7 78 0.0017 39.0 4.0 23 56-78 223-245 (424)
484 KOG0743 AAA+-type ATPase [Post 23.5 52 0.0011 40.5 2.4 42 34-77 209-256 (457)
485 COG0556 UvrB Helicase subunit 23.3 9.4E+02 0.02 30.9 12.7 53 623-699 497-553 (663)
486 COG0630 VirB11 Type IV secreto 23.3 91 0.002 36.8 4.3 32 40-77 134-165 (312)
487 PRK06620 hypothetical protein; 23.1 47 0.001 36.9 1.8 15 56-70 46-60 (214)
488 PRK11448 hsdR type I restricti 23.1 88 0.0019 43.2 4.6 55 624-701 758-814 (1123)
489 KOG0741 AAA+-type ATPase [Post 23.0 44 0.00096 41.9 1.7 49 18-69 221-271 (744)
490 TIGR02237 recomb_radB DNA repa 23.0 92 0.002 33.8 4.0 21 56-76 14-34 (209)
491 PF13671 AAA_33: AAA domain; P 22.8 48 0.001 33.3 1.7 13 57-69 2-14 (143)
492 cd01371 KISc_KIF3 Kinesin moto 22.8 68 0.0015 38.0 3.2 42 29-71 56-99 (333)
493 PRK11388 DNA-binding transcrip 22.8 65 0.0014 41.5 3.3 33 36-69 331-363 (638)
494 cd01125 repA Hexameric Replica 22.8 77 0.0017 35.4 3.5 24 56-79 3-26 (239)
495 PRK08727 hypothetical protein; 22.8 80 0.0017 35.4 3.6 14 56-69 43-56 (233)
496 PF13086 AAA_11: AAA domain; P 22.6 63 0.0014 34.8 2.6 41 253-296 165-205 (236)
497 PRK10919 ATP-dependent DNA hel 22.5 1.7E+02 0.0037 38.2 7.0 25 56-81 17-41 (672)
498 PRK09302 circadian clock prote 22.4 2.1E+02 0.0046 35.9 7.5 16 56-71 275-290 (509)
499 TIGR01448 recD_rel helicase, p 22.4 1.4E+02 0.003 39.3 6.2 36 27-71 320-355 (720)
500 COG1702 PhoH Phosphate starvat 22.3 95 0.002 37.2 4.1 40 33-81 131-170 (348)
No 1
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=8.1e-131 Score=1176.42 Aligned_cols=830 Identities=40% Similarity=0.672 Sum_probs=646.5
Q ss_pred CCCCCCCCceeeCCeeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhh
Q 000814 9 PNYRKPLNAYHVGGIQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQL 88 (1269)
Q Consensus 9 ~~~~~~~~~f~i~Gi~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~ 88 (1269)
+++.+|+.++.+ |+.|+|||+||+.|+.||.+|+++|++++ ++++||||||||||+|||++|+|+++++.+.+.
T Consensus 1 ~~s~~~~~~i~~-Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q-----~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~ 74 (945)
T KOG1132|consen 1 LNSKMPKIVINI-GVPVEFPFQPYPTQLAFMTRVLSCLDRKQ-----NGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPK 74 (945)
T ss_pred CCCCCcceEecc-CceeeccCCcchHHHHHHHHHHHHHHHhh-----hhhccCCCCCCccHHHHHHHHHHHHHhhccccc
Confidence 367888988888 99999999999999999999999999986 799999999999999999999999998877655
Q ss_pred ccccCCCCCcccccCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCC
Q 000814 89 ANISHSKPDTEAVTDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAY 168 (1269)
Q Consensus 89 ~~v~~~~~~~~~~~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~ 168 (1269)
+.+.+.+ .+|+| +.++..+++.+.+..++ .+....+|||||+||||+||+|||+|||+|+|
T Consensus 75 ~~~s~~~-------------~~~~p-~~~s~~~g~~s~e~~e~-----~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y 135 (945)
T KOG1132|consen 75 GKISERK-------------AGFIP-TQPSDSGGEKSEEAGEP-----IACYTGIPKIYYASRTHSQLTQVVRELRRTGY 135 (945)
T ss_pred cchhhhh-------------ccccC-CCCccCCCCchhhhcCc-----cccccCCceEEEecchHHHHHHHHHHHhhcCC
Confidence 5554433 13555 45555445544433221 12334699999999999999999999999999
Q ss_pred CccEEEEcccccccccccccccc---ChHHHHHHhhcCCCCCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhccccc
Q 000814 169 RVPMAVLASRKHYCTNKYVRDKE---NIDEECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVR 245 (1269)
Q Consensus 169 ~v~~~vL~SR~~~Cin~~v~~~e---~i~e~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~ 245 (1269)
+++|+||+||+|||+|++|++.. +.++.|+++..+ ..|.||...... .+....-.+++|||||+++|+...
T Consensus 136 ~vkmtVLgSReq~Cinpev~k~~~~~~~~~~C~k~~~~--~~C~f~~~~~~~----sl~~~l~~~i~DIEDLVk~Gk~~~ 209 (945)
T KOG1132|consen 136 RVKMTVLGSREQLCINPEVKKLEGNALQNHVCKKLVKS--RSCHFYKIVEEK----SLQPRLHDEIFDIEDLVKIGKKSR 209 (945)
T ss_pred CCceEEeecchhhccCHHHhhhhcchhhhhHHHhhccc--cccccccccccc----ccccccCCCcccHHHHHHhCccCc
Confidence 99999999999999999887653 235789998853 679988554433 344434456999999999999999
Q ss_pred CcHHHHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHH---HHHHHHHHh
Q 000814 246 GCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLL---KLQMELEQV 322 (1269)
Q Consensus 246 ~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~---~a~~eL~~l 322 (1269)
.||||.+|++.++|||||||||||+||.+|++++++++++|||||||||||+.|++..|++++..+|. .+..++.+.
T Consensus 210 ~CPYfaSR~l~edAdIIF~PYnYLiDp~iR~~~~v~LknsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~ 289 (945)
T KOG1132|consen 210 GCPYFASRELKEDADIIFCPYNYLIDPKIRRSHKVDLKNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQA 289 (945)
T ss_pred CCcchhhhhhcccCcEEEechhhhcCHhhhccccccccccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999966655 566777777
Q ss_pred hccCcchhHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHccccchhHHHHHHHHHHHHHHhhccccc
Q 000814 323 CSVNPMIYQPLIEMTQDLVGWIERRKATLAKREFQHFFSCWTGDKALRELQEANISRQCFPILLECATKAIKEATDTESE 402 (1269)
Q Consensus 323 ~~~~~~i~~~L~ell~~Ll~~L~~~k~~l~k~~~~~~~~~~~g~~~l~~L~e~~is~~~~~~Lle~l~k~I~~~~~~e~~ 402 (1269)
....+.++.++.++..++..||+...+.+.+....+++..|.+++++..+...|++...+++|.+++.+++......+..
T Consensus 290 ~~~~~~~~~pl~ev~~~l~s~l~~~~e~La~l~~~~~~~~~~~d~~~~~~~~~giT~~~~~~l~e~~~~a~~t~e~~~~i 369 (945)
T KOG1132|consen 290 VTKAAAIYEPLREVSLDLISWLELELEDLAKLKEILLFLEEAIDKVLLPLDDSGITRPGSPILYEEFAKALITSETAEKI 369 (945)
T ss_pred HhhhhhhcCchhhhhhccchhhhcchHHHHHHHHHHHHhhhhcchhccccccccccCCCcHHHHHHHHHhccCccccccc
Confidence 66666677888899999999998777778887777788889999888888888899888888888887654321111100
Q ss_pred -------cCccCC---------chHHHHHHHHHHHHHHHh---cCCCcchhhHHHhhh---hee-cCC-----CCCCCCc
Q 000814 403 -------LPHLSG---------MSVITLEGLFSSLTYFFS---RNGSHVSDYQLALQK---YIK-RDS-----KNPGGNW 454 (1269)
Q Consensus 403 -------~~~ls~---------~s~~~Le~l~~~L~~~~s---~~~~~i~dy~~~l~r---~i~-~d~-----~~~~~~~ 454 (1269)
..++.+ .+...+ +.+.+.++++ .++....++.+.... |.. .+. +.....|
T Consensus 370 ~~~~~~~v~~le~~~q~~~t~~~s~~~~--~~dlld~~fs~~~~~g~~~~~~~~~~e~s~~~~~~~d~~~~~~~~~~~v~ 447 (945)
T KOG1132|consen 370 VDSLDIAVQHLEGEKQGTATNTGSLWCI--FADLLDISFSVILQNGSFSSDASFSVEQSYSFGNHLDAPHVINANLGDVW 447 (945)
T ss_pred hhhHHHHHHHhhcccccchhcccchHHH--HHHHHHHHhhccccCCccccchhhhhhhhhcccccCCccccccccccccc
Confidence 011110 011101 1233444444 333322222111111 100 000 0001112
Q ss_pred ----------ceEEEEEecCHHHHHHHHHhc-cCeEEEecccCCChHhhHHhhCCCCCceeeCCCccCCCCcEEEEEccc
Q 000814 455 ----------THTLSLWCLNPAVVFKDVAEL-SLSIILTSGTLSPMNSFSSELGVQFGTCLEAPHVIDVDLQVLTSVIST 523 (1269)
Q Consensus 455 ----------~~~L~l~CLdPs~~f~~l~~~-~rSVILTSGTLSPl~~F~~eLGl~f~~~Le~phvi~~e~qvlv~vvs~ 523 (1269)
...+++||++|+..|++++.+ .++||||||||+|++.|..+||++|+..+|+||+|+. .|+|+.+|.+
T Consensus 448 ~~~~s~~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn~hii~~-~qv~~~vv~~ 526 (945)
T KOG1132|consen 448 KGKSSRKLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEFKIQLENPHIINK-SQVWVGVVPK 526 (945)
T ss_pred ccccccccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCccceeeecchhccc-cceEEEeecc
Confidence 145889999999999999987 7999999999999999999999999999999999985 5999999999
Q ss_pred CCCCccccccccccc----------------------------hHHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHH
Q 000814 524 GPDNYPLNASYKTAD----------------------------GYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQE 575 (1269)
Q Consensus 524 gP~n~~l~~Sy~~~d----------------------------sY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~ 575 (1269)
||.+..+..+|..++ +|.+|+++.+.|+..+.|.++...|++++|||. +.
T Consensus 527 Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~--k~ 604 (945)
T KOG1132|consen 527 GPDGAQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRS--KS 604 (945)
T ss_pred CCCccccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccCC--cc
Confidence 999999999887653 299999999999999999999999999999995 45
Q ss_pred HHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCCceEEEE-----
Q 000814 576 DFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL----- 650 (1269)
Q Consensus 576 e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII----- 650 (1269)
+|.++|..|+++|. . +...|++||||||||+||||||+|+.+|+|||
T Consensus 605 ~f~e~m~~y~~~i~-~---------------------------pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPy 656 (945)
T KOG1132|consen 605 EFTEVMSRYYNAIA-D---------------------------PESSGAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPY 656 (945)
T ss_pred chHHHHHHHHHHhh-C---------------------------ccccceEEEEEecccccCCCCccccCCceeEEecCCC
Confidence 79999999998772 1 12359999999999999999999999999999
Q ss_pred ----------eccccchhhhhcc----cCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHHHHH
Q 000814 651 ----------KKKYNDTYRSSKN----LLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHISKWL 716 (1269)
Q Consensus 651 ----------K~~y~d~~~~sk~----~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wl 716 (1269)
|+.|+|.+...+. .+.|.+||..+|+|||||||||+|||++|||+|+|+|.||.+..-+..+|+|+
T Consensus 657 P~~~D~~V~lK~~y~D~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~~~~~lskw~ 736 (945)
T KOG1132|consen 657 PPVMDPRVKLKKQYLDENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENADARSQLSKWI 736 (945)
T ss_pred CCCCCHHHHHHHHhhhhhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCccccccchhh
Confidence 6678777665443 56799999999999999999999999999999999999999887777789997
Q ss_pred HhhcccCCChhhhHHHHHHHHHHhhcccCccccccccCCCCCcCCCCccccchhhhhhcccccccCCCCCCcccccccCC
Q 000814 717 RKSIKQYDSFDASLEGLKSFFRDVKGWVGKKMFNGLENSDNDVDHVSSMDQCKEVTKQNTQELNKSDHSGQNVQSISKYD 796 (1269)
Q Consensus 717 r~~l~~~~~f~~~l~~l~~FF~~~k~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 (1269)
|...
T Consensus 737 r~~~---------------------------------------------------------------------------- 740 (945)
T KOG1132|consen 737 RSVK---------------------------------------------------------------------------- 740 (945)
T ss_pred hccc----------------------------------------------------------------------------
Confidence 6300
Q ss_pred CCccccccCccceeccccccCCCchhhhhhhhhccCCCCCccccCCCCcccccccccCCCCCcccccccccccCCCCCCc
Q 000814 797 PFSHQKSQGNFEVQTSLQTDQNNSCIEYIDLERMNDKNNHSIDSSKGSTRKENKKLNSYDNSGQKLHSSVKYDSFPGLNL 876 (1269)
Q Consensus 797 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 876 (1269)
T Consensus 741 -------------------------------------------------------------------------------- 740 (945)
T KOG1132|consen 741 -------------------------------------------------------------------------------- 740 (945)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhhhhhhhhhhcccccccccccccccccCCCCccccccCCCCCCCCccccccccccCCCCCCcccCCCCcCCCCCCcchh
Q 000814 877 LDEVEVQEFVQLDRVSSCKDYINTQCSLQKSSRCCEASSMPFSNEDPELLLVKETPAMDDNNTMASPGSLSKDGNSSSTI 956 (1269)
Q Consensus 877 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 956 (1269)
|| +|+|+
T Consensus 741 -------------------------~~----~~~~~-------------------------------------------- 747 (945)
T KOG1132|consen 741 -------------------------CD----SRYCE-------------------------------------------- 747 (945)
T ss_pred -------------------------cc----ccccc--------------------------------------------
Confidence 00 11111
Q ss_pred hcccCCCCCccccccccccCCCCCCCCCCCCccccccccccCCCCCCCCCCCCccccccchhhhhhccCCCCCchhhhhh
Q 000814 957 FQASTQSPDQLSVHSQSLTNPVRVPSSAQPEMVVTPEKEVTGDTSNLPPERDSSLSSSVNSHTQKRRKTMVSPSVDLMLM 1036 (1269)
Q Consensus 957 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1036 (1269)
T Consensus 748 -------------------------------------------------------------------------------- 747 (945)
T KOG1132|consen 748 -------------------------------------------------------------------------------- 747 (945)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hcccccccccccccccccccccCCCCcccccccCCcccccccceeeeccccCCCCCCCCCeeeEEeecCchhHHHHHHHh
Q 000814 1037 ASREANRRIEFNSETNYVKNKSKTSNNCAESHLSSTPVMDKTLQISCSLCRSPLGLPENHLYVRCSVTSSAKAHLVSLLK 1116 (1269)
Q Consensus 1037 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1116 (1269)
+.|++|+...++++|+-+-.|..+.+.+.+...|++
T Consensus 748 --------------------------------------------~~~~~~r~~r~~~~nn~~~~~~~~~~~~~~~l~~v~ 783 (945)
T KOG1132|consen 748 --------------------------------------------VISSLARKFRTHRSNNSATLVTEQENNITSPLLLVK 783 (945)
T ss_pred --------------------------------------------ccchhhhhhhcccccccccccchhhcccccchhhhh
Confidence 223333333344444444444444444444444444
Q ss_pred hhhccccCcccccEEeccchhhhhhhhccccCCCCCCcccccCCCeeeecccccCCCCCCCceee-EEEeecchhHHHHH
Q 000814 1117 QRQELCANVTSIPVIMTDISSVDQLLTNQSFGGASGQGIWCEEDGCVYNTLFCPFCSSPSNCLGV-QIVASNALNFQLLN 1195 (1269)
Q Consensus 1117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 1195 (1269)
..-...+ ..++|.++++|.+||++|+ +++.+.++|.||..|||||++++||||+.||+|+|+ |||++|++|+|++.
T Consensus 784 ~t~~~p~--k~~~v~~s~~s~~~~~~a~-k~e~~~~~~~W~~~~~~~~~~~~k~~~s~P~~~~~~~~v~~~ds~~~q~~s 860 (945)
T KOG1132|consen 784 STEDSPS--KNVGVPQSECSRVEAPLAN-KAEKLNGQGKWVRQDGCVFLTILKPFGSIPNTCLGMKQVKSYDSEFVQFLS 860 (945)
T ss_pred hcccCcc--cccccccchhhhhcchhhc-cchhcccccceeecCcccccccccccccCCccccchhheeeccCcchhhhh
Confidence 4333222 5788999999999999999 999999999999999999999999999999999998 99999999999999
Q ss_pred hhhhhcccccccccCCccccccc--CCCCCccCccccchhhccccccccc-CccccCCCccccccc
Q 000814 1196 KILFYLDRLEIRIPESGKFKSEA--KDSSPITHSAMDKVAAFSCIEKFSY-SPILEDSGGWRSTKS 1258 (1269)
Q Consensus 1196 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1258 (1269)
+|++|.|++|+++++++.-.... +.--|...-.+.++..+.+.|.++| ..+++-..||+..+.
T Consensus 861 ~il~f~~~~e~~~~a~~~~t~~l~~k~~~~~~~~~~~~S~~~~~~~~~~f~~~l~~~~~~~~~~~~ 926 (945)
T KOG1132|consen 861 SILFFISVREVTISAAKENTTGLKKKSKLPESIKSALSSELLSSEDYKAFGTYLQQYKKGERKLKN 926 (945)
T ss_pred hhHHHHhHHHhhccCCCcccccccccccCCcccccccchhhcCchhHHHHhHhHHHhcccccchhh
Confidence 99999999999999888444221 2211222334556678888999998 777888889988775
No 2
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=3.6e-95 Score=849.95 Aligned_cols=646 Identities=30% Similarity=0.512 Sum_probs=471.2
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhh----------cccc
Q 000814 23 IQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQL----------ANIS 92 (1269)
Q Consensus 23 i~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~----------~~v~ 92 (1269)
+++.|||+||++|++||+.+|.+|++| + ++||||||||||||++||+||.|+..++.+... +++.
T Consensus 8 ~~F~fPy~PYdIQ~~lM~elyrvLe~G----k-IgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~ 82 (821)
T KOG1133|consen 8 IEFPFPYTPYDIQEDLMRELYRVLEEG----K-IGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLH 82 (821)
T ss_pred cccCCCCCchhHHHHHHHHHHHHHhcC----C-eeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCccc
Confidence 789999999999999999999999975 3 899999999999999999999999987665321 1111
Q ss_pred CCCCCcc----ccc---------------------------------CcCC---CC-----CCCCCCCCC----CCCCCC
Q 000814 93 HSKPDTE----AVT---------------------------------DPLA---NG-----GGFIPESQP----STIPPS 123 (1269)
Q Consensus 93 ~~~~~~~----~~~---------------------------------~p~~---~~-----~~~~~e~~~----St~~~s 123 (1269)
..+.++. |.+ +|.. .+ -+..++... -+.|+.
T Consensus 83 d~kde~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg~ 162 (821)
T KOG1133|consen 83 DEKDESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPGR 162 (821)
T ss_pred cccccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCccc
Confidence 1111111 100 0000 00 011111100 011110
Q ss_pred Cc-h---hhHHHhhhccc-----ccccCCCeEEEeccchhhHHHHHHHHHhcC--CCccEEEEccccccccccccccc--
Q 000814 124 TN-G---QTAQVAMNNKN-----VKKKMTPTIFYASRTHSQISQVISEYKKTA--YRVPMAVLASRKHYCTNKYVRDK-- 190 (1269)
Q Consensus 124 ~~-l---q~~~~~~~~~~-----~~~k~~pKIiYaSRTHSQLsQvIrELRk~~--~~v~~~vL~SR~~~Cin~~v~~~-- 190 (1269)
.. + +..+...+.+. ..+....||||||||||||.|++.||||+. .+++++.|+||++||+|+.|++.
T Consensus 163 ~eq~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt~f~~~vr~vsL~SRk~LCiNe~V~Klk~ 242 (821)
T KOG1133|consen 163 LEQLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKTPFGKKVRSVSLGSRKNLCINEDVKKLKS 242 (821)
T ss_pred hhhhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhcccccCceEEeecchhhcccCHHhccccc
Confidence 00 0 00000000000 011123699999999999999999999994 47999999999999999999875
Q ss_pred -cChHHHHHHhhcCCC----------------CCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhcccccCcHHHHHH
Q 000814 191 -ENIDEECKLLLGDRN----------------LGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSYYAAR 253 (1269)
Q Consensus 191 -e~i~e~C~~L~~~~~----------------~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPYy~aR 253 (1269)
..+|+.|..|++.+. ..||+|... .+. .+++..+.++.|||||+..|+..+.||||.+|
T Consensus 243 ~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~-q~~---~~rd~~l~e~~DiEdLv~lGk~~~~CPYY~SR 318 (821)
T KOG1133|consen 243 VDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHT-QME---DLRDEALSEVLDIEDLVALGKELRGCPYYASR 318 (821)
T ss_pred hhHHHHHHHHHHhccCcccccccchhcccccccCCCccchh-HHH---HHHHHHhhhhccHHHHHHhhhhcCCCCchhhh
Confidence 468999999986532 259998332 111 24444566899999999999999999999999
Q ss_pred HHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhh--------cc
Q 000814 254 SMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVC--------SV 325 (1269)
Q Consensus 254 ~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~--------~~ 325 (1269)
++++.||||++||.+||+...|.+++|.++++||||||||||.|.+.+++|.+|+..+|..+...+.++. ..
T Consensus 319 ~avp~aqlV~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~rl~~~ 398 (821)
T KOG1133|consen 319 RAVPQAQLVTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGKRLKAK 398 (821)
T ss_pred hccccccEEeccHHHHHhHHHHHhcCccccccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHHhhCcc
Confidence 9999999999999999999999999999999999999999999999999999999999999888776543 23
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHccccchhHHHHHHHHHHH-H-HHh-------
Q 000814 326 NPMIYQPLIEMTQDLVGWIERRKATLAKREFQHFFSCWTGDKALRELQEANISRQCFPILLECATKA-I-KEA------- 396 (1269)
Q Consensus 326 ~~~i~~~L~ell~~Ll~~L~~~k~~l~k~~~~~~~~~~~g~~~l~~L~e~~is~~~~~~Lle~l~k~-I-~~~------- 396 (1269)
+.+.++++..++..|+.++....+... +.+..+ -.++|...+|+..++..|++++.+. | +..
T Consensus 399 N~~~l~ql~~l~~~ll~fl~~~~~~~~--~~~~~~-------~~dfl~~~~id~iNL~kl~~Yi~~S~i~rKv~G~~~r~ 469 (821)
T KOG1133|consen 399 NLMYLKQLLSLLRRLLKFLDSNCELNG--NGESLM-------RNDFLFSSGIDNINLFKLLDYIEKSKIARKVDGFGERL 469 (821)
T ss_pred chhHHHHHHHHHHHHHHHHHhhhhhCC--cccccc-------hhhhhhhcCccceeHHHHHHHHHHhhHHHHhcchhhcc
Confidence 445667888888888888776543221 101000 0123334455555555554443221 0 000
Q ss_pred h-------------cccc-ccCccCCchHHHHHHHHHHHHHHHhcCCCcchhhHHHhhhheecCCCCCCCCcceEEEEEe
Q 000814 397 T-------------DTES-ELPHLSGMSVITLEGLFSSLTYFFSRNGSHVSDYQLALQKYIKRDSKNPGGNWTHTLSLWC 462 (1269)
Q Consensus 397 ~-------------~~e~-~~~~ls~~s~~~Le~l~~~L~~~~s~~~~~i~dy~~~l~r~i~~d~~~~~~~~~~~L~l~C 462 (1269)
. ..+. +...+.......++.++..|+.- ..+|.. ++++. + ..+|+|+.
T Consensus 470 ~~~~s~plq~l~~~~~~~~ee~~~~ps~l~~l~~FL~~LTn~-~~dGri----------~~~k~-----~--s~~lky~l 531 (821)
T KOG1133|consen 470 SEVFSQPLQSLQKKRVEAEEESQLKPSPLFELSSFLGALTNN-NEDGRI----------FYSKQ-----G--SGTLKYML 531 (821)
T ss_pred hhhccchhhHhhhccccchhcccCCCchhHHHHHHHHHHhCC-CCCCcE----------EEecc-----C--CceEEEEe
Confidence 0 0000 00001111233444454444422 112211 22221 1 15799999
Q ss_pred cCHHHHHHHHHhccCeEEEecccCCChHhhHHhhCCCCC---ceeeCCCccCCCCcEEEEEcccCCCCccccccccccch
Q 000814 463 LNPAVVFKDVAELSLSIILTSGTLSPMNSFSSELGVQFG---TCLEAPHVIDVDLQVLTSVISTGPDNYPLNASYKTADG 539 (1269)
Q Consensus 463 LdPs~~f~~l~~~~rSVILTSGTLSPl~~F~~eLGl~f~---~~Le~phvi~~e~qvlv~vvs~gP~n~~l~~Sy~~~ds 539 (1269)
|+|+..|.+++.++|+|||.+|||.|++.|...|+-..+ ..+.+.||||++ ++++.+|+.||.|.|+.|+|.++++
T Consensus 532 L~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e-~il~~vv~~gpsg~p~eftf~~R~s 610 (821)
T KOG1133|consen 532 LNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPE-NILPLVVSSGPSGQPLEFTFETRES 610 (821)
T ss_pred cCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChh-heeeeeeccCCCCCceEEEeeccCC
Confidence 999999999999999999999999999999998865322 347899999976 7889999999999999999987642
Q ss_pred ----------------------------HHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcC
Q 000814 540 ----------------------------YKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQG 591 (1269)
Q Consensus 540 ----------------------------Y~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg 591 (1269)
|+||.++..+|.+.|+..+|...|.||.|+++. .+.+++.|..++.+
T Consensus 611 ~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~----~~dvl~~Ya~a~~~- 685 (821)
T KOG1133|consen 611 PEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT----VEDVLEGYAEAAER- 685 (821)
T ss_pred hHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc----HHHHHHHHHHHhhc-
Confidence 999999999999999999999999999999986 47799999876632
Q ss_pred CchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCCceEEEE-eccccchhh----------h
Q 000814 592 SKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYR----------S 660 (1269)
Q Consensus 592 ~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~----------~ 660 (1269)
+.||+||||+|||+||||||.|++||+||+ -.||..... .
T Consensus 686 -----------------------------g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~ 736 (821)
T KOG1133|consen 686 -----------------------------GRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLD 736 (821)
T ss_pred -----------------------------CCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhh
Confidence 239999999999999999999999999999 555542110 0
Q ss_pred h--cccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHHHHHHhhcccCCChhhhHHHHHHHHH
Q 000814 661 S--KNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHISKWLRKSIKQYDSFDASLEGLKSFFR 738 (1269)
Q Consensus 661 s--k~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr~~l~~~~~f~~~l~~l~~FF~ 738 (1269)
. +..-.|++||+.-||+||||+|||+|||.+||++|+|+|.||.++.. .+||+|+++.+..-.+|++++..++.||+
T Consensus 737 ~k~~~~gagke~yEnlCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~~-RKLp~WI~~~v~s~~~~G~~ir~~~~ff~ 815 (821)
T KOG1133|consen 737 GKLPTPGAGKELYENLCMKAVNQSIGRAIRHRKDYASIYLLDKRYARPLS-RKLPKWIRKRVHSKAGFGPAIRATRKFFR 815 (821)
T ss_pred hccCCCCchHHHHHHHHHHHHHHHHHHHHhhhccceeEEEehhhhcCchh-hhccHHHHhHhccccCccHHHHHHHHHHH
Confidence 0 11114889999999999999999999999999999999999995544 49999999999888899999999999998
Q ss_pred Hh
Q 000814 739 DV 740 (1269)
Q Consensus 739 ~~ 740 (1269)
..
T Consensus 816 ~k 817 (821)
T KOG1133|consen 816 AK 817 (821)
T ss_pred Hh
Confidence 74
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=4.8e-94 Score=899.62 Aligned_cols=598 Identities=29% Similarity=0.472 Sum_probs=425.5
Q ss_pred eeecCCCCC-CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccc
Q 000814 23 IQVEFPYQP-YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAV 101 (1269)
Q Consensus 23 i~v~FPY~P-Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~ 101 (1269)
+.|.|||+| ||+|++||++|+++|+++ +|+|+|||||||||+|+|||||+|+.+.+
T Consensus 2 ~~v~FPy~~~y~~Q~~~m~~v~~~l~~~-----~~~llEsPTGtGKTlslL~~aL~~~~~~~------------------ 58 (705)
T TIGR00604 2 LLVYFPYEKIYPEQRSYMRDLKRSLDRG-----DEAILEMPSGTGKTISLLSLILAYQQEKP------------------ 58 (705)
T ss_pred CceecCCCCCCHHHHHHHHHHHHHhccC-----CceEEeCCCCCCccHHHHHHHHHHHHhcc------------------
Confidence 579999987 999999999999999975 48999999999999999999999986421
Q ss_pred cCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC----------CCcc
Q 000814 102 TDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA----------YRVP 171 (1269)
Q Consensus 102 ~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~----------~~v~ 171 (1269)
..+|||||||||+|+.|+++|||++. -.++
T Consensus 59 ----------------------------------------~~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~~~~~~i~ 98 (705)
T TIGR00604 59 ----------------------------------------EVRKIIYASRTHSQLEQATEELRKLMSYRTPRIGEESPVS 98 (705)
T ss_pred ----------------------------------------ccccEEEEcccchHHHHHHHHHHhhhhccccccccCCcee
Confidence 35789999999999999999999964 1368
Q ss_pred EEEEccccccccccccccc---cChHHHHHHhhcCC----------CCCCchhhhhhhhcCCCCcCCCCCCcccChhhHH
Q 000814 172 MAVLASRKHYCTNKYVRDK---ENIDEECKLLLGDR----------NLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLV 238 (1269)
Q Consensus 172 ~~vL~SR~~~Cin~~v~~~---e~i~e~C~~L~~~~----------~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~ 238 (1269)
+++|+||++||+|+.+... ..+++.|+.++..+ ...|+||.+..... .+.+....+++|+|||+
T Consensus 99 ~v~L~SR~~lCin~~v~~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~C~yy~~~~~~~---~~~~~~~~~~~diEdL~ 175 (705)
T TIGR00604 99 GLSLASRKNLCLHPEVSKERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENFDELR---EVEDLLLSEIMDIEDLV 175 (705)
T ss_pred EEEechHhhcccChHHHhhcchhhHHHHHHHHHhhhhcccccccCCCCCCCCCchhhhhh---hhhhhcccCCCCHHHHH
Confidence 8999999999999998653 34677999886421 23599998865421 11122234699999999
Q ss_pred hhcccccCcHHHHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHH
Q 000814 239 NVGQVVRGCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQME 318 (1269)
Q Consensus 239 ~~g~~~~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~e 318 (1269)
++|++++.||||++|+++++|||||+||||||||.+|+.+++++++.||||||||||+|+|++++|++|+..+|..+.++
T Consensus 176 ~~g~~~~~CPY~~sr~~~~~advIi~pYnyl~dp~~r~~~~~~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~ 255 (705)
T TIGR00604 176 EYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKE 255 (705)
T ss_pred HhcccCCCCccHHHHHhhhcCCEEEechHHhcCHHHHHHhhcccccCEEEEECccchHHHHHHHHhcccCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccC-----cchhHHHHHHHHHHHHHHHHHHH-H----hhh-----hhh--hccccccchHH-HHHHHHHccccch
Q 000814 319 LEQVCSVN-----PMIYQPLIEMTQDLVGWIERRKA-T----LAK-----REF--QHFFSCWTGDK-ALRELQEANISRQ 380 (1269)
Q Consensus 319 L~~l~~~~-----~~i~~~L~ell~~Ll~~L~~~k~-~----l~k-----~~~--~~~~~~~~g~~-~l~~L~e~~is~~ 380 (1269)
+.++.... ... ..+.+.+..++..+.+... . ... ..+ ........... .+..+.+......
T Consensus 256 l~~~~~~~~~~~~~~~-~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 334 (705)
T TIGR00604 256 IAEYFEKIEERKEVDA-RKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLK 334 (705)
T ss_pred HHHHHHHHHHhhccch-HHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCchHHHHHHHHHHHHHHH
Confidence 88764311 000 1111122222222221100 0 000 000 00000000000 0000000000000
Q ss_pred hHHHHHHHHHHHHHHhhccccccCccCCchH---HHHHH------------------HHHHHHHHHhcCCCcchhhHHHh
Q 000814 381 CFPILLECATKAIKEATDTESELPHLSGMSV---ITLEG------------------LFSSLTYFFSRNGSHVSDYQLAL 439 (1269)
Q Consensus 381 ~~~~Lle~l~k~I~~~~~~e~~~~~ls~~s~---~~Le~------------------l~~~L~~~~s~~~~~i~dy~~~l 439 (1269)
....+.....+......+...+...+..... ..+.. ++....+...... .|....
T Consensus 335 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ 410 (705)
T TIGR00604 335 DALKVLGVVSELPDAFLEHLKEKTFIDRPLRFCSERLSNLLRELEITHPEDFSALVLLFTFATLVLTYTN----GFLEGI 410 (705)
T ss_pred HHHHHHHHHHhhHHHHHHHhhhhcccchhhhHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHhcc----ccccce
Confidence 0000000000000000000000000000000 00000 0000000000000 000000
Q ss_pred hhheecCCCCCCCCcceEEEEEecCHHHHHHHHHhccCeEEEecccCCChHhhHHhhCCCCCceeeCCCccCCCCcEEEE
Q 000814 440 QKYIKRDSKNPGGNWTHTLSLWCLNPAVVFKDVAELSLSIILTSGTLSPMNSFSSELGVQFGTCLEAPHVIDVDLQVLTS 519 (1269)
Q Consensus 440 ~r~i~~d~~~~~~~~~~~L~l~CLdPs~~f~~l~~~~rSVILTSGTLSPl~~F~~eLGl~f~~~Le~phvi~~e~qvlv~ 519 (1269)
. .+.. .+.....|++|||||+.+|+.+++.++|||||||||+|+++|.++||++++...+.+|+|+++ |+++.
T Consensus 411 ~-~~~~-----~~~~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~-~~~~~ 483 (705)
T TIGR00604 411 E-PYEN-----KTVPNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRE-NLLTL 483 (705)
T ss_pred e-Eeec-----CCCCCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhCCCCccceecCcccchH-HeEEE
Confidence 0 0000 112235799999999999999999999999999999999999999999988878889999864 88888
Q ss_pred EcccCCCCccccccccccc----------------------------hHHHHHHHHHHHHHcCccchhccCCcEEEecCC
Q 000814 520 VISTGPDNYPLNASYKTAD----------------------------GYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKG 571 (1269)
Q Consensus 520 vvs~gP~n~~l~~Sy~~~d----------------------------sY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~ 571 (1269)
+++.+|++.++.++|..++ +|.+|+++++.|.+.|.|.++...|+||+|+++
T Consensus 484 i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~ 563 (705)
T TIGR00604 484 IVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD 563 (705)
T ss_pred EEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC
Confidence 9999998888888876552 399999999999999999998888999999997
Q ss_pred CCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCCceEEEE-
Q 000814 572 GSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL- 650 (1269)
Q Consensus 572 ~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII- 650 (1269)
+ .+++.++++|++.+. .++|+||||||||||||||||+|+.+|+|||
T Consensus 564 ~--~~~~~~l~~f~~~~~------------------------------~~~gavL~av~gGk~sEGIDf~~~~~r~Viiv 611 (705)
T TIGR00604 564 A--QETSDALERYKQAVS------------------------------EGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMV 611 (705)
T ss_pred c--chHHHHHHHHHHHHh------------------------------cCCceEEEEecCCcccCccccCCCCCcEEEEE
Confidence 6 467889999987652 1248999999999999999999999999999
Q ss_pred ecccc---chhhhh-------cccCCCC-cchHHHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHHHHHHhh
Q 000814 651 KKKYN---DTYRSS-------KNLLSGN-EWYCNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHISKWLRKS 719 (1269)
Q Consensus 651 K~~y~---d~~~~s-------k~~~~G~-~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr~~ 719 (1269)
+.||. ++.... +...+|+ .||.++|||+||||+||+|||++|||+|+|+|+||.+.++++.||+||+..
T Consensus 612 GlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~ 691 (705)
T TIGR00604 612 GIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDT 691 (705)
T ss_pred ccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhh
Confidence 77873 222111 1123566 899999999999999999999999999999999999999999999999999
Q ss_pred cccCCChhhhH
Q 000814 720 IKQYDSFDASL 730 (1269)
Q Consensus 720 l~~~~~f~~~l 730 (1269)
+...+++++++
T Consensus 692 ~~~~~~~~~~i 702 (705)
T TIGR00604 692 IQSSDLNGMAI 702 (705)
T ss_pred ccccCCCcchh
Confidence 99888877654
No 4
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.5e-72 Score=640.52 Aligned_cols=624 Identities=28% Similarity=0.436 Sum_probs=421.0
Q ss_pred CceeeCCeeecCCCC-CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCC
Q 000814 16 NAYHVGGIQVEFPYQ-PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHS 94 (1269)
Q Consensus 16 ~~f~i~Gi~v~FPY~-PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~ 94 (1269)
+.|.|+|+.|.|||. .||+|.+||.++..+|+.+ .|+|||+|+|||||.+||.-.++|+.+++.
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDak-----Gh~llEMPSGTGKTvsLLSli~aYq~~~p~---------- 65 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAK-----GHCLLEMPSGTGKTVSLLSLIIAYQLHYPD---------- 65 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccC-----CcEEEECCCCCCcchHHHHHHHHHHHhCCc----------
Confidence 468999999999996 8999999999999999975 388999999999999999999999987521
Q ss_pred CCCcccccCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc--------
Q 000814 95 KPDTEAVTDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT-------- 166 (1269)
Q Consensus 95 ~~~~~~~~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~-------- 166 (1269)
...|++|||||.+++..++.||+++
T Consensus 66 -----------------------------------------------~~~KliYCSRTvpEieK~l~El~~l~~y~~k~~ 98 (755)
T KOG1131|consen 66 -----------------------------------------------EHRKLIYCSRTVPEIEKALEELKRLMDYREKHL 98 (755)
T ss_pred -----------------------------------------------ccceEEEecCcchHHHHHHHHHHHHHHHHHHhc
Confidence 2458999999999999999999885
Q ss_pred CCCccE--EEEcccccccccccccccc---ChHHHHHHhhcC---------CC-CCCchhhhhhhhcCCCCcCCCCCCcc
Q 000814 167 AYRVPM--AVLASRKHYCTNKYVRDKE---NIDEECKLLLGD---------RN-LGCPQFKNVHKVRGHPSLQKGGCHEV 231 (1269)
Q Consensus 167 ~~~v~~--~vL~SR~~~Cin~~v~~~e---~i~e~C~~L~~~---------~~-~~C~yy~n~~~~~~~~~l~~~~~~~v 231 (1269)
|+.+++ ..|.||+|+|+|+.+.... ..+.+|+.|... .+ ..|.||.|+... ...+ ..++
T Consensus 99 g~~~~flglglssRKNlCi~~~v~~~r~g~~VD~~Cr~ltas~vr~~~~ed~~~~~C~f~en~~~~--~~~l----p~gv 172 (755)
T KOG1131|consen 99 GYPEPFLGLGLSSRKNLCIHPEVLKERNGNVVDAACRKLTASYVRAKLAEDPNVELCDFFENLEDK--ESLL----PVGV 172 (755)
T ss_pred CCCCceeeeeeccccccccCHHHHHHhcCCchhHHHHHHhHHHHHHHHhcCCCcchhhHHhhhhcc--cccC----Cccc
Confidence 566555 4688999999999997653 478999988741 11 469999998651 1112 3479
Q ss_pred cChhhHHhhcccccCcHHHHHHHHhccCcEEEecccccccHhhhhhhccCC-CccEEEecccccHHHHHHHhcccccCHH
Q 000814 232 HDIEDLVNVGQVVRGCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDI-KGAILILDEAHNIEDIARDAGSVDIDED 310 (1269)
Q Consensus 232 ~DiEdL~~~g~~~~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l-~~~ivIfDEAHNLed~a~d~~S~~IS~~ 310 (1269)
++.|||.++|++.+.||||.+|+++..|+|||-+|+||+||.|.+.+...+ ++++|||||||||..+|.+..|+.|+..
T Consensus 173 y~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYllDPkIa~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~ 252 (755)
T KOG1131|consen 173 YTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYLLDPKIAELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRR 252 (755)
T ss_pred ccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhhcChHHHHHHHHhhCcCcEEEecccccccchhhhhhhhhhhHH
Confidence 999999999999999999999999999999999999999999887665544 6899999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcc-------Cc-chhHHHHHHHHHHHHHHHHHHHHhhhhhhhccccc-cchHHHHHHHHHccccc--
Q 000814 311 VLLKLQMELEQVCSV-------NP-MIYQPLIEMTQDLVGWIERRKATLAKREFQHFFSC-WTGDKALRELQEANISR-- 379 (1269)
Q Consensus 311 ~L~~a~~eL~~l~~~-------~~-~i~~~L~ell~~Ll~~L~~~k~~l~k~~~~~~~~~-~~g~~~l~~L~e~~is~-- 379 (1269)
.|+++.+.|..+... +. .+..+..+++++|.. ... ..+-+.+..+ .-.++.+.+..--+|.+
T Consensus 253 ~l~ra~~~l~~l~~~v~r~k~~d~~kl~~eY~klvegL~~----~~~---~~~~d~~lanPvLP~dvl~EavPGniR~ae 325 (755)
T KOG1131|consen 253 TLERASRNLNSLEQLVNRVKETDSQKLQDEYEKLVEGLKD----ASA---ERDEDQFLANPVLPDDVLKEAVPGNIRRAE 325 (755)
T ss_pred HHHHHHHHHHHHHHHHHhhhhcchhHHHHHHHHHHHHhhc----ccc---ccCccchhcCCCCchhhhhhhCCcchhhHH
Confidence 999988777655321 11 111122223333221 000 0000001100 00011111100001100
Q ss_pred ---hhHHHHHHHHHHHHHHh-hccccccCccCCc-------------hHHHHHHHHHHHHHHHhcCC---CcchhhH---
Q 000814 380 ---QCFPILLECATKAIKEA-TDTESELPHLSGM-------------SVITLEGLFSSLTYFFSRNG---SHVSDYQ--- 436 (1269)
Q Consensus 380 ---~~~~~Lle~l~k~I~~~-~~~e~~~~~ls~~-------------s~~~Le~l~~~L~~~~s~~~---~~i~dy~--- 436 (1269)
..+..+++++...++.. ...|+...+++.+ -..+|..+..+|..--..+- ..+.+|.
T Consensus 326 HFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~i~~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~l~~v~~faTlV 405 (755)
T KOG1131|consen 326 HFVSFLKRLLEYLKTRLKVHHVIQESPASFLKSIKSLTFIERKPLRFCAERLSSLVRTLEITDVEDFGALKTVADFATLV 405 (755)
T ss_pred HHHHHHHHHHHHHHHhhhheeeeccCcHHHHHHHHHhhhhhccchHHHHHHHHHHHHHhccCchhhhhHHHHHHHHHHHH
Confidence 01222333322221110 0000000000000 00011111111000000000 0001111
Q ss_pred ----HHhhhhee-cCCCCCCCCcceEEEEEecCHHHHHHHHHhccCeEEEecccCCChHhhHHhhCCC------CCceee
Q 000814 437 ----LALQKYIK-RDSKNPGGNWTHTLSLWCLNPAVVFKDVAELSLSIILTSGTLSPMNSFSSELGVQ------FGTCLE 505 (1269)
Q Consensus 437 ----~~l~r~i~-~d~~~~~~~~~~~L~l~CLdPs~~f~~l~~~~rSVILTSGTLSPl~~F~~eLGl~------f~~~Le 505 (1269)
..+...++ .|..+| .-....|++.|+|++.+++.++++++|||+|||||+|++.|-++|... +...+-
T Consensus 406 stY~kGF~iIiEPfd~~~~-tv~npil~~sClDaSiAikPVf~RFqsViITSGTlspldmyPk~lnf~pv~~~s~~mtLa 484 (755)
T KOG1131|consen 406 STYSKGFSIIIEPFDDRNP-TVPNPILRFSCLDASIAIKPVFERFQSVIITSGTLSPLDMYPKILNFGPVVGASFTMTLA 484 (755)
T ss_pred HHHhcCcEEEEcccccCCC-CCCCCeeEEeecccchhhhHHHHhhheEEEecCcccccccCchhhccCcccchhhheecc
Confidence 11111222 121222 122468999999999999999999999999999999999999887553 111111
Q ss_pred ----CCCccCCCC-cEEEE---------EcccCCCCcccccccccc-------chHHHHHHHHHHHHHcCccchhccCCc
Q 000814 506 ----APHVIDVDL-QVLTS---------VISTGPDNYPLNASYKTA-------DGYKLMEKLCNRWRETGQWSRLNAKKP 564 (1269)
Q Consensus 506 ----~phvi~~e~-qvlv~---------vvs~gP~n~~l~~Sy~~~-------dsY~~Le~l~~~w~e~g~~srI~~~K~ 564 (1269)
.|-++...+ |+.+. .|-+.-|+.+..++...+ .+|-||+.++..|.+.|++..+-+.|.
T Consensus 485 R~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~ei~k~KL 564 (755)
T KOG1131|consen 485 RNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDEIMKYKL 564 (755)
T ss_pred cccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHHHhhCce
Confidence 122222111 22110 000111223333443333 359999999999999999999999999
Q ss_pred EEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCC
Q 000814 565 LFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNIN 644 (1269)
Q Consensus 565 IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~ 644 (1269)
+|+|.++. .+...+++.|..++. .+.|||||+|+|||+||||||.+++
T Consensus 565 ~fIetpD~--~ETs~al~ny~~aC~------------------------------~gRGavl~sVargkVsEgidF~hhy 612 (755)
T KOG1131|consen 565 LFIETPDF--RETSLALANYRYACD------------------------------NGRGAVLLSVARGKVSEGIDFDHHY 612 (755)
T ss_pred EEEeCCch--hhhHHHHHHHHHHhc------------------------------CCCCceEEEEecCccccCccccccc
Confidence 99998875 344567888887652 2359999999999999999999999
Q ss_pred ceEEEE-eccccc----------hhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHH
Q 000814 645 DIQVSL-KKKYND----------TYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHIS 713 (1269)
Q Consensus 645 lR~VII-K~~y~d----------~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp 713 (1269)
+|+||+ -.||.. .+......+..++|..++|||...||.||+||.++|||..|+.|+||....-+..||
T Consensus 613 GR~ViM~gIP~qytesriLkarle~Lrd~~~irE~dflTFDAmRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~klp 692 (755)
T KOG1131|consen 613 GREVIMEGIPYQYTESRILKARLEYLRDQFQIRENDFLTFDAMRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSKLP 692 (755)
T ss_pred CceEEEEeccchhhHHHHHHHHHHHHHHHhcccccceechHhHHHHHHHHHHHHhccccceeeEeeehhhccccchhhhh
Confidence 999999 344421 112223346688899999999999999999999999999999999999988888999
Q ss_pred HHHHhhcccCC---ChhhhHHHHHHHHHHhhcccCcc
Q 000814 714 KWLRKSIKQYD---SFDASLEGLKSFFRDVKGWVGKK 747 (1269)
Q Consensus 714 ~Wlr~~l~~~~---~f~~~l~~l~~FF~~~k~~v~~~ 747 (1269)
+|+++.+.... +.++.+.-.+.|++.|..++.+.
T Consensus 693 ~wi~~~l~~~~~nlstd~a~~varrflR~maQp~~k~ 729 (755)
T KOG1131|consen 693 KWIRNHLFDAKLNLSTDMANQVARRFLRLMAQPFDKE 729 (755)
T ss_pred HHHHhhhhhhccCCCcchhHHHHHHHHHHhcCCCCcc
Confidence 99999886542 56788999999999998877543
No 5
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.8e-56 Score=557.71 Aligned_cols=580 Identities=23% Similarity=0.268 Sum_probs=351.0
Q ss_pred eeecCC-CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccc
Q 000814 23 IQVEFP-YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAV 101 (1269)
Q Consensus 23 i~v~FP-Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~ 101 (1269)
..+.|| |+||+.|.+||..|.+++.++ .++++|||||||||++||+|||.|+++.
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~~-----~~~~iEapTGtGKTl~yL~~al~~~~~~------------------- 62 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKGG-----EGLLIEAPTGTGKTLAYLLPALAYAREE------------------- 62 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcCC-----CcEEEECCCCccHHHHHHHHHHHHHHHc-------------------
Confidence 567888 689999999999999999864 3699999999999999999999998752
Q ss_pred cCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC--C---CccEEEEc
Q 000814 102 TDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA--Y---RVPMAVLA 176 (1269)
Q Consensus 102 ~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~--~---~v~~~vL~ 176 (1269)
..+|+|+|+||.++.|+++|.+... . ...+..++
T Consensus 63 -----------------------------------------~~~viist~t~~lq~q~~~~~~~~~~~~~~~~~~~~~~k 101 (654)
T COG1199 63 -----------------------------------------GKKVIISTRTKALQEQLLEEDLPIHKLLKKLGGKFALLK 101 (654)
T ss_pred -----------------------------------------CCcEEEECCCHHHHHHHHHhhcchhhhhhhhhhHHHHHh
Confidence 2568999999999999999987751 1 22457899
Q ss_pred cccccccccccccc----cChHHHHHHh--h---cCCCCCCchhhhhhhhcCCCCcCC-CCCCcccChhhHH--hhcccc
Q 000814 177 SRKHYCTNKYVRDK----ENIDEECKLL--L---GDRNLGCPQFKNVHKVRGHPSLQK-GGCHEVHDIEDLV--NVGQVV 244 (1269)
Q Consensus 177 SR~~~Cin~~v~~~----e~i~e~C~~L--~---~~~~~~C~yy~n~~~~~~~~~l~~-~~~~~v~DiEdL~--~~g~~~ 244 (1269)
||.+|||+.++... ......|... . +.....|.+..+.... .++.... .....+.+..+.+ ..|..+
T Consensus 102 gr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~cp~~ 180 (654)
T COG1199 102 GRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRE-LTPKALDDPLWTLVTDDKDSCLGEDCPYY 180 (654)
T ss_pred ccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhh-ccccccccchhhhhhcccccccccCCcch
Confidence 99999999988631 1123445431 0 0000001111110000 0000000 0001111112222 347778
Q ss_pred cCcHHHHHHHHhccCcEEEecccccccHhhhhhhcc-CCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhh
Q 000814 245 RGCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEV-DIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVC 323 (1269)
Q Consensus 245 ~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i-~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~ 323 (1269)
..|||+.+|+.++.||+||+||+|++.......... .+++.++||||||||+++|++++|..++...|+.+..++....
T Consensus 181 ~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~ 260 (654)
T COG1199 181 TECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLPDIARSALSIRLSERTLERLLKEIQALG 260 (654)
T ss_pred hhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccccchHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence 999999999999999999999999999876655433 5789999999999999999999999999999999988877665
Q ss_pred ccCcchhHHHHHHHHHHHHHHHHHHHHhhh-hhhhccccc-cchHHHHHHHHH-ccccchhHHHHHHHHHHHHHHhhccc
Q 000814 324 SVNPMIYQPLIEMTQDLVGWIERRKATLAK-REFQHFFSC-WTGDKALRELQE-ANISRQCFPILLECATKAIKEATDTE 400 (1269)
Q Consensus 324 ~~~~~i~~~L~ell~~Ll~~L~~~k~~l~k-~~~~~~~~~-~~g~~~l~~L~e-~~is~~~~~~Lle~l~k~I~~~~~~e 400 (1269)
.........+......|...+......... .+..+.... ............ ...-...+...+..+......... .
T Consensus 261 ~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ 339 (654)
T COG1199 261 ETLEKDLKRLEDLADRLEKALEDLRELLIFDVDELGNLRERLREQLSSEEAKEALGKLEEALLEKLKNLSELLGLSQN-E 339 (654)
T ss_pred hhhhhhHHHHHhhHHHHHHHHHHHHHHHhcchhhhhhHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-h
Confidence 210000111111111122211111110000 000000000 000000000000 000000000000111111110000 0
Q ss_pred cccCccCCchHHHHHHHHHHHHHHHh--cCCCcchhhHHHhhhheecCCCCCCCCcceEEEEEecCHHHHHHHHHhccCe
Q 000814 401 SELPHLSGMSVITLEGLFSSLTYFFS--RNGSHVSDYQLALQKYIKRDSKNPGGNWTHTLSLWCLNPAVVFKDVAELSLS 478 (1269)
Q Consensus 401 ~~~~~ls~~s~~~Le~l~~~L~~~~s--~~~~~i~dy~~~l~r~i~~d~~~~~~~~~~~L~l~CLdPs~~f~~l~~~~rS 478 (1269)
.+.+. ..++.+...+..+.. .......+|. .|++.... .. ...+..+|++|+...+.++.++++
T Consensus 340 ~d~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~----~w~~~~~~---~~-~~~~~~~~~~~~~l~~~~~~~~~~ 405 (654)
T COG1199 340 LDRPT------SILERLKEELDRLLSRELLLSDDPDYS----YWLEIEER---EG-VLLLVLPLLVPSKLLEELFSKVAS 405 (654)
T ss_pred ccchh------HHHHHHHHHHHHHHhhcccccCCCCce----EEEEeccc---cc-ceeEEeecccHHHHHHHHHhhcCc
Confidence 00000 112222222222221 0000111222 24443211 11 114678999999999999999999
Q ss_pred EEEecccCCChHhhHHhhCCCC---Cc-eeeCCCccCCCCcEEEEEcccCCCCcc-----cccc-------------ccc
Q 000814 479 IILTSGTLSPMNSFSSELGVQF---GT-CLEAPHVIDVDLQVLTSVISTGPDNYP-----LNAS-------------YKT 536 (1269)
Q Consensus 479 VILTSGTLSPl~~F~~eLGl~f---~~-~Le~phvi~~e~qvlv~vvs~gP~n~~-----l~~S-------------y~~ 536 (1269)
+|||||||+|+++|...+|+.. .. .+..+++|+...+..+.+.+..|..-. ..+. ...
T Consensus 406 ~vl~SaTL~~~~~f~~~~~~~~~~~~~~~~~~~spf~~~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvl 485 (654)
T COG1199 406 VVLTSATLSPLDSFSSLLGLLGLEEKLRFLSLPSPFNYEEQGQLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVL 485 (654)
T ss_pred EEEeeeeccCCCcHHHHHHHcCCccccceeccCCCCChhhcceEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEE
Confidence 9999999999999998776532 22 455677777666665555443332110 0000 012
Q ss_pred cchHHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhh
Q 000814 537 ADGYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQ 616 (1269)
Q Consensus 537 ~dsY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~ 616 (1269)
.++|.+|+.+.+.|.....+ ..++.+.... .+.+++.|.+.
T Consensus 486 F~Sy~~l~~~~~~~~~~~~~------~~v~~q~~~~----~~~~l~~f~~~----------------------------- 526 (654)
T COG1199 486 FPSYEYLKRVAERLKDERST------LPVLTQGEDE----REELLEKFKAS----------------------------- 526 (654)
T ss_pred eccHHHHHHHHHHHhhcCcc------ceeeecCCCc----HHHHHHHHHHh-----------------------------
Confidence 34699999999999876432 4556655443 34677777531
Q ss_pred hhcccCCcEEEEeeccceeecccCCCCCceEEEE-eccccch---hhhhc----ccCCC---CcchHHHHHHHHHHhcCc
Q 000814 617 ENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDT---YRSSK----NLLSG---NEWYCNQAFRALNQAIGR 685 (1269)
Q Consensus 617 ~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~---~~~sk----~~~~G---~~wY~~~AmRaVNQAIGR 685 (1269)
+ ++ +|+|++|+|||||||+|+.+|+||| +.||..+ ....+ ...++ .+||.++||++|+||+||
T Consensus 527 ---~-~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGR 600 (654)
T COG1199 527 ---G-EG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGR 600 (654)
T ss_pred ---c-CC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhcc
Confidence 1 13 7778899999999999999999999 8888632 22111 12233 455789999999999999
Q ss_pred ccccCCCeEEEEEEeccccchhhHhHHHHHHHhhcccCCChhh
Q 000814 686 CIRHRFDYGAIILLDERFQEERNRAHISKWLRKSIKQYDSFDA 728 (1269)
Q Consensus 686 vIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr~~l~~~~~f~~ 728 (1269)
+|||++|||+|+|+|+||.+.+|++.||.|+............
T Consensus 601 lIR~~~D~G~ivllD~R~~~~~y~~~l~~~l~~~~~~~~~~~~ 643 (654)
T COG1199 601 LIRSEDDRGVIVLLDKRYATKRYGKLLLDSLPPFPKSKDLNPS 643 (654)
T ss_pred ccccCCCceEEEEecccchhhhHHHHHHHhCCCCcccccchhh
Confidence 9999999999999999999999999999999877766554433
No 6
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=1.6e-54 Score=540.80 Aligned_cols=587 Identities=19% Similarity=0.196 Sum_probs=337.1
Q ss_pred eeecCC-CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccc
Q 000814 23 IQVEFP-YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAV 101 (1269)
Q Consensus 23 i~v~FP-Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~ 101 (1269)
+.-.+| |++|++|.+||..|+++|..+....+.++++|||||||||||||.||+.|+..++++ |+
T Consensus 17 l~~~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~-----vV--------- 82 (697)
T PRK11747 17 LQEQLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKK-----LV--------- 82 (697)
T ss_pred HHHhCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCe-----EE---------
Confidence 566778 999999999999999999863111124899999999999999999999999865433 21
Q ss_pred cCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCccEEEEcccccc
Q 000814 102 TDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRKHY 181 (1269)
Q Consensus 102 ~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~~~ 181 (1269)
+|| +|++||.|+. .+++|.+ . +.+++.+++++++||+||
T Consensus 83 ---------------IST--~T~~LQeQL~--------~kDlP~l----------~------~~l~~~~~~~llKGr~nY 121 (697)
T PRK11747 83 ---------------IST--ATVALQEQLV--------SKDLPLL----------L------KISGLDFKFTLAKGRGRY 121 (697)
T ss_pred ---------------EEc--CCHHHHHHHH--------hhhhhHH----------H------HHcCCCceEEEEcCcccc
Confidence 344 5666666652 2333321 1 236788999999999999
Q ss_pred cccccccccc---C--h--------------HHHHHHhhcCCCCCCchhhhhhhhcCCCCcCCCCCCccc----ChhhHH
Q 000814 182 CTNKYVRDKE---N--I--------------DEECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGGCHEVH----DIEDLV 238 (1269)
Q Consensus 182 Cin~~v~~~e---~--i--------------~e~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~~~~v~----DiEdL~ 238 (1269)
-|..++...- . . ...-..+..- ...+......++..++.......+| .-.+-+
T Consensus 122 lCl~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l----~~~~~~~t~tGD~del~~~~~~~~w~~v~~~~~~C 197 (697)
T PRK11747 122 VCPRKLAALASDEGTQQDLLLFLDDELTPPDEEEQKLLARL----AKALATGKWDGDRDHWPEPIDDSLWQRITTDKHSC 197 (697)
T ss_pred ccHHHHHHHhccccccchhhhhccccccCCCHHHHHHHHHH----HHHHhcCCCcCcHhhCcCCCcHHHHHHhhcCcccc
Confidence 8887764310 0 0 0000000000 0000000000000011000000011 001111
Q ss_pred --hhcccccCcHHHHHHHHhccCcEEEecccccccHhhhhhhccCC--CccEEEecccccHHHHHHHhcccccCHHHHHH
Q 000814 239 --NVGQVVRGCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDI--KGAILILDEAHNIEDIARDAGSVDIDEDVLLK 314 (1269)
Q Consensus 239 --~~g~~~~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l--~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~ 314 (1269)
+-|..+..|+|+.+|+.+..|||||+||+|||.+...+...+.+ +..++||||||||+|+|+++++.+++...+..
T Consensus 198 ~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~ 277 (697)
T PRK11747 198 LGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPDVARDHFAASAELKGTAD 277 (697)
T ss_pred CCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHHHHHHHhhhhccHHHHHH
Confidence 23455678999999999999999999999999886321112333 57899999999999999999999999866555
Q ss_pred HHHHHHH----hhcc----CcchhHHHHHHHHHHHHHHHHHHHHhhh---h---hhhccccccchHHHHHH-HHHccccc
Q 000814 315 LQMELEQ----VCSV----NPMIYQPLIEMTQDLVGWIERRKATLAK---R---EFQHFFSCWTGDKALRE-LQEANISR 379 (1269)
Q Consensus 315 a~~eL~~----l~~~----~~~i~~~L~ell~~Ll~~L~~~k~~l~k---~---~~~~~~~~~~g~~~l~~-L~e~~is~ 379 (1269)
+.+.+.. +... .......+.++...+...+......+.. . .....+........+.. .......-
T Consensus 278 ~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 357 (697)
T PRK11747 278 WLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILNLFLPAGGEEARYRFEMGELPEELLELAERLAKLT 357 (697)
T ss_pred HHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccCCCCcHHHHHHHHHHHHHH
Confidence 4444432 1110 0000011122222222111111111100 0 00000000000000110 00000000
Q ss_pred hhHHHHHHHHHHHHHHhh-cccccc---Ccc-CCc--hHHHHHHHHHHHHHHHhcCCCcchhhHHHhhhheecCCCCCCC
Q 000814 380 QCFPILLECATKAIKEAT-DTESEL---PHL-SGM--SVITLEGLFSSLTYFFSRNGSHVSDYQLALQKYIKRDSKNPGG 452 (1269)
Q Consensus 380 ~~~~~Lle~l~k~I~~~~-~~e~~~---~~l-s~~--s~~~Le~l~~~L~~~~s~~~~~i~dy~~~l~r~i~~d~~~~~~ 452 (1269)
..+...+..+.+.+.... +...+. ..+ ... ....++++...+..+.........++ .+|++.... .+
T Consensus 358 ~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~----v~Wie~~~~--~~ 431 (697)
T PRK11747 358 EKLLGLLEKLLNDLSEAMKTGKIDIVRLERLLLELGRALGRLEALSKLWRLAAKEDQESGAPM----ARWITREER--DG 431 (697)
T ss_pred HHHHHHHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCc----eEEEEeccC--CC
Confidence 000011111111111100 000000 000 000 01233444444444432211100011 246664321 11
Q ss_pred CcceEEEEEecCHHHHHH-HHHhccCeEEEecccCCCh---HhhHHhhCCCC---CceeeCCCccCCCCcEEEEEcccCC
Q 000814 453 NWTHTLSLWCLNPAVVFK-DVAELSLSIILTSGTLSPM---NSFSSELGVQF---GTCLEAPHVIDVDLQVLTSVISTGP 525 (1269)
Q Consensus 453 ~~~~~L~l~CLdPs~~f~-~l~~~~rSVILTSGTLSPl---~~F~~eLGl~f---~~~Le~phvi~~e~qvlv~vvs~gP 525 (1269)
.....|+..|+||+..++ .+++.++++|||||||+|. ++|.+.||++. ...+..|++|++++|..+.+....|
T Consensus 432 ~~~~~l~~~Pl~~~~~l~~~l~~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~~~ 511 (697)
T PRK11747 432 QGDYLFHASPIRVGDQLERLLWSRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKMRA 511 (697)
T ss_pred CceEEEEEecCCHHHHHHHHHHhhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCCCC
Confidence 223578999999999996 6789999999999999985 57778899974 3467788899887776665543222
Q ss_pred C--Ccccc----------------ccccccchHHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHH
Q 000814 526 D--NYPLN----------------ASYKTADGYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNS 587 (1269)
Q Consensus 526 ~--n~~l~----------------~Sy~~~dsY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~s 587 (1269)
. +.+-. ......++|.+|+++++.|... ..++|++|..+ ....+++.|++.
T Consensus 512 ~p~~~~~~~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~~----~~~~ll~~f~~~ 580 (697)
T PRK11747 512 EPDNEEAHTAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGDQ----PRQRLLEKHKKR 580 (697)
T ss_pred CCCCcHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCCc----hHHHHHHHHHHH
Confidence 1 11100 0111235799999999988752 23678998754 246788888764
Q ss_pred hhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCCceEEEE-ecccc---chhhhhc-
Q 000814 588 ISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYN---DTYRSSK- 662 (1269)
Q Consensus 588 I~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~---d~~~~sk- 662 (1269)
+. .++++||||| |+|||||||+|+.+++||| |.||. ++....+
T Consensus 581 ~~------------------------------~~~~~VL~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~ 628 (697)
T PRK11747 581 VD------------------------------EGEGSVLFGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLA 628 (697)
T ss_pred hc------------------------------cCCCeEEEEe--ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHH
Confidence 41 1248999997 9999999999999999999 88885 3332221
Q ss_pred ---ccCCCCcch---HHHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHHHHHH
Q 000814 663 ---NLLSGNEWY---CNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHISKWLR 717 (1269)
Q Consensus 663 ---~~~~G~~wY---~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr 717 (1269)
...+++.|+ .++|+++++||+||+||+++|+|+|+|+|+||.+++|++.|.+.++
T Consensus 629 ~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD~R~~~~~Yg~~~l~sLP 689 (697)
T PRK11747 629 EWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRRLLTKRYGKRLLDALP 689 (697)
T ss_pred HHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEEEcccccchhHHHHHHHhCC
Confidence 123455553 4689999999999999999999999999999999999988877654
No 7
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=5.3e-53 Score=541.49 Aligned_cols=589 Identities=21% Similarity=0.219 Sum_probs=344.9
Q ss_pred eecCC-CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCccccc
Q 000814 24 QVEFP-YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVT 102 (1269)
Q Consensus 24 ~v~FP-Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~ 102 (1269)
...+| |++|++|.+||..|+++|.++ .++++|||||||||+|||.||+.|+...
T Consensus 250 ~~~~~~~e~R~~Q~~m~~~v~~~l~~~-----~~~~iEA~TGtGKTlaYLlpa~~~a~~~-------------------- 304 (928)
T PRK08074 250 SLAMPKYEKREGQQEMMKEVYTALRDS-----EHALIEAGTGTGKSLAYLLPAAYFAKKK-------------------- 304 (928)
T ss_pred HHhCCCCcCCHHHHHHHHHHHHHHhcC-----CCEEEECCCCCchhHHHHHHHHHHhhcc--------------------
Confidence 44556 899999999999999999864 3899999999999999999999887632
Q ss_pred CcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHH-H---HHh-cCCCccEEEEcc
Q 000814 103 DPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVIS-E---YKK-TAYRVPMAVLAS 177 (1269)
Q Consensus 103 ~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIr-E---LRk-~~~~v~~~vL~S 177 (1269)
..+|+++|.|..-..|++. + |++ +++++++++++|
T Consensus 305 ----------------------------------------~~~vvIsT~T~~LQ~Ql~~kDiP~L~~~~~~~~~~~~lKG 344 (928)
T PRK08074 305 ----------------------------------------EEPVVISTYTIQLQQQLLEKDIPLLQKIFPFPVEAALLKG 344 (928)
T ss_pred ----------------------------------------CCeEEEEcCCHHHHHHHHHhhHHHHHHHcCCCceEEEEEc
Confidence 2357788888887777755 3 333 477899999999
Q ss_pred ccccccccccccc---c--ChHH---HHHHhhcCCCCCCchhhhhhhhcCCCCcCCCCCCcccChhh--HHhhcccccCc
Q 000814 178 RKHYCTNKYVRDK---E--NIDE---ECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGGCHEVHDIED--LVNVGQVVRGC 247 (1269)
Q Consensus 178 R~~~Cin~~v~~~---e--~i~e---~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEd--L~~~g~~~~~C 247 (1269)
|+||.|..++... . +... .++.+.-.... ...+..++.. +.-....+..+..-.+ +.+-|..+..|
T Consensus 345 r~nYlcl~k~~~~l~~~~~~~~~~~~~~~ll~Wl~~T---~tGD~dEl~~-~~~~~~~w~~i~~~~~~c~~~~cp~~~~C 420 (928)
T PRK08074 345 RSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTET---ETGDLDELNL-PSGGKLLWNRIASDGESDGGKQSPWFSRC 420 (928)
T ss_pred ccccccHHHHHHHHhccCCCHHHHHHHHHHHHHHccC---CCCCHHHccC-CCCCcchHHHhhccCcccCCCCCCccccc
Confidence 9999998876431 0 1110 11111110000 0001111100 0000000011111111 12235556789
Q ss_pred HHHHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhhc---
Q 000814 248 SYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVCS--- 324 (1269)
Q Consensus 248 PYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~~--- 324 (1269)
+|+.+|+.++.|||||+||+|||.+...+. .+.+...++||||||||+++|+++++..++...+..+...+.....
T Consensus 421 f~~~ar~~a~~AdivItNHalLl~dl~~~~-~ilp~~~~lViDEAH~l~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~ 499 (928)
T PRK08074 421 FYQRAKNRAKFADLVITNHALLLTDLTSEE-PLLPSYEHIIIDEAHHFEEAASRHLGEQFSYMSFQLLLSRLGTLEEDGL 499 (928)
T ss_pred HHHHHHHHHhcCCEEEECHHHHHHHHhhhc-ccCCCCCeEEEECCchHHHHHHHHhcceecHHHHHHHHHHHhhhccccH
Confidence 999999999999999999999998864322 3567889999999999999999999999998777666554431110
Q ss_pred ---------cCc----chhHHHHHHHHHHHHHHHHHHHHh----hhh----h---hhcccccc-chHHHHHHHHHc--cc
Q 000814 325 ---------VNP----MIYQPLIEMTQDLVGWIERRKATL----AKR----E---FQHFFSCW-TGDKALRELQEA--NI 377 (1269)
Q Consensus 325 ---------~~~----~i~~~L~ell~~Ll~~L~~~k~~l----~k~----~---~~~~~~~~-~g~~~l~~L~e~--~i 377 (1269)
... .....+...+..+...+......+ ... + ....+... .....+..+.+. .+
T Consensus 500 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 579 (928)
T PRK08074 500 LSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVLKRKKQEQNGRLIYRYNTESEKGKLWDAITELANRL 579 (928)
T ss_pred HHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccceeecccccccchhhHHHHHHHHHH
Confidence 000 000001111111111111111000 000 0 00000000 000001000000 00
Q ss_pred cchhHHHHHHHHH---HHHHHhhccccccCccCC--chHHHHHHHHHHHHHHHhcCCCcchhhHHHhhhheecCCCCCCC
Q 000814 378 SRQCFPILLECAT---KAIKEATDTESELPHLSG--MSVITLEGLFSSLTYFFSRNGSHVSDYQLALQKYIKRDSKNPGG 452 (1269)
Q Consensus 378 s~~~~~~Lle~l~---k~I~~~~~~e~~~~~ls~--~s~~~Le~l~~~L~~~~s~~~~~i~dy~~~l~r~i~~d~~~~~~ 452 (1269)
...+..+...+. +.+......+ ...... .....+.+....|..++.... .++ ..|++.+.. ..
T Consensus 580 -~~~l~~l~~~l~~~~~~l~~~~~~~--~~~~~~~~~~~~~l~~~~~~l~~~~~~~~---~~~----v~w~e~~~~--~~ 647 (928)
T PRK08074 580 -CYDLRDLLTLLEAQKKELQEKMESE--SAFLTGEYAHLIDLLEKMAQLLQLLFEED---PDY----VTWIEIDAK--GA 647 (928)
T ss_pred -HHHHHHHHHHHHHHHHHHhhhhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHhcCC---CCe----EEEEEecCC--CC
Confidence 000001111010 0010000000 000000 001122333333333332111 011 236654321 11
Q ss_pred CcceEEEEEecCHHHHHHH-HHhccCeEEEecccCCC---hHhhHHhhCCCCC--ceeeCCCccCCCCcEEEEEcccCCC
Q 000814 453 NWTHTLSLWCLNPAVVFKD-VAELSLSIILTSGTLSP---MNSFSSELGVQFG--TCLEAPHVIDVDLQVLTSVISTGPD 526 (1269)
Q Consensus 453 ~~~~~L~l~CLdPs~~f~~-l~~~~rSVILTSGTLSP---l~~F~~eLGl~f~--~~Le~phvi~~e~qvlv~vvs~gP~ 526 (1269)
.....|+..|+|++..+++ +++..+++|||||||++ +++|.+.||++.. ..+..+++|++++|..+.++...|.
T Consensus 648 ~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~~~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l~vp~d~p~ 727 (928)
T PRK08074 648 INATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVNGSFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKLMIPTDMPP 727 (928)
T ss_pred CceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccCCCcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEEEeecCCCC
Confidence 2235689999999999976 56889999999999995 6677889999642 3467788888877776666554442
Q ss_pred C-ccccccc--------------------cccchHHHHHHHHHHHHHcCccchhccCCcEEEecCC-CCHHHHHHHHHHH
Q 000814 527 N-YPLNASY--------------------KTADGYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKG-GSQEDFEIVLKHY 584 (1269)
Q Consensus 527 n-~~l~~Sy--------------------~~~dsY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~-~s~~e~e~vL~~f 584 (1269)
. ++-.-.| ...++|++|+++++.|.+... .....++.|..+ ++ ...+++.|
T Consensus 728 ~~~~~~~~~~~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~---r~~l~~~F 800 (928)
T PRK08074 728 IKDVPIEEYIEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGS---RARLTKQF 800 (928)
T ss_pred CCCCChHHHHHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCC---HHHHHHHH
Confidence 1 1100001 112468888888888765422 112456666432 22 35566666
Q ss_pred HHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccCCCCCceEEEE-ecccc---chhhh
Q 000814 585 YNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYN---DTYRS 660 (1269)
Q Consensus 585 ~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~---d~~~~ 660 (1269)
+. ..++||||+ |+|||||||+|+.+++||| |.||. ++...
T Consensus 801 ~~----------------------------------~~~~iLlG~--~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~ 844 (928)
T PRK08074 801 QQ----------------------------------FDKAILLGT--SSFWEGIDIPGDELSCLVIVRLPFAPPDQPVME 844 (928)
T ss_pred Hh----------------------------------cCCeEEEec--CcccCccccCCCceEEEEEecCCCCCCCCHHHH
Confidence 42 137999994 9999999999999999999 88885 33322
Q ss_pred hc----ccCCCCcchH---HHHHHHHHHhcCcccccCCCeEEEEEEeccccchhhHhHHHHHHHhhcccCCChhhhHHHH
Q 000814 661 SK----NLLSGNEWYC---NQAFRALNQAIGRCIRHRFDYGAIILLDERFQEERNRAHISKWLRKSIKQYDSFDASLEGL 733 (1269)
Q Consensus 661 sk----~~~~G~~wY~---~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr~~l~~~~~f~~~l~~l 733 (1269)
.+ ...+++.||. ++|+++++||+||+|||++|+|+|+|+|+|+.+++|++.|+++|+..-....++.+....+
T Consensus 845 a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~~~~ 924 (928)
T PRK08074 845 AKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLPTVPVYEGTLEELLEEV 924 (928)
T ss_pred HHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEecCccccchHHHHHHHhCCCCCcccCCHHHHHHHH
Confidence 21 1235677753 6799999999999999999999999999999999999999998875222335778888888
Q ss_pred HHHH
Q 000814 734 KSFF 737 (1269)
Q Consensus 734 ~~FF 737 (1269)
+.|+
T Consensus 925 ~~~~ 928 (928)
T PRK08074 925 EEFL 928 (928)
T ss_pred HhhC
Confidence 8774
No 8
>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=100.00 E-value=1e-52 Score=536.19 Aligned_cols=554 Identities=18% Similarity=0.224 Sum_probs=337.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCC
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANG 108 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~ 108 (1269)
|++|+.|.+||..|++++.++ .++++|||||||||+|||.|++.|+..
T Consensus 244 ~~~r~~Q~~~~~~i~~~~~~~-----~~~~~eA~TG~GKT~ayLlp~~~~~~~--------------------------- 291 (850)
T TIGR01407 244 LEYRPEQLKLAELVLDQLTHS-----EKSLIEAPTGTGKTLGYLLPALYYAIT--------------------------- 291 (850)
T ss_pred CccCHHHHHHHHHHHHHhccC-----CcEEEECCCCCchhHHHHHHHHHHhcC---------------------------
Confidence 789999999999999999864 379999999999999999999988641
Q ss_pred CCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHH-HHHhc----CCCccEEEEcccccccc
Q 000814 109 GGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVIS-EYKKT----AYRVPMAVLASRKHYCT 183 (1269)
Q Consensus 109 ~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIr-ELRk~----~~~v~~~vL~SR~~~Ci 183 (1269)
..+|+++|+|.+-..|++. |++.+ ++++++++++||.||||
T Consensus 292 ----------------------------------~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylc 337 (850)
T TIGR01407 292 ----------------------------------EKPVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALIKGKSNYLS 337 (850)
T ss_pred ----------------------------------CCeEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEEEcchhhcc
Confidence 1268999999996667644 55443 56799999999999999
Q ss_pred ccccccc---cChHHHHHHhhcCCCCCCchhhhhhhhcCCCCcCC--C---CCCcccChhhHHhhcccccCcHHHHHHHH
Q 000814 184 NKYVRDK---ENIDEECKLLLGDRNLGCPQFKNVHKVRGHPSLQK--G---GCHEVHDIEDLVNVGQVVRGCSYYAARSM 255 (1269)
Q Consensus 184 n~~v~~~---e~i~e~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~--~---~~~~v~DiEdL~~~g~~~~~CPYy~aR~~ 255 (1269)
..++... ...+..|..+.. .-|.++... +.++..++.. . .+..+..-..+.+.|..++.|||+.+|+.
T Consensus 338 l~k~~~~l~~~~~~~~~~~~~~---~~~~wl~~T-~tGD~~el~~~~~~~~~~~~i~~~~~l~~~c~~~~~Cf~~~ar~~ 413 (850)
T TIGR01407 338 LGKFSQILKDNTDNYEFNIFKM---QVLVWLTET-ETGDLDELNLKGGNKMFFAQVRHDGNLSKKDLFYEVDFYNRAQKN 413 (850)
T ss_pred HHHHHHHHhcCCCcHHHHHHHH---HHHHHhccC-CccCHhhccCCCcchhhHHHhhcCCCCCCCCCCccccHHHHHHHH
Confidence 9876431 111112322110 012222110 0000001100 0 00011100123334666789999999999
Q ss_pred hccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhhccCcchhHHHHH
Q 000814 256 ADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVCSVNPMIYQPLIE 335 (1269)
Q Consensus 256 a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~~~~~~i~~~L~e 335 (1269)
+++|||||+||+|||++..... .+.++..+|||||||||+++|+++++..++...+..+.+.+.... ...+...+.+
T Consensus 414 a~~AdivItNHa~L~~~~~~~~-~ilp~~~~lIiDEAH~L~d~a~~~~~~~ls~~~~~~~l~~l~~~~--~~~l~~~l~~ 490 (850)
T TIGR01407 414 AEQAQILITNHAYLITRLVDNP-ELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQIDLIGKGE--NEQLLKRIQQ 490 (850)
T ss_pred HhcCCEEEecHHHHHHHhhccc-ccCCCCCEEEEECcchHHHHHHHHhcceeCHHHHHHHHHHHHhhh--hHHHHHHHHH
Confidence 9999999999999999875432 245677899999999999999999999999998887766663211 1111122222
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHccccchhHHHHHHHHHHHHHHhhccccccCccCCc--hHHH
Q 000814 336 MTQDLVGWIERRKATLAKREFQHFFSCWTGDKALRELQEANISRQCFPILLECATKAIKEATDTESELPHLSGM--SVIT 413 (1269)
Q Consensus 336 ll~~Ll~~L~~~k~~l~k~~~~~~~~~~~g~~~l~~L~e~~is~~~~~~Lle~l~k~I~~~~~~e~~~~~ls~~--s~~~ 413 (1269)
+.......+. ..+ ........+ ..+++.+...+........ ...... ....
T Consensus 491 ~~~~~~~~~~--------~~~-------~~~~~~~~l----------~~~~~~l~~~l~~~~~~~~--~~~~~l~~~~~~ 543 (850)
T TIGR01407 491 LEKQEILEKL--------FDF-------ETKDILKDL----------QAILDKLNKLLQIFSELSH--KTVDQLRKFDLA 543 (850)
T ss_pred HHHHHHHHHH--------hhh-------hhhhHHHHH----------HHHHHHHHHHHHHHHhhhh--hhHHHHHHHHHH
Confidence 2111110000 000 000000000 0000101000000000000 000000 0001
Q ss_pred HHHHHHHHHHHHhcCCCcchhhHHHhhhheecCCCCCCCCcceEEEEEecCHHHHHH-HHHhccCeEEEecccCC---Ch
Q 000814 414 LEGLFSSLTYFFSRNGSHVSDYQLALQKYIKRDSKNPGGNWTHTLSLWCLNPAVVFK-DVAELSLSIILTSGTLS---PM 489 (1269)
Q Consensus 414 Le~l~~~L~~~~s~~~~~i~dy~~~l~r~i~~d~~~~~~~~~~~L~l~CLdPs~~f~-~l~~~~rSVILTSGTLS---Pl 489 (1269)
+...+..+..++.. .+ ..|++.+.. .......|+..|+||+..+. .+++..+++|||||||+ |+
T Consensus 544 ~~~~~~~l~~~~~~------~~----~~wi~~~~~--~~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~ 611 (850)
T TIGR01407 544 LKDDFKNIEQSLKE------GH----TSWISIENL--QQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSF 611 (850)
T ss_pred HHHHHHHHHHHhcc------CC----eEEEEecCC--CCCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCCh
Confidence 11111112222110 00 235554321 11223568899999998875 57789999999999999 78
Q ss_pred HhhHHhhCCCCCceeeC-CCccCCCCcEEEEEcccCCCC-ccccccc--------------------cccchHHHHHHHH
Q 000814 490 NSFSSELGVQFGTCLEA-PHVIDVDLQVLTSVISTGPDN-YPLNASY--------------------KTADGYKLMEKLC 547 (1269)
Q Consensus 490 ~~F~~eLGl~f~~~Le~-phvi~~e~qvlv~vvs~gP~n-~~l~~Sy--------------------~~~dsY~~Le~l~ 547 (1269)
++|.+.||++....... |++|++..|..+.++...|.. +...-.| ...++|.+|++++
T Consensus 612 ~~~~~~lGl~~~~~~~~~~spf~~~~~~~l~v~~d~~~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~ 691 (850)
T TIGR01407 612 ESFPQLLGLTDVHFNTIEPTPLNYAENQRVLIPTDAPAIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVY 691 (850)
T ss_pred HHHHHhcCCCccccceecCCCCCHHHcCEEEecCCCCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHH
Confidence 99999999975443333 888886556666555444421 0000000 0123577777777
Q ss_pred HHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEE
Q 000814 548 NRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFL 627 (1269)
Q Consensus 548 ~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLf 627 (1269)
+.|...+. ....+++.|..++ ++..+++.|++ ++++|||
T Consensus 692 ~~L~~~~~----~~~~~~l~q~~~~---~r~~ll~~F~~----------------------------------~~~~iLl 730 (850)
T TIGR01407 692 DMLNELPE----FEGYEVLAQGING---SRAKIKKRFNN----------------------------------GEKAILL 730 (850)
T ss_pred HHHhhhcc----ccCceEEecCCCc---cHHHHHHHHHh----------------------------------CCCeEEE
Confidence 76654221 1124566665432 23445555531 2478999
Q ss_pred EeeccceeecccCCCCCceEEEE-eccccc---hhhhhc----ccCCCCcch---HHHHHHHHHHhcCcccccCCCeEEE
Q 000814 628 AVCRGKIVVGIPFPNINDIQVSL-KKKYND---TYRSSK----NLLSGNEWY---CNQAFRALNQAIGRCIRHRFDYGAI 696 (1269)
Q Consensus 628 AV~rGKfSEGIDF~dd~lR~VII-K~~y~d---~~~~sk----~~~~G~~wY---~~~AmRaVNQAIGRvIRhk~DyGvI 696 (1269)
|+ |+|||||||+|+.+++||| |.||.. +...++ ...+++.|| .++|+++++||+||+||+++|+|+|
T Consensus 731 gt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v 808 (850)
T TIGR01407 731 GT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSI 808 (850)
T ss_pred Ec--ceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEE
Confidence 85 9999999999999999999 888862 222211 112455565 3679999999999999999999999
Q ss_pred EEEeccccchhhHhHHHHHHHhhcccC-CChhhhHHHHHHHH
Q 000814 697 ILLDERFQEERNRAHISKWLRKSIKQY-DSFDASLEGLKSFF 737 (1269)
Q Consensus 697 ILLD~Rf~~~~yr~~Lp~Wlr~~l~~~-~~f~~~l~~l~~FF 737 (1269)
+|+|.||.+++|++.|+.||+...... .++.+.+..++.||
T Consensus 809 ~ilD~R~~~~~Yg~~~~~sLp~~~~~~~~~~~~~~~~~~~~~ 850 (850)
T TIGR01407 809 VILDRRLVGKRYGKRFEKSLPEYLQVKGDILGELLEAIKEFL 850 (850)
T ss_pred EEEccccccchHHHHHHHhCCCccccccCCHHHHHHHHHhhC
Confidence 999999999999999999997644433 35888888888885
No 9
>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=100.00 E-value=5.4e-47 Score=462.01 Aligned_cols=535 Identities=13% Similarity=0.111 Sum_probs=327.4
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCCC
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFIP 113 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~ 113 (1269)
+|.+||..|+++|.++ .++++|||||||||+|||+|+|.|+...
T Consensus 1 ~Q~~~~~~i~~al~~~-----~~lliEA~TGtGKTlAYLlpal~~~~~~------------------------------- 44 (636)
T TIGR03117 1 EQALFYLNCLTSLRQK-----RIGMLEASTGVGKTLAMIMAALTMLKER------------------------------- 44 (636)
T ss_pred CHHHHHHHHHHHHhcC-----CeEEEEcCCCCcHHHHHHHHHHHHHHhc-------------------------------
Confidence 4999999999999864 3899999999999999999999997521
Q ss_pred CCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC-----CCccEEEEccccccccccccc
Q 000814 114 ESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA-----YRVPMAVLASRKHYCTNKYVR 188 (1269)
Q Consensus 114 e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~-----~~v~~~vL~SR~~~Cin~~v~ 188 (1269)
...+|+++|+|+.+..|++++++.+. ..+++++++||.||||..++.
T Consensus 45 ----------------------------~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~nYlCl~rl~ 96 (636)
T TIGR03117 45 ----------------------------PDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQEFVSPGALQ 96 (636)
T ss_pred ----------------------------cCceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCcccccHHHHH
Confidence 13579999999999999999887664 478899999999999999875
Q ss_pred ccc---ChHHHHHHhhcCC-CC---------CCchhhhhhhhcCCCCcCCCCCCcccChhhHH-----------hhcccc
Q 000814 189 DKE---NIDEECKLLLGDR-NL---------GCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLV-----------NVGQVV 244 (1269)
Q Consensus 189 ~~e---~i~e~C~~L~~~~-~~---------~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~-----------~~g~~~ 244 (1269)
... ..+.. ..+..+. .. .|.+- ...+...| ...|.+++. .....+
T Consensus 97 ~~l~~~~~~~~-~~i~~W~~~T~~~~~~~~~~~~~~-~~~~~~~~---------~tGD~~el~~~~~~~~~~~~~~~~~~ 165 (636)
T TIGR03117 97 ELLDQSGYDKD-PAVQLWIGQGGPLIHEAALIRCMS-DAPTKMHW---------MTHDLKAVATLLNRQDDVTLAIREDD 165 (636)
T ss_pred HHhcccchhHH-HHHHHHHhcCCccccccchhcccc-chhhccCC---------CCCCHhhccCCcCcchhhhccccCCC
Confidence 421 11110 0111000 00 01110 00000000 011222221 111122
Q ss_pred cCcHHHHHHHH---hccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHH
Q 000814 245 RGCSYYAARSM---ADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQ 321 (1269)
Q Consensus 245 ~~CPYy~aR~~---a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~ 321 (1269)
..|.|+.+|+. ++.|||||+||+||+.. ++...++.++..+|||||||||+++|+++++..++..+|.++...+..
T Consensus 166 ~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~~iLP~~~~lIiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~ 244 (636)
T TIGR03117 166 EDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKWGLLPQPDILIVDEAHLFEQNISRVYSNALSLRRLHLYVEKRHT 244 (636)
T ss_pred cccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhcCCCCCCCEEEEeCCcchHHHHHHHhccEECHHHHHHHHHHHhh
Confidence 45899999998 99999999999999974 555556778899999999999999999999999999988777665521
Q ss_pred hhccCcchhHHHHHHHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHccccchhHHHHHHHHHHHHHHhhcccc
Q 000814 322 VCSVNPMIYQPLIEMTQDLVGWIERRKATLAKREFQHFFSCWTGDKALRELQEANISRQCFPILLECATKAIKEATDTES 401 (1269)
Q Consensus 322 l~~~~~~i~~~L~ell~~Ll~~L~~~k~~l~k~~~~~~~~~~~g~~~l~~L~e~~is~~~~~~Lle~l~k~I~~~~~~e~ 401 (1269)
.... .........+..+...+.... ....... +........ +..+...+..........+.
T Consensus 245 ~~~~--~~~~~~~~~~~~~~~~l~~~~-~~~~~~~------~~~~~~~~~----------l~~l~~~L~~l~~~l~~~~~ 305 (636)
T TIGR03117 245 GAGK--GIVSAAVAAVSHCIQRLRALD-VFGDGQT------LCLDAGNKE----------LETLFADLDAALDACSVGRN 305 (636)
T ss_pred cccc--hhHHHHHHHHHHHHHHHHhhh-ccccccc------ccHHHHHHH----------HHHHHHHHHHHHHHHhhccc
Confidence 1110 011011111122211111000 0000000 000000000 11111111111111000010
Q ss_pred ccCccCCchHHHHHHHHHHHHHHHhc-CCCcchhhHHHhhhheecCCCCCCCCcceEEEEEecCHHHHHHHHHh-ccCeE
Q 000814 402 ELPHLSGMSVITLEGLFSSLTYFFSR-NGSHVSDYQLALQKYIKRDSKNPGGNWTHTLSLWCLNPAVVFKDVAE-LSLSI 479 (1269)
Q Consensus 402 ~~~~ls~~s~~~Le~l~~~L~~~~s~-~~~~i~dy~~~l~r~i~~d~~~~~~~~~~~L~l~CLdPs~~f~~l~~-~~rSV 479 (1269)
.. .+.. -..+++++...+..|... +.. .... ..+.|++.+ .. ...|+..+++.+..|+.++. ..+++
T Consensus 306 ~~-~~~~-~~~rl~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~-----~~-~~~L~~~Pl~va~~l~~~~~~~~~~~ 374 (636)
T TIGR03117 306 RD-ENKK-ALSVVKDVKKARFILDNAITAI--QGKA-SAVLQFSPD-----RR-FPSLIVGREDLGKVMGGLWKDVTHGA 374 (636)
T ss_pred ch-HHHH-HHHHHHHHHHHHHHHhhhcccc--cccc-ceEEEEecC-----CC-ceEEEEecccHHHHHHHHHhcCCCeE
Confidence 00 0000 123455555554443210 000 0000 112233321 11 24789999999999998775 55799
Q ss_pred EEecccCCC--------hHhhHHhhCCCCCceeeCCCccC--CCCcE--EEEEccc----CCCCc----ccc------cc
Q 000814 480 ILTSGTLSP--------MNSFSSELGVQFGTCLEAPHVID--VDLQV--LTSVIST----GPDNY----PLN------AS 533 (1269)
Q Consensus 480 ILTSGTLSP--------l~~F~~eLGl~f~~~Le~phvi~--~e~qv--lv~vvs~----gP~n~----~l~------~S 533 (1269)
|||||||+. +++|.+.||++.. .+..++||+ +..|. .+++... -|..- ... -.
T Consensus 375 I~TSATL~v~~~~~~~~F~~f~~~lGL~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~ 453 (636)
T TIGR03117 375 IIVSATLYLPDRFGQMSCDYLKRVLSLPLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERT 453 (636)
T ss_pred EEEccccccCCcCCCcCcHHHHHhcCCCcc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhh
Confidence 999999998 6789999999754 677788888 55555 5665532 12111 000 01
Q ss_pred c--------------------cccchHHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCc
Q 000814 534 Y--------------------KTADGYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSK 593 (1269)
Q Consensus 534 y--------------------~~~dsY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~ 593 (1269)
| ....+|+.|+++.+.+... ...++++|..+.. ...++++|+..+.
T Consensus 454 ~~~~~~~~~~~~~~~~~G~~lvLfTS~~~~~~~~~~l~~~-------l~~~~l~qg~~~~---~~~l~~~f~~~~~---- 519 (636)
T TIGR03117 454 WLENVSLSTAAILRKAQGGTLVLTTAFSHISAIGQLVELG-------IPAEIVIQSEKNR---LASAEQQFLALYA---- 519 (636)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEechHHHHHHHHHHHHhh-------cCCCEEEeCCCcc---HHHHHHHHHHhhc----
Confidence 1 1124588888888877652 1367888875532 3557788875431
Q ss_pred hhhhhhhhhhccCCCCcchhhhhhhcccCCcEEEEeeccceeecccC--------CCCCceEEEE-ecccc--chhhhhc
Q 000814 594 CAVVRKKRVKREGNNDLNTIESQENANKKGASFLAVCRGKIVVGIPF--------PNINDIQVSL-KKKYN--DTYRSSK 662 (1269)
Q Consensus 594 ~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLfAV~rGKfSEGIDF--------~dd~lR~VII-K~~y~--d~~~~sk 662 (1269)
.+.++||||+ ++||||||+ +|+.|++||| |.||. |+.....
T Consensus 520 --------------------------~~~~~vL~gt--~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~~dp~a~~~ 571 (636)
T TIGR03117 520 --------------------------NGIQPVLIAA--GGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGLNRSLSMLK 571 (636)
T ss_pred --------------------------CCCCcEEEeC--CccccccccCCccCCCCCCCcccEEEEEeCCCCcCChHHHHH
Confidence 1238999994 899999999 7999999999 88886 3321111
Q ss_pred --ccCCCCcch-HHHHHHHHHHhcCcccccCCC--eEEEEEEeccccchhhHhHHHHHHHh
Q 000814 663 --NLLSGNEWY-CNQAFRALNQAIGRCIRHRFD--YGAIILLDERFQEERNRAHISKWLRK 718 (1269)
Q Consensus 663 --~~~~G~~wY-~~~AmRaVNQAIGRvIRhk~D--yGvIILLD~Rf~~~~yr~~Lp~Wlr~ 718 (1269)
...+++.|. .++|+.+++|++||+||+++| +|+|+++|+| ..++|++.+-.-++.
T Consensus 572 ~~~~~g~~~f~~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ilD~R-~~~~yg~~~~~~~~~ 631 (636)
T TIGR03117 572 RIRKTSVRPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGR-IHWPYMESWQESVKT 631 (636)
T ss_pred HHHhcCCChHhhhHHHHHHHHHhcCceeecCCCcCceEEEEEeCC-CCchhHHHHHHHHHH
Confidence 123677774 689999999999999999999 9999999999 788888777665553
No 10
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.6e-46 Score=473.00 Aligned_cols=531 Identities=16% Similarity=0.178 Sum_probs=315.4
Q ss_pred cCC-CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCc
Q 000814 26 EFP-YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDP 104 (1269)
Q Consensus 26 ~FP-Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p 104 (1269)
.+| |++|+.|.+||.+|+++|.++ .++++|||||||||+|||.|+|.+..
T Consensus 240 ~~~~~e~R~~Q~~ma~~V~~~l~~~-----~~~~~eA~tGtGKT~ayllp~l~~~~------------------------ 290 (820)
T PRK07246 240 ALLGLEERPKQESFAKLVGEDFHDG-----PASFIEAQTGIGKTYGYLLPLLAQSD------------------------ 290 (820)
T ss_pred ccCCCccCHHHHHHHHHHHHHHhCC-----CcEEEECCCCCcHHHHHHHHHHHhcC------------------------
Confidence 345 899999999999999999864 38999999999999999999887531
Q ss_pred CCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHH-HHHHhcC--CCccEEEEcccccc
Q 000814 105 LANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVI-SEYKKTA--YRVPMAVLASRKHY 181 (1269)
Q Consensus 105 ~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvI-rELRk~~--~~v~~~vL~SR~~~ 181 (1269)
..+++.+|.|..-..|++ ++++.+. ..+++.+++||.||
T Consensus 291 --------------------------------------~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~~~~~~~kg~~~y 332 (820)
T PRK07246 291 --------------------------------------QRQIIVSVPTKILQDQIMAEEVKAIQEVFHIDCHSLKGPQNY 332 (820)
T ss_pred --------------------------------------CCcEEEEeCcHHHHHHHHHHHHHHHHHhcCCcEEEEECCccc
Confidence 135777888887777774 4444432 45788899999999
Q ss_pred ccccccccc---c--ChHH---HHHHhhcCCCCCCchhhhhhhhcCCCCcCCCC--CCcccChhhHHhhcccccCcHHHH
Q 000814 182 CTNKYVRDK---E--NIDE---ECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGG--CHEVHDIEDLVNVGQVVRGCSYYA 251 (1269)
Q Consensus 182 Cin~~v~~~---e--~i~e---~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~--~~~v~DiEdL~~~g~~~~~CPYy~ 251 (1269)
.|..++... . +... ..+.+...... ...+..++. ...... +..+-...++..-|..+..|+|+.
T Consensus 333 lcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T---~tGD~~El~---~~~~~~~~w~~i~~~~~~~~~cp~~~~cf~~~ 406 (820)
T PRK07246 333 LKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTET---ETGDLDEIK---QKQRYAAYFDQLKHDGNLSQSSLFYDYDFWKR 406 (820)
T ss_pred ccHHHHHHHhhccCcchHHHHHHHHHHHHHhcC---CCCCHhhcc---CCccccHHHHHhhccCCCCCCCCcchhhHHHH
Confidence 998887531 0 1000 01111100000 000111100 000000 001111111223355667899999
Q ss_pred HHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHH-HHHHhhccCcchh
Q 000814 252 ARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQM-ELEQVCSVNPMIY 330 (1269)
Q Consensus 252 aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~-eL~~l~~~~~~i~ 330 (1269)
+|+.++.|||||+||+||+....... ..+...+|||||||+|+++++..+...++...+..... .+.... ....
T Consensus 407 ar~~a~~AdivItNHall~~~~~~~~--~~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~ 481 (820)
T PRK07246 407 SYEKAKTARLLITNHAYFLTRVQDDK--DFARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTIQKALSGPL---PLLQ 481 (820)
T ss_pred HHHHHHhCCEEEEchHHHHHHHhhcc--CCCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHHHHHHHHHH---HHHh
Confidence 99999999999999999998653332 24678999999999999998877766666555433221 111110 0000
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHccccchhHHHHHHHHHHHHHHhhccccccCccCCch
Q 000814 331 QPLIEMTQDLVGWIERRKATLAKREFQHFFSCWTGDKALRELQEANISRQCFPILLECATKAIKEATDTESELPHLSGMS 410 (1269)
Q Consensus 331 ~~L~ell~~Ll~~L~~~k~~l~k~~~~~~~~~~~g~~~l~~L~e~~is~~~~~~Lle~l~k~I~~~~~~e~~~~~ls~~s 410 (1269)
. ..+..+...+......+ . .... ...+...+..+...+..
T Consensus 482 ~---~~~~~~~~~~~~~~~~~-----------------~----~~~~-~~~~~~~l~~l~~~l~~--------------- 521 (820)
T PRK07246 482 K---RLLESISFELLQLSEQF-----------------Y----QGKE-RQLIHDSLSRLHQYFSE--------------- 521 (820)
T ss_pred h---hhHHHHHHHHHHHHHHH-----------------H----hhhh-hHHHHHHHHHHHHHHHH---------------
Confidence 0 00111110010000000 0 0000 00000000111111110
Q ss_pred HHHHH-HHHHHHHHHHhcCCCcchhhHHHhhhheecCCCCCCCCcceEEEEEecCHHHHHHHHHhccCeEEEecccCC--
Q 000814 411 VITLE-GLFSSLTYFFSRNGSHVSDYQLALQKYIKRDSKNPGGNWTHTLSLWCLNPAVVFKDVAELSLSIILTSGTLS-- 487 (1269)
Q Consensus 411 ~~~Le-~l~~~L~~~~s~~~~~i~dy~~~l~r~i~~d~~~~~~~~~~~L~l~CLdPs~~f~~l~~~~rSVILTSGTLS-- 487 (1269)
++ +....+..++.... . ..|++.+.. .......|+..+++++. ++.+++..+++|||||||+
T Consensus 522 ---l~~~~~~~~~~~~~~~~-----~----~~W~e~~~~--~~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~ 586 (820)
T PRK07246 522 ---LEVAGFQELQAFFATAE-----G----DYWLESEKQ--SEKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQIS 586 (820)
T ss_pred ---HHHHHHHHHHHHHhCCC-----C----eEEEEecCC--CCcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccC
Confidence 00 01111222221111 0 136654321 11112368899999985 5889999999999999997
Q ss_pred ChHhhHHhhCCCCCceeeCCCccCCCCcEEEEEcccCCCCccc-cccc-------------------cccchHHHHHHHH
Q 000814 488 PMNSFSSELGVQFGTCLEAPHVIDVDLQVLTSVISTGPDNYPL-NASY-------------------KTADGYKLMEKLC 547 (1269)
Q Consensus 488 Pl~~F~~eLGl~f~~~Le~phvi~~e~qvlv~vvs~gP~n~~l-~~Sy-------------------~~~dsY~~Le~l~ 547 (1269)
|..+|.+.||++....+..|+++ ++|..+.+....|..... .-.| ...++|++|+++.
T Consensus 587 ~~f~~~~~lGl~~~~~~~~~~~~--~~~~~~~i~~~~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~ 664 (820)
T PRK07246 587 PRVSLADLLGFEEYLFHKIEKDK--KQDQLVVVDQDMPLVTETSDEVYAEEIAKRLEELKQLQQPILVLFNSKKHLLAVS 664 (820)
T ss_pred CCCcHHHHcCCCccceecCCCCh--HHccEEEeCCCCCCCCCCChHHHHHHHHHHHHHHHhcCCCEEEEECcHHHHHHHH
Confidence 54468999999765555555444 334443333233321110 0001 1124577777776
Q ss_pred HHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhcccCCcEEE
Q 000814 548 NRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENANKKGASFL 627 (1269)
Q Consensus 548 ~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s~~~GAVLf 627 (1269)
+.+... ..++++|..+++. ..+++.|++ +.++|||
T Consensus 665 ~~l~~~--------~~~~l~Qg~~~~~---~~l~~~F~~----------------------------------~~~~vLl 699 (820)
T PRK07246 665 DLLDQW--------QVSHLAQEKNGTA---YNIKKRFDR----------------------------------GEQQILL 699 (820)
T ss_pred HHHhhc--------CCcEEEeCCCccH---HHHHHHHHc----------------------------------CCCeEEE
Confidence 665431 2456777655432 334555431 2379999
Q ss_pred EeeccceeecccCCCCCceEEEE-ecccc---chhhhhc----ccCCCCcchH---HHHHHHHHHhcCcccccCCCeEEE
Q 000814 628 AVCRGKIVVGIPFPNINDIQVSL-KKKYN---DTYRSSK----NLLSGNEWYC---NQAFRALNQAIGRCIRHRFDYGAI 696 (1269)
Q Consensus 628 AV~rGKfSEGIDF~dd~lR~VII-K~~y~---d~~~~sk----~~~~G~~wY~---~~AmRaVNQAIGRvIRhk~DyGvI 696 (1269)
|+ |+|||||||+|+.+..||| |.||. ++...++ ...+++.||. ++|+++++||+||+||+++|+|+|
T Consensus 700 G~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv 777 (820)
T PRK07246 700 GL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAV 777 (820)
T ss_pred ec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEE
Confidence 97 9999999998876666666 88986 3332221 1235677764 789999999999999999999999
Q ss_pred EEEeccccchhhHhHHHHHHHhhccc-CCChhhhHHHHHHHHH
Q 000814 697 ILLDERFQEERNRAHISKWLRKSIKQ-YDSFDASLEGLKSFFR 738 (1269)
Q Consensus 697 ILLD~Rf~~~~yr~~Lp~Wlr~~l~~-~~~f~~~l~~l~~FF~ 738 (1269)
+|+|+|+.+++|++.|.+|+++.+.. ..++++..+.++.||.
T Consensus 778 ~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~~~~~~~f~~ 820 (820)
T PRK07246 778 LILDRRILTKSYGKQILASLAEEFLISQQNFSDVLVEIDRFLI 820 (820)
T ss_pred EEECCcccccHHHHHHHHhCCCCCccccCCHHHHHHHHHHhhC
Confidence 99999999999999999999875433 3578999999999983
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=5.9e-46 Score=420.56 Aligned_cols=261 Identities=31% Similarity=0.515 Sum_probs=206.6
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccC
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTD 103 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~ 103 (1269)
.|.|||+|||.|++||+.|+++++++ .++|+|||||||||++||+|||+|+..++.......+
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~-----~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kv------------ 64 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRG-----KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKL------------ 64 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcC-----CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccce------------
Confidence 58899999999999999999999875 3899999999999999999999998865432000001
Q ss_pred cCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCccEEEEcccccccc
Q 000814 104 PLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRKHYCT 183 (1269)
Q Consensus 104 p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~~~Ci 183 (1269)
..+| .+.+++.+..... ++...++|||++|||||++|+|+||++.++++++++|+||+++|+
T Consensus 65 ------------i~~t--~T~~~~~q~i~~l----~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCi 126 (289)
T smart00488 65 ------------IYLS--RTVSEIEKRLEEL----RKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCL 126 (289)
T ss_pred ------------eEEe--ccHHHHHHHHHHH----HhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCC
Confidence 0122 3333433321111 112346789999999999999999999999999999999999999
Q ss_pred ccccccc---cCh-HHHHHHhhcCC----------CCCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhcccccCcHH
Q 000814 184 NKYVRDK---ENI-DEECKLLLGDR----------NLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSY 249 (1269)
Q Consensus 184 n~~v~~~---e~i-~e~C~~L~~~~----------~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPY 249 (1269)
++.+... ... ++.|+.++... ..+|+|+.+...... .+....+++|+||++.+|+.++.|||
T Consensus 127 n~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~c~~~~~~~~~~~----~~~~~~~~~d~e~l~~~~~~~~~CpY 202 (289)
T smart00488 127 NPEVRTLKQNGLVVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLV----RDLLPAEVYDIEDLLELGKRLGGCPY 202 (289)
T ss_pred ChHHhhcccccchHHHHHHHHHhhccccccccccCCCCCCccchhhhhhh----hhhcccCCCCHHHHHHhcccCCCChh
Confidence 9988642 222 36898876421 136888876432111 11123578999999999999999999
Q ss_pred HHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhh
Q 000814 250 YAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVC 323 (1269)
Q Consensus 250 y~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~ 323 (1269)
|.+|+.+++|||||+||+|||++.+|+.+++.+++.+|||||||||+++|++++|.+|+...|..+.++|..+.
T Consensus 203 ~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~ 276 (289)
T smart00488 203 FASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYF 276 (289)
T ss_pred HHHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999888888889999999999999999999999999999999988887763
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=5.9e-46 Score=420.56 Aligned_cols=261 Identities=31% Similarity=0.515 Sum_probs=206.6
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccC
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTD 103 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~ 103 (1269)
.|.|||+|||.|++||+.|+++++++ .++|+|||||||||++||+|||+|+..++.......+
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~-----~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kv------------ 64 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRG-----KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKL------------ 64 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcC-----CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccce------------
Confidence 58899999999999999999999875 3899999999999999999999998865432000001
Q ss_pred cCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCccEEEEcccccccc
Q 000814 104 PLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRKHYCT 183 (1269)
Q Consensus 104 p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~~~Ci 183 (1269)
..+| .+.+++.+..... ++...++|||++|||||++|+|+||++.++++++++|+||+++|+
T Consensus 65 ------------i~~t--~T~~~~~q~i~~l----~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCi 126 (289)
T smart00489 65 ------------IYLS--RTVSEIEKRLEEL----RKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCL 126 (289)
T ss_pred ------------eEEe--ccHHHHHHHHHHH----HhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCC
Confidence 0122 3333433321111 112346789999999999999999999999999999999999999
Q ss_pred ccccccc---cCh-HHHHHHhhcCC----------CCCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhcccccCcHH
Q 000814 184 NKYVRDK---ENI-DEECKLLLGDR----------NLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSY 249 (1269)
Q Consensus 184 n~~v~~~---e~i-~e~C~~L~~~~----------~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPY 249 (1269)
++.+... ... ++.|+.++... ..+|+|+.+...... .+....+++|+||++.+|+.++.|||
T Consensus 127 n~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~c~~~~~~~~~~~----~~~~~~~~~d~e~l~~~~~~~~~CpY 202 (289)
T smart00489 127 NPEVRTLKQNGLVVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLV----RDLLPAEVYDIEDLLELGKRLGGCPY 202 (289)
T ss_pred ChHHhhcccccchHHHHHHHHHhhccccccccccCCCCCCccchhhhhhh----hhhcccCCCCHHHHHHhcccCCCChh
Confidence 9988642 222 36898876421 136888876432111 11123578999999999999999999
Q ss_pred HHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHhcccccCHHHHHHHHHHHHHhh
Q 000814 250 YAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDAGSVDIDEDVLLKLQMELEQVC 323 (1269)
Q Consensus 250 y~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~S~~IS~~~L~~a~~eL~~l~ 323 (1269)
|.+|+.+++|||||+||+|||++.+|+.+++.+++.+|||||||||+++|++++|.+|+...|..+.++|..+.
T Consensus 203 ~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~ 276 (289)
T smart00489 203 FASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYF 276 (289)
T ss_pred HHHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999888888889999999999999999999999999999999988887763
No 13
>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=99.97 E-value=8.7e-33 Score=291.02 Aligned_cols=162 Identities=42% Similarity=0.701 Sum_probs=126.2
Q ss_pred EeccchhhHHHHHHHHHhcC------CCccEEEEccccccccccccccc---cChHHHHHHhhcCC--CCCCchhhhhhh
Q 000814 148 YASRTHSQISQVISEYKKTA------YRVPMAVLASRKHYCTNKYVRDK---ENIDEECKLLLGDR--NLGCPQFKNVHK 216 (1269)
Q Consensus 148 YaSRTHSQLsQvIrELRk~~------~~v~~~vL~SR~~~Cin~~v~~~---e~i~e~C~~L~~~~--~~~C~yy~n~~~ 216 (1269)
||||||+||+|+|+|||++. ..+++++|+||++||+++.+... +.+++.|+.+.+.. ...|+||.+..+
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~~~~~C~~~~~~~~ 80 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPKGESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGKRKESCPYYNNFDE 80 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHHCTCCSTTTTGGGG
T ss_pred CCCcCHHHHHHHHHHHHHHHhhcccccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhcccccccccchhHHHHh
Confidence 89999999999999999994 35899999999999999998764 34677899887532 136999987633
Q ss_pred hcCCCCcCCCCCCcccChhhHHhhcccccCcHHHHHHHHhccCcEEEecccccccHhhhhhhc-cCCCccEEEecccccH
Q 000814 217 VRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSYYAARSMADDAQLVFCPYSYIINPVIRGAME-VDIKGAILILDEAHNI 295 (1269)
Q Consensus 217 ~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~-i~l~~~ivIfDEAHNL 295 (1269)
.... .......++|+++|++.|+..+.||||.+|+.+.+|||||+||+|||+|.++..+. +++++.+|||||||||
T Consensus 81 ~~~~---~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL 157 (174)
T PF06733_consen 81 IEEL---SDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNL 157 (174)
T ss_dssp -HHH---HHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGC
T ss_pred HHHh---hhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccch
Confidence 2110 11123468999999999999999999999999999999999999999999998875 8899999999999999
Q ss_pred HHHHHHhcccccCHHHH
Q 000814 296 EDIARDAGSVDIDEDVL 312 (1269)
Q Consensus 296 ed~a~d~~S~~IS~~~L 312 (1269)
+++|++++|+.|+..+|
T Consensus 158 ~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 158 EDAARDSFSFSISESQL 174 (174)
T ss_dssp GGGCHCCC-EEEEHHHH
T ss_pred HHHHHHHhcceechhhC
Confidence 99999999999998765
No 14
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.93 E-value=1.2e-25 Score=230.08 Aligned_cols=130 Identities=37% Similarity=0.650 Sum_probs=104.9
Q ss_pred HHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhc
Q 000814 540 YKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENA 619 (1269)
Q Consensus 540 Y~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s 619 (1269)
|++|+++++.|++.+.+ ...++||+|++++. +...++++|++.+ .
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~--~~~~~l~~f~~~~------------------------------~ 45 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSG--ETEELLEKYSAAC------------------------------E 45 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCc--hHHHHHHHHHHhc------------------------------C
Confidence 68999999999988765 34689999998754 3467888887532 1
Q ss_pred ccCCcEEEEeeccceeecccCCCCCceEEEE-eccccch---hhhh-------cc-cCCCCcchHHHHHHHHHHhcCccc
Q 000814 620 NKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDT---YRSS-------KN-LLSGNEWYCNQAFRALNQAIGRCI 687 (1269)
Q Consensus 620 ~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~---~~~s-------k~-~~~G~~wY~~~AmRaVNQAIGRvI 687 (1269)
. +|+|||||+||||||||||+|+.||+||| +.||..+ .... .. ..+...||.++|+++|+||+||+|
T Consensus 46 ~-~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~Qa~GR~i 124 (142)
T smart00491 46 A-RGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPFPNPDSPILRARLEYLDEKGGIRPFDEVYLFDAMRALAQAIGRAI 124 (142)
T ss_pred C-CCEEEEEEeCCeeecceecCCCccEEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHhCccc
Confidence 1 28999999999999999999999999999 8888622 2111 11 233456889999999999999999
Q ss_pred ccCCCeEEEEEEeccccc
Q 000814 688 RHRFDYGAIILLDERFQE 705 (1269)
Q Consensus 688 Rhk~DyGvIILLD~Rf~~ 705 (1269)
||++|||+|+|+|+||.+
T Consensus 125 R~~~D~g~i~l~D~R~~~ 142 (142)
T smart00491 125 RHKNDYGVVVLLDKRYAR 142 (142)
T ss_pred cCccceEEEEEEeccccC
Confidence 999999999999999963
No 15
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=99.91 E-value=3.2e-25 Score=232.62 Aligned_cols=139 Identities=33% Similarity=0.508 Sum_probs=98.5
Q ss_pred chHHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhh
Q 000814 538 DGYKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQE 617 (1269)
Q Consensus 538 dsY~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~ 617 (1269)
++|.+|+.+.+.|.+.+.+ ..+++|.|.. .+.+.++++|++
T Consensus 17 ~Sy~~l~~~~~~~~~~~~~----~~~~v~~q~~----~~~~~~l~~~~~------------------------------- 57 (167)
T PF13307_consen 17 PSYRRLEKVYERLKERLEE----KGIPVFVQGS----KSRDELLEEFKR------------------------------- 57 (167)
T ss_dssp SSHHHHHHHHTT-TSS-E-----ETSCEEESTC----CHHHHHHHHHCC-------------------------------
T ss_pred CCHHHHHHHHHHHHhhccc----ccceeeecCc----chHHHHHHHHHh-------------------------------
Confidence 5899999999999876432 3458999942 245677777731
Q ss_pred hcccCCcEEEEeeccceeecccCCCCCceEEEE-eccccc---hhhhh-------cccCCCCcchHHHHHHHHHHhcCcc
Q 000814 618 NANKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYND---TYRSS-------KNLLSGNEWYCNQAFRALNQAIGRC 686 (1269)
Q Consensus 618 ~s~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d---~~~~s-------k~~~~G~~wY~~~AmRaVNQAIGRv 686 (1269)
++++|||||+||+|||||||+|+.||+||| +.||.. +.... .....+..||.++|+++|+||+||+
T Consensus 58 ---~~~~il~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~ 134 (167)
T PF13307_consen 58 ---GEGAILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRL 134 (167)
T ss_dssp ---SSSEEEEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC
T ss_pred ---ccCeEEEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcc
Confidence 248999999999999999999999999999 777742 22211 1123456789999999999999999
Q ss_pred cccCCCeEEEEEEeccccchhhHhHHHHHHHh
Q 000814 687 IRHRFDYGAIILLDERFQEERNRAHISKWLRK 718 (1269)
Q Consensus 687 IRhk~DyGvIILLD~Rf~~~~yr~~Lp~Wlr~ 718 (1269)
|||++|||+|+|+|+||.++.|+..||+|+++
T Consensus 135 iR~~~D~g~i~llD~R~~~~~y~~~l~~~l~~ 166 (167)
T PF13307_consen 135 IRSEDDYGVIILLDSRFLSKRYGKYLPKWLPP 166 (167)
T ss_dssp --STT-EEEEEEESGGGGGHHHHHH-T-----
T ss_pred eeccCCcEEEEEEcCccccchhhhcCcccccc
Confidence 99999999999999999999999999999975
No 16
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.89 E-value=4.8e-23 Score=210.57 Aligned_cols=128 Identities=27% Similarity=0.452 Sum_probs=103.4
Q ss_pred HHHHHHHHHHHHHcCccchhccCCcEEEecCCCCHHHHHHHHHHHHHHhhcCCchhhhhhhhhhccCCCCcchhhhhhhc
Q 000814 540 YKLMEKLCNRWRETGQWSRLNAKKPLFVEPKGGSQEDFEIVLKHYYNSISQGSKCAVVRKKRVKREGNNDLNTIESQENA 619 (1269)
Q Consensus 540 Y~~Le~l~~~w~e~g~~srI~~~K~IFvEpr~~s~~e~e~vL~~f~~sI~qg~~~~~~~~~~~kk~~~~~~~~~e~~~~s 619 (1269)
|++|+++++.|++.+.|.+|...++||+|++++. +...++++|++..
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~--~~~~~l~~f~~~~------------------------------- 47 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGK--ETGKLLEKYVEAC------------------------------- 47 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChh--HHHHHHHHHHHcC-------------------------------
Confidence 6899999999999999999999999999998653 4677888886421
Q ss_pred ccCCcEEEEeeccceeecccCCCCCceEEEE-ecccc---chhhhhcc----cCC-CCcc---hHHHHHHHHHHhcCccc
Q 000814 620 NKKGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYN---DTYRSSKN----LLS-GNEW---YCNQAFRALNQAIGRCI 687 (1269)
Q Consensus 620 ~~~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~---d~~~~sk~----~~~-G~~w---Y~~~AmRaVNQAIGRvI 687 (1269)
.++|||||++ |||||||+|+.+|+||| +.||. ++....+. ..+ ++.| |.++|+++++||+||+|
T Consensus 48 --~~~iL~~~~~--~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~i 123 (141)
T smart00492 48 --ENAILLATAR--FSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFDFVSLPDAMRTLAQCVGRLI 123 (141)
T ss_pred --CCEEEEEccc--eecceecCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHhCccc
Confidence 2589999976 99999999999999999 88885 22211111 111 3333 45899999999999999
Q ss_pred ccCCCeEEEEEEecccc
Q 000814 688 RHRFDYGAIILLDERFQ 704 (1269)
Q Consensus 688 Rhk~DyGvIILLD~Rf~ 704 (1269)
||++|||+|+|+|+||.
T Consensus 124 R~~~D~g~i~l~D~R~~ 140 (141)
T smart00492 124 RGANDYGVVVIADKRFA 140 (141)
T ss_pred cCcCceEEEEEEecccc
Confidence 99999999999999986
No 17
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=99.04 E-value=3.4e-11 Score=148.08 Aligned_cols=147 Identities=10% Similarity=-0.053 Sum_probs=130.0
Q ss_pred hhhhhcc-cccccccccccccccCCCCcccc-ccCCCCCCCCccccccccccCCCCCCcccCCCCcCCCCCCc-chhhcc
Q 000814 883 QEFVQLD-RVSSCKDYINTQCSLQKSSRCCE-ASSMPFSNEDPELLLVKETPAMDDNNTMASPGSLSKDGNSS-STIFQA 959 (1269)
Q Consensus 883 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 959 (1269)
.||.|.+ ..|.+..+++|.|.++.++.|++ .+.+.++.+||+.+.+. .+|...+.++.|+.|+.+...+ .+++..
T Consensus 578 ~tfw~~~~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~--~~aVcRGKVSEGlDFsD~~~RaVI~tGlP 655 (945)
T KOG1132|consen 578 ITFWQNRGLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAV--FFAVCRGKVSEGLDFSDDNGRAVIITGLP 655 (945)
T ss_pred HHHHHcchHHHHhhcccCceeccCCccchHHHHHHHHHHhhCccccceE--EEEEecccccCCCCccccCCceeEEecCC
Confidence 5677775 77899999999999999999999 57779999999987776 7788999999999999555555 355999
Q ss_pred cCCCCCccccccccccCCCCCCCCCCCCccccccccccCCCCCCCCCCCCccccccchhhhhhccCCCCCchhhhhhhcc
Q 000814 960 STQSPDQLSVHSQSLTNPVRVPSSAQPEMVVTPEKEVTGDTSNLPPERDSSLSSSVNSHTQKRRKTMVSPSVDLMLMASR 1039 (1269)
Q Consensus 960 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1039 (1269)
.+..+||.++.+.++-++++.+.++.++.+.++|+|....++ .+|+++|+|..+|+++...+++|+.-+.+.
T Consensus 656 yP~~~D~~V~lK~~y~D~~~~~~g~~s~~lsg~eWY~~qA~R--------AvNQAiGRviRHR~D~Gav~l~D~Rfe~~~ 727 (945)
T KOG1132|consen 656 YPPVMDPRVKLKKQYLDENSSLKGAKSQLLSGQEWYSQQAYR--------AVNQAIGRVIRHRNDYGAVILCDDRFENAD 727 (945)
T ss_pred CCCCCCHHHHHHHHhhhhhccccccccccccchHHHHhhHHH--------HHHHHHHHHHhhhcccceeeEeechhhcCc
Confidence 999999999999999999999999999999999999988887 899999999999999999998887765443
No 18
>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=98.80 E-value=2.9e-08 Score=103.46 Aligned_cols=44 Identities=30% Similarity=0.483 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
|++|+.|.+.+.++++.++... +..++++++|||+|||+.++..
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~--~~~~~ll~~~tGsGKT~~~~~~ 45 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKK--EERRVLLNAPTGSGKTIIALAL 45 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTS--GCSEEEEEESTTSSHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcC--CCCCEEEEECCCCCcChhhhhh
Confidence 6789999999999999998640 1248999999999999987743
No 19
>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=98.76 E-value=9.8e-08 Score=98.74 Aligned_cols=67 Identities=21% Similarity=0.259 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCC
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFI 112 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~ 112 (1269)
|.|.+.+..++ ++ .++++.||||+|||++++.+++.++.+.
T Consensus 2 ~~Q~~~~~~i~----~~-----~~~li~aptGsGKT~~~~~~~l~~~~~~------------------------------ 42 (169)
T PF00270_consen 2 PLQQEAIEAII----SG-----KNVLISAPTGSGKTLAYILPALNRLQEG------------------------------ 42 (169)
T ss_dssp HHHHHHHHHHH----TT-----SEEEEECSTTSSHHHHHHHHHHHHHHTT------------------------------
T ss_pred HHHHHHHHHHH----cC-----CCEEEECCCCCccHHHHHHHHHhhhccC------------------------------
Confidence 57888776555 32 3799999999999999999999776431
Q ss_pred CCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 113 PESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 113 ~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
...+++|.+.|.+-..|+..++++..
T Consensus 43 -----------------------------~~~~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 43 -----------------------------KDARVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp -----------------------------SSSEEEEEESSHHHHHHHHHHHHHHT
T ss_pred -----------------------------CCceEEEEeecccccccccccccccc
Confidence 12378999999999999988887653
No 20
>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=98.69 E-value=1.6e-07 Score=100.78 Aligned_cols=75 Identities=20% Similarity=0.226 Sum_probs=58.0
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcC
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPL 105 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~ 105 (1269)
+.| .||+.|.+.+..+.. + .++|+++|||+|||++++.+++.......
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~-----~~~li~~~TG~GKT~~~~~~~l~~~~~~~---------------------- 65 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----G-----RDVIGQAQTGSGKTAAFLIPILEKLDPSP---------------------- 65 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----C-----CcEEEECCCCCcHHHHHHHHHHHHHHhhc----------------------
Confidence 345 489999998876655 3 27999999999999999999887654310
Q ss_pred CCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 106 ANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 106 ~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
....++++|.+.|...+.|+..++++.
T Consensus 66 ----------------------------------~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 66 ----------------------------------KKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred ----------------------------------ccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 013578999999999999998888765
No 21
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.49 E-value=4.6e-07 Score=94.18 Aligned_cols=73 Identities=23% Similarity=0.158 Sum_probs=55.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
.++++++.|.+++..+.... .++++.+|||||||.+++..++......
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~--------~~~~i~~~~GsGKT~~~~~~~~~~~~~~------------------------ 52 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL--------RDVILAAPTGSGKTLAALLPALEALKRG------------------------ 52 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC--------CcEEEECCCCCchhHHHHHHHHHHhccc------------------------
Confidence 45689999998887655433 2689999999999998877766543210
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
...+++|.+.|.+...|+..++++.
T Consensus 53 -----------------------------------~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 53 -----------------------------------KGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred -----------------------------------CCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 1346899999999999998887765
No 22
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.49 E-value=8.4e-07 Score=106.85 Aligned_cols=76 Identities=25% Similarity=0.333 Sum_probs=56.7
Q ss_pred CC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 28 PY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 28 PY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
-| +|++.|.+.+..++ + |+ .+|+.||||+|||++|+.|+|.++..+...
T Consensus 20 g~~~p~~iQ~~ai~~~~----~----g~-d~l~~apTGsGKT~~~~lp~l~~l~~~~~~--------------------- 69 (434)
T PRK11192 20 GYTRPTAIQAEAIPPAL----D----GR-DVLGSAPTGTGKTAAFLLPALQHLLDFPRR--------------------- 69 (434)
T ss_pred CCCCCCHHHHHHHHHHh----C----CC-CEEEECCCCChHHHHHHHHHHHHHhhcccc---------------------
Confidence 35 58999998766444 2 22 689999999999999999999887542100
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
....++++|++.|..-..|+.+.++..
T Consensus 70 ---------------------------------~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 70 ---------------------------------KSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred ---------------------------------CCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 012468999999999888887777665
No 23
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.49 E-value=7.1e-07 Score=107.22 Aligned_cols=80 Identities=16% Similarity=0.155 Sum_probs=57.8
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcC
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPL 105 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~ 105 (1269)
+.| .|.|.|.+.+.. +-+ |+ .+|+.||||||||+|||.|+|..+...+..
T Consensus 26 ~g~~~pt~iQ~~aip~----il~----g~-dvi~~ApTGsGKTla~llp~l~~l~~~~~~-------------------- 76 (423)
T PRK04837 26 KGFHNCTPIQALALPL----TLA----GR-DVAGQAQTGTGKTMAFLTATFHYLLSHPAP-------------------- 76 (423)
T ss_pred CCCCCCCHHHHHHHHH----HhC----CC-cEEEECCCCchHHHHHHHHHHHHHHhcccc--------------------
Confidence 456 589999986653 333 33 699999999999999999999765432100
Q ss_pred CCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 106 ANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 106 ~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
.......++++|.+.|.....|+.+++++.
T Consensus 77 -------------------------------~~~~~~~~~~lil~PtreLa~Qi~~~~~~l 106 (423)
T PRK04837 77 -------------------------------EDRKVNQPRALIMAPTRELAVQIHADAEPL 106 (423)
T ss_pred -------------------------------cccccCCceEEEECCcHHHHHHHHHHHHHH
Confidence 000113578999999999999998887765
No 24
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.48 E-value=8.5e-07 Score=110.59 Aligned_cols=81 Identities=17% Similarity=0.154 Sum_probs=58.4
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcC
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPL 105 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~ 105 (1269)
+-| .|+|.|.+.+-.++ . |+ .+|+.||||||||++||.++|..+......
T Consensus 27 ~g~~~ptpiQ~~~ip~~l----~----G~-Dvi~~ApTGSGKTlafllpil~~l~~~~~~-------------------- 77 (572)
T PRK04537 27 AGFTRCTPIQALTLPVAL----P----GG-DVAGQAQTGTGKTLAFLVAVMNRLLSRPAL-------------------- 77 (572)
T ss_pred CCCCCCCHHHHHHHHHHh----C----CC-CEEEEcCCCCcHHHHHHHHHHHHHHhcccc--------------------
Confidence 346 59999998776433 2 33 699999999999999999998755321000
Q ss_pred CCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 106 ANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 106 ~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
. ......++++|++.|..-..|+.+++++.+
T Consensus 78 ------------~-------------------~~~~~~~raLIl~PTreLa~Qi~~~~~~l~ 108 (572)
T PRK04537 78 ------------A-------------------DRKPEDPRALILAPTRELAIQIHKDAVKFG 108 (572)
T ss_pred ------------c-------------------ccccCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 0 000135789999999999999998888764
No 25
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.46 E-value=1.2e-06 Score=111.41 Aligned_cols=91 Identities=19% Similarity=0.255 Sum_probs=70.8
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCccccc
Q 000814 23 IQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVT 102 (1269)
Q Consensus 23 i~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~ 102 (1269)
+.-.|||+|++.|.+.+..|...+.... ..+.|+.||||+|||++++.+++..+.
T Consensus 254 ~~~~l~f~lt~~Q~~ai~~I~~d~~~~~---~~~~Ll~~~TGSGKT~va~~~il~~~~---------------------- 308 (681)
T PRK10917 254 FLASLPFELTGAQKRVVAEILADLASPK---PMNRLLQGDVGSGKTVVAALAALAAIE---------------------- 308 (681)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHhhhccC---CceEEEECCCCCcHHHHHHHHHHHHHH----------------------
Confidence 4567999999999999999998886532 236899999999999999999887542
Q ss_pred CcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC--CCccEEEEcc
Q 000814 103 DPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA--YRVPMAVLAS 177 (1269)
Q Consensus 103 ~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~--~~v~~~vL~S 177 (1269)
...+++|.+.|..-..|..+.+++.. ..+++.++.|
T Consensus 309 ---------------------------------------~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G 346 (681)
T PRK10917 309 ---------------------------------------AGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTG 346 (681)
T ss_pred ---------------------------------------cCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcC
Confidence 13468899999999999988888752 2355555544
No 26
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.39 E-value=2e-06 Score=106.24 Aligned_cols=80 Identities=21% Similarity=0.276 Sum_probs=57.8
Q ss_pred CC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 28 PY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 28 PY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
.| .|+|.|.+.+..++ . |+ ++|+.||||+|||++||.|+|..+.......
T Consensus 140 g~~~ptpiQ~~aip~il----~----g~-dviv~ApTGSGKTlayllPil~~l~~~~~~~-------------------- 190 (518)
T PLN00206 140 GYEFPTPIQMQAIPAAL----S----GR-SLLVSADTGSGKTASFLVPIISRCCTIRSGH-------------------- 190 (518)
T ss_pred CCCCCCHHHHHHHHHHh----c----CC-CEEEEecCCCCccHHHHHHHHHHHHhhcccc--------------------
Confidence 46 59999998766443 3 33 7999999999999999999998765321000
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
. .....++++|.+.|..-..|+.++++...
T Consensus 191 ----------~---------------------~~~~~~~aLIL~PTreLa~Qi~~~~~~l~ 220 (518)
T PLN00206 191 ----------P---------------------SEQRNPLAMVLTPTRELCVQVEDQAKVLG 220 (518)
T ss_pred ----------c---------------------cccCCceEEEEeCCHHHHHHHHHHHHHHh
Confidence 0 00135789999999998888877776653
No 27
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.36 E-value=1.6e-06 Score=105.25 Aligned_cols=76 Identities=17% Similarity=0.176 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
.|++.|.+.+..++ . |+ .+|+.||||||||++|+.|.|..+...+..
T Consensus 23 ~pt~iQ~~ai~~il----~----g~-dvlv~apTGsGKTla~~lpil~~l~~~~~~------------------------ 69 (456)
T PRK10590 23 EPTPIQQQAIPAVL----E----GR-DLMASAQTGTGKTAGFTLPLLQHLITRQPH------------------------ 69 (456)
T ss_pred CCCHHHHHHHHHHh----C----CC-CEEEECCCCCcHHHHHHHHHHHHhhhcccc------------------------
Confidence 69999998776443 2 33 699999999999999999998765431100
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
......++++|.+.|..-..|+.+++++.
T Consensus 70 ----------------------------~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 70 ----------------------------AKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred ----------------------------cccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 00012457899999999999998888765
No 28
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.36 E-value=2.5e-06 Score=107.62 Aligned_cols=90 Identities=17% Similarity=0.208 Sum_probs=68.6
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccC
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTD 103 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~ 103 (1269)
--.+||+|++.|.+.+..|...+.... ..+.|+.||||+|||++++.+++....
T Consensus 229 ~~~lpf~lt~~Q~~ai~~I~~~~~~~~---~~~~Ll~g~TGSGKT~va~l~il~~~~----------------------- 282 (630)
T TIGR00643 229 LASLPFKLTRAQKRVVKEILQDLKSDV---PMNRLLQGDVGSGKTLVAALAMLAAIE----------------------- 282 (630)
T ss_pred HHhCCCCCCHHHHHHHHHHHHHhccCC---CccEEEECCCCCcHHHHHHHHHHHHHH-----------------------
Confidence 447899999999999999988875421 125799999999999999988776432
Q ss_pred cCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC--CCccEEEEcc
Q 000814 104 PLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA--YRVPMAVLAS 177 (1269)
Q Consensus 104 p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~--~~v~~~vL~S 177 (1269)
...+++|.+.|..-..|..+++++.- +.++++++.|
T Consensus 283 --------------------------------------~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg 320 (630)
T TIGR00643 283 --------------------------------------AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTG 320 (630)
T ss_pred --------------------------------------cCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEec
Confidence 12468899999999999999988752 2355555544
No 29
>PTZ00110 helicase; Provisional
Probab=98.33 E-value=3.4e-06 Score=104.80 Aligned_cols=77 Identities=18% Similarity=0.191 Sum_probs=56.7
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCC
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLAN 107 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~ 107 (1269)
| +|++.|.+.+.. +-. |+ .+|+.||||+|||++||.|+|..+......
T Consensus 150 ~~~pt~iQ~~aip~----~l~----G~-dvI~~ApTGSGKTlaylLP~l~~i~~~~~~---------------------- 198 (545)
T PTZ00110 150 FTEPTPIQVQGWPI----ALS----GR-DMIGIAETGSGKTLAFLLPAIVHINAQPLL---------------------- 198 (545)
T ss_pred CCCCCHHHHHHHHH----Hhc----CC-CEEEEeCCCChHHHHHHHHHHHHHHhcccc----------------------
Confidence 6 599999986653 322 33 689999999999999999999765431000
Q ss_pred CCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 108 GGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 108 ~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
.....|.+++.+.|..-..|+.+++++.+
T Consensus 199 -------------------------------~~~~gp~~LIL~PTreLa~Qi~~~~~~~~ 227 (545)
T PTZ00110 199 -------------------------------RYGDGPIVLVLAPTRELAEQIREQCNKFG 227 (545)
T ss_pred -------------------------------cCCCCcEEEEECChHHHHHHHHHHHHHHh
Confidence 01135789999999999999988888764
No 30
>PTZ00424 helicase 45; Provisional
Probab=98.31 E-value=2.5e-06 Score=101.30 Aligned_cols=44 Identities=18% Similarity=0.357 Sum_probs=34.7
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
|.| .|+|.|.+.+..+. + |+ ..++.||||+|||++|+.+++.++
T Consensus 46 ~~~~~~~~~Q~~ai~~i~----~----~~-d~ii~apTGsGKT~~~~l~~l~~~ 90 (401)
T PTZ00424 46 YGFEKPSAIQQRGIKPIL----D----GY-DTIGQAQSGTGKTATFVIAALQLI 90 (401)
T ss_pred cCCCCCCHHHHHHHHHHh----C----CC-CEEEECCCCChHHHHHHHHHHHHh
Confidence 346 59999998776543 2 22 589999999999999999998764
No 31
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.31 E-value=3.3e-06 Score=106.36 Aligned_cols=73 Identities=21% Similarity=0.192 Sum_probs=55.2
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcC
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPL 105 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~ 105 (1269)
+.| +|+|.|.+.+..+ .. |+ .+|+.||||||||+||+.|++..+...
T Consensus 24 ~G~~~ptpiQ~~ai~~l----l~----g~-dvl~~ApTGsGKT~af~lpll~~l~~~----------------------- 71 (629)
T PRK11634 24 LGYEKPSPIQAECIPHL----LN----GR-DVLGMAQTGSGKTAAFSLPLLHNLDPE----------------------- 71 (629)
T ss_pred CCCCCCCHHHHHHHHHH----Hc----CC-CEEEEcCCCCcHHHHHHHHHHHHhhhc-----------------------
Confidence 346 5999999866543 33 33 689999999999999999988653210
Q ss_pred CCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 106 ANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 106 ~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
...++++|.+.|.....|+.+++++.
T Consensus 72 -----------------------------------~~~~~~LIL~PTreLa~Qv~~~l~~~ 97 (629)
T PRK11634 72 -----------------------------------LKAPQILVLAPTRELAVQVAEAMTDF 97 (629)
T ss_pred -----------------------------------cCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 13468999999999999998887764
No 32
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.30 E-value=2.6e-06 Score=103.50 Aligned_cols=73 Identities=18% Similarity=0.191 Sum_probs=55.7
Q ss_pred CC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 28 PY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 28 PY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
.| .|+|.|.+.+..+. . |+ ++|+.||||||||++|+.|.+..+...
T Consensus 23 g~~~~t~iQ~~ai~~~l----~----g~-dvi~~a~TGsGKT~a~~lpil~~l~~~------------------------ 69 (460)
T PRK11776 23 GYTEMTPIQAQSLPAIL----A----GK-DVIAQAKTGSGKTAAFGLGLLQKLDVK------------------------ 69 (460)
T ss_pred CCCCCCHHHHHHHHHHh----c----CC-CEEEECCCCCcHHHHHHHHHHHHhhhc------------------------
Confidence 45 48899998776443 2 33 799999999999999999988765310
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
...++++|.+.|.....|+.+++++..
T Consensus 70 ----------------------------------~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 70 ----------------------------------RFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred ----------------------------------cCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 023568899999999999999888763
No 33
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.21 E-value=9.5e-06 Score=99.10 Aligned_cols=79 Identities=18% Similarity=0.140 Sum_probs=56.1
Q ss_pred CC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 28 PY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 28 PY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
-| .||+.|.+.+.. +.. |+ ++|+-||||||||++|+.|.|.-+......
T Consensus 106 g~~~~~~iQ~~ai~~----~~~----G~-dvi~~apTGSGKTlay~lpil~~l~~~~~~--------------------- 155 (475)
T PRK01297 106 GFPYCTPIQAQVLGY----TLA----GH-DAIGRAQTGTGKTAAFLISIINQLLQTPPP--------------------- 155 (475)
T ss_pred CCCCCCHHHHHHHHH----HhC----CC-CEEEECCCCChHHHHHHHHHHHHHHhcCcc---------------------
Confidence 45 489999987653 333 33 789999999999999999998765431100
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
. ......++++|.+.|..-..|+.++++.+
T Consensus 156 -----------~-------------------~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 156 -----------K-------------------ERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred -----------c-------------------ccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 0 00012468999999999999988887765
No 34
>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=98.14 E-value=1.2e-05 Score=98.08 Aligned_cols=44 Identities=30% Similarity=0.359 Sum_probs=35.0
Q ss_pred ecCCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 25 VEFPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 25 v~FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-.|.| .++|.|.+.+..+. + |+ .+++.+|||+|||++|+.|+|.
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l----~----g~-dvlv~apTGsGKTl~y~lp~l~ 49 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVL----L----GR-DCFVVMPTGGGKSLCYQLPALC 49 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHH----c----CC-CEEEEcCCCCcHhHHHHHHHHH
Confidence 45787 58999998776443 2 33 6899999999999999999874
No 35
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.13 E-value=1.2e-05 Score=78.52 Aligned_cols=45 Identities=22% Similarity=0.250 Sum_probs=30.9
Q ss_pred HHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHH
Q 000814 253 RSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDI 298 (1269)
Q Consensus 253 R~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~ 298 (1269)
+......+|++++|+.++....... .......++||||||++...
T Consensus 74 ~~~~~~~~i~i~t~~~~~~~~~~~~-~~~~~~~~iiiDE~h~~~~~ 118 (144)
T cd00046 74 KLLSGKTDIVVGTPGRLLDELERLK-LSLKKLDLLILDEAHRLLNQ 118 (144)
T ss_pred HHhcCCCCEEEECcHHHHHHHHcCC-cchhcCCEEEEeCHHHHhhc
Confidence 3445688999999998875543221 12235678999999998764
No 36
>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=98.12 E-value=1.2e-05 Score=103.02 Aligned_cols=70 Identities=19% Similarity=0.251 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
+||+.|.+.+. .+.+ |+ ++|+.||||||||+||+.|+|..+.+.
T Consensus 36 ~p~~~Q~~ai~----~il~----G~-nvvv~apTGSGKTla~~LPiL~~l~~~--------------------------- 79 (742)
T TIGR03817 36 RPWQHQARAAE----LAHA----GR-HVVVATGTASGKSLAYQLPVLSALADD--------------------------- 79 (742)
T ss_pred cCCHHHHHHHH----HHHC----CC-CEEEECCCCCcHHHHHHHHHHHHHhhC---------------------------
Confidence 59999997665 3333 33 799999999999999999999765320
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
..++++|.+.|..-..|..+++++.+
T Consensus 80 --------------------------------~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 80 --------------------------------PRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred --------------------------------CCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 13578999999999999999888763
No 37
>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=98.09 E-value=3.1e-05 Score=97.24 Aligned_cols=44 Identities=32% Similarity=0.436 Sum_probs=35.3
Q ss_pred ecCCCC-CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 25 VEFPYQ-PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 25 v~FPY~-PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-.|.|+ ++|.|.+.+..++ + |+ .+++.+|||+|||++|+.|+|.
T Consensus 7 ~~fg~~~fr~~Q~~~i~~il----~----g~-dvlv~~PTG~GKTl~y~lpal~ 51 (591)
T TIGR01389 7 RTFGYDDFRPGQEEIISHVL----D----GR-DVLVVMPTGGGKSLCYQVPALL 51 (591)
T ss_pred HhcCCCCCCHHHHHHHHHHH----c----CC-CEEEEcCCCccHhHHHHHHHHH
Confidence 358885 7899998776544 3 33 6899999999999999999883
No 38
>PRK01172 ski2-like helicase; Provisional
Probab=98.06 E-value=1.6e-05 Score=101.36 Aligned_cols=41 Identities=20% Similarity=0.370 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+|++|+.|.+.+.. +.++ .++|+.||||+|||++++.+.+.
T Consensus 20 ~~~l~~~Q~~ai~~----l~~~-----~nvlv~apTGSGKTl~a~lail~ 60 (674)
T PRK01172 20 DFELYDHQRMAIEQ----LRKG-----ENVIVSVPTAAGKTLIAYSAIYE 60 (674)
T ss_pred CCCCCHHHHHHHHH----HhcC-----CcEEEECCCCchHHHHHHHHHHH
Confidence 57899999987764 3332 37999999999999988877654
No 39
>PRK09694 helicase Cas3; Provisional
Probab=97.99 E-value=2.3e-05 Score=101.37 Aligned_cols=40 Identities=30% Similarity=0.405 Sum_probs=29.9
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
|.|||.|...+. +.. +....|||||||+|||.+.|..|..
T Consensus 285 ~~p~p~Q~~~~~-----~~~----~pgl~ileApTGsGKTEAAL~~A~~ 324 (878)
T PRK09694 285 YQPRQLQTLVDA-----LPL----QPGLTIIEAPTGSGKTEAALAYAWR 324 (878)
T ss_pred CCChHHHHHHHh-----hcc----CCCeEEEEeCCCCCHHHHHHHHHHH
Confidence 689999997642 111 1237899999999999998777664
No 40
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.96 E-value=3.5e-05 Score=100.77 Aligned_cols=42 Identities=24% Similarity=0.298 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
.|+|.|.+.+..+ .+ |+ ++|+.||||+|||+|++.|+|..+.
T Consensus 32 ~~tpiQ~~Ai~~i----l~----g~-nvli~APTGSGKTlaa~Lpil~~l~ 73 (876)
T PRK13767 32 TFTPPQRYAIPLI----HE----GK-NVLISSPTGSGKTLAAFLAIIDELF 73 (876)
T ss_pred CCCHHHHHHHHHH----Hc----CC-CEEEECCCCCcHHHHHHHHHHHHHH
Confidence 5999999877643 33 33 7999999999999999999997654
No 41
>PRK02362 ski2-like helicase; Provisional
Probab=97.93 E-value=2.9e-05 Score=99.92 Aligned_cols=68 Identities=21% Similarity=0.183 Sum_probs=53.3
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
++||.|.+.+.. .+.. | .++|+-||||+|||++++.+.+..+.
T Consensus 23 ~l~p~Q~~ai~~---~~~~----g-~nvlv~APTGSGKTlia~lail~~l~----------------------------- 65 (737)
T PRK02362 23 ELYPPQAEAVEA---GLLD----G-KNLLAAIPTASGKTLIAELAMLKAIA----------------------------- 65 (737)
T ss_pred cCCHHHHHHHHH---HHhC----C-CcEEEECCCcchHHHHHHHHHHHHHh-----------------------------
Confidence 689999986653 2333 3 37999999999999999988775432
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
...+++|.+.|.+-..|..+++++.
T Consensus 66 --------------------------------~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 66 --------------------------------RGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred --------------------------------cCCcEEEEeChHHHHHHHHHHHHHh
Confidence 1246899999999999999998865
No 42
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.92 E-value=7.9e-05 Score=93.93 Aligned_cols=45 Identities=36% Similarity=0.441 Sum_probs=35.6
Q ss_pred eecCCCC-CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 24 QVEFPYQ-PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 24 ~v~FPY~-PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.-.|.|+ +||.|.+.+..++ + |+ .+++-+|||+|||++|+.|+|.
T Consensus 18 ~~~fG~~~~r~~Q~~ai~~il----~----g~-dvlv~apTGsGKTl~y~lpal~ 63 (607)
T PRK11057 18 QETFGYQQFRPGQQEIIDAVL----S----GR-DCLVVMPTGGGKSLCYQIPALV 63 (607)
T ss_pred HHHcCCCCCCHHHHHHHHHHH----c----CC-CEEEEcCCCchHHHHHHHHHHH
Confidence 3458884 8899998777544 2 23 6899999999999999999873
No 43
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.84 E-value=9.8e-05 Score=98.41 Aligned_cols=79 Identities=14% Similarity=0.145 Sum_probs=63.0
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCccccc
Q 000814 23 IQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVT 102 (1269)
Q Consensus 23 i~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~ 102 (1269)
..-.|||+|-+.|.+.+..+...++... + ...|+.||||+|||.+++.+|.....
T Consensus 593 ~~~~~~~~~T~~Q~~aI~~il~d~~~~~--~-~d~Ll~a~TGsGKT~val~aa~~~~~---------------------- 647 (1147)
T PRK10689 593 FCDSFPFETTPDQAQAINAVLSDMCQPL--A-MDRLVCGDVGFGKTEVAMRAAFLAVE---------------------- 647 (1147)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHHhhcCC--C-CCEEEEcCCCcCHHHHHHHHHHHHHH----------------------
Confidence 3568999999999999998888876432 2 25899999999999998877664321
Q ss_pred CcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHh
Q 000814 103 DPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKK 165 (1269)
Q Consensus 103 ~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk 165 (1269)
..+++++.+.|..-..|+.+.+++
T Consensus 648 ---------------------------------------~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 648 ---------------------------------------NHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred ---------------------------------------cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 135689999999999999988876
No 44
>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=97.80 E-value=4.4e-05 Score=97.64 Aligned_cols=74 Identities=26% Similarity=0.409 Sum_probs=52.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCC
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANG 108 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~ 108 (1269)
|+|||.|.+.+..+. . |+...++.||||||||.++. +|+.... .
T Consensus 14 ~~PtpiQ~~~i~~il----~----G~~~v~~~apTGSGKTaa~a----afll~~~-~----------------------- 57 (844)
T TIGR02621 14 YSPFPWQLSLAERFV----A----GQPPESCSTPTGLGKTSIIA----AWLLAVE-I----------------------- 57 (844)
T ss_pred CCCCHHHHHHHHHHH----c----CCCcceEecCCCCcccHHHH----Hhhcccc-c-----------------------
Confidence 669999999888643 2 44457889999999998763 3322100 0
Q ss_pred CCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCC
Q 000814 109 GGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAY 168 (1269)
Q Consensus 109 ~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~ 168 (1269)
......+++|++.|..-..|+.+++++.+.
T Consensus 58 ------------------------------~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k 87 (844)
T TIGR02621 58 ------------------------------GAKVPRRLVYVVNRRTVVDQVTEEAEKIGE 87 (844)
T ss_pred ------------------------------cccccceEEEeCchHHHHHHHHHHHHHHHH
Confidence 001234799999999999999998888754
No 45
>PRK00254 ski2-like helicase; Provisional
Probab=97.79 E-value=0.00011 Score=94.40 Aligned_cols=68 Identities=18% Similarity=0.175 Sum_probs=51.8
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
++||.|.+.+.. .+.+ |+ ++|+-||||+|||++++.+.+..+..
T Consensus 23 ~l~~~Q~~ai~~---~~~~----g~-nvlv~apTGsGKT~~~~l~il~~l~~---------------------------- 66 (720)
T PRK00254 23 ELYPPQAEALKS---GVLE----GK-NLVLAIPTASGKTLVAEIVMVNKLLR---------------------------- 66 (720)
T ss_pred CCCHHHHHHHHH---HHhC----CC-cEEEECCCCcHHHHHHHHHHHHHHHh----------------------------
Confidence 589999986543 2333 33 79999999999999998887754321
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHh
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKK 165 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk 165 (1269)
...+++|.+.|.+...|..+++++
T Consensus 67 --------------------------------~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 67 --------------------------------EGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred --------------------------------cCCeEEEEeChHHHHHHHHHHHHH
Confidence 124789999999999999888765
No 46
>PRK13766 Hef nuclease; Provisional
Probab=97.72 E-value=0.0002 Score=92.65 Aligned_cols=40 Identities=23% Similarity=0.249 Sum_probs=30.7
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
++||+.|.++... ++++ ++|+-+|||+|||++++..++..
T Consensus 14 ~~~r~yQ~~~~~~---~l~~-------n~lv~~ptG~GKT~~a~~~i~~~ 53 (773)
T PRK13766 14 IEARLYQQLLAAT---ALKK-------NTLVVLPTGLGKTAIALLVIAER 53 (773)
T ss_pred CCccHHHHHHHHH---HhcC-------CeEEEcCCCccHHHHHHHHHHHH
Confidence 5789999987653 3432 58999999999999877665544
No 47
>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=97.70 E-value=0.00012 Score=85.91 Aligned_cols=51 Identities=24% Similarity=0.296 Sum_probs=41.6
Q ss_pred EEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcc
Q 000814 57 ALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNK 136 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~ 136 (1269)
+++.||||+|||++++.+++.-+..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~------------------------------------------------------- 26 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKS------------------------------------------------------- 26 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhh-------------------------------------------------------
Confidence 6899999999999999998854321
Q ss_pred cccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 137 NVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 137 ~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
....+|+|+..|.+-+.|..+.++..
T Consensus 27 ----~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 27 ----QKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred ----CCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 02458999999999999998888774
No 48
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.69 E-value=0.00026 Score=90.13 Aligned_cols=78 Identities=15% Similarity=0.248 Sum_probs=59.1
Q ss_pred CCHHHHHHHHHHHHHHHhhhc-CCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 31 PYGSQLVFMCRVISTLDRAQR-DGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~-~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
||..|.+.+.++++.+.++.. .|+..+|+..|||||||+..+..|....+.
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~---------------------------- 290 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALEL---------------------------- 290 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhh----------------------------
Confidence 678899999999999876421 134468999999999999876665433211
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
...++|++.+-+..-..|+.+++++.+
T Consensus 291 -------------------------------~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 291 -------------------------------LKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred -------------------------------cCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 135789999999999999999988764
No 49
>PRK09401 reverse gyrase; Reviewed
Probab=97.62 E-value=0.00043 Score=92.66 Aligned_cols=71 Identities=20% Similarity=0.238 Sum_probs=52.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCC
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLAN 107 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~ 107 (1269)
-|+|++.|.+.+..+. . |+ .+++-||||+|||..+| +.+.|...
T Consensus 78 G~~pt~iQ~~~i~~il----~----g~-dv~i~ApTGsGKT~f~l-~~~~~l~~-------------------------- 121 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLL----L----GE-SFAIIAPTGVGKTTFGL-VMSLYLAK-------------------------- 121 (1176)
T ss_pred CCCCcHHHHHHHHHHH----C----CC-cEEEEcCCCCCHHHHHH-HHHHHHHh--------------------------
Confidence 4689999998666443 2 33 68999999999996444 33334321
Q ss_pred CCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCC
Q 000814 108 GGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAY 168 (1269)
Q Consensus 108 ~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~ 168 (1269)
..++++|.+.|.....|+.+.+++.+.
T Consensus 122 ----------------------------------~g~~alIL~PTreLa~Qi~~~l~~l~~ 148 (1176)
T PRK09401 122 ----------------------------------KGKKSYIIFPTRLLVEQVVEKLEKFGE 148 (1176)
T ss_pred ----------------------------------cCCeEEEEeccHHHHHHHHHHHHHHhh
Confidence 235789999999999999999988753
No 50
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.54 E-value=0.00031 Score=89.62 Aligned_cols=82 Identities=17% Similarity=0.177 Sum_probs=58.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCC
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLA 106 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~ 106 (1269)
-|+++++.|.+.+..+.+.+ . ..+.|+-+|||+|||.+|+.++...+.
T Consensus 141 ~~~~Lt~~Q~~ai~~i~~~~-~-----~~~~Ll~~~TGSGKT~v~l~~i~~~l~-------------------------- 188 (679)
T PRK05580 141 EPPTLNPEQAAAVEAIRAAA-G-----FSPFLLDGVTGSGKTEVYLQAIAEVLA-------------------------- 188 (679)
T ss_pred CCCCCCHHHHHHHHHHHhcc-C-----CCcEEEECCCCChHHHHHHHHHHHHHH--------------------------
Confidence 35678899998888776644 1 236899999999999999876444321
Q ss_pred CCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCccEEEEc
Q 000814 107 NGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRVPMAVLA 176 (1269)
Q Consensus 107 ~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~ 176 (1269)
...++++.+.|.+-..|+.+.+++. +..+++++.
T Consensus 189 -----------------------------------~g~~vLvLvPt~~L~~Q~~~~l~~~-fg~~v~~~~ 222 (679)
T PRK05580 189 -----------------------------------QGKQALVLVPEIALTPQMLARFRAR-FGAPVAVLH 222 (679)
T ss_pred -----------------------------------cCCeEEEEeCcHHHHHHHHHHHHHH-hCCCEEEEE
Confidence 1246899999999999999998762 223444443
No 51
>PRK14701 reverse gyrase; Provisional
Probab=97.51 E-value=0.00066 Score=93.12 Aligned_cols=72 Identities=17% Similarity=0.163 Sum_probs=54.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcC
Q 000814 26 EFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPL 105 (1269)
Q Consensus 26 ~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~ 105 (1269)
.+.|+|++.|.+.+..+.. |+ .+++-||||+|||+.++.+++....
T Consensus 75 ~~G~~pt~iQ~~~i~~il~--------G~-d~li~APTGsGKTl~~~~~al~~~~------------------------- 120 (1638)
T PRK14701 75 ITGFEFWSIQKTWAKRILR--------GK-SFSIVAPTGMGKSTFGAFIALFLAL------------------------- 120 (1638)
T ss_pred hhCCCCCHHHHHHHHHHHc--------CC-CEEEEEcCCCCHHHHHHHHHHHHHh-------------------------
Confidence 3678999999987765443 33 5899999999999976666553311
Q ss_pred CCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 106 ANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 106 ~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
..+++++.+.|.+...|+...++.+.
T Consensus 121 ------------------------------------~g~~aLVl~PTreLa~Qi~~~l~~l~ 146 (1638)
T PRK14701 121 ------------------------------------KGKKCYIILPTTLLVKQTVEKIESFC 146 (1638)
T ss_pred ------------------------------------cCCeEEEEECHHHHHHHHHHHHHHHH
Confidence 13468899999999999999998753
No 52
>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=97.50 E-value=0.00037 Score=91.21 Aligned_cols=89 Identities=15% Similarity=0.204 Sum_probs=69.2
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCccccc
Q 000814 23 IQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVT 102 (1269)
Q Consensus 23 i~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~ 102 (1269)
+.-.|||+|.+.|.+.+..|...+..+. + ...|+.||||+|||++++.+++..+.
T Consensus 444 ~~~~~~f~~T~~Q~~aI~~I~~d~~~~~--~-~d~Ll~adTGsGKT~val~a~l~al~---------------------- 498 (926)
T TIGR00580 444 FEDSFPFEETPDQLKAIEEIKADMESPR--P-MDRLVCGDVGFGKTEVAMRAAFKAVL---------------------- 498 (926)
T ss_pred HHHhCCCCCCHHHHHHHHHHHhhhcccC--c-CCEEEECCCCccHHHHHHHHHHHHHH----------------------
Confidence 3457999999999999999998887542 2 25899999999999999999876432
Q ss_pred CcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc--CCCccEEEE
Q 000814 103 DPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT--AYRVPMAVL 175 (1269)
Q Consensus 103 ~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~--~~~v~~~vL 175 (1269)
..++++|++.|..-..|..+.+++. .+.+++.+|
T Consensus 499 ---------------------------------------~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~L 534 (926)
T TIGR00580 499 ---------------------------------------DGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELL 534 (926)
T ss_pred ---------------------------------------hCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEE
Confidence 1246899999999999999998874 234444444
No 53
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=97.44 E-value=0.00056 Score=91.66 Aligned_cols=68 Identities=21% Similarity=0.276 Sum_probs=50.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCC
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANG 108 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~ 108 (1269)
+.|++.|.+.+..+. . |+ .+++.||||+|||+ ++.+++.+...
T Consensus 77 ~~p~~iQ~~~i~~il----~----G~-d~vi~ApTGsGKT~-f~l~~~~~l~~--------------------------- 119 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVL----R----GD-SFAIIAPTGVGKTT-FGLAMSLFLAK--------------------------- 119 (1171)
T ss_pred CCCcHHHHHHHHHHh----C----CC-eEEEECCCCCCHHH-HHHHHHHHHHh---------------------------
Confidence 689999998766433 2 33 68999999999997 44454444321
Q ss_pred CCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 109 GGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 109 ~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
..++++|.+.|.....|+.+++++.
T Consensus 120 ---------------------------------~g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 120 ---------------------------------KGKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred ---------------------------------cCCeEEEEeCHHHHHHHHHHHHHHH
Confidence 1357899999999999999988876
No 54
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.39 E-value=0.00063 Score=85.43 Aligned_cols=47 Identities=17% Similarity=0.200 Sum_probs=36.1
Q ss_pred ecCC--CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 25 VEFP--YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 25 v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
-.+| +..|+.|.++.. .|| + ++.|+-+|||.|||+.....++.|.+.
T Consensus 55 ~~~p~~~~lR~YQ~eivq---~AL--g-----kNtii~lPTG~GKTfIAa~Vm~nh~rw 103 (746)
T KOG0354|consen 55 WIYPTNLELRNYQEELVQ---PAL--G-----KNTIIALPTGSGKTFIAAVIMKNHFEW 103 (746)
T ss_pred ccccCcccccHHHHHHhH---Hhh--c-----CCeEEEeecCCCccchHHHHHHHHHhc
Confidence 3444 578899998776 566 3 389999999999999877777777653
No 55
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.38 E-value=0.00036 Score=89.59 Aligned_cols=135 Identities=13% Similarity=0.162 Sum_probs=88.4
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
+-|+.|.+...+.+.. | .++|+-+|||.|||+-.+.+.+.-+.+
T Consensus 31 el~~~qq~av~~~~~~-------~-~N~li~aPTgsGKTlIA~lai~~~l~~---------------------------- 74 (766)
T COG1204 31 ELFNPQQEAVEKGLLS-------D-ENVLISAPTGSGKTLIALLAILSTLLE---------------------------- 74 (766)
T ss_pred HhhHHHHHHhhccccC-------C-CcEEEEcCCCCchHHHHHHHHHHHHHh----------------------------
Confidence 5677888744433332 2 389999999999999888887765432
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc-CCCccEEEEccccccccccccc
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT-AYRVPMAVLASRKHYCTNKYVR 188 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~-~~~v~~~vL~SR~~~Cin~~v~ 188 (1269)
...|++|.+.|.+-..+.++|+++. .+.+++.++.|=...
T Consensus 75 --------------------------------~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~------- 115 (766)
T COG1204 75 --------------------------------GGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDL------- 115 (766)
T ss_pred --------------------------------cCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCccc-------
Confidence 1347899999999999999999843 344555554331110
Q ss_pred cccChHHHHHHhhcCCCCCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhcccccCcHHHHHHHHhccCcEEEecccc
Q 000814 189 DKENIDEECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSYYAARSMADDAQLVFCPYSY 268 (1269)
Q Consensus 189 ~~e~i~e~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPYy~aR~~a~~ADIVV~nYny 268 (1269)
| .+.+...||||++|-=
T Consensus 116 ----------------------------------------------------------~-----~~~l~~~~ViVtT~EK 132 (766)
T COG1204 116 ----------------------------------------------------------D-----DERLARYDVIVTTPEK 132 (766)
T ss_pred ----------------------------------------------------------c-----hhhhccCCEEEEchHH
Confidence 0 1334467888888765
Q ss_pred cccHhhhhhhccCCCccEEEecccccHHHHHHHhc
Q 000814 269 IINPVIRGAMEVDIKGAILILDEAHNIEDIARDAG 303 (1269)
Q Consensus 269 Lld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~~ 303 (1269)
+.. .+|.....--+-..||+||+|-|.|.-|...
T Consensus 133 ~Ds-l~R~~~~~~~~V~lvViDEiH~l~d~~RG~~ 166 (766)
T COG1204 133 LDS-LTRKRPSWIEEVDLVVIDEIHLLGDRTRGPV 166 (766)
T ss_pred hhH-hhhcCcchhhcccEEEEeeeeecCCcccCce
Confidence 432 2333322223457899999999988877653
No 56
>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=97.16 E-value=0.0015 Score=83.22 Aligned_cols=42 Identities=19% Similarity=0.225 Sum_probs=30.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~A 75 (1269)
.+.+||.|.+.+.++ +.++. . ..+++..|||+|||+..|.++
T Consensus 253 ~~~LRpYQ~eAl~~~---~~~gr--~-r~GIIvLPtGaGKTlvai~aa 294 (732)
T TIGR00603 253 TTQIRPYQEKSLSKM---FGNGR--A-RSGIIVLPCGAGKSLVGVTAA 294 (732)
T ss_pred CCCcCHHHHHHHHHH---HhcCC--C-CCcEEEeCCCCChHHHHHHHH
Confidence 477999999977655 33321 0 247999999999999887654
No 57
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.13 E-value=0.0015 Score=77.93 Aligned_cols=61 Identities=25% Similarity=0.364 Sum_probs=43.1
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEecc
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDER 702 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~R 702 (1269)
|.+=+-||..-++.|||..|-.. || .|. .+.-.+....++||--|--.|=-++-|+|.+
T Consensus 482 g~i~vLIcSD~laRGiDv~~v~~--VI---NYd----------------~P~~~ktyVHR~GRTARAgq~G~a~tll~~~ 540 (620)
T KOG0350|consen 482 GDINVLICSDALARGIDVNDVDN--VI---NYD----------------PPASDKTYVHRAGRTARAGQDGYAITLLDKH 540 (620)
T ss_pred CCceEEEehhhhhcCCcccccce--Ee---ecC----------------CCchhhHHHHhhcccccccCCceEEEeeccc
Confidence 55555677999999999998432 22 111 1223445667899999999998899999987
Q ss_pred cc
Q 000814 703 FQ 704 (1269)
Q Consensus 703 f~ 704 (1269)
=.
T Consensus 541 ~~ 542 (620)
T KOG0350|consen 541 EK 542 (620)
T ss_pred cc
Confidence 43
No 58
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.11 E-value=0.0011 Score=80.75 Aligned_cols=80 Identities=21% Similarity=0.204 Sum_probs=58.2
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
.|.|+|.+..--+ ++ |+ -++.-|-||+|||||||.|++.++......
T Consensus 113 ~PtpIQaq~wp~~---l~-----Gr-D~v~iA~TGSGKTLay~lP~i~~l~~~~~~------------------------ 159 (519)
T KOG0331|consen 113 KPTPIQAQGWPIA---LS-----GR-DLVGIARTGSGKTLAYLLPAIVHLNNEQGK------------------------ 159 (519)
T ss_pred CCchhhhccccee---cc-----CC-ceEEEeccCCcchhhhhhHHHHHHHhcccc------------------------
Confidence 4778888654422 22 44 489999999999999999999988642000
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCc
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRV 170 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v 170 (1269)
..+.+.|+++.++.|..-..||-.++++.+-..
T Consensus 160 ----------------------------~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~ 192 (519)
T KOG0331|consen 160 ----------------------------LSRGDGPIVLVLAPTRELAVQVQAEAREFGKSL 192 (519)
T ss_pred ----------------------------ccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCC
Confidence 012367999999999998889888888765443
No 59
>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=97.05 E-value=0.0029 Score=80.76 Aligned_cols=21 Identities=29% Similarity=0.370 Sum_probs=18.9
Q ss_pred EEEECCCCCchhHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALa 77 (1269)
.|+|++||+|||++++.|++.
T Consensus 86 ~Iaem~TGeGKTLta~Lpa~l 106 (762)
T TIGR03714 86 NIAEMKTGEGKTLTATMPLYL 106 (762)
T ss_pred ceeEecCCcchHHHHHHHHHH
Confidence 499999999999999999654
No 60
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=96.97 E-value=0.0019 Score=87.52 Aligned_cols=23 Identities=22% Similarity=0.234 Sum_probs=20.0
Q ss_pred CCeEEEeccchhhHHHHHHHHHh
Q 000814 143 TPTIFYASRTHSQISQVISEYKK 165 (1269)
Q Consensus 143 ~pKIiYaSRTHSQLsQvIrELRk 165 (1269)
..+++|.|.|..-..|+.++|+.
T Consensus 37 ~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 37 TSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CCEEEEEeChHHHHHHHHHHHHH
Confidence 46899999999999999888865
No 61
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.90 E-value=0.0051 Score=74.02 Aligned_cols=40 Identities=23% Similarity=0.378 Sum_probs=29.9
Q ss_pred HHhccCcEEEecccccccHhhhhhhccCCC-ccEEEecccccH
Q 000814 254 SMADDAQLVFCPYSYIINPVIRGAMEVDIK-GAILILDEAHNI 295 (1269)
Q Consensus 254 ~~a~~ADIVV~nYnyLld~~iR~~l~i~l~-~~ivIfDEAHNL 295 (1269)
.+...++|+|++=.-+.++...+.. +++ -.++||||||.-
T Consensus 103 ~~w~~~kVfvaTPQvveNDl~~Gri--d~~dv~~lifDEAHRA 143 (542)
T COG1111 103 ELWAKKKVFVATPQVVENDLKAGRI--DLDDVSLLIFDEAHRA 143 (542)
T ss_pred HHHhhCCEEEeccHHHHhHHhcCcc--ChHHceEEEechhhhc
Confidence 4556788999998888888766553 443 477999999963
No 62
>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=96.77 E-value=0.0025 Score=78.91 Aligned_cols=63 Identities=24% Similarity=0.376 Sum_probs=39.0
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcch-HHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWY-CNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY-~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
-.||+| ...++.|+||++=. .|+| -... .+...+|- ...++..+.|.+||+=|... -|-++|.
T Consensus 313 ~~ILVg--T~~i~kG~d~~~v~--lV~vl~aD~---------~l~~pd~ra~E~~~~ll~q~~GRagR~~~-~g~viiq 377 (505)
T TIGR00595 313 ADILIG--TQMIAKGHHFPNVT--LVGVLDADS---------GLHSPDFRAAERGFQLLTQVAGRAGRAED-PGQVIIQ 377 (505)
T ss_pred CCEEEe--CcccccCCCCCccc--EEEEEcCcc---------cccCcccchHHHHHHHHHHHHhccCCCCC-CCEEEEE
Confidence 567766 57799999999744 4443 1110 00111121 23588999999999999765 4666653
No 63
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=96.72 E-value=0.01 Score=76.53 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=28.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
..||+.|+--+ + ++.+ | -|.|+.||+|||++++.|++..
T Consensus 77 ~~p~~vQl~~~--~--~l~~----G---~Iaem~TGeGKTL~a~lp~~l~ 115 (790)
T PRK09200 77 MRPYDVQLIGA--L--VLHE----G---NIAEMQTGEGKTLTATMPLYLN 115 (790)
T ss_pred CCCchHHHHhH--H--HHcC----C---ceeeecCCCcchHHHHHHHHHH
Confidence 56888886432 2 2322 3 2999999999999999998744
No 64
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.54 E-value=0.014 Score=75.44 Aligned_cols=45 Identities=13% Similarity=0.136 Sum_probs=32.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 26 EFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 26 ~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.-||..+|.|.+.+..+.. + + ..|.||+||||||+|++.|++.-+
T Consensus 88 ~~p~~~tp~qvQ~I~~i~l----~----~-gvIAeaqTGeGKTLAf~LP~l~~a 132 (970)
T PRK12899 88 HQQWDMVPYDVQILGAIAM----H----K-GFITEMQTGEGKTLTAVMPLYLNA 132 (970)
T ss_pred cCCCCCChHHHHHhhhhhc----C----C-CeEEEeCCCCChHHHHHHHHHHHH
Confidence 4465556666666654432 1 1 379999999999999999999643
No 65
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.50 E-value=0.0073 Score=79.51 Aligned_cols=42 Identities=26% Similarity=0.264 Sum_probs=32.8
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
|.| .+||.|.+.+..+ -. |+ .+|+-+|||+||||||+.|+|.
T Consensus 456 FG~~sFRp~Q~eaI~ai----L~----Gr-DVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 456 FGNHSFRPNQREIINAT----MS----GY-DVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred cCCCCCCHHHHHHHHHH----Hc----CC-CEEEEcCCCccHHHHHHHHHHH
Confidence 445 4789999866644 33 33 6999999999999999999984
No 66
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.49 E-value=0.012 Score=75.92 Aligned_cols=40 Identities=25% Similarity=0.349 Sum_probs=29.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
..||+.|+ |..+ +|.+ | -|.|++||+|||++++.|++.-+
T Consensus 81 ~~~ydvQl--iGg~--~Lh~----G---~Iaem~TGeGKTL~a~Lpa~~~a 120 (896)
T PRK13104 81 LRHFDVQL--IGGM--VLHE----G---NIAEMRTGEGKTLVATLPAYLNA 120 (896)
T ss_pred CCcchHHH--hhhh--hhcc----C---ccccccCCCCchHHHHHHHHHHH
Confidence 46889887 3433 2443 3 28999999999999999988543
No 67
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.44 E-value=0.0091 Score=79.96 Aligned_cols=75 Identities=20% Similarity=0.117 Sum_probs=57.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCC
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANG 108 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~ 108 (1269)
+.+|+.|.+.+.++.+++.++. ..+|+.+|||||||+..+..+..+.+.
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~----r~~Ll~maTGSGKT~tai~li~~L~~~--------------------------- 460 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQ----REILLAMATGTGKTRTAIALMYRLLKA--------------------------- 460 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhcc----CCeEEEeCCCCCHHHHHHHHHHHHHhc---------------------------
Confidence 5689999999999999997643 358999999999998754433222211
Q ss_pred CCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 109 GGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 109 ~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
....+|+|++-+.....|..++++..
T Consensus 461 --------------------------------~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 461 --------------------------------KRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred --------------------------------CccCeEEEEecHHHHHHHHHHHHHhc
Confidence 02458999999999999999998875
No 68
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.25 E-value=0.014 Score=72.42 Aligned_cols=43 Identities=28% Similarity=0.396 Sum_probs=34.1
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
| .|.|.|...+-.+.. |+ .++..|+||||||+||+.|.|..+.
T Consensus 49 f~~pt~IQ~~~IP~~l~--------g~-Dvi~~A~TGsGKT~Af~lP~l~~l~ 92 (513)
T COG0513 49 FEEPTPIQLAAIPLILA--------GR-DVLGQAQTGTGKTAAFLLPLLQKIL 92 (513)
T ss_pred CCCCCHHHHHHHHHHhC--------CC-CEEEECCCCChHHHHHHHHHHHHHh
Confidence 5 589999986653333 32 5899999999999999999998643
No 69
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=96.23 E-value=0.01 Score=71.09 Aligned_cols=28 Identities=32% Similarity=0.564 Sum_probs=25.2
Q ss_pred CcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
|+ .+|.-|=||||||+|+|.||+.|+.+
T Consensus 119 gk-Dvl~~AKTGtGKTlAFLiPaie~l~k 146 (543)
T KOG0342|consen 119 GK-DVLAAAKTGTGKTLAFLLPAIELLRK 146 (543)
T ss_pred Cc-cceeeeccCCCceeeehhHHHHHHHh
Confidence 44 58999999999999999999999875
No 70
>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=96.21 E-value=0.028 Score=71.75 Aligned_cols=58 Identities=26% Similarity=0.081 Sum_probs=39.5
Q ss_pred cccCCcEEEEeeccceeecccCCCCCce-----EEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCe
Q 000814 619 ANKKGASFLAVCRGKIVVGIPFPNINDI-----QVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDY 693 (1269)
Q Consensus 619 s~~~GAVLfAV~rGKfSEGIDF~dd~lR-----~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~Dy 693 (1269)
.++.|+|++| ..-.+.|+|++.+..+ .||. .+.+...|.-+|.+||.=|- .|.
T Consensus 450 ag~~g~VtIA--TnmAgRGtDI~l~~V~~~GGl~VI~-------------------t~~p~s~ri~~q~~GRtGRq-G~~ 507 (745)
T TIGR00963 450 AGRKGAVTIA--TNMAGRGTDIKLEEVKELGGLYVIG-------------------TERHESRRIDNQLRGRSGRQ-GDP 507 (745)
T ss_pred cCCCceEEEE--eccccCCcCCCccchhhcCCcEEEe-------------------cCCCCcHHHHHHHhccccCC-CCC
Confidence 3456888877 6889999999984332 3332 12344567789999999998 666
Q ss_pred EEEEE
Q 000814 694 GAIIL 698 (1269)
Q Consensus 694 GvIIL 698 (1269)
|..++
T Consensus 508 G~s~~ 512 (745)
T TIGR00963 508 GSSRF 512 (745)
T ss_pred cceEE
Confidence 75443
No 71
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.03 E-value=0.015 Score=70.48 Aligned_cols=66 Identities=20% Similarity=0.277 Sum_probs=50.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhc
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNN 135 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~ 135 (1269)
-++..||||+|||.|+|.|++.++.+.+.. ++. .++
T Consensus 113 dl~acAqTGsGKT~aFLiPii~~~~~~~~~-----------------~~~-----------~~~---------------- 148 (482)
T KOG0335|consen 113 DLMACAQTGSGKTAAFLIPIISYLLDEGPE-----------------DRG-----------ESG---------------- 148 (482)
T ss_pred ceEEEccCCCcchHHHHHHHHHHHHhcCcc-----------------cCc-----------ccC----------------
Confidence 479999999999999999999998863211 000 000
Q ss_pred ccccccCCCeEEEeccchhhHHHHHHHHHhcCCC
Q 000814 136 KNVKKKMTPTIFYASRTHSQISQVISEYKKTAYR 169 (1269)
Q Consensus 136 ~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~ 169 (1269)
....|.++..+.|+.-..|+-.|.+|+.|.
T Consensus 149 ----~~~~P~~lIlapTReL~~Qi~nea~k~~~~ 178 (482)
T KOG0335|consen 149 ----GGVYPRALILAPTRELVDQIYNEARKFSYL 178 (482)
T ss_pred ----CCCCCceEEEeCcHHHhhHHHHHHHhhccc
Confidence 013588899999999999999999999875
No 72
>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=95.96 E-value=0.045 Score=61.89 Aligned_cols=37 Identities=24% Similarity=0.341 Sum_probs=23.8
Q ss_pred cCcEEEeccccccc---HhhhhhhccCCCccEEEecccccH
Q 000814 258 DAQLVFCPYSYIIN---PVIRGAMEVDIKGAILILDEAHNI 295 (1269)
Q Consensus 258 ~ADIVV~nYnyLld---~~iR~~l~i~l~~~ivIfDEAHNL 295 (1269)
..+++|++|+.+.. +.....+ ....-.+||+||||++
T Consensus 107 ~~~vvi~ty~~~~~~~~~~~~~~l-~~~~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 107 KYDVVITTYETLRKARKKKDKEDL-KQIKWDRVIVDEAHRL 146 (299)
T ss_dssp CSSEEEEEHHHHH--TSTHTTHHH-HTSEEEEEEETTGGGG
T ss_pred cceeeecccccccccccccccccc-ccccceeEEEeccccc
Confidence 67788888888871 1111111 1134678999999998
No 73
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=95.86 E-value=0.021 Score=61.69 Aligned_cols=38 Identities=18% Similarity=0.353 Sum_probs=24.7
Q ss_pred CCCeEEEeccchhhHHHHHHHHHh------cCCCccEEEEcccc
Q 000814 142 MTPTIFYASRTHSQISQVISEYKK------TAYRVPMAVLASRK 179 (1269)
Q Consensus 142 ~~pKIiYaSRTHSQLsQvIrELRk------~~~~v~~~vL~SR~ 179 (1269)
...+|++++.||.-+..+++.|.+ ..+.++++-++++.
T Consensus 52 ~~~~il~~~~sN~avd~~~~~l~~~~~~~~~~~~~~~ir~~~~~ 95 (236)
T PF13086_consen 52 RGKKILVVSPSNAAVDNILERLKKLLDEDGKVYKPKIIRLGSEE 95 (236)
T ss_dssp CSS-EEEEESSHHHHHHHHHHHHC--------TT--EEE---GG
T ss_pred ccccceeecCCchhHHHHHHHHHhhccccccccccchhhhcccc
Confidence 356799999999999999999988 12345666666665
No 74
>COG4889 Predicted helicase [General function prediction only]
Probab=95.64 E-value=0.067 Score=67.75 Aligned_cols=164 Identities=19% Similarity=0.268 Sum_probs=95.0
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccC
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTD 103 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~ 103 (1269)
.+.=|++|||.|.+.+.+..+.+.... .| =|-+..|||||+.-|=- .+.
T Consensus 155 ~l~~~kk~R~hQq~Aid~a~~~F~~n~-RG----kLIMAcGTGKTfTsLki----sEa---------------------- 203 (1518)
T COG4889 155 PLKKPKKPRPHQQTAIDAAKEGFSDND-RG----KLIMACGTGKTFTSLKI----SEA---------------------- 203 (1518)
T ss_pred ccCCCCCCChhHHHHHHHHHhhccccc-CC----cEEEecCCCccchHHHH----HHH----------------------
Confidence 344468999999999999999998742 33 34456799999754321 111
Q ss_pred cCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc-CCCccEEEEccccccc
Q 000814 104 PLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT-AYRVPMAVLASRKHYC 182 (1269)
Q Consensus 104 p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~-~~~v~~~vL~SR~~~C 182 (1269)
+ ..-+|+|+....+-|+|.++|.-.- ...++...+ |
T Consensus 204 --------------------------l-----------a~~~iL~LvPSIsLLsQTlrew~~~~~l~~~a~aV------c 240 (1518)
T COG4889 204 --------------------------L-----------AAARILFLVPSISLLSQTLREWTAQKELDFRASAV------C 240 (1518)
T ss_pred --------------------------H-----------hhhheEeecchHHHHHHHHHHHhhccCccceeEEE------e
Confidence 0 1246899999999999999997543 234444443 3
Q ss_pred cccccccccChHHHHHHhhcCCCCCCchhhhhhhhcCCCCcCCCCCCcccChhhHHhhcccccCcHHHHHHHHhccCcEE
Q 000814 183 TNKYVRDKENIDEECKLLLGDRNLGCPQFKNVHKVRGHPSLQKGGCHEVHDIEDLVNVGQVVRGCSYYAARSMADDAQLV 262 (1269)
Q Consensus 183 in~~v~~~e~i~e~C~~L~~~~~~~C~yy~n~~~~~~~~~l~~~~~~~v~DiEdL~~~g~~~~~CPYy~aR~~a~~ADIV 262 (1269)
-..++.+.. .++..+ .+ ...-.-|.+++.+.-. -|+.+..--||
T Consensus 241 SD~kvsrs~-----------------------eDik~s-dl---~~p~sT~~~~il~~~~---------~~~k~~~~~vv 284 (1518)
T COG4889 241 SDDKVSRSA-----------------------EDIKAS-DL---PIPVSTDLEDILSEME---------HRQKANGLTVV 284 (1518)
T ss_pred cCccccccc-----------------------cccccc-cC---CCCCcccHHHHHHHHH---------HhhccCCcEEE
Confidence 333332210 001000 00 0111234455543221 13455566799
Q ss_pred EecccccccHhhhhhhccCCCccEEEecccccHHHH
Q 000814 263 FCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDI 298 (1269)
Q Consensus 263 V~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~ 298 (1269)
|++|.-+..-.-.+..+. .+-.+||.||||.--.+
T Consensus 285 FsTYQSl~~i~eAQe~G~-~~fDliicDEAHRTtGa 319 (1518)
T COG4889 285 FSTYQSLPRIKEAQEAGL-DEFDLIICDEAHRTTGA 319 (1518)
T ss_pred EEcccchHHHHHHHHcCC-CCccEEEecchhccccc
Confidence 999998854322222222 24577999999976543
No 75
>PHA02558 uvsW UvsW helicase; Provisional
Probab=95.57 E-value=0.037 Score=68.62 Aligned_cols=57 Identities=23% Similarity=0.206 Sum_probs=38.3
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEec
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDE 701 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~ 701 (1269)
..+|+|- ++-++||||+|+ +.+||+-.+-. | ...+.|.+||+.|-..+...++++|-
T Consensus 395 ~~vLvaT-~~~l~eG~Dip~--ld~vIl~~p~~--------------s-----~~~~~QriGR~~R~~~~K~~~~i~D~ 451 (501)
T PHA02558 395 GIIIVAS-YGVFSTGISIKN--LHHVIFAHPSK--------------S-----KIIVLQSIGRVLRKHGSKSIATVWDI 451 (501)
T ss_pred CeEEEEE-cceecccccccc--ccEEEEecCCc--------------c-----hhhhhhhhhccccCCCCCceEEEEEe
Confidence 4566552 378999999996 45555532221 1 13467999999998888777777653
No 76
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.44 E-value=0.029 Score=67.82 Aligned_cols=44 Identities=27% Similarity=0.369 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
.|-..|.+-+-.|+. |+ -++++|+||+|||||||.|.+..++..
T Consensus 159 ~pTsVQkq~IP~lL~--------gr-D~lV~aQTGSGKTLAYllPiVq~Lq~m 202 (708)
T KOG0348|consen 159 APTSVQKQAIPVLLE--------GR-DALVRAQTGSGKTLAYLLPIVQSLQAM 202 (708)
T ss_pred ccchHhhcchhhhhc--------Cc-ceEEEcCCCCcccHHHHHHHHHHHHhc
Confidence 466677776554443 33 489999999999999999999887653
No 77
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.30 E-value=0.12 Score=64.22 Aligned_cols=78 Identities=21% Similarity=0.354 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCC
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFI 112 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~ 112 (1269)
..|. .+|...|++ ..-|+.+|.|||||.. .+++-|.--.
T Consensus 413 ~SQ~---~AV~~VL~r------plsLIQGPPGTGKTvt--sa~IVyhl~~------------------------------ 451 (935)
T KOG1802|consen 413 ASQS---NAVKHVLQR------PLSLIQGPPGTGKTVT--SATIVYHLAR------------------------------ 451 (935)
T ss_pred hHHH---HHHHHHHcC------CceeeecCCCCCceeh--hHHHHHHHHH------------------------------
Confidence 4565 467778875 4789999999999975 5566554210
Q ss_pred CCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCCccEEEEcccccc
Q 000814 113 PESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRKHY 181 (1269)
Q Consensus 113 ~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~~~ 181 (1269)
.....|+.|+..+--..|+-.-+.+++ ++++-|.+|.+-
T Consensus 452 ----------------------------~~~~~VLvcApSNiAVDqLaeKIh~tg--LKVvRl~aksRE 490 (935)
T KOG1802|consen 452 ----------------------------QHAGPVLVCAPSNIAVDQLAEKIHKTG--LKVVRLCAKSRE 490 (935)
T ss_pred ----------------------------hcCCceEEEcccchhHHHHHHHHHhcC--ceEeeeehhhhh
Confidence 022357778777777788877788887 555555555443
No 78
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.30 E-value=0.074 Score=70.29 Aligned_cols=71 Identities=20% Similarity=0.322 Sum_probs=46.0
Q ss_pred eeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEeccccchh
Q 000814 629 VCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDERFQEER 707 (1269)
Q Consensus 629 V~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~Rf~~~~ 707 (1269)
||....+||+||..- ..||. -.+++. -...|+|||+=|--....+.|.. . +....
T Consensus 551 IsTdvgseGlNlq~a--~~VInfDlP~nP--------------------~~~eQRIGR~~RiGQ~~~V~i~~-~-~~~~t 606 (956)
T PRK04914 551 LCSEIGSEGRNFQFA--SHLVLFDLPFNP--------------------DLLEQRIGRLDRIGQKHDIQIHV-P-YLEGT 606 (956)
T ss_pred EechhhccCCCcccc--cEEEEecCCCCH--------------------HHHHHHhcccccCCCCceEEEEE-c-cCCCC
Confidence 557889999999764 45555 333321 13569999999977765554544 2 22333
Q ss_pred hHhHHHHHHHhhcccC
Q 000814 708 NRAHISKWLRKSIKQY 723 (1269)
Q Consensus 708 yr~~Lp~Wlr~~l~~~ 723 (1269)
....+-.|+...+..+
T Consensus 607 ~~e~i~~~~~~~l~if 622 (956)
T PRK04914 607 AQERLFRWYHEGLNAF 622 (956)
T ss_pred HHHHHHHHHhhhcCce
Confidence 5677888988866443
No 79
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.22 E-value=0.044 Score=65.57 Aligned_cols=39 Identities=26% Similarity=0.270 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
|.|..-+- -|-.. +-+++|||||+|||||+|.|.|.-+.
T Consensus 31 pVQa~tIP----lll~~-----KDVvveavTGSGKTlAFllP~le~i~ 69 (567)
T KOG0345|consen 31 PVQAATIP----LLLKN-----KDVVVEAVTGSGKTLAFLLPMLEIIY 69 (567)
T ss_pred HHHHhhhH----HHhcC-----CceEEEcCCCCCchhhHHHHHHHHHH
Confidence 67876544 22221 35899999999999999999998663
No 80
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=95.12 E-value=0.025 Score=72.84 Aligned_cols=45 Identities=18% Similarity=0.245 Sum_probs=37.2
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
| +|.|.|++.+..|. + |+ |+|+-||||+|||+|.+.|+|.-+.+.
T Consensus 20 ~~~~t~~Q~~a~~~i~----~----G~-nvLiiAPTGsGKTeAAfLpil~~l~~~ 65 (814)
T COG1201 20 FTSLTPPQRYAIPEIH----S----GE-NVLIIAPTGSGKTEAAFLPVINELLSL 65 (814)
T ss_pred cCCCCHHHHHHHHHHh----C----CC-ceEEEcCCCCChHHHHHHHHHHHHHhc
Confidence 5 69999998776544 3 43 899999999999999999999877654
No 81
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=95.06 E-value=0.11 Score=67.23 Aligned_cols=38 Identities=26% Similarity=0.402 Sum_probs=28.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
-..||+.|+- ..+ +|.+ | -|.|+.||+||||++..|++
T Consensus 79 g~~~~dvQli--g~l--~L~~----G---~Iaem~TGeGKTLva~lpa~ 116 (830)
T PRK12904 79 GMRHFDVQLI--GGM--VLHE----G---KIAEMKTGEGKTLVATLPAY 116 (830)
T ss_pred CCCCCccHHH--hhH--HhcC----C---chhhhhcCCCcHHHHHHHHH
Confidence 3578999984 333 4443 3 29999999999999999985
No 82
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.04 E-value=0.048 Score=66.85 Aligned_cols=78 Identities=23% Similarity=0.273 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
.|-|.|++ .+.-.+.. ..++..+|||.||||||++|.|..++...+.
T Consensus 158 ~Pt~iq~~---aipvfl~~------r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~------------------------ 204 (593)
T KOG0344|consen 158 EPTPIQKQ---AIPVFLEK------RDVLACAPTGSGKTLAFNLPILQHLKDLSQE------------------------ 204 (593)
T ss_pred CCCcccch---hhhhhhcc------cceEEeccCCCcchhhhhhHHHHHHHHhhcc------------------------
Confidence 46778874 33334432 2689999999999999999999888764321
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcCCC
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTAYR 169 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~~~ 169 (1269)
+.+...+....+.|..-..|+-+|.++..++
T Consensus 205 -----------------------------~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~ 235 (593)
T KOG0344|consen 205 -----------------------------KHKVGLRALILSPTRELAAQIYREMRKYSID 235 (593)
T ss_pred -----------------------------cCccceEEEEecchHHHHHHHHHHHHhcCCC
Confidence 0012345677899999999999999887654
No 83
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=94.94 E-value=0.075 Score=69.73 Aligned_cols=44 Identities=23% Similarity=0.310 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
..+|+-|.+.+. .+.+ | +++|+-+|||+|||+|++.|.|..+.+
T Consensus 69 ~~lY~HQ~~A~~----~~~~----G-~~vvVtTgTgSGKTe~FllPIld~~l~ 112 (851)
T COG1205 69 ERLYSHQVDALR----LIRE----G-RNVVVTTGTGSGKTESFLLPILDHLLR 112 (851)
T ss_pred ccccHHHHHHHH----HHHC----C-CCEEEECCCCCchhHHHHHHHHHHHhh
Confidence 348999998765 4433 3 389999999999999999999976543
No 84
>PHA02653 RNA helicase NPH-II; Provisional
Probab=94.51 E-value=0.11 Score=66.46 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=30.5
Q ss_pred CCC--C-CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 28 PYQ--P-YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 28 PY~--P-Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
||. | .+.|.+.-.+++..+.+++ .+|+.||||+|||.+
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gk-----dvIv~A~TGSGKTtq 195 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRK-----PVVLTGGTGVGKTSQ 195 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCC-----CEEEECCCCCCchhH
Confidence 663 3 4678888888888888652 789999999999987
No 85
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=94.49 E-value=0.13 Score=63.52 Aligned_cols=38 Identities=18% Similarity=0.395 Sum_probs=26.8
Q ss_pred HHHHhccCcEEEecccccccHhhhhhhccCCCccEEEeccccc
Q 000814 252 ARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHN 294 (1269)
Q Consensus 252 aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHN 294 (1269)
..+.+..++|||++-.--+++..+. ..-+++|||||-.
T Consensus 332 v~eii~n~~VVfaTl~ga~~~~~~~-----~~fD~vIIDEaaQ 369 (649)
T KOG1803|consen 332 VKEIISNSRVVFATLGGALDRLLRK-----RTFDLVIIDEAAQ 369 (649)
T ss_pred HHHhhcccceEEEeccchhhhhhcc-----cCCCEEEEehhhh
Confidence 3467779999999976655544433 2357899999854
No 86
>PF13245 AAA_19: Part of AAA domain
Probab=94.40 E-value=0.17 Score=47.04 Aligned_cols=33 Identities=24% Similarity=0.316 Sum_probs=22.9
Q ss_pred HHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 42 VISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 42 V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
|..++. + ...+++++|.|||||-.++-.+..+.
T Consensus 3 v~~al~-~----~~~~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 3 VRRALA-G----SPLFVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred HHHHHh-h----CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 445666 2 13678899999999977666655554
No 87
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=93.85 E-value=0.13 Score=67.80 Aligned_cols=45 Identities=22% Similarity=0.330 Sum_probs=35.4
Q ss_pred CCeeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHH
Q 000814 21 GGIQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 21 ~Gi~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
....-.|||++.+-|++-+ .+|+++ + -++++||||.|||+.--+|
T Consensus 110 ~~~~~~~~F~LD~fQ~~a~----~~Ler~----e-sVlV~ApTssGKTvVaeyA 154 (1041)
T COG4581 110 APPAREYPFELDPFQQEAI----AILERG----E-SVLVCAPTSSGKTVVAEYA 154 (1041)
T ss_pred CcHHHhCCCCcCHHHHHHH----HHHhCC----C-cEEEEccCCCCcchHHHHH
Confidence 3456679999999999755 478775 3 5899999999999876554
No 88
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=93.71 E-value=0.41 Score=61.99 Aligned_cols=97 Identities=21% Similarity=0.258 Sum_probs=60.6
Q ss_pred CCeEEEeccchhhHHHHHHHHHhcCCCccEEEEccccccccccccccccChHHHHHHhhcCCCCCCchhhhhhhhcCCCC
Q 000814 143 TPTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRKHYCTNKYVRDKENIDEECKLLLGDRNLGCPQFKNVHKVRGHPS 222 (1269)
Q Consensus 143 ~pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~~~Cin~~v~~~e~i~e~C~~L~~~~~~~C~yy~n~~~~~~~~~ 222 (1269)
..+|..++=||+-...++--|++++ +.+.-||+-+. +++. +.+.|
T Consensus 713 gkkVLLtsyThsAVDNILiKL~~~~--i~~lRLG~~~k--ih~~------v~e~~------------------------- 757 (1100)
T KOG1805|consen 713 GKKVLLTSYTHSAVDNILIKLKGFG--IYILRLGSEEK--IHPD------VEEFT------------------------- 757 (1100)
T ss_pred CCeEEEEehhhHHHHHHHHHHhccC--cceeecCCccc--cchH------HHHHh-------------------------
Confidence 4578999999999999988887664 33444444321 1111 11122
Q ss_pred cCCCCCCcccChhhHHhhcccccCcHHHHHHHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHH
Q 000814 223 LQKGGCHEVHDIEDLVNVGQVVRGCSYYAARSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIE 296 (1269)
Q Consensus 223 l~~~~~~~v~DiEdL~~~g~~~~~CPYy~aR~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLe 296 (1269)
. ......|-|..-++.+..-.||.|+---+-+|..-.. .-++.|+|||-.+.
T Consensus 758 ----------------~-~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~R-----~FD~cIiDEASQI~ 809 (1100)
T KOG1805|consen 758 ----------------L-TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFVNR-----QFDYCIIDEASQIL 809 (1100)
T ss_pred ----------------c-ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhhcc-----ccCEEEEccccccc
Confidence 1 1223557777777888888999998666667753211 13679999987543
No 89
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=93.69 E-value=0.18 Score=64.45 Aligned_cols=74 Identities=20% Similarity=0.302 Sum_probs=58.4
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCC
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGG 109 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~ 109 (1269)
.||..|+..+.+|.+++..++ .-+||-+-||||||...+ ||-|+--.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~----~raLlvMATGTGKTrTAi--aii~rL~r--------------------------- 211 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQ----NRALLVMATGTGKTRTAI--AIIDRLIK--------------------------- 211 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCC----ceEEEEEecCCCcceeHH--HHHHHHHh---------------------------
Confidence 479999999999999999865 348999999999998643 44454310
Q ss_pred CCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 110 GFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 110 ~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
.....+|.|++-+.++..|...++.+.
T Consensus 212 ------------------------------~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 212 ------------------------------SGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred ------------------------------cchhheeeEEechHHHHHHHHHHHHHh
Confidence 014568999999999999999887765
No 90
>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=93.54 E-value=0.13 Score=61.16 Aligned_cols=32 Identities=28% Similarity=0.414 Sum_probs=23.6
Q ss_pred HHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 42 VISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 42 V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
+++++.++. ..++++.||||+|||++++.+++
T Consensus 5 ~~~~~~~~~---~~~~~i~apTGsGKT~~~~~~~l 36 (357)
T TIGR03158 5 TFEALQSKD---ADIIFNTAPTGAGKTLAWLTPLL 36 (357)
T ss_pred HHHHHHcCC---CCEEEEECCCCCCHHHHHHHHHH
Confidence 445555431 12578999999999999988877
No 91
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.52 E-value=0.33 Score=64.78 Aligned_cols=46 Identities=20% Similarity=0.295 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
+.|+.|++-+.-++....++ .++||=-..|.|||+-.|+. |+|+..
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g-----~gGILADEMGLGKTlQaIal-L~~L~~ 214 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENG-----INGILADEMGLGKTLQTISL-LGYLHE 214 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcC-----CCEEEEeCCCccHHHHHHHH-HHHHHH
Confidence 45889999998888877654 25799889999999976544 556543
No 92
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=93.31 E-value=0.17 Score=65.61 Aligned_cols=76 Identities=22% Similarity=0.248 Sum_probs=53.9
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCC
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANG 108 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~ 108 (1269)
..+|+.|...+..+..--.. +. .++++||||-|||.+.+..|+.-+...
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~----~~-~~vl~aPTG~GKT~asl~~a~~~~~~~-------------------------- 242 (733)
T COG1203 194 HEGYELQEKALELILRLEKR----SL-LVVLEAPTGYGKTEASLILALALLDEK-------------------------- 242 (733)
T ss_pred chhhHHHHHHHHHHHhcccc----cc-cEEEEeCCCCChHHHHHHHHHHHhhcc--------------------------
Confidence 34588888777644443332 21 789999999999998777766533210
Q ss_pred CCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhc
Q 000814 109 GGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKT 166 (1269)
Q Consensus 109 ~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~ 166 (1269)
....+||||+-.+++-+.+..+.++..
T Consensus 243 -------------------------------~~~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 243 -------------------------------IKLKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred -------------------------------ccccceEEEEccHHHHHHHHHHHHHhh
Confidence 014578999999999999998888764
No 93
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=93.27 E-value=0.28 Score=61.80 Aligned_cols=53 Identities=21% Similarity=0.322 Sum_probs=44.7
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
--..||+.-..|++...+|..-+.... .-+-|+.+--|+|||+..++++++-.
T Consensus 256 ~~~LPF~LT~aQ~~vi~EI~~Dl~~~~---~M~RLlQGDVGSGKTvVA~laml~ai 308 (677)
T COG1200 256 LAALPFKLTNAQKRVIKEILADLASPV---PMNRLLQGDVGSGKTVVALLAMLAAI 308 (677)
T ss_pred HHhCCCCccHHHHHHHHHHHhhhcCch---hhHHHhccCcCCCHHHHHHHHHHHHH
Confidence 456799999999999999999998754 23569999999999999999888754
No 94
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=93.13 E-value=0.13 Score=56.65 Aligned_cols=40 Identities=20% Similarity=0.335 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
..|..++..+. +. ..+++.+|.|||||+..++.|+..+.+
T Consensus 7 ~~Q~~~~~al~----~~-----~~v~~~G~AGTGKT~LA~a~Al~~v~~ 46 (205)
T PF02562_consen 7 EEQKFALDALL----NN-----DLVIVNGPAGTGKTFLALAAALELVKE 46 (205)
T ss_dssp HHHHHHHHHHH----H------SEEEEE--TTSSTTHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHH----hC-----CeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 58999998666 22 378999999999999999999987754
No 95
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=93.02 E-value=0.28 Score=60.24 Aligned_cols=41 Identities=29% Similarity=0.519 Sum_probs=27.3
Q ss_pred ccCcEEEecccccccHhhhhhhccCC-CccEEEecccccHHHHHH
Q 000814 257 DDAQLVFCPYSYIINPVIRGAMEVDI-KGAILILDEAHNIEDIAR 300 (1269)
Q Consensus 257 ~~ADIVV~nYnyLld~~iR~~l~i~l-~~~ivIfDEAHNLed~a~ 300 (1269)
.+|||||.+|-=+ |-.+|.. .++ +--.|||||.|.|+|-=|
T Consensus 314 ~dADIIVGTYEGi-D~lLRtg--~~lgdiGtVVIDEiHtL~deER 355 (830)
T COG1202 314 PDADIIVGTYEGI-DYLLRTG--KDLGDIGTVVIDEIHTLEDEER 355 (830)
T ss_pred CCCcEEEeechhH-HHHHHcC--CcccccceEEeeeeeeccchhc
Confidence 4899999999521 2223332 233 346799999999988644
No 96
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=93.00 E-value=0.27 Score=60.22 Aligned_cols=43 Identities=19% Similarity=0.271 Sum_probs=34.9
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHH
Q 000814 25 VEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 25 v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL 72 (1269)
+.|.+++|+.|.+.++++...+.+ . .-+++-.|||+|||+..+
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~-~----~~gvivlpTGaGKT~va~ 73 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRT-E----RRGVIVLPTGAGKTVVAA 73 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhccc-C----CceEEEeCCCCCHHHHHH
Confidence 566688999999999988888775 2 247999999999998543
No 97
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=92.85 E-value=0.31 Score=62.01 Aligned_cols=40 Identities=28% Similarity=0.255 Sum_probs=30.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-..|||.|+.-.- -.+ . |+ |.|+.||+|||++++.|++..
T Consensus 101 g~~p~~VQ~~~~~---~ll-~----G~---Iae~~TGeGKTla~~lp~~~~ 140 (656)
T PRK12898 101 GQRHFDVQLMGGL---ALL-S----GR---LAEMQTGEGKTLTATLPAGTA 140 (656)
T ss_pred CCCCChHHHHHHH---HHh-C----CC---eeeeeCCCCcHHHHHHHHHHH
Confidence 3579999986443 222 2 43 999999999999999998864
No 98
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=92.08 E-value=0.8 Score=59.86 Aligned_cols=39 Identities=28% Similarity=0.352 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
..||+.|+ |..+ +|.+ | -|.|+.||.||||+...|++.-
T Consensus 81 m~~ydVQl--iGg~--~Lh~----G---~iaEM~TGEGKTLvA~l~a~l~ 119 (913)
T PRK13103 81 MRHFDVQL--IGGM--TLHE----G---KIAEMRTGEGKTLVGTLAVYLN 119 (913)
T ss_pred CCcchhHH--Hhhh--Hhcc----C---ccccccCCCCChHHHHHHHHHH
Confidence 46899998 3333 2333 3 3999999999999887777643
No 99
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=91.41 E-value=0.86 Score=44.66 Aligned_cols=51 Identities=29% Similarity=0.262 Sum_probs=35.4
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIIL 698 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIIL 698 (1269)
..++++ ...++||+|+++ +..||+ ..++ ....+.|++||+.|-.+ .|.+++
T Consensus 79 ~~ili~--t~~~~~G~d~~~--~~~vi~~~~~~--------------------~~~~~~Q~~GR~~R~~~-~~~~~~ 130 (131)
T cd00079 79 IVVLVA--TDVIARGIDLPN--VSVVINYDLPW--------------------SPSSYLQRIGRAGRAGQ-KGTAIL 130 (131)
T ss_pred CcEEEE--cChhhcCcChhh--CCEEEEeCCCC--------------------CHHHheecccccccCCC-CceEEe
Confidence 356665 589999999986 555665 2222 13456899999999986 566554
No 100
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=91.32 E-value=0.66 Score=42.17 Aligned_cols=43 Identities=23% Similarity=0.272 Sum_probs=31.2
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCccccc
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRH 689 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRh 689 (1269)
..+|++ ...++||||+++ +..||+ -.++. +....|++||+.|.
T Consensus 34 ~~vli~--t~~~~~Gid~~~--~~~vi~~~~~~~--------------------~~~~~Q~~GR~~R~ 77 (78)
T PF00271_consen 34 IRVLIA--TDILGEGIDLPD--ASHVIFYDPPWS--------------------PEEYIQRIGRAGRI 77 (78)
T ss_dssp SSEEEE--SCGGTTSSTSTT--ESEEEESSSESS--------------------HHHHHHHHTTSSTT
T ss_pred ceEEEe--eccccccccccc--cccccccccCCC--------------------HHHHHHHhhcCCCC
Confidence 567776 589999999995 666666 22221 34578999999995
No 101
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=90.74 E-value=0.65 Score=50.63 Aligned_cols=32 Identities=28% Similarity=0.446 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.|++.+..+.. . +..+.++.+|.|||||..+
T Consensus 4 ~~Q~~a~~~~l~---~----~~~~~~l~G~aGtGKT~~l 35 (196)
T PF13604_consen 4 EEQREAVRAILT---S----GDRVSVLQGPAGTGKTTLL 35 (196)
T ss_dssp HHHHHHHHHHHH---C----TCSEEEEEESTTSTHHHHH
T ss_pred HHHHHHHHHHHh---c----CCeEEEEEECCCCCHHHHH
Confidence 579988876543 2 2237899999999999754
No 102
>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=90.57 E-value=0.75 Score=58.94 Aligned_cols=34 Identities=3% Similarity=0.107 Sum_probs=26.2
Q ss_pred CeEEEeccchhhHHHHHHHHHhcCCCccEEEEcccc
Q 000814 144 PTIFYASRTHSQISQVISEYKKTAYRVPMAVLASRK 179 (1269)
Q Consensus 144 pKIiYaSRTHSQLsQvIrELRk~~~~v~~~vL~SR~ 179 (1269)
++|++++.||....++++.|... .++++-+++..
T Consensus 202 ~~VLv~a~sn~Avd~l~e~l~~~--~~~vvRlg~~~ 235 (637)
T TIGR00376 202 LRVLVTAPSNIAVDNLLERLALC--DQKIVRLGHPA 235 (637)
T ss_pred CCEEEEcCcHHHHHHHHHHHHhC--CCcEEEeCCch
Confidence 37999999999999999998776 35566666443
No 103
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=90.23 E-value=0.58 Score=61.47 Aligned_cols=36 Identities=33% Similarity=0.462 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+.+.+|.++|.++ .++|+.||||+|||.++..+.|.
T Consensus 8 ~~~~~i~~~l~~~-----~~vvv~A~TGSGKTt~~pl~lL~ 43 (812)
T PRK11664 8 AVLPELLTALKTA-----PQVLLKAPTGAGKSTWLPLQLLQ 43 (812)
T ss_pred HHHHHHHHHHHhC-----CCEEEEcCCCCCHHHHHHHHHHH
Confidence 3566788888764 37999999999999999877663
No 104
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.91 E-value=0.81 Score=54.23 Aligned_cols=43 Identities=21% Similarity=0.201 Sum_probs=33.8
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
| .|-+.|.+.|- .+|. | .++|.=|-||+|||+||+.|.|..+-
T Consensus 81 ~~~PT~IQ~~aiP---~~L~-----g-~dvIglAeTGSGKT~afaLPIl~~LL 124 (476)
T KOG0330|consen 81 WKKPTKIQSEAIP---VALG-----G-RDVIGLAETGSGKTGAFALPILQRLL 124 (476)
T ss_pred cCCCchhhhhhcc---hhhC-----C-CcEEEEeccCCCchhhhHHHHHHHHH
Confidence 5 58889998665 3343 3 37899999999999999999997654
No 105
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.50 E-value=1.4 Score=53.62 Aligned_cols=64 Identities=22% Similarity=0.210 Sum_probs=46.5
Q ss_pred EEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcc
Q 000814 57 ALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFIPESQPSTIPPSTNGQTAQVAMNNK 136 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~ 136 (1269)
++=-|=||+|||.|++-|.+-...+.++-
T Consensus 263 vigIAktgSgktaAfi~pm~~himdq~eL--------------------------------------------------- 291 (731)
T KOG0339|consen 263 VIGIAKTGSGKTAAFIWPMIVHIMDQPEL--------------------------------------------------- 291 (731)
T ss_pred chheeeccCcchhHHHHHHHHHhcchhhh---------------------------------------------------
Confidence 44468899999999999988765432110
Q ss_pred cccccCCCeEEEeccchhhHHHHHHHHHhcC--CCccEE
Q 000814 137 NVKKKMTPTIFYASRTHSQISQVISEYKKTA--YRVPMA 173 (1269)
Q Consensus 137 ~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~--~~v~~~ 173 (1269)
...+.|-.+|+..|.+-..|+-.|.|+++ |.++++
T Consensus 292 --~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v 328 (731)
T KOG0339|consen 292 --KPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVV 328 (731)
T ss_pred --cCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEE
Confidence 11256778999999999999999999873 555443
No 106
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=89.39 E-value=0.75 Score=55.17 Aligned_cols=30 Identities=27% Similarity=0.332 Sum_probs=25.1
Q ss_pred CcceEEEECCCCCchhHHHHHHHHHHHHHhh
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLAWQQNCK 83 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALaw~~~~k 83 (1269)
|+ .++.-|-||+|||+|||.|.|.-+-..+
T Consensus 56 gK-DvvarArTGSGKT~AYliPllqkll~~k 85 (569)
T KOG0346|consen 56 GK-DVVARARTGSGKTAAYLIPLLQKLLAEK 85 (569)
T ss_pred Cc-ceeeeeccCCCchHHHHHHHHHHHHHhh
Confidence 44 6899999999999999999997665543
No 107
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=89.26 E-value=1.8 Score=56.81 Aligned_cols=82 Identities=17% Similarity=0.225 Sum_probs=51.8
Q ss_pred ecCCCCCC-HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccC
Q 000814 25 VEFPYQPY-GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTD 103 (1269)
Q Consensus 25 v~FPY~PY-p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~ 103 (1269)
-.|+|+.+ ..|-+ |+...-+. ..+.|+-||||.|||-..+.+.|.-.++....
T Consensus 104 ~~f~f~~fN~iQS~----vFp~aY~S----neNMLIcAPTGsGKT~la~L~ILr~ik~~~~~------------------ 157 (1230)
T KOG0952|consen 104 GFFSFEEFNRIQSE----VFPVAYKS----NENMLICAPTGSGKTVLAELCILRTIKEHEEQ------------------ 157 (1230)
T ss_pred hcccHHHHHHHHHH----hhhhhhcC----CCCEEEECCCCCCchHHHHHHHHHHHHhhccc------------------
Confidence 44556544 45654 33333322 13799999999999988877777655431000
Q ss_pred cCCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHh
Q 000814 104 PLANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKK 165 (1269)
Q Consensus 104 p~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk 165 (1269)
+ ...++.-||+|.+.+.+-...+++...+
T Consensus 158 ------------------~---------------~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 158 ------------------G---------------DIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred ------------------c---------------ccccCCceEEEEechHHHHHHHHHHHhh
Confidence 0 0123567999999999988877776644
No 108
>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=88.86 E-value=1 Score=59.31 Aligned_cols=36 Identities=25% Similarity=0.362 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+++.+|.++|++. .++|+.||||+|||.++..+.|.
T Consensus 5 ~~~~~i~~~l~~~-----~~vIi~a~TGSGKTT~vpl~lL~ 40 (819)
T TIGR01970 5 AVLPALRDALAAH-----PQVVLEAPPGAGKSTAVPLALLD 40 (819)
T ss_pred HHHHHHHHHHHcC-----CcEEEECCCCCCHHHHHHHHHHH
Confidence 4566788888764 37999999999999999888664
No 109
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=88.29 E-value=0.77 Score=60.03 Aligned_cols=80 Identities=23% Similarity=0.322 Sum_probs=57.1
Q ss_pred cCCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCc
Q 000814 26 EFPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDP 104 (1269)
Q Consensus 26 ~FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p 104 (1269)
.+-| .|.|+|.+++=.|.+ |+. +|--|=||+|||+|||.|-+..... + | |
T Consensus 382 kl~y~k~~~IQ~qAiP~Ims--------Grd-vIgvakTgSGKT~af~LPmirhi~d---Q----------r-------~ 432 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIPAIMS--------GRD-VIGVAKTGSGKTLAFLLPMIRHIKD---Q----------R-------P 432 (997)
T ss_pred HhcCCCCcchhhhhcchhcc--------Ccc-eEEeeccCCccchhhhcchhhhhhc---C----------C-------C
Confidence 3456 588999887765544 553 7889999999999999998843221 1 0 0
Q ss_pred CCCCCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 105 LANGGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 105 ~~~~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
+ ...+.|--++.+.|..+..|+-+|++++.
T Consensus 433 ~---------------------------------~~gdGPi~li~aPtrela~QI~r~~~kf~ 462 (997)
T KOG0334|consen 433 L---------------------------------EEGDGPIALILAPTRELAMQIHREVRKFL 462 (997)
T ss_pred h---------------------------------hhCCCceEEEEcCCHHHHHHHHHHHHHHH
Confidence 0 11246777788999999999999998863
No 110
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=88.28 E-value=2 Score=38.42 Aligned_cols=44 Identities=20% Similarity=0.082 Sum_probs=30.6
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCccccc
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRH 689 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRh 689 (1269)
..+|++ ...++||||+++ +..||+-.+.. ....+.|++||+.|.
T Consensus 38 ~~vli~--t~~~~~Gi~~~~--~~~vi~~~~~~-------------------~~~~~~Q~~gR~~R~ 81 (82)
T smart00490 38 IKVLVA--TDVAERGLDLPG--VDLVIIYDLPW-------------------SPASYIQRIGRAGRA 81 (82)
T ss_pred CeEEEE--CChhhCCcChhc--CCEEEEeCCCC-------------------CHHHHHHhhcccccC
Confidence 455555 579999999987 77777633211 123468999999985
No 111
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=88.21 E-value=9.2 Score=46.52 Aligned_cols=39 Identities=18% Similarity=0.310 Sum_probs=25.9
Q ss_pred hccCcEEEecccccccHhhhhhhccCCCccEEEecccccH
Q 000814 256 ADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNI 295 (1269)
Q Consensus 256 a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNL 295 (1269)
...+||||++..-|++......+.. ..-.+|||||||.+
T Consensus 121 ~~~~~IlV~Tp~rl~~~~~~~~~~~-~~v~~lViDEah~~ 159 (434)
T PRK11192 121 SENQDIVVATPGRLLQYIKEENFDC-RAVETLILDEADRM 159 (434)
T ss_pred cCCCCEEEEChHHHHHHHHcCCcCc-ccCCEEEEECHHHH
Confidence 3568999999887776543332211 13467999999954
No 112
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=87.15 E-value=3.6 Score=52.56 Aligned_cols=47 Identities=23% Similarity=0.297 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
..++.|++=+.=++.-.+.+ .++||-=--|-|||+-.| +.|+|++..
T Consensus 167 ~lr~YQveGlnWLi~l~eng-----ingILaDEMGLGKTlQtI-s~l~yl~~~ 213 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENG-----INGILADEMGLGKTLQTI-SLLGYLKGR 213 (971)
T ss_pred ccchhhhccHHHHHHHHhcC-----cccEeehhcccchHHHHH-HHHHHHHHh
Confidence 46889999999999988875 368888888999999874 458888764
No 113
>PHA02558 uvsW UvsW helicase; Provisional
Probab=86.82 E-value=2.7 Score=52.36 Aligned_cols=34 Identities=32% Similarity=0.312 Sum_probs=26.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.||+.|.+.+. ..+.. ..+++.+|||+|||+..
T Consensus 113 ~~~r~~Q~~av~---~~l~~------~~~il~apTGsGKT~i~ 146 (501)
T PHA02558 113 IEPHWYQYDAVY---EGLKN------NRRLLNLPTSAGKSLIQ 146 (501)
T ss_pred CCCCHHHHHHHH---HHHhc------CceEEEeCCCCCHHHHH
Confidence 689999998554 34432 25799999999999864
No 114
>PRK10536 hypothetical protein; Provisional
Probab=86.79 E-value=1.1 Score=51.31 Aligned_cols=41 Identities=10% Similarity=0.072 Sum_probs=30.5
Q ss_pred CCC-HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 30 QPY-GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 30 ~PY-p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.|+ ..|..++.. |.+. ..+++.+|+|||||+..++.++..+
T Consensus 58 ~p~n~~Q~~~l~a----l~~~-----~lV~i~G~aGTGKT~La~a~a~~~l 99 (262)
T PRK10536 58 LARNEAQAHYLKA----IESK-----QLIFATGEAGCGKTWISAAKAAEAL 99 (262)
T ss_pred cCCCHHHHHHHHH----HhcC-----CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 566 578888774 4332 3789999999999998777777544
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=86.66 E-value=1 Score=51.22 Aligned_cols=39 Identities=23% Similarity=0.288 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+...++.+++..++..+ .+++|++|+|||||.. +-+|++
T Consensus 5 ~~~~~l~~~~l~~l~~g-----~~vLL~G~~GtGKT~l--A~~la~ 43 (262)
T TIGR02640 5 DAVKRVTSRALRYLKSG-----YPVHLRGPAGTGKTTL--AMHVAR 43 (262)
T ss_pred HHHHHHHHHHHHHHhcC-----CeEEEEcCCCCCHHHH--HHHHHH
Confidence 55667777888887764 3799999999999974 444554
No 116
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=85.78 E-value=1.1 Score=55.10 Aligned_cols=28 Identities=36% Similarity=0.482 Sum_probs=23.1
Q ss_pred CcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
|+. +|=-|-||+|||||+|.|.|..+..
T Consensus 106 G~D-vlGAAkTGSGKTLAFlvPvlE~L~r 133 (758)
T KOG0343|consen 106 GHD-VLGAAKTGSGKTLAFLVPVLEALYR 133 (758)
T ss_pred Ccc-cccccccCCCceeeehHHHHHHHHH
Confidence 543 5668999999999999999987654
No 117
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=85.75 E-value=0.62 Score=58.51 Aligned_cols=47 Identities=28% Similarity=0.343 Sum_probs=35.6
Q ss_pred eeecCCCCC-CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 23 IQVEFPYQP-YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 23 i~v~FPY~P-Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+.-.|-|+- |++|.+.+ +++-.+ .++|+=.|||.||||||-.|||-.
T Consensus 9 L~~~fGy~~FR~gQ~evI----~~~l~g-----~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 9 LKQVFGYASFRPGQQEII----DALLSG-----KDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred HHHHhCccccCCCHHHHH----HHHHcC-----CcEEEEccCCCCcchHhhhHHHhc
Confidence 345677864 68899644 455443 379999999999999999999964
No 118
>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=85.14 E-value=15 Score=45.48 Aligned_cols=55 Identities=16% Similarity=0.070 Sum_probs=37.8
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEe-ccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEec
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLK-KKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDE 701 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK-~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~ 701 (1269)
-.||+| ...|++|||+++ .+.||.- .+. -+....|.+||+=|.-.+--++++.+.
T Consensus 277 ~~vLVa--T~~~~~GID~p~--V~~VI~~~~P~--------------------s~~~y~Qr~GRaGR~G~~~~~~~~~~~ 332 (470)
T TIGR00614 277 IQVVVA--TVAFGMGINKPD--VRFVIHYSLPK--------------------SMESYYQESGRAGRDGLPSECHLFYAP 332 (470)
T ss_pred CcEEEE--echhhccCCccc--ceEEEEeCCCC--------------------CHHHHHhhhcCcCCCCCCceEEEEech
Confidence 456665 578999999998 5666652 121 123456999999998777666666543
No 119
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=85.02 E-value=1.2 Score=51.69 Aligned_cols=40 Identities=30% Similarity=0.279 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~A 75 (1269)
-+|......+..++.+ + +..|.||-+|.|||||-+.|+.|
T Consensus 39 ~gQe~vV~~L~~a~~~--~-~lp~~LFyGPpGTGKTStalafa 78 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLR--R-ILPHYLFYGPPGTGKTSTALAFA 78 (346)
T ss_pred cchHHHHHHHHHHHhh--c-CCceEEeeCCCCCcHhHHHHHHH
Confidence 4788888888888876 2 34699999999999997655443
No 120
>PHA02244 ATPase-like protein
Probab=84.44 E-value=1.7 Score=52.05 Aligned_cols=48 Identities=10% Similarity=0.123 Sum_probs=31.6
Q ss_pred eecCCCC--CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 24 QVEFPYQ--PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 24 ~v~FPY~--PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+.|||- .+..+..++ .+...++.+ .+++|.+|||||||. |+-+|++.
T Consensus 93 ~~d~~~ig~sp~~~~~~~-ri~r~l~~~-----~PVLL~GppGtGKTt--LA~aLA~~ 142 (383)
T PHA02244 93 GIDTTKIASNPTFHYETA-DIAKIVNAN-----IPVFLKGGAGSGKNH--IAEQIAEA 142 (383)
T ss_pred hCCCcccCCCHHHHHHHH-HHHHHHhcC-----CCEEEECCCCCCHHH--HHHHHHHH
Confidence 5667763 333444444 566677654 378999999999996 45566654
No 121
>PRK13531 regulatory ATPase RavA; Provisional
Probab=83.46 E-value=1 Score=55.50 Aligned_cols=39 Identities=18% Similarity=0.173 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-+|.+.++.+..++..+ .|+||++|+|||||+ |+-+|+.
T Consensus 23 ~gre~vI~lll~aalag-----~hVLL~GpPGTGKT~--LAraLa~ 61 (498)
T PRK13531 23 YERSHAIRLCLLAALSG-----ESVFLLGPPGIAKSL--IARRLKF 61 (498)
T ss_pred cCcHHHHHHHHHHHccC-----CCEEEECCCChhHHH--HHHHHHH
Confidence 46778888888888764 389999999999997 4445554
No 122
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=83.43 E-value=1.2 Score=52.22 Aligned_cols=41 Identities=32% Similarity=0.376 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+-++.+.+..+..++..+ .|++||+|+|||||+ |.-+++..
T Consensus 26 ~~g~~~~~~~~l~a~~~~-----~~vll~G~PG~gKT~--la~~lA~~ 66 (329)
T COG0714 26 VVGDEEVIELALLALLAG-----GHVLLEGPPGVGKTL--LARALARA 66 (329)
T ss_pred eeccHHHHHHHHHHHHcC-----CCEEEECCCCccHHH--HHHHHHHH
Confidence 445888888898998875 389999999999997 56666654
No 123
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=83.27 E-value=0.76 Score=60.04 Aligned_cols=42 Identities=26% Similarity=0.382 Sum_probs=30.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+-..||+.|+ |..+ +|.. | -|.|++||+||||++..|++..+
T Consensus 79 lgm~~ydVQl--iGgl--~L~~----G---~IaEm~TGEGKTL~a~lp~~l~a 120 (908)
T PRK13107 79 FEMRHFDVQL--LGGM--VLDS----N---RIAEMRTGEGKTLTATLPAYLNA 120 (908)
T ss_pred hCCCcCchHH--hcch--HhcC----C---ccccccCCCCchHHHHHHHHHHH
Confidence 3457899998 3332 2333 3 39999999999999999987544
No 124
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=82.82 E-value=4.2 Score=54.48 Aligned_cols=86 Identities=20% Similarity=0.273 Sum_probs=58.6
Q ss_pred HHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCCCCCCCCCCCCCCC
Q 000814 41 RVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLANGGGFIPESQPSTI 120 (1269)
Q Consensus 41 ~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~e~~~St~ 120 (1269)
+|+++-.. |..|.++-||||.|||-..+..+|.-++.+... +
T Consensus 316 ~v~daAl~----~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~----------------------d------------ 357 (1674)
T KOG0951|consen 316 KVYDAALR----GDENMLLCAPTGAGKTNVAVLTILQELGNHLRE----------------------D------------ 357 (1674)
T ss_pred HHHHHHhc----CcCcEEEeccCCCCchHHHHHHHHHHHhccccc----------------------c------------
Confidence 44555433 446899999999999998888777665542110 0
Q ss_pred CCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHH--HhcCCCccEEEEccccc
Q 000814 121 PPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEY--KKTAYRVPMAVLASRKH 180 (1269)
Q Consensus 121 ~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrEL--Rk~~~~v~~~vL~SR~~ 180 (1269)
++-+ ...-||.|-..+.+-..-+|+.+ |..+|.|++.-+.|=.+
T Consensus 358 -gs~n---------------l~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~ 403 (1674)
T KOG0951|consen 358 -GSVN---------------LAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQ 403 (1674)
T ss_pred -ccee---------------cccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEeccccc
Confidence 1111 13458999999988888888876 44578888887766544
No 125
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=82.47 E-value=0.99 Score=53.43 Aligned_cols=41 Identities=27% Similarity=0.297 Sum_probs=30.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHH-HhhhcCCcceEEEECCCCCchhHH
Q 000814 26 EFPYQPYGSQLVFMCRVISTL-DRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 26 ~FPY~PYp~Q~e~M~~V~~aL-~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
.|||.-.-+|.+.+..+.-++ +.+ ..|+||++|.|||||..
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~~~~----~~~vLl~G~pG~gKT~l 45 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAIDPG----IGGVLVFGDRGTGKSTA 45 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHhccC----CCcEEEEcCCCCCHHHH
Confidence 456666778999988777554 332 23799999999999963
No 126
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=82.41 E-value=2.4 Score=52.04 Aligned_cols=44 Identities=25% Similarity=0.376 Sum_probs=33.3
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
| .|-|.|+..+- -.++.+ ..|.-|-||+|||+|+|.|-|.|...
T Consensus 265 y~eptpIqR~aip---l~lQ~r------D~igvaETgsGktaaf~ipLl~~Iss 309 (673)
T KOG0333|consen 265 YKEPTPIQRQAIP---LGLQNR------DPIGVAETGSGKTAAFLIPLLIWISS 309 (673)
T ss_pred CCCCchHHHhhcc---chhccC------CeeeEEeccCCccccchhhHHHHHHc
Confidence 5 47788886554 234432 57888999999999999999999754
No 127
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=82.22 E-value=9 Score=48.71 Aligned_cols=56 Identities=18% Similarity=0.124 Sum_probs=36.4
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEec
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDE 701 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~ 701 (1269)
-.||+ +..-+++|||+++- +.||. -.++ -.....|.+||+=|.-.+=-+|.|++.
T Consensus 308 ~~VLV--aTdv~arGIDip~V--~~VInyd~P~--------------------s~~~yvqRiGRaGR~G~~G~ai~~~~~ 363 (572)
T PRK04537 308 LEILV--ATDVAARGLHIDGV--KYVYNYDLPF--------------------DAEDYVHRIGRTARLGEEGDAISFACE 363 (572)
T ss_pred CeEEE--EehhhhcCCCccCC--CEEEEcCCCC--------------------CHHHHhhhhcccccCCCCceEEEEecH
Confidence 34555 46899999999974 45554 1111 123346999999998776555666655
Q ss_pred c
Q 000814 702 R 702 (1269)
Q Consensus 702 R 702 (1269)
.
T Consensus 364 ~ 364 (572)
T PRK04537 364 R 364 (572)
T ss_pred H
Confidence 4
No 128
>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=81.81 E-value=2.9 Score=47.57 Aligned_cols=22 Identities=27% Similarity=0.379 Sum_probs=17.6
Q ss_pred eEEEECCCCCchhHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALa 77 (1269)
++++.|+.|||||.+++.-++.
T Consensus 15 ~~lV~a~AGSGKT~~l~~ri~~ 36 (315)
T PF00580_consen 15 PLLVNAGAGSGKTTTLLERIAY 36 (315)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHH
T ss_pred CEEEEeCCCCCchHHHHHHHHH
Confidence 7999999999999988766543
No 129
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=81.51 E-value=5.1 Score=52.84 Aligned_cols=70 Identities=26% Similarity=0.394 Sum_probs=52.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHHhhhhhhhccccCCCCCcccccCcCCC
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQNCKLKNQLANISHSKPDTEAVTDPLAN 107 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~~k~~~~~~~v~~~~~~~~~~~~p~~~ 107 (1269)
-|+|+..|+--+.++.. |+. .-+-||||+|||-=.+..||-.+.+
T Consensus 80 G~~~ws~QR~WakR~~r--------g~S-FaiiAPTGvGKTTfg~~~sl~~a~k-------------------------- 124 (1187)
T COG1110 80 GFRPWSAQRVWAKRLVR--------GKS-FAIIAPTGVGKTTFGLLMSLYLAKK-------------------------- 124 (1187)
T ss_pred CCCchHHHHHHHHHHHc--------CCc-eEEEcCCCCchhHHHHHHHHHHHhc--------------------------
Confidence 37899999998886654 333 6777999999998776666644321
Q ss_pred CCCCCCCCCCCCCCCCCchhhHHHhhhcccccccCCCeEEEeccchhhHHHHHHHHHhcC
Q 000814 108 GGGFIPESQPSTIPPSTNGQTAQVAMNNKNVKKKMTPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 108 ~~~~~~e~~~St~~~s~~lq~~~~~~~~~~~~~k~~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
..+++|...|..-..|+.+-|++..
T Consensus 125 -----------------------------------gkr~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 125 -----------------------------------GKRVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred -----------------------------------CCeEEEEecCHHHHHHHHHHHHHHH
Confidence 2467888889888899988887764
No 130
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=81.44 E-value=0.81 Score=58.23 Aligned_cols=68 Identities=13% Similarity=0.228 Sum_probs=47.6
Q ss_pred hhHHhhcccccCcHHHHHH-------HHhc----cCcEEEecccccccHhhhhhhccCCCccEEEecccccHHHHHHHh
Q 000814 235 EDLVNVGQVVRGCSYYAAR-------SMAD----DAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIEDIARDA 302 (1269)
Q Consensus 235 EdL~~~g~~~~~CPYy~aR-------~~a~----~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed~a~d~ 302 (1269)
.++.++|....+=|||.+. ..++ .-||+|++|++.-...--+.+-...+-+++|+||||-|-+...+-
T Consensus 465 rEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeR 543 (941)
T KOG0389|consen 465 REFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSER 543 (941)
T ss_pred HHHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHH
Confidence 4577788888888898642 2222 679999999999855322233334566889999999998776544
No 131
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=80.85 E-value=20 Score=44.12 Aligned_cols=38 Identities=21% Similarity=0.385 Sum_probs=26.2
Q ss_pred ccCcEEEecccccccHhhhhhhccCCCccEEEecccccH
Q 000814 257 DDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNI 295 (1269)
Q Consensus 257 ~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNL 295 (1269)
..+||||++...|++-..+..+.+ -.-..|||||||.+
T Consensus 122 ~~~~IvV~Tp~rl~~~l~~~~~~l-~~l~~lViDEad~~ 159 (460)
T PRK11776 122 HGAHIIVGTPGRILDHLRKGTLDL-DALNTLVLDEADRM 159 (460)
T ss_pred CCCCEEEEChHHHHHHHHcCCccH-HHCCEEEEECHHHH
Confidence 578999999988877654433221 13367999999943
No 132
>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=80.78 E-value=14 Score=47.10 Aligned_cols=55 Identities=24% Similarity=0.192 Sum_probs=34.8
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEe
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLD 700 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD 700 (1269)
-.||+| ..-|.+|||+++ .+.||.-.... -+...-|.+||+=|.-.+--+++|.+
T Consensus 275 ~~vlVa--T~a~~~GID~p~--v~~VI~~~~p~-------------------s~~~y~Q~~GRaGR~G~~~~~il~~~ 329 (591)
T TIGR01389 275 VKVMVA--TNAFGMGIDKPN--VRFVIHYDMPG-------------------NLESYYQEAGRAGRDGLPAEAILLYS 329 (591)
T ss_pred CcEEEE--echhhccCcCCC--CCEEEEcCCCC-------------------CHHHHhhhhccccCCCCCceEEEecC
Confidence 345544 688999999997 45666522110 12234599999999776555555543
No 133
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=80.57 E-value=2.7 Score=55.73 Aligned_cols=27 Identities=22% Similarity=0.233 Sum_probs=22.3
Q ss_pred ceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
.++.++++||||||..||...+.-.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~ 86 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQK 86 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence 478999999999999999887665444
No 134
>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=80.54 E-value=2.4 Score=41.57 Aligned_cols=33 Identities=27% Similarity=0.274 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.|.+....+...+... +..++++-+|+|+|||.
T Consensus 2 ~~~~~~~~i~~~~~~~---~~~~v~i~G~~G~GKT~ 34 (151)
T cd00009 2 GQEEAIEALREALELP---PPKNLLLYGPPGTGKTT 34 (151)
T ss_pred chHHHHHHHHHHHhCC---CCCeEEEECCCCCCHHH
Confidence 3556677777777652 22479999999999995
No 135
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=80.25 E-value=11 Score=50.61 Aligned_cols=51 Identities=20% Similarity=0.319 Sum_probs=42.3
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+-.|||+.-+-|+.-+++|.+-+..++ -. --|+.+--|-|||=..+=||..
T Consensus 588 ~~~FPyeET~DQl~AI~eVk~DM~~~k--pM-DRLiCGDVGFGKTEVAmRAAFk 638 (1139)
T COG1197 588 EASFPYEETPDQLKAIEEVKRDMESGK--PM-DRLICGDVGFGKTEVAMRAAFK 638 (1139)
T ss_pred HhcCCCcCCHHHHHHHHHHHHHhccCC--cc-hheeecCcCCcHHHHHHHHHHH
Confidence 568999999999999999999998763 12 2499999999999887777654
No 136
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=78.47 E-value=2.1 Score=51.01 Aligned_cols=23 Identities=30% Similarity=0.385 Sum_probs=20.0
Q ss_pred EEEECCCCCchhHHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
++--|-|||||||++|.|++-.+
T Consensus 260 liGVAQTgtgKtL~~L~pg~ihi 282 (629)
T KOG0336|consen 260 LIGVAQTGTGKTLAFLLPGFIHI 282 (629)
T ss_pred eEEEEecCCCcCHHHhccceeee
Confidence 67789999999999999988654
No 137
>PRK13767 ATP-dependent helicase; Provisional
Probab=78.28 E-value=21 Score=47.87 Aligned_cols=58 Identities=26% Similarity=0.247 Sum_probs=40.1
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCC--eEEEEEEe
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFD--YGAIILLD 700 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~D--yGvIILLD 700 (1269)
|.+=+-||...+..|||+++ ...||.-.. +..+..+.|.+||.=|+..+ .|.++..|
T Consensus 339 G~i~vLVaTs~Le~GIDip~--Vd~VI~~~~-------------------P~sv~~ylQRiGRaGR~~g~~~~g~ii~~~ 397 (876)
T PRK13767 339 GELKVVVSSTSLELGIDIGY--IDLVVLLGS-------------------PKSVSRLLQRIGRAGHRLGEVSKGRIIVVD 397 (876)
T ss_pred CCCeEEEECChHHhcCCCCC--CcEEEEeCC-------------------CCCHHHHHHhcccCCCCCCCCCcEEEEEcC
Confidence 55555667899999999987 445554110 11245678999999987654 68888875
Q ss_pred c
Q 000814 701 E 701 (1269)
Q Consensus 701 ~ 701 (1269)
.
T Consensus 398 ~ 398 (876)
T PRK13767 398 R 398 (876)
T ss_pred c
Confidence 3
No 138
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=78.27 E-value=30 Score=44.36 Aligned_cols=55 Identities=22% Similarity=0.161 Sum_probs=37.2
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEec
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDE 701 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~ 701 (1269)
-.||+| ..-+++|||+++ .+.||. -.+. .+....|.+||+=|.-.+--+|+|+|.
T Consensus 287 ~~VLVa--T~a~~~GIDip~--V~~VI~~d~P~--------------------s~~~y~Qr~GRaGR~G~~~~~ill~~~ 342 (607)
T PRK11057 287 LQIVVA--TVAFGMGINKPN--VRFVVHFDIPR--------------------NIESYYQETGRAGRDGLPAEAMLFYDP 342 (607)
T ss_pred CCEEEE--echhhccCCCCC--cCEEEEeCCCC--------------------CHHHHHHHhhhccCCCCCceEEEEeCH
Confidence 456665 578999999998 455654 1111 123456999999998766556777764
No 139
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=77.77 E-value=21 Score=43.97 Aligned_cols=39 Identities=18% Similarity=0.293 Sum_probs=26.7
Q ss_pred hccCcEEEecccccccHhhhhhhccCCCccEEEecccccH
Q 000814 256 ADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNI 295 (1269)
Q Consensus 256 a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNL 295 (1269)
....||||++...|++......+.+ ..-.+|||||||.+
T Consensus 123 ~~~~~IiV~TP~rL~~~~~~~~~~l-~~v~~lViDEah~l 161 (456)
T PRK10590 123 RGGVDVLVATPGRLLDLEHQNAVKL-DQVEILVLDEADRM 161 (456)
T ss_pred cCCCcEEEEChHHHHHHHHcCCccc-ccceEEEeecHHHH
Confidence 3568999999888877543332211 23478999999954
No 140
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.05 E-value=4.3 Score=49.81 Aligned_cols=44 Identities=23% Similarity=0.261 Sum_probs=32.7
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
| .|-|+|...+- -+|. |+ -...-|-||||||.|+..|.|..+.+
T Consensus 201 y~~PTpIQ~a~IP---vall-----gk-DIca~A~TGsGKTAAF~lPiLERLlY 245 (691)
T KOG0338|consen 201 YKKPTPIQVATIP---VALL-----GK-DICACAATGSGKTAAFALPILERLLY 245 (691)
T ss_pred CCCCCchhhhccc---HHhh-----cc-hhhheecccCCchhhhHHHHHHHHhc
Confidence 6 47788887553 2333 33 35678999999999999999987765
No 141
>PLN03025 replication factor C subunit; Provisional
Probab=75.86 E-value=3 Score=48.81 Aligned_cols=36 Identities=25% Similarity=0.332 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL 72 (1269)
+|.+.+..+...+..+ ...|++|.+|.|||||-.+.
T Consensus 17 g~~~~~~~L~~~~~~~---~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDG---NMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcC---CCceEEEECCCCCCHHHHHH
Confidence 5777777777666643 23589999999999996443
No 142
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=75.83 E-value=2.7 Score=51.87 Aligned_cols=27 Identities=30% Similarity=0.416 Sum_probs=22.3
Q ss_pred ceEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
...|+-+|||+|||-. |+++|.++...
T Consensus 259 GliLvTGPTGSGKTTT-LY~~L~~ln~~ 285 (500)
T COG2804 259 GLILVTGPTGSGKTTT-LYAALSELNTP 285 (500)
T ss_pred eEEEEeCCCCCCHHHH-HHHHHHHhcCC
Confidence 3679999999999965 68999987653
No 143
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=75.75 E-value=3.7 Score=49.24 Aligned_cols=41 Identities=20% Similarity=0.349 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL 72 (1269)
.-|+.|++-+..++..+-.+.+ ..++++-+|||||||...-
T Consensus 20 ~~Re~ei~~l~~~l~~~~~~~~--p~n~~iyG~~GTGKT~~~~ 60 (366)
T COG1474 20 PHREEEINQLASFLAPALRGER--PSNIIIYGPTGTGKTATVK 60 (366)
T ss_pred cccHHHHHHHHHHHHHHhcCCC--CccEEEECCCCCCHhHHHH
Confidence 3478888766666555444422 2358999999999997643
No 144
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=75.62 E-value=2.1 Score=50.03 Aligned_cols=24 Identities=50% Similarity=0.674 Sum_probs=19.6
Q ss_pred cceEEEECCCCCchhHHHHHHHHHHH
Q 000814 54 HCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 54 ~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+.+.|+=+|||+|||| |+-+|+-.
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk~ 120 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAKI 120 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHHH
Confidence 4689999999999996 67777654
No 145
>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=75.36 E-value=2.4 Score=40.92 Aligned_cols=17 Identities=29% Similarity=0.448 Sum_probs=14.6
Q ss_pred eEEEECCCCCchhHHHH
Q 000814 56 HALLESPTGTGKSLSLL 72 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL 72 (1269)
+++|-+|+|||||..+.
T Consensus 4 ~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 4 VILIVGPPGSGKTTLAR 20 (148)
T ss_pred EEEEECCCCCcHHHHHH
Confidence 78999999999997543
No 146
>PTZ00110 helicase; Provisional
Probab=74.06 E-value=22 Score=44.94 Aligned_cols=74 Identities=15% Similarity=0.086 Sum_probs=43.2
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEecc
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDER 702 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~R 702 (1269)
.-||+ +..-+++|||+++ ++.||.-.. +.-+....|.+||+=|.-..=-++.|++..
T Consensus 428 ~~ILV--aTdv~~rGIDi~~--v~~VI~~d~-------------------P~s~~~yvqRiGRtGR~G~~G~ai~~~~~~ 484 (545)
T PTZ00110 428 SPIMI--ATDVASRGLDVKD--VKYVINFDF-------------------PNQIEDYVHRIGRTGRAGAKGASYTFLTPD 484 (545)
T ss_pred CcEEE--EcchhhcCCCccc--CCEEEEeCC-------------------CCCHHHHHHHhcccccCCCCceEEEEECcc
Confidence 34554 5789999999997 455554110 011234579999999986654445566653
Q ss_pred ccchhhHhHHHHHHHhhcc
Q 000814 703 FQEERNRAHISKWLRKSIK 721 (1269)
Q Consensus 703 f~~~~yr~~Lp~Wlr~~l~ 721 (1269)
.......|-+-++...+
T Consensus 485 --~~~~~~~l~~~l~~~~q 501 (545)
T PTZ00110 485 --KYRLARDLVKVLREAKQ 501 (545)
T ss_pred --hHHHHHHHHHHHHHccC
Confidence 22333444454544443
No 147
>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=73.84 E-value=4.3 Score=43.73 Aligned_cols=21 Identities=33% Similarity=0.491 Sum_probs=16.1
Q ss_pred ceEEEECCCCCchhHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.+++|-+|||||||.- +.|++
T Consensus 48 ~~l~l~G~~G~GKThL--a~ai~ 68 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHL--AVAIA 68 (178)
T ss_dssp -EEEEEESTTSSHHHH--HHHHH
T ss_pred eEEEEEhhHhHHHHHH--HHHHH
Confidence 4799999999999974 44554
No 148
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=73.76 E-value=3 Score=54.40 Aligned_cols=42 Identities=24% Similarity=0.400 Sum_probs=30.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
-..||+.|+- ..+ +|.. | -|.|..||.||||....|++..+.
T Consensus 78 g~~~~dvQli--g~l--~l~~----G---~iaEm~TGEGKTLvA~l~a~l~al 119 (796)
T PRK12906 78 GLRPFDVQII--GGI--VLHE----G---NIAEMKTGEGKTLTATLPVYLNAL 119 (796)
T ss_pred CCCCchhHHH--HHH--HHhc----C---CcccccCCCCCcHHHHHHHHHHHH
Confidence 4679999984 333 3443 3 299999999999988777665443
No 149
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=73.36 E-value=4.6 Score=45.40 Aligned_cols=41 Identities=22% Similarity=0.306 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+.|..+---..+| +..|+++-+|.|||||-+.+|-|=..+
T Consensus 33 e~tv~rl~via~~g---nmP~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 33 EDTVERLSVIAKEG---NMPNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred HHHHHHHHHHHHcC---CCCceEeeCCCCCchhhHHHHHHHHHh
Confidence 45555544444333 357899999999999999999876544
No 150
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=73.32 E-value=3.4 Score=49.63 Aligned_cols=45 Identities=24% Similarity=0.387 Sum_probs=31.5
Q ss_pred cCCCCCC--HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 26 EFPYQPY--GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 26 ~FPY~PY--p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.|-|..+ +-|.... .|+-.+ ++-+.+-+|||.||+|||-.|||..
T Consensus 14 ~FGh~kFKs~LQE~A~----~c~VK~----k~DVyVsMPTGaGKSLCyQLPaL~~ 60 (641)
T KOG0352|consen 14 LFGHKKFKSRLQEQAI----NCIVKR----KCDVYVSMPTGAGKSLCYQLPALVH 60 (641)
T ss_pred HhCchhhcChHHHHHH----HHHHhc----cCcEEEeccCCCchhhhhhchHHHh
Confidence 4665544 5566533 344332 3568999999999999999999963
No 151
>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=73.16 E-value=4.4 Score=45.51 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCC--cceEEEECCCCCchhH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDG--HCHALLESPTGTGKSL 69 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G--~~~~LlESPTGTGKTL 69 (1269)
++-|-+|.++...+.-.++...+.+ -.|+||-+|.|+|||-
T Consensus 23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 5678899999988765555433222 2489999999999984
No 152
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=72.79 E-value=4.1 Score=47.38 Aligned_cols=35 Identities=26% Similarity=0.428 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+|.+....+..++..+. ..|++|.+|+|||||..+
T Consensus 19 g~~~~~~~L~~~~~~~~---~~~lll~Gp~GtGKT~la 53 (337)
T PRK12402 19 GQDEVVERLSRAVDSPN---LPHLLVQGPPGSGKTAAV 53 (337)
T ss_pred CCHHHHHHHHHHHhCCC---CceEEEECCCCCCHHHHH
Confidence 56777777777776531 237999999999999644
No 153
>PRK06835 DNA replication protein DnaC; Validated
Probab=71.94 E-value=7 Score=46.34 Aligned_cols=17 Identities=35% Similarity=0.403 Sum_probs=14.6
Q ss_pred ceEEEECCCCCchhHHH
Q 000814 55 CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLal 71 (1269)
.+++|-+|||||||.-+
T Consensus 184 ~~Lll~G~~GtGKThLa 200 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLS 200 (329)
T ss_pred CcEEEECCCCCcHHHHH
Confidence 47999999999999833
No 154
>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=71.91 E-value=3.7 Score=45.43 Aligned_cols=33 Identities=30% Similarity=0.290 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
.+|.+.-.++.-|... | .|+|+.+|.|||||+.
T Consensus 6 ~GQe~aKrAL~iAAaG----~-h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAG----G-HHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSTHHHHHHHHHHHHC----C---EEEES-CCCTHHHH
T ss_pred cCcHHHHHHHHHHHcC----C-CCeEEECCCCCCHHHH
Confidence 3566666655555542 3 4899999999999983
No 155
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=71.49 E-value=8.5 Score=47.36 Aligned_cols=38 Identities=13% Similarity=0.222 Sum_probs=24.9
Q ss_pred CcEEEecccccccHh-hhhhhccCCCccEEEecccccHHHH
Q 000814 259 AQLVFCPYSYIINPV-IRGAMEVDIKGAILILDEAHNIEDI 298 (1269)
Q Consensus 259 ADIVV~nYnyLld~~-iR~~l~i~l~~~ivIfDEAHNLed~ 298 (1269)
++|+|..|+-+.... +... ....-..|||||+||++..
T Consensus 123 ~~i~vat~qtl~~~~~l~~~--~~~~~~liI~DE~Hh~~a~ 161 (442)
T COG1061 123 AKVTVATVQTLARRQLLDEF--LGNEFGLIIFDEVHHLPAP 161 (442)
T ss_pred CcEEEEEhHHHhhhhhhhhh--cccccCEEEEEccccCCcH
Confidence 678888888765431 1111 1114688999999998863
No 156
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=71.11 E-value=3.7 Score=48.18 Aligned_cols=43 Identities=21% Similarity=0.230 Sum_probs=29.0
Q ss_pred CCCHHHHHHHHHHHHHHHhhhc--CCcceEEEECCCCCchhHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQR--DGHCHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~--~G~~~~LlESPTGTGKTLalL 72 (1269)
.-+-+|.+.+..+...+..... ....|++|.+|+|||||..+.
T Consensus 25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 3455777777777666654221 222479999999999997543
No 157
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=71.03 E-value=56 Score=42.26 Aligned_cols=40 Identities=25% Similarity=0.444 Sum_probs=26.7
Q ss_pred HhccCcEEEecccccccHhhhhhhccCCCccEEEecccccH
Q 000814 255 MADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNI 295 (1269)
Q Consensus 255 ~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNL 295 (1269)
+...++|||++-.-|++...+..+.+. .-..|||||||.+
T Consensus 122 l~~~~~IVVgTPgrl~d~l~r~~l~l~-~l~~lVlDEAd~m 161 (629)
T PRK11634 122 LRQGPQIVVGTPGRLLDHLKRGTLDLS-KLSGLVLDEADEM 161 (629)
T ss_pred hcCCCCEEEECHHHHHHHHHcCCcchh-hceEEEeccHHHH
Confidence 335689999998888776544433211 3366999999954
No 158
>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=70.45 E-value=6 Score=47.00 Aligned_cols=42 Identities=19% Similarity=0.244 Sum_probs=32.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
|||.---+|.++...+.-++-.. +..++++++|+|||||..+
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~---~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDP---KIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCC---CCCeEEEEcCCCCCHHHHH
Confidence 78887789999998876665431 1137899999999999744
No 159
>COG4889 Predicted helicase [General function prediction only]
Probab=69.64 E-value=1.7 Score=55.88 Aligned_cols=46 Identities=30% Similarity=0.425 Sum_probs=33.9
Q ss_pred ceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC--CCeEEEEEE
Q 000814 633 KIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR--FDYGAIILL 699 (1269)
Q Consensus 633 KfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk--~DyGvIILL 699 (1269)
=+|||||.|- +-.||. .++ -.+|.-+.||+||++|.. .|||-|||=
T Consensus 537 cLSEGVDVPa--LDsViF----f~p---------------r~smVDIVQaVGRVMRKa~gK~yGYIILP 584 (1518)
T COG4889 537 CLSEGVDVPA--LDSVIF----FDP---------------RSSMVDIVQAVGRVMRKAKGKKYGYIILP 584 (1518)
T ss_pred hhhcCCCccc--cceEEE----ecC---------------chhHHHHHHHHHHHHHhCcCCccceEEEE
Confidence 4899999985 333332 111 147888999999999986 599999983
No 160
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=69.21 E-value=3.5 Score=47.00 Aligned_cols=21 Identities=38% Similarity=0.691 Sum_probs=16.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+++||-+|+|||||+ ++-||+
T Consensus 152 knVLFyGppGTGKTm--~Akala 172 (368)
T COG1223 152 KNVLFYGPPGTGKTM--MAKALA 172 (368)
T ss_pred ceeEEECCCCccHHH--HHHHHh
Confidence 489999999999998 344554
No 161
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=69.14 E-value=20 Score=40.94 Aligned_cols=41 Identities=20% Similarity=0.084 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
-|+.|++.+.+-..++-+|.. -.|+||-++-|||||-.+-.
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~p--annvLL~G~rGtGKSSlVka 71 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLP--ANNVLLWGARGTGKSSLVKA 71 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCC--CcceEEecCCCCCHHHHHHH
Confidence 478899888888888877653 24899999999999854433
No 162
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.99 E-value=5.6 Score=47.56 Aligned_cols=36 Identities=25% Similarity=0.265 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
-+|.+....+..++..+. -.|+ ||.+|.|||||-..
T Consensus 19 iGq~~~~~~l~~~~~~~~---~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 19 IGQKHIVTAISNGLSLGR---IHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred cChHHHHHHHHHHHHcCC---CCeEEEEecCCCCCHHHHH
Confidence 379999988888887642 2365 89999999999643
No 163
>PTZ00424 helicase 45; Provisional
Probab=68.90 E-value=16 Score=43.73 Aligned_cols=39 Identities=18% Similarity=0.234 Sum_probs=26.5
Q ss_pred cCcEEEecccccccHhhhhhhccCCCccEEEecccccHHH
Q 000814 258 DAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIED 297 (1269)
Q Consensus 258 ~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed 297 (1269)
.++|||++...|++-..+....+ ..-.+|||||||++.+
T Consensus 146 ~~~Ivv~Tp~~l~~~l~~~~~~l-~~i~lvViDEah~~~~ 184 (401)
T PTZ00424 146 GVHMVVGTPGRVYDMIDKRHLRV-DDLKLFILDEADEMLS 184 (401)
T ss_pred CCCEEEECcHHHHHHHHhCCccc-ccccEEEEecHHHHHh
Confidence 46899999887776554333211 1337899999998754
No 164
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=68.79 E-value=7 Score=47.69 Aligned_cols=44 Identities=30% Similarity=0.263 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHh----hh---c------CCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDR----AQ---R------DGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~----~~---~------~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-+|.+.+..+..++.+ -. + -.+.++||.+|||||||. |+-+|++
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~--lAr~lA~ 130 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTL--LAQTLAR 130 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHH--HHHHHHH
Confidence 4677777766555521 10 0 012479999999999996 4556654
No 165
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=67.82 E-value=29 Score=42.94 Aligned_cols=57 Identities=19% Similarity=0.017 Sum_probs=37.2
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEec
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLDE 701 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD~ 701 (1269)
|.+.+-|+..-+++|||+++ +++||. -.+. -+....|.+||+=|.-.+--+|+|+++
T Consensus 384 G~~~vLvaT~~l~~GIDi~~--v~~VI~~~~P~--------------------s~~~y~Qr~GRaGR~g~~g~~i~~~~~ 441 (475)
T PRK01297 384 GKIRVLVATDVAGRGIHIDG--ISHVINFTLPE--------------------DPDDYVHRIGRTGRAGASGVSISFAGE 441 (475)
T ss_pred CCCcEEEEccccccCCcccC--CCEEEEeCCCC--------------------CHHHHHHhhCccCCCCCCceEEEEecH
Confidence 33334445789999999987 445554 1111 123568999999999887545555543
No 166
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=67.59 E-value=5.7 Score=51.24 Aligned_cols=42 Identities=26% Similarity=0.399 Sum_probs=31.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
-..||+.|+--|-.+ .. | -|.|..||.||||....||...+.
T Consensus 76 g~r~ydvQlig~l~L----l~----G---~VaEM~TGEGKTLvA~l~a~l~AL 117 (764)
T PRK12326 76 GLRPFDVQLLGALRL----LA----G---DVIEMATGEGKTLAGAIAAAGYAL 117 (764)
T ss_pred CCCcchHHHHHHHHH----hC----C---CcccccCCCCHHHHHHHHHHHHHH
Confidence 357999999766533 23 3 288999999999998888776553
No 167
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=67.52 E-value=6.3 Score=45.37 Aligned_cols=37 Identities=30% Similarity=0.361 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL 72 (1269)
-+|.+.+..+...++.+. ..|++|-+|+|||||..+-
T Consensus 20 ~g~~~~~~~l~~~i~~~~---~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 20 VGQEEIVERLKSYVKEKN---MPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred cCcHHHHHHHHHHHhCCC---CCeEEEECCCCCCHHHHHH
Confidence 357777888888886532 2478999999999997543
No 168
>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=67.46 E-value=1.1e+02 Score=41.32 Aligned_cols=28 Identities=18% Similarity=0.059 Sum_probs=21.1
Q ss_pred CCCeEEEeccchhhHHHHHHHHHhcCCC
Q 000814 142 MTPTIFYASRTHSQISQVISEYKKTAYR 169 (1269)
Q Consensus 142 ~~pKIiYaSRTHSQLsQvIrELRk~~~~ 169 (1269)
..-+|+.++.+..|...+.+-|+..+..
T Consensus 235 ~~~~vii~~~s~~~~~~l~~~l~~~~~~ 262 (926)
T TIGR00580 235 AGFKITVAAESESQAERLKSLLAEHDIA 262 (926)
T ss_pred CCCeEEEEeCCHHHHHHHHHHHHHCCCC
Confidence 3567888989988888887777766543
No 169
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=67.28 E-value=49 Score=45.24 Aligned_cols=53 Identities=17% Similarity=0.123 Sum_probs=33.4
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
-.||+| ..-|+.|||++|- |.||- -.+. -+....|.+||+=|--..--+|+|.
T Consensus 731 i~VLVA--TdAFGMGIDkPDV--R~VIHydlPk--------------------SiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 731 INIICA--TVAFGMGINKPDV--RFVIHHSLPK--------------------SIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred CcEEEE--echhhcCCCccCC--cEEEEcCCCC--------------------CHHHHHhhhcccCCCCCCceEEEEe
Confidence 345554 6789999999984 44553 1111 1233459999999976664455554
No 170
>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=67.14 E-value=3.2 Score=42.74 Aligned_cols=20 Identities=35% Similarity=0.444 Sum_probs=12.4
Q ss_pred eEEEECCCCCchhHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~A 75 (1269)
|+|+|++.|+|||...-.-|
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 78999999999998654333
No 171
>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=66.03 E-value=7.9 Score=39.78 Aligned_cols=32 Identities=22% Similarity=0.228 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhhhcCCcceE--EEECCCCCchhHH
Q 000814 37 VFMCRVISTLDRAQRDGHCHA--LLESPTGTGKSLS 70 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~--LlESPTGTGKTLa 70 (1269)
.++..|..-+.... .++.+ -|-+|||||||..
T Consensus 36 ~v~~ai~~~l~~~~--p~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 36 VVVNAIKGHLANPN--PRKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred HHHHHHHHHHcCCC--CCCCEEEEeecCCCCcHHHH
Confidence 44445555554421 22334 4799999999974
No 172
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=66.02 E-value=7.8 Score=47.32 Aligned_cols=44 Identities=30% Similarity=0.277 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHh----h-----hc------CCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDR----A-----QR------DGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~----~-----~~------~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-+|.+....+..++.+ - .. -++.++||.+|||+|||. |+-+|+.
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~--lAraLA~ 138 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTL--LAQTLAR 138 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHH--HHHHHHH
Confidence 4788877777766621 0 00 013479999999999997 4566653
No 173
>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=65.55 E-value=5.9 Score=40.04 Aligned_cols=22 Identities=41% Similarity=0.480 Sum_probs=16.2
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
++||.+|+|||||.. +-.++++
T Consensus 1 ~vlL~G~~G~GKt~l--~~~la~~ 22 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTL--ARELAAL 22 (139)
T ss_dssp EEEEEESSSSSHHHH--HHHHHHH
T ss_pred CEEEECCCCCCHHHH--HHHHHHH
Confidence 479999999999963 4444443
No 174
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.25 E-value=6.6 Score=47.55 Aligned_cols=38 Identities=16% Similarity=0.189 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSL 71 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLal 71 (1269)
..-+|......+..++.++. -.| .||.+|.|+|||.+.
T Consensus 17 eiiGq~~~~~~L~~~~~~~~---~~ha~lf~Gp~G~GKtt~A 55 (397)
T PRK14955 17 DITAQEHITRTIQNSLRMGR---VGHGYIFSGLRGVGKTTAA 55 (397)
T ss_pred hccChHHHHHHHHHHHHhCC---cceeEEEECCCCCCHHHHH
Confidence 34479998888888888652 135 679999999999644
No 175
>PRK10689 transcription-repair coupling factor; Provisional
Probab=64.64 E-value=59 Score=44.91 Aligned_cols=55 Identities=20% Similarity=0.243 Sum_probs=35.5
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEe
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLD 700 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD 700 (1269)
--||+| ..-++.|||+++ +.+|||-..- . |. +-.+-|.+||+=|.. ..|..+|+-
T Consensus 862 ~~VLVa--TdIierGIDIP~--v~~VIi~~ad--~-------------fg---laq~~Qr~GRvGR~g-~~g~a~ll~ 916 (1147)
T PRK10689 862 FNVLVC--TTIIETGIDIPT--ANTIIIERAD--H-------------FG---LAQLHQLRGRVGRSH-HQAYAWLLT 916 (1147)
T ss_pred CCEEEE--Cchhhccccccc--CCEEEEecCC--C-------------CC---HHHHHHHhhccCCCC-CceEEEEEe
Confidence 456655 689999999998 4556652110 0 10 112679999999974 457777763
No 176
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=64.54 E-value=11 Score=41.50 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=15.1
Q ss_pred cCCcceEEEECCCCCchhHH
Q 000814 51 RDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 51 ~~G~~~~LlESPTGTGKTLa 70 (1269)
..|. ..++++|+|||||+=
T Consensus 17 p~gs-~~li~G~~GsGKT~l 35 (226)
T PF06745_consen 17 PKGS-VVLISGPPGSGKTTL 35 (226)
T ss_dssp ETTS-EEEEEESTTSSHHHH
T ss_pred CCCc-EEEEEeCCCCCcHHH
Confidence 3443 689999999999963
No 177
>PRK08181 transposase; Validated
Probab=64.24 E-value=11 Score=43.30 Aligned_cols=21 Identities=38% Similarity=0.600 Sum_probs=16.1
Q ss_pred ceEEEECCCCCchhHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.+++|-+|+|||||. |+.|++
T Consensus 107 ~nlll~Gp~GtGKTH--La~Aia 127 (269)
T PRK08181 107 ANLLLFGPPGGGKSH--LAAAIG 127 (269)
T ss_pred ceEEEEecCCCcHHH--HHHHHH
Confidence 379999999999996 344444
No 178
>PRK12377 putative replication protein; Provisional
Probab=64.24 E-value=9.4 Score=43.47 Aligned_cols=42 Identities=21% Similarity=0.305 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+.|...+..+..-.+.-. .+..+++|-+|+|||||. |+.|++
T Consensus 81 ~~~~~a~~~a~~~a~~~~-~~~~~l~l~G~~GtGKTh--La~AIa 122 (248)
T PRK12377 81 DGQRYALSQAKSIADELM-TGCTNFVFSGKPGTGKNH--LAAAIG 122 (248)
T ss_pred hhHHHHHHHHHHHHHHHH-hcCCeEEEECCCCCCHHH--HHHHHH
Confidence 567655544433333211 123468999999999996 344443
No 179
>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=64.17 E-value=8.4 Score=42.13 Aligned_cols=34 Identities=18% Similarity=0.186 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
.+...+..+...+... ...+++|.+|+|||||..
T Consensus 21 ~~~~~~~~l~~~~~~~---~~~~lll~G~~G~GKT~l 54 (226)
T TIGR03420 21 GNAELLAALRQLAAGK---GDRFLYLWGESGSGKSHL 54 (226)
T ss_pred CcHHHHHHHHHHHhcC---CCCeEEEECCCCCCHHHH
Confidence 4555666665554321 234799999999999963
No 180
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=63.73 E-value=18 Score=47.08 Aligned_cols=63 Identities=22% Similarity=0.277 Sum_probs=41.9
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcch-HHHHHHHHHHhcCcccccCCCeEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWY-CNQAFRALNQAIGRCIRHRFDYGAII 697 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY-~~~AmRaVNQAIGRvIRhk~DyGvII 697 (1269)
-.||++ .--++.|.||++=.+-+|+=-.-. ++..+|- .-.++.-+.|.+||+=|+...=.+||
T Consensus 535 ~dILiG--TQmiaKG~~fp~vtLVgvl~aD~~----------L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvI 598 (730)
T COG1198 535 ADILIG--TQMIAKGHDFPNVTLVGVLDADTG----------LGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVI 598 (730)
T ss_pred CCeeec--chhhhcCCCcccceEEEEEechhh----------hcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEE
Confidence 567776 578999999999777666642211 1122222 24578899999999999876644433
No 181
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.37 E-value=7.4 Score=49.55 Aligned_cols=39 Identities=31% Similarity=0.282 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~ 74 (1269)
-+|......+...+..+. -.|+ ||.+|.|||||-...+-
T Consensus 16 vGq~~i~~~L~~~i~~~r---~~ha~Lf~Gp~G~GKTt~A~~l 55 (584)
T PRK14952 16 VGQEHVTEPLSSALDAGR---INHAYLFSGPRGCGKTSSARIL 55 (584)
T ss_pred cCcHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHHH
Confidence 479988888888888753 2465 89999999999755443
No 182
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=63.26 E-value=3.5 Score=43.17 Aligned_cols=37 Identities=14% Similarity=0.205 Sum_probs=19.4
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
-|..|++-+....++...+ ++ .++++.+|.|+|||--
T Consensus 4 gR~~e~~~l~~~l~~~~~~--~~-~~~ll~G~~G~GKT~l 40 (185)
T PF13191_consen 4 GREEEIERLRDLLDAAQSG--SP-RNLLLTGESGSGKTSL 40 (185)
T ss_dssp T-HHHHHHHHHTTGGTSS--------EEE-B-TTSSHHHH
T ss_pred CHHHHHHHHHHHHHHHHcC--CC-cEEEEECCCCCCHHHH
Confidence 4566666555555422222 23 4789999999999964
No 183
>PRK02362 ski2-like helicase; Provisional
Probab=63.14 E-value=11 Score=49.52 Aligned_cols=65 Identities=20% Similarity=0.372 Sum_probs=41.7
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEe--ccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCC-CeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLK--KKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRF-DYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK--~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~-DyGvIILL 699 (1269)
|.+=+-||...++.|||+|+ +.|||+ ..|... .| +.+-....+.|.+||+=|-.. ++|.+|++
T Consensus 328 G~i~VLvaT~tla~GvnlPa---~~VVI~~~~~yd~~--------~g---~~~~s~~~y~Qm~GRAGR~g~d~~G~~ii~ 393 (737)
T PRK02362 328 RLIKVISSTPTLAAGLNLPA---RRVIIRDYRRYDGG--------AG---MQPIPVLEYHQMAGRAGRPGLDPYGEAVLL 393 (737)
T ss_pred CCCeEEEechhhhhhcCCCc---eEEEEecceeecCC--------CC---ceeCCHHHHHHHhhcCCCCCCCCCceEEEE
Confidence 44444455789999999998 457773 234211 01 122235677899999999655 47877776
Q ss_pred ec
Q 000814 700 DE 701 (1269)
Q Consensus 700 D~ 701 (1269)
-.
T Consensus 394 ~~ 395 (737)
T PRK02362 394 AK 395 (737)
T ss_pred ec
Confidence 43
No 184
>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=63.02 E-value=11 Score=44.51 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=22.4
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
|..|++-+...+.....+.+ ..++++-+|+|||||..+
T Consensus 20 Re~e~~~l~~~l~~~~~~~~--~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSR--PSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCC--CCcEEEECCCCCCHHHHH
Confidence 55565544444333222221 136899999999999643
No 185
>PRK01172 ski2-like helicase; Provisional
Probab=62.76 E-value=14 Score=47.82 Aligned_cols=60 Identities=20% Similarity=0.360 Sum_probs=37.6
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEec--cccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC-CCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKK--KYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR-FDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~--~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk-~DyGvIILL 699 (1269)
-.||+ +...++.|||+|+ +.|||.. .|.. .+..+| ....+.|.+||+=|.. ++.|..+++
T Consensus 312 i~VLv--aT~~la~Gvnipa---~~VII~~~~~~~~---------~~~~~~---s~~~~~Qm~GRAGR~g~d~~g~~~i~ 374 (674)
T PRK01172 312 IKVIV--ATPTLAAGVNLPA---RLVIVRDITRYGN---------GGIRYL---SNMEIKQMIGRAGRPGYDQYGIGYIY 374 (674)
T ss_pred CeEEE--ecchhhccCCCcc---eEEEEcCceEeCC---------CCceeC---CHHHHHHHhhcCCCCCCCCcceEEEE
Confidence 34554 4789999999997 6788843 2211 122223 2446789999999975 456644433
No 186
>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=62.67 E-value=15 Score=40.91 Aligned_cols=41 Identities=20% Similarity=0.208 Sum_probs=24.8
Q ss_pred HHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 39 MCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 39 M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
+.+...++.+........+++-+|+|+|||- ||.+...+..
T Consensus 19 a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH-LL~Ai~~~~~ 59 (219)
T PF00308_consen 19 AYAAAKAIAENPGERYNPLFLYGPSGLGKTH-LLQAIANEAQ 59 (219)
T ss_dssp HHHHHHHHHHSTTTSSSEEEEEESTTSSHHH-HHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCCCceEEECCCCCCHHH-HHHHHHHHHH
Confidence 3345555554422212247999999999999 5555554443
No 187
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=62.05 E-value=62 Score=42.62 Aligned_cols=55 Identities=22% Similarity=0.048 Sum_probs=35.5
Q ss_pred EEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC---CCeEEEEEEeccc
Q 000814 627 LAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR---FDYGAIILLDERF 703 (1269)
Q Consensus 627 fAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk---~DyGvIILLD~Rf 703 (1269)
+.|++..+-=|||+.=|.+- -...-+..+.|++|||-||. +++..++-.+.|+
T Consensus 497 IvVaTQVIEagvDidfd~mI------------------------Te~aPidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~ 552 (733)
T COG1203 497 IVVATQVIEAGVDIDFDVLI------------------------TELAPIDSLIQRAGRVNRHGKKENGKIYVYNDEERG 552 (733)
T ss_pred EEEEeeEEEEEeccccCeee------------------------ecCCCHHHHHHHHHHHhhcccccCCceeEeecccCC
Confidence 34556788889998754431 02334788999999999999 3344444445554
Q ss_pred cc
Q 000814 704 QE 705 (1269)
Q Consensus 704 ~~ 705 (1269)
..
T Consensus 553 ~~ 554 (733)
T COG1203 553 PY 554 (733)
T ss_pred Cc
Confidence 43
No 188
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=61.78 E-value=30 Score=44.84 Aligned_cols=43 Identities=28% Similarity=0.526 Sum_probs=34.9
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 25 VEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 25 v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.=||+|-..|-+.+.++.+.+..+ ..+.+|-+-||+|||+.+
T Consensus 4 ~~~~~~~~~~Q~~ai~~l~~~~~~~----~~~~~l~Gvtgs~kt~~~ 46 (655)
T TIGR00631 4 LHSPFQPAGDQPKAIAKLVEGLTDG----EKHQTLLGVTGSGKTFTM 46 (655)
T ss_pred eccCCCCChHHHHHHHHHHHhhhcC----CCcEEEECCCCcHHHHHH
Confidence 4458999999999999999999654 235579999999999853
No 189
>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=61.41 E-value=11 Score=40.42 Aligned_cols=31 Identities=35% Similarity=0.429 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.|.++++.+.+..... .++|+++++||||++
T Consensus 7 ~m~~~~~~~~~~a~~~-~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 7 AMKRLREQAKRAASSD-LPVLITGETGTGKEL 37 (168)
T ss_dssp HHHHHHHHHHHHTTST-S-EEEECSTTSSHHH
T ss_pred HHHHHHHHHHHHhCCC-CCEEEEcCCCCcHHH
Confidence 3555555555433222 479999999999997
No 190
>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=60.98 E-value=13 Score=44.08 Aligned_cols=36 Identities=17% Similarity=0.146 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+....|..+|..+ .+++|++|+|||||.. +-.|+.
T Consensus 51 ~~~~~~vl~~l~~~-----~~ilL~G~pGtGKTtl--a~~lA~ 86 (327)
T TIGR01650 51 KATTKAICAGFAYD-----RRVMVQGYHGTGKSTH--IEQIAA 86 (327)
T ss_pred HHHHHHHHHHHhcC-----CcEEEEeCCCChHHHH--HHHHHH
Confidence 33445677788653 3799999999999963 444443
No 191
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=60.93 E-value=11 Score=44.38 Aligned_cols=23 Identities=26% Similarity=0.381 Sum_probs=17.2
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+.++-+|||+||| .+|-+.+.+
T Consensus 149 ~~ilI~G~tGSGKT-Tll~aL~~~ 171 (319)
T PRK13894 149 RNILVIGGTGSGKT-TLVNAIINE 171 (319)
T ss_pred CeEEEECCCCCCHH-HHHHHHHHh
Confidence 47899999999999 555554444
No 192
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=60.86 E-value=6.8 Score=46.26 Aligned_cols=38 Identities=34% Similarity=0.387 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-||-|++.+..+.. |+ -+++--|||-||+|||-.|||-
T Consensus 95 frplq~~ain~~ma--------~e-d~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 95 FRPLQLAAINATMA--------GE-DAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred cChhHHHHhhhhhc--------cC-ceEEEEeCCCccchhhhhhHHh
Confidence 36788876664433 22 4788899999999999999985
No 193
>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=60.70 E-value=12 Score=43.12 Aligned_cols=37 Identities=24% Similarity=0.254 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhhhc--CCcceEEEECCCCCchhHH
Q 000814 34 SQLVFMCRVISTLDRAQR--DGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~--~G~~~~LlESPTGTGKTLa 70 (1269)
+|.+....+...+..... ..-.|++|.+|.|||||..
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~l 46 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTL 46 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHH
Confidence 566666666666653211 1123789999999999953
No 194
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=60.47 E-value=13 Score=37.96 Aligned_cols=31 Identities=35% Similarity=0.519 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.|.++.+.+++-.+.+ ..+++.++.||||++
T Consensus 6 ~~~~l~~~l~~~a~~~-~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 6 AMRRLRRQLERLAKSS-SPVLITGEPGTGKSL 36 (138)
T ss_dssp HHHHHHHHHHHHHCSS-S-EEEECCTTSSHHH
T ss_pred HHHHHHHHHHHHhCCC-CcEEEEcCCCCCHHH
Confidence 4566666666554344 368999999999997
No 195
>PRK09183 transposase/IS protein; Provisional
Probab=60.22 E-value=8.5 Score=43.94 Aligned_cols=21 Identities=33% Similarity=0.648 Sum_probs=16.1
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+++|-+|+|||||. |+.+|+.
T Consensus 104 ~v~l~Gp~GtGKTh--La~al~~ 124 (259)
T PRK09183 104 NIVLLGPSGVGKTH--LAIALGY 124 (259)
T ss_pred eEEEEeCCCCCHHH--HHHHHHH
Confidence 78999999999996 4444443
No 196
>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=60.10 E-value=19 Score=43.30 Aligned_cols=55 Identities=18% Similarity=0.157 Sum_probs=31.0
Q ss_pred CeeecCC-CC--CC---HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 22 GIQVEFP-YQ--PY---GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 22 Gi~v~FP-Y~--PY---p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+....|| |. .| ....+++..+..+... .+..+..++|.+|+|+|||. |+-+|+..
T Consensus 41 ~~~~~y~~F~~~~~G~~~~i~~lv~~l~~~a~g-~~~~r~il~L~GPPGsGKSt--la~~La~~ 101 (361)
T smart00763 41 RGIKRYRFFDHDFFGMEEAIERFVNYFKSAAQG-LEERKQILYLLGPVGGGKSS--LVECLKRG 101 (361)
T ss_pred cceeeccccchhccCcHHHHHHHHHHHHHHHhc-CCCCCcEEEEECCCCCCHHH--HHHHHHHH
Confidence 3456777 44 33 2344444444443321 12234578999999999996 45555543
No 197
>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=60.04 E-value=8.3 Score=49.64 Aligned_cols=41 Identities=24% Similarity=0.318 Sum_probs=32.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
|||.-.-+|.++...+.-++-.. +.| ++||++|+|||||..
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~-~~g--~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDP-RIG--GVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCC-CCC--eEEEEcCCCCcHHHH
Confidence 78887778998888777776543 233 589999999999973
No 198
>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=59.73 E-value=11 Score=42.29 Aligned_cols=34 Identities=18% Similarity=0.173 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+.+.+.+..+...+.. +...+++-+|+|+|||..
T Consensus 26 ~~~~~~~~~l~~~~~~----~~~~~~l~G~~G~GKTtl 59 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQ----REGFILITGEVGAGKTTL 59 (269)
T ss_pred HHHHHHHHHHHHHHhc----CCCEEEEEcCCCCCHHHH
Confidence 3455556555555554 233689999999999964
No 199
>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=59.73 E-value=11 Score=45.98 Aligned_cols=45 Identities=27% Similarity=0.173 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHhh-hc----------CCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRA-QR----------DGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~-~~----------~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
-+|.+.-..+.-++... .+ .-..++||.+|||+|||. |+-+|+..
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA~~ 70 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLAKL 70 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHHHH
Confidence 57888888887777652 00 011479999999999996 56666543
No 200
>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=59.57 E-value=11 Score=44.98 Aligned_cols=36 Identities=28% Similarity=0.488 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.|++.+..|++++... +|. ++.+-+|-|||||..+
T Consensus 4 ~eQ~~~~~~v~~~~~~~--~~~-~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENE--EGL-NFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHHcc--CCc-EEEEEcCCCCChhHHH
Confidence 57999999999999763 454 6899999999999754
No 201
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=59.45 E-value=7 Score=45.92 Aligned_cols=41 Identities=32% Similarity=0.449 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHhhhcCC-------cceEEEECCCCCchhHHHHHHHHH
Q 000814 35 QLVFMCRVISTLDRAQRDG-------HCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 35 Q~e~M~~V~~aL~~~~~~G-------~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-.++|.-+..+|.=.++.- +..+|+.+|+|||||- ||=||+
T Consensus 151 K~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTS--LCKaLa 198 (423)
T KOG0744|consen 151 KERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTS--LCKALA 198 (423)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhH--HHHHHH
Confidence 4456666666654332111 1247899999999995 899997
No 202
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=59.43 E-value=12 Score=45.84 Aligned_cols=43 Identities=28% Similarity=0.183 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhh-cC----------CcceEEEECCCCCchhHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQ-RD----------GHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~-~~----------G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.+|.+....+..++...- +. ...|+||.+|||+|||. |+-+|+
T Consensus 18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~--LAr~LA 71 (443)
T PRK05201 18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE--IARRLA 71 (443)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH--HHHHHH
Confidence 578888888888885420 00 02479999999999995 344444
No 203
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=59.14 E-value=5.8 Score=39.27 Aligned_cols=17 Identities=24% Similarity=0.513 Sum_probs=12.5
Q ss_pred ceEEEECCCCCchhHHH
Q 000814 55 CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLal 71 (1269)
.++++-+|+|+|||..+
T Consensus 5 ~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLI 21 (131)
T ss_dssp --EEEEE-TTSSHHHHH
T ss_pred cccEEEcCCCCCHHHHH
Confidence 47899999999999754
No 204
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=59.09 E-value=8 Score=47.96 Aligned_cols=43 Identities=23% Similarity=0.485 Sum_probs=36.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
.+.=||+|=.-|-+.+.++.+.|..| .++-.|=+-||||||+.
T Consensus 6 ~l~s~f~PaGDQP~AI~~Lv~gi~~g----~~~QtLLGvTGSGKTfT 48 (663)
T COG0556 6 KLHSPFKPAGDQPEAIAELVEGIENG----LKHQTLLGVTGSGKTFT 48 (663)
T ss_pred EeccCCCCCCCcHHHHHHHHHHHhcC----ceeeEEeeeccCCchhH
Confidence 44557899888999999999999875 46789999999999985
No 205
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=59.08 E-value=12 Score=49.38 Aligned_cols=41 Identities=10% Similarity=0.161 Sum_probs=24.2
Q ss_pred CHHHHHHHHHHHH-HHHhhhcCCcceEEEECCCCCchhHHHHHH
Q 000814 32 YGSQLVFMCRVIS-TLDRAQRDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~-aL~~~~~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
|+.|++-+...+. +|.. ...+ .++++-+|||||||+++..-
T Consensus 760 REeEIeeLasfL~paIkg-sgpn-nvLYIyG~PGTGKTATVK~V 801 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQ-SGSN-QILYISGMPGTGKTATVYSV 801 (1164)
T ss_pred hHHHHHHHHHHHHHHHhc-CCCC-ceEEEECCCCCCHHHHHHHH
Confidence 5555554444443 4542 1111 23458999999999887554
No 206
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.06 E-value=9.8 Score=47.72 Aligned_cols=37 Identities=24% Similarity=0.248 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
.-+|...+..+..++.++. -.|+ ||.+|.|||||-..
T Consensus 18 ivGq~~v~~~L~~~~~~~~---l~ha~Lf~Gp~G~GKTt~A 55 (509)
T PRK14958 18 VIGQAPVVRALSNALDQQY---LHHAYLFTGTRGVGKTTIS 55 (509)
T ss_pred hcCCHHHHHHHHHHHHhCC---CCeeEEEECCCCCCHHHHH
Confidence 3489999999999998753 2355 89999999999543
No 207
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=58.70 E-value=18 Score=43.78 Aligned_cols=21 Identities=48% Similarity=0.716 Sum_probs=16.5
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+||.+|+|||||+ |+-+++.
T Consensus 167 gvLL~GppGtGKT~--lAkaia~ 187 (389)
T PRK03992 167 GVLLYGPPGTGKTL--LAKAVAH 187 (389)
T ss_pred ceEEECCCCCChHH--HHHHHHH
Confidence 58999999999996 4555554
No 208
>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=58.69 E-value=31 Score=44.13 Aligned_cols=32 Identities=28% Similarity=0.311 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
+.|++ ++..++.+ .+.++.+|.|||||-.+-.
T Consensus 148 ~~Qk~---A~~~al~~------~~~vitGgpGTGKTt~v~~ 179 (586)
T TIGR01447 148 NWQKV---AVALALKS------NFSLITGGPGTGKTTTVAR 179 (586)
T ss_pred HHHHH---HHHHHhhC------CeEEEEcCCCCCHHHHHHH
Confidence 55654 34455553 3789999999999976533
No 209
>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=58.06 E-value=13 Score=39.40 Aligned_cols=35 Identities=20% Similarity=0.289 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSL 71 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLal 71 (1269)
+|.+..+.+...+.++. -.| .||++|.|+||+-..
T Consensus 1 gq~~~~~~L~~~~~~~~---l~ha~L~~G~~g~gk~~~a 36 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGR---LPHALLFHGPSGSGKKTLA 36 (162)
T ss_dssp S-HHHHHHHHHHHHCTC-----SEEEEECSTTSSHHHHH
T ss_pred CcHHHHHHHHHHHHcCC---cceeEEEECCCCCCHHHHH
Confidence 47788888888887652 235 499999999998543
No 210
>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=57.96 E-value=7.7 Score=44.89 Aligned_cols=15 Identities=33% Similarity=0.508 Sum_probs=13.6
Q ss_pred eEEEECCCCCchhHH
Q 000814 56 HALLESPTGTGKSLS 70 (1269)
Q Consensus 56 ~~LlESPTGTGKTLa 70 (1269)
|++|.+|+|||||..
T Consensus 60 ~vll~G~pGTGKT~l 74 (284)
T TIGR02880 60 HMSFTGNPGTGKTTV 74 (284)
T ss_pred eEEEEcCCCCCHHHH
Confidence 789999999999964
No 211
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=57.94 E-value=3.8 Score=54.52 Aligned_cols=46 Identities=30% Similarity=0.335 Sum_probs=33.2
Q ss_pred eecCCCC-CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 24 QVEFPYQ-PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 24 ~v~FPY~-PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
...|-+. =|+.|.+.+. .++ . |+ -.++..|||-||+|||-.||+.+
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~---~~l-~----Gk-d~fvlmpTG~GKSLCYQlPA~l~ 303 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAIN---ATL-S----GK-DCFVLMPTGGGKSLCYQLPALLL 303 (941)
T ss_pred HHHhccccCChhHHHHHH---HHH-c----CC-ceEEEeecCCceeeEeecccccc
Confidence 3455555 4678998665 233 2 44 47999999999999998888864
No 212
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=57.85 E-value=2.9 Score=52.85 Aligned_cols=45 Identities=27% Similarity=0.368 Sum_probs=28.4
Q ss_pred HHhccCcEEEecccccccH---hhhhhhc----cCCCccEEEecccccHHHH
Q 000814 254 SMADDAQLVFCPYSYIINP---VIRGAME----VDIKGAILILDEAHNIEDI 298 (1269)
Q Consensus 254 ~~a~~ADIVV~nYnyLld~---~iR~~l~----i~l~~~ivIfDEAHNLed~ 298 (1269)
+.++.-||||++|+.+... ....... ....=+-||+|||||+-+.
T Consensus 427 ~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~ 478 (901)
T KOG4439|consen 427 KELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS 478 (901)
T ss_pred HHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc
Confidence 4556789999999999861 1111100 1112245899999998654
No 213
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=57.59 E-value=9.7 Score=40.20 Aligned_cols=23 Identities=35% Similarity=0.250 Sum_probs=17.0
Q ss_pred EEEECCCCCchhHHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.++.+|+|||||.-.+--+...+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 58999999999985554444444
No 214
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=57.59 E-value=36 Score=44.16 Aligned_cols=59 Identities=25% Similarity=0.339 Sum_probs=37.3
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE--eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEE-EEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL--KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAI-ILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII--K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvI-ILL 699 (1269)
|.+-+-|+.|.+++|+|+++-. .||+ ...|-. +.....+.|.+||.-|..+ |.+ +++
T Consensus 491 G~i~VLV~t~~L~rGfDiP~v~--lVvi~DadifG~----------------p~~~~~~iqriGRagR~~~--G~vi~~~ 550 (655)
T TIGR00631 491 GEFDVLVGINLLREGLDLPEVS--LVAILDADKEGF----------------LRSERSLIQTIGRAARNVN--GKVIMYA 550 (655)
T ss_pred CCceEEEEcChhcCCeeeCCCc--EEEEeCcccccC----------------CCCHHHHHHHhcCCCCCCC--CEEEEEE
Confidence 5666667789999999999844 4454 112210 0112356899999999964 544 445
Q ss_pred ec
Q 000814 700 DE 701 (1269)
Q Consensus 700 D~ 701 (1269)
|.
T Consensus 551 ~~ 552 (655)
T TIGR00631 551 DK 552 (655)
T ss_pred cC
Confidence 64
No 215
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=57.47 E-value=12 Score=49.09 Aligned_cols=43 Identities=28% Similarity=0.363 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhhhc----CCc--ceEEEECCCCCchhHHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQR----DGH--CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~----~G~--~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+|.+.++.|..++..... .++ .+.+|.+|||||||. |+-+|+-
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~--lA~~la~ 506 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTE--LAKQLAE 506 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHH--HHHHHHH
Confidence 678888888888875310 011 147999999999994 4555543
No 216
>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=57.38 E-value=18 Score=42.95 Aligned_cols=21 Identities=29% Similarity=0.327 Sum_probs=16.7
Q ss_pred ceEEEECCCCCchhHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~A 75 (1269)
.++|+++..|||||+.++.-+
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~ 22 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLA 22 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHH
Confidence 378999999999998655443
No 217
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.95 E-value=12 Score=46.83 Aligned_cols=38 Identities=24% Similarity=0.299 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~ 73 (1269)
-+|......+...+..+. -.|+ ||.+|.|||||-...+
T Consensus 17 vGq~~v~~~L~~~i~~~~---l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGR---LGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred cChHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHH
Confidence 468888888888887642 2366 9999999999976543
No 218
>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=56.34 E-value=8.5 Score=43.70 Aligned_cols=16 Identities=31% Similarity=0.574 Sum_probs=14.0
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.|+||.+|+|||||..
T Consensus 43 ~~vll~GppGtGKTtl 58 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTV 58 (261)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 4789999999999963
No 219
>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=56.31 E-value=13 Score=42.94 Aligned_cols=16 Identities=44% Similarity=0.596 Sum_probs=14.3
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.++||-+|||||||..
T Consensus 34 ~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 34 RPVLLVGPSGTGKTSL 49 (272)
T ss_dssp EEEEEESSTTSSHHHH
T ss_pred CcEEEECCCCCchhHH
Confidence 4799999999999974
No 220
>PF03226 Yippee-Mis18: Yippee zinc-binding/DNA-binding /Mis18, centromere assembly; InterPro: IPR004910 This entry represents the Yippee-like (YPEL) family of putative zinc-binding proteins which is highly conserved among eukaryotes. The first protein in this family to be characterised, the Yippee protein from Drosophila, was identified by yeast interaction trap screen as a protein that physically interacts with moth hemolin []. It was subsequently found to be a member of a highly conserved family of proteins found in diverse eukaryotes including plants, animals and fungi []. Mammals contain five members of this family, YPEL1 to YPEL5, while other organisms tend to contain only two or three members. The mammalian proteins all appear to localise in the nucleus. YPEL1-4 are located in an unknown structure located on or close to the mitotic apparatus in the mitotic phase, whereas in the interphase they are located in the nuclei and nucleoli. In contrast, YPEL5 is localised to the centrosome and nucleus during interphase and at the mitotic spindle during mitosis, suggesting a function distinct from that of YPEL1-4. The localisation of the YPEL proteins suggests a novel, thopugh still unknown, function involved in cell division.
Probab=56.28 E-value=2.4 Score=41.01 Aligned_cols=40 Identities=18% Similarity=0.256 Sum_probs=30.7
Q ss_pred eeeecccccCCCCCCCceeeEEEeecchhHHHHHhhhhhcccc
Q 000814 1162 CVYNTLFCPFCSSPSNCLGVQIVASNALNFQLLNKILFYLDRL 1204 (1269)
Q Consensus 1162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1204 (1269)
|.|..++|..| ++-||.....|.......-+|.+|..+.+
T Consensus 53 ~~~~~l~C~~C---~~~lGwkY~~a~~~~~~k~g~file~~~i 92 (96)
T PF03226_consen 53 HTVRDLFCSGC---NTILGWKYESAPEEQKYKEGKFILEKASI 92 (96)
T ss_pred EEEEEeEcccC---ChhHCcEEEEcCHhHhhhCCEEEEEhhHE
Confidence 99999999988 55899999999888444455666655544
No 221
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=56.10 E-value=40 Score=40.98 Aligned_cols=40 Identities=15% Similarity=0.246 Sum_probs=26.5
Q ss_pred ccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHH
Q 000814 257 DDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIED 297 (1269)
Q Consensus 257 ~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed 297 (1269)
...||||++..-|++-.....+.+ -.-.+|||||||.+.+
T Consensus 132 ~~~~IlV~TP~~l~~~l~~~~~~l-~~v~~lViDEad~l~~ 171 (423)
T PRK04837 132 SGVDILIGTTGRLIDYAKQNHINL-GAIQVVVLDEADRMFD 171 (423)
T ss_pred CCCCEEEECHHHHHHHHHcCCccc-ccccEEEEecHHHHhh
Confidence 457999999887765542222211 1347899999998654
No 222
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=56.10 E-value=29 Score=38.88 Aligned_cols=15 Identities=40% Similarity=0.510 Sum_probs=13.6
Q ss_pred eEEEECCCCCchhHH
Q 000814 56 HALLESPTGTGKSLS 70 (1269)
Q Consensus 56 ~~LlESPTGTGKTLa 70 (1269)
..++.+|+|||||.-
T Consensus 26 ~~~i~G~~G~GKTtl 40 (230)
T PRK08533 26 LILIEGDESTGKSIL 40 (230)
T ss_pred EEEEECCCCCCHHHH
Confidence 689999999999974
No 223
>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=56.09 E-value=12 Score=42.95 Aligned_cols=24 Identities=38% Similarity=0.505 Sum_probs=17.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
..+++-+|||+|||-.+ .+.|.+.
T Consensus 81 GlilisG~tGSGKTT~l-~all~~i 104 (264)
T cd01129 81 GIILVTGPTGSGKTTTL-YSALSEL 104 (264)
T ss_pred CEEEEECCCCCcHHHHH-HHHHhhh
Confidence 36899999999999654 4445543
No 224
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=55.68 E-value=18 Score=41.33 Aligned_cols=22 Identities=27% Similarity=0.412 Sum_probs=17.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+++|=+|+|||||. |+.|++.
T Consensus 106 ~nl~l~G~~G~GKTh--La~Ai~~ 127 (254)
T COG1484 106 ENLVLLGPPGVGKTH--LAIAIGN 127 (254)
T ss_pred CcEEEECCCCCcHHH--HHHHHHH
Confidence 379999999999996 5666653
No 225
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=55.61 E-value=8.3 Score=45.91 Aligned_cols=19 Identities=53% Similarity=0.830 Sum_probs=15.5
Q ss_pred EEEECCCCCchhHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALa 77 (1269)
+||-+|.|||||| |+-|.|
T Consensus 188 VLLYGPPGTGKTL--LAkAVA 206 (406)
T COG1222 188 VLLYGPPGTGKTL--LAKAVA 206 (406)
T ss_pred eEeeCCCCCcHHH--HHHHHH
Confidence 7999999999997 455555
No 226
>PRK06921 hypothetical protein; Provisional
Probab=55.52 E-value=22 Score=40.82 Aligned_cols=16 Identities=25% Similarity=0.270 Sum_probs=13.8
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
..++|-+|||||||.-
T Consensus 118 ~~l~l~G~~G~GKThL 133 (266)
T PRK06921 118 NSIALLGQPGSGKTHL 133 (266)
T ss_pred CeEEEECCCCCcHHHH
Confidence 3689999999999973
No 227
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=55.42 E-value=41 Score=43.64 Aligned_cols=43 Identities=26% Similarity=0.485 Sum_probs=34.9
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 25 VEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 25 v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.=||+|.+.|......+.+.+..+ ....++-+.||+|||+.+
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~----~~~~ll~Gl~gs~ka~li 49 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAG----EKHQTLLGVTGSGKTFTM 49 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcC----CCcEEEEcCCCcHHHHHH
Confidence 4557999999999999999999653 224579999999999864
No 228
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=55.29 E-value=19 Score=43.00 Aligned_cols=19 Identities=32% Similarity=0.518 Sum_probs=15.5
Q ss_pred ceEEEECCCCCchhHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~ 73 (1269)
.++++-+|+|||||..+-.
T Consensus 56 ~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred CeEEEECCCCCCHHHHHHH
Confidence 3689999999999986533
No 229
>PRK13342 recombination factor protein RarA; Reviewed
Probab=55.11 E-value=9.7 Score=46.32 Aligned_cols=36 Identities=19% Similarity=0.244 Sum_probs=27.0
Q ss_pred CHHHHHHHHH---HHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 32 YGSQLVFMCR---VISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 32 Yp~Q~e~M~~---V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+-+|.+++.. +...++.+. ..++||-+|+|||||..
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~---~~~ilL~GppGtGKTtL 52 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGR---LSSMILWGPPGTGKTTL 52 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCC---CceEEEECCCCCCHHHH
Confidence 4568888666 777787542 23789999999999953
No 230
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=54.83 E-value=32 Score=41.01 Aligned_cols=41 Identities=17% Similarity=0.255 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
++|-|.|..-+-+|.+ | . ..|=-|-||+|||.|+-.|-|.-
T Consensus 28 ~~pTpiQ~~cIpkILe----G----r-dcig~AkTGsGKT~AFaLPil~r 68 (442)
T KOG0340|consen 28 KKPTPIQQACIPKILE----G----R-DCIGCAKTGSGKTAAFALPILNR 68 (442)
T ss_pred CCCCchHhhhhHHHhc----c----c-ccccccccCCCcchhhhHHHHHh
Confidence 5788999976654443 3 2 35668999999999998887753
No 231
>PRK10436 hypothetical protein; Provisional
Probab=54.68 E-value=12 Score=46.39 Aligned_cols=24 Identities=38% Similarity=0.583 Sum_probs=19.8
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
.+|+-+|||+|||-.+ .++|.++.
T Consensus 220 liLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 220 LILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred eEEEECCCCCChHHHH-HHHHHhhC
Confidence 6899999999999765 77787753
No 232
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=54.51 E-value=23 Score=46.71 Aligned_cols=48 Identities=17% Similarity=0.261 Sum_probs=36.8
Q ss_pred eCCeeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 20 VGGIQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 20 i~Gi~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
|......|||++=.-|++.+. +|++| . -+++-|+|-.|||+..=+|+.
T Consensus 287 Vpe~a~~~pFelD~FQk~Ai~----~lerg----~-SVFVAAHTSAGKTvVAEYAia 334 (1248)
T KOG0947|consen 287 VPEMALIYPFELDTFQKEAIY----HLERG----D-SVFVAAHTSAGKTVVAEYAIA 334 (1248)
T ss_pred chhHHhhCCCCccHHHHHHHH----HHHcC----C-eEEEEecCCCCcchHHHHHHH
Confidence 444578899999888998554 77765 2 589999999999997755533
No 233
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=54.46 E-value=11 Score=50.29 Aligned_cols=50 Identities=32% Similarity=0.494 Sum_probs=37.7
Q ss_pred eeeCCeeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 18 YHVGGIQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 18 f~i~Gi~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+...|-++.+...||+.|+- ..+ +|.+ | -|.|+.||=||||+.-.|+..-
T Consensus 126 ~~~~g~~~~wdm~~ydVQLi--Ggi--vLh~----G---~IAEM~TGEGKTLvatlp~yLn 175 (1025)
T PRK12900 126 YQVMGREMTWDMVPYDVQLI--GGI--VLHS----G---KISEMATGEGKTLVSTLPTFLN 175 (1025)
T ss_pred ccccccccccCccccchHHh--hhH--Hhhc----C---CccccCCCCCcchHhHHHHHHH
Confidence 77889999999999999984 322 3333 3 2899999999999866665443
No 234
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=54.44 E-value=11 Score=49.97 Aligned_cols=29 Identities=17% Similarity=0.381 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
...+|.+++.+. .++|+.+|||.|||-.+
T Consensus 54 ~~~~i~~ai~~~-----~vvii~getGsGKTTql 82 (845)
T COG1643 54 VRDEILKAIEQN-----QVVIIVGETGSGKTTQL 82 (845)
T ss_pred HHHHHHHHHHhC-----CEEEEeCCCCCChHHHH
Confidence 345667788875 38999999999999654
No 235
>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=54.08 E-value=12 Score=40.24 Aligned_cols=22 Identities=41% Similarity=0.590 Sum_probs=16.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+++|=+|||+|||. |+-+|+-
T Consensus 4 ~~~ll~GpsGvGKT~--la~~la~ 25 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE--LAKALAE 25 (171)
T ss_dssp EEEEEESSTTSSHHH--HHHHHHH
T ss_pred EEEEEECCCCCCHHH--HHHHHHH
Confidence 478999999999995 4445543
No 236
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.03 E-value=14 Score=46.62 Aligned_cols=36 Identities=22% Similarity=0.297 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLL 72 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL 72 (1269)
+|...+..+..++..+. -.|+ ||.+|.|+|||....
T Consensus 20 Gq~~v~~~L~~~i~~~~---~~ha~Lf~Gp~G~GKTt~A~ 56 (527)
T PRK14969 20 GQEHVVRALTNALEQQR---LHHAYLFTGTRGVGKTTLAR 56 (527)
T ss_pred CcHHHHHHHHHHHHcCC---CCEEEEEECCCCCCHHHHHH
Confidence 78888888888887642 2366 899999999996443
No 237
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=53.58 E-value=16 Score=42.01 Aligned_cols=20 Identities=35% Similarity=0.534 Sum_probs=16.2
Q ss_pred ce-EEEECCCCCchhHHHHHH
Q 000814 55 CH-ALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 55 ~~-~LlESPTGTGKTLalL~~ 74 (1269)
.| .||.+|.|||||.+.++-
T Consensus 24 ~halL~~Gp~G~Gktt~a~~l 44 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALAL 44 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHH
Confidence 47 899999999999765444
No 238
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=53.48 E-value=9.5 Score=45.61 Aligned_cols=43 Identities=23% Similarity=0.308 Sum_probs=33.9
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
...|||.---+|.++...++.++-.- +-| .+|+.+|+|||||.
T Consensus 11 ~~~~pf~~ivGq~~~k~al~~~~~~p-~~~--~vli~G~~GtGKs~ 53 (350)
T CHL00081 11 RPVFPFTAIVGQEEMKLALILNVIDP-KIG--GVMIMGDRGTGKST 53 (350)
T ss_pred CCCCCHHHHhChHHHHHHHHHhccCC-CCC--eEEEEcCCCCCHHH
Confidence 34788887789999999888886542 223 57899999999996
No 239
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=53.15 E-value=14 Score=45.71 Aligned_cols=33 Identities=24% Similarity=0.506 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 39 MCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 39 M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
...+..+|..+ ++++|.+|+|||||.. +-.|+.
T Consensus 184 le~l~~~L~~~-----~~iil~GppGtGKT~l--A~~la~ 216 (459)
T PRK11331 184 IETILKRLTIK-----KNIILQGPPGVGKTFV--ARRLAY 216 (459)
T ss_pred HHHHHHHHhcC-----CCEEEECCCCCCHHHH--HHHHHH
Confidence 34556666643 4899999999999953 344543
No 240
>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=53.08 E-value=16 Score=48.76 Aligned_cols=46 Identities=26% Similarity=0.203 Sum_probs=33.4
Q ss_pred CHHHHHHHHHHHHHHHhhhcC----C--cceEEEECCCCCchhHHHHHHHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRD----G--HCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~----G--~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.-+|-+.|..|..++.+.... + ..+.+|.+|||||||. |+-+|+..
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~--lA~~La~~ 618 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE--LAKALAEF 618 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHH--HHHHHHHH
Confidence 468999999999999874210 0 1257899999999995 55666643
No 241
>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=52.90 E-value=12 Score=47.17 Aligned_cols=36 Identities=19% Similarity=0.207 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
.-+|.+.|..+..++... . ..|+||.+|+|||||.+
T Consensus 67 iiGqs~~i~~l~~al~~~--~-~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 67 IIGQEEGIKALKAALCGP--N-PQHVIIYGPPGVGKTAA 102 (531)
T ss_pred eeCcHHHHHHHHHHHhCC--C-CceEEEECCCCCCHHHH
Confidence 347889999998876542 1 24799999999999973
No 242
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=52.69 E-value=10 Score=43.95 Aligned_cols=25 Identities=32% Similarity=0.448 Sum_probs=22.4
Q ss_pred CCeEEEeccchhhHHHHHHHHHhcC
Q 000814 143 TPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 143 ~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
..||+|+||||+|+.|++.|||+..
T Consensus 61 ~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00489 61 KIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred ccceeEEeccHHHHHHHHHHHHhcc
Confidence 3589999999999999999999863
No 243
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=52.69 E-value=10 Score=43.95 Aligned_cols=25 Identities=32% Similarity=0.448 Sum_probs=22.4
Q ss_pred CCeEEEeccchhhHHHHHHHHHhcC
Q 000814 143 TPTIFYASRTHSQISQVISEYKKTA 167 (1269)
Q Consensus 143 ~pKIiYaSRTHSQLsQvIrELRk~~ 167 (1269)
..||+|+||||+|+.|++.|||+..
T Consensus 61 ~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00488 61 KIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred ccceeEEeccHHHHHHHHHHHHhcc
Confidence 3589999999999999999999863
No 244
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.69 E-value=15 Score=45.63 Aligned_cols=36 Identities=25% Similarity=0.306 Sum_probs=26.9
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLS 70 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLa 70 (1269)
.-+|.+....+..++.++. - .| .||.+|+|||||..
T Consensus 16 ivGq~~i~~~L~~~i~~~~-l--~~~~Lf~GPpGtGKTTl 52 (472)
T PRK14962 16 VVGQDHVKKLIINALKKNS-I--SHAYIFAGPRGTGKTTV 52 (472)
T ss_pred ccCcHHHHHHHHHHHHcCC-C--CeEEEEECCCCCCHHHH
Confidence 3478888888888887652 1 24 58999999999954
No 245
>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=52.27 E-value=20 Score=41.29 Aligned_cols=43 Identities=30% Similarity=0.380 Sum_probs=27.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 26 EFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 26 ~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+.+.||+.|+--.- +|.+ | -|+|.-||=|||+....+|...+
T Consensus 73 ~~g~~p~~vQll~~l----~L~~----G---~laEm~TGEGKTli~~l~a~~~A 115 (266)
T PF07517_consen 73 TLGLRPYDVQLLGAL----ALHK----G---RLAEMKTGEGKTLIAALPAALNA 115 (266)
T ss_dssp HTS----HHHHHHHH----HHHT----T---SEEEESTTSHHHHHHHHHHHHHH
T ss_pred HcCCcccHHHHhhhh----hccc----c---eeEEecCCCCcHHHHHHHHHHHH
Confidence 345789999986443 2333 3 39999999999998877765443
No 246
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=52.05 E-value=22 Score=42.08 Aligned_cols=44 Identities=23% Similarity=0.178 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~~AL 76 (1269)
..||-|......+..+++++. -.| .||.+|.|+||+...++-|-
T Consensus 4 ~~yPW~~~~~~~l~~~~~~~r---l~HA~Lf~Gp~G~GK~~lA~~lA~ 48 (319)
T PRK08769 4 AFSPWQQRAYDQTVAALDAGR---LGHGLLICGPEGLGKRAVALALAE 48 (319)
T ss_pred cccccHHHHHHHHHHHHHcCC---cceeEeeECCCCCCHHHHHHHHHH
Confidence 368999999999999998753 235 57899999999975554433
No 247
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=51.77 E-value=11 Score=45.91 Aligned_cols=23 Identities=52% Similarity=0.739 Sum_probs=18.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.++||=+|||+|||| |.-+||-.
T Consensus 227 SNvLllGPtGsGKTl--laqTLAr~ 249 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTL--LAQTLARV 249 (564)
T ss_pred ccEEEECCCCCchhH--HHHHHHHH
Confidence 589999999999997 66677643
No 248
>PRK08939 primosomal protein DnaI; Reviewed
Probab=51.65 E-value=33 Score=40.35 Aligned_cols=41 Identities=22% Similarity=0.203 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHhhhc--CCcceEEEECCCCCchhHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQR--DGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~--~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.+.+++..+.+-+++... .+ ..++|-+|+|||||. |+.|++
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~-~gl~L~G~~G~GKTh--La~Aia 177 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKV-KGLYLYGDFGVGKSY--LLAAIA 177 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCC-CeEEEECCCCCCHHH--HHHHHH
Confidence 455555555555543211 22 368999999999996 444444
No 249
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.62 E-value=17 Score=45.14 Aligned_cols=35 Identities=20% Similarity=0.217 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLa 70 (1269)
-+|...+..+..++..+. - .| .||.+|.|||||-.
T Consensus 21 VGQe~iv~~L~~~i~~~r-i--~ha~Lf~GP~GtGKTTl 56 (484)
T PRK14956 21 IHQDLAIGALQNALKSGK-I--GHAYIFFGPRGVGKTTI 56 (484)
T ss_pred hChHHHHHHHHHHHHcCC-C--CeEEEEECCCCCCHHHH
Confidence 479988888888887652 2 24 59999999999953
No 250
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=51.37 E-value=14 Score=49.46 Aligned_cols=52 Identities=29% Similarity=0.466 Sum_probs=37.9
Q ss_pred CCceeeCCeeecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 15 LNAYHVGGIQVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 15 ~~~f~i~Gi~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
++.+...|-.+.+-..||+.|+- ..+ +|.+ | -|.|+.||=||||+.-.|+..
T Consensus 154 ~~~w~~~g~~~~W~m~~yDVQli--Ggi--vLh~----G---~IAEM~TGEGKTLvAtlp~yL 205 (1112)
T PRK12901 154 KNHWDAGGNEITWDMVHYDVQLI--GGV--VLHQ----G---KIAEMATGEGKTLVATLPVYL 205 (1112)
T ss_pred hcccccccccccCCCcccchHHh--hhh--hhcC----C---ceeeecCCCCchhHHHHHHHH
Confidence 45677888888888899999983 322 3433 3 299999999999976666543
No 251
>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=51.36 E-value=40 Score=37.75 Aligned_cols=20 Identities=35% Similarity=0.496 Sum_probs=15.5
Q ss_pred hhcCCcceEEEECCCCCchhH
Q 000814 49 AQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 49 ~~~~G~~~~LlESPTGTGKTL 69 (1269)
|-..|. ..++.+|+|+|||.
T Consensus 17 G~~~gs-~~lI~G~pGsGKT~ 36 (237)
T TIGR03877 17 GIPERN-VVLLSGGPGTGKSI 36 (237)
T ss_pred CCcCCe-EEEEEcCCCCCHHH
Confidence 333443 68999999999996
No 252
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=51.35 E-value=13 Score=45.81 Aligned_cols=32 Identities=31% Similarity=0.384 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+|.+-=+.+.-+.. -|| |+|+.+|.|||||+.
T Consensus 183 GQ~~AKrAleiAAA----GgH-nLl~~GpPGtGKTml 214 (490)
T COG0606 183 GQEQAKRALEIAAA----GGH-NLLLVGPPGTGKTML 214 (490)
T ss_pred CcHHHHHHHHHHHh----cCC-cEEEecCCCCchHHh
Confidence 56654444444443 244 899999999999983
No 253
>PHA00729 NTP-binding motif containing protein
Probab=51.34 E-value=22 Score=40.12 Aligned_cols=36 Identities=19% Similarity=0.379 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
++.++.+.+.++ |..++++-+|+|||||- |+-+|+.
T Consensus 4 ~~k~~~~~l~~~---~f~nIlItG~pGvGKT~--LA~aLa~ 39 (226)
T PHA00729 4 LAKKIVSAYNNN---GFVSAVIFGKQGSGKTT--YALKVAR 39 (226)
T ss_pred HHHHHHHHHhcC---CeEEEEEECCCCCCHHH--HHHHHHH
Confidence 456677777654 34578999999999995 4444543
No 254
>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=51.28 E-value=13 Score=36.40 Aligned_cols=20 Identities=50% Similarity=0.723 Sum_probs=15.2
Q ss_pred EEEECCCCCchhHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw 78 (1269)
+||.+|.|||||. |+-+++.
T Consensus 1 ill~G~~G~GKT~--l~~~la~ 20 (132)
T PF00004_consen 1 ILLHGPPGTGKTT--LARALAQ 20 (132)
T ss_dssp EEEESSTTSSHHH--HHHHHHH
T ss_pred CEEECcCCCCeeH--HHHHHHh
Confidence 4889999999996 4555554
No 255
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=51.18 E-value=14 Score=48.94 Aligned_cols=40 Identities=25% Similarity=0.363 Sum_probs=28.2
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
..||+.|+- ..+ +|.+ | -|.|+.||-||||+...||...+
T Consensus 84 ~r~ydVQli--Ggl--~Lh~----G---~IAEM~TGEGKTL~atlpaylnA 123 (939)
T PRK12902 84 MRHFDVQLI--GGM--VLHE----G---QIAEMKTGEGKTLVATLPSYLNA 123 (939)
T ss_pred CCcchhHHH--hhh--hhcC----C---ceeeecCCCChhHHHHHHHHHHh
Confidence 568999984 322 3333 3 39999999999998777766533
No 256
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.73 E-value=17 Score=46.95 Aligned_cols=37 Identities=27% Similarity=0.250 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLL 72 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL 72 (1269)
-+|....+.+..++.++. - .|+ ||.+|.|||||-...
T Consensus 18 IGQe~vv~~L~~aI~~gr-l--~HAyLF~GPpGvGKTTlAr 55 (702)
T PRK14960 18 VGQNHVSRALSSALERGR-L--HHAYLFTGTRGVGKTTIAR 55 (702)
T ss_pred cCcHHHHHHHHHHHHcCC-C--CeEEEEECCCCCCHHHHHH
Confidence 378888888888887652 1 255 999999999996443
No 257
>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=50.59 E-value=13 Score=51.37 Aligned_cols=31 Identities=13% Similarity=0.289 Sum_probs=23.7
Q ss_pred HHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 40 CRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 40 ~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
..|.++|+.. .++|+.||||+|||-- .|-+.
T Consensus 73 ~~Il~~l~~~-----~vvii~g~TGSGKTTq--lPq~l 103 (1283)
T TIGR01967 73 EDIAEAIAEN-----QVVIIAGETGSGKTTQ--LPKIC 103 (1283)
T ss_pred HHHHHHHHhC-----ceEEEeCCCCCCcHHH--HHHHH
Confidence 5777888764 3899999999999984 35443
No 258
>CHL00181 cbbX CbbX; Provisional
Probab=50.25 E-value=12 Score=43.33 Aligned_cols=16 Identities=31% Similarity=0.478 Sum_probs=14.0
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
|+||-+|+|||||...
T Consensus 61 ~ill~G~pGtGKT~lA 76 (287)
T CHL00181 61 HMSFTGSPGTGKTTVA 76 (287)
T ss_pred eEEEECCCCCCHHHHH
Confidence 6899999999999743
No 259
>PRK07952 DNA replication protein DnaC; Validated
Probab=50.18 E-value=33 Score=39.06 Aligned_cols=37 Identities=14% Similarity=0.196 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+.|......+.+.++.- ..+...++|-+|+|||||.-
T Consensus 79 ~~q~~al~~a~~~~~~~-~~~~~~~~l~G~~GtGKThL 115 (244)
T PRK07952 79 EGQMNALSKARQYVEEF-DGNIASFIFSGKPGTGKNHL 115 (244)
T ss_pred chHHHHHHHHHHHHHhh-ccCCceEEEECCCCCCHHHH
Confidence 35665555555444332 12223689999999999973
No 260
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.39 E-value=18 Score=46.57 Aligned_cols=36 Identities=17% Similarity=0.205 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLal 71 (1269)
-+|......+..++.++. - .| .||.+|.|+|||...
T Consensus 19 vGQe~i~~~L~~~i~~~r-i--~ha~Lf~Gp~GvGKttlA 55 (620)
T PRK14954 19 TAQEHITHTIQNSLRMDR-V--GHGYIFSGLRGVGKTTAA 55 (620)
T ss_pred cCcHHHHHHHHHHHHcCC-C--CeeEEEECCCCCCHHHHH
Confidence 379988888888887642 2 24 679999999999644
No 261
>CHL00095 clpC Clp protease ATP binding subunit
Probab=49.29 E-value=21 Score=47.49 Aligned_cols=45 Identities=29% Similarity=0.287 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHhhhc----CCc--ceEEEECCCCCchhHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQR----DGH--CHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~----~G~--~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
-+|.+.+..|..++..... .++ ...||-+|||+|||. |+-+|+..
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~--lA~~LA~~ 562 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTE--LTKALASY 562 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHH--HHHHHHHH
Confidence 5899999999999875421 111 146899999999994 56666643
No 262
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=49.28 E-value=13 Score=48.87 Aligned_cols=37 Identities=27% Similarity=0.389 Sum_probs=26.7
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
..||+.|+--. + +|.. | -|.|+.||-||||+...||.
T Consensus 75 ~r~ydvQlig~--l--~L~~----G---~IaEm~TGEGKTL~a~l~ay 111 (870)
T CHL00122 75 LRHFDVQLIGG--L--VLND----G---KIAEMKTGEGKTLVATLPAY 111 (870)
T ss_pred CCCCchHhhhh--H--hhcC----C---ccccccCCCCchHHHHHHHH
Confidence 56899998432 2 2332 3 39999999999998777764
No 263
>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=49.02 E-value=26 Score=43.76 Aligned_cols=46 Identities=24% Similarity=0.264 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHHHHHhhh------cCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQ------RDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~------~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-.+.+++-+..+++.+.... ..-...+||.+|+|||||+ |+-+++.
T Consensus 59 g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~--la~alA~ 110 (495)
T TIGR01241 59 GIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTL--LAKAVAG 110 (495)
T ss_pred CHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHH--HHHHHHH
Confidence 34555555556666554311 0111258999999999997 5666654
No 264
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=48.91 E-value=23 Score=44.42 Aligned_cols=53 Identities=21% Similarity=0.236 Sum_probs=34.6
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
-.||+| ..-+++|||+++ ++.||.-..- ..+....|.+||+=|.... |..+++
T Consensus 419 ~~ILVa--Tdvl~rGiDip~--v~~VI~~d~P-------------------~s~~~yihRiGRaGR~g~~-G~ai~f 471 (518)
T PLN00206 419 VPVIVA--TGVLGRGVDLLR--VRQVIIFDMP-------------------NTIKEYIHQIGRASRMGEK-GTAIVF 471 (518)
T ss_pred CCEEEE--ecHhhccCCccc--CCEEEEeCCC-------------------CCHHHHHHhccccccCCCC-eEEEEE
Confidence 345554 789999999986 6677752110 1123456999999998654 555444
No 265
>PRK06526 transposase; Provisional
Probab=48.87 E-value=17 Score=41.53 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=14.1
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.+++|-+|+|||||-.
T Consensus 99 ~nlll~Gp~GtGKThL 114 (254)
T PRK06526 99 ENVVFLGPPGTGKTHL 114 (254)
T ss_pred ceEEEEeCCCCchHHH
Confidence 4799999999999963
No 266
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=48.87 E-value=7.2 Score=46.53 Aligned_cols=43 Identities=23% Similarity=0.478 Sum_probs=31.9
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
|-| +|=..|.. +|.-++. | .+++..+.+|||||.+++.++|.-
T Consensus 44 yGFekPSaIQqr---aI~p~i~-----G-~dv~~qaqsgTgKt~af~i~iLq~ 87 (397)
T KOG0327|consen 44 YGFEKPSAIQQR---AILPCIK-----G-HDVIAQAQSGTGKTAAFLISILQQ 87 (397)
T ss_pred hccCCchHHHhc---ccccccc-----C-CceeEeeeccccchhhhHHHHHhh
Confidence 446 47778886 3444553 3 379999999999999988888764
No 267
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.79 E-value=18 Score=46.16 Aligned_cols=40 Identities=20% Similarity=0.254 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~ 74 (1269)
.-+|...+..+..++..+. -+ |+ ||.+|.|+|||....+-
T Consensus 18 iiGq~~~~~~L~~~i~~~~-i~--~a~Lf~Gp~G~GKTtlA~~l 58 (585)
T PRK14950 18 LVGQEHVVQTLRNAIAEGR-VA--HAYLFTGPRGVGKTSTARIL 58 (585)
T ss_pred hcCCHHHHHHHHHHHHhCC-Cc--eEEEEECCCCCCHHHHHHHH
Confidence 3479999988888888652 22 44 89999999999755433
No 268
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=48.31 E-value=7.3 Score=45.50 Aligned_cols=40 Identities=23% Similarity=0.490 Sum_probs=26.0
Q ss_pred cCcEEEecccccccHh-------hh-----hhhccCCCccEEEecccccHHHH
Q 000814 258 DAQLVFCPYSYIINPV-------IR-----GAMEVDIKGAILILDEAHNIEDI 298 (1269)
Q Consensus 258 ~ADIVV~nYnyLld~~-------iR-----~~l~i~l~~~ivIfDEAHNLed~ 298 (1269)
...||+++|+-|.... .| ...+.+. +.+|||||+|+.-..
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~df-dgvivfDEcH~akn~ 187 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDF-DGVIVFDECHKAKNL 187 (303)
T ss_pred CCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCC-CceEEeccchhcCCC
Confidence 4568888888887663 12 1223333 458999999986554
No 269
>PRK08116 hypothetical protein; Validated
Probab=48.19 E-value=34 Score=39.38 Aligned_cols=20 Identities=40% Similarity=0.544 Sum_probs=15.2
Q ss_pred eEEEECCCCCchhHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALa 77 (1269)
.++|-+|+|||||. |+.|++
T Consensus 116 gl~l~G~~GtGKTh--La~aia 135 (268)
T PRK08116 116 GLLLWGSVGTGKTY--LAACIA 135 (268)
T ss_pred eEEEECCCCCCHHH--HHHHHH
Confidence 38999999999996 444443
No 270
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=48.08 E-value=24 Score=42.17 Aligned_cols=37 Identities=22% Similarity=0.324 Sum_probs=27.2
Q ss_pred CHHHH---HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 32 YGSQL---VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 32 Yp~Q~---e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.-+|. +.|.-|.+-++++..-|+ -+|+-+|+|||||.
T Consensus 41 ~VGQ~~AReAaGvIv~mik~gk~aGr-giLi~GppgTGKTA 80 (450)
T COG1224 41 LVGQEEAREAAGVIVKMIKQGKMAGR-GILIVGPPGTGKTA 80 (450)
T ss_pred ccchHHHHHhhhHHHHHHHhCccccc-EEEEECCCCCcHHH
Confidence 44565 455566777888766676 47899999999994
No 271
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.91 E-value=19 Score=47.81 Aligned_cols=36 Identities=22% Similarity=0.271 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLL 72 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL 72 (1269)
+|......+..++..++ - .|+ ||.+|.|||||....
T Consensus 20 GQe~Iv~~LknaI~~~r-l--~HAyLFtGPpGtGKTTLAR 56 (944)
T PRK14949 20 GQSHVLHALTNALTQQR-L--HHAYLFTGTRGVGKTSLAR 56 (944)
T ss_pred CcHHHHHHHHHHHHhCC-C--CeEEEEECCCCCCHHHHHH
Confidence 78888888888887642 2 366 899999999996543
No 272
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=47.65 E-value=21 Score=44.89 Aligned_cols=39 Identities=23% Similarity=0.114 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
-+|..+...+..++.++. -. .+.||.+|.|||||-...+
T Consensus 24 iGq~~vv~~L~~ai~~~r-i~-~a~Lf~Gp~G~GKTT~Ari 62 (507)
T PRK06645 24 QGQEVLVKVLSYTILNDR-LA-GGYLLTGIRGVGKTTSARI 62 (507)
T ss_pred cCcHHHHHHHHHHHHcCC-CC-ceEEEECCCCCCHHHHHHH
Confidence 379999988888887642 21 2578999999999965433
No 273
>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=47.06 E-value=24 Score=47.17 Aligned_cols=45 Identities=22% Similarity=0.150 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHhhh---c-CCc--ceEEEECCCCCchhHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQ---R-DGH--CHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~---~-~G~--~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
-+|-+.+..|.+++.... . .++ .+++|-+|||+|||. |+-+|+-.
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~--lA~~La~~ 619 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE--TALALAEL 619 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH--HHHHHHHH
Confidence 478889999999986531 0 112 247999999999996 45556543
No 274
>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=46.64 E-value=17 Score=46.18 Aligned_cols=23 Identities=39% Similarity=0.642 Sum_probs=19.3
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+|+-+|||+|||-.+ +++|.++
T Consensus 318 lilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 318 MVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred eEEEECCCCCCHHHHH-HHHHHhh
Confidence 6899999999999764 7777765
No 275
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=46.47 E-value=19 Score=49.77 Aligned_cols=30 Identities=13% Similarity=0.315 Sum_probs=22.4
Q ss_pred HHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 40 CRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 40 ~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
..|..+|... .++++.|+||+|||.. .|.+
T Consensus 80 ~~Il~ai~~~-----~VviI~GeTGSGKTTq--lPq~ 109 (1294)
T PRK11131 80 QDILEAIRDH-----QVVIVAGETGSGKTTQ--LPKI 109 (1294)
T ss_pred HHHHHHHHhC-----CeEEEECCCCCCHHHH--HHHH
Confidence 4566777653 4899999999999984 4533
No 276
>PRK10865 protein disaggregation chaperone; Provisional
Probab=46.20 E-value=23 Score=47.35 Aligned_cols=45 Identities=27% Similarity=0.304 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHHHHHHHhhhc----CCc--ceEEEECCCCCchhHHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQR----DGH--CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~----~G~--~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-.-+|-+.|..|..++..... .++ .+.+|.+|||||||.. +-+|+
T Consensus 569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~l--A~aLa 619 (857)
T PRK10865 569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL--CKALA 619 (857)
T ss_pred eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHH--HHHHH
Confidence 345899999999999986420 011 2579999999999973 44444
No 277
>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=46.02 E-value=8.4 Score=47.35 Aligned_cols=22 Identities=41% Similarity=0.703 Sum_probs=20.3
Q ss_pred eEEEECCCCCchhHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALa 77 (1269)
|+++-||||+|||-+++.|.|.
T Consensus 46 h~lvig~tgSGKt~~~viP~ll 67 (469)
T PF02534_consen 46 HVLVIGPTGSGKTTSFVIPNLL 67 (469)
T ss_pred EEEEEeCCCCCccceeeHhHHH
Confidence 8999999999999999999773
No 278
>CHL00176 ftsH cell division protein; Validated
Probab=45.83 E-value=31 Score=44.63 Aligned_cols=46 Identities=30% Similarity=0.322 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHHHHHhhhc------CCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQR------DGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~------~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-++.+++-+..+.+.+....+ .-...+||.+|+|||||+ |+-+++.
T Consensus 187 G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA~ 238 (638)
T CHL00176 187 GIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIAG 238 (638)
T ss_pred ChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHHH
Confidence 356666667777777665432 001258999999999997 4566654
No 279
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=45.82 E-value=21 Score=46.47 Aligned_cols=38 Identities=24% Similarity=0.276 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~ 73 (1269)
-+|......+..++..++ -.|+ ||.+|.|+|||.....
T Consensus 21 iGQe~~v~~L~~aI~~~r---l~HAYLF~GP~GtGKTt~Ari 59 (725)
T PRK07133 21 VGQDHIVQTLKNIIKSNK---ISHAYLFSGPRGTGKTSVAKI 59 (725)
T ss_pred cCcHHHHHHHHHHHHcCC---CCeEEEEECCCCCcHHHHHHH
Confidence 378888888888888652 2365 8999999999965433
No 280
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.76 E-value=22 Score=45.78 Aligned_cols=35 Identities=23% Similarity=0.307 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
+|......+..++.+++ -.|+ ||.+|.|||||...
T Consensus 20 GQe~vv~~L~~al~~gR---LpHA~LFtGP~GvGKTTLA 55 (700)
T PRK12323 20 GQEHVVRALTHALEQQR---LHHAYLFTGTRGVGKTTLS 55 (700)
T ss_pred CcHHHHHHHHHHHHhCC---CceEEEEECCCCCCHHHHH
Confidence 79999999999998763 2355 89999999999643
No 281
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=45.64 E-value=26 Score=46.21 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHhhhc----CC--cceEEEECCCCCchhHH
Q 000814 34 SQLVFMCRVISTLDRAQR----DG--HCHALLESPTGTGKSLS 70 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~----~G--~~~~LlESPTGTGKTLa 70 (1269)
+|-+.+..|..++..... .+ ..++||.+|||+|||..
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~l 504 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEV 504 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHH
Confidence 688889999999875310 01 12579999999999964
No 282
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=45.44 E-value=8.7 Score=49.61 Aligned_cols=24 Identities=38% Similarity=0.504 Sum_probs=21.6
Q ss_pred cceEEEECCCCCchhHHHHHHHHH
Q 000814 54 HCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 54 ~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
..|+++-||||+|||.++..|.|.
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHH
Confidence 348999999999999999999875
No 283
>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=44.87 E-value=22 Score=41.80 Aligned_cols=38 Identities=18% Similarity=0.188 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
.-+|.+.+..+...+.+++ -+ ...||.+|.|+|||...
T Consensus 16 iig~~~~~~~l~~~~~~~~-~~-~~~Ll~G~~G~GKt~~a 53 (355)
T TIGR02397 16 VIGQEHIVQTLKNAIKNGR-IA-HAYLFSGPRGTGKTSIA 53 (355)
T ss_pred ccCcHHHHHHHHHHHHcCC-CC-eEEEEECCCCCCHHHHH
Confidence 3478888888888887653 11 13589999999999544
No 284
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=44.63 E-value=8.4 Score=49.23 Aligned_cols=24 Identities=42% Similarity=0.668 Sum_probs=21.6
Q ss_pred cceEEEECCCCCchhHHHHHHHHH
Q 000814 54 HCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 54 ~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
..|+++-||||+|||.+++.|.|.
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHH
Confidence 358999999999999999999875
No 285
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=44.50 E-value=23 Score=46.38 Aligned_cols=36 Identities=25% Similarity=0.270 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
-+|....+.+...++.+. -.|+ ||.+|.|||||...
T Consensus 19 IGQe~Vv~~L~~aL~~gR---L~HAyLFtGPpGvGKTTlA 55 (830)
T PRK07003 19 VGQEHVVRALTHALDGGR---LHHAYLFTGTRGVGKTTLS 55 (830)
T ss_pred cCcHHHHHHHHHHHhcCC---CCeEEEEECCCCCCHHHHH
Confidence 379999998888888642 1355 89999999999643
No 286
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=44.50 E-value=13 Score=43.46 Aligned_cols=39 Identities=26% Similarity=0.252 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
|-|.|.+-+- -+|- |+ ..|.-|-.|||||-||+.|.|.-
T Consensus 108 PSPiQeesIP---iaLt-----Gr-diLaRaKNGTGKT~a~~IP~Lek 146 (459)
T KOG0326|consen 108 PSPIQEESIP---IALT-----GR-DILARAKNGTGKTAAYCIPVLEK 146 (459)
T ss_pred CCCccccccc---eeec-----ch-hhhhhccCCCCCccceechhhhh
Confidence 6677876433 3332 33 57889999999999999999864
No 287
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=44.41 E-value=22 Score=47.17 Aligned_cols=40 Identities=25% Similarity=0.229 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~~A 75 (1269)
-+|...+..+...|..+. -.| .||.+|.|+|||...++-|
T Consensus 18 iGqe~v~~~L~~~i~~~r---i~Ha~Lf~Gp~G~GKTt~A~~lA 58 (824)
T PRK07764 18 IGQEHVTEPLSTALDSGR---INHAYLFSGPRGCGKTSSARILA 58 (824)
T ss_pred cCcHHHHHHHHHHHHhCC---CCceEEEECCCCCCHHHHHHHHH
Confidence 368888888888888753 135 4899999999997665554
No 288
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.08 E-value=19 Score=46.19 Aligned_cols=39 Identities=21% Similarity=0.191 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLC 73 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~ 73 (1269)
+-+|...+..+..++..+. . .|+ ||.+|.|||||-...+
T Consensus 18 viGQe~vv~~L~~~l~~~r--l-~ha~Lf~Gp~GvGKTtlAr~ 57 (618)
T PRK14951 18 MVGQEHVVQALTNALTQQR--L-HHAYLFTGTRGVGKTTVSRI 57 (618)
T ss_pred hcCcHHHHHHHHHHHHcCC--C-CeEEEEECCCCCCHHHHHHH
Confidence 4479999999999998753 2 256 8999999999975443
No 289
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=44.05 E-value=23 Score=43.16 Aligned_cols=38 Identities=24% Similarity=0.278 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
..|.++.+.+..--..|. ++|+.++|||||++ .+.+-|
T Consensus 85 ~~~~~~~eqik~~ap~~~-~vLi~GetGtGKel---~A~~iH 122 (403)
T COG1221 85 PSLQELREQIKAYAPSGL-PVLIIGETGTGKEL---FARLIH 122 (403)
T ss_pred HHHHHHHHHHHhhCCCCC-cEEEecCCCccHHH---HHHHHH
Confidence 345666666665545554 79999999999996 444444
No 290
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=43.94 E-value=20 Score=45.78 Aligned_cols=40 Identities=15% Similarity=0.135 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~~ 74 (1269)
+-+|......+..++..+. . .| .||.+|.|+|||..+.+-
T Consensus 18 IIGQe~iv~~L~~aI~~~r--l-~hA~Lf~GP~GvGKTTlA~~l 58 (605)
T PRK05896 18 IIGQELIKKILVNAILNNK--L-THAYIFSGPRGIGKTSIAKIF 58 (605)
T ss_pred hcCcHHHHHHHHHHHHcCC--C-CceEEEECCCCCCHHHHHHHH
Confidence 3478888888888887642 1 24 578999999999654443
No 291
>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=43.84 E-value=20 Score=36.61 Aligned_cols=28 Identities=21% Similarity=0.260 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++.+.+...|..+ .+++|+++-|.|||-
T Consensus 3 ~la~~l~~~l~~g-----~vi~L~GdLGaGKTt 30 (123)
T PF02367_consen 3 RLAKKLAQILKPG-----DVILLSGDLGAGKTT 30 (123)
T ss_dssp HHHHHHHHHHSS------EEEEEEESTTSSHHH
T ss_pred HHHHHHHHhCCCC-----CEEEEECCCCCCHHH
Confidence 4566677777543 479999999999994
No 292
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=43.76 E-value=82 Score=40.66 Aligned_cols=39 Identities=23% Similarity=0.227 Sum_probs=26.1
Q ss_pred eecCCCC--CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 24 QVEFPYQ--PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FPY~--PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
.-.||.. .-+.|++. +..++.+ ...++-+|+|||||-.+
T Consensus 144 ~~lf~~~~~~~d~Qk~A---v~~a~~~------~~~vItGgpGTGKTt~v 184 (615)
T PRK10875 144 DALFGPVTDEVDWQKVA---AAVALTR------RISVISGGPGTGKTTTV 184 (615)
T ss_pred HHhcCcCCCCCHHHHHH---HHHHhcC------CeEEEEeCCCCCHHHHH
Confidence 3456643 23678873 4455553 37899999999999654
No 293
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=43.60 E-value=25 Score=45.61 Aligned_cols=38 Identities=24% Similarity=0.202 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~ 73 (1269)
-+|...+..+..++..+. - .| .||.+|.|+|||....+
T Consensus 19 IGQe~vv~~L~~ai~~~r-l--~Ha~Lf~GP~GvGKTTlAri 57 (709)
T PRK08691 19 VGQEHVVKALQNALDEGR-L--HHAYLLTGTRGVGKTTIARI 57 (709)
T ss_pred cCcHHHHHHHHHHHHcCC-C--CeEEEEECCCCCcHHHHHHH
Confidence 479999998989888652 2 24 49999999999965433
No 294
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=43.56 E-value=12 Score=45.91 Aligned_cols=46 Identities=33% Similarity=0.332 Sum_probs=29.9
Q ss_pred HHhccCcEEEecccccccHhh------hhhhcc--------CCCccEEEecccccHHHHH
Q 000814 254 SMADDAQLVFCPYSYIINPVI------RGAMEV--------DIKGAILILDEAHNIEDIA 299 (1269)
Q Consensus 254 ~~a~~ADIVV~nYnyLld~~i------R~~l~i--------~l~~~ivIfDEAHNLed~a 299 (1269)
+.+..-|+|+++|+-+=+..- |+.-+. ..+-.-+|+||||||-++-
T Consensus 273 kel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~ 332 (791)
T KOG1002|consen 273 KELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQ 332 (791)
T ss_pred HHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhccccccc
Confidence 456688999999987654321 111111 2234559999999998863
No 295
>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=43.39 E-value=25 Score=41.63 Aligned_cols=31 Identities=26% Similarity=0.314 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.|.++++.+.+..+.+ ..++|.+++||||++
T Consensus 7 ~m~~~~~~~~~~a~~~-~pVLI~GE~GtGK~~ 37 (329)
T TIGR02974 7 AFLEVLEQVSRLAPLD-RPVLIIGERGTGKEL 37 (329)
T ss_pred HHHHHHHHHHHHhCCC-CCEEEECCCCChHHH
Confidence 3555555555544333 368999999999997
No 296
>PRK00254 ski2-like helicase; Provisional
Probab=43.18 E-value=35 Score=44.64 Aligned_cols=64 Identities=23% Similarity=0.372 Sum_probs=40.5
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEe--ccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC-CCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLK--KKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR-FDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK--~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk-~DyGvIILL 699 (1269)
|.+-+-||.-.++.|||+++ +.|||+ ..|. . .+...|. +..+.|.+||+=|-. ++.|.++++
T Consensus 320 G~i~VLvaT~tLa~Gvnipa---~~vVI~~~~~~~-~--------~~~~~~~---~~~~~Qm~GRAGR~~~d~~G~~ii~ 384 (720)
T PRK00254 320 GLIKVITATPTLSAGINLPA---FRVIIRDTKRYS-N--------FGWEDIP---VLEIQQMMGRAGRPKYDEVGEAIIV 384 (720)
T ss_pred CCCeEEEeCcHHhhhcCCCc---eEEEECCceEcC-C--------CCceeCC---HHHHHHhhhccCCCCcCCCceEEEE
Confidence 44445556889999999986 456663 2231 1 1222222 345789999999964 567887777
Q ss_pred ec
Q 000814 700 DE 701 (1269)
Q Consensus 700 D~ 701 (1269)
-.
T Consensus 385 ~~ 386 (720)
T PRK00254 385 AT 386 (720)
T ss_pred ec
Confidence 43
No 297
>PRK14873 primosome assembly protein PriA; Provisional
Probab=43.09 E-value=57 Score=42.45 Aligned_cols=27 Identities=19% Similarity=0.271 Sum_probs=20.9
Q ss_pred HHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 672 CNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 672 ~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
...+++.+.|++||+=| .++-|-|+|.
T Consensus 509 ~Er~~qll~qvagragr-~~~~G~V~iq 535 (665)
T PRK14873 509 AEDTLRRWMAAAALVRP-RADGGQVVVV 535 (665)
T ss_pred HHHHHHHHHHHHHhhcC-CCCCCEEEEE
Confidence 35689999999999955 4455877776
No 298
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=43.06 E-value=55 Score=41.13 Aligned_cols=24 Identities=17% Similarity=0.245 Sum_probs=18.9
Q ss_pred CCcEEEEeeccceeecccCCCCCceEEE
Q 000814 622 KGASFLAVCRGKIVVGIPFPNINDIQVS 649 (1269)
Q Consensus 622 ~GAVLfAV~rGKfSEGIDF~dd~lR~VI 649 (1269)
..+|||| ..-.+.|+||+ ..-+||
T Consensus 365 ~~~vLF~--TDv~aRGLDFp--aVdwVi 388 (758)
T KOG0343|consen 365 RAVVLFC--TDVAARGLDFP--AVDWVI 388 (758)
T ss_pred cceEEEe--ehhhhccCCCc--ccceEE
Confidence 3799997 68899999999 444554
No 299
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.85 E-value=28 Score=44.16 Aligned_cols=36 Identities=19% Similarity=0.253 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLal 71 (1269)
-+|......+..++..+. . .| .||.+|.|+|||...
T Consensus 19 iGq~~~v~~L~~~i~~~r--l-~ha~Lf~Gp~GvGKTTlA 55 (546)
T PRK14957 19 AGQQHALNSLVHALETQK--V-HHAYLFTGTRGVGKTTLG 55 (546)
T ss_pred cCcHHHHHHHHHHHHcCC--C-CeEEEEECCCCCCHHHHH
Confidence 478888888888888642 2 24 579999999999644
No 300
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=42.81 E-value=22 Score=42.56 Aligned_cols=15 Identities=47% Similarity=0.691 Sum_probs=13.7
Q ss_pred ceEEEECCCCCchhH
Q 000814 55 CHALLESPTGTGKSL 69 (1269)
Q Consensus 55 ~~~LlESPTGTGKTL 69 (1269)
++.|+-+|||+|||-
T Consensus 163 ~nilI~G~tGSGKTT 177 (344)
T PRK13851 163 LTMLLCGPTGSGKTT 177 (344)
T ss_pred CeEEEECCCCccHHH
Confidence 489999999999995
No 301
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.79 E-value=24 Score=42.07 Aligned_cols=40 Identities=15% Similarity=0.191 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+..-+|......+...++.++ -..+.||.+|.|+|||...
T Consensus 17 ~~iig~~~~~~~l~~~i~~~~--~~~~~L~~G~~G~GKt~~a 56 (367)
T PRK14970 17 DDVVGQSHITNTLLNAIENNH--LAQALLFCGPRGVGKTTCA 56 (367)
T ss_pred HhcCCcHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHH
Confidence 334578888888888888653 1235789999999999543
No 302
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=42.76 E-value=11 Score=48.90 Aligned_cols=24 Identities=33% Similarity=0.563 Sum_probs=21.4
Q ss_pred cceEEEECCCCCchhHHHHHHHHH
Q 000814 54 HCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 54 ~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
..|+++-||||+|||.+++.|.|.
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHh
Confidence 358999999999999999999764
No 303
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=42.59 E-value=24 Score=41.95 Aligned_cols=16 Identities=25% Similarity=0.310 Sum_probs=14.1
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.+.|+-+|||+|||-.
T Consensus 161 ~nili~G~tgSGKTTl 176 (332)
T PRK13900 161 KNIIISGGTSTGKTTF 176 (332)
T ss_pred CcEEEECCCCCCHHHH
Confidence 5899999999999954
No 304
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.50 E-value=23 Score=44.23 Aligned_cols=36 Identities=22% Similarity=0.306 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
-+|...+..+..++..+. - .|+ ||.+|.|+|||...
T Consensus 19 iGq~~i~~~L~~~i~~~~-i--~hayLf~Gp~G~GKTtlA 55 (486)
T PRK14953 19 IGQEIVVRILKNAVKLQR-V--SHAYIFAGPRGTGKTTIA 55 (486)
T ss_pred cChHHHHHHHHHHHHcCC-C--CeEEEEECCCCCCHHHHH
Confidence 489999999999998652 1 355 78999999998543
No 305
>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=42.47 E-value=6.6 Score=47.13 Aligned_cols=22 Identities=32% Similarity=0.584 Sum_probs=19.4
Q ss_pred eEEEECCCCCchhHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALa 77 (1269)
|+++-||||+|||.+++.|.|.
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 6799999999999999888764
No 306
>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=42.37 E-value=27 Score=44.82 Aligned_cols=41 Identities=20% Similarity=0.161 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+..-+|.+.+..+..++..+ .|+++-+|+|||||.. +-+|+
T Consensus 18 ~~viG~~~a~~~l~~a~~~~-----~~~ll~G~pG~GKT~l--a~~la 58 (608)
T TIGR00764 18 DQVIGQEEAVEIIKKAAKQK-----RNVLLIGEPGVGKSML--AKAMA 58 (608)
T ss_pred hhccCHHHHHHHHHHHHHcC-----CCEEEECCCCCCHHHH--HHHHH
Confidence 44567888888888888753 3899999999999974 44444
No 307
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=42.36 E-value=23 Score=37.37 Aligned_cols=24 Identities=21% Similarity=0.473 Sum_probs=19.5
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
..+|-+|+|||||- |+-|+.|+-.
T Consensus 21 ~~vi~G~Ng~GKSt--il~ai~~~L~ 44 (202)
T PF13476_consen 21 LNVIYGPNGSGKST--ILEAIRYALG 44 (202)
T ss_dssp EEEEEESTTSSHHH--HHHHHHHHHH
T ss_pred cEEEECCCCCCHHH--HHHHHHHHHc
Confidence 67999999999996 4577888764
No 308
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=42.29 E-value=30 Score=41.48 Aligned_cols=37 Identities=19% Similarity=0.152 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
-+|.+....+..++.++. ++.-.||.+|+|+|||...
T Consensus 26 ~Gh~~a~~~L~~a~~~gr--l~ha~L~~G~~G~GKttlA 62 (351)
T PRK09112 26 FGHEEAEAFLAQAYREGK--LHHALLFEGPEGIGKATLA 62 (351)
T ss_pred cCcHHHHHHHHHHHHcCC--CCeeEeeECCCCCCHHHHH
Confidence 478888888889998753 3223688999999999644
No 309
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=42.13 E-value=27 Score=41.20 Aligned_cols=31 Identities=26% Similarity=0.303 Sum_probs=21.3
Q ss_pred HHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 38 FMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 38 ~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.|..+.+.+.+..+.+ .++++.+++||||++
T Consensus 14 ~~~~~~~~i~~~a~~~-~pVlI~GE~GtGK~~ 44 (326)
T PRK11608 14 SFLEVLEQVSRLAPLD-KPVLIIGERGTGKEL 44 (326)
T ss_pred HHHHHHHHHHHHhCCC-CCEEEECCCCCcHHH
Confidence 3555555555444444 369999999999996
No 310
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=42.06 E-value=18 Score=43.61 Aligned_cols=19 Identities=47% Similarity=0.823 Sum_probs=14.9
Q ss_pred EEEECCCCCchhHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALa 77 (1269)
+|+-+|.|||||| |+=|++
T Consensus 248 vLm~GPPGTGKTl--LAKAvA 266 (491)
T KOG0738|consen 248 VLMVGPPGTGKTL--LAKAVA 266 (491)
T ss_pred eeeeCCCCCcHHH--HHHHHH
Confidence 7889999999997 444443
No 311
>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=41.96 E-value=26 Score=35.38 Aligned_cols=19 Identities=37% Similarity=0.422 Sum_probs=14.6
Q ss_pred eEEEECCCCCchhHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ 74 (1269)
+.++-+|+|+|||.-+..-
T Consensus 1 ~~~i~G~~G~GKT~l~~~i 19 (165)
T cd01120 1 LILVFGPTGSGKTTLALQL 19 (165)
T ss_pred CeeEeCCCCCCHHHHHHHH
Confidence 3688999999999754333
No 312
>PRK04328 hypothetical protein; Provisional
Probab=41.92 E-value=61 Score=36.75 Aligned_cols=17 Identities=41% Similarity=0.628 Sum_probs=14.0
Q ss_pred CCcceEEEECCCCCchhH
Q 000814 52 DGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 52 ~G~~~~LlESPTGTGKTL 69 (1269)
.|. ..++.+|+|||||.
T Consensus 22 ~gs-~ili~G~pGsGKT~ 38 (249)
T PRK04328 22 ERN-VVLLSGGPGTGKSI 38 (249)
T ss_pred CCc-EEEEEcCCCCCHHH
Confidence 343 68999999999985
No 313
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=41.80 E-value=21 Score=46.31 Aligned_cols=40 Identities=23% Similarity=0.319 Sum_probs=26.4
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
|..--++-..|..+.+.++...+.+ .++++.++||||||+
T Consensus 375 ~~~liG~S~~~~~~~~~~~~~a~~~-~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 375 FGEIIGRSEAMYSVLKQVEMVAQSD-STVLILGETGTGKEL 414 (686)
T ss_pred ccceeecCHHHHHHHHHHHHHhCCC-CCEEEECCCCcCHHH
Confidence 4433445556666666655443333 479999999999997
No 314
>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=41.74 E-value=39 Score=40.84 Aligned_cols=35 Identities=20% Similarity=0.356 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
..++.+.-|.+-+.+++-.|+ .+||-+|+|||||.
T Consensus 31 ~AReAagiiv~mIk~~K~aGr-~iLiaGppGtGKTA 65 (398)
T PF06068_consen 31 KAREAAGIIVDMIKEGKIAGR-AILIAGPPGTGKTA 65 (398)
T ss_dssp HHHHHHHHHHHHHHTT--TT--EEEEEE-TTSSHHH
T ss_pred HHHHHHHHHHHHHhcccccCc-EEEEeCCCCCCchH
Confidence 345667777777887765665 58999999999994
No 315
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=41.52 E-value=33 Score=45.02 Aligned_cols=44 Identities=27% Similarity=0.289 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
++|.-+|.+.+..+++.|.+.. +.+.||-+|+|||||.- +-+|+
T Consensus 181 l~~~igr~~ei~~~~~~L~~~~---~~n~lL~G~pG~GKT~l--~~~la 224 (731)
T TIGR02639 181 IDPLIGREDELERTIQVLCRRK---KNNPLLVGEPGVGKTAI--AEGLA 224 (731)
T ss_pred CCcccCcHHHHHHHHHHHhcCC---CCceEEECCCCCCHHHH--HHHHH
Confidence 4576788888899999988753 45789999999999974 34444
No 316
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=41.46 E-value=27 Score=46.13 Aligned_cols=38 Identities=29% Similarity=0.548 Sum_probs=26.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHH
Q 000814 28 PYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 28 PY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~AL 76 (1269)
-..||+.|+ |..+ +|.. | -|.|..||=||||+...||.
T Consensus 76 G~r~ydVQl--iGgl--vLh~----G---~IAEMkTGEGKTLvAtLpay 113 (925)
T PRK12903 76 GKRPYDVQI--IGGI--ILDL----G---SVAEMKTGEGKTITSIAPVY 113 (925)
T ss_pred CCCcCchHH--HHHH--HHhc----C---CeeeecCCCCccHHHHHHHH
Confidence 357899997 4444 3443 3 28999999999987666553
No 317
>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=41.39 E-value=25 Score=38.18 Aligned_cols=25 Identities=36% Similarity=0.428 Sum_probs=19.1
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
|+++-++||+|||..+-.-++..+.
T Consensus 40 h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred eEEEEcCCCCCccHHHHHHHHHHHH
Confidence 8999999999999988776666654
No 318
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=41.27 E-value=37 Score=40.27 Aligned_cols=42 Identities=14% Similarity=0.175 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~A 75 (1269)
.||-|...-..+..++.++. -.|+ ||++|.|+||+.....-|
T Consensus 3 ~yPW~~~~~~~l~~~~~~~r---l~HA~Lf~G~~G~GK~~lA~~~A 45 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGL---GHHALLFKADSGLGTEQLIRALA 45 (325)
T ss_pred CCcchHHHHHHHHHHHHcCC---cceeEEeECCCCCCHHHHHHHHH
Confidence 37777777788888888753 1366 589999999997554443
No 319
>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=41.08 E-value=46 Score=43.75 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=19.1
Q ss_pred ceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
.+.++-||.|||||-++ +.|+++
T Consensus 50 ~V~vVRSpMGTGKTtaL----i~wLk~ 72 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTAL----IRWLKD 72 (824)
T ss_pred CeEEEECCCCCCcHHHH----HHHHHH
Confidence 47899999999999776 567765
No 320
>PF05729 NACHT: NACHT domain
Probab=40.84 E-value=28 Score=35.48 Aligned_cols=24 Identities=21% Similarity=0.149 Sum_probs=16.8
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+++.++.|+|||..+---+..|.
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~ 25 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLA 25 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHH
Confidence 579999999999985433333343
No 321
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.83 E-value=28 Score=44.87 Aligned_cols=39 Identities=23% Similarity=0.168 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
-+|.+....+..++..+. -+ .+.||.+|.|||||....+
T Consensus 19 iGq~~i~~~L~~~l~~~r-l~-~a~Lf~Gp~G~GKttlA~~ 57 (620)
T PRK14948 19 VGQEAIATTLKNALISNR-IA-PAYLFTGPRGTGKTSSARI 57 (620)
T ss_pred cChHHHHHHHHHHHHcCC-CC-ceEEEECCCCCChHHHHHH
Confidence 478888888888887642 22 2568999999999965443
No 322
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=40.79 E-value=18 Score=47.04 Aligned_cols=13 Identities=62% Similarity=0.991 Sum_probs=12.5
Q ss_pred EEEECCCCCchhH
Q 000814 57 ALLESPTGTGKSL 69 (1269)
Q Consensus 57 ~LlESPTGTGKTL 69 (1269)
+||.+|.||||||
T Consensus 347 vLL~GPPGTGKTL 359 (774)
T KOG0731|consen 347 VLLVGPPGTGKTL 359 (774)
T ss_pred eEEECCCCCcHHH
Confidence 7999999999997
No 323
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.70 E-value=29 Score=44.24 Aligned_cols=39 Identities=21% Similarity=0.261 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLC 73 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~ 73 (1269)
.-+|......+..++..++ -.|+ ||.+|.|+|||....+
T Consensus 18 iiGq~~v~~~L~~~i~~~~---~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 18 LTGQEHVSRTLQNAIDTGR---VAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred ccCcHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHH
Confidence 3478888888888887652 1355 8999999999975544
No 324
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=40.69 E-value=5e+02 Score=37.24 Aligned_cols=56 Identities=16% Similarity=0.093 Sum_probs=37.1
Q ss_pred CCcEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 622 KGASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 622 ~GAVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
+|.+=+-||.-.+.-|||+++- ..||. -.+ ..+....|.+||.=|.....+..+++
T Consensus 325 ~G~LrvLVATssLELGIDIg~V--DlVIq~gsP--------------------~sVas~LQRiGRAGR~~gg~s~gli~ 381 (1490)
T PRK09751 325 SGELRCVVATSSLELGIDMGAV--DLVIQVATP--------------------LSVASGLQRIGRAGHQVGGVSKGLFF 381 (1490)
T ss_pred hCCceEEEeCcHHHccCCcccC--CEEEEeCCC--------------------CCHHHHHHHhCCCCCCCCCccEEEEE
Confidence 3666666789999999998762 33443 111 22456789999999986655544444
No 325
>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=40.61 E-value=12 Score=48.05 Aligned_cols=25 Identities=24% Similarity=0.309 Sum_probs=22.0
Q ss_pred CcceEEEECCCCCchhHHHHHHHHH
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
|..|+++-||||+|||.++..|.|.
T Consensus 210 g~~H~lv~ApTgsGKgvg~VIPnLL 234 (623)
T TIGR02767 210 GSTHMIFFAGSGGFKTTSVVVPTAL 234 (623)
T ss_pred CCceEEEEeCCCCCccceeehhhhh
Confidence 4569999999999999999999753
No 326
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=40.39 E-value=25 Score=41.66 Aligned_cols=16 Identities=25% Similarity=0.439 Sum_probs=13.9
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.+.|+-+|||+|||-.
T Consensus 145 ~nilI~G~tGSGKTTl 160 (323)
T PRK13833 145 LNIVISGGTGSGKTTL 160 (323)
T ss_pred CeEEEECCCCCCHHHH
Confidence 4789999999999953
No 327
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=40.36 E-value=31 Score=44.25 Aligned_cols=39 Identities=13% Similarity=0.137 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
-+|..++..+..++..++ -. ...||.+|.|+|||-...+
T Consensus 27 iGq~~~v~~L~~~~~~gr-i~-ha~L~~Gp~GvGKTt~Ar~ 65 (598)
T PRK09111 27 IGQEAMVRTLTNAFETGR-IA-QAFMLTGVRGVGKTTTARI 65 (598)
T ss_pred cCcHHHHHHHHHHHHcCC-CC-ceEEEECCCCCCHHHHHHH
Confidence 479999999999998753 11 1378999999999965433
No 328
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=40.21 E-value=98 Score=40.24 Aligned_cols=59 Identities=27% Similarity=0.334 Sum_probs=36.8
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEec--cccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeE-EEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKK--KYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYG-AIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~--~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyG-vIILL 699 (1269)
|.+-+-|+.|.+++|+|+++-. .||+-. .|-- +.......|.+||.=|... | +|+++
T Consensus 495 g~i~vlV~t~~L~rGfdlp~v~--lVii~d~eifG~----------------~~~~~~yiqr~GR~gR~~~--G~~i~~~ 554 (652)
T PRK05298 495 GEFDVLVGINLLREGLDIPEVS--LVAILDADKEGF----------------LRSERSLIQTIGRAARNVN--GKVILYA 554 (652)
T ss_pred CCceEEEEeCHHhCCccccCCc--EEEEeCCccccc----------------CCCHHHHHHHhccccCCCC--CEEEEEe
Confidence 5555557789999999999854 455521 1100 0112346899999999843 4 45566
Q ss_pred ec
Q 000814 700 DE 701 (1269)
Q Consensus 700 D~ 701 (1269)
|.
T Consensus 555 ~~ 556 (652)
T PRK05298 555 DK 556 (652)
T ss_pred cC
Confidence 63
No 329
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=40.21 E-value=12 Score=48.59 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=20.5
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
++=+++-||||||.+||=--.+--+.+
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~Y 102 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKY 102 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHh
Confidence 566799999999999987655544443
No 330
>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=40.18 E-value=27 Score=40.83 Aligned_cols=16 Identities=31% Similarity=0.393 Sum_probs=13.9
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.+.|+-+|||+|||-.
T Consensus 133 ~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 133 KNILVVGGTGSGKTTL 148 (299)
T ss_pred CeEEEECCCCCCHHHH
Confidence 4789999999999953
No 331
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=40.17 E-value=32 Score=42.58 Aligned_cols=40 Identities=18% Similarity=0.081 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
.-+|...+..+...+..++ -. ...||.+|.|+|||....+
T Consensus 19 iiGq~~~v~~L~~~i~~~~-i~-ha~Lf~Gp~G~GKtt~A~~ 58 (451)
T PRK06305 19 ILGQDAVVAVLKNALRFNR-AA-HAYLFSGIRGTGKTTLARI 58 (451)
T ss_pred hcCcHHHHHHHHHHHHcCC-Cc-eEEEEEcCCCCCHHHHHHH
Confidence 4479999988888887642 12 1358999999999965433
No 332
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.02 E-value=35 Score=42.74 Aligned_cols=38 Identities=18% Similarity=0.135 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
+|..+.+.+..++..+. -. .+.||.+|.|||||-...+
T Consensus 17 GQe~vv~~L~~a~~~~r-i~-ha~Lf~Gp~G~GKTT~Ari 54 (491)
T PRK14964 17 GQDVLVRILRNAFTLNK-IP-QSILLVGASGVGKTTCARI 54 (491)
T ss_pred CcHHHHHHHHHHHHcCC-CC-ceEEEECCCCccHHHHHHH
Confidence 68888887778887652 22 2478999999999964433
No 333
>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=39.92 E-value=74 Score=39.76 Aligned_cols=24 Identities=29% Similarity=0.250 Sum_probs=16.8
Q ss_pred HHhhhcCCcceEEEECCCCCchhHH
Q 000814 46 LDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 46 L~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
|.-|--.|. ..|+.+|+|||||.-
T Consensus 256 lgGG~~~gs-~~li~G~~G~GKt~l 279 (484)
T TIGR02655 256 CGGGFFKDS-IILATGATGTGKTLL 279 (484)
T ss_pred hcCCccCCc-EEEEECCCCCCHHHH
Confidence 333333443 689999999999973
No 334
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=39.86 E-value=8.5 Score=49.57 Aligned_cols=25 Identities=40% Similarity=0.590 Sum_probs=21.9
Q ss_pred CcceEEEECCCCCchhHHHHHHHHH
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
|..|+++-||||+|||.+++.|.|.
T Consensus 174 g~~HvlviapTgSGKgvg~ViPnLL 198 (636)
T PRK13880 174 GPEHVLTYAPTRSGKGVGLVVPTLL 198 (636)
T ss_pred CCceEEEEecCCCCCceEEEccchh
Confidence 3459999999999999999999874
No 335
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=39.76 E-value=21 Score=42.35 Aligned_cols=47 Identities=17% Similarity=0.193 Sum_probs=30.1
Q ss_pred eecCC--CCCCHHHHHHHHHHHHH-HHhhhcCCc-ceEEEECCCCCchhHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVIST-LDRAQRDGH-CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~a-L~~~~~~G~-~~~LlESPTGTGKTLal 71 (1269)
.+.|. |.|-..|.++-+.+..- ++.. =+|. ..++.-+.||+|||..+
T Consensus 42 ~f~FD~vf~~~~~q~~vy~~~~~p~v~~~-~~G~n~ti~aYGqTGSGKTyTm 92 (337)
T cd01373 42 MFTFDHVADSNTNQEDVFQSVGKPLVEDC-LSGYNGSIFAYGQTGSGKTYTM 92 (337)
T ss_pred EEeCCeEeCCCCCHHHHHHHHHHHHHHHH-hCCCceeEEEeCCCCCCceEEe
Confidence 55565 56777898877766432 2222 1333 23566999999999765
No 336
>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=39.74 E-value=49 Score=40.79 Aligned_cols=33 Identities=24% Similarity=0.482 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
..+......++.-++++ .|+++=+|+|||||--
T Consensus 193 r~k~~~L~rl~~fve~~-----~Nli~lGp~GTGKThl 225 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPN-----YNLIELGPKGTGKSYI 225 (449)
T ss_pred HHHHHHHHhhHHHHhcC-----CcEEEECCCCCCHHHH
Confidence 34455555555566654 4899999999999953
No 337
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=39.15 E-value=37 Score=43.26 Aligned_cols=43 Identities=21% Similarity=0.207 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHHHHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~~ALa 77 (1269)
.-+|.+....+..++..+. - .| .||.+|.|||||-..-+-|-+
T Consensus 18 viGq~~v~~~L~~~i~~~~-~--~hayLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 18 VVGQEHITKTLKNAIKQGK-I--SHAYLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred ccCcHHHHHHHHHHHHcCC-C--CeEEEEECCCCCCHHHHHHHHHHH
Confidence 3479998888888888652 2 35 478999999999766555433
No 338
>COG1204 Superfamily II helicase [General function prediction only]
Probab=39.09 E-value=2.4e+02 Score=37.52 Aligned_cols=67 Identities=25% Similarity=0.308 Sum_probs=46.9
Q ss_pred CCcEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC-CCeEEEEEEe
Q 000814 622 KGASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR-FDYGAIILLD 700 (1269)
Q Consensus 622 ~GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk-~DyGvIILLD 700 (1269)
.|.|-+-||...++.|||+| +|.||||....+.. .+| | ...-..-+.|-+||.=|-- +|+|-.+++.
T Consensus 338 ~g~ikVlv~TpTLA~GVNLP---A~~VIIk~~~~y~~------~~g--~-~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~ 405 (766)
T COG1204 338 KGKIKVLVSTPTLAAGVNLP---ARTVIIKDTRRYDP------KGG--I-VDIPVLDVLQMAGRAGRPGYDDYGEAIILA 405 (766)
T ss_pred cCCceEEEechHHhhhcCCc---ceEEEEeeeEEEcC------CCC--e-EECchhhHhhccCcCCCCCcCCCCcEEEEe
Confidence 47887888899999999998 58999965432110 012 2 2223345789999999976 6787777776
No 339
>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=39.05 E-value=32 Score=43.26 Aligned_cols=35 Identities=29% Similarity=0.393 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++-..|.++++.+.+..+.+ ..++|.++|||||++
T Consensus 200 G~s~~~~~~~~~~~~~a~~~-~pvli~Ge~GtGK~~ 234 (534)
T TIGR01817 200 GKSPAMRQVVDQARVVARSN-STVLLRGESGTGKEL 234 (534)
T ss_pred ECCHHHHHHHHHHHHHhCcC-CCEEEECCCCccHHH
Confidence 34445666666665544333 368999999999997
No 340
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=38.93 E-value=36 Score=40.02 Aligned_cols=54 Identities=24% Similarity=0.358 Sum_probs=34.0
Q ss_pred eeecC---CCC-CCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 23 IQVEF---PYQ-PYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 23 i~v~F---PY~-PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
+...| |.+ |--.|+-+=.-+.+.++. +.| -+|+-+|||+|||-. |++-+.|.-+
T Consensus 94 ~a~vlR~Ip~~i~~~e~LglP~i~~~~~~~--~~G--LILVTGpTGSGKSTT-lAamId~iN~ 151 (353)
T COG2805 94 YALVLRLIPSKIPTLEELGLPPIVRELAES--PRG--LILVTGPTGSGKSTT-LAAMIDYINK 151 (353)
T ss_pred cEEEEeccCccCCCHHHcCCCHHHHHHHhC--CCc--eEEEeCCCCCcHHHH-HHHHHHHHhc
Confidence 44444 655 334666665555564443 234 578999999999964 4666666544
No 341
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=38.85 E-value=36 Score=41.04 Aligned_cols=38 Identities=16% Similarity=0.190 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLalL~ 73 (1269)
-+|.+....+..++.++. -.| .||.+|.|+||+...+.
T Consensus 22 iGq~~~~~~L~~~~~~~r---l~HA~Lf~Gp~G~GK~~lA~~ 60 (365)
T PRK07471 22 FGHAAAEAALLDAYRSGR---LHHAWLIGGPQGIGKATLAYR 60 (365)
T ss_pred cChHHHHHHHHHHHHcCC---CCceEEEECCCCCCHHHHHHH
Confidence 479999999999998753 235 57899999999965433
No 342
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=38.84 E-value=32 Score=36.58 Aligned_cols=25 Identities=28% Similarity=0.385 Sum_probs=21.6
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
..++-||+|+|||..++--++.++.
T Consensus 34 l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 34 LTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp EEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 6899999999999988887777763
No 343
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=38.69 E-value=33 Score=39.70 Aligned_cols=34 Identities=21% Similarity=0.164 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEE-ECCCCCchhHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALL-ESPTGTGKSLS 70 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~Ll-ESPTGTGKTLa 70 (1269)
+|.+.-..+...+..+. ..|+++ .+|+|+|||..
T Consensus 25 ~~~~~~~~l~~~~~~~~---~~~~lll~G~~G~GKT~l 59 (316)
T PHA02544 25 LPAADKETFKSIVKKGR---IPNMLLHSPSPGTGKTTV 59 (316)
T ss_pred CcHHHHHHHHHHHhcCC---CCeEEEeeCcCCCCHHHH
Confidence 56666666666676542 124555 99999999964
No 344
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=38.51 E-value=12 Score=48.15 Aligned_cols=25 Identities=28% Similarity=0.339 Sum_probs=22.1
Q ss_pred CcceEEEECCCCCchhHHHHHHHHH
Q 000814 53 GHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 53 G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
|..|+++=||||+|||.+++.|.|.
T Consensus 223 g~~H~Lv~ApTgsGKt~g~VIPnLL 247 (641)
T PRK13822 223 GSTHGLVFAGSGGFKTTSVVVPTAL 247 (641)
T ss_pred CCceEEEEeCCCCCccceEehhhhh
Confidence 4469999999999999999999863
No 345
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=38.49 E-value=24 Score=41.52 Aligned_cols=47 Identities=26% Similarity=0.357 Sum_probs=30.3
Q ss_pred eecCC--CCCCHHHHHHHHHHHHHHHhhhcCCcc-eEEEECCCCCchhHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVISTLDRAQRDGHC-HALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~~-~~LlESPTGTGKTLal 71 (1269)
.+.|. |.+-..|.++-..|...++.-. +|.. .++.-++||+|||..+
T Consensus 46 ~f~fD~vf~~~~~q~~v~~~v~p~v~~~~-~G~~~~i~ayG~tgSGKT~tl 95 (329)
T cd01366 46 SFSFDRVFDPDASQEDVFEEVSPLVQSAL-DGYNVCIFAYGQTGSGKTYTM 95 (329)
T ss_pred EEecCEEECCCCCHHHHHHHHHHHHHHHh-CCCceEEEEeCCCCCCCcEEe
Confidence 34444 4555567777777655555543 3433 3466999999999876
No 346
>PF12846 AAA_10: AAA-like domain
Probab=38.32 E-value=31 Score=38.88 Aligned_cols=20 Identities=35% Similarity=0.428 Sum_probs=16.8
Q ss_pred eEEEECCCCCchhHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~A 75 (1269)
|.++=++||+|||..+..-.
T Consensus 3 h~~i~G~tGsGKT~~~~~l~ 22 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLL 22 (304)
T ss_pred eEEEECCCCCcHHHHHHHHH
Confidence 89999999999998776433
No 347
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=38.31 E-value=26 Score=40.83 Aligned_cols=47 Identities=26% Similarity=0.374 Sum_probs=33.2
Q ss_pred eeecC-C--CCCCHHHHHHHHHHHHHHHhhhcCCc--ceEEEECCCCCchhH
Q 000814 23 IQVEF-P--YQPYGSQLVFMCRVISTLDRAQRDGH--CHALLESPTGTGKSL 69 (1269)
Q Consensus 23 i~v~F-P--Y~PYp~Q~e~M~~V~~aL~~~~~~G~--~~~LlESPTGTGKTL 69 (1269)
.++.+ | |.-|-+|.+.-+.+--.++.++..|. .|+||-+|.|.|||-
T Consensus 16 ~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTT 67 (332)
T COG2255 16 IERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTT 67 (332)
T ss_pred hhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHH
Confidence 34444 5 46677888877776666665554443 489999999999984
No 348
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=38.27 E-value=94 Score=34.53 Aligned_cols=20 Identities=35% Similarity=0.358 Sum_probs=15.2
Q ss_pred hhcCCcceEEEECCCCCchhH
Q 000814 49 AQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 49 ~~~~G~~~~LlESPTGTGKTL 69 (1269)
|-..|. ..++.+|+|+|||.
T Consensus 21 G~~~g~-~~~i~G~~GsGKt~ 40 (234)
T PRK06067 21 GIPFPS-LILIEGDHGTGKSV 40 (234)
T ss_pred CCcCCc-EEEEECCCCCChHH
Confidence 333443 68999999999996
No 349
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=38.24 E-value=21 Score=44.50 Aligned_cols=43 Identities=28% Similarity=0.428 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHhhhc----CCc--ceEEEECCCCCchhHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQR----DGH--CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~----~G~--~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+.-++=.++|.+-|..-++ -|+ +-+||-+|.|||||| |+-|++
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA 358 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA 358 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh
Confidence 4444446667766653211 011 137899999999997 455554
No 350
>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=37.96 E-value=31 Score=41.71 Aligned_cols=42 Identities=26% Similarity=0.231 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
.|+-+...+++.+... .| ..|+-+|||+|||-.+ .+.+.+..
T Consensus 133 ~~lgl~~~~~~~l~~~--~G--lilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPA--AG--LGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred HHcCCCHHHHHHHHhc--CC--EEEEECCCCCCHHHHH-HHHHHHHH
Confidence 4455555556665542 34 5789999999999643 55555543
No 351
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=37.90 E-value=34 Score=44.26 Aligned_cols=39 Identities=23% Similarity=0.235 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~ 74 (1269)
-+|......+..++.++. -.|+ ||.+|.|+|||....+-
T Consensus 19 vGQe~vv~~L~~~l~~~r---l~hAyLf~Gp~GvGKTTlAr~l 58 (647)
T PRK07994 19 VGQEHVLTALANALDLGR---LHHAYLFSGTRGVGKTTIARLL 58 (647)
T ss_pred cCcHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHHH
Confidence 379998888888888753 2355 89999999999754333
No 352
>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=37.60 E-value=64 Score=42.54 Aligned_cols=30 Identities=27% Similarity=0.184 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+.|++.+..+. .. ..+.+|.+|.|||||..
T Consensus 355 ~~Q~~Av~~i~---~s-----~~~~il~G~aGTGKTtl 384 (744)
T TIGR02768 355 EEQYEAVRHVT---GS-----GDIAVVVGRAGTGKSTM 384 (744)
T ss_pred HHHHHHHHHHh---cC-----CCEEEEEecCCCCHHHH
Confidence 78998766543 21 13789999999999964
No 353
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=37.60 E-value=16 Score=28.69 Aligned_cols=24 Identities=38% Similarity=0.754 Sum_probs=22.1
Q ss_pred eeeeccccCCCCCCCCCeeeEEee
Q 000814 1080 QISCSLCRSPLGLPENHLYVRCSV 1103 (1269)
Q Consensus 1080 ~~~~~~~~~~~~~~~~~~~~~~~~ 1103 (1269)
|+-|..|++.|-+|..--.|+|+.
T Consensus 1 q~~C~~C~t~L~yP~gA~~vrCs~ 24 (31)
T TIGR01053 1 QVVCGGCRTLLMYPRGASSVRCAL 24 (31)
T ss_pred CcCcCCCCcEeecCCCCCeEECCC
Confidence 578999999999999999999985
No 354
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=37.56 E-value=23 Score=41.76 Aligned_cols=44 Identities=16% Similarity=0.223 Sum_probs=26.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCc-ceEEEECCCCCchhHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGH-CHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~-~~~LlESPTGTGKTLalL 72 (1269)
|.+...|.++-+.+..-+-...-+|. .-++.-++||+|||..+.
T Consensus 59 f~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 59 FDEAVTNEEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHhCCCceEEEeccCCCCCCceEec
Confidence 45666788877764332221112343 234668999999998764
No 355
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=37.32 E-value=88 Score=40.76 Aligned_cols=42 Identities=21% Similarity=0.324 Sum_probs=30.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHH
Q 000814 24 QVEFPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 24 ~v~FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
+-.|||+-=|-|..- +.||++++ -+|+-|-|-.|||.+.=+|
T Consensus 123 Ak~YPF~LDpFQ~~a----I~Cidr~e-----SVLVSAHTSAGKTVVAeYA 164 (1041)
T KOG0948|consen 123 AKTYPFTLDPFQSTA----IKCIDRGE-----SVLVSAHTSAGKTVVAEYA 164 (1041)
T ss_pred ccCCCcccCchHhhh----hhhhcCCc-----eEEEEeecCCCcchHHHHH
Confidence 556666544556543 46999864 5899999999999876554
No 356
>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=37.27 E-value=37 Score=36.49 Aligned_cols=30 Identities=20% Similarity=0.314 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+.|.+++. .++.. | .+.++-+|||+|||-.
T Consensus 12 ~~~~~~l~---~~v~~----g-~~i~I~G~tGSGKTTl 41 (186)
T cd01130 12 PLQAAYLW---LAVEA----R-KNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHHHHH---HHHhC----C-CEEEEECCCCCCHHHH
Confidence 34555554 34443 3 3789999999999953
No 357
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=37.21 E-value=1.7e+02 Score=38.32 Aligned_cols=53 Identities=25% Similarity=0.315 Sum_probs=35.3
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEec--cccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEe
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKK--KYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLD 700 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~--~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD 700 (1269)
-.||+| ..-+++|||+++- ++||+-. .| .+-.+.|.+||+=|... .|..+|+-
T Consensus 532 ~~ILVa--T~vie~GiDip~v--~~VIi~~~~r~--------------------gls~lhQ~~GRvGR~g~-~g~~ill~ 586 (681)
T PRK10917 532 IDILVA--TTVIEVGVDVPNA--TVMVIENAERF--------------------GLAQLHQLRGRVGRGAA-QSYCVLLY 586 (681)
T ss_pred CCEEEE--CcceeeCcccCCC--cEEEEeCCCCC--------------------CHHHHHHHhhcccCCCC-ceEEEEEE
Confidence 456655 6899999999984 4455511 11 12346799999999854 57666664
No 358
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=37.20 E-value=22 Score=41.11 Aligned_cols=42 Identities=21% Similarity=0.454 Sum_probs=30.6
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 27 FPY-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 27 FPY-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
+-| +|-..|...+..|++ |+ .++..|-.|||||.++-|+.|.
T Consensus 45 yGfekPS~IQqrAi~~Ilk--------Gr-dViaQaqSGTGKTa~~si~vlq 87 (400)
T KOG0328|consen 45 YGFEKPSAIQQRAIPQILK--------GR-DVIAQAQSGTGKTATFSISVLQ 87 (400)
T ss_pred hccCCchHHHhhhhhhhhc--------cc-ceEEEecCCCCceEEEEeeeee
Confidence 446 477788875554433 33 5899999999999988777664
No 359
>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=37.02 E-value=29 Score=39.00 Aligned_cols=14 Identities=50% Similarity=0.724 Sum_probs=11.5
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
+.++=+|||||||-
T Consensus 3 v~~i~GpT~tGKt~ 16 (233)
T PF01745_consen 3 VYLIVGPTGTGKTA 16 (233)
T ss_dssp EEEEE-STTSSHHH
T ss_pred EEEEECCCCCChhH
Confidence 57889999999995
No 360
>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=36.88 E-value=55 Score=38.47 Aligned_cols=43 Identities=16% Similarity=0.340 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 35 QLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 35 Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
=.+++..+.++-... + ....+|-++.|+|||.+| +-+++|+..
T Consensus 7 t~el~~~l~~~~~~~-~--~~r~vL~G~~GsGKS~~L-~q~~~~A~~ 49 (309)
T PF10236_consen 7 TLELINKLKEADKSS-K--NNRYVLTGERGSGKSVLL-AQAVHYARE 49 (309)
T ss_pred HHHHHHHHHHhcccC-C--ceEEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 345555555552221 1 124799999999999875 566788875
No 361
>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=36.87 E-value=44 Score=37.97 Aligned_cols=23 Identities=35% Similarity=0.488 Sum_probs=17.5
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+.|+-+|||+|||-.+ .+.+.+
T Consensus 128 ~~ili~G~tGSGKTT~l-~all~~ 150 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLL-NALLEE 150 (270)
T ss_dssp EEEEEEESTTSSHHHHH-HHHHHH
T ss_pred eEEEEECCCccccchHH-HHHhhh
Confidence 58999999999999654 444444
No 362
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=36.84 E-value=1.6e+02 Score=40.07 Aligned_cols=38 Identities=24% Similarity=0.431 Sum_probs=26.2
Q ss_pred cCcEEEeccccccc-HhhhhhhccCCCccEEEecccccHH
Q 000814 258 DAQLVFCPYSYIIN-PVIRGAMEVDIKGAILILDEAHNIE 296 (1269)
Q Consensus 258 ~ADIVV~nYnyLld-~~iR~~l~i~l~~~ivIfDEAHNLe 296 (1269)
..++||++|.++-. +.....+ ....-.+|||||||+|-
T Consensus 247 ~~~~vI~S~~~l~~~~~~~~~l-~~~~wdlvIvDEAH~lk 285 (956)
T PRK04914 247 TEQLVICSLDFLRRNKQRLEQA-LAAEWDLLVVDEAHHLV 285 (956)
T ss_pred cCcEEEEEHHHhhhCHHHHHHH-hhcCCCEEEEechhhhc
Confidence 46899999999875 3222222 12345789999999985
No 363
>PLN03188 kinesin-12 family protein; Provisional
Probab=36.52 E-value=25 Score=47.77 Aligned_cols=58 Identities=19% Similarity=0.236 Sum_probs=38.5
Q ss_pred CceeeCCeeecCC--CCCCHHHHHHHHHHHHHHHhhhcCCcc-eEEEECCCCCchhHHHHH
Q 000814 16 NAYHVGGIQVEFP--YQPYGSQLVFMCRVISTLDRAQRDGHC-HALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 16 ~~f~i~Gi~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~~-~~LlESPTGTGKTLalL~ 73 (1269)
+...+++-.+.|. |.|...|.++-..+..-|-...=+|.. .++.-+.||+|||..+.-
T Consensus 125 dsl~I~~qtFtFD~VFdp~aTQedVFe~vv~PLV~svLdGyNaTIFAYGQTGSGKTYTM~G 185 (1320)
T PLN03188 125 DSLTINGQTFTFDSIADPESTQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGSGKTYTMWG 185 (1320)
T ss_pred CeEEEeCcEEeCCeeeCCCCCHHHHHHHHHHHHHHHHhcCCcceeecCCCCCCCCCEeeCC
Confidence 3456667777777 678888998888775433222223432 345689999999987743
No 364
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=36.48 E-value=25 Score=41.59 Aligned_cols=47 Identities=26% Similarity=0.362 Sum_probs=30.1
Q ss_pred eecCC--CCCCHHHHHHHHHHHHH-HHhhhcCCc-ceEEEECCCCCchhHHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVIST-LDRAQRDGH-CHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~a-L~~~~~~G~-~~~LlESPTGTGKTLalL 72 (1269)
.+.|. |.+ ..|.++.+.+..- ++... +|. ..++.=++||||||..++
T Consensus 49 ~f~FD~vf~~-~~q~~vy~~~~~p~v~~~~-~G~n~~i~ayG~tgSGKTyTm~ 99 (334)
T cd01375 49 SFKFDGVFHN-ASQEEVYETVAKPVVDSAL-DGYNGTIFAYGQTGAGKTFTMT 99 (334)
T ss_pred EEEcCcccCC-CCHHHHHHHHHHHHHHHHh-CCCccceeeecCCCCCCeEEcc
Confidence 45554 567 8899887776542 22211 232 345679999999998763
No 365
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=36.36 E-value=39 Score=42.35 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=29.1
Q ss_pred C-CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 29 Y-QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 29 Y-~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
| .|-++|.-.+-. ++ + |+.-+|=-|-||+|||||+=+|-++-+.
T Consensus 201 Fs~Pt~IQsl~lp~---ai-~----gk~DIlGaAeTGSGKTLAFGIPiv~~l~ 245 (731)
T KOG0347|consen 201 FSRPTEIQSLVLPA---AI-R----GKVDILGAAETGSGKTLAFGIPIVERLL 245 (731)
T ss_pred CCCCccchhhcccH---hh-c----cchhcccccccCCCceeeecchhhhhhh
Confidence 5 477777643322 22 2 3333555899999999999999887443
No 366
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=36.22 E-value=39 Score=44.39 Aligned_cols=36 Identities=17% Similarity=0.219 Sum_probs=25.3
Q ss_pred CHHHHHHHH---HHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 32 YGSQLVFMC---RVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 32 Yp~Q~e~M~---~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+-+|...+. .+...+..+. ..+++|-+|+|||||..
T Consensus 30 ~vGQe~ii~~~~~L~~~i~~~~---~~slLL~GPpGtGKTTL 68 (725)
T PRK13341 30 FVGQDHILGEGRLLRRAIKADR---VGSLILYGPPGVGKTTL 68 (725)
T ss_pred hcCcHHHhhhhHHHHHHHhcCC---CceEEEECCCCCCHHHH
Confidence 457888774 4555665432 23799999999999953
No 367
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=35.93 E-value=26 Score=41.89 Aligned_cols=39 Identities=28% Similarity=0.296 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHH-HHhhhcCCcc-eEEEECCCCCchhHHHH
Q 000814 33 GSQLVFMCRVIST-LDRAQRDGHC-HALLESPTGTGKSLSLL 72 (1269)
Q Consensus 33 p~Q~e~M~~V~~a-L~~~~~~G~~-~~LlESPTGTGKTLalL 72 (1269)
..|.++-+.+..- ++.. -+|.. .++.-++||||||..+.
T Consensus 67 ~tq~~vf~~~~~p~v~~~-l~G~n~~i~ayGqtGSGKT~Tm~ 107 (356)
T cd01365 67 ASQEDVFEDLGRELLDHA-FEGYNVCLFAYGQTGSGKSYTMM 107 (356)
T ss_pred CCHHHHHHHHHHHHHHHH-hCCCceEEEEecCCCCCCeEEec
Confidence 6788887665432 2211 12332 35669999999998763
No 368
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=35.42 E-value=44 Score=40.76 Aligned_cols=17 Identities=41% Similarity=0.559 Sum_probs=14.8
Q ss_pred ceEEEECCCCCchhHHH
Q 000814 55 CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLal 71 (1269)
.+++|=+|||.|||-.+
T Consensus 204 ~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 204 RVIALVGPTGVGKTTTL 220 (407)
T ss_pred cEEEEECCCCCcHHHHH
Confidence 47899999999999764
No 369
>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=35.18 E-value=29 Score=43.35 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=17.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+++-+|||+|||-.+ .++|.++
T Consensus 244 lilitGptGSGKTTtL-~a~L~~l 266 (486)
T TIGR02533 244 IILVTGPTGSGKTTTL-YAALSRL 266 (486)
T ss_pred EEEEEcCCCCCHHHHH-HHHHhcc
Confidence 6799999999999754 5556554
No 370
>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=35.12 E-value=46 Score=36.86 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=21.8
Q ss_pred hhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 49 AQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 49 ~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
|-+.|. ..++-||||+|||.-.+--++.++.
T Consensus 9 Gl~~G~-l~lI~G~~G~GKT~~~~~~~~~~~~ 39 (242)
T cd00984 9 GLQPGD-LIIIAARPSMGKTAFALNIAENIAK 39 (242)
T ss_pred CCCCCe-EEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 344454 6899999999999765555555554
No 371
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=34.64 E-value=43 Score=43.28 Aligned_cols=37 Identities=19% Similarity=0.163 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+-..+|.+.+..+..++..+ .+++|.+|+|||||...
T Consensus 31 ~~vigq~~a~~~L~~~~~~~-----~~~l~~G~~G~GKttla 67 (637)
T PRK13765 31 DQVIGQEHAVEVIKKAAKQR-----RHVMMIGSPGTGKSMLA 67 (637)
T ss_pred HHcCChHHHHHHHHHHHHhC-----CeEEEECCCCCcHHHHH
Confidence 44567999998888888764 37999999999999643
No 372
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=34.19 E-value=48 Score=39.60 Aligned_cols=23 Identities=35% Similarity=0.671 Sum_probs=16.7
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
++.|+-++||+|||- +|.+-++|
T Consensus 174 ~NILisGGTGSGKTT-lLNal~~~ 196 (355)
T COG4962 174 CNILISGGTGSGKTT-LLNALSGF 196 (355)
T ss_pred eeEEEeCCCCCCHHH-HHHHHHhc
Confidence 589999999999994 33443333
No 373
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=34.17 E-value=31 Score=40.54 Aligned_cols=50 Identities=22% Similarity=0.326 Sum_probs=29.7
Q ss_pred eecCC--CCCCHHHHHHHHHHH-HHHHhhhcCCcc-eEEEECCCCCchhHHHHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVI-STLDRAQRDGHC-HALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~-~aL~~~~~~G~~-~~LlESPTGTGKTLalL~~ 74 (1269)
.+.|. |.+-..|.++.+.+. ..++.. =+|.. .++.=++||+|||.+++-.
T Consensus 42 ~f~FD~vf~~~~~q~~vy~~~~~~~v~~~-l~G~n~~i~ayG~tgSGKT~Tm~G~ 95 (335)
T PF00225_consen 42 SFRFDRVFDEDATQEDVYEEVVSPLVDSV-LDGYNATIFAYGQTGSGKTYTMFGS 95 (335)
T ss_dssp EEEESEEEETTSTHHHHHHHHTHHHHHHH-HTT-EEEEEEEESTTSSHHHHHTBS
T ss_pred EEEcCeEECCCCCHHHHHHHHHHHHHHHh-hcCCceEEEeecccccccccccccc
Confidence 34444 456667888877753 333332 23443 3466899999999876443
No 374
>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=34.06 E-value=33 Score=44.14 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
-+|-..|..+...+... ...+++|-+|+|||||.
T Consensus 157 iGqs~~~~~l~~~ia~~---~~~~vlL~Gp~GtGKTT 190 (615)
T TIGR02903 157 VGQERAIKALLAKVASP---FPQHIILYGPPGVGKTT 190 (615)
T ss_pred eeCcHHHHHHHHHHhcC---CCCeEEEECCCCCCHHH
Confidence 47888888888777543 12479999999999996
No 375
>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=34.04 E-value=1.2e+02 Score=33.44 Aligned_cols=14 Identities=29% Similarity=0.363 Sum_probs=12.7
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
..++.+|+|+|||.
T Consensus 18 ~~li~G~~G~GKt~ 31 (224)
T TIGR03880 18 VIVVIGEYGTGKTT 31 (224)
T ss_pred EEEEECCCCCCHHH
Confidence 67899999999986
No 376
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=34.03 E-value=51 Score=40.16 Aligned_cols=41 Identities=24% Similarity=0.391 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHhhhcC------Ccce-EEEECCCCCchhHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRD------GHCH-ALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~------G~~~-~LlESPTGTGKTLalL~~ 74 (1269)
+|......+..++..+... +-.| .||.+|.|+|||.....-
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~l 56 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAF 56 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHH
Confidence 6888888888888864210 0134 578999999999654433
No 377
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=34.03 E-value=41 Score=39.91 Aligned_cols=48 Identities=17% Similarity=0.221 Sum_probs=29.6
Q ss_pred eecCC--CCCCHHHHHHHHHHHHHHHhhhcCCcc-eEEEECCCCCchhHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVISTLDRAQRDGHC-HALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~~-~~LlESPTGTGKTLal 71 (1269)
.+.|. |.|...|.++-+.+..-+-...=+|.. .++.-++||+|||..+
T Consensus 55 ~f~Fd~vf~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 55 KYSFDRVFDETSTQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred EEEeccccCCCCCHHHHHHHHHHHHHHHHHCCCCceEEeeCCCCCCCeEEE
Confidence 44444 566677888877766322211113432 3566999999999875
No 378
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=33.87 E-value=34 Score=43.69 Aligned_cols=28 Identities=21% Similarity=0.371 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++..+|+.++++.+ ++|+-++||+|||-
T Consensus 54 ~~r~~il~~ve~nq-----vlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQ-----VLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCC-----EEEEEcCCCCCccc
Confidence 67888999998864 89999999999994
No 379
>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=33.80 E-value=30 Score=43.58 Aligned_cols=21 Identities=38% Similarity=0.605 Sum_probs=16.7
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+||-+|+|||||+ |+-++++
T Consensus 218 GILLyGPPGTGKT~--LAKAlA~ 238 (512)
T TIGR03689 218 GVLLYGPPGCGKTL--IAKAVAN 238 (512)
T ss_pred ceEEECCCCCcHHH--HHHHHHH
Confidence 48999999999997 4555554
No 380
>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=33.67 E-value=1.1e+02 Score=40.41 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=29.0
Q ss_pred cEEEEeeccceeecccCCCCCceEEEE-eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCC
Q 000814 624 ASFLAVCRGKIVVGIPFPNINDIQVSL-KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFD 692 (1269)
Q Consensus 624 AVLfAV~rGKfSEGIDF~dd~lR~VII-K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~D 692 (1269)
.+|++ ..-..||||+|+ +.+||+ -.++-. -+...|.+||+.|-+.+
T Consensus 544 ~vLv~--SkVgdeGIDlP~--a~vvI~~s~~~gS-------------------~~q~iQRlGRilR~~~~ 590 (732)
T TIGR00603 544 NTIFL--SKVGDTSIDLPE--ANVLIQISSHYGS-------------------RRQEAQRLGRILRAKKG 590 (732)
T ss_pred cEEEE--ecccccccCCCC--CCEEEEeCCCCCC-------------------HHHHHHHhcccccCCCC
Confidence 34444 245689999998 444554 222211 24457999999998765
No 381
>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=33.56 E-value=34 Score=35.48 Aligned_cols=28 Identities=32% Similarity=0.387 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++...+...|.. | .+++|.++-|+|||-
T Consensus 10 ~l~~~l~~~l~~----~-~~i~l~G~lGaGKTt 37 (133)
T TIGR00150 10 KFGKAFAKPLDF----G-TVVLLKGDLGAGKTT 37 (133)
T ss_pred HHHHHHHHhCCC----C-CEEEEEcCCCCCHHH
Confidence 344445444533 3 378999999999985
No 382
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=33.45 E-value=55 Score=38.63 Aligned_cols=40 Identities=20% Similarity=0.316 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
-+|.+....+..+++++. - ....||.+|.|+||+...++-
T Consensus 7 iGq~~~~~~L~~~i~~~r-l-~ha~Lf~G~~G~Gk~~~A~~~ 46 (314)
T PRK07399 7 IGQPLAIELLTAAIKQNR-I-APAYLFAGPEGVGRKLAALCF 46 (314)
T ss_pred CCHHHHHHHHHHHHHhCC-C-CceEEEECCCCCCHHHHHHHH
Confidence 478888888888888752 1 125688999999999655443
No 383
>PRK06893 DNA replication initiation factor; Validated
Probab=33.33 E-value=76 Score=35.45 Aligned_cols=16 Identities=25% Similarity=0.187 Sum_probs=13.4
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
.++|-+|+|||||.-+
T Consensus 41 ~l~l~G~~G~GKThL~ 56 (229)
T PRK06893 41 FFYIWGGKSSGKSHLL 56 (229)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4789999999999633
No 384
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=33.09 E-value=46 Score=39.65 Aligned_cols=43 Identities=14% Similarity=0.150 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHHHH
Q 000814 31 PYGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 31 PYp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~AL 76 (1269)
.||-|...-..+...+.+++ -.|+ ||.+|.|+||+...+.-|-
T Consensus 3 ~yPWl~~~~~~l~~~~~~~r---l~HA~Lf~G~~G~Gk~~lA~~~A~ 46 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGR---GHHALLIQALPGMGDDALIYALSR 46 (334)
T ss_pred CCCCChHHHHHHHHHHHcCC---cceEEeeECCCCCCHHHHHHHHHH
Confidence 46777777777888887653 2366 5899999999976544433
No 385
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=32.98 E-value=80 Score=38.93 Aligned_cols=35 Identities=9% Similarity=0.010 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
-+++......+.+........++|-+|+|+|||.-
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL 164 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHL 164 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHH
Confidence 33344455555433211112489999999999974
No 386
>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=32.95 E-value=39 Score=40.58 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.|+-+-..+.+.+... | ..+++-+|||+|||-.+ .+.+.+.
T Consensus 118 ~~l~~~~~~~~~~~~~---~-glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 118 SKLDLPAAIIDAIAPQ---E-GIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred HHcCCCHHHHHHHhcc---C-CEEEEECCCCCCHHHHH-HHHHHHH
Confidence 3433333445555431 2 37899999999999643 4444444
No 387
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=32.90 E-value=23 Score=42.82 Aligned_cols=16 Identities=38% Similarity=0.646 Sum_probs=14.2
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
+++|-+|.||||||..
T Consensus 386 NilfyGPPGTGKTm~A 401 (630)
T KOG0742|consen 386 NILFYGPPGTGKTMFA 401 (630)
T ss_pred heeeeCCCCCCchHHH
Confidence 6899999999999853
No 388
>PRK10865 protein disaggregation chaperone; Provisional
Probab=32.72 E-value=46 Score=44.53 Aligned_cols=45 Identities=24% Similarity=0.256 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
..|.=+|..-+.++++.|.+.. +.+.||-+|+|+|||.. +-+|+.
T Consensus 177 l~~vigr~~ei~~~i~iL~r~~---~~n~lL~G~pGvGKT~l--~~~la~ 221 (857)
T PRK10865 177 LDPVIGRDEEIRRTIQVLQRRT---KNNPVLIGEPGVGKTAI--VEGLAQ 221 (857)
T ss_pred CCcCCCCHHHHHHHHHHHhcCC---cCceEEECCCCCCHHHH--HHHHHH
Confidence 4566678888999999998753 34789999999999974 455554
No 389
>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=32.46 E-value=45 Score=35.08 Aligned_cols=23 Identities=26% Similarity=0.203 Sum_probs=16.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+.++.+|+|+|||-....-+..+
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~ 24 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYL 24 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 46889999999998654444444
No 390
>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=32.32 E-value=25 Score=34.33 Aligned_cols=20 Identities=25% Similarity=0.322 Sum_probs=14.6
Q ss_pred EEEECCCCCchhHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw 78 (1269)
++|.+++|+|||- |+-.|+.
T Consensus 1 I~i~G~~GsGKtT--ia~~L~~ 20 (129)
T PF13238_consen 1 IGISGIPGSGKTT--IAKELAE 20 (129)
T ss_dssp EEEEESTTSSHHH--HHHHHHH
T ss_pred CEEECCCCCCHHH--HHHHHHH
Confidence 3789999999995 4555543
No 391
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=32.25 E-value=45 Score=41.83 Aligned_cols=35 Identities=23% Similarity=0.289 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
+|-.-|.++.+.+.+....+ .++++.+++||||++
T Consensus 191 g~s~~~~~~~~~i~~~a~~~-~pVlI~Ge~GtGK~~ 225 (509)
T PRK05022 191 GQSPAMQQLKKEIEVVAASD-LNVLILGETGVGKEL 225 (509)
T ss_pred ecCHHHHHHHHHHHHHhCCC-CcEEEECCCCccHHH
Confidence 45556666777666654443 478999999999997
No 392
>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=32.22 E-value=43 Score=37.23 Aligned_cols=37 Identities=22% Similarity=0.469 Sum_probs=24.1
Q ss_pred HHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHHH
Q 000814 253 RSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIED 297 (1269)
Q Consensus 253 R~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed 297 (1269)
..+...-.|-+.+.+|+=. ..+.+++||+|||.|+--
T Consensus 97 ~~~~~~~~Ie~~~~~~iRG--------rt~~~~~iIvDEaQN~t~ 133 (205)
T PF02562_consen 97 EELIQNGKIEIEPLAFIRG--------RTFDNAFIIVDEAQNLTP 133 (205)
T ss_dssp HHHHHTTSEEEEEGGGGTT----------B-SEEEEE-SGGG--H
T ss_pred HHHhhcCeEEEEehhhhcC--------ccccceEEEEecccCCCH
Confidence 3455677888999888743 245689999999998744
No 393
>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=32.12 E-value=39 Score=43.12 Aligned_cols=26 Identities=35% Similarity=0.657 Sum_probs=20.3
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
|.++-+|||+|||. ++-.-|.|....
T Consensus 178 h~li~G~tGsGKs~-~i~~ll~~~~~~ 203 (566)
T TIGR02759 178 HILIHGTTGSGKSV-AIRKLLRWIRQR 203 (566)
T ss_pred ceEEEcCCCCCHHH-HHHHHHHHHHhc
Confidence 89999999999996 445566776543
No 394
>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=32.10 E-value=26 Score=34.23 Aligned_cols=19 Identities=42% Similarity=0.751 Sum_probs=14.8
Q ss_pred EEEECCCCCchhHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALa 77 (1269)
.++.+|+|+|||- ++-.|+
T Consensus 2 I~I~G~~gsGKST--~a~~La 20 (121)
T PF13207_consen 2 IIISGPPGSGKST--LAKELA 20 (121)
T ss_dssp EEEEESTTSSHHH--HHHHHH
T ss_pred EEEECCCCCCHHH--HHHHHH
Confidence 6889999999995 455554
No 395
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=32.09 E-value=34 Score=42.21 Aligned_cols=21 Identities=43% Similarity=0.653 Sum_probs=16.2
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+||.+|+|||||+ |+-+++.
T Consensus 219 gVLL~GPPGTGKT~--LAraIA~ 239 (438)
T PTZ00361 219 GVILYGPPGTGKTL--LAKAVAN 239 (438)
T ss_pred EEEEECCCCCCHHH--HHHHHHH
Confidence 57899999999997 3455554
No 396
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=31.92 E-value=40 Score=38.50 Aligned_cols=20 Identities=50% Similarity=0.770 Sum_probs=16.2
Q ss_pred EEEECCCCCchhHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw 78 (1269)
+||-+|.|||||| |+.|.++
T Consensus 184 vlLygppgtGktL--laraVah 203 (404)
T KOG0728|consen 184 VLLYGPPGTGKTL--LARAVAH 203 (404)
T ss_pred eEEecCCCCchhH--HHHHHHh
Confidence 7899999999997 5666654
No 397
>PRK04195 replication factor C large subunit; Provisional
Probab=31.88 E-value=56 Score=40.74 Aligned_cols=36 Identities=17% Similarity=0.111 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHhhhc-CCcceEEEECCCCCchhHH
Q 000814 35 QLVFMCRVISTLDRAQR-DGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 35 Q~e~M~~V~~aL~~~~~-~G~~~~LlESPTGTGKTLa 70 (1269)
|.+....+...++...+ ....++||-+|+|||||..
T Consensus 19 ~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtl 55 (482)
T PRK04195 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSL 55 (482)
T ss_pred CHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHH
Confidence 44444444444443210 1134799999999999954
No 398
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=31.86 E-value=30 Score=41.16 Aligned_cols=49 Identities=18% Similarity=0.264 Sum_probs=29.5
Q ss_pred eecCC--CCCCHHHHHHHHHHHHHHHhhhcCCc-ceEEEECCCCCchhHHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVISTLDRAQRDGH-CHALLESPTGTGKSLSLL 72 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~-~~~LlESPTGTGKTLalL 72 (1269)
.+.|. |.|-..|.++-+.+..-+-...=+|. ..++.=++||+|||..+.
T Consensus 56 ~f~Fd~vf~~~~tq~~vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~ 107 (345)
T cd01368 56 KFSFSKVFGPNTTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQ 107 (345)
T ss_pred EeecCeEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEec
Confidence 34444 45666788877765443221111233 345669999999998763
No 399
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=31.78 E-value=65 Score=38.21 Aligned_cols=39 Identities=21% Similarity=0.110 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcce-EEEECCCCCchhHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCH-ALLESPTGTGKSLSL 71 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~-~LlESPTGTGKTLal 71 (1269)
..||-|...-..+..++++++ . .| .||.+|.|+||+...
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~r--l-~hA~L~~G~~G~Gk~~lA 42 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGR--I-PGALLLQSDEGLGVESLV 42 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCC--c-ceeEeeECCCCCCHHHHH
Confidence 468888888888999988753 1 24 478999999999543
No 400
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=31.70 E-value=50 Score=44.07 Aligned_cols=43 Identities=26% Similarity=0.320 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCc------ceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGH------CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~------~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
++|-+.+..|.+++.+.. .|- .-.+|.+|||+|||- |+-||+-
T Consensus 565 ~gQ~eAv~aIa~AI~~sr-~gl~~~~~~awflflGpdgvGKt~--lAkaLA~ 613 (898)
T KOG1051|consen 565 IGQDEAVAAIAAAIRRSR-AGLKDPNPDAWFLFLGPDGVGKTE--LAKALAE 613 (898)
T ss_pred cchHHHHHHHHHHHHhhh-cccCCCCCCeEEEEECCCchhHHH--HHHHHHH
Confidence 579999999999987653 121 246899999999997 5556653
No 401
>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=31.27 E-value=47 Score=36.48 Aligned_cols=16 Identities=38% Similarity=0.615 Sum_probs=13.9
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
+.+|=+|||.|||-.+
T Consensus 3 vi~lvGptGvGKTTt~ 18 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTI 18 (196)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred EEEEECCCCCchHhHH
Confidence 6789999999999764
No 402
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=31.17 E-value=62 Score=42.65 Aligned_cols=43 Identities=33% Similarity=0.298 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCc-------ceEEEECCCCCchhHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGH-------CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~-------~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-+|-+....|.+++.+.. -|- ...||=+|||.|||- |+=+|+-
T Consensus 494 iGQd~AV~avs~aIrraR-aGL~dp~rPigsFlF~GPTGVGKTE--LAkaLA~ 543 (786)
T COG0542 494 IGQDEAVEAVSDAIRRAR-AGLGDPNRPIGSFLFLGPTGVGKTE--LAKALAE 543 (786)
T ss_pred eChHHHHHHHHHHHHHHh-cCCCCCCCCceEEEeeCCCcccHHH--HHHHHHH
Confidence 378999999999998753 221 257899999999996 5556654
No 403
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=31.01 E-value=33 Score=40.31 Aligned_cols=42 Identities=19% Similarity=0.295 Sum_probs=26.0
Q ss_pred CCCCHHHHHHHHHHHHH-HHhhhcCCcc-eEEEECCCCCchhHHH
Q 000814 29 YQPYGSQLVFMCRVIST-LDRAQRDGHC-HALLESPTGTGKSLSL 71 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~a-L~~~~~~G~~-~~LlESPTGTGKTLal 71 (1269)
|.+-..|.++.+.+..- ++... +|.. .++.=++||||||..+
T Consensus 55 f~~~~~q~~vy~~~~~plv~~~~-~G~n~~i~ayG~tgSGKTyTm 98 (319)
T cd01376 55 YGTECTQEDIFSREVKPIVPHLL-SGQNATVFAYGSTGAGKTHTM 98 (319)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHh-CCCceEEEEECCCCCCCcEEE
Confidence 45667788887773322 22211 2332 3466899999999866
No 404
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=30.92 E-value=53 Score=44.13 Aligned_cols=46 Identities=24% Similarity=0.405 Sum_probs=30.7
Q ss_pred ecCCC----CCCHHHHHHHHHHHHHHHhhhcCCc-ceEEEECCCCCchhHH
Q 000814 25 VEFPY----QPYGSQLVFMCRVISTLDRAQRDGH-CHALLESPTGTGKSLS 70 (1269)
Q Consensus 25 v~FPY----~PYp~Q~e~M~~V~~aL~~~~~~G~-~~~LlESPTGTGKTLa 70 (1269)
-.|+| -|=..|.++-..++.-+-...-.|. |-++.=++||||||..
T Consensus 95 k~ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIFAYGQTGTGKTyT 145 (1041)
T KOG0243|consen 95 KTFTFDKVFGPESQQEDLYDQAVSPIIKEVLEGYNCTIFAYGQTGTGKTYT 145 (1041)
T ss_pred ceeecceeeCcchhHHHHHHHHHHHHHHHHhccCCceEEEecCCCCCceee
Confidence 33775 3445688877776665544444554 4567799999999964
No 405
>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=30.87 E-value=1.3e+02 Score=39.83 Aligned_cols=56 Identities=14% Similarity=0.079 Sum_probs=36.7
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEe-ccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEEe
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLK-KKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILLD 700 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK-~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILLD 700 (1269)
|.+-.-|+...++.|||+++ +..||.- .|. -+....|.+||.=|.-.+=-+|++++
T Consensus 328 G~i~vLVaTd~lerGIDI~~--vd~VI~~~~P~--------------------s~~~y~qRiGRaGR~G~~g~ai~v~~ 384 (742)
T TIGR03817 328 GELLGVATTNALELGVDISG--LDAVVIAGFPG--------------------TRASLWQQAGRAGRRGQGALVVLVAR 384 (742)
T ss_pred CCceEEEECchHhccCCccc--ccEEEEeCCCC--------------------CHHHHHHhccccCCCCCCcEEEEEeC
Confidence 55555567899999999997 5555552 111 13466799999999866533344443
No 406
>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=30.81 E-value=41 Score=44.97 Aligned_cols=45 Identities=24% Similarity=0.266 Sum_probs=33.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+.|.=+|.+-+.++++.|.+.. +.+.||-+|+|+|||..+ -+|+.
T Consensus 172 ~~~~igr~~ei~~~~~~l~r~~---~~n~lL~G~pGvGKT~l~--~~la~ 216 (852)
T TIGR03346 172 LDPVIGRDEEIRRTIQVLSRRT---KNNPVLIGEPGVGKTAIV--EGLAQ 216 (852)
T ss_pred CCcCCCcHHHHHHHHHHHhcCC---CCceEEEcCCCCCHHHHH--HHHHH
Confidence 4566678888999999998753 347899999999999743 44543
No 407
>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=30.73 E-value=1.1e+02 Score=34.87 Aligned_cols=44 Identities=20% Similarity=0.231 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
-.|+.|.+++.++++. . .| .+.+.+.=.|-|||-+ +.|.+++..
T Consensus 23 liR~~Q~~ia~~mi~~-~----~~-~n~v~QlnMGeGKTsV-I~Pmla~~L 66 (229)
T PF12340_consen 23 LIRPVQVEIAREMISP-P----SG-KNSVMQLNMGEGKTSV-IVPMLALAL 66 (229)
T ss_pred eeeHHHHHHHHHHhCC-C----CC-CCeEeeecccCCccch-HHHHHHHHH
Confidence 4689999999988863 2 23 3689999999999954 688887764
No 408
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=30.65 E-value=1.2e+02 Score=39.14 Aligned_cols=52 Identities=23% Similarity=0.367 Sum_probs=34.5
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEEec--cccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSLKK--KYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIILL 699 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VIIK~--~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIILL 699 (1269)
..||+| ...+.+|||+++ ++.||+-. +| .+-.+-|.+||+=|.... |..+++
T Consensus 509 ~~ILVa--T~vie~GvDiP~--v~~VIi~~~~r~--------------------gls~lhQ~~GRvGR~g~~-g~~il~ 562 (630)
T TIGR00643 509 VDILVA--TTVIEVGVDVPN--ATVMVIEDAERF--------------------GLSQLHQLRGRVGRGDHQ-SYCLLV 562 (630)
T ss_pred CCEEEE--CceeecCcccCC--CcEEEEeCCCcC--------------------CHHHHHHHhhhcccCCCC-cEEEEE
Confidence 567766 679999999998 44555511 11 123578999999998554 544444
No 409
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=30.63 E-value=81 Score=39.14 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=15.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.++|-+|+|+|||. |+.+...++
T Consensus 143 pl~i~G~~G~GKTH-Ll~Ai~~~l 165 (450)
T PRK14087 143 PLFIYGESGMGKTH-LLKAAKNYI 165 (450)
T ss_pred ceEEECCCCCcHHH-HHHHHHHHH
Confidence 47899999999994 334433333
No 410
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=30.52 E-value=64 Score=35.50 Aligned_cols=29 Identities=24% Similarity=0.296 Sum_probs=19.5
Q ss_pred HHhhhcCCcceEEEECCCCCchhHHHHHHH
Q 000814 46 LDRAQRDGHCHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 46 L~~~~~~G~~~~LlESPTGTGKTLalL~~A 75 (1269)
|..|...|. +.++.+|+|+|||.-.+--+
T Consensus 16 l~GGi~~g~-i~~i~G~~GsGKT~l~~~la 44 (225)
T PRK09361 16 LGGGFERGT-ITQIYGPPGSGKTNICLQLA 44 (225)
T ss_pred hcCCCCCCe-EEEEECCCCCCHHHHHHHHH
Confidence 333444454 68999999999997544433
No 411
>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=30.37 E-value=62 Score=35.67 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=17.9
Q ss_pred hhcCCcceEEEECCCCCchhHHHHHHH
Q 000814 49 AQRDGHCHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 49 ~~~~G~~~~LlESPTGTGKTLalL~~A 75 (1269)
|-..|. ..++.+|+|+|||.-.+.-+
T Consensus 16 Gi~~G~-~~~i~G~~G~GKT~l~~~~~ 41 (229)
T TIGR03881 16 GIPRGF-FVAVTGEPGTGKTIFCLHFA 41 (229)
T ss_pred CCcCCe-EEEEECCCCCChHHHHHHHH
Confidence 333453 68999999999987544333
No 412
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=30.33 E-value=1.3e+02 Score=41.16 Aligned_cols=31 Identities=32% Similarity=0.334 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.|++.+..+ +.. +.+.++.++.|||||..+
T Consensus 349 ~eQr~Av~~i---l~s-----~~v~vv~G~AGTGKTT~l 379 (988)
T PRK13889 349 GEQADALAHV---TDG-----RDLGVVVGYAGTGKSAML 379 (988)
T ss_pred HHHHHHHHHH---hcC-----CCeEEEEeCCCCCHHHHH
Confidence 6888865543 321 237899999999999853
No 413
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=29.99 E-value=77 Score=38.28 Aligned_cols=47 Identities=21% Similarity=0.157 Sum_probs=30.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
-.|+..|+.++- +.|..- --..+-+-++-|||||+-.||++|.-...
T Consensus 226 i~prn~eQ~~AL---dlLld~---dI~lV~L~G~AGtGKTlLALaAgleqv~e 272 (436)
T COG1875 226 IRPRNAEQRVAL---DLLLDD---DIDLVSLGGKAGTGKTLLALAAGLEQVLE 272 (436)
T ss_pred cCcccHHHHHHH---HHhcCC---CCCeEEeeccCCccHhHHHHHHHHHHHHH
Confidence 367765554443 232221 11357789999999999999999975543
No 414
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=29.92 E-value=40 Score=40.27 Aligned_cols=21 Identities=48% Similarity=0.716 Sum_probs=16.1
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.++|-+|+|||||+ |+-+++.
T Consensus 158 gvLL~GppGtGKT~--lakaia~ 178 (364)
T TIGR01242 158 GVLLYGPPGTGKTL--LAKAVAH 178 (364)
T ss_pred eEEEECCCCCCHHH--HHHHHHH
Confidence 48999999999996 4555543
No 415
>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=29.91 E-value=73 Score=36.81 Aligned_cols=23 Identities=26% Similarity=0.437 Sum_probs=16.1
Q ss_pred EEECCCCCchhHHHHHHHHHHHH
Q 000814 58 LLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 58 LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
++.+|.|.|||......++.|+.
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~ 23 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWAL 23 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHh
Confidence 57899999999987777776654
No 416
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=29.81 E-value=52 Score=41.45 Aligned_cols=32 Identities=28% Similarity=0.313 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
..|.++.+.+.+....+ ..+++.++|||||++
T Consensus 211 ~~~~~~~~~~~~~A~~~-~pvlI~GE~GtGK~~ 242 (520)
T PRK10820 211 PKMRQVVEQARKLAMLD-APLLITGDTGTGKDL 242 (520)
T ss_pred HHHHHHHHHHHHHhCCC-CCEEEECCCCccHHH
Confidence 34555555554433333 368999999999997
No 417
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=29.61 E-value=72 Score=37.76 Aligned_cols=37 Identities=27% Similarity=0.373 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHH
Q 000814 32 YGSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSL 71 (1269)
Q Consensus 32 Yp~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLal 71 (1269)
+.+|...+..+...+..+. -.|+ ||.+|.|+|||-..
T Consensus 8 ~~~q~~~~~~L~~~~~~~~---l~ha~Lf~G~~G~gk~~~a 45 (329)
T PRK08058 8 TALQPVVVKMLQNSIAKNR---LSHAYLFEGAKGTGKKATA 45 (329)
T ss_pred HhhHHHHHHHHHHHHHcCC---CCceEEEECCCCCCHHHHH
Confidence 3458888888888887652 2366 89999999998543
No 418
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=29.50 E-value=60 Score=37.91 Aligned_cols=38 Identities=21% Similarity=0.258 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL~~ 74 (1269)
+|......+...+..+. -.|+ ||.+|-|+|||.....-
T Consensus 8 g~~~~~~~l~~~~~~~~---~~ha~Lf~G~~G~Gk~~la~~~ 46 (313)
T PRK05564 8 GHENIKNRIKNSIIKNR---FSHAHIIVGEDGIGKSLLAKEI 46 (313)
T ss_pred CcHHHHHHHHHHHHcCC---CCceEEeECCCCCCHHHHHHHH
Confidence 68888888888887653 2356 89999999999654333
No 419
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=29.45 E-value=58 Score=46.01 Aligned_cols=50 Identities=26% Similarity=0.351 Sum_probs=37.1
Q ss_pred ceeeCC-eeecCC-C--------CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 17 AYHVGG-IQVEFP-Y--------QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 17 ~f~i~G-i~v~FP-Y--------~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
-|.++. +.|.-| | -|-.+|++..+.|+.|++.+ -.+|+-+|||+|||-.+
T Consensus 1808 ~~kv~~sv~vr~~err~~l~~~~~~l~sql~vlEsV~~cIn~n-----wPlIlvG~t~~GKt~~l 1867 (4600)
T COG5271 1808 CFKVGHSVTVRMKERRPRLDDSFVLLHSQLQVLESVMRCINMN-----WPLILVGDTGVGKTSLL 1867 (4600)
T ss_pred HhhcCceEEEeccccCCCcccchhhhhhhhHHHHHHHHHHhcC-----CCEEEEcCCCCchHHHH
Confidence 345554 555555 2 24468999999999999975 36899999999999543
No 420
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=29.42 E-value=1.5e+02 Score=38.64 Aligned_cols=58 Identities=22% Similarity=0.200 Sum_probs=37.0
Q ss_pred ccCCcEEEEeeccceeecccCCC-CCce-----EEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCe
Q 000814 620 NKKGASFLAVCRGKIVVGIPFPN-INDI-----QVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDY 693 (1269)
Q Consensus 620 ~~~GAVLfAV~rGKfSEGIDF~d-d~lR-----~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~Dy 693 (1269)
++.|.|++| ..-.+.|+|++. +..+ +||--. .+...+.-+|.+||.=|- .|.
T Consensus 519 g~~g~VlVA--TdmAgRGtDI~l~~~V~~~GGLhVI~~d-------------------~P~s~r~y~hr~GRTGRq-G~~ 576 (656)
T PRK12898 519 GQRGRITVA--TNMAGRGTDIKLEPGVAARGGLHVILTE-------------------RHDSARIDRQLAGRCGRQ-GDP 576 (656)
T ss_pred CCCCcEEEE--ccchhcccCcCCccchhhcCCCEEEEcC-------------------CCCCHHHHHHhcccccCC-CCC
Confidence 345788766 788999999983 3232 444311 112234457999999996 566
Q ss_pred EEEEEE
Q 000814 694 GAIILL 699 (1269)
Q Consensus 694 GvIILL 699 (1269)
|..+++
T Consensus 577 G~s~~~ 582 (656)
T PRK12898 577 GSYEAI 582 (656)
T ss_pred eEEEEE
Confidence 776665
No 421
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=29.06 E-value=35 Score=36.01 Aligned_cols=14 Identities=36% Similarity=0.688 Sum_probs=12.8
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
..+|.+|+|+|||-
T Consensus 3 ii~l~G~~GsGKsT 16 (180)
T TIGR03263 3 LIVISGPSGVGKST 16 (180)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999995
No 422
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=29.05 E-value=42 Score=39.97 Aligned_cols=48 Identities=27% Similarity=0.403 Sum_probs=29.9
Q ss_pred eeecCC--CCCCHHHHHHHHHHHHH-HHhhhcCCcc-eEEEECCCCCchhHHH
Q 000814 23 IQVEFP--YQPYGSQLVFMCRVIST-LDRAQRDGHC-HALLESPTGTGKSLSL 71 (1269)
Q Consensus 23 i~v~FP--Y~PYp~Q~e~M~~V~~a-L~~~~~~G~~-~~LlESPTGTGKTLal 71 (1269)
-.+.|. |.+-..|.++-..+..- ++.. =+|.. .++.=++||+|||..+
T Consensus 48 ~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~-~~G~n~~i~ayG~tgSGKTyTl 99 (352)
T cd01364 48 KTYTFDKVFGPEADQIEVYSQVVSPILDEV-LMGYNCTIFAYGQTGTGKTYTM 99 (352)
T ss_pred eeEeccccCCCCCCHHHHHHHHHHHHHHHH-hCCCeEEEEECCCCCCCCcEEe
Confidence 345555 56666788877765543 3322 23443 3455799999999865
No 423
>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=29.02 E-value=65 Score=38.00 Aligned_cols=53 Identities=13% Similarity=0.111 Sum_probs=34.4
Q ss_pred cEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeE---EEEEEe
Q 000814 624 ASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYG---AIILLD 700 (1269)
Q Consensus 624 AVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyG---vIILLD 700 (1269)
.+|+ +...++.|||++. ..||.- .. + +..+.|.+||+=|.-...| .|++++
T Consensus 280 ~ilv--aT~~~~~GiDi~~---~~vi~~-~~--~------------------~~~~iqr~GR~gR~g~~~~~~~~~~v~~ 333 (358)
T TIGR01587 280 FVIV--ATQVIEASLDISA---DVMITE-LA--P------------------IDSLIQRLGRLHRYGRKNGENFEVYIIT 333 (358)
T ss_pred eEEE--ECcchhceeccCC---CEEEEc-CC--C------------------HHHHHHHhccccCCCCCCCCCCeEEEEe
Confidence 4554 5789999999963 333321 00 0 1246799999999765544 888886
Q ss_pred cc
Q 000814 701 ER 702 (1269)
Q Consensus 701 ~R 702 (1269)
.+
T Consensus 334 ~~ 335 (358)
T TIGR01587 334 IA 335 (358)
T ss_pred ec
Confidence 54
No 424
>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=28.96 E-value=95 Score=37.65 Aligned_cols=49 Identities=8% Similarity=0.139 Sum_probs=25.9
Q ss_pred eeecCCCCCCH--HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 23 IQVEFPYQPYG--SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 23 i~v~FPY~PYp--~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+.-.|.|+.|- ..-+++..+...+.+........++|-+|+|||||.-+
T Consensus 103 l~~~~tfd~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~ 153 (405)
T TIGR00362 103 LNPKYTFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLL 153 (405)
T ss_pred CCCCCcccccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHH
Confidence 33444455541 22333444445444321111124789999999999744
No 425
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=28.94 E-value=39 Score=38.86 Aligned_cols=37 Identities=30% Similarity=0.307 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHH-HH-------hhhcCCcceEEEECCCCCchhHH
Q 000814 33 GSQLVFMCRVIST-LD-------RAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 33 p~Q~e~M~~V~~a-L~-------~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
..|+|-+++|.+. |- -|..- .+-+|+-+|.||||||+
T Consensus 183 keqieklrevve~pll~perfv~lgidp-pkgvllygppgtgktl~ 227 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDP-PKGVLLYGPPGTGKTLC 227 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCC-CCceEEeCCCCCchhHH
Confidence 4688888877765 11 11111 12378999999999974
No 426
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=28.78 E-value=75 Score=37.23 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++.+.-|.+-+..+.=.|+ -+|+-+|.|||||.
T Consensus 47 ReAagiivdlik~KkmaGr-avLlaGppgtGKTA 79 (456)
T KOG1942|consen 47 REAAGIIVDLIKSKKMAGR-AVLLAGPPGTGKTA 79 (456)
T ss_pred hhhhhHHHHHHHhhhccCc-EEEEecCCCCchhH
Confidence 4445556666666555565 47999999999994
No 427
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=28.74 E-value=31 Score=44.85 Aligned_cols=13 Identities=62% Similarity=0.948 Sum_probs=12.3
Q ss_pred EEEECCCCCchhH
Q 000814 57 ALLESPTGTGKSL 69 (1269)
Q Consensus 57 ~LlESPTGTGKTL 69 (1269)
+||-+|.||||||
T Consensus 708 ILLYGPPGTGKTL 720 (953)
T KOG0736|consen 708 ILLYGPPGTGKTL 720 (953)
T ss_pred eEEECCCCCchHH
Confidence 6999999999997
No 428
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=28.73 E-value=44 Score=42.74 Aligned_cols=24 Identities=17% Similarity=0.365 Sum_probs=18.8
Q ss_pred HHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 41 RVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 41 ~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
.++.++.+. .++|+++-||+|||-
T Consensus 272 ell~av~e~-----QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 272 ELLKAVKEH-----QVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHhC-----cEEEEEcCCCCCccc
Confidence 455667664 389999999999994
No 429
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=28.71 E-value=44 Score=40.17 Aligned_cols=24 Identities=21% Similarity=0.354 Sum_probs=20.2
Q ss_pred EEECCCCCchhHHHHHHHHHHHHH
Q 000814 58 LLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 58 LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
|=-|=||+||||.+..|.+.+..+
T Consensus 211 IGIAfTGSGKTlvFvLP~imf~Le 234 (610)
T KOG0341|consen 211 IGIAFTGSGKTLVFVLPVIMFALE 234 (610)
T ss_pred eeEEeecCCceEEEeHHHHHHHHH
Confidence 345779999999999999988765
No 430
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=28.57 E-value=46 Score=42.22 Aligned_cols=40 Identities=30% Similarity=0.257 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 29 YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
|...-++-..|..+.+.+.+-.+.+ .++|+.++|||||++
T Consensus 218 f~~iiG~S~~m~~~~~~i~~~A~s~-~pVLI~GE~GTGKe~ 257 (538)
T PRK15424 218 LGDLLGQSPQMEQVRQTILLYARSS-AAVLIQGETGTGKEL 257 (538)
T ss_pred hhheeeCCHHHHHHHHHHHHHhCCC-CcEEEECCCCCCHHH
Confidence 3333345556777777766543333 379999999999997
No 431
>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]
Probab=28.47 E-value=46 Score=40.59 Aligned_cols=26 Identities=27% Similarity=0.534 Sum_probs=21.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHHh
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQNC 82 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~~ 82 (1269)
-.||-++.|||||++| +=|+.|+..+
T Consensus 181 r~vL~Ge~GtGKSiaL-~qa~h~a~~~ 206 (461)
T KOG3928|consen 181 RFVLDGEPGTGKSIAL-AQAVHYAADQ 206 (461)
T ss_pred EEEEeCCCCCchhhHH-HHHHHHHhcC
Confidence 3699999999999985 7778898764
No 432
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=28.38 E-value=44 Score=40.77 Aligned_cols=21 Identities=43% Similarity=0.697 Sum_probs=16.5
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+||.+|+|||||+ |+-+++.
T Consensus 181 gvLL~GppGTGKT~--LAkalA~ 201 (398)
T PTZ00454 181 GVLLYGPPGTGKTM--LAKAVAH 201 (398)
T ss_pred eEEEECCCCCCHHH--HHHHHHH
Confidence 58999999999997 4555554
No 433
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=28.17 E-value=43 Score=39.42 Aligned_cols=48 Identities=19% Similarity=0.254 Sum_probs=28.3
Q ss_pred eecCC--CCCCHHHHHHHHHHHHHHHhhhcCCc-ceEEEECCCCCchhHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVISTLDRAQRDGH-CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~-~~~LlESPTGTGKTLal 71 (1269)
.+.|. |.|-..|.++-+.+..-+-...=+|. ..++.=++||||||..+
T Consensus 44 ~f~FD~vf~~~~~q~~vy~~~~~~~v~~~~~G~n~~i~ayG~tgSGKT~Tm 94 (325)
T cd01369 44 TFSFDRVFPPNTTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTM 94 (325)
T ss_pred EEEcCeEECCCCCHHHHHHHHHHHHHHHHHcCccceEEEeCCCCCCceEEe
Confidence 44444 45656787777665432222112333 23466899999999865
No 434
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=28.16 E-value=64 Score=39.14 Aligned_cols=17 Identities=35% Similarity=0.444 Sum_probs=14.5
Q ss_pred eEEEECCCCCchhHHHH
Q 000814 56 HALLESPTGTGKSLSLL 72 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL 72 (1269)
+.+|-+|||+|||..+.
T Consensus 139 ii~lvGptGvGKTTtia 155 (374)
T PRK14722 139 VFALMGPTGVGKTTTTA 155 (374)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 78899999999997543
No 435
>PHA02533 17 large terminase protein; Provisional
Probab=28.14 E-value=2.3e+02 Score=36.18 Aligned_cols=43 Identities=12% Similarity=-0.009 Sum_probs=31.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHH
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
-||.++|.|++++..+. . + .-.+++.|=..|||..+..-+|.+
T Consensus 56 ~Pf~L~p~Q~~i~~~~~----~----~-R~~ii~~aRq~GKStl~a~~al~~ 98 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMH----K----N-RFNACNLSRQLGKTTVVAIFLLHY 98 (534)
T ss_pred eecCCcHHHHHHHHHHh----c----C-eEEEEEEcCcCChHHHHHHHHHHH
Confidence 58889999999887652 1 1 246899999999998755444444
No 436
>PRK04296 thymidine kinase; Provisional
Probab=28.13 E-value=56 Score=35.44 Aligned_cols=24 Identities=21% Similarity=0.343 Sum_probs=18.2
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
..|+-+|.|+|||..++--+..+.
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~ 27 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYE 27 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHH
Confidence 578999999999977665555443
No 437
>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=28.13 E-value=90 Score=35.31 Aligned_cols=32 Identities=13% Similarity=0.011 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
..+++|.+.|.... ++..++.+-++.|+|||-
T Consensus 3 ~~~~~l~~~L~~~~-~~~~~v~I~G~~G~GKT~ 34 (287)
T PF00931_consen 3 KEIEKLKDWLLDNS-NEVRVVAIVGMGGIGKTT 34 (287)
T ss_dssp HHHHHHHHHHHTTT-TSSEEEEEEESTTSSHHH
T ss_pred HHHHHHHHHhhCCC-CCeEEEEEEcCCcCCcce
Confidence 45678888887733 345688999999999995
No 438
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=28.12 E-value=61 Score=41.07 Aligned_cols=37 Identities=27% Similarity=0.240 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceE-EEECCCCCchhHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHA-LLESPTGTGKSLSLL 72 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~-LlESPTGTGKTLalL 72 (1269)
-+|......+..+++.+. -.|+ ||-+|.|+|||-+..
T Consensus 17 iGqe~v~~~L~~~I~~gr---l~hayLf~Gp~G~GKTt~Ar 54 (535)
T PRK08451 17 IGQESVSKTLSLALDNNR---LAHAYLFSGLRGSGKTSSAR 54 (535)
T ss_pred cCcHHHHHHHHHHHHcCC---CCeeEEEECCCCCcHHHHHH
Confidence 478888888888887653 2355 899999999996543
No 439
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=28.09 E-value=53 Score=40.07 Aligned_cols=43 Identities=19% Similarity=0.251 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
.|-|+|+.-|--+.+ |+ -++--|-||+|||.|+|.|++..++.
T Consensus 43 ~ptpiqRKTipliLe--------~~-dvv~martgsgktaaf~ipm~e~Lk~ 85 (529)
T KOG0337|consen 43 TPTPIQRKTIPLILE--------GR-DVVGMARTGSGKTAAFLIPMIEKLKS 85 (529)
T ss_pred CCCchhcccccceee--------cc-ccceeeecCCcchhhHHHHHHHHHhh
Confidence 478888876654333 22 25667899999999999999987764
No 440
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=27.91 E-value=43 Score=43.98 Aligned_cols=22 Identities=45% Similarity=0.650 Sum_probs=17.2
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+||.+|+|||||+ |+-++++.
T Consensus 489 giLL~GppGtGKT~--lakalA~e 510 (733)
T TIGR01243 489 GVLLFGPPGTGKTL--LAKAVATE 510 (733)
T ss_pred eEEEECCCCCCHHH--HHHHHHHh
Confidence 36889999999997 56666653
No 441
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=27.87 E-value=22 Score=47.77 Aligned_cols=61 Identities=18% Similarity=0.341 Sum_probs=40.0
Q ss_pred hHHhhcccccCcHHHHHHHHhc----------cCcEEEecccccccHhh--hhhhccCCCccEEEecccccHHHHHHH
Q 000814 236 DLVNVGQVVRGCSYYAARSMAD----------DAQLVFCPYSYIINPVI--RGAMEVDIKGAILILDEAHNIEDIARD 301 (1269)
Q Consensus 236 dL~~~g~~~~~CPYy~aR~~a~----------~ADIVV~nYnyLld~~i--R~~l~i~l~~~ivIfDEAHNLed~a~d 301 (1269)
+|.++|...++--||.+-+..+ .-.|.|+.|..+|.+.. ++. .=..+|+||||||-..-..
T Consensus 683 ElKRwcPglKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~AFkrk-----rWqyLvLDEaqnIKnfksq 755 (1958)
T KOG0391|consen 683 ELKRWCPGLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLTAFKRK-----RWQYLVLDEAQNIKNFKSQ 755 (1958)
T ss_pred HHhhhCCcceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHHHHHhh-----ccceeehhhhhhhcchhHH
Confidence 3677777777777885422111 24689999999997741 111 1245899999999776443
No 442
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=27.85 E-value=50 Score=38.84 Aligned_cols=47 Identities=15% Similarity=0.251 Sum_probs=28.9
Q ss_pred eecCC--CCCCHHHHHHHHHHHH-HHHhhhcCCc-ceEEEECCCCCchhHHH
Q 000814 24 QVEFP--YQPYGSQLVFMCRVIS-TLDRAQRDGH-CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 24 ~v~FP--Y~PYp~Q~e~M~~V~~-aL~~~~~~G~-~~~LlESPTGTGKTLal 71 (1269)
.+.|. |.+-..|.++.+.+.. .++... +|. ..++.=++||||||..+
T Consensus 41 ~f~fd~vf~~~~~q~~vy~~~~~p~v~~~l-~G~n~~i~ayG~tgSGKT~T~ 91 (321)
T cd01374 41 SFTFDRVFGGESTNREVYERIAKPVVRSAL-EGYNGTIFAYGQTSSGKTFTM 91 (321)
T ss_pred EEecCeEECCCCCHHHHHHHHHHHHHHHHH-CCCceeEEeecCCCCCCceec
Confidence 44444 4565678888776543 233222 233 34566999999999875
No 443
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=27.79 E-value=65 Score=41.13 Aligned_cols=39 Identities=15% Similarity=0.234 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
-+|...+..+..++.++. -++ ..||-+|.|+|||.+..+
T Consensus 19 iGqe~iv~~L~~~i~~~~-i~h-ayLf~Gp~G~GKTt~Ar~ 57 (563)
T PRK06647 19 EGQDFVVETLKHSIESNK-IAN-AYIFSGPRGVGKTSSARA 57 (563)
T ss_pred cCcHHHHHHHHHHHHcCC-CCe-EEEEECCCCCCHHHHHHH
Confidence 379999998999988753 221 258999999999976544
No 444
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=27.76 E-value=64 Score=42.64 Aligned_cols=39 Identities=31% Similarity=0.417 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.+-+..+++.|.+. .+.+.||-+|+|||||.. .-+|++.
T Consensus 192 ~~ei~~~i~iL~r~---~~~n~LLvGppGvGKT~l--ae~la~~ 230 (758)
T PRK11034 192 EKELERAIQVLCRR---RKNNPLLVGESGVGKTAI--AEGLAWR 230 (758)
T ss_pred CHHHHHHHHHHhcc---CCCCeEEECCCCCCHHHH--HHHHHHH
Confidence 33455666666653 234789999999999974 4555553
No 445
>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=27.74 E-value=48 Score=36.19 Aligned_cols=16 Identities=50% Similarity=0.806 Sum_probs=13.9
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
..++-+|||+|||-.+
T Consensus 3 lilI~GptGSGKTTll 18 (198)
T cd01131 3 LVLVTGPTGSGKSTTL 18 (198)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5799999999999754
No 446
>CHL00195 ycf46 Ycf46; Provisional
Probab=27.66 E-value=49 Score=41.47 Aligned_cols=21 Identities=43% Similarity=0.444 Sum_probs=17.0
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.+||-+|.|||||+ |+-|++.
T Consensus 261 GILL~GPpGTGKTl--lAkaiA~ 281 (489)
T CHL00195 261 GLLLVGIQGTGKSL--TAKAIAN 281 (489)
T ss_pred eEEEECCCCCcHHH--HHHHHHH
Confidence 47999999999996 5667765
No 447
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=27.63 E-value=68 Score=37.15 Aligned_cols=16 Identities=44% Similarity=0.640 Sum_probs=13.2
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
+.+|=+|||+|||-.+
T Consensus 196 vi~~vGptGvGKTTt~ 211 (282)
T TIGR03499 196 VIALVGPTGVGKTTTL 211 (282)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5677799999999754
No 448
>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=27.63 E-value=73 Score=42.22 Aligned_cols=43 Identities=23% Similarity=0.243 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhh----hcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRA----QRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~----~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+|.+..+.|.+.+... ...| .+++|-+|+|||||. |+-+|+..
T Consensus 324 G~~~~k~~i~~~~~~~~~~~~~~~-~~lll~GppG~GKT~--lAk~iA~~ 370 (775)
T TIGR00763 324 GLKKVKERILEYLAVQKLRGKMKG-PILCLVGPPGVGKTS--LGKSIAKA 370 (775)
T ss_pred ChHHHHHHHHHHHHHHHhhcCCCC-ceEEEECCCCCCHHH--HHHHHHHH
Confidence 3555555665543311 1123 378999999999995 45566554
No 449
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=27.54 E-value=92 Score=34.31 Aligned_cols=15 Identities=27% Similarity=0.297 Sum_probs=13.4
Q ss_pred ceEEEECCCCCchhH
Q 000814 55 CHALLESPTGTGKSL 69 (1269)
Q Consensus 55 ~~~LlESPTGTGKTL 69 (1269)
.+++|-+|+|||||-
T Consensus 43 ~~~~l~G~~G~GKT~ 57 (227)
T PRK08903 43 RFFYLWGEAGSGRSH 57 (227)
T ss_pred CeEEEECCCCCCHHH
Confidence 368999999999995
No 450
>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=27.50 E-value=83 Score=36.86 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=14.0
Q ss_pred ceEEEECCCCCchhHH
Q 000814 55 CHALLESPTGTGKSLS 70 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLa 70 (1269)
.+.++-+|||+|||-.
T Consensus 145 ~~ili~G~tGsGKTTl 160 (308)
T TIGR02788 145 KNIIISGGTGSGKTTF 160 (308)
T ss_pred CEEEEECCCCCCHHHH
Confidence 4799999999999963
No 451
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=27.43 E-value=57 Score=38.59 Aligned_cols=48 Identities=23% Similarity=0.349 Sum_probs=30.2
Q ss_pred eeecCC--CCCCHHHHHHHHHHHHH-HHhhhcCCcc-eEEEECCCCCchhHHH
Q 000814 23 IQVEFP--YQPYGSQLVFMCRVIST-LDRAQRDGHC-HALLESPTGTGKSLSL 71 (1269)
Q Consensus 23 i~v~FP--Y~PYp~Q~e~M~~V~~a-L~~~~~~G~~-~~LlESPTGTGKTLal 71 (1269)
-.+.|. |.+-..|.++-+.+..- ++.. =+|.. .++.=++||||||..+
T Consensus 40 ~~f~FD~vf~~~~~q~~vy~~~~~plv~~~-~~G~n~~i~ayG~tgSGKT~Tm 91 (341)
T cd01372 40 KSFTFDYVFDPSTSQEEVYNTCVAPLVDGL-FEGYNATVLAYGQTGSGKTYTM 91 (341)
T ss_pred cEEeccccCCCCCCHHHHHHHHHHHHHHHH-hCCCccceeeecCCCCCCcEEe
Confidence 345555 45666788877776632 3222 23432 3567999999999875
No 452
>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=27.40 E-value=65 Score=36.42 Aligned_cols=24 Identities=29% Similarity=0.257 Sum_probs=17.8
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
..++-+|||+|||.-.+--+..++
T Consensus 32 ~~~i~g~~G~GKT~l~~~~~~~~~ 55 (271)
T cd01122 32 LIILTAGTGVGKTTFLREYALDLI 55 (271)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHH
Confidence 689999999999975554444443
No 453
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=27.21 E-value=78 Score=40.02 Aligned_cols=35 Identities=26% Similarity=0.311 Sum_probs=22.7
Q ss_pred HHHHHHHHHhhhcCC--cceEEEECCCCCchhHHHHH
Q 000814 39 MCRVISTLDRAQRDG--HCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 39 M~~V~~aL~~~~~~G--~~~~LlESPTGTGKTLalL~ 73 (1269)
..+|..-|+...... +.++||-+|+|+|||-++-+
T Consensus 28 v~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~ 64 (519)
T PF03215_consen 28 VEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKV 64 (519)
T ss_pred HHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHH
Confidence 456666665432111 24789999999999986533
No 454
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=27.15 E-value=50 Score=38.85 Aligned_cols=14 Identities=36% Similarity=0.449 Sum_probs=12.9
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
++++-+|||+|||-
T Consensus 6 ii~I~GpTasGKS~ 19 (300)
T PRK14729 6 IVFIFGPTAVGKSN 19 (300)
T ss_pred EEEEECCCccCHHH
Confidence 68999999999995
No 455
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=26.87 E-value=72 Score=40.41 Aligned_cols=35 Identities=26% Similarity=0.278 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
++-..|..+.+.+.+-.+.. .++++.+++||||++
T Consensus 216 G~S~~m~~~~~~i~~~A~~~-~pVLI~GE~GTGKe~ 250 (526)
T TIGR02329 216 GASAPMEQVRALVRLYARSD-ATVLILGESGTGKEL 250 (526)
T ss_pred eCCHHHHHHHHHHHHHhCCC-CcEEEECCCCcCHHH
Confidence 44556777777765443333 479999999999997
No 456
>PF13173 AAA_14: AAA domain
Probab=26.85 E-value=51 Score=33.09 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=14.3
Q ss_pred ceEEEECCCCCchhHHH
Q 000814 55 CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLal 71 (1269)
++.++.+|.|+|||-.+
T Consensus 3 ~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLL 19 (128)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 37899999999999643
No 457
>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=26.74 E-value=27 Score=43.01 Aligned_cols=21 Identities=38% Similarity=0.618 Sum_probs=17.3
Q ss_pred ceEEEECCCCCchhHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~A 75 (1269)
.|+|+-+-||||||..|=.-|
T Consensus 20 RHGLIaGATGTGKTvTLqvlA 40 (502)
T PF05872_consen 20 RHGLIAGATGTGKTVTLQVLA 40 (502)
T ss_pred ccceeeccCCCCceehHHHHH
Confidence 389999999999998765443
No 458
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=26.70 E-value=1.2e+02 Score=36.97 Aligned_cols=21 Identities=29% Similarity=0.387 Sum_probs=16.3
Q ss_pred ceEEEECCCCCchhHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCST 75 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~A 75 (1269)
.++++=+|||+|||-.+.--|
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA 195 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLA 195 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 478999999999997653333
No 459
>CHL00095 clpC Clp protease ATP binding subunit
Probab=26.69 E-value=55 Score=43.62 Aligned_cols=45 Identities=27% Similarity=0.297 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHH
Q 000814 30 QPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 30 ~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
.|--+..+-+..+++.|.+.. +.+.||-+|+|+|||.. +=+|++.
T Consensus 179 ~~~igr~~ei~~~~~~L~r~~---~~n~lL~G~pGvGKTal--~~~la~~ 223 (821)
T CHL00095 179 DPVIGREKEIERVIQILGRRT---KNNPILIGEPGVGKTAI--AEGLAQR 223 (821)
T ss_pred CCCCCcHHHHHHHHHHHcccc---cCCeEEECCCCCCHHHH--HHHHHHH
Confidence 343345555667777777543 45789999999999974 4455543
No 460
>CHL00206 ycf2 Ycf2; Provisional
Probab=26.30 E-value=45 Score=47.70 Aligned_cols=20 Identities=40% Similarity=0.471 Sum_probs=16.7
Q ss_pred EEEECCCCCchhHHHHHHHHHH
Q 000814 57 ALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 57 ~LlESPTGTGKTLalL~~ALaw 78 (1269)
+||-+|+|||||+ |+-|||-
T Consensus 1633 ILLiGPPGTGKTl--LAKALA~ 1652 (2281)
T CHL00206 1633 ILVIGSIGTGRSY--LVKYLAT 1652 (2281)
T ss_pred eEEECCCCCCHHH--HHHHHHH
Confidence 7999999999996 6667764
No 461
>PHA02774 E1; Provisional
Probab=26.26 E-value=83 Score=40.25 Aligned_cols=37 Identities=24% Similarity=0.463 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 37 VFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 37 e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.|+..+..-+....|. ..++|-+|.|||||+ +|.+|.
T Consensus 419 ~fl~~lk~~l~~~PKk--nciv~~GPP~TGKS~--fa~sL~ 455 (613)
T PHA02774 419 SFLTALKDFLKGIPKK--NCLVIYGPPDTGKSM--FCMSLI 455 (613)
T ss_pred HHHHHHHHHHhcCCcc--cEEEEECCCCCCHHH--HHHHHH
Confidence 5777776666543211 258999999999996 566664
No 462
>PHA00547 hypothetical protein
Probab=26.14 E-value=1.1e+02 Score=35.33 Aligned_cols=35 Identities=20% Similarity=0.227 Sum_probs=25.5
Q ss_pred HHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHH
Q 000814 41 RVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQ 80 (1269)
Q Consensus 41 ~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~ 80 (1269)
++...+... ..-++++|-|||||+..-.-|.-|.+
T Consensus 67 k~VK~ik~s-----pis~i~G~LGsGKTlLMT~LA~~~K~ 101 (337)
T PHA00547 67 RLVNFIWDN-----PLSVIIGKLGTGKTLLLTYLSQTMKL 101 (337)
T ss_pred HHHHHHhcC-----CceEEeccCCCchhHHHHHHHHHHHh
Confidence 455556543 47899999999999876666666655
No 463
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=26.12 E-value=2.1e+02 Score=38.79 Aligned_cols=24 Identities=38% Similarity=0.512 Sum_probs=18.0
Q ss_pred ceEEEECCCCCchhHHHHHHHHHH
Q 000814 55 CHALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 55 ~~~LlESPTGTGKTLalL~~ALaw 78 (1269)
.|+++=+|||+|||..+-.-+..+
T Consensus 476 ~n~~I~G~TGSGKS~l~~~li~q~ 499 (893)
T TIGR03744 476 AHLLILGPTGAGKSATLTNLLMQV 499 (893)
T ss_pred ccEEEECCCCCCHHHHHHHHHHHH
Confidence 489999999999998654443333
No 464
>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=25.99 E-value=75 Score=35.91 Aligned_cols=15 Identities=40% Similarity=0.663 Sum_probs=13.3
Q ss_pred eEEEECCCCCchhHH
Q 000814 56 HALLESPTGTGKSLS 70 (1269)
Q Consensus 56 ~~LlESPTGTGKTLa 70 (1269)
.+.+-+|+|||||=.
T Consensus 34 ~~~~~GpagtGKtet 48 (231)
T PF12774_consen 34 GGALSGPAGTGKTET 48 (231)
T ss_dssp EEEEESSTTSSHHHH
T ss_pred CCCCcCCCCCCchhH
Confidence 478999999999975
No 465
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=25.84 E-value=4e+02 Score=34.24 Aligned_cols=61 Identities=28% Similarity=0.578 Sum_probs=41.1
Q ss_pred EeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccC-CCeEEEEEE---eccc
Q 000814 628 AVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHR-FDYGAIILL---DERF 703 (1269)
Q Consensus 628 AV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk-~DyGvIILL---D~Rf 703 (1269)
.|-..-++-|||||-.... | . ....|.+|..++- ..|-+||+=|-- .|+|.|+|+ +.+|
T Consensus 494 VVTTAAL~AGVDFPASQVI-------F-----E--sLaMG~~WLs~~E---F~QM~GRAGRp~yHdrGkVyllvepg~~Y 556 (830)
T COG1202 494 VVTTAALAAGVDFPASQVI-------F-----E--SLAMGIEWLSVRE---FQQMLGRAGRPDYHDRGKVYLLVEPGKKY 556 (830)
T ss_pred EeehhhhhcCCCCchHHHH-------H-----H--HHHcccccCCHHH---HHHHhcccCCCCcccCceEEEEecCChhh
Confidence 3446789999999974431 1 1 1236899987654 456677776654 599999998 5566
Q ss_pred cc
Q 000814 704 QE 705 (1269)
Q Consensus 704 ~~ 705 (1269)
..
T Consensus 557 ~~ 558 (830)
T COG1202 557 HA 558 (830)
T ss_pred cc
Confidence 43
No 466
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=25.77 E-value=47 Score=39.60 Aligned_cols=20 Identities=40% Similarity=0.762 Sum_probs=15.6
Q ss_pred hhcCCcceEEEECCCCCchhH
Q 000814 49 AQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 49 ~~~~G~~~~LlESPTGTGKTL 69 (1269)
|.|.|. -.+|-+|||+|||-
T Consensus 269 GhR~GE-lTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 269 GHRPGE-LTVLTGPTGSGKTT 288 (514)
T ss_pred cCCCCc-eEEEecCCCCCcee
Confidence 444554 57999999999995
No 467
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.77 E-value=80 Score=40.91 Aligned_cols=41 Identities=20% Similarity=0.152 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHhhh---cCCcceEEEECCCCCchhHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQ---RDGHCHALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~---~~G~~~~LlESPTGTGKTLalL~~ 74 (1269)
-+|.+.+..|...|.... ..| ..++|-+|+|+|||-.+-+-
T Consensus 87 ~~~~~ki~~l~~~l~~~~~~~~~~-~illL~GP~GsGKTTl~~~l 130 (637)
T TIGR00602 87 AVHKKKIEEVETWLKAQVLENAPK-RILLITGPSGCGKSTTIKIL 130 (637)
T ss_pred cCcHHHHHHHHHHHHhcccccCCC-cEEEEECCCCCCHHHHHHHH
Confidence 467777778887776532 122 24899999999999755443
No 468
>PRK10536 hypothetical protein; Provisional
Probab=25.73 E-value=36 Score=39.21 Aligned_cols=32 Identities=28% Similarity=0.584 Sum_probs=23.7
Q ss_pred cCcEEEecccccccHhhhhhhccCCCccEEEecccccHHH
Q 000814 258 DAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIED 297 (1269)
Q Consensus 258 ~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLed 297 (1269)
.-.|.|+|.+|+=. ..+.+.+||+|||+|+.-
T Consensus 159 ~~~Iei~~l~ymRG--------rtl~~~~vIvDEaqn~~~ 190 (262)
T PRK10536 159 IGKVEIAPFAYMRG--------RTFENAVVILDEAQNVTA 190 (262)
T ss_pred cCcEEEecHHHhcC--------CcccCCEEEEechhcCCH
Confidence 45588888887732 246789999999998644
No 469
>PRK00300 gmk guanylate kinase; Provisional
Probab=25.44 E-value=45 Score=35.98 Aligned_cols=14 Identities=43% Similarity=0.731 Sum_probs=12.7
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
..++.+|+|+|||-
T Consensus 7 ~i~i~G~sGsGKst 20 (205)
T PRK00300 7 LIVLSGPSGAGKST 20 (205)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999994
No 470
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=25.31 E-value=67 Score=37.10 Aligned_cols=23 Identities=17% Similarity=0.172 Sum_probs=15.2
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+.+|-+|+|.|||-...--|..+
T Consensus 74 vi~l~G~~G~GKTTt~akLA~~l 96 (272)
T TIGR00064 74 VILFVGVNGVGKTTTIAKLANKL 96 (272)
T ss_pred EEEEECCCCCcHHHHHHHHHHHH
Confidence 34455999999997654444333
No 471
>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=25.19 E-value=85 Score=33.59 Aligned_cols=27 Identities=26% Similarity=0.431 Sum_probs=17.5
Q ss_pred HHHHHHhhhcCCcceEEEECCCCCchhHH
Q 000814 42 VISTLDRAQRDGHCHALLESPTGTGKSLS 70 (1269)
Q Consensus 42 V~~aL~~~~~~G~~~~LlESPTGTGKTLa 70 (1269)
+...+.+++ - ....||.+|.|+|||-.
T Consensus 4 l~~~i~~~~-~-~~~~L~~G~~G~gkt~~ 30 (188)
T TIGR00678 4 LKRALEKGR-L-AHAYLFAGPEGVGKELL 30 (188)
T ss_pred HHHHHHcCC-C-CeEEEEECCCCCCHHHH
Confidence 445555432 1 11378999999999954
No 472
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=24.84 E-value=83 Score=28.52 Aligned_cols=24 Identities=29% Similarity=0.429 Sum_probs=18.8
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
+.+|-+|+|+|||- |.=|+.|+-.
T Consensus 25 ~tli~G~nGsGKST--llDAi~~~L~ 48 (62)
T PF13555_consen 25 VTLITGPNGSGKST--LLDAIQTVLY 48 (62)
T ss_pred EEEEECCCCCCHHH--HHHHHHHHHc
Confidence 68999999999995 5566766643
No 473
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=24.81 E-value=1.9e+02 Score=37.99 Aligned_cols=24 Identities=33% Similarity=0.480 Sum_probs=18.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
-.|+.+|.|||||+.-|-+.=+-+
T Consensus 395 lsliqgppGTgkt~vtlkav~tLL 418 (1025)
T KOG1807|consen 395 LSLIQGPPGTGKTLVTLKAVDTLL 418 (1025)
T ss_pred hheeecCCCCCceeehHHHHHHHH
Confidence 579999999999998776644433
No 474
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=24.70 E-value=52 Score=40.94 Aligned_cols=19 Identities=42% Similarity=0.538 Sum_probs=15.1
Q ss_pred eEEEECCCCCchhHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCS 74 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ 74 (1269)
.+||-+|.|||||+..-..
T Consensus 278 giLl~GpPGtGKT~lAkav 296 (494)
T COG0464 278 GVLLYGPPGTGKTLLAKAV 296 (494)
T ss_pred eeEEECCCCCCHHHHHHHH
Confidence 5899999999999844333
No 475
>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=24.46 E-value=43 Score=34.35 Aligned_cols=13 Identities=46% Similarity=0.820 Sum_probs=11.3
Q ss_pred EEEECCCCCchhH
Q 000814 57 ALLESPTGTGKSL 69 (1269)
Q Consensus 57 ~LlESPTGTGKTL 69 (1269)
.++.+|||+|||-
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 4778999999994
No 476
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=24.46 E-value=1.6e+02 Score=38.64 Aligned_cols=25 Identities=28% Similarity=0.555 Sum_probs=19.9
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
++++-|+.|||||-++..- ++|+..
T Consensus 24 ~~lV~AgaGSGKT~vl~~R-ia~Li~ 48 (721)
T PRK11773 24 NMLVLAGAGSGKTRVLVHR-IAWLMQ 48 (721)
T ss_pred CEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 7899999999999887555 556653
No 477
>PRK11827 hypothetical protein; Provisional
Probab=24.21 E-value=19 Score=32.41 Aligned_cols=47 Identities=28% Similarity=0.557 Sum_probs=29.7
Q ss_pred ccccc--eeeeccccCCCCCCCCCeeeEEeecCchhHHHHHHHhhhhccccCcccccEEeccc
Q 000814 1075 MDKTL--QISCSLCRSPLGLPENHLYVRCSVTSSAKAHLVSLLKQRQELCANVTSIPVIMTDI 1135 (1269)
Q Consensus 1075 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1135 (1269)
||++| -+.|..||.+|-+.++.=-..|.. -.|+|=.|. .||||..|-
T Consensus 1 md~~LLeILaCP~ckg~L~~~~~~~~Lic~~-----~~laYPI~d---------gIPVlL~de 49 (60)
T PRK11827 1 MDHRLLEIIACPVCNGKLWYNQEKQELICKL-----DNLAFPLRD---------GIPVLLETE 49 (60)
T ss_pred CChHHHhheECCCCCCcCeEcCCCCeEECCc-----cCeeccccC---------CccccCHHH
Confidence 56666 689999999999865442222432 234444444 588887763
No 478
>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=24.12 E-value=68 Score=38.17 Aligned_cols=16 Identities=31% Similarity=0.484 Sum_probs=14.1
Q ss_pred CCccEEEecccccHHH
Q 000814 282 IKGAILILDEAHNIED 297 (1269)
Q Consensus 282 l~~~ivIfDEAHNLed 297 (1269)
....+|||||||.|-+
T Consensus 82 ~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRT 97 (352)
T ss_pred CcCCEEEEehhHhhhh
Confidence 4679999999999988
No 479
>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=24.08 E-value=69 Score=39.09 Aligned_cols=25 Identities=32% Similarity=0.450 Sum_probs=19.1
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
|+++=+|||+|||.. |-..|.|+.+
T Consensus 44 h~~i~g~tGsGKt~~-i~~l~~~~~~ 68 (410)
T cd01127 44 HTMIIGTTGTGKTTQ-IRELLASIRA 68 (410)
T ss_pred cEEEEcCCCCCHHHH-HHHHHHHHHh
Confidence 899999999999976 4444556554
No 480
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=24.04 E-value=57 Score=39.77 Aligned_cols=42 Identities=21% Similarity=0.269 Sum_probs=28.2
Q ss_pred CCHHHHHHH---HHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 31 PYGSQLVFM---CRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 31 PYp~Q~e~M---~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
-|-+|..+. .-+...++.+. -.+.||-+|.|||||- |...|+
T Consensus 25 e~vGQ~HLlg~~~~lrr~v~~~~---l~SmIl~GPPG~GKTT--lA~liA 69 (436)
T COG2256 25 EVVGQEHLLGEGKPLRRAVEAGH---LHSMILWGPPGTGKTT--LARLIA 69 (436)
T ss_pred HhcChHhhhCCCchHHHHHhcCC---CceeEEECCCCCCHHH--HHHHHH
Confidence 455788887 34556666542 2368999999999994 344444
No 481
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.95 E-value=83 Score=40.63 Aligned_cols=38 Identities=13% Similarity=0.053 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLC 73 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~ 73 (1269)
+|......+..++.+++ - ....||.+|.|||||....+
T Consensus 20 GQe~v~~~L~~ai~~~r-i-~ha~Lf~GPpG~GKTtiAri 57 (624)
T PRK14959 20 GQETVKAILSRAAQENR-V-APAYLFSGTRGVGKTTIARI 57 (624)
T ss_pred CCHHHHHHHHHHHHcCC-C-CceEEEECCCCCCHHHHHHH
Confidence 67777777777777542 1 12456899999999975443
No 482
>PRK11823 DNA repair protein RadA; Provisional
Probab=23.91 E-value=1.8e+02 Score=36.02 Aligned_cols=23 Identities=30% Similarity=0.309 Sum_probs=17.8
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
..++-+|+|+|||.-++--+..+
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~ 104 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARL 104 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 68999999999998655554443
No 483
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=23.74 E-value=78 Score=38.99 Aligned_cols=23 Identities=30% Similarity=0.413 Sum_probs=16.3
Q ss_pred eEEEECCCCCchhHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAW 78 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw 78 (1269)
+.+|=+|||+|||-.+..-|..+
T Consensus 223 ~i~~vGptGvGKTTt~~kLA~~~ 245 (424)
T PRK05703 223 VVALVGPTGVGKTTTLAKLAARY 245 (424)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 56777999999997655444333
No 484
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=23.47 E-value=52 Score=40.49 Aligned_cols=42 Identities=26% Similarity=0.296 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhhh---cCCc---ceEEEECCCCCchhHHHHHHHHH
Q 000814 34 SQLVFMCRVISTLDRAQ---RDGH---CHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 34 ~Q~e~M~~V~~aL~~~~---~~G~---~~~LlESPTGTGKTLalL~~ALa 77 (1269)
.-.++|+++.+-+..+. +.|+ .==||=+|.|||||- +.+|+|
T Consensus 209 ~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS--~IaAmA 256 (457)
T KOG0743|consen 209 LKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSS--FIAAMA 256 (457)
T ss_pred HHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHH--HHHHHH
Confidence 45667777777665431 1121 014999999999994 456665
No 485
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=23.30 E-value=9.4e+02 Score=30.91 Aligned_cols=53 Identities=26% Similarity=0.446 Sum_probs=36.7
Q ss_pred CcEEEEeeccceeecccCCCCCceEEEE----eccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCCCeEEEEE
Q 000814 623 GASFLAVCRGKIVVGIPFPNINDIQVSL----KKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRFDYGAIIL 698 (1269)
Q Consensus 623 GAVLfAV~rGKfSEGIDF~dd~lR~VII----K~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~DyGvIIL 698 (1269)
=-||+|+ .-+-||+|+|.-.+ |.| |.-|... -+.+.|-|||+-|+.+ |-|||
T Consensus 497 ~DvLVGI--NLLREGLDiPEVsL--VAIlDADKeGFLRs------------------e~SLIQtIGRAARN~~--GkvIl 552 (663)
T COG0556 497 FDVLVGI--NLLREGLDLPEVSL--VAILDADKEGFLRS------------------ERSLIQTIGRAARNVN--GKVIL 552 (663)
T ss_pred ccEEEee--hhhhccCCCcceeE--EEEeecCccccccc------------------cchHHHHHHHHhhccC--CeEEE
Confidence 3567775 56899999997544 444 5555421 2568999999999876 55666
Q ss_pred E
Q 000814 699 L 699 (1269)
Q Consensus 699 L 699 (1269)
.
T Consensus 553 Y 553 (663)
T COG0556 553 Y 553 (663)
T ss_pred E
Confidence 4
No 486
>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=23.26 E-value=91 Score=36.82 Aligned_cols=32 Identities=16% Similarity=0.181 Sum_probs=22.9
Q ss_pred HHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHH
Q 000814 40 CRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLA 77 (1269)
Q Consensus 40 ~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALa 77 (1269)
..+..+++.+ +..++-+|||+|||-.+ .+.+.
T Consensus 134 ayL~~~ie~~-----~siii~G~t~sGKTt~l-nall~ 165 (312)
T COG0630 134 AYLWLAIEAR-----KSIIICGGTASGKTTLL-NALLD 165 (312)
T ss_pred HHHHHHHHcC-----CcEEEECCCCCCHHHHH-HHHHH
Confidence 3377788764 37999999999999643 44443
No 487
>PRK06620 hypothetical protein; Validated
Probab=23.13 E-value=47 Score=36.87 Aligned_cols=15 Identities=27% Similarity=0.603 Sum_probs=13.2
Q ss_pred eEEEECCCCCchhHH
Q 000814 56 HALLESPTGTGKSLS 70 (1269)
Q Consensus 56 ~~LlESPTGTGKTLa 70 (1269)
.++|-+|+|+|||--
T Consensus 46 ~l~l~Gp~G~GKThL 60 (214)
T PRK06620 46 TLLIKGPSSSGKTYL 60 (214)
T ss_pred eEEEECCCCCCHHHH
Confidence 489999999999963
No 488
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=23.06 E-value=88 Score=43.22 Aligned_cols=55 Identities=16% Similarity=0.219 Sum_probs=38.3
Q ss_pred cEEEEeeccceeecccCCCCCceEEEEeccccchhhhhcccCCCCcchHHHHHHHHHHhcCcccccCC--CeEEEEEEec
Q 000814 624 ASFLAVCRGKIVVGIPFPNINDIQVSLKKKYNDTYRSSKNLLSGNEWYCNQAFRALNQAIGRCIRHRF--DYGAIILLDE 701 (1269)
Q Consensus 624 AVLfAV~rGKfSEGIDF~dd~lR~VIIK~~y~d~~~~sk~~~~G~~wY~~~AmRaVNQAIGRvIRhk~--DyGvIILLD~ 701 (1269)
.|+++| +.+++|||.|. +.+||+-++-.. .....|.+||+.|--. |.-..+++|-
T Consensus 758 ~IlVsv--dmL~TG~DvP~--v~~vVf~rpvkS-------------------~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 758 NIVVTV--DLLTTGIDVPS--ICNLVFLRRVRS-------------------RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred eEEEEe--cccccCCCccc--ccEEEEecCCCC-------------------HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 455555 89999999995 555555332211 2345799999999766 5777888883
No 489
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=23.04 E-value=44 Score=41.86 Aligned_cols=49 Identities=35% Similarity=0.522 Sum_probs=25.9
Q ss_pred eeeCCeeecCC--CCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 18 YHVGGIQVEFP--YQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 18 f~i~Gi~v~FP--Y~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
..|+|++-.|- |.--=.++-|=-.|++-| |.+.-+ -.||-+|.||||||
T Consensus 221 mGIGGLd~EFs~IFRRAFAsRvFpp~vie~l--Gi~HVK-GiLLyGPPGTGKTL 271 (744)
T KOG0741|consen 221 MGIGGLDKEFSDIFRRAFASRVFPPEVIEQL--GIKHVK-GILLYGPPGTGKTL 271 (744)
T ss_pred cccccchHHHHHHHHHHHHhhcCCHHHHHHc--Ccccee-eEEEECCCCCChhH
Confidence 46788877775 210001222222344443 111111 25889999999997
No 490
>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=23.02 E-value=92 Score=33.77 Aligned_cols=21 Identities=19% Similarity=0.321 Sum_probs=16.4
Q ss_pred eEEEECCCCCchhHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTL 76 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~AL 76 (1269)
..++-+|+|+|||.-.+-.+.
T Consensus 14 i~~i~G~~GsGKT~l~~~~~~ 34 (209)
T TIGR02237 14 ITQIYGPPGSGKTNICMILAV 34 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999986554433
No 491
>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=22.83 E-value=48 Score=33.28 Aligned_cols=13 Identities=46% Similarity=0.767 Sum_probs=11.7
Q ss_pred EEEECCCCCchhH
Q 000814 57 ALLESPTGTGKSL 69 (1269)
Q Consensus 57 ~LlESPTGTGKTL 69 (1269)
+++-+|+|+|||-
T Consensus 2 ii~~G~pgsGKSt 14 (143)
T PF13671_consen 2 IILCGPPGSGKST 14 (143)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6889999999994
No 492
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=22.82 E-value=68 Score=37.96 Aligned_cols=42 Identities=24% Similarity=0.369 Sum_probs=26.0
Q ss_pred CCCCHHHHHHHHHHHH-HHHhhhcCCc-ceEEEECCCCCchhHHH
Q 000814 29 YQPYGSQLVFMCRVIS-TLDRAQRDGH-CHALLESPTGTGKSLSL 71 (1269)
Q Consensus 29 Y~PYp~Q~e~M~~V~~-aL~~~~~~G~-~~~LlESPTGTGKTLal 71 (1269)
|.+-..|.++-+.+.. .++... +|. ..++.=++||+|||..+
T Consensus 56 f~~~~~q~~vy~~~~~plv~~~~-~G~n~~i~ayG~tgSGKTyTm 99 (333)
T cd01371 56 YDPNSTQEDVYNETARPLVDSVL-EGYNGTIFAYGQTGTGKTFTM 99 (333)
T ss_pred cCCCccHHHHHHHHHHHHHHHHh-CCCceeEEecCCCCCCCcEee
Confidence 5566678887665433 222222 233 23566999999999875
No 493
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=22.77 E-value=65 Score=41.52 Aligned_cols=33 Identities=30% Similarity=0.313 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHhhhcCCcceEEEECCCCCchhH
Q 000814 36 LVFMCRVISTLDRAQRDGHCHALLESPTGTGKSL 69 (1269)
Q Consensus 36 ~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTL 69 (1269)
-..|.++.+.+.+..+.+ ..++|.++|||||++
T Consensus 331 s~~~~~~~~~~~~~a~~~-~pvli~Ge~GtGK~~ 363 (638)
T PRK11388 331 SPQMRRLIHFGRQAAKSS-FPVLLCGEEGVGKAL 363 (638)
T ss_pred CHHHHHHHHHHHHHhCcC-CCEEEECCCCcCHHH
Confidence 334555555554433333 368999999999997
No 494
>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=22.76 E-value=77 Score=35.42 Aligned_cols=24 Identities=46% Similarity=0.504 Sum_probs=20.3
Q ss_pred eEEEECCCCCchhHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQ 79 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~ 79 (1269)
+.++-+|.|+|||.-.|.-|++-+
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHh
Confidence 689999999999998877777654
No 495
>PRK08727 hypothetical protein; Validated
Probab=22.76 E-value=80 Score=35.40 Aligned_cols=14 Identities=43% Similarity=0.698 Sum_probs=12.8
Q ss_pred eEEEECCCCCchhH
Q 000814 56 HALLESPTGTGKSL 69 (1269)
Q Consensus 56 ~~LlESPTGTGKTL 69 (1269)
.+++-+|+|||||-
T Consensus 43 ~l~l~G~~G~GKTh 56 (233)
T PRK08727 43 WLYLSGPAGTGKTH 56 (233)
T ss_pred eEEEECCCCCCHHH
Confidence 58999999999996
No 496
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=22.56 E-value=63 Score=34.76 Aligned_cols=41 Identities=27% Similarity=0.431 Sum_probs=24.0
Q ss_pred HHHhccCcEEEecccccccHhhhhhhccCCCccEEEecccccHH
Q 000814 253 RSMADDAQLVFCPYSYIINPVIRGAMEVDIKGAILILDEAHNIE 296 (1269)
Q Consensus 253 R~~a~~ADIVV~nYnyLld~~iR~~l~i~l~~~ivIfDEAHNLe 296 (1269)
+..++.++||+++-.....+.+.. ....-.+||||||=.+.
T Consensus 165 ~~~l~~~~vi~~T~~~~~~~~~~~---~~~~~d~vIvDEAsq~~ 205 (236)
T PF13086_consen 165 RFILKEADVIFTTLSSAASPFLSN---FKEKFDVVIVDEASQIT 205 (236)
T ss_dssp HHHHHT-SEEEEETCGGG-CCGTT--------SEEEETTGGGS-
T ss_pred hhhcccccccccccccchhhHhhh---hcccCCEEEEeCCCCcc
Confidence 677889999999976663332211 11146789999987653
No 497
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=22.49 E-value=1.7e+02 Score=38.17 Aligned_cols=25 Identities=20% Similarity=0.264 Sum_probs=19.4
Q ss_pred eEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 56 HALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 56 ~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
++++-|+.|||||..+..- ++|+..
T Consensus 17 ~~lV~AgpGSGKT~vL~~R-ia~Li~ 41 (672)
T PRK10919 17 PCLVLAGAGSGKTRVITNK-IAHLIR 41 (672)
T ss_pred CEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 6889999999999886554 666653
No 498
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=22.42 E-value=2.1e+02 Score=35.89 Aligned_cols=16 Identities=44% Similarity=0.569 Sum_probs=13.5
Q ss_pred eEEEECCCCCchhHHH
Q 000814 56 HALLESPTGTGKSLSL 71 (1269)
Q Consensus 56 ~~LlESPTGTGKTLal 71 (1269)
..++.+|+|+|||.-.
T Consensus 275 ~~li~G~~G~GKT~l~ 290 (509)
T PRK09302 275 IILVSGATGTGKTLLA 290 (509)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 6788999999999733
No 499
>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=22.38 E-value=1.4e+02 Score=39.33 Aligned_cols=36 Identities=17% Similarity=0.101 Sum_probs=25.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHH
Q 000814 27 FPYQPYGSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSL 71 (1269)
Q Consensus 27 FPY~PYp~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLal 71 (1269)
+++.--+.|++.+..+ +.. .+.++.++.|||||-.+
T Consensus 320 ~~~~l~~~Q~~Ai~~~---~~~------~~~iitGgpGTGKTt~l 355 (720)
T TIGR01448 320 LRKGLSEEQKQALDTA---IQH------KVVILTGGPGTGKTTIT 355 (720)
T ss_pred cCCCCCHHHHHHHHHH---HhC------CeEEEECCCCCCHHHHH
Confidence 3444457899876644 332 37999999999999654
No 500
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=22.32 E-value=95 Score=37.15 Aligned_cols=40 Identities=15% Similarity=0.102 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcceEEEECCCCCchhHHHHHHHHHHHHH
Q 000814 33 GSQLVFMCRVISTLDRAQRDGHCHALLESPTGTGKSLSLLCSTLAWQQN 81 (1269)
Q Consensus 33 p~Q~e~M~~V~~aL~~~~~~G~~~~LlESPTGTGKTLalL~~ALaw~~~ 81 (1269)
+.|..|++++.+.. ..+--+|-|||||.-.-..|...++.
T Consensus 131 ~~Q~~y~eai~~~d---------i~fGiGpAGTGKTyLava~av~al~~ 170 (348)
T COG1702 131 PGQNMYPEAIEEHD---------IVFGIGPAGTGKTYLAVAKAVDALGA 170 (348)
T ss_pred hhHHHHHHHHHhcC---------eeeeecccccCChhhhHHhHhhhhhh
Confidence 68999998555432 44557899999997555555544443
Done!