Query 008899
Match_columns 549
No_of_seqs 347 out of 1893
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 17:58:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008899.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008899hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 6.8E-63 1.5E-67 523.5 20.4 299 166-471 538-841 (935)
2 KOG1803 DNA helicase [Replicat 100.0 1.3E-58 2.8E-63 491.5 22.6 317 138-472 307-634 (649)
3 TIGR00376 DNA helicase, putati 100.0 1.1E-54 2.4E-59 485.9 27.4 290 166-472 334-636 (637)
4 KOG1801 tRNA-splicing endonucl 100.0 1.6E-52 3.5E-57 478.9 18.7 448 1-480 365-823 (827)
5 KOG1805 DNA replication helica 100.0 7.4E-47 1.6E-51 416.4 12.0 284 171-469 771-1078(1100)
6 KOG1807 Helicases [Replication 100.0 3.1E-46 6.8E-51 401.7 15.7 327 168-516 690-1020(1025)
7 COG1112 Superfamily I DNA and 100.0 7.1E-43 1.5E-47 400.8 23.0 293 167-471 459-754 (767)
8 PF13087 AAA_12: AAA domain; P 100.0 4.1E-40 8.9E-45 317.9 5.5 197 249-445 1-200 (200)
9 KOG1804 RNA helicase [RNA proc 100.0 5.7E-33 1.2E-37 308.8 9.5 288 173-473 416-726 (775)
10 KOG1806 DEAD box containing he 99.9 7.8E-27 1.7E-31 258.1 7.4 338 114-465 908-1267(1320)
11 PRK11054 helD DNA helicase IV; 99.6 5.5E-15 1.2E-19 167.3 12.8 225 196-465 429-677 (684)
12 TIGR01447 recD exodeoxyribonuc 99.6 2.3E-14 5E-19 159.7 14.5 57 387-448 519-575 (586)
13 TIGR01448 recD_rel helicase, p 99.6 2.1E-14 4.5E-19 164.0 12.9 77 196-282 415-495 (720)
14 PF13086 AAA_11: AAA domain; P 99.5 3.3E-15 7.1E-20 146.0 4.3 77 165-242 159-236 (236)
15 PRK10875 recD exonuclease V su 99.5 1.6E-13 3.5E-18 153.3 13.7 57 388-449 538-594 (615)
16 TIGR02768 TraA_Ti Ti-type conj 99.4 3E-12 6.4E-17 146.9 13.9 69 196-275 438-508 (744)
17 PRK13909 putative recombinatio 99.4 2.5E-12 5.4E-17 150.9 12.5 157 195-379 326-493 (910)
18 TIGR02785 addA_Gpos recombinat 99.3 1.2E-10 2.6E-15 140.5 22.6 85 196-287 387-482 (1232)
19 TIGR01073 pcrA ATP-dependent D 99.3 1.4E-10 3.1E-15 133.5 21.7 85 196-287 208-295 (726)
20 PF01443 Viral_helicase1: Vira 99.3 9.4E-12 2E-16 122.8 10.3 170 196-441 61-233 (234)
21 COG1074 RecB ATP-dependent exo 99.3 1.7E-11 3.6E-16 146.6 14.2 177 196-380 377-577 (1139)
22 PRK13826 Dtr system oriT relax 99.3 1.7E-11 3.6E-16 143.6 13.5 69 197-276 468-538 (1102)
23 TIGR02784 addA_alphas double-s 99.3 3.7E-11 8.1E-16 144.4 16.9 85 196-287 390-496 (1141)
24 TIGR00609 recB exodeoxyribonuc 99.3 3.1E-11 6.6E-16 144.0 14.6 174 196-379 295-491 (1087)
25 PRK10876 recB exonuclease V su 99.2 8.2E-11 1.8E-15 141.0 14.7 174 195-378 375-572 (1181)
26 PRK13889 conjugal transfer rel 99.2 6.1E-11 1.3E-15 138.2 12.0 70 196-276 432-503 (988)
27 PRK11773 uvrD DNA-dependent he 99.2 1.5E-10 3.3E-15 133.0 14.6 85 196-287 212-299 (721)
28 TIGR01075 uvrD DNA helicase II 99.2 1E-10 2.2E-15 134.4 13.0 85 196-287 207-294 (715)
29 PRK10919 ATP-dependent DNA hel 99.1 6.9E-10 1.5E-14 126.5 14.8 83 196-285 206-291 (672)
30 COG3973 Superfamily I DNA and 98.9 1E-09 2.2E-14 118.7 6.7 206 197-443 528-745 (747)
31 COG0507 RecD ATP-dependent exo 98.7 2.6E-09 5.7E-14 122.5 1.8 56 388-449 621-676 (696)
32 PRK13709 conjugal transfer nic 98.6 2E-07 4.3E-12 114.2 11.2 82 197-289 1062-1146(1747)
33 PRK14712 conjugal transfer nic 98.6 3.4E-07 7.3E-12 110.9 12.5 75 197-281 930-1007(1623)
34 KOG1804 RNA helicase [RNA proc 98.5 2E-08 4.3E-13 113.5 0.8 283 172-471 239-547 (775)
35 PF13538 UvrD_C_2: UvrD-like h 98.4 7.1E-08 1.5E-12 83.3 -0.1 50 388-441 55-104 (104)
36 PF13604 AAA_30: AAA domain; P 98.3 3.4E-07 7.3E-12 88.9 3.9 82 196-288 92-176 (196)
37 TIGR02760 TraI_TIGR conjugativ 98.3 1.2E-06 2.6E-11 109.8 9.5 74 196-279 1111-1189(1960)
38 PF09848 DUF2075: Uncharacteri 98.2 1.5E-07 3.3E-12 99.4 -1.2 87 194-289 80-183 (352)
39 TIGR01074 rep ATP-dependent DN 97.9 5.5E-05 1.2E-09 86.6 11.3 155 196-379 205-363 (664)
40 PF13361 UvrD_C: UvrD-like hel 97.9 1.8E-06 4E-11 89.1 -1.8 60 385-444 284-350 (351)
41 COG0210 UvrD Superfamily I DNA 97.2 0.0018 4E-08 74.0 10.5 157 195-379 211-371 (655)
42 COG3972 Superfamily I DNA and 97.1 0.0011 2.4E-08 71.3 6.9 240 195-445 293-577 (660)
43 TIGR01074 rep ATP-dependent DN 97.0 0.00032 6.9E-09 80.4 1.9 60 385-444 548-613 (664)
44 PF05970 PIF1: PIF1-like helic 96.7 0.00062 1.3E-08 72.5 1.8 78 197-275 102-192 (364)
45 TIGR02760 TraI_TIGR conjugativ 96.3 0.0061 1.3E-07 77.4 6.5 66 197-272 529-596 (1960)
46 KOG2108 3'-5' DNA helicase [Re 95.5 0.02 4.3E-07 65.6 5.7 54 388-441 674-740 (853)
47 COG0210 UvrD Superfamily I DNA 95.5 0.0039 8.4E-08 71.4 0.1 57 388-444 554-618 (655)
48 PRK10536 hypothetical protein; 95.1 0.021 4.5E-07 57.8 3.8 39 197-235 176-215 (262)
49 PF00580 UvrD-helicase: UvrD/R 94.4 0.03 6.5E-07 57.1 3.2 56 196-258 255-311 (315)
50 PF13361 UvrD_C: UvrD-like hel 94.4 0.051 1.1E-06 55.9 4.9 99 265-380 1-100 (351)
51 PF02562 PhoH: PhoH-like prote 92.4 0.16 3.5E-06 49.8 4.5 61 171-235 97-158 (205)
52 TIGR02773 addB_Gpos ATP-depend 91.9 9.5 0.00021 47.0 19.8 43 334-379 315-359 (1158)
53 COG1875 NYN ribonuclease and A 88.0 0.36 7.9E-06 50.9 2.7 40 197-236 351-391 (436)
54 PRK13709 conjugal transfer nic 80.2 2.5 5.3E-05 53.6 5.6 58 197-267 500-559 (1747)
55 TIGR02773 addB_Gpos ATP-depend 79.7 3.4 7.3E-05 50.8 6.6 58 385-442 578-663 (1158)
56 cd00046 DEXDc DEAD-like helica 77.8 2.6 5.7E-05 36.3 3.6 43 172-214 75-120 (144)
57 TIGR02774 rexB_recomb ATP-depe 77.3 15 0.00032 45.0 10.8 158 197-379 185-347 (1076)
58 PF05127 Helicase_RecD: Helica 74.2 2.3 5E-05 40.8 2.4 30 197-228 90-119 (177)
59 PHA03372 DNA packaging termina 67.7 9.1 0.0002 43.4 5.5 87 178-281 283-372 (668)
60 PF02689 Herpes_Helicase: Heli 66.5 5.1 0.00011 46.2 3.4 49 390-445 741-791 (818)
61 smart00487 DEXDc DEAD-like hel 64.2 9.2 0.0002 35.1 4.2 39 173-211 101-143 (201)
62 KOG0389 SNF2 family DNA-depend 64.1 12 0.00027 43.3 5.7 71 164-234 484-564 (941)
63 PHA03368 DNA packaging termina 62.5 11 0.00024 43.3 5.0 75 193-281 348-425 (738)
64 COG1702 PhoH Phosphate starvat 59.8 7.9 0.00017 40.8 3.1 46 197-242 243-291 (348)
65 PHA02558 uvsW UvsW helicase; P 58.5 11 0.00024 42.0 4.2 39 175-213 200-238 (501)
66 PRK14712 conjugal transfer nic 56.3 14 0.0003 46.6 4.9 58 198-268 369-428 (1623)
67 COG4098 comFA Superfamily II D 55.5 8.2 0.00018 40.7 2.3 84 107-210 132-215 (441)
68 PF13245 AAA_19: Part of AAA d 54.1 28 0.00061 28.3 4.9 50 339-397 26-75 (76)
69 PF00270 DEAD: DEAD/DEAH box h 52.0 11 0.00024 34.3 2.5 41 171-211 90-133 (169)
70 KOG0333 U5 snRNP-like RNA heli 51.4 41 0.0009 37.5 6.9 48 359-413 519-566 (673)
71 COG3410 Uncharacterized conser 50.5 5.6 0.00012 37.4 0.2 59 390-448 90-179 (191)
72 KOG0385 Chromatin remodeling c 50.3 29 0.00064 40.3 5.8 90 145-234 233-329 (971)
73 PHA03311 helicase-primase subu 49.9 15 0.00032 42.6 3.4 49 390-445 751-801 (828)
74 KOG0346 RNA helicase [RNA proc 49.5 27 0.0006 38.0 5.1 68 142-209 111-182 (569)
75 PRK10481 hypothetical protein; 48.2 66 0.0014 32.1 7.3 21 359-379 131-151 (224)
76 PRK10590 ATP-dependent RNA hel 47.5 32 0.00068 37.7 5.5 41 172-212 121-164 (456)
77 PRK04914 ATP-dependent helicas 47.3 25 0.00055 42.3 5.0 64 175-238 246-321 (956)
78 TIGR01447 recD exodeoxyribonuc 47.1 44 0.00096 38.1 6.7 112 340-462 177-315 (586)
79 KOG0987 DNA helicase PIF1/RRM3 45.7 15 0.00033 41.4 2.7 44 199-242 218-271 (540)
80 PF02399 Herpes_ori_bp: Origin 45.6 10 0.00022 44.3 1.4 52 160-211 103-156 (824)
81 PLN03142 Probable chromatin-re 44.7 25 0.00054 42.7 4.4 60 175-234 268-331 (1033)
82 PF00176 SNF2_N: SNF2 family N 44.1 11 0.00023 38.0 1.1 64 173-236 104-176 (299)
83 KOG4284 DEAD box protein [Tran 43.7 16 0.00034 41.7 2.3 58 172-229 139-205 (980)
84 PF00580 UvrD-helicase: UvrD/R 43.2 28 0.00061 35.1 4.1 58 340-399 30-102 (315)
85 PRK04296 thymidine kinase; Pro 43.0 33 0.00071 32.8 4.3 39 196-234 77-117 (190)
86 PRK10919 ATP-dependent DNA hel 42.9 26 0.00056 40.6 4.1 56 339-397 31-87 (672)
87 COG1111 MPH1 ERCC4-like helica 42.2 15 0.00033 40.5 1.9 46 170-215 101-149 (542)
88 PRK11192 ATP-dependent RNA hel 41.8 26 0.00057 37.9 3.8 44 168-211 115-161 (434)
89 PHA03333 putative ATPase subun 41.7 50 0.0011 38.3 6.0 38 196-233 293-332 (752)
90 cd00268 DEADc DEAD-box helicas 39.1 33 0.00072 32.5 3.6 40 173-212 116-158 (203)
91 PRK04837 ATP-dependent RNA hel 36.9 61 0.0013 35.0 5.6 41 172-212 129-172 (423)
92 PTZ00424 helicase 45; Provisio 34.9 38 0.00083 36.0 3.7 41 171-211 141-184 (401)
93 PTZ00110 helicase; Provisional 33.3 66 0.0014 36.3 5.3 42 170-211 247-291 (545)
94 PRK10875 recD exonuclease V su 33.2 68 0.0015 36.8 5.4 94 358-461 200-320 (615)
95 PRK13766 Hef nuclease; Provisi 32.6 39 0.00084 39.7 3.5 43 170-212 101-146 (773)
96 PF06733 DEAD_2: DEAD_2; Inte 32.4 24 0.00052 33.1 1.4 44 168-211 111-159 (174)
97 KOG0387 Transcription-coupled 31.6 55 0.0012 38.3 4.2 58 177-234 316-377 (923)
98 smart00489 DEXDc3 DEAD-like he 31.5 32 0.00069 35.4 2.3 43 169-211 204-250 (289)
99 smart00488 DEXDc2 DEAD-like he 31.5 32 0.00069 35.4 2.3 43 169-211 204-250 (289)
100 COG1061 SSL2 DNA or RNA helica 31.0 53 0.0012 36.0 4.0 37 177-213 123-162 (442)
101 KOG0345 ATP-dependent RNA heli 31.0 80 0.0017 34.9 5.1 52 160-211 115-171 (567)
102 PRK01297 ATP-dependent RNA hel 30.6 39 0.00085 37.1 2.9 38 174-211 211-251 (475)
103 PRK04537 ATP-dependent RNA hel 30.6 66 0.0014 36.5 4.8 41 172-212 130-174 (572)
104 TIGR00348 hsdR type I site-spe 30.0 1.7E+02 0.0038 33.8 8.2 67 166-232 327-402 (667)
105 PF00265 TK: Thymidine kinase; 29.9 70 0.0015 30.5 4.1 34 197-230 76-110 (176)
106 PRK02362 ski2-like helicase; P 29.7 31 0.00067 40.4 2.0 39 173-211 110-151 (737)
107 TIGR03714 secA2 accessory Sec 29.6 35 0.00076 40.0 2.3 47 173-219 161-217 (762)
108 COG1204 Superfamily II helicas 29.0 60 0.0013 38.3 4.2 44 169-212 115-161 (766)
109 PRK08769 DNA polymerase III su 28.9 42 0.0009 35.3 2.6 46 196-241 112-162 (319)
110 PRK12899 secA preprotein trans 27.9 42 0.00091 40.2 2.6 47 176-222 183-240 (970)
111 PRK11776 ATP-dependent RNA hel 27.9 86 0.0019 34.2 5.0 40 172-211 119-161 (460)
112 PF07302 AroM: AroM protein; 27.4 2.2E+02 0.0048 28.3 7.2 47 359-410 127-187 (221)
113 KOG0388 SNF2 family DNA-depend 27.2 50 0.0011 38.2 2.9 89 146-234 634-735 (1185)
114 COG4096 HsdR Type I site-speci 27.0 1.8E+02 0.004 34.4 7.4 35 176-210 256-298 (875)
115 COG0529 CysC Adenylylsulfate k 26.5 1.3E+02 0.0028 29.2 5.1 40 336-379 80-119 (197)
116 TIGR03117 cas_csf4 CRISPR-asso 26.4 47 0.001 38.3 2.6 40 174-213 180-222 (636)
117 PRK10917 ATP-dependent DNA hel 26.1 99 0.0021 35.9 5.3 43 167-211 354-397 (681)
118 PTZ00293 thymidine kinase; Pro 25.6 64 0.0014 31.8 3.1 35 196-230 76-110 (211)
119 TIGR00708 cobA cob(I)alamin ad 25.4 79 0.0017 30.2 3.6 37 196-232 96-139 (173)
120 PRK11634 ATP-dependent RNA hel 24.9 1.1E+02 0.0023 35.3 5.2 40 172-211 121-163 (629)
121 PRK11448 hsdR type I restricti 24.6 59 0.0013 40.1 3.1 35 175-209 510-552 (1123)
122 PRK01172 ski2-like helicase; P 24.4 45 0.00097 38.5 2.1 39 173-211 108-149 (674)
123 TIGR00603 rad25 DNA repair hel 23.4 1.2E+02 0.0027 35.5 5.3 60 175-234 342-413 (732)
124 COG2879 Uncharacterized small 22.9 1.3E+02 0.0028 23.9 3.6 32 10-59 23-54 (65)
125 PF13401 AAA_22: AAA domain; P 22.5 69 0.0015 27.7 2.5 33 199-232 89-125 (131)
126 PF13173 AAA_14: AAA domain 22.3 92 0.002 27.4 3.2 37 197-233 61-99 (128)
127 PRK07994 DNA polymerase III su 22.2 75 0.0016 36.7 3.2 47 196-242 118-169 (647)
128 TIGR00595 priA primosomal prot 22.0 91 0.002 34.9 3.8 32 175-210 75-106 (505)
129 TIGR00643 recG ATP-dependent D 21.7 1.5E+02 0.0032 34.1 5.5 35 175-211 337-371 (630)
130 PRK00254 ski2-like helicase; P 21.5 58 0.0013 38.0 2.2 39 173-211 111-152 (720)
131 KOG0688 Peptide chain release 21.3 3.4E+02 0.0074 28.7 7.3 69 336-406 9-108 (431)
132 PRK14958 DNA polymerase III su 21.2 69 0.0015 35.9 2.6 47 196-242 118-169 (509)
133 PLN00206 DEAD-box ATP-dependen 21.0 69 0.0015 35.8 2.6 40 172-211 242-284 (518)
134 PRK13104 secA preprotein trans 20.9 50 0.0011 39.3 1.5 47 176-222 171-227 (896)
135 PRK09401 reverse gyrase; Revie 20.8 88 0.0019 38.8 3.6 42 169-210 171-214 (1176)
136 COG1444 Predicted P-loop ATPas 20.6 87 0.0019 36.7 3.3 30 198-229 324-353 (758)
137 PRK11773 uvrD DNA-dependent he 20.3 1.1E+02 0.0025 35.6 4.3 54 340-397 39-93 (721)
138 COG4889 Predicted helicase [Ge 20.3 73 0.0016 37.9 2.6 35 177-211 281-318 (1518)
139 TIGR01075 uvrD DNA helicase II 20.2 1.1E+02 0.0024 35.7 4.1 54 340-397 34-88 (715)
140 TIGR00580 mfd transcription-re 20.1 1.6E+02 0.0034 35.6 5.5 33 176-210 554-586 (926)
141 PF07652 Flavi_DEAD: Flaviviru 20.1 1.2E+02 0.0027 28.2 3.6 41 175-216 71-113 (148)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=6.8e-63 Score=523.52 Aligned_cols=299 Identities=35% Similarity=0.488 Sum_probs=264.2
Q ss_pred HHHHHHHHhcCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccccccc
Q 008899 166 KLLLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISD 245 (549)
Q Consensus 166 ~~~i~~~~l~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~ 245 (549)
.+..++.++..|+||||||.+|+.. .+....|..|+||||.|++||++++|+.+ |++++||||||+||+|++..+.++
T Consensus 538 k~~~e~ell~~AdVIccTcv~Agd~-rl~~~kfr~VLiDEaTQatEpe~LiPlvl-G~kq~VlVGDh~QLgpvi~~kK~a 615 (935)
T KOG1802|consen 538 KRAAEKELLNQADVICCTCVGAGDR-RLSKFKFRTVLIDEATQATEPECLIPLVL-GAKQLVLVGDHKQLGPVIMCKKAA 615 (935)
T ss_pred HHHHHHHHHhhcCEEEEecccccch-hhccccccEEEEecccccCCcchhhhhhh-cceeEEEeccccccCceeeeHHHH
Confidence 4566789999999999999999973 33346899999999999999999999987 999999999999999999999999
Q ss_pred cccCcccHHHHHHhcCCCcccceeccccCccccccCcccccccccccCcccccccccccCCCCC-CCCCeEEEEcCCCcc
Q 008899 246 EAGFGRSLFERLTSLNHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGT-ELGPYSFINIIGGSE 324 (549)
Q Consensus 246 ~~~~~~SLfeRl~~~~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~-~~~~~~fidv~~g~e 324 (549)
.+|+.+||||||+..|..+++|.+||||||.|++|||..||+|.|+++....++......+|-+ ...|+.|... .|.|
T Consensus 616 ~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~-~g~e 694 (935)
T KOG1802|consen 616 TAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVC-YGQE 694 (935)
T ss_pred HhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEe-ccce
Confidence 9999999999999999999999999999999999999999999999998877765543333322 2346666666 6666
Q ss_pred cc--cccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhc--CCCCCeEEEecccCCCCc
Q 008899 325 EF--IYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYE--NKDGFTVKVKSIDGFQGG 400 (549)
Q Consensus 325 ~~--~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~--~~~~~~v~V~TVd~fQG~ 400 (549)
+. .|+|+.|..||..+..++..|++.+.... .|||||||.+|+..|-+.+...-. ..-...|.|.|||+|||+
T Consensus 695 eisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~---qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGr 771 (935)
T KOG1802|consen 695 EISASGTSFLNRTEAANCEKIITKLLKSGVKPS---QIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGR 771 (935)
T ss_pred eeeccccceecHHHHHHHHHHHHHHHHcCCCHH---HeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCc
Confidence 66 88999999999999999999999987654 699999999999999998855322 111246899999999999
Q ss_pred cccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceecCC
Q 008899 401 EEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFNAD 471 (549)
Q Consensus 401 E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~~~ 471 (549)
|+|+||+||||+|....+||+.|+||||||+||||++|+||||+..|++ +++|.++|.+++++++++..+
T Consensus 772 EKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k-~~LW~~li~h~~eke~l~eg~ 841 (935)
T KOG1802|consen 772 EKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRK-HPLWGHLITHYKEKEVLVEGP 841 (935)
T ss_pred ccceEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhh-chHHHHHHHHhhcccceeecc
Confidence 9999999999999999999999999999999999999999999999998 899999999999999999854
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-58 Score=491.45 Aligned_cols=317 Identities=30% Similarity=0.422 Sum_probs=265.8
Q ss_pred HHHHHHHHHHHHhhhhhhcccCCCCcccHHHHHHHHhcCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhHHhHh
Q 008899 138 HQRRSECLSVLRNLWNSLDELNLPCTTSKLLLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIP 217 (549)
Q Consensus 138 ~~~r~~~~~~l~~l~~~l~~~~~p~~~~~~~i~~~~l~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e~lip 217 (549)
...|+..+..++.++.++++- ....-..++.+++|||||..+|.. ...+...||+||||||+|+.||++|+|
T Consensus 307 ~~~~~~~~~~i~~lrkdl~kr-------e~~~v~eii~n~~VVfaTl~ga~~-~~~~~~~fD~vIIDEaaQamE~~cWip 378 (649)
T KOG1803|consen 307 DKLRKGIRKEIKLLRKDLRKR-------ERKTVKEIISNSRVVFATLGGALD-RLLRKRTFDLVIIDEAAQAMEPQCWIP 378 (649)
T ss_pred hHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhcccceEEEeccchhh-hhhcccCCCEEEEehhhhhccchhhhH
Confidence 345677777888888444321 234456789999999999999887 223346799999999999999999999
Q ss_pred hhhcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccccCccccccCcccccccccccCcc
Q 008899 218 LQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGAN 295 (549)
Q Consensus 218 L~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~ 295 (549)
+. ..+++||+|||+||||++.|..+...|++.|+|||+... +.-..+|++|||||..|+.|+|..||+|++.++..
T Consensus 379 vl--k~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~ 456 (649)
T KOG1803|consen 379 VL--KGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASS 456 (649)
T ss_pred Hh--cCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecch
Confidence 86 558999999999999999999999999999999999875 34578999999999999999999999999999998
Q ss_pred cccccccccC---CCCCCCCCeEEEEcCCCcccc------cccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccc
Q 008899 296 VKSKSYEKHY---LPGTELGPYSFINIIGGSEEF------IYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPY 366 (549)
Q Consensus 296 v~~~~~~~~~---l~~~~~~~~~fidv~~g~e~~------~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY 366 (549)
+..+..-... .....+.|+.|+|+.+..... .-.|++|..||+.|..++..|+..+..+. +|||||||
T Consensus 457 v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~p~---dIaVIsPY 533 (649)
T KOG1803|consen 457 VASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQPS---DIAVISPY 533 (649)
T ss_pred hhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCChh---HeEEeccc
Confidence 8776432111 111246799999996533211 22489999999999999999999987643 79999999
Q ss_pred hHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhh
Q 008899 367 TAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERT 446 (549)
Q Consensus 367 ~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~t 446 (549)
++|+.++++.. ..+..++.|+|||+|||+|+|+||||+||+|+.+.+||+.+.||+|||+||||+++.||||..+
T Consensus 534 ~aQv~llR~~~-----~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh~~vIgds~t 608 (649)
T KOG1803|consen 534 NAQVSLLREED-----EEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRARRHFVVIGDSRT 608 (649)
T ss_pred hHHHHHHhhcc-----cccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEeccceEEEEcCcHH
Confidence 99999999332 2345679999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccchHHHHHHHHHHhCCceecCCc
Q 008899 447 LISSESIWGALVCDAKARQCFFNADE 472 (549)
Q Consensus 447 L~~~~~~w~~li~~~~~~g~~~~~~~ 472 (549)
+...+..+++++.|+.+.+.++...-
T Consensus 609 l~~~~~~l~k~~~f~~~~~~~~~p~~ 634 (649)
T KOG1803|consen 609 LKEGNEFLKKLVEFLEENKLVFGPSI 634 (649)
T ss_pred HHhhHHHHHHHHHHhhhcceeccccc
Confidence 99658899999999999998885443
No 3
>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=100.00 E-value=1.1e-54 Score=485.88 Aligned_cols=290 Identities=33% Similarity=0.420 Sum_probs=245.3
Q ss_pred HHHHHHHHhcCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccccccc
Q 008899 166 KLLLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISD 245 (549)
Q Consensus 166 ~~~i~~~~l~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~ 245 (549)
...+.+.++.+|+++++|+.+.. .....||+||||||+|++||++|+|+. ..+++||||||+||||++.+..
T Consensus 334 ~~~~~~~il~~a~v~~st~~~~~----l~~~~Fd~vIIDEAsQ~~ep~~lipl~--~~~~~vLvGD~~QLpP~v~s~~-- 405 (637)
T TIGR00376 334 EERIENEILAESDVVQSTNSSAG----LKGWEFDVAVIDEASQAMEPSCLIPLL--KARKLILAGDHKQLPPTILSHD-- 405 (637)
T ss_pred HHHHHHHHHhhCCEEEeccCcHh----hccCCCCEEEEECccccchHHHHHHHh--hCCeEEEecChhhcCCcccccc--
Confidence 46678899999999988865432 334689999999999999999999997 4589999999999999998854
Q ss_pred cccCcccHHHHHHhc-CCCcccceeccccCccccccCcccccccccccCcccccccccccC----C----CCCCCCCeEE
Q 008899 246 EAGFGRSLFERLTSL-NHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHY----L----PGTELGPYSF 316 (549)
Q Consensus 246 ~~~~~~SLfeRl~~~-~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~----l----~~~~~~~~~f 316 (549)
..+++.|+|+|+... +...++|++||||||+|+.|+|..||+|+|.+++++..+...... . ......|+.|
T Consensus 406 ~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~f 485 (637)
T TIGR00376 406 AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLF 485 (637)
T ss_pred ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEE
Confidence 467899999999976 344789999999999999999999999999988876554221100 0 0012348999
Q ss_pred EEcCCCcc----cccccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEe
Q 008899 317 INIIGGSE----EFIYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVK 392 (549)
Q Consensus 317 idv~~g~e----~~~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~ 392 (549)
+|+.+... ...++|+.|..||..|++++..|++.+.. ..+|||||||++|+.+|++.|... ...+.|+
T Consensus 486 idt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~---~~~IgVItPY~aQv~~L~~~l~~~-----~~~i~v~ 557 (637)
T TIGR00376 486 IDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVP---ANDIGVITPYDAQVDLLRQLLEHR-----HIDIEVS 557 (637)
T ss_pred EECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCC---cceEEEEcccHHHHHHHHHHHHhh-----CCCeEEc
Confidence 99965432 12567999999999999999999987654 348999999999999999999653 3469999
Q ss_pred cccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceecCCc
Q 008899 393 SIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFNADE 472 (549)
Q Consensus 393 TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~~~~ 472 (549)
|||+|||+|+|+||+|+||++..+.+||+.|.+|+|||+||||++||||||..+|.+ ++.|++|+++++++||+..++.
T Consensus 558 TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~-~~~~~~li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 558 SVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSN-HKFYKRLIEWCKQHGEVREAFK 636 (637)
T ss_pred cccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhcc-ChHHHHHHHHHHHCCCEEcCCC
Confidence 999999999999999999999988999999999999999999999999999999986 7899999999999999988754
No 4
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=1.6e-52 Score=478.87 Aligned_cols=448 Identities=34% Similarity=0.427 Sum_probs=361.3
Q ss_pred CcccccccHHHHHHHHHHHhHhhhhcccchhhhhhhhhccCCCCCcccHHHHHHHHHHHhHHhHHHHHHHHhhcCCCCcc
Q 008899 1 MIDLLEDCVSQYHIYVEKLEEREDCNVNQSEEKECRKETEGSKGECKPFLKYVKERFKRAVVPLRNCIFIFCTHLPKSYI 80 (549)
Q Consensus 1 ~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~p~~~~ 80 (549)
+++++|+++.||..++....+....-+ .. . .....+++.+|..+++..........+..+++|+|+..+
T Consensus 365 ~~~~~e~~~~~~~~~~~~~~~~~~s~~---~~-------p-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 433 (827)
T KOG1801|consen 365 GEELLENNVPQSEKIVLMCLRMGFSLI---QL-------P-VDNGRFLSREFAEENLRKLKPLPSIACIDLITHLPTLGL 433 (827)
T ss_pred HHHhhcCcHHHHHHHHHHHHhhchhhh---cc-------c-hhhccccchhhHHhhhhhcccchhhhhhcchhcCccceE
Confidence 367899999999999886644321110 00 0 112356788899999998888888899999999999999
Q ss_pred chhhHHHHHHHHHHHHHHHh--hhcCCCcchHHHHHHhccCCCCCCcccccchhHhHHHHHHHHHHHHHHHhhhhhhccc
Q 008899 81 SENSFQDMVALKILLHTFGT--LLFKDNVVSEELEKLFSHSVDEGISSAFVGKRYLLQLHQRRSECLSVLRNLWNSLDEL 158 (549)
Q Consensus 81 ~~~~~~~~~~~~~~l~~~~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~~~~~l~~l~~~l~~~ 158 (549)
...+...|+..-+.+..... .+......-+..++....+. + ....+.+.+.-.. +.+
T Consensus 434 ~~~~~~v~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~------------~------i~~~~~~~l~~~~---~~~ 492 (827)
T KOG1801|consen 434 YDTNQVVRIGGGSVLNSGAIETVLEGDKIRKDKNKAIIERFN------------G------LPKNIPKALSIKD---DIF 492 (827)
T ss_pred ecCCeeEEecCCccceeceeeeeehhhhhhhHHhhhhhhccc------------c------ccccchhhhcccc---chh
Confidence 99874444433333322211 00000000000111100000 0 1123333333333 334
Q ss_pred CCCCcccHHHHHHHHhc----CCcEEEEccccchh-hcccCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCC
Q 008899 159 NLPCTTSKLLLEDFCFK----RASLFFSTASSSYK-LHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDEC 233 (549)
Q Consensus 159 ~~p~~~~~~~i~~~~l~----~a~vI~~T~~sa~~-l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~ 233 (549)
..+......++...++. +|.+|+||+++++. +......+++.+|||||+|..||.+++||++.+..|++++||+.
T Consensus 493 ~i~~~~~~~~~~~~~~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~ 572 (827)
T KOG1801|consen 493 KIPSQLERPEVRILDLGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLA 572 (827)
T ss_pred hhhhhccchhhhcchhhhccccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccc
Confidence 45555556777777887 99999999998887 44445679999999999999999999999998999999999999
Q ss_pred CCCccccccccccccCcccHHHHHHhcCCCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCC
Q 008899 234 QLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGP 313 (549)
Q Consensus 234 QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~ 313 (549)
|||++|.+..+...++.+|+|+|+...+++.++|++||||||+|+.|||..||+++|.+++++....+...++.+.++++
T Consensus 573 qlP~~V~s~~~~~~k~~~slf~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~ 652 (827)
T KOG1801|consen 573 QLPATVHSSPAGCFKYMTSLFERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGP 652 (827)
T ss_pred cCChhhccchhccccchhhHHHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEcCCCcccc-cccccCCHHHHHHHHHHHHHHHHhhcCCCC-CccEEEEccchHHHHHHHHHHhhhhcCCC--CCeE
Q 008899 314 YSFINIIGGSEEF-IYHSCRNMVEVSVVIKILQKLYKAWVGSKQ-KVSIGVVSPYTAQAVAIRKKIGSEYENKD--GFTV 389 (549)
Q Consensus 314 ~~fidv~~g~e~~-~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~-~~sIgIITPY~aQ~~~I~~~L~~~~~~~~--~~~v 389 (549)
|.|+++..|.|.. .+.|..|.+|+.++..++..+++...+... ...+|||+||+.|+..+++.....+.... ...+
T Consensus 653 y~f~~v~~g~e~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i 732 (827)
T KOG1801|consen 653 YPFFNVHYGKERAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDL 732 (827)
T ss_pred eEEEEecccccccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhccccee
Confidence 9999998898888 568999999999999999999998877665 67899999999999999999988776332 3589
Q ss_pred EEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceec
Q 008899 390 KVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFN 469 (549)
Q Consensus 390 ~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~ 469 (549)
.+.|||+|||+|.||+|+|+||++..+.+||+.+.+|+|||+||||+|+|++||..+|...+..|..++.+++.+||+++
T Consensus 733 ~v~tvD~fqg~e~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~ 812 (827)
T KOG1801|consen 733 SVSTVDSFQGGERDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMD 812 (827)
T ss_pred EEEecccccCCCCceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999988899999999999999999
Q ss_pred CCcchhHHHHH
Q 008899 470 ADEDRNVAKAR 480 (549)
Q Consensus 470 ~~~d~~l~~~i 480 (549)
...+.+...+.
T Consensus 813 ~~~~~~~~~~~ 823 (827)
T KOG1801|consen 813 RAADVNDFDQS 823 (827)
T ss_pred cccccchhhhh
Confidence 98877665543
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=7.4e-47 Score=416.39 Aligned_cols=284 Identities=30% Similarity=0.433 Sum_probs=235.1
Q ss_pred HHHhcCCcEEEEccccchh-hcccCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccccccccccC
Q 008899 171 DFCFKRASLFFSTASSSYK-LHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISDEAGF 249 (549)
Q Consensus 171 ~~~l~~a~vI~~T~~sa~~-l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~ 249 (549)
+..+....||+|||.+... ++.. ..||++|||||+|+..|-++.||.+. ++.||||||.||||.|.|..+...|+
T Consensus 771 ~~~~~~~~IVa~TClgi~~plf~~--R~FD~cIiDEASQI~lP~~LgPL~~s--~kFVLVGDh~QLpPLV~s~ear~~Gl 846 (1100)
T KOG1805|consen 771 KKFLDQTSIVACTCLGINHPLFVN--RQFDYCIIDEASQILLPLCLGPLSFS--NKFVLVGDHYQLPPLVRSSEARQEGL 846 (1100)
T ss_pred HHHhCCCcEEEEEccCCCchhhhc--cccCEEEEccccccccchhhhhhhhc--ceEEEecccccCCccccchhhhhcCc
Confidence 3467889999999999987 3333 36999999999999999999999854 89999999999999999999999999
Q ss_pred cccHHHHHHhcC-CCcccceeccccCccccccCcccccccccccCcccccc----------------cccccCCCC--CC
Q 008899 250 GRSLFERLTSLN-HSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSK----------------SYEKHYLPG--TE 310 (549)
Q Consensus 250 ~~SLfeRl~~~~-~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~----------------~~~~~~l~~--~~ 310 (549)
+.|||+|+.... .....|+.||||...|+.++|..||+|+|.++.....+ +....|+.+ ..
T Consensus 847 ~~SLFkrL~e~hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p 926 (1100)
T KOG1805|consen 847 SESLFKRLSEKHPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEP 926 (1100)
T ss_pred chHHHHHHhhhCchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcC
Confidence 999999998743 34678999999999999999999999999987653321 000111110 11
Q ss_pred CCCeEEEEcCCC--cccc-cccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCC
Q 008899 311 LGPYSFINIIGG--SEEF-IYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGF 387 (549)
Q Consensus 311 ~~~~~fidv~~g--~e~~-~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~ 387 (549)
..++.|+++... -++. .++...|..||..|.+++..+++.|.+.. +|||||||++|+.+|+..+...
T Consensus 927 ~~~v~f~~~D~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv~~~---dIGIis~YraQv~Li~~~l~~~------- 996 (1100)
T KOG1805|consen 927 TRDVCFVNTDTCSTIESQGEKGGITNHGEAKLISELVEDFVKSGVKPS---DIGIISPYRAQVELIRKILSSA------- 996 (1100)
T ss_pred CccceEEecCcccchhhhccccCcCchhHHHHHHHHHHHHHHcCCCHH---HeeeeehHHHHHHHHHhhcccc-------
Confidence 235667666432 2332 45566799999999999999999998754 7999999999999999988552
Q ss_pred eEEEecccCCCCccccEEEEEccccCCCCCcc-cCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCc
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNAGGSIG-FISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQC 466 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~G-Fl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~ 466 (549)
.++|.|||+|||+++|+||+|+||+|.....| .|.|++|+|||+||||+.||+||+..+|.+ -+.+++|+++...+..
T Consensus 997 ~lEinTVD~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~-~~~~~~l~~~l~~~~~ 1075 (1100)
T KOG1805|consen 997 VLEINTVDRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLES-YPPFRQLLKLLENRIE 1075 (1100)
T ss_pred ceeeeehhhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEeccccccc-CchHHHHHhhhhhhhh
Confidence 39999999999999999999999999887777 678999999999999999999999999986 6789999999877665
Q ss_pred eec
Q 008899 467 FFN 469 (549)
Q Consensus 467 ~~~ 469 (549)
++.
T Consensus 1076 l~~ 1078 (1100)
T KOG1805|consen 1076 LLT 1078 (1100)
T ss_pred HHH
Confidence 543
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=3.1e-46 Score=401.67 Aligned_cols=327 Identities=26% Similarity=0.361 Sum_probs=267.6
Q ss_pred HHHHHHhcCCcEEEEccccchhhcc-cCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccc-cccc
Q 008899 168 LLEDFCFKRASLFFSTASSSYKLHS-VEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVAS-KISD 245 (549)
Q Consensus 168 ~i~~~~l~~a~vI~~T~~sa~~l~~-~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s-~~~~ 245 (549)
....++++.|+||++|+++++++.. +..-.+.+|||+||+.+.|+..+.++ .+.+.|+||||||+||.|.... +.+.
T Consensus 690 ~~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal-~p~~EhviLIGDHKQLrP~~~vy~L~q 768 (1025)
T KOG1807|consen 690 VFDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAAL-TPHTEHVILIGDHKQLRPFSGVYKLPQ 768 (1025)
T ss_pred HHHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhh-cccceeEEEecchhhcCCCcchhhHhH
Confidence 3455789999999999999998543 44557899999999999999966555 5778999999999999997543 3556
Q ss_pred cccCcccHHHHHHhcCCCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCccc
Q 008899 246 EAGFGRSLFERLTSLNHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEE 325 (549)
Q Consensus 246 ~~~~~~SLfeRl~~~~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~ 325 (549)
.+++..|+||||+..|.|..+|+.||||||.|++.....||++ |.++++++...- .+| +.....|+.+....+.
T Consensus 769 ~fnL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~yed----I~g-ms~nlfFv~hnspee~ 842 (1025)
T KOG1807|consen 769 IFNLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKEYED----IRG-MSKNLFFVQHNSPEEC 842 (1025)
T ss_pred hcchhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhccccc----ccc-ccceeeEEecCCcccC
Confidence 6788899999999999999999999999999999999999996 778888765321 222 2345667766444444
Q ss_pred ccccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccEE
Q 008899 326 FIYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDII 405 (549)
Q Consensus 326 ~~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiV 405 (549)
.++.|+.|..||.++++++.+|++..+.+. +|.|+|+|.+|...|++.+.+.+. ..|.|.|||+|||.|.|||
T Consensus 843 ~de~S~~NlhEa~mlv~l~kyli~q~y~ps---dIviLttY~gQk~ci~rllp~~~~----stv~VatVDsfQGeEndIV 915 (1025)
T KOG1807|consen 843 MDEMSIGNLHEAGMLVKLTKYLIQQQYKPS---DIVILTTYNGQKECIKRLLPQNYR----STVQVATVDSFQGEENDIV 915 (1025)
T ss_pred cchhhhhhHHHHHHHHHHHHHHHhcCCCcc---ceEEEeechhHHHHHHHHhHHHhc----CcceEEEeccccCccccEE
Confidence 478999999999999999999999877655 799999999999999999988754 3499999999999999999
Q ss_pred EEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceecCCcchhHHHHHHHHHH
Q 008899 406 IISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFNADEDRNVAKARLDIGK 485 (549)
Q Consensus 406 IlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~~~~d~~l~~~i~~~~~ 485 (549)
++|+||+|..|.+|||...+|++||+||||++|+||||...++.+.+.|+++|+..++.+.+-.+..-.+. ..
T Consensus 916 LlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~lpl~c~-------~h 988 (1025)
T KOG1807|consen 916 LLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEALPLICS-------TH 988 (1025)
T ss_pred EEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccccccccccee-------ec
Confidence 99999999999999999999999999999999999999999999899999999999987765322111100 00
Q ss_pred hcccc--CcccccccCCCCceEeccchhhhhhh
Q 008899 486 ELVEI--GAESLTSTNQRGKTTLCYDKDGETYR 516 (549)
Q Consensus 486 e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 516 (549)
--+-+ +..+....||... +.-.++|++.|.
T Consensus 989 ~~~~t~v~k~~~fqk~pegg-c~~pce~~~~ch 1020 (1025)
T KOG1807|consen 989 KDGTTYVNKSKQFQKNPEGG-CVDPCELLDVCH 1020 (1025)
T ss_pred CCceEEEchHHhhccCCCCC-ccchhHHhhhhh
Confidence 00111 4455566788888 888888888773
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=7.1e-43 Score=400.80 Aligned_cols=293 Identities=34% Similarity=0.487 Sum_probs=248.1
Q ss_pred HHHHHHHhcCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCcccccccccc
Q 008899 167 LLLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISDE 246 (549)
Q Consensus 167 ~~i~~~~l~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~ 246 (549)
......+...+++|+||++.++... .....||++|||||+|++++.+++|+.. ++++|++|||+||||++.+.....
T Consensus 459 ~~~~~~i~~~~~~~~~~~~~a~~~~-~~~~~fd~viiDEAsQ~~~~~~~~~l~~--~~~~il~GD~kQL~p~~~~~~~~~ 535 (767)
T COG1112 459 KKAVTKILEAADVVLSTLSIAGFSI-LKKYEFDYVIIDEASQATEPSALIALSR--AKKVILVGDHKQLPPTVFFKESSP 535 (767)
T ss_pred HHHHHHHHHhcCeEEEeccchhHHH-hcccccCEEEEcchhcccchhHHHhHhh--cCeEEEecCCccCCCeecchhhcc
Confidence 4445566777779999988887522 2222799999999999999999999974 799999999999999998765566
Q ss_pred ccCcccHHHHHHhcCC-CcccceeccccCccccccCcccccccccccCcccccccccccCCCCC-CCCCeEEEEcCCCcc
Q 008899 247 AGFGRSLFERLTSLNH-SKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGT-ELGPYSFINIIGGSE 324 (549)
Q Consensus 247 ~~~~~SLfeRl~~~~~-~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~-~~~~~~fidv~~g~e 324 (549)
.++..|+|+++...+. ...+|+.||||||.|+.|+|..||+|++..++............+.. ...|+.++++.+..+
T Consensus 536 ~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (767)
T COG1112 536 EGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEE 615 (767)
T ss_pred cchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCccc
Confidence 7889999999998876 88999999999999999999999999999888765443211111111 235888999855544
Q ss_pred cccccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccE
Q 008899 325 EFIYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDI 404 (549)
Q Consensus 325 ~~~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~Di 404 (549)
...+.+..|..|+..+..++..+.+.+.... +|||||||.+|+..|++.+.... ..+.|+|||+|||+|+|+
T Consensus 616 ~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~---~igvis~y~~q~~~i~~~~~~~~-----~~v~v~tvd~fQG~Ekdv 687 (767)
T COG1112 616 FFESKSKLNELEAEIVKVIVDELLKDGLEEN---DIGVISPYRAQVSLIRRLLNEAG-----KGVEVGTVDGFQGREKDV 687 (767)
T ss_pred ccCccceecHHHHHHHHHHHHHHHHcCCcHH---HcceecccHHHHHHHHHHHHhcC-----CceEEeeccccCCccCcE
Confidence 2478899999999999999999999887654 49999999999999999986642 579999999999999999
Q ss_pred EEEEccccCCC-CCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceecCC
Q 008899 405 IIISTVRCNAG-GSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFNAD 471 (549)
Q Consensus 405 VIlS~vrs~~~-~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~~~ 471 (549)
||+|+||++.. +.+||+.+.+|+|||+||||++|||+|+..++.. .+.|+.++.+++..+++....
T Consensus 688 Ii~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~-~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 688 IILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLES-DPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhh-chhHHHHHHHHHhcCcEeecc
Confidence 99999999988 7999999999999999999999999999999986 799999999999999987664
No 8
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=100.00 E-value=4.1e-40 Score=317.87 Aligned_cols=197 Identities=37% Similarity=0.583 Sum_probs=139.6
Q ss_pred CcccHHHHHHhcC-CCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCccccc
Q 008899 249 FGRSLFERLTSLN-HSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFI 327 (549)
Q Consensus 249 ~~~SLfeRl~~~~-~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~ 327 (549)
+++|||+|+...+ .+.++|++||||||+|++|+|..||+|+|.+.++.................++.|+|+.+......
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~ 80 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSE 80 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEET
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccccccccc
Confidence 4789999999998 999999999999999999999999999999998776665442122223356899999965544443
Q ss_pred c--cccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccEE
Q 008899 328 Y--HSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDII 405 (549)
Q Consensus 328 ~--~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiV 405 (549)
. +|+.|..||.+|++++..|+..+.......+|||||||++|+.+|++.+...........+.|+|||+|||+|+|+|
T Consensus 81 ~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~E~diV 160 (200)
T PF13087_consen 81 SSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQEADIV 160 (200)
T ss_dssp TC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT--EEEE
T ss_pred ccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccccceEE
Confidence 3 89999999999999999999987764334589999999999999999998653321111299999999999999999
Q ss_pred EEEccccCCCCCcccCCCCCcceeeccccccceEEEeehh
Q 008899 406 IISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNER 445 (549)
Q Consensus 406 IlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~ 445 (549)
|+|+|+++.....||+.+.+|+|||+||||++||||||+.
T Consensus 161 i~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 161 IVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp EEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred EEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 9999999877789999999999999999999999999963
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.98 E-value=5.7e-33 Score=308.82 Aligned_cols=288 Identities=30% Similarity=0.302 Sum_probs=234.9
Q ss_pred HhcCCcEEEEccccchhhccc--CCCCCCEEEEEcCCCCChhHHhHhhhhc-CCCeEEEEcCCCCCCccccccccccccC
Q 008899 173 CFKRASLFFSTASSSYKLHSV--EIKPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVASKISDEAGF 249 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~l~~~--~~~~fd~VIVDEAsq~~e~e~lipL~l~-~~~~vILvGD~~QLpPiv~s~~~~~~~~ 249 (549)
-+...+++++|+++++.+... ...+|.++++|||++.+|++.++|+... ...++||.|||+||+|+++|..+...|+
T Consensus 416 ~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl 495 (775)
T KOG1804|consen 416 KVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGL 495 (775)
T ss_pred hccceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcc
Confidence 456788999999999875443 3568999999999999999999998633 3448999999999999999999999999
Q ss_pred cccHHHHHHhcC------------CCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEE
Q 008899 250 GRSLFERLTSLN------------HSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFI 317 (549)
Q Consensus 250 ~~SLfeRl~~~~------------~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fi 317 (549)
++|||+|++... .....|-.+||+||.|...+|+.||.+.|.......+......+ ...+.|.
T Consensus 496 ~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~w-----~~liif~ 570 (775)
T KOG1804|consen 496 DRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLELW-----SGLILFY 570 (775)
T ss_pred cHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHHhc-----ccceecc
Confidence 999999998652 22467999999999999999999999999876554443221111 1224555
Q ss_pred EcCCCcccc--cccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEeccc
Q 008899 318 NIIGGSEEF--IYHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSID 395 (549)
Q Consensus 318 dv~~g~e~~--~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd 395 (549)
.+ .|..+. ...|+.|..||..|..++..+........ .||||||||++|+..|+..+... +..++.|++|.
T Consensus 571 g~-~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~~--~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe 643 (775)
T KOG1804|consen 571 GA-PGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVAQP--QDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVE 643 (775)
T ss_pred cc-ccccccccCChhhccHHHHHHHHHHHhccCCCCcccc--ccceeeCcHHHHHHHHHHHhccc----CCCCCccccee
Confidence 55 454555 55689999999999888887765443322 28999999999999999999763 45689999999
Q ss_pred CCCCccccEEEEEccccCCC------CCcccCCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCCceec
Q 008899 396 GFQGGEEDIIIISTVRCNAG------GSIGFISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQCFFN 469 (549)
Q Consensus 396 ~fQG~E~DiVIlS~vrs~~~------~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g~~~~ 469 (549)
.|||+|+.|||+|+||+... ...+|+++++++|||+|||+..++++|+...+.. ++.|+.++..+.+.|.+..
T Consensus 644 ~fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~-~~~~~~~l~~~~~n~~y~~ 722 (775)
T KOG1804|consen 644 EFQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGG-DPPWGLLLLLRVENGRYPG 722 (775)
T ss_pred eeccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccC-CCChhhheeeeecCCcccC
Confidence 99999999999999999754 1234899999999999999999999999998876 8999999999999998877
Q ss_pred CCcc
Q 008899 470 ADED 473 (549)
Q Consensus 470 ~~~d 473 (549)
.+-.
T Consensus 723 c~~~ 726 (775)
T KOG1804|consen 723 CDFP 726 (775)
T ss_pred CCCC
Confidence 6543
No 10
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.93 E-value=7.8e-27 Score=258.07 Aligned_cols=338 Identities=24% Similarity=0.275 Sum_probs=253.1
Q ss_pred HHhccCCCCCCcccccchhHhHHHHHHHHHHHHHHHhhhhhhcccCCCCc--ccHHHHHHHHhcCCcEEEEccccchh-h
Q 008899 114 KLFSHSVDEGISSAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCT--TSKLLLEDFCFKRASLFFSTASSSYK-L 190 (549)
Q Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~~~~~l~~l~~~l~~~~~p~~--~~~~~i~~~~l~~a~vI~~T~~sa~~-l 190 (549)
.-|++.+++.+. .-+...-.+....|++.++.+...|.+++--.. ........-+.+.|.||.||++.++. .
T Consensus 908 ~~f~d~p~~vfe-----g~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtcthaalkr 982 (1320)
T KOG1806|consen 908 SYFGDKPKPPFE-----GYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCTHAALRR 982 (1320)
T ss_pred hhhhcCCCcccc-----ccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccCChhhCh
Confidence 445555554333 113344556678999999999888877664333 12222333344899999999999875 2
Q ss_pred ccc--CCCCCCEEEEEcCCCCChhHHhHhhhhcC-------CCeEEEEcCCCCCCccccccc-cccccCcccHHHHHHhc
Q 008899 191 HSV--EIKPLNFLVIDEAAQLKESESTIPLQLAG-------INHAVLIGDECQLPAMVASKI-SDEAGFGRSLFERLTSL 260 (549)
Q Consensus 191 ~~~--~~~~fd~VIVDEAsq~~e~e~lipL~l~~-------~~~vILvGD~~QLpPiv~s~~-~~~~~~~~SLfeRl~~~ 260 (549)
... ....+|-+++.||+|+.|.+..+|+.+.. .+++|++|||.|+||++++.. .......+|+|.|+.+.
T Consensus 983 ~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~r~vRl 1062 (1320)
T KOG1806|consen 983 GDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFTRLVRL 1062 (1320)
T ss_pred hhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhhcceec
Confidence 221 13468999999999999999999987543 478999999999999996654 44455678999999999
Q ss_pred CCCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCC--C--cccccccccCCHHH
Q 008899 261 NHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIG--G--SEEFIYHSCRNMVE 336 (549)
Q Consensus 261 ~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~--g--~e~~~~~S~~N~~E 336 (549)
+.+.+-|+.|+|..++|+++.|.. |.+ |.+.+.+.........-.|. ..++.|||+++ | ..+.....+.|..|
T Consensus 1063 ~ip~i~lnaqgrar~sI~~Ly~wr-y~l-Lg~l~~v~~lp~f~~aNagf-~~~~qlinv~Df~g~gEt~p~p~fyQnlge 1139 (1320)
T KOG1806|consen 1063 GVPIIDLNAQGRARASIASLYNWR-YPL-LGNLPHVSPLPRFQYANAGF-AYEFQFINVPDFKGSGETEPSPGFYQNLGE 1139 (1320)
T ss_pred ccceecchhhhhHHHHHHHHHHhh-hcc-cccCcCCccchhhhccccCc-eeeEEEecchhhccccccCCCcccccCCch
Confidence 999999999999999999998754 443 44444444322111111222 34788999865 2 22225566889999
Q ss_pred HHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhc--CCCCCeEEEecccCCCCccccEEEEEccccCC
Q 008899 337 VSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYE--NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNA 414 (549)
Q Consensus 337 a~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~--~~~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~ 414 (549)
|+.++.+..++..-|.+.+ .|.|.|.|.+|+.+|++.+..... .-.+..-.|+|||.|||...|.||+|+|++.
T Consensus 1140 aey~vAly~YMr~Lgypa~---Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~tr- 1215 (1320)
T KOG1806|consen 1140 AEYAVALFQYMRLLGYPAN---KISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVRTR- 1215 (1320)
T ss_pred hhhHHHHHHHHHHhCCchh---HeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEEeeehhhh-
Confidence 9999999999988888766 599999999999999999977655 2345567999999999999999999999987
Q ss_pred CCCcccCCCCCcceeeccccccceEEEeehhhhhcc---chHHHHHHHHHHhCC
Q 008899 415 GGSIGFISKPQRVNVALTRARHCLWILGNERTLISS---ESIWGALVCDAKARQ 465 (549)
Q Consensus 415 ~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~~---~~~w~~li~~~~~~g 465 (549)
.+|.+.|.+|+.||+||||.+++|.|....+++. .+.|+.|-+.-...+
T Consensus 1216 --~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~p~~ll 1267 (1320)
T KOG1806|consen 1216 --EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKRPDKLL 1267 (1320)
T ss_pred --hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhCcchhc
Confidence 5789999999999999999999999998877654 367777765544433
No 11
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.59 E-value=5.5e-15 Score=167.30 Aligned_cols=225 Identities=19% Similarity=0.265 Sum_probs=135.0
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhc---CCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceec
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLA---GINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQ 270 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~---~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~q 270 (549)
.++++|+|||++.++..+.-+.-.+. +..++++|||+.|- +....|-...++..+... ....+.|+++
T Consensus 429 ~~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Qs-------IY~frGa~~~~~~~f~~~f~~~~~~~L~~n 501 (684)
T PRK11054 429 SPWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQA-------IYRFSGADLSLTTAFHERFGEGDRCHLDTT 501 (684)
T ss_pred hcccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCcc-------ccccCCCChHHHHHHHhhcCCCeEEEeCCC
Confidence 36999999999999987744433332 23689999999994 112233334444443321 2346789999
Q ss_pred cccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHHHHHHHh
Q 008899 271 YRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKILQKLYKA 350 (549)
Q Consensus 271 YRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~ 350 (549)
||+++.|.++.|..+ ... +....... .....+. .|...+-- ..+...+++.+..+..
T Consensus 502 YRs~~~I~~~An~~i-~~n----~~~~~k~l-~s~~~g~--~p~v~~~~--------------~~~~~~il~~l~~~~~- 558 (684)
T PRK11054 502 YRFNSRIGEVANRFI-QQN----PHQLKKPL-NSLTKGD--KKAVTLLP--------------EDQLEALLDKLSGYAK- 558 (684)
T ss_pred CCCCHHHHHHHHHHH-HhC----ccccCCcc-cccCCCC--CceEEEeC--------------CHHHHHHHHHHHHhhc-
Confidence 999999999998643 211 10000000 0000111 12111110 0144444544444332
Q ss_pred hcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccEEEEEccccCCCCC-------------
Q 008899 351 WVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNAGGS------------- 417 (549)
Q Consensus 351 ~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~------------- 417 (549)
+..+|+||+.|..+...+.+.+...+ ...+|.+.|+|.++|.|+|+||+..+.....|-
T Consensus 559 -----~~~~I~IL~R~~~~~~~~l~~~~~~~---~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~ 630 (684)
T PRK11054 559 -----PDERILLLARYHHLRPALLDKAATRW---PKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEAL 630 (684)
T ss_pred -----CCCcEEEEEechhhHHHHHHHHHhhc---ccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcc
Confidence 13489999999988876655554433 234799999999999999999997664321100
Q ss_pred ----ccc--CCCCCcceeeccccccceEEEeehhhhhccchHHHHHHHHHHhCC
Q 008899 418 ----IGF--ISKPQRVNVALTRARHCLWILGNERTLISSESIWGALVCDAKARQ 465 (549)
Q Consensus 418 ----~GF--l~d~~RlNVAlTRAR~~LiIiGn~~tL~~~~~~w~~li~~~~~~g 465 (549)
-.| -.+++.+|||+||||+.|+|+.+... .+.||....+.+
T Consensus 631 ~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~~-------~S~fv~el~~~~ 677 (684)
T PRK11054 631 LPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKGN-------PSPFVEELKNLD 677 (684)
T ss_pred cccccccccHHHHHHHHHHhhhhhcEEEEEEcCCC-------CCHHHHHHhhCC
Confidence 011 12467799999999999999987431 235555555444
No 12
>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=99.56 E-value=2.3e-14 Score=159.66 Aligned_cols=57 Identities=23% Similarity=0.209 Sum_probs=47.4
Q ss_pred CeEEEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhh
Q 008899 387 FTVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLI 448 (549)
Q Consensus 387 ~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~ 448 (549)
....+.|||++||+|+|.||+.+.... ..+.+++.+|||+||||+.++|+|+...|.
T Consensus 519 ~~ayA~TvHKSQGsef~~Vi~~l~~~~-----~~~l~r~llYTaiTRAk~~l~i~~~~~~l~ 575 (586)
T TIGR01447 519 ETAFAMTVHKSQGSEFDHVILILPNGN-----SPVLTRELLYTGITRAKDQLSVWSDKETLN 575 (586)
T ss_pred ceEEEEEeeHhcCCcCCeEEEECCCCC-----CcccccceeEEEeeehhCeEEEEECHHHHH
Confidence 456788999999999999999876432 235678999999999999999999987654
No 13
>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=99.55 E-value=2.1e-14 Score=164.01 Aligned_cols=77 Identities=21% Similarity=0.282 Sum_probs=56.3
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhh-hcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcC-CCcccceecccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLN-HSKHLLNVQYRM 273 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~-l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~-~~~~~L~~qYRm 273 (549)
...|+||||||||+....+...+. ++...++||+||+.||||+-.. ..|..++..+ .+...|++.||.
T Consensus 415 ~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~RQ 484 (720)
T TIGR01448 415 IDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVYRQ 484 (720)
T ss_pred ccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeeecc
Confidence 357999999999999876543333 3455799999999999998432 3455555544 788999999999
Q ss_pred Cc--cccccCc
Q 008899 274 HP--SISLFPN 282 (549)
Q Consensus 274 hp--~I~~f~n 282 (549)
.. .|....+
T Consensus 485 ~~~s~i~~~a~ 495 (720)
T TIGR01448 485 AAGSPIITLAH 495 (720)
T ss_pred CCCcHHHHHHH
Confidence 63 4655554
No 14
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.54 E-value=3.3e-15 Score=145.97 Aligned_cols=77 Identities=34% Similarity=0.508 Sum_probs=52.2
Q ss_pred cHHHHHHHHhcCCcEEEEccccchhhcccCC-CCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCcccccc
Q 008899 165 SKLLLEDFCFKRASLFFSTASSSYKLHSVEI-KPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASK 242 (549)
Q Consensus 165 ~~~~i~~~~l~~a~vI~~T~~sa~~l~~~~~-~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~ 242 (549)
..+.+...+++.++||+||++++........ ..||+||||||||++|+++++|+.. +++++||+|||+||||++.|+
T Consensus 159 ~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~-~~~~~vlvGD~~QLpP~v~s~ 236 (236)
T PF13086_consen 159 IREELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSR-APKRIVLVGDPKQLPPVVKSE 236 (236)
T ss_dssp HHHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTT-TBSEEEEEE-TTS-----S--
T ss_pred cccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHH-hCCEEEEECChhhcCCeeCCC
Confidence 3456678899999999999999965322222 3899999999999999999999964 459999999999999999873
No 15
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.49 E-value=1.6e-13 Score=153.33 Aligned_cols=57 Identities=26% Similarity=0.215 Sum_probs=46.1
Q ss_pred eEEEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhc
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLIS 449 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~ 449 (549)
...+.|||++||+|+|.||+...... ..+.+++.+|||+||||+.+.|+|+...|..
T Consensus 538 ~ayA~TVHKSQGsEf~~Vilvlp~~~-----~~~l~R~LlYTaiTRAk~~l~l~~~~~~l~~ 594 (615)
T PRK10875 538 TAWAMTVHKSQGSEFDHTALVLPNQF-----TPVVTRELVYTAITRARRRLSLYADERVLSA 594 (615)
T ss_pred eEEEEehhhhcCCCCCeEEEECCCcc-----chhhhhhhHHhhhhhhhceEEEEeCHHHHHH
Confidence 45678999999999999998764322 1245688999999999999999999886643
No 16
>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=99.38 E-value=3e-12 Score=146.92 Aligned_cols=69 Identities=25% Similarity=0.264 Sum_probs=50.8
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhh--hcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceecccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQ--LAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRM 273 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~--l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRm 273 (549)
.+.|+||||||||+....+.-.+. .....++|||||+.||||+-.. ..|..+.. ..+...|+..||.
T Consensus 438 ~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG----------~~f~~l~~-~~~~~~Lt~I~RQ 506 (744)
T TIGR02768 438 SDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG----------AAFRAIAE-RIGYAELETIRRQ 506 (744)
T ss_pred CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC----------cHHHHHHH-hhCeEEeeeEEec
Confidence 367999999999999776443332 2245789999999999999543 24555543 3667889999998
Q ss_pred Cc
Q 008899 274 HP 275 (549)
Q Consensus 274 hp 275 (549)
..
T Consensus 507 ~~ 508 (744)
T TIGR02768 507 RE 508 (744)
T ss_pred CC
Confidence 53
No 17
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.37 E-value=2.5e-12 Score=150.94 Aligned_cols=157 Identities=17% Similarity=0.208 Sum_probs=95.2
Q ss_pred CCCCCEEEEEcCCCCChhHH--hHhhh---hcC-----CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc-CCC
Q 008899 195 IKPLNFLVIDEAAQLKESES--TIPLQ---LAG-----INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL-NHS 263 (549)
Q Consensus 195 ~~~fd~VIVDEAsq~~e~e~--lipL~---l~~-----~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~-~~~ 263 (549)
...|++|+|||++..+..+. +-+|. +.+ ...+++|||++|- +....|-...+|.++... +..
T Consensus 326 ~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS-------IY~FRGA~~~~f~~~~~~~~~~ 398 (910)
T PRK13909 326 DSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS-------IYRFRGGKKELFDKVSKDFKQK 398 (910)
T ss_pred hcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh-------hhhhcCCChHHHHHHHHHhhhh
Confidence 35799999999999998763 33432 111 3579999999993 233334455677776543 124
Q ss_pred cccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHH
Q 008899 264 KHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKI 343 (549)
Q Consensus 264 ~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~l 343 (549)
...|.++||++|.|.+|.|..|-.. ....+. ... ......+.+.+... .. ....+++.|++.
T Consensus 399 ~~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~-~~~------~~~~~~g~v~i~~~-~~---------~~~~~a~~ia~~ 460 (910)
T PRK13909 399 VDNLDTNYRSAPLIVDFVNEVFKKK-YKNYKT-QYA------EQHKSGGYVEVVEV-AD---------ESEELLEQLLQE 460 (910)
T ss_pred hcccccCCCCChHHHHHHHHHHHHH-HHhhhh-hhc------ccccCCCcEEEEEC-CC---------ccHHHHHHHHHH
Confidence 5789999999999999999877331 111110 000 00011122222221 10 123457788888
Q ss_pred HHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhh
Q 008899 344 LQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 344 v~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~ 379 (549)
+..+.+.+.. ..+|+|+++.+.|...+.+.|.+
T Consensus 461 I~~l~~~g~~---~~dIaILvR~~~~~~~l~~~L~~ 493 (910)
T PRK13909 461 IQFLLEKGID---PDDIAILCWTNDDALEIKEFLQE 493 (910)
T ss_pred HHHHHHcCCC---cCCEEEEEecCccHHHHHHHHHh
Confidence 8888776543 33799999888777666655543
No 18
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.31 E-value=1.2e-10 Score=140.51 Aligned_cols=85 Identities=18% Similarity=0.126 Sum_probs=61.4
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC----CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc-------CCCc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG----INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL-------NHSK 264 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~----~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~-------~~~~ 264 (549)
.+|++|+|||.+...+.+.-+.-.+.+ ...+++|||++|- +...-|.+.++|...... ....
T Consensus 387 ~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQS-------IY~FRGAdp~lf~~~~~~f~~~~~~~~~~ 459 (1232)
T TIGR02785 387 EKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQS-------IYRFRQADPSLFLEKYHRFAQEGNEHGKR 459 (1232)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcch-------hhhhcCCChHHHHHHHHHhhhhccCCceE
Confidence 589999999999999877333222333 2689999999993 334445566666554321 1345
Q ss_pred ccceeccccCccccccCcccccc
Q 008899 265 HLLNVQYRMHPSISLFPNLQFYR 287 (549)
Q Consensus 265 ~~L~~qYRmhp~I~~f~n~~fY~ 287 (549)
+.|.+|||++|.|..+.|..|..
T Consensus 460 i~L~~NfRS~~~Il~~~N~lF~~ 482 (1232)
T TIGR02785 460 IDLAENFRSRKEVLDTTNYLFKQ 482 (1232)
T ss_pred EECCcCCCCcHHHHHHHHHHHHH
Confidence 78999999999999999988743
No 19
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.30 E-value=1.4e-10 Score=133.49 Aligned_cols=85 Identities=19% Similarity=0.201 Sum_probs=58.3
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhh-cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQL-AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l-~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYR 272 (549)
..|++|+|||++..+..+.-+.-.+ ...+.+++|||+.|- +....|.....|.++... +...+.|.++||
T Consensus 208 ~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Qs-------IY~fRgA~~~~~~~f~~~~~~~~~i~L~~NyR 280 (726)
T TIGR01073 208 RKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCVVGDADQS-------IYGWRGADIQNILSFEKDYPNATTILLEQNYR 280 (726)
T ss_pred HhCCEEEEEccccCCHHHHHHHHHHhCCCCEEEEEeCCCcc-------ccccCCCChHHHHHHHHhCCCCeEEECccCCC
Confidence 4799999999999998875433223 235789999999993 222223333344333321 234578999999
Q ss_pred cCccccccCcccccc
Q 008899 273 MHPSISLFPNLQFYR 287 (549)
Q Consensus 273 mhp~I~~f~n~~fY~ 287 (549)
+++.|..+.|..+-.
T Consensus 281 S~~~Il~~an~li~~ 295 (726)
T TIGR01073 281 STKNILQAANEVIEH 295 (726)
T ss_pred CCHHHHHHHHHHHHh
Confidence 999999999876643
No 20
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=99.30 E-value=9.4e-12 Score=122.80 Aligned_cols=170 Identities=20% Similarity=0.204 Sum_probs=98.1
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceeccccCc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRMHP 275 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRmhp 275 (549)
..++.+|||||++++.......+...+.+.++++|||.|.+............+.... .....+...||+..
T Consensus 61 ~~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~r~~~ 132 (234)
T PF01443_consen 61 KSYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISDI--------SHRFGKRTSYRCPS 132 (234)
T ss_pred CcCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccce--------eeeecceeEeeccc
Confidence 3599999999999997665554445567899999999998766433211111111111 22335677889888
Q ss_pred cccccCccccc-ccccccCcccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHHHHHHHhhcCC
Q 008899 276 SISLFPNLQFY-RNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKILQKLYKAWVGS 354 (549)
Q Consensus 276 ~I~~f~n~~fY-~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~~~~~ 354 (549)
.+..+.+...+ ....... ....+.....+
T Consensus 133 ~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~-------------------------------- 162 (234)
T PF01443_consen 133 DRFDIISALVYTEDHVESS------------------VEFRVETDPSG-------------------------------- 162 (234)
T ss_pred ccceeeecccccCCceeec------------------ccccccccCcc--------------------------------
Confidence 88877765411 1100000 00000000000
Q ss_pred CCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeE-EEecccCCCCccccEEEEEccccCCCCCcccC-CCCCcceeecc
Q 008899 355 KQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTV-KVKSIDGFQGGEEDIIIISTVRCNAGGSIGFI-SKPQRVNVALT 432 (549)
Q Consensus 355 ~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v-~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl-~d~~RlNVAlT 432 (549)
....+.+++. .....+.+. . .+.|++++||.|+|.|++....... .... .++++++||+|
T Consensus 163 -~~~~~~~~~~----~~~~~~~~~----------~~~~~T~~e~qG~tf~~V~l~~~~~~~---~~~~~~~~~~~~VALT 224 (234)
T PF01443_consen 163 -VDKVIVYLTF----TQAEKEQLG----------SDRVFTVHESQGLTFDNVTLVLLSDTD---NELYSESRNHLYVALT 224 (234)
T ss_pred -cCcccchhhH----HHHHHHHcC----------CCceechHHcceEEeCCEEEEECCCcc---cccccCCcccEEEEcc
Confidence 0001222222 111222221 1 6999999999999999886653322 1223 36999999999
Q ss_pred ccccceEEE
Q 008899 433 RARHCLWIL 441 (549)
Q Consensus 433 RAR~~LiIi 441 (549)
|||+.|.|+
T Consensus 225 R~~~~l~i~ 233 (234)
T PF01443_consen 225 RHTKSLVIL 233 (234)
T ss_pred ccccEEEEE
Confidence 999999986
No 21
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.30 E-value=1.7e-11 Score=146.64 Aligned_cols=177 Identities=19% Similarity=0.142 Sum_probs=104.4
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhc-C----CCeEEEEcCCCCCCccccccccccccCcccHHHHHHh--cCCCcccce
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLA-G----INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTS--LNHSKHLLN 268 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~-~----~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~--~~~~~~~L~ 268 (549)
..|+++.|||++.....+--|.-.+. + ...++|||||+|- +...-|.+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQS-------IY~FRgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQS-------IYRFRGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHH-------hhhhcCCChHHHHHHhhccccCceeecc
Confidence 48999999999998876633322222 2 2479999999993 44555667788888877 567788999
Q ss_pred eccccCccccccCccccccc------ccccCcccccccccc--c-CCCCCCCCCeEEEEcCCC-ccccc--ccccCCHHH
Q 008899 269 VQYRMHPSISLFPNLQFYRN------QILDGANVKSKSYEK--H-YLPGTELGPYSFINIIGG-SEEFI--YHSCRNMVE 336 (549)
Q Consensus 269 ~qYRmhp~I~~f~n~~fY~g------~L~~~~~v~~~~~~~--~-~l~~~~~~~~~fidv~~g-~e~~~--~~S~~N~~E 336 (549)
++||+.|.+.+++|..|=.- .+... .+....... . ...+.......+...+.. ..+.. ........+
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 528 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYD-PVAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADLE 528 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCc-hhhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHHHHHHH
Confidence 99999999999999877421 11110 111110000 0 000000001111111110 00100 112344556
Q ss_pred HHHHHHHHHHHHHhhc-----CCCCCccEEEEccchHHHHHHHHHHhhh
Q 008899 337 VSVVIKILQKLYKAWV-----GSKQKVSIGVVSPYTAQAVAIRKKIGSE 380 (549)
Q Consensus 337 a~~V~~lv~~L~~~~~-----~~~~~~sIgIITPY~aQ~~~I~~~L~~~ 380 (549)
|..|...+..+...+. .+....+|+|++.-+.++..|++.|.+.
T Consensus 529 a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 529 ARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 7777777776664331 2334558999999999999888888654
No 22
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.29 E-value=1.7e-11 Score=143.61 Aligned_cols=69 Identities=22% Similarity=0.295 Sum_probs=51.8
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceeccccC
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRMH 274 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRmh 274 (549)
.-++||||||||+....+...+.. ....++|||||+.||||+-.. ..|..+.. ..+...|+..||..
T Consensus 468 ~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~-~i~~a~LteI~RQ~ 536 (1102)
T PRK13826 468 NKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIAD-RIGYAELETIYRQR 536 (1102)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHh-hcCEEEeeeeeecC
Confidence 457999999999998776554432 235799999999999999543 24555553 56778999999985
Q ss_pred cc
Q 008899 275 PS 276 (549)
Q Consensus 275 p~ 276 (549)
..
T Consensus 537 ~~ 538 (1102)
T PRK13826 537 EQ 538 (1102)
T ss_pred Ch
Confidence 43
No 23
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=99.29 E-value=3.7e-11 Score=144.40 Aligned_cols=85 Identities=22% Similarity=0.258 Sum_probs=61.0
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC------------CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc---
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG------------INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--- 260 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~------------~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--- 260 (549)
..|++|+|||++..+..+.-+...+.+ .+.+++|||++|- +...-|-+..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQS-------IY~FRGAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQS-------IYSFQGADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCccc-------CccccCCCHHHHHHHHHHHHH
Confidence 589999999999999876433322211 3579999999993 333445566677664321
Q ss_pred -------CCCcccceeccccCccccccCcccccc
Q 008899 261 -------NHSKHLLNVQYRMHPSISLFPNLQFYR 287 (549)
Q Consensus 261 -------~~~~~~L~~qYRmhp~I~~f~n~~fY~ 287 (549)
....+.|++|||++|.|.++.|..|-+
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 123578999999999999999988854
No 24
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.27 E-value=3.1e-11 Score=144.02 Aligned_cols=174 Identities=18% Similarity=0.078 Sum_probs=99.3
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC-CC--eEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG-IN--HAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~-~~--~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYR 272 (549)
.+|++|+|||++.....+.-+.-.+.+ .. .+++||||+|- +....|.+...|-+....-...+.|.+|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQS-------IY~FRGAD~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQA-------IYSFRGADIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccc-------cccCCCCCHHHHHHHHHhcCcEEECCCCCC
Confidence 489999999999999887554443332 22 79999999994 223334444555554433235678999999
Q ss_pred cCccccccCcccccccccc-----cCcccccccc---cccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHH
Q 008899 273 MHPSISLFPNLQFYRNQIL-----DGANVKSKSY---EKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKIL 344 (549)
Q Consensus 273 mhp~I~~f~n~~fY~g~L~-----~~~~v~~~~~---~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv 344 (549)
++|.|.++.|..|-...-. +...+..... .....++...+++.++.......+ ....-..+|+.+++.+
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~a~~~a~~I 444 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESEG---VDDYRQTIAQKCAREI 444 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCcccc---cchHHHHHHHHHHHHH
Confidence 9999999999877432100 0001110000 000112222345555544221111 0011224566666666
Q ss_pred HHHHHhhc------------CCCCCccEEEEccchHHHHHHHHHHhh
Q 008899 345 QKLYKAWV------------GSKQKVSIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 345 ~~L~~~~~------------~~~~~~sIgIITPY~aQ~~~I~~~L~~ 379 (549)
..++..+. .+....+|+|++..+.|...|++.|.+
T Consensus 445 ~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~ 491 (1087)
T TIGR00609 445 ALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKK 491 (1087)
T ss_pred HHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHH
Confidence 66665431 112335899999998888877776643
No 25
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.22 E-value=8.2e-11 Score=140.98 Aligned_cols=174 Identities=16% Similarity=0.103 Sum_probs=96.0
Q ss_pred CCCCCEEEEEcCCCCChhHHhHhhhhcC---CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceecc
Q 008899 195 IKPLNFLVIDEAAQLKESESTIPLQLAG---INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQY 271 (549)
Q Consensus 195 ~~~fd~VIVDEAsq~~e~e~lipL~l~~---~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qY 271 (549)
..+|++|+|||.+.....+.-+...+.+ ...+++||||+|- +....|.+...|-.........+.|.++|
T Consensus 375 ~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQs-------IY~FRGAd~~~~l~~~~~~~~~~~L~~Ny 447 (1181)
T PRK10876 375 RTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQA-------IYAFRGADIFTYMKARSEVSAHYTLDTNW 447 (1181)
T ss_pred HhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccc-------cccCCCCCchHHHHHHhccCCeeECCCCc
Confidence 3589999999999999887554444432 3469999999994 12222223222322222223457899999
Q ss_pred ccCccccccCccccccccc---c---cCcccccc--cccccC-CCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHH
Q 008899 272 RMHPSISLFPNLQFYRNQI---L---DGANVKSK--SYEKHY-LPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIK 342 (549)
Q Consensus 272 Rmhp~I~~f~n~~fY~g~L---~---~~~~v~~~--~~~~~~-l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~ 342 (549)
|++|.|.++.|..|-...- . ...++... .....+ ..+....++.++-. .+... ........||+.|+.
T Consensus 448 RS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~--~~~~~~~~eA~~iA~ 524 (1181)
T PRK10876 448 RSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGEGV--GVGDYQQTMAQQCAA 524 (1181)
T ss_pred CcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCCcc--CcchHHHHHHHHHHH
Confidence 9999999999987744211 0 00001000 000000 01111123333222 11111 111223457888888
Q ss_pred HHHHHHHhhcC------------CCCCccEEEEccchHHHHHHHHHHh
Q 008899 343 ILQKLYKAWVG------------SKQKVSIGVVSPYTAQAVAIRKKIG 378 (549)
Q Consensus 343 lv~~L~~~~~~------------~~~~~sIgIITPY~aQ~~~I~~~L~ 378 (549)
-+..++..+.. +....+|+|+++.+.|...+++.|.
T Consensus 525 ~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~ 572 (1181)
T PRK10876 525 QIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALT 572 (1181)
T ss_pred HHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHH
Confidence 88888765421 1223589999999888876665553
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.21 E-value=6.1e-11 Score=138.22 Aligned_cols=70 Identities=26% Similarity=0.298 Sum_probs=51.3
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhh--hcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceecccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQ--LAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRM 273 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~--l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRm 273 (549)
.+.+++|||||||+....+.-.+. .....++|||||+.||||+-.. ..|.-+.. ..+...|+..+|.
T Consensus 432 ~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~-~~~~a~LteI~RQ 500 (988)
T PRK13889 432 TSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHE-RHGGAEIGEVRRQ 500 (988)
T ss_pred ccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHH-hcCeEEeceeecC
Confidence 356899999999999777554443 2345799999999999998322 34555543 3567889999998
Q ss_pred Ccc
Q 008899 274 HPS 276 (549)
Q Consensus 274 hp~ 276 (549)
...
T Consensus 501 ~~~ 503 (988)
T PRK13889 501 RED 503 (988)
T ss_pred CCH
Confidence 644
No 27
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.19 E-value=1.5e-10 Score=133.03 Aligned_cols=85 Identities=18% Similarity=0.171 Sum_probs=58.7
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhc-CCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~-~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYR 272 (549)
..|++|+|||++..+..+.-+.-.+. ....+++|||+.|- +....|.+...|.++... +...+.|+.+||
T Consensus 212 ~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~dQs-------IY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyR 284 (721)
T PRK11773 212 ERFTHILVDEFQDTNAIQYAWIRLLAGDTGKVMIVGDDDQS-------IYGWRGAQVENIQRFLNDFPGAETIRLEQNYR 284 (721)
T ss_pred HhCCEEEEEchhcCCHHHHHHHHHHhCCCCeEEEEecCccc-------ccccCCCChHHHHHHHHhCCCCeEEECCcCCC
Confidence 47999999999999987744333333 35789999999993 222223334444443322 334678999999
Q ss_pred cCccccccCcccccc
Q 008899 273 MHPSISLFPNLQFYR 287 (549)
Q Consensus 273 mhp~I~~f~n~~fY~ 287 (549)
+++.|.++.|..+-.
T Consensus 285 St~~Il~~an~li~~ 299 (721)
T PRK11773 285 STANILKAANALIAN 299 (721)
T ss_pred CCHHHHHHHHHHHHh
Confidence 999999999876643
No 28
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.19 E-value=1e-10 Score=134.40 Aligned_cols=85 Identities=16% Similarity=0.172 Sum_probs=58.9
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhc-CCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~-~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYR 272 (549)
..|++|+|||++..+..+..+.-.+. ..+.+++|||+.|- +....|.+...+.+.... +...+.|+.+||
T Consensus 207 ~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Qs-------IY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyR 279 (715)
T TIGR01075 207 ERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMIVGDDDQS-------IYGWRGAQVENIQKFLKDFPGAETIRLEQNYR 279 (715)
T ss_pred HhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEEEeCCccc-------ccccCCCCHHHHHHHHHhCCCCeEEECcccCC
Confidence 47999999999999988754443333 35789999999992 222223333444443322 234678999999
Q ss_pred cCccccccCcccccc
Q 008899 273 MHPSISLFPNLQFYR 287 (549)
Q Consensus 273 mhp~I~~f~n~~fY~ 287 (549)
+++.|..+.|..+-.
T Consensus 280 S~~~Il~~an~li~~ 294 (715)
T TIGR01075 280 STANILAAANALIAN 294 (715)
T ss_pred CCHHHHHHHHHHHHh
Confidence 999999999876643
No 29
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.11 E-value=6.9e-10 Score=126.51 Aligned_cols=83 Identities=19% Similarity=0.183 Sum_probs=60.1
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhc-CCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~-~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYR 272 (549)
..|++|+|||++.+...+.-+.-.+. ...++++|||+.|- +....|.+...|.++... +...+.|+++||
T Consensus 206 ~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l~~VGD~~Qs-------IY~frGA~~~~~~~f~~~~~~~~~~~L~~NyR 278 (672)
T PRK10919 206 NKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQS-------IYSWRGARPQNLVLLSQDFPALQVIKLEQNYR 278 (672)
T ss_pred hcCCEEEEEchhcCCHHHHHHHHHHHcCCCEEEEEcCCccc-------ccccCCCChHHHHHHHHhCCCCcEEECCCCCC
Confidence 47999999999999988755443343 34689999999994 223334445555554332 345678999999
Q ss_pred cCccccccCcccc
Q 008899 273 MHPSISLFPNLQF 285 (549)
Q Consensus 273 mhp~I~~f~n~~f 285 (549)
+++.|..+.|..+
T Consensus 279 s~~~I~~~an~li 291 (672)
T PRK10919 279 SSGRILKAANILI 291 (672)
T ss_pred CcHHHHHHHHHHH
Confidence 9999999998765
No 30
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.94 E-value=1e-09 Score=118.67 Aligned_cols=206 Identities=24% Similarity=0.221 Sum_probs=140.8
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHh---c-CCCcccceeccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTS---L-NHSKHLLNVQYR 272 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~---~-~~~~~~L~~qYR 272 (549)
.+.++|||||+..+......--.+..+...-++||-.|- + ...++ ..+.++|+.. . .+..+.|..+||
T Consensus 528 ~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~--i-----~~~~~-e~~~~e~~~~~fed~~~e~v~l~~syr 599 (747)
T COG3973 528 RLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQV--I-----YDEAQ-ELSPMERMDVFFEDPSFEYVGLIASYR 599 (747)
T ss_pred cccceeechhhhcchhhhHHHhhhhhhccceEeccCCce--e-----hhhhc-ccCHHHHHHHHHhCCCchhhhhhhhhc
Confidence 678999999999988775554456677899999999994 1 11111 1344455432 2 255788999999
Q ss_pred cCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHHHHHHHhhc
Q 008899 273 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKILQKLYKAWV 352 (549)
Q Consensus 273 mhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~~~ 352 (549)
++.+|.+|.|...- +..+.. |+ .. +|..+..-.+-.|..=++...+++..|.+.+.
T Consensus 600 St~eI~efan~~l~-----d~~~~~---------------p~---~r-sge~p~~i~~~~ne~l~qr~~~ii~~mkk~~~ 655 (747)
T COG3973 600 STAEIDEFANSLLP-----DRFRIH---------------PL---TR-SGEKPAVIMSVANEELVQRNPDIIPRMKKRGS 655 (747)
T ss_pred ChHHHHHHHHHhcc-----CCCccc---------------hh---hc-CCCCceeeeccchHHHHHhhHHHHHHHHhcCC
Confidence 99999999986532 111100 10 01 22222223344466667777788888877654
Q ss_pred CCCCCccEEEEccchHHHHHHHHHHhhhhc--------CCCCCeEEEecccCCCCccccEEEEEccccCCCCCcccCCCC
Q 008899 353 GSKQKVSIGVVSPYTAQAVAIRKKIGSEYE--------NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKP 424 (549)
Q Consensus 353 ~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~--------~~~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~ 424 (549)
. .|||||+-..|...+...|+.+-. .....+..|-.|+-.+|.|||.||+.-.. +. -.--.+.
T Consensus 656 e-----tiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~---e~te~~~ 726 (747)
T COG3973 656 E-----TIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IV---EETEQDL 726 (747)
T ss_pred C-----ceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hh---cccccch
Confidence 4 699999999999999999875421 22344688999999999999999986542 11 1113457
Q ss_pred CcceeeccccccceEEEee
Q 008899 425 QRVNVALTRARHCLWILGN 443 (549)
Q Consensus 425 ~RlNVAlTRAR~~LiIiGn 443 (549)
+-+|||+|||-|.|+|+|-
T Consensus 727 r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 727 RDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhHHHHHHHHHHHHHHhhc
Confidence 8899999999999999875
No 31
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=98.75 E-value=2.6e-09 Score=122.53 Aligned_cols=56 Identities=25% Similarity=0.315 Sum_probs=48.1
Q ss_pred eEEEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhc
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLIS 449 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~ 449 (549)
.-.+.|||++||+|+|.||+.+.+ .. -+-+++.+|||+||||+.+.++|+...|..
T Consensus 621 ~ayA~TIHKsQGSef~~v~v~l~~-~~-----~~l~r~l~YtAiTRar~~l~l~~~~~~~~~ 676 (696)
T COG0507 621 LAYAMTIHKSQGSEFDRVIVLLPS-HS-----PMLSRELLYTAITRARDRLILYGDEKAFAA 676 (696)
T ss_pred hheeeeEecccCCCCCeEEEEcCC-Cc-----hhhhhhHHHHHhhhhheeEEEEcChHHHHH
Confidence 457889999999999999999987 21 156699999999999999999999887763
No 32
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.58 E-value=2e-07 Score=114.19 Aligned_cols=82 Identities=17% Similarity=0.248 Sum_probs=59.7
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhhc--CCCeEEEEcCCCCCCccccccccccccCcccHHHHHHh-cCCCcccceecccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQLA--GINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTS-LNHSKHLLNVQYRM 273 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l~--~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~-~~~~~~~L~~qYRm 273 (549)
..+++|||||||+....+...+... ...++|||||+.||||+-.. ..|..++. .+.+...|+..+|-
T Consensus 1062 ~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG----------~~f~~l~~~~~i~~~~L~eI~RQ 1131 (1747)
T PRK13709 1062 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG----------QPFRLMQTRSAADVAIMKEIVRQ 1131 (1747)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC----------hHHHHHHHhCCCCeEEeCeEEcC
Confidence 4589999999999977765555432 24799999999999998422 56777776 46889999999999
Q ss_pred CccccccCcccccccc
Q 008899 274 HPSISLFPNLQFYRNQ 289 (549)
Q Consensus 274 hp~I~~f~n~~fY~g~ 289 (549)
.+.+-.-. ..+..|+
T Consensus 1132 ~~~lr~Av-~~~~~g~ 1146 (1747)
T PRK13709 1132 TPELREAV-YSLINRD 1146 (1747)
T ss_pred cHHHHHHH-HHHHccC
Confidence 87433322 3344443
No 33
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.56 E-value=3.4e-07 Score=110.94 Aligned_cols=75 Identities=20% Similarity=0.251 Sum_probs=58.0
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc-CCCcccceecccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL-NHSKHLLNVQYRM 273 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~-~~~~~~L~~qYRm 273 (549)
+.+++|||||||+....+...+.+ ....++|||||+.||||+-.. +.|+-++.. +.+...|+..+|-
T Consensus 930 ~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG----------~~F~~lq~~~~~~ta~L~eI~RQ 999 (1623)
T PRK14712 930 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG----------QPFRLQQTRSAADVVIMKEIVRQ 999 (1623)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC----------HHHHHHHHcCCCCeEEeCeeecC
Confidence 468999999999998765443322 234799999999999998432 578888875 6789999999999
Q ss_pred CccccccC
Q 008899 274 HPSISLFP 281 (549)
Q Consensus 274 hp~I~~f~ 281 (549)
.|.+-..+
T Consensus 1000 ~~elr~AV 1007 (1623)
T PRK14712 1000 TPELREAV 1007 (1623)
T ss_pred CHHHHHHH
Confidence 88765544
No 34
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.53 E-value=2e-08 Score=113.51 Aligned_cols=283 Identities=22% Similarity=0.228 Sum_probs=188.7
Q ss_pred HHhcCCcEEEEccccchhhc--ccCCCCCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCCCcccccccccccc
Q 008899 172 FCFKRASLFFSTASSSYKLH--SVEIKPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVASKISDEAG 248 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~--~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QLpPiv~s~~~~~~~ 248 (549)
.+.+ ++|++.|...+.... ....+.+.+.+.|||+++.+++.+.|+.+++ ..+++|+||+.|+-|...+.......
T Consensus 239 ~~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~ 317 (775)
T KOG1804|consen 239 DLFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQA 317 (775)
T ss_pred hhcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhh
Confidence 3444 888888887665422 2335678999999999999999999987665 46899999999999988776655444
Q ss_pred CcccHHHHH----HhcCCCcccceeccccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCcc
Q 008899 249 FGRSLFERL----TSLNHSKHLLNVQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSE 324 (549)
Q Consensus 249 ~~~SLfeRl----~~~~~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e 324 (549)
.. .+..++ +-.+.+-.-.+.+||+|-.|..|.+..||.. ..++......... .....|..|.... +..
T Consensus 318 ~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il--~~~p~~a~~k~~~----~rl~~p~~~~~~~-~~~ 389 (775)
T KOG1804|consen 318 LH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYIL--VCAPSNASGKQPA----HRLHYPLTFSTAR-GED 389 (775)
T ss_pred hh-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhh--ccccccccccccc----ccccccccccccc-ccc
Confidence 33 222222 2235566778999999999999999999964 3334332221111 1113345555442 222
Q ss_pred cc--cccccCCHHHHHHHHHHHHHHHHhhcCCC---CCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCC
Q 008899 325 EF--IYHSCRNMVEVSVVIKILQKLYKAWVGSK---QKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQG 399 (549)
Q Consensus 325 ~~--~~~S~~N~~Ea~~V~~lv~~L~~~~~~~~---~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG 399 (549)
.. ....++|..|+..++.-+..+.+.+.... .-.++|++++|..|+..++..+.+. .++.+...--.+|
T Consensus 390 ~~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De------Ag~stEpe~lv~i 463 (775)
T KOG1804|consen 390 VRAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE------AGVSTEPELLVPG 463 (775)
T ss_pred ccccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc------cccccCccccccc
Confidence 22 34557888899888888888886554321 1237999999999999988877432 1233333334444
Q ss_pred cccc---EEEEEccccC--------CCCCcccCCCCCcceeeccccccceEEEeehhhhhc---cchHHHHHHHHHHhCC
Q 008899 400 GEED---IIIISTVRCN--------AGGSIGFISKPQRVNVALTRARHCLWILGNERTLIS---SESIWGALVCDAKARQ 465 (549)
Q Consensus 400 ~E~D---iVIlS~vrs~--------~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~---~~~~w~~li~~~~~~g 465 (549)
..+- .|++++.... .....| .+...+|.|+|||-.+.-++|+.+.+.. ....|.+....+-.+.
T Consensus 464 ~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~g--l~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~ 541 (775)
T KOG1804|consen 464 KQFRQPFQVVLSGDHTQLGPVSKSARAEELG--LDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENR 541 (775)
T ss_pred ccccceeEEEEccCcccccccccchhhhhhc--ccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccc
Confidence 4444 5555554221 111222 2477899999999999999999887654 2478999999999998
Q ss_pred ceecCC
Q 008899 466 CFFNAD 471 (549)
Q Consensus 466 ~~~~~~ 471 (549)
.+|+..
T Consensus 542 l~y~~e 547 (775)
T KOG1804|consen 542 LYYLGE 547 (775)
T ss_pred cccccc
Confidence 888764
No 35
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.36 E-value=7.1e-08 Score=83.27 Aligned_cols=50 Identities=26% Similarity=0.243 Sum_probs=39.4
Q ss_pred eEEEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEE
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWIL 441 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIi 441 (549)
.+.+.|+|++||.|+|.||+....... .-....+++|||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~----~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN----FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS----GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc----CCchhhccEEeeHhHhhhhhCCC
Confidence 688999999999999999998876541 11334677999999999999986
No 36
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.33 E-value=3.4e-07 Score=88.91 Aligned_cols=82 Identities=24% Similarity=0.269 Sum_probs=53.7
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC--CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceecccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG--INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYRM 273 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~--~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYRm 273 (549)
.+.+++|||||+|+....+...+.... ..++|++|||.||||+..+ +.|.-+...+...+.|+..+|.
T Consensus 92 ~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~g----------~~~~~l~~~~~~~~~L~~i~Rq 161 (196)
T PF13604_consen 92 PKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGAG----------SPFADLQESGGITVELTEIRRQ 161 (196)
T ss_dssp TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCSTT----------CHHHHHCGCSTTEEEE---SCC
T ss_pred CcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcCC----------cHHHHHHhcCCCeEEeChhhcC
Confidence 467999999999999887655444322 4689999999999999533 5677777666558899999999
Q ss_pred C-ccccccCccccccc
Q 008899 274 H-PSISLFPNLQFYRN 288 (549)
Q Consensus 274 h-p~I~~f~n~~fY~g 288 (549)
. +.+.... ..+.+|
T Consensus 162 ~~~~~~~~~-~~~~~g 176 (196)
T PF13604_consen 162 KDPELREAA-KAIREG 176 (196)
T ss_dssp CCTHHHHHH-HHHCTT
T ss_pred CChHHHHHH-HHHHcC
Confidence 6 5554433 334444
No 37
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.33 E-value=1.2e-06 Score=109.75 Aligned_cols=74 Identities=20% Similarity=0.291 Sum_probs=54.1
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcC-CCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLN-HSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~-~~~~~L~~qYR 272 (549)
.+.+++|||||||+....+.-.+.+ ....++|||||+.||||+-. | ..|+-++..+ .+...|+..+|
T Consensus 1111 ~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~a---------G-~~f~~~~~~~~~~~~~L~~I~R 1180 (1960)
T TIGR02760 1111 FRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAA---------G-KPFELAITFDIIDTAIMKEIVR 1180 (1960)
T ss_pred CcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCC---------C-cCHHHHHhcCCCCeEEeeeEec
Confidence 3568999999999998776555432 34479999999999999732 2 3455555444 78889999999
Q ss_pred c--Cccccc
Q 008899 273 M--HPSISL 279 (549)
Q Consensus 273 m--hp~I~~ 279 (549)
- .|.+..
T Consensus 1181 Q~~~~~l~~ 1189 (1960)
T TIGR02760 1181 QNNSAELKA 1189 (1960)
T ss_pred CCCCHHHHH
Confidence 9 355543
No 38
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=98.23 E-value=1.5e-07 Score=99.42 Aligned_cols=87 Identities=15% Similarity=0.128 Sum_probs=56.0
Q ss_pred CCCCCCEEEEEcCCCCChh----------HHhHhhhhcCCCeEEEEcCCCCC-CccccccccccccCcccHHHHHHhc-C
Q 008899 194 EIKPLNFLVIDEAAQLKES----------ESTIPLQLAGINHAVLIGDECQL-PAMVASKISDEAGFGRSLFERLTSL-N 261 (549)
Q Consensus 194 ~~~~fd~VIVDEAsq~~e~----------e~lipL~l~~~~~vILvGD~~QL-pPiv~s~~~~~~~~~~SLfeRl~~~-~ 261 (549)
....+|+||||||+.+.+- ..+.-+ +...+.+|++-|+.|- .|- .-.....++.+... +
T Consensus 80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i-~~~~kv~v~f~D~~Q~i~~~--------e~~~~~~l~~~~~~~~ 150 (352)
T PF09848_consen 80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEI-IKRAKVVVFFYDENQSIRPS--------EIGTLENLEEIAENLG 150 (352)
T ss_pred cCCcCCEEEEehhHhhhhccccccccccHHHHHHH-HhcCCEEEEEEccccEeecc--------cCCCHHHHHHHHHhcC
Confidence 3468999999999999881 223222 2235688888888884 221 01122334444333 3
Q ss_pred CC--c-ccceecccc--CccccccCcccccccc
Q 008899 262 HS--K-HLLNVQYRM--HPSISLFPNLQFYRNQ 289 (549)
Q Consensus 262 ~~--~-~~L~~qYRm--hp~I~~f~n~~fY~g~ 289 (549)
.. . +.|+.|||| .+++..|++..++...
T Consensus 151 ~~~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 151 IEVRHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred CccccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 22 2 389999999 8999999987776543
No 39
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=97.91 E-value=5.5e-05 Score=86.61 Aligned_cols=155 Identities=17% Similarity=0.118 Sum_probs=91.1
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhc--CCCcccceeccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSL--NHSKHLLNVQYR 272 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~--~~~~~~L~~qYR 272 (549)
..|++|+|||++..+..+.-+.-.+.+ ...+.+|||+.|- +....|.+...|.+.... +...+.|.++||
T Consensus 205 ~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~vGD~~Qs-------IY~frga~~~~~~~~~~~~~~~~~~~L~~NyR 277 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVGDDDQS-------IYSWRGARPENLVLLKEDFPQLKVIKLEQNYR 277 (664)
T ss_pred HhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEEEcCCccc-------ccCCCCCCHHHHHHHHHhCCCCeEEECCCCCC
Confidence 479999999999999887544433333 4689999999993 111222233334333321 234578999999
Q ss_pred cCccccccCcccccccccccCcccccccccccCCCC-CCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHHHHHHHhh
Q 008899 273 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPG-TELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKILQKLYKAW 351 (549)
Q Consensus 273 mhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~-~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~~ 351 (549)
++|.|.++.|..|-.+. .. +.....+. ...+++.++... ....|+..|+..+.......
T Consensus 278 s~~~Il~~~n~l~~~~~-----~~----~~~~~~~~~~~g~~v~~~~~~-----------~~~~Ea~~ia~~I~~~~~~~ 337 (664)
T TIGR01074 278 STGRILKAANILIANNP-----HV----FEKKLFSELGYGEKIKVIECN-----------NEEHEAERIAGEIIAHKLVN 337 (664)
T ss_pred ChHHHHHHHHHHHhcCc-----cc----ccccccccCCCCCceEEEeCC-----------CHHHHHHHHHHHHHHHHHcC
Confidence 99999999997442211 00 00000000 001123333221 12457888777665322111
Q ss_pred cCCCCCccEEEEccchHHHHHHHHHHhh
Q 008899 352 VGSKQKVSIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 352 ~~~~~~~sIgIITPY~aQ~~~I~~~L~~ 379 (549)
...-.+|+|++..+.|...+...|.+
T Consensus 338 --~~~~~diAVL~R~~~~~~~l~~~l~~ 363 (664)
T TIGR01074 338 --KTQYKDYAILYRGNHQSRLLEKALMQ 363 (664)
T ss_pred --CCCcccEEEEEecCchHHHHHHHHHH
Confidence 12234899999999999888888854
No 40
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=97.86 E-value=1.8e-06 Score=89.14 Aligned_cols=60 Identities=22% Similarity=0.220 Sum_probs=43.7
Q ss_pred CCCeEEEecccCCCCccccEEEEEccccCCCCC-------cccCCCCCcceeeccccccceEEEeeh
Q 008899 385 DGFTVKVKSIDGFQGGEEDIIIISTVRCNAGGS-------IGFISKPQRVNVALTRARHCLWILGNE 444 (549)
Q Consensus 385 ~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~-------~GFl~d~~RlNVAlTRAR~~LiIiGn~ 444 (549)
....|.|.|||++.|.|+|+||+..+..+.-.. -.+-.+.|.+|||+||||+.|+|++..
T Consensus 284 ~~~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 284 EDDGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp CCGSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred cccCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 356899999999999999999998764332110 112234677999999999999999864
No 41
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=97.16 E-value=0.0018 Score=74.02 Aligned_cols=157 Identities=16% Similarity=0.124 Sum_probs=100.0
Q ss_pred CCCCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcC--CCcccceecc
Q 008899 195 IKPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLN--HSKHLLNVQY 271 (549)
Q Consensus 195 ~~~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~--~~~~~L~~qY 271 (549)
..+|++|+|||.+.....+..+.-.+.+ ...+..|||+.|- +....|.....+..+...- .+.+.|..+|
T Consensus 211 ~~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQs-------IY~frGA~~~ni~~f~~df~~~~~i~Le~Ny 283 (655)
T COG0210 211 QARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQS-------IYGFRGADPENILDFEKDFPAAKVIKLEQNY 283 (655)
T ss_pred HhhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCccc-------cceeCCCChHHHHHHHhhCCCCcEEEecCCC
Confidence 3589999999999998876544433434 4678899999994 2223344444444443322 4678999999
Q ss_pred ccCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEE-cCCCcccccccccCCHHHHHHHHHHHHHHHHh
Q 008899 272 RMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFIN-IIGGSEEFIYHSCRNMVEVSVVIKILQKLYKA 350 (549)
Q Consensus 272 Rmhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fid-v~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~ 350 (549)
|+.|.|....|...=.+ ...... -.+.. ...|.............|+..|...+..+...
T Consensus 284 RSt~~Il~~An~~i~~n-----~~r~~k--------------~l~~~~~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~ 344 (655)
T COG0210 284 RSTPNILAAANKVIANN-----KKRQAK--------------TLRTEVEGSGEKVVLLLANDEEDEARWIASEIDALIEI 344 (655)
T ss_pred CCcHHHHHHHHHHHhcC-----CccCCC--------------cceeccCCCCCCceEEeCCChHHHHHHHHHHHHHHHHc
Confidence 99999999998654211 111100 01111 11111111223334577999999999999887
Q ss_pred hcCCCCCccEEEEccchHHHHHHHHHHhh
Q 008899 351 WVGSKQKVSIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 351 ~~~~~~~~sIgIITPY~aQ~~~I~~~L~~ 379 (549)
+. ....+|+|+...+.|...+.+.+..
T Consensus 345 ~~--~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 345 GK--VNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred CC--CChhhEEEEEecCcchHHHHHHHHH
Confidence 73 2234799999988999888888753
No 42
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=97.08 E-value=0.0011 Score=71.33 Aligned_cols=240 Identities=16% Similarity=0.136 Sum_probs=121.3
Q ss_pred CCCCCEEEEEcCCCCChhH-HhHhhhhcCCCeEEEEcCCCCC-------Ccc-ccccccccccCcccHHHHHHhcCCCcc
Q 008899 195 IKPLNFLVIDEAAQLKESE-STIPLQLAGINHAVLIGDECQL-------PAM-VASKISDEAGFGRSLFERLTSLNHSKH 265 (549)
Q Consensus 195 ~~~fd~VIVDEAsq~~e~e-~lipL~l~~~~~vILvGD~~QL-------pPi-v~s~~~~~~~~~~SLfeRl~~~~~~~~ 265 (549)
..-+|+|+|||++..+..- -|+-+.....+++|.+||.-|- ||- ++...... .-..+| .+....-+
T Consensus 293 ~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg-~P~V~l----~radr~Di 367 (660)
T COG3972 293 KKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDG-EPRVNL----ARADRNDI 367 (660)
T ss_pred cccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCC-Cccccc----ccCccccc
Confidence 3468999999999886432 1222334467999999999993 221 11111000 000110 01112346
Q ss_pred cceeccccCccccccCccc---ccccccc--cCcccc-ccccccc---C-------CCCCCCCCeEEEEcCCCccccc--
Q 008899 266 LLNVQYRMHPSISLFPNLQ---FYRNQIL--DGANVK-SKSYEKH---Y-------LPGTELGPYSFINIIGGSEEFI-- 327 (549)
Q Consensus 266 ~L~~qYRmhp~I~~f~n~~---fY~g~L~--~~~~v~-~~~~~~~---~-------l~~~~~~~~~fidv~~g~e~~~-- 327 (549)
.|...||..|.-.-++... .|.+-++ +.|..- +..|... + +..+....-.|++..+..+...
T Consensus 368 VL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~f 447 (660)
T COG3972 368 VLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLF 447 (660)
T ss_pred hHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhhee
Confidence 7889999876643333221 2332211 222110 0111000 0 0000011112333211111110
Q ss_pred ccccCCHHHHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHH----HHHHHHHhhhhc-------C-------CCCCeE
Q 008899 328 YHSCRNMVEVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQA----VAIRKKIGSEYE-------N-------KDGFTV 389 (549)
Q Consensus 328 ~~S~~N~~Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~----~~I~~~L~~~~~-------~-------~~~~~v 389 (549)
-.+-.-..|+.+|+.-+........ ...+|.||.+-.... ..+.+.|..+.. + .....|
T Consensus 448 i~fd~~~deivwi~~qI~~~~edeL---e~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkv 524 (660)
T COG3972 448 IGFDNGPDEIVWIIIQIKEFREDEL---EQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKV 524 (660)
T ss_pred eccCCcchhhHHHHHHHHHhccccc---ccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceE
Confidence 0111124566666655555332222 344899998744322 223333322110 0 112279
Q ss_pred EEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeeccccccceEEEeehh
Q 008899 390 KVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNER 445 (549)
Q Consensus 390 ~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~ 445 (549)
.+.+|.+..|.|+.+|+.-.+..-. .|.-..++-+.+|+||.|.-+-|+|-..
T Consensus 525 tis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~glgp 577 (660)
T COG3972 525 TISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVGLGP 577 (660)
T ss_pred EeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhccCh
Confidence 9999999999999999987765442 4555667789999999999999998433
No 43
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.96 E-value=0.00032 Score=80.38 Aligned_cols=60 Identities=17% Similarity=0.044 Sum_probs=44.6
Q ss_pred CCCeEEEecccCCCCccccEEEEEccccCCCC---C---cccCCCCCcceeeccccccceEEEeeh
Q 008899 385 DGFTVKVKSIDGFQGGEEDIIIISTVRCNAGG---S---IGFISKPQRVNVALTRARHCLWILGNE 444 (549)
Q Consensus 385 ~~~~v~V~TVd~fQG~E~DiVIlS~vrs~~~~---~---~GFl~d~~RlNVAlTRAR~~LiIiGn~ 444 (549)
....|.++|+|+.+|.|+++||+..+-...-. . -..-.+++.+|||+||||+.|++....
T Consensus 548 ~~d~V~l~TiH~sKGLEf~~Vfv~gl~eg~~P~~~~~~~~~~~EErRlfYVA~TRAk~~L~Ls~~~ 613 (664)
T TIGR01074 548 ELDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSSIEEDNVEEERRLAYVGITRAQKELTFTLCK 613 (664)
T ss_pred CCCeEEEEeeecccCccCCeEEEeCCcCCCCCCccccccchHHHHHHHHHHhhhhhhheeEEEehh
Confidence 44679999999999999999999876432110 0 011234677899999999999998754
No 44
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=96.74 E-value=0.00062 Score=72.46 Aligned_cols=78 Identities=23% Similarity=0.230 Sum_probs=45.7
Q ss_pred CCCEEEEEcCCCCChhHHhHh-------------hhhcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCC
Q 008899 197 PLNFLVIDEAAQLKESESTIP-------------LQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHS 263 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lip-------------L~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~ 263 (549)
..+++||||+||+........ -..+|...+|++||..||||++....... .+..+++..-.-....
T Consensus 102 ~~~~lIiDEism~~~~~l~~i~~~lr~i~~~~~~~~pFGG~~vil~GDf~QlpPV~~~~~~~~-~~~~~~~~s~lw~~~~ 180 (364)
T PF05970_consen 102 KADVLIIDEISMVSADMLDAIDRRLRDIRKSKDSDKPFGGKQVILFGDFLQLPPVVPRGEREE-IFNASIFSSPLWNQFK 180 (364)
T ss_pred hheeeecccccchhHHHHHHHHHhhhhhhcccchhhhcCcceEEeehhhhhcCCCcccccccc-eehhhccccccccchh
Confidence 569999999999975432211 01245678999999999999985543221 1111111111111133
Q ss_pred cccceeccccCc
Q 008899 264 KHLLNVQYRMHP 275 (549)
Q Consensus 264 ~~~L~~qYRmhp 275 (549)
.+.|+.++|...
T Consensus 181 ~~~L~~~~R~~~ 192 (364)
T PF05970_consen 181 IFELTKNMRQSD 192 (364)
T ss_pred hhhhhhceeecc
Confidence 567888888744
No 45
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=96.26 E-value=0.0061 Score=77.38 Aligned_cols=66 Identities=20% Similarity=0.179 Sum_probs=47.1
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccceeccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLNVQYR 272 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~~qYR 272 (549)
+-++||||||+|+...++...+.. ....++|||||+.||||+-.. +.|.-+...|.+.+.|...-|
T Consensus 529 ~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG----------~~f~~L~~~gv~t~~l~~i~r 596 (1960)
T TIGR02760 529 NKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAG----------SAIDLLKEGGVTTYAWVDTKQ 596 (1960)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccc----------hHHHHHHHCCCcEEEeecccc
Confidence 568999999999998887666642 245899999999999998432 345555555666665554433
No 46
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=95.49 E-value=0.02 Score=65.56 Aligned_cols=54 Identities=24% Similarity=0.217 Sum_probs=40.3
Q ss_pred eEEEecccCCCCccccEEEEEccccCCCCCcc------------cCC-CCCcceeeccccccceEEE
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNAGGSIG------------FIS-KPQRVNVALTRARHCLWIL 441 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~~~~~G------------Fl~-d~~RlNVAlTRAR~~LiIi 441 (549)
.+..+|+|...|.|+|+|-+...+....+.+- +.. ..+.++||+||||.++|.-
T Consensus 674 ~~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 674 NVILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 36789999999999999999887654332211 221 3577999999999977764
No 47
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=95.48 E-value=0.0039 Score=71.39 Aligned_cols=57 Identities=18% Similarity=0.197 Sum_probs=41.8
Q ss_pred eEEEecccCCCCccccEEEEEccccCC--C----CCccc-CC-CCCcceeeccccccceEEEeeh
Q 008899 388 TVKVKSIDGFQGGEEDIIIISTVRCNA--G----GSIGF-IS-KPQRVNVALTRARHCLWILGNE 444 (549)
Q Consensus 388 ~v~V~TVd~fQG~E~DiVIlS~vrs~~--~----~~~GF-l~-d~~RlNVAlTRAR~~LiIiGn~ 444 (549)
.|.+.|+|..+|.|+++|++..+-.+. . ...+. +. ++|.+|||+||||..|++....
T Consensus 554 ~V~lmT~H~aKGlEf~~Vfl~g~~eg~~P~~~~~~~~~~~~eEERRL~YVaiTRA~~~L~~t~~~ 618 (655)
T COG0210 554 QVNLMTIHAAKGLEFPYVFLVGLEEGLFPADRSLDEGDEPLEEERRLLYVAITRAKKKLYLTYAA 618 (655)
T ss_pred ceEEEechhccCCCCCeEEEecccCCCCCChhhcccCCCCccHHHHHHHHHHHHHHHhhhhhHHH
Confidence 599999999999999999998762211 1 01111 43 3566899999999999987543
No 48
>PRK10536 hypothetical protein; Provisional
Probab=95.06 E-value=0.021 Score=57.80 Aligned_cols=39 Identities=21% Similarity=0.268 Sum_probs=31.5
Q ss_pred CCCEEEEEcCCCCChhHHhHhhh-hcCCCeEEEEcCCCCC
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQL 235 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~-l~~~~~vILvGD~~QL 235 (549)
.-++||||||++++..+.-..+. +....++|++||+.|.
T Consensus 176 ~~~~vIvDEaqn~~~~~~k~~ltR~g~~sk~v~~GD~~Qi 215 (262)
T PRK10536 176 ENAVVILDEAQNVTAAQMKMFLTRLGENVTVIVNGDITQC 215 (262)
T ss_pred cCCEEEEechhcCCHHHHHHHHhhcCCCCEEEEeCChhhc
Confidence 45899999999999987665554 3446799999999995
No 49
>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=94.43 E-value=0.03 Score=57.09 Aligned_cols=56 Identities=23% Similarity=0.285 Sum_probs=36.7
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCCCccccccccccccCcccHHHHHH
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVASKISDEAGFGRSLFERLT 258 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~ 258 (549)
.+|++|+||||+..++.+.-+.-.+.+ ..++++|||+.|- +....|.+.++|....
T Consensus 255 ~~~~~i~IDE~QD~s~~Q~~il~~l~~~~~~~~~vGD~~Qs-------IY~frga~~~~~~~~~ 311 (315)
T PF00580_consen 255 QRYDHILIDEFQDTSPLQLRILKKLFKNPENLFIVGDPNQS-------IYGFRGADPELFEEFK 311 (315)
T ss_dssp HHSSEEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE-GGG---------GGGGTB-THHHHHHH
T ss_pred hhCCeEEeEccccCCHHHHHHHHHHHHhhceeEEeCCCCcc-------eeecCCCCHHHHHHHH
Confidence 379999999999999988655444434 3479999999994 3344455666665543
No 50
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=94.39 E-value=0.051 Score=55.94 Aligned_cols=99 Identities=20% Similarity=0.250 Sum_probs=58.1
Q ss_pred ccceeccccCccccccCcccccccccccCc-ccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHH
Q 008899 265 HLLNVQYRMHPSISLFPNLQFYRNQILDGA-NVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKI 343 (549)
Q Consensus 265 ~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~-~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~l 343 (549)
+.|+++||++|.|.++.|..| .+...... ........ ...+....++.++.. .....|+..|++.
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~-----------~~~~~e~~~i~~~ 66 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLF-ENILPNDNKDRYEKEIQ--SAENSEDGKISIIEF-----------DNEEEEAEYIAEE 66 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHH-CC---TTSSSSCCCEEE--ESSTCEESSEEEEEE-----------SSHHHHHHHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHH-Hhhhhhhccchhhhhhc--cccccccCCceeecc-----------CCHHHHHHHHHHH
Confidence 368999999999999999776 11100000 00000000 000010122333333 1234588999999
Q ss_pred HHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhh
Q 008899 344 LQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSE 380 (549)
Q Consensus 344 v~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~ 380 (549)
+..+...+.. ..+|||++..+.|...|.+.|.+.
T Consensus 67 I~~l~~~~~~---~~diAVL~R~~~~~~~i~~~L~~~ 100 (351)
T PF13361_consen 67 IKELIRNGIP---PSDIAVLVRTNSQIKEIEDALKEA 100 (351)
T ss_dssp HHHHHHTTS----GGGEEEEESSGGHHHHHHHHHHHT
T ss_pred HHHHhhcCCC---cccEEEEEECchhHHHHHHHHhhh
Confidence 9988876433 448999999999999999999764
No 51
>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=92.44 E-value=0.16 Score=49.75 Aligned_cols=61 Identities=18% Similarity=0.241 Sum_probs=33.1
Q ss_pred HHHhcCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCC
Q 008899 171 DFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQL 235 (549)
Q Consensus 171 ~~~l~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QL 235 (549)
+.++++-.|-+.......- +...-.+||||||+.++..+.-..+...+ ..++|+.||+.|.
T Consensus 97 ~~~~~~~~Ie~~~~~~iRG----rt~~~~~iIvDEaQN~t~~~~k~ilTR~g~~skii~~GD~~Q~ 158 (205)
T PF02562_consen 97 EELIQNGKIEIEPLAFIRG----RTFDNAFIIVDEAQNLTPEELKMILTRIGEGSKIIITGDPSQI 158 (205)
T ss_dssp HHHHHTTSEEEEEGGGGTT------B-SEEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE-----
T ss_pred HHHhhcCeEEEEehhhhcC----ccccceEEEEecccCCCHHHHHHHHcccCCCcEEEEecCceee
Confidence 3445677777766553321 11234899999999999888666665333 5799999999995
No 52
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=91.92 E-value=9.5 Score=46.99 Aligned_cols=43 Identities=14% Similarity=0.112 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHh-hcCCCCCccEEEEccc-hHHHHHHHHHHhh
Q 008899 334 MVEVSVVIKILQKLYKA-WVGSKQKVSIGVVSPY-TAQAVAIRKKIGS 379 (549)
Q Consensus 334 ~~Ea~~V~~lv~~L~~~-~~~~~~~~sIgIITPY-~aQ~~~I~~~L~~ 379 (549)
..|+++|++.+..+... +.. -.+|+|+++- ..+...|...+.+
T Consensus 315 ~~Eae~va~~I~~l~~~~g~~---~~DIAVL~R~~~~y~~~i~~~f~~ 359 (1158)
T TIGR02773 315 RAEVEGVARQILRLTRDKQYR---YQDIAILTRDLEDYAKLVEAVFSD 359 (1158)
T ss_pred HHHHHHHHHHHHHHHHcCCCC---hhheEEEeCCHHHHHHHHHHHHHh
Confidence 46899999999988865 322 3489999999 8888888888865
No 53
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=87.97 E-value=0.36 Score=50.93 Aligned_cols=40 Identities=40% Similarity=0.537 Sum_probs=32.1
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhhcC-CCeEEEEcCCCCCC
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLP 236 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l~~-~~~vILvGD~~QLp 236 (549)
+=.+||||||+-++..+....+...| ..++|+.||+.|.-
T Consensus 351 ~~~FiIIDEaQNLTpheikTiltR~G~GsKIVl~gd~aQiD 391 (436)
T COG1875 351 PDSFIIIDEAQNLTPHELKTILTRAGEGSKIVLTGDPAQID 391 (436)
T ss_pred ccceEEEehhhccCHHHHHHHHHhccCCCEEEEcCCHHHcC
Confidence 44689999999999888766665333 57999999999973
No 54
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=80.15 E-value=2.5 Score=53.58 Aligned_cols=58 Identities=16% Similarity=0.103 Sum_probs=40.9
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLL 267 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L 267 (549)
+=+++|||||+++.--++...+.. ....|+||+||.+|+. .-+.|+-|...|.+.+.+
T Consensus 500 ~~~ilIVDEAg~lsar~m~~Ll~~A~~~~arvVllgd~~Q~a-------------AG~pf~~Lq~aG~~t~~~ 559 (1747)
T PRK13709 500 PGSTLIVDQAEKLSLKETLTLLDGAARHNVQVLILDSGQRTG-------------TGSALMVLKDAGVNTYRW 559 (1747)
T ss_pred CCcEEEEECCCcCCHHHHHHHHHHHHHhCCEEEEECCccccc-------------ccCHHHHHHHcCCcEEEE
Confidence 346999999999998876655542 2357999999999973 124466666666655444
No 55
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=79.73 E-value=3.4 Score=50.85 Aligned_cols=58 Identities=21% Similarity=0.134 Sum_probs=41.8
Q ss_pred CCCeEEEecccCCCCccccEEEEEccccC----CCCCcccCC------------------------CCCcceeecccccc
Q 008899 385 DGFTVKVKSIDGFQGGEEDIIIISTVRCN----AGGSIGFIS------------------------KPQRVNVALTRARH 436 (549)
Q Consensus 385 ~~~~v~V~TVd~fQG~E~DiVIlS~vrs~----~~~~~GFl~------------------------d~~RlNVAlTRAR~ 436 (549)
....|.|+|+|..+|.++++|++..+-.. ....-||++ ++..+++|+|||+.
T Consensus 578 ~~d~V~v~~~~~~r~~~~k~v~vlG~ndg~~P~~~~~~~ll~d~er~~L~~~g~~l~~~~~~~~~~e~~~~y~alt~a~~ 657 (1158)
T TIGR02773 578 ALDQVSVGTMDRAKSDNTKVIYLLGMNDGVMPARSKEEGILSDEERELLEQQGVELSPTSKIKIFDEQFLVYTAFTSASE 657 (1158)
T ss_pred CcCEEEEeccccccccCcCEEEEeCCCCCcCCCCCCCCCCcCHHHHHHHHHCCCCCCCChHHHhhcCcHHHHHHhcCccc
Confidence 34689999999999999999999765221 111223322 12348999999999
Q ss_pred ceEEEe
Q 008899 437 CLWILG 442 (549)
Q Consensus 437 ~LiIiG 442 (549)
.|++--
T Consensus 658 ~L~lSy 663 (1158)
T TIGR02773 658 RLKISY 663 (1158)
T ss_pred eEEEEE
Confidence 999954
No 56
>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=77.77 E-value=2.6 Score=36.28 Aligned_cols=43 Identities=19% Similarity=0.259 Sum_probs=31.8
Q ss_pred HHhcCCcEEEEccccchhhccc---CCCCCCEEEEEcCCCCChhHH
Q 008899 172 FCFKRASLFFSTASSSYKLHSV---EIKPLNFLVIDEAAQLKESES 214 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~~---~~~~fd~VIVDEAsq~~e~e~ 214 (549)
.......++++|.......... ....++++|||||..+.....
T Consensus 75 ~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~ 120 (144)
T cd00046 75 LLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGF 120 (144)
T ss_pred HhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcch
Confidence 3457899999999877663222 244799999999999887653
No 57
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=77.27 E-value=15 Score=45.01 Aligned_cols=158 Identities=11% Similarity=0.051 Sum_probs=86.9
Q ss_pred CCCEEEEEcCCCCChhHHhHhhh-hcCCCeEEEEcCCCCCCccccccccccccCc---ccHHHHHHhcCCCcccceeccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQLPAMVASKISDEAGFG---RSLFERLTSLNHSKHLLNVQYR 272 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~-l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~---~SLfeRl~~~~~~~~~L~~qYR 272 (549)
+--.|+|||.+..+..+.-+.-. +..++++.++||..|-.+. .......-|. ..|.+-....+.+...+..+||
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~--~~~~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~R 262 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK--SSFSEGNLYQASVKFLHDLAQKYQTKAEFISSTHE 262 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc--cCCCcccchHHHHHHHHHHHHHcCCCcccCccccc
Confidence 45679999999999887443322 3456889999988775420 0000000011 1122222223555555568899
Q ss_pred cCccccccCcccccccccccCcccccccccccCCCCCCCCCeEEEEcCCCcccccccccCCHHHHHHHHHHHHHHHHhhc
Q 008899 273 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTELGPYSFINIIGGSEEFIYHSCRNMVEVSVVIKILQKLYKAWV 352 (549)
Q Consensus 273 mhp~I~~f~n~~fY~g~L~~~~~v~~~~~~~~~l~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lv~~L~~~~~ 352 (549)
.+|.|....+ .+.. .. ..+... + ..++.....+.++... .-..|++.|++.+..|++.+.
T Consensus 263 ~~~~L~~Le~-~~~~-~~-~~~~~~---~---~~~~~~~~~I~i~~a~-----------n~~~Eve~va~~I~~lv~~g~ 322 (1076)
T TIGR02774 263 SKDSFDKLSR-LLEA-SH-DFSELA---L---DLDDKDKDNLTIWSCL-----------TQKEEVEHVARSIRQKLYEGY 322 (1076)
T ss_pred cCHHHHHHHH-HHhh-cc-cCCccc---c---cCCCCCCCceEEEEcC-----------CHHHHHHHHHHHHHHHHHcCC
Confidence 9888877765 2222 10 000000 0 0000000123332221 124689999999999988753
Q ss_pred CCCCCccEEEEccchHH-HHHHHHHHhh
Q 008899 353 GSKQKVSIGVVSPYTAQ-AVAIRKKIGS 379 (549)
Q Consensus 353 ~~~~~~sIgIITPY~aQ-~~~I~~~L~~ 379 (549)
. -.+|+|+++-..+ ...|...+.+
T Consensus 323 r---y~DIaVl~rd~~~Y~~~i~~iF~~ 347 (1076)
T TIGR02774 323 R---YKDILVLLGDVDSYQLQLGKIFDQ 347 (1076)
T ss_pred C---hhheEEEcCCHHHHHHHHHHHHhh
Confidence 3 3489999998887 5566666654
No 58
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=74.21 E-value=2.3 Score=40.76 Aligned_cols=30 Identities=23% Similarity=0.283 Sum_probs=20.4
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhhcCCCeEEE
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQLAGINHAVL 228 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l~~~~~vIL 228 (549)
..|++|||||+.++.+...-.+ .+..++|+
T Consensus 90 ~~DlliVDEAAaIp~p~L~~ll--~~~~~vv~ 119 (177)
T PF05127_consen 90 QADLLIVDEAAAIPLPLLKQLL--RRFPRVVF 119 (177)
T ss_dssp --SCEEECTGGGS-HHHHHHHH--CCSSEEEE
T ss_pred CCCEEEEechhcCCHHHHHHHH--hhCCEEEE
Confidence 4699999999999987644433 25578877
No 59
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=67.73 E-value=9.1 Score=43.36 Aligned_cols=87 Identities=17% Similarity=0.318 Sum_probs=52.0
Q ss_pred cEEEEccccchhhcccCCCCCCEEEEEcCCCCChhH--HhHhhhhcCCCeEEEEcCCCCCCccccccccccccCcccHHH
Q 008899 178 SLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESE--STIPLQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFE 255 (549)
Q Consensus 178 ~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e--~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfe 255 (549)
.++++||.... ..+...|++++||||.-+.... +++|+..-...++|++-=+.- ..-..|..-
T Consensus 283 t~~fasc~n~N---siRGQ~fnll~VDEA~FI~~~a~~tilgfm~q~~~KiIfISS~Ns------------g~~sTSfL~ 347 (668)
T PHA03372 283 TALFASCYNTN---SIRGQNFHLLLVDEAHFIKKDAFNTILGFLAQNTTKIIFISSTNT------------TNDATCFLT 347 (668)
T ss_pred eeeehhhccCc---cccCCCCCEEEEehhhccCHHHHHHhhhhhcccCceEEEEeCCCC------------CCccchHHH
Confidence 34554444332 3455689999999999998764 556665445567777744321 011234444
Q ss_pred HHHhcCCCcccce-eccccCccccccC
Q 008899 256 RLTSLNHSKHLLN-VQYRMHPSISLFP 281 (549)
Q Consensus 256 Rl~~~~~~~~~L~-~qYRmhp~I~~f~ 281 (549)
++ .+.+..+|+ ++|.|......|.
T Consensus 348 ~L--k~~~~~~lnVVsYvC~~H~~~f~ 372 (668)
T PHA03372 348 KL--NNSPFDMLNVVSYVCEEHLHSFN 372 (668)
T ss_pred hc--cCchhhheeeEEEEchhhhhhhh
Confidence 44 234556888 8899966555443
No 60
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms.; GO: 0004386 helicase activity, 0005524 ATP binding
Probab=66.52 E-value=5.1 Score=46.18 Aligned_cols=49 Identities=24% Similarity=0.135 Sum_probs=36.9
Q ss_pred EEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeecccccc--ceEEEeehh
Q 008899 390 KVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARH--CLWILGNER 445 (549)
Q Consensus 390 ~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~--~LiIiGn~~ 445 (549)
...|||+.||.--|-|.++..... .-....+|||+||++. +|.+-.|+-
T Consensus 741 ~AmTIhKSQG~SL~kV~i~l~~~~-------~F~~gq~YVAlSRvts~~~L~i~~nPl 791 (818)
T PF02689_consen 741 FAMTIHKSQGQSLDKVAIDLGKPK-------VFSHGQLYVALSRVTSLEGLKINFNPL 791 (818)
T ss_pred EEEEEeHhhccccceEEEECCCCc-------ccCCCceEEEEEeeccccccEEecCcc
Confidence 446999999999999999986541 1225789999999976 666655543
No 61
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=64.16 E-value=9.2 Score=35.09 Aligned_cols=39 Identities=18% Similarity=0.352 Sum_probs=27.4
Q ss_pred HhcCC-cEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 173 CFKRA-SLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 173 ~l~~a-~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
..... .++++|......... ....+++++|||||..+..
T Consensus 101 ~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 101 LESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLD 143 (201)
T ss_pred HhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhc
Confidence 33444 999999876655222 2344789999999999885
No 62
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=64.07 E-value=12 Score=43.29 Aligned_cols=71 Identities=17% Similarity=0.190 Sum_probs=49.4
Q ss_pred ccHHHHHHHHhcC---CcEEEEccccchhh----cccCCCCCCEEEEEcCCCCChhHHh---HhhhhcCCCeEEEEcCCC
Q 008899 164 TSKLLLEDFCFKR---ASLFFSTASSSYKL----HSVEIKPLNFLVIDEAAQLKESEST---IPLQLAGINHAVLIGDEC 233 (549)
Q Consensus 164 ~~~~~i~~~~l~~---a~vI~~T~~sa~~l----~~~~~~~fd~VIVDEAsq~~e~e~l---ipL~l~~~~~vILvGD~~ 233 (549)
.++++++..+-.+ .+|+++|-.-++.- ......+|++||.||+.++.-..+- -.+.++...|+.|.|=|-
T Consensus 484 ~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPL 563 (941)
T KOG0389|consen 484 DERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPL 563 (941)
T ss_pred HHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcc
Confidence 4567777777654 78999997655531 1223458999999999999865432 112234557999999999
Q ss_pred C
Q 008899 234 Q 234 (549)
Q Consensus 234 Q 234 (549)
|
T Consensus 564 Q 564 (941)
T KOG0389|consen 564 Q 564 (941)
T ss_pred c
Confidence 9
No 63
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=62.47 E-value=11 Score=43.26 Aligned_cols=75 Identities=16% Similarity=0.240 Sum_probs=44.2
Q ss_pred cCCCCCCEEEEEcCCCCChhH--HhHhhhhcCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccce-e
Q 008899 193 VEIKPLNFLVIDEAAQLKESE--STIPLQLAGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLN-V 269 (549)
Q Consensus 193 ~~~~~fd~VIVDEAsq~~e~e--~lipL~l~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~-~ 269 (549)
.+...||++|||||+-++... .++|+......++|++.=+.- .+-..|.+..+. +.+..+|+ +
T Consensus 348 iRGqtfDLLIVDEAqFIk~~al~~ilp~l~~~n~k~I~ISS~Ns------------~~~sTSFL~nLk--~a~~~lLNVV 413 (738)
T PHA03368 348 IRGQDFNLLFVDEANFIRPDAVQTIMGFLNQTNCKIIFVSSTNT------------GKASTSFLYNLK--GAADELLNVV 413 (738)
T ss_pred ccCCcccEEEEechhhCCHHHHHHHHHHHhccCccEEEEecCCC------------CccchHHHHhhc--CchhhheeeE
Confidence 344589999999999998653 456665433344555433221 112344444442 33446888 8
Q ss_pred ccccCccccccC
Q 008899 270 QYRMHPSISLFP 281 (549)
Q Consensus 270 qYRmhp~I~~f~ 281 (549)
+|-|....-.|.
T Consensus 414 sYvCdeH~~~~~ 425 (738)
T PHA03368 414 TYICDEHMPRVV 425 (738)
T ss_pred EEEChhhhhhhh
Confidence 999866654444
No 64
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=59.83 E-value=7.9 Score=40.77 Aligned_cols=46 Identities=26% Similarity=0.321 Sum_probs=31.0
Q ss_pred CCCEEEEEcCCCCChhHHhHhhh-hcCCCeEEEEcCCCCC--Ccccccc
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQL--PAMVASK 242 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~-l~~~~~vILvGD~~QL--pPiv~s~ 242 (549)
+=-+||+|||+-.+...+=.-|. +....++|+.||+.|+ |.-++|.
T Consensus 243 ~dAfVIlDEaQNtT~~QmKMfLTRiGf~skmvItGD~tQiDLp~~vkSG 291 (348)
T COG1702 243 NDAFVILDEAQNTTVGQMKMFLTRIGFESKMVITGDITQIDLPRGVKSG 291 (348)
T ss_pred CCeEEEEecccccchhhhceeeeeecCCceEEEEcCcccccCCCccccc
Confidence 44679999998855444322222 2335799999999995 7766654
No 65
>PHA02558 uvsW UvsW helicase; Provisional
Probab=58.47 E-value=11 Score=41.97 Aligned_cols=39 Identities=18% Similarity=0.214 Sum_probs=29.7
Q ss_pred cCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCChhH
Q 008899 175 KRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESE 213 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e~e 213 (549)
..++|+++|..+..+........|++||||||..+....
T Consensus 200 ~~~~I~VaT~qsl~~~~~~~~~~~~~iIvDEaH~~~~~~ 238 (501)
T PHA02558 200 TDAPIVVSTWQSAVKQPKEWFDQFGMVIVDECHLFTGKS 238 (501)
T ss_pred CCCCEEEeeHHHHhhchhhhccccCEEEEEchhcccchh
Confidence 457899999988765332234589999999999987654
No 66
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=56.27 E-value=14 Score=46.62 Aligned_cols=58 Identities=17% Similarity=0.103 Sum_probs=40.6
Q ss_pred CCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEcCCCCCCccccccccccccCcccHHHHHHhcCCCcccce
Q 008899 198 LNFLVIDEAAQLKESESTIPLQL--AGINHAVLIGDECQLPAMVASKISDEAGFGRSLFERLTSLNHSKHLLN 268 (549)
Q Consensus 198 fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvGD~~QLpPiv~s~~~~~~~~~~SLfeRl~~~~~~~~~L~ 268 (549)
=+++|||||+++.--++.-.+.+ ....+ |++||.+|+.. .-..|+-|...|...+.+.
T Consensus 369 ~~ilIVDEA~~Ls~rdm~~Ll~~A~~~gar-VllgD~~Q~~a------------AG~af~~Lq~aG~~t~~~~ 428 (1623)
T PRK14712 369 GSTVIVDQGEKLSLKETLTLLDGAARHNVQ-VLITDSGQRTG------------TGSALMAMKDAGVNTYRWQ 428 (1623)
T ss_pred CcEEEEECCCcCCHHHHHHHHHHHHhcCCE-EEEEechhhhh------------cccHHHHHHHcCCcEEEEc
Confidence 48999999999998876655542 22356 66889999822 2356777777777765543
No 67
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=55.52 E-value=8.2 Score=40.70 Aligned_cols=84 Identities=19% Similarity=0.312 Sum_probs=48.5
Q ss_pred cchHHHHHHhccCCCCCCcccccchhHhHHHHHHHHHHHHHHHhhhhhhcccCCCCcccHHHHHHHHhcCCcEEEEcccc
Q 008899 107 VVSEELEKLFSHSVDEGISSAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLLLEDFCFKRASLFFSTASS 186 (549)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~~~~~l~~l~~~l~~~~~p~~~~~~~i~~~~l~~a~vI~~T~~s 186 (549)
+.-++++.++......-..+..+ +-|++.-.+|.+.......+.+....+ ... .+++|+||...
T Consensus 132 Mif~~i~~al~~G~~vciASPRv------------DVclEl~~Rlk~aF~~~~I~~Lyg~S~---~~f-r~plvVaTtHQ 195 (441)
T COG4098 132 MIFQGIEQALNQGGRVCIASPRV------------DVCLELYPRLKQAFSNCDIDLLYGDSD---SYF-RAPLVVATTHQ 195 (441)
T ss_pred hhHHHHHHHHhcCCeEEEecCcc------------cchHHHHHHHHHhhccCCeeeEecCCc---hhc-cccEEEEehHH
Confidence 33455666666554443333333 345555555553334444444421111 122 39999999998
Q ss_pred chhhcccCCCCCCEEEEEcCCCCC
Q 008899 187 SYKLHSVEIKPLNFLVIDEAAQLK 210 (549)
Q Consensus 187 a~~l~~~~~~~fd~VIVDEAsq~~ 210 (549)
..+++. .||++||||.--.+
T Consensus 196 LlrFk~----aFD~liIDEVDAFP 215 (441)
T COG4098 196 LLRFKQ----AFDLLIIDEVDAFP 215 (441)
T ss_pred HHHHHh----hccEEEEecccccc
Confidence 887654 69999999985443
No 68
>PF13245 AAA_19: Part of AAA domain
Probab=54.06 E-value=28 Score=28.33 Aligned_cols=50 Identities=16% Similarity=0.156 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCC
Q 008899 339 VVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGF 397 (549)
Q Consensus 339 ~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~f 397 (549)
.+++.+..+....... ...|.|++|-+..++.+.+.+ . .....+.|+|+|
T Consensus 26 ~~~~~i~~l~~~~~~~--~~~vlv~a~t~~aa~~l~~rl-~------~~~~~~~T~h~~ 75 (76)
T PF13245_consen 26 TLAARIAELLAARADP--GKRVLVLAPTRAAADELRERL-G------LGVPFAMTIHSL 75 (76)
T ss_pred HHHHHHHHHHHHhcCC--CCeEEEECCCHHHHHHHHHHH-c------CCCcchhhHHHh
Confidence 4556666666432221 347999999999999999888 1 112347888876
No 69
>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=51.96 E-value=11 Score=34.30 Aligned_cols=41 Identities=29% Similarity=0.429 Sum_probs=29.9
Q ss_pred HHHhcCCcEEEEccccchhhccc---CCCCCCEEEEEcCCCCCh
Q 008899 171 DFCFKRASLFFSTASSSYKLHSV---EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 171 ~~~l~~a~vI~~T~~sa~~l~~~---~~~~fd~VIVDEAsq~~e 211 (549)
..+-..++|+++|+......... ....+++|||||+..+..
T Consensus 90 ~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~ 133 (169)
T PF00270_consen 90 EVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSD 133 (169)
T ss_dssp HHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHH
T ss_pred ccccccccccccCcchhhccccccccccccceeeccCccccccc
Confidence 33445799999999987663332 234589999999987765
No 70
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=51.44 E-value=41 Score=37.52 Aligned_cols=48 Identities=19% Similarity=0.152 Sum_probs=37.4
Q ss_pred cEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCCCCccccEEEEEccccC
Q 008899 359 SIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCN 413 (549)
Q Consensus 359 sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVIlS~vrs~ 413 (549)
.|-|...++.-+..|-+.|.+. +..+.|.|+-.|+|-.-.++...|.+
T Consensus 519 piIIFvN~kk~~d~lAk~LeK~-------g~~~~tlHg~k~qeQRe~aL~~fr~~ 566 (673)
T KOG0333|consen 519 PIIIFVNTKKGADALAKILEKA-------GYKVTTLHGGKSQEQRENALADFREG 566 (673)
T ss_pred CEEEEEechhhHHHHHHHHhhc-------cceEEEeeCCccHHHHHHHHHHHHhc
Confidence 4888888999999998888663 58999999999998665555555543
No 71
>COG3410 Uncharacterized conserved protein [Function unknown]
Probab=50.48 E-value=5.6 Score=37.43 Aligned_cols=59 Identities=25% Similarity=0.273 Sum_probs=44.4
Q ss_pred EEecccCCCCccccEEEEEccccCC---------------CCCcccCCC----------------CCcceeeccccccce
Q 008899 390 KVKSIDGFQGGEEDIIIISTVRCNA---------------GGSIGFISK----------------PQRVNVALTRARHCL 438 (549)
Q Consensus 390 ~V~TVd~fQG~E~DiVIlS~vrs~~---------------~~~~GFl~d----------------~~RlNVAlTRAR~~L 438 (549)
.|++|-+.||-|.|+|=+.+.|+-. ....||... .+++||.+||.-++|
T Consensus 90 evgSVYtaQGFdlnYvGvVlGrs~~yd~d~d~i~~dp~~ytD~~gfr~slkk~~~k~~eik~kiIkNsinvlmtRGIrGl 169 (191)
T COG3410 90 EVGSVYTAQGFDLNYVGVVLGRSVIYDEDKDEIVIDPSKYTDTGGFRSSLKKTPEKNQEIKEKIIKNSINVLMTRGIRGL 169 (191)
T ss_pred HhhhhheecccccceeEEEeccceeeccCCCeEecCcceeeccccchhhhhhhhhhCHHHHHHHHHHHHHHHHhcccceE
Confidence 5789999999999999887776521 124566541 477999999999999
Q ss_pred EEEeehhhhh
Q 008899 439 WILGNERTLI 448 (549)
Q Consensus 439 iIiGn~~tL~ 448 (549)
+|..-..-+.
T Consensus 170 yiyaeDpelr 179 (191)
T COG3410 170 YIYAEDPELR 179 (191)
T ss_pred EEEEeCHHHH
Confidence 9987655443
No 72
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=50.34 E-value=29 Score=40.31 Aligned_cols=90 Identities=19% Similarity=0.198 Sum_probs=54.1
Q ss_pred HHHHHhhhhhhcccCCCCc-ccHHHHHHHHhc--CCcEEEEccccchhh-cccCCCCCCEEEEEcCCCCChhHHhHhhh-
Q 008899 145 LSVLRNLWNSLDELNLPCT-TSKLLLEDFCFK--RASLFFSTASSSYKL-HSVEIKPLNFLVIDEAAQLKESESTIPLQ- 219 (549)
Q Consensus 145 ~~~l~~l~~~l~~~~~p~~-~~~~~i~~~~l~--~a~vI~~T~~sa~~l-~~~~~~~fd~VIVDEAsq~~e~e~lipL~- 219 (549)
..+++.+.+.+..+..-+- ..+..+.+.++. ..+|+++|---+.+- ..+...++.++|||||..+.-..+...-.
T Consensus 233 ~~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~l 312 (971)
T KOG0385|consen 233 MNEFKRFTPSLNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKIL 312 (971)
T ss_pred HHHHHHhCCCcceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHH
Confidence 3344444433333322221 334555555554 466777776555442 22345688999999999998776554322
Q ss_pred --hcCCCeEEEEcCCCC
Q 008899 220 --LAGINHAVLIGDECQ 234 (549)
Q Consensus 220 --l~~~~~vILvGD~~Q 234 (549)
+....++.+.|=|-|
T Consensus 313 r~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 313 REFKTDNRLLLTGTPLQ 329 (971)
T ss_pred HHhcccceeEeeCCccc
Confidence 234579999999999
No 73
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=49.94 E-value=15 Score=42.62 Aligned_cols=49 Identities=24% Similarity=0.095 Sum_probs=35.5
Q ss_pred EEecccCCCCccccEEEEEccccCCCCCcccCCCCCcceeecccccc--ceEEEeehh
Q 008899 390 KVKSIDGFQGGEEDIIIISTVRCNAGGSIGFISKPQRVNVALTRARH--CLWILGNER 445 (549)
Q Consensus 390 ~V~TVd~fQG~E~DiVIlS~vrs~~~~~~GFl~d~~RlNVAlTRAR~--~LiIiGn~~ 445 (549)
...||++.||.--|-|.+....+. .-....+|||+|||+. +|.+.-|+.
T Consensus 751 ~AmTI~KSQG~sL~~V~i~f~~~k-------~~~~gq~YVAlSR~~s~~~L~i~~np~ 801 (828)
T PHA03311 751 LAMTIAKSQGLSLDKVAICFGNHK-------NLKLSHVYVAMSRVTSSNFLVMNLNPL 801 (828)
T ss_pred heeeehHhhCCccceEEEECCCcc-------ccccCcEEEEEEeccCccccEEecCCc
Confidence 446999999999999998754321 2235678999999976 566665543
No 74
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=49.47 E-value=27 Score=38.05 Aligned_cols=68 Identities=19% Similarity=0.232 Sum_probs=44.2
Q ss_pred HHHHHHHHhhhhhhcccCCCCcccHHHHHHHHhcCCcEEEEccccchhhcccC----CCCCCEEEEEcCCCC
Q 008899 142 SECLSVLRNLWNSLDELNLPCTTSKLLLEDFCFKRASLFFSTASSSYKLHSVE----IKPLNFLVIDEAAQL 209 (549)
Q Consensus 142 ~~~~~~l~~l~~~l~~~~~p~~~~~~~i~~~~l~~a~vI~~T~~sa~~l~~~~----~~~fd~VIVDEAsq~ 209 (549)
+.+-+.....+..++.+.+..-.+....+..+....+||++|++..-.....+ .....++|||||--+
T Consensus 111 ~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADLl 182 (569)
T KOG0346|consen 111 KVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLL 182 (569)
T ss_pred HHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhhhh
Confidence 33333444455455566666545556666777788999999998766533322 346789999999544
No 75
>PRK10481 hypothetical protein; Provisional
Probab=48.19 E-value=66 Score=32.07 Aligned_cols=21 Identities=24% Similarity=0.344 Sum_probs=18.1
Q ss_pred cEEEEccchHHHHHHHHHHhh
Q 008899 359 SIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 359 sIgIITPY~aQ~~~I~~~L~~ 379 (549)
.|||||||..|.....+++..
T Consensus 131 riGVitP~~~qi~~~~~kw~~ 151 (224)
T PRK10481 131 QVGVIVPVEEQLAQQAQKWQV 151 (224)
T ss_pred eEEEEEeCHHHHHHHHHHHHh
Confidence 699999999999888777654
No 76
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=47.51 E-value=32 Score=37.72 Aligned_cols=41 Identities=20% Similarity=0.310 Sum_probs=29.2
Q ss_pred HHhcCCcEEEEccccchhhc---ccCCCCCCEEEEEcCCCCChh
Q 008899 172 FCFKRASLFFSTASSSYKLH---SVEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~---~~~~~~fd~VIVDEAsq~~e~ 212 (549)
.+...++||+||+.....+. ......+++||||||-.+.+.
T Consensus 121 ~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~ 164 (456)
T PRK10590 121 KLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDM 164 (456)
T ss_pred HHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHHhcc
Confidence 34567899999998765422 123457899999999876543
No 77
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=47.28 E-value=25 Score=42.32 Aligned_cols=64 Identities=19% Similarity=0.100 Sum_probs=40.8
Q ss_pred cCCcEEEEccccchh----hcccCCCCCCEEEEEcCCCCCh--------hHHhHhhhhcCCCeEEEEcCCCCCCcc
Q 008899 175 KRASLFFSTASSSYK----LHSVEIKPLNFLVIDEAAQLKE--------SESTIPLQLAGINHAVLIGDECQLPAM 238 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~----l~~~~~~~fd~VIVDEAsq~~e--------~e~lipL~l~~~~~vILvGD~~QLpPi 238 (549)
...++++|+.....+ ........||+||||||..+.- ...+-.+.-.....+.|-|=|.|..+.
T Consensus 246 ~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~ 321 (956)
T PRK04914 246 ETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQE 321 (956)
T ss_pred ccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcH
Confidence 357788888775543 1122345899999999999861 122323321223568899999997654
No 78
>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=47.11 E-value=44 Score=38.09 Aligned_cols=112 Identities=21% Similarity=0.274 Sum_probs=64.9
Q ss_pred HHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCC-------CCCeEEEecccCCCCccc----------
Q 008899 340 VIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENK-------DGFTVKVKSIDGFQGGEE---------- 402 (549)
Q Consensus 340 V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~-------~~~~v~V~TVd~fQG~E~---------- 402 (549)
+..++..+.+..... ....|++.+|-..-+..+.+.+....... ......+.|+|++-|...
T Consensus 177 v~~ll~~l~~~~~~~-~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~ 255 (586)
T TIGR01447 177 VARLLLALVKQSPKQ-GKLRIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVTIHRLLGIKPDTKRFRHHER 255 (586)
T ss_pred HHHHHHHHHHhcccc-CCCcEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccchhhhhhcccCCcchhhhccc
Confidence 444444444433221 12369999999998888888876532100 011345889998876543
Q ss_pred -----cEEEEE---ccccCCCCCcccCCCCCcceeeccccccceEEEeehhhhhc--cchHHHHHHHHHH
Q 008899 403 -----DIIIIS---TVRCNAGGSIGFISKPQRVNVALTRARHCLWILGNERTLIS--SESIWGALVCDAK 462 (549)
Q Consensus 403 -----DiVIlS---~vrs~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~--~~~~w~~li~~~~ 462 (549)
|+||++ +|... .-.++--|+ +.-..++++||..-|.. .+..|..|+....
T Consensus 256 ~~l~~dvlIiDEaSMvd~~---------l~~~ll~al-~~~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~ 315 (586)
T TIGR01447 256 NPLPLDVLVVDEASMVDLP---------LMAKLLKAL-PPNTKLILLGDKNQLPSVEAGAVLGDLCELAS 315 (586)
T ss_pred CCCcccEEEEcccccCCHH---------HHHHHHHhc-CCCCEEEEECChhhCCCCCCChhHHHHHHhhc
Confidence 455552 22111 011111222 23456999999999875 3678999987754
No 79
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=45.73 E-value=15 Score=41.36 Aligned_cols=44 Identities=23% Similarity=0.198 Sum_probs=31.4
Q ss_pred CEEEEEcCCCCChhHHhH------hh----hhcCCCeEEEEcCCCCCCcccccc
Q 008899 199 NFLVIDEAAQLKESESTI------PL----QLAGINHAVLIGDECQLPAMVASK 242 (549)
Q Consensus 199 d~VIVDEAsq~~e~e~li------pL----~l~~~~~vILvGD~~QLpPiv~s~ 242 (549)
+++|+|||.++...-.-. -+ .-++.+.+++.||..|++|++...
T Consensus 218 ~~~i~dE~~m~~~~~fe~ld~~~r~i~~~~~pfggk~~~~~GDF~qllpv~~~~ 271 (540)
T KOG0987|consen 218 KLIIWDEAPMVDRYCFEKLDRTLRDIRKNDKPFGGKVLVLGGDFRQLLPVIEGA 271 (540)
T ss_pred cceeeecccccchhhhhhhhHHHHHHhhcCCCCCCeeeeccCcccccCcccCCC
Confidence 779999999998432111 00 123568899999999999997653
No 80
>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=45.55 E-value=10 Score=44.27 Aligned_cols=52 Identities=15% Similarity=0.196 Sum_probs=34.2
Q ss_pred CCCcccHHHHHHHHhcC--CcEEEEccccchhhcccCCCCCCEEEEEcCCCCCh
Q 008899 160 LPCTTSKLLLEDFCFKR--ASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 160 ~p~~~~~~~i~~~~l~~--a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e 211 (549)
++++....+.....+.. ++-+.++..|..++.......+|+|||||+.|+..
T Consensus 103 l~gFv~Y~d~~~~~i~~~~~~rLivqIdSL~R~~~~~l~~yDvVIIDEv~svL~ 156 (824)
T PF02399_consen 103 LSGFVNYLDSDDYIIDGRPYDRLIVQIDSLHRLDGSLLDRYDVVIIDEVMSVLN 156 (824)
T ss_pred CCcceeeeccccccccccccCeEEEEehhhhhcccccccccCEEEEehHHHHHH
Confidence 44444444555555553 56777778887775544445699999999988743
No 81
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=44.67 E-value=25 Score=42.69 Aligned_cols=60 Identities=15% Similarity=0.242 Sum_probs=41.9
Q ss_pred cCCcEEEEccccchh-hcccCCCCCCEEEEEcCCCCChhHHhHhh---hhcCCCeEEEEcCCCC
Q 008899 175 KRASLFFSTASSSYK-LHSVEIKPLNFLVIDEAAQLKESESTIPL---QLAGINHAVLIGDECQ 234 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~-l~~~~~~~fd~VIVDEAsq~~e~e~lipL---~l~~~~~vILvGD~~Q 234 (549)
...+||++|...+.+ ...+....+++||||||..+.-..+...- .+....+++|.|=|-|
T Consensus 268 ~~~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 268 GKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred cCCCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 356788888776654 22233457999999999999876543321 2334568999999988
No 82
>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=44.11 E-value=11 Score=38.04 Aligned_cols=64 Identities=20% Similarity=0.210 Sum_probs=39.3
Q ss_pred HhcCCcEEEEccccch-----h-hcccCCCCCCEEEEEcCCCCChhHHhHh--h-hhcCCCeEEEEcCCCCCC
Q 008899 173 CFKRASLFFSTASSSY-----K-LHSVEIKPLNFLVIDEAAQLKESESTIP--L-QLAGINHAVLIGDECQLP 236 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~-----~-l~~~~~~~fd~VIVDEAsq~~e~e~lip--L-~l~~~~~vILvGD~~QLp 236 (549)
......++++|..... . .......+|+.||||||..+....+... + .+.+..+++|-|-|.+-.
T Consensus 104 ~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~ 176 (299)
T PF00176_consen 104 QLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNS 176 (299)
T ss_dssp SCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSG
T ss_pred ccccceeeeccccccccccccccccccccccceeEEEecccccccccccccccccccccceEEeecccccccc
Confidence 3467889999987766 1 1112234699999999999854332211 1 133456889999987743
No 83
>KOG4284 consensus DEAD box protein [Transcription]
Probab=43.68 E-value=16 Score=41.68 Aligned_cols=58 Identities=22% Similarity=0.340 Sum_probs=41.1
Q ss_pred HHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCChhHHh------HhhhhcCCCeEEEE
Q 008899 172 FCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKESEST------IPLQLAGINHAVLI 229 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e~e~l------ipL~l~~~~~vILv 229 (549)
.=|+.++||+.|+.-..++.. .++.+.++.|.|||-++.+..++ |--.+|..++++.+
T Consensus 139 ~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~~rQv~a~ 205 (980)
T KOG4284|consen 139 IRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQVAAF 205 (980)
T ss_pred hhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcchhheeeEE
Confidence 346789999999998888544 44678999999999999874422 22235555555543
No 84
>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=43.18 E-value=28 Score=35.08 Aligned_cols=58 Identities=16% Similarity=0.089 Sum_probs=39.6
Q ss_pred HHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCC---------------CCeEEEecccCCCC
Q 008899 340 VIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKD---------------GFTVKVKSIDGFQG 399 (549)
Q Consensus 340 V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~---------------~~~v~V~TVd~fQG 399 (549)
++..+.+|+..+. .....|.++|+.++-+..+++.+...+.... ...+.|+|+|+|-.
T Consensus 30 l~~ri~~ll~~~~--~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~T~hsf~~ 102 (315)
T PF00580_consen 30 LLERIAYLLYEGG--VPPERILVLTFTNAAAQEMRERIRELLEEEQQESSDNERLRRQLSNIDRIYISTFHSFCY 102 (315)
T ss_dssp HHHHHHHHHHTSS--STGGGEEEEESSHHHHHHHHHHHHHHHHHCCHCCTT-HHHHHHHHHCTTSEEEEHHHHHH
T ss_pred HHHHHHHhhcccc--CChHHheecccCHHHHHHHHHHHHHhcCcccccccccccccccccccchheeehhhhhhh
Confidence 4444556665552 2234799999999999889888877544221 35689999998744
No 85
>PRK04296 thymidine kinase; Provisional
Probab=42.99 E-value=33 Score=32.85 Aligned_cols=39 Identities=15% Similarity=0.134 Sum_probs=23.6
Q ss_pred CCCCEEEEEcCCCCChhHHh--HhhhhcCCCeEEEEcCCCC
Q 008899 196 KPLNFLVIDEAAQLKESEST--IPLQLAGINHAVLIGDECQ 234 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~l--ipL~l~~~~~vILvGD~~Q 234 (549)
..+|+||||||+-+++.+.. +-........+|+.|=..+
T Consensus 77 ~~~dvviIDEaq~l~~~~v~~l~~~l~~~g~~vi~tgl~~~ 117 (190)
T PRK04296 77 EKIDCVLIDEAQFLDKEQVVQLAEVLDDLGIPVICYGLDTD 117 (190)
T ss_pred CCCCEEEEEccccCCHHHHHHHHHHHHHcCCeEEEEecCcc
Confidence 47899999999777554322 2221223356777765444
No 86
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=42.86 E-value=26 Score=40.60 Aligned_cols=56 Identities=11% Similarity=0.189 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHh-hcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCC
Q 008899 339 VVIKILQKLYKA-WVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGF 397 (549)
Q Consensus 339 ~V~~lv~~L~~~-~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~f 397 (549)
.++.-+.+|+.. +.+ ..+|.+||+-+.-+..+++.+...........+.|+|+|+|
T Consensus 31 vL~~Ria~Li~~~~v~---p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v~i~TfHS~ 87 (672)
T PRK10919 31 VITNKIAHLIRGCGYQ---ARHIAAVTFTNKAAREMKERVAQTLGRKEARGLMISTFHTL 87 (672)
T ss_pred HHHHHHHHHHHhcCCC---HHHeeeEechHHHHHHHHHHHHHHhCcccccCcEEEcHHHH
Confidence 355556666654 333 33799999999999999999977554333456899999997
No 87
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=42.18 E-value=15 Score=40.55 Aligned_cols=46 Identities=15% Similarity=0.299 Sum_probs=34.6
Q ss_pred HHHHhcCCcEEEEccccchh-h--cccCCCCCCEEEEEcCCCCChhHHh
Q 008899 170 EDFCFKRASLFFSTASSSYK-L--HSVEIKPLNFLVIDEAAQLKESEST 215 (549)
Q Consensus 170 ~~~~l~~a~vI~~T~~sa~~-l--~~~~~~~fd~VIVDEAsq~~e~e~l 215 (549)
+.....+++|+++|+...-. + ...+...+.++|+|||..++-..+.
T Consensus 101 R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAY 149 (542)
T COG1111 101 REELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAY 149 (542)
T ss_pred HHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchH
Confidence 56677899999999987655 2 2234567999999999999855433
No 88
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=41.81 E-value=26 Score=37.87 Aligned_cols=44 Identities=11% Similarity=0.236 Sum_probs=30.1
Q ss_pred HHHHHHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 168 LLEDFCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 168 ~i~~~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
.-...+..+++||++|+.....+.. .....+++||||||-.+.+
T Consensus 115 ~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~ 161 (434)
T PRK11192 115 NHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLD 161 (434)
T ss_pred HHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhC
Confidence 3334455788999999976654321 2234689999999987653
No 89
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=41.66 E-value=50 Score=38.25 Aligned_cols=38 Identities=21% Similarity=0.343 Sum_probs=26.2
Q ss_pred CCCCEEEEEcCCCCChhH--HhHhhhhcCCCeEEEEcCCC
Q 008899 196 KPLNFLVIDEAAQLKESE--STIPLQLAGINHAVLIGDEC 233 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e--~lipL~l~~~~~vILvGD~~ 233 (549)
..+|++|||||+.++... .+.|+......++|++.=|.
T Consensus 293 ~~~DLLIVDEAAfI~~~~l~aIlP~l~~~~~k~IiISS~~ 332 (752)
T PHA03333 293 QNPDLVIVDEAAFVNPGALLSVLPLMAVKGTKQIHISSPV 332 (752)
T ss_pred CCCCEEEEECcccCCHHHHHHHHHHHccCCCceEEEeCCC
Confidence 468999999999998653 56666543445666655443
No 90
>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=39.08 E-value=33 Score=32.48 Aligned_cols=40 Identities=18% Similarity=0.363 Sum_probs=27.9
Q ss_pred HhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCChh
Q 008899 173 CFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e~ 212 (549)
+..+++|++||+.....+.. .....++++|||||..+.+.
T Consensus 116 ~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~ 158 (203)
T cd00268 116 LKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDM 158 (203)
T ss_pred hcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhcc
Confidence 33589999999876544211 22346899999999887644
No 91
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=36.90 E-value=61 Score=34.98 Aligned_cols=41 Identities=12% Similarity=0.250 Sum_probs=29.2
Q ss_pred HHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCChh
Q 008899 172 FCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e~ 212 (549)
.+-.+.+||++|+.....+.. .....+.++|||||-.+.+.
T Consensus 129 ~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~~ 172 (423)
T PRK04837 129 VLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDL 172 (423)
T ss_pred HhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHhhc
Confidence 344578999999987765321 23457899999999877543
No 92
>PTZ00424 helicase 45; Provisional
Probab=34.92 E-value=38 Score=35.95 Aligned_cols=41 Identities=15% Similarity=0.328 Sum_probs=29.0
Q ss_pred HHHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 171 DFCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 171 ~~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
..+...++||++|+........ .....+++||||||..+..
T Consensus 141 ~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~ 184 (401)
T PTZ00424 141 NKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLS 184 (401)
T ss_pred HHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHh
Confidence 3445668999999987654221 2345789999999987654
No 93
>PTZ00110 helicase; Provisional
Probab=33.35 E-value=66 Score=36.26 Aligned_cols=42 Identities=12% Similarity=0.262 Sum_probs=30.1
Q ss_pred HHHHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 170 EDFCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 170 ~~~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
...+.+.++||++|+.....+.. .....+++||||||-.+.+
T Consensus 247 ~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld 291 (545)
T PTZ00110 247 IYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLD 291 (545)
T ss_pred HHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhh
Confidence 34456789999999987655322 2234689999999987664
No 94
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=33.24 E-value=68 Score=36.83 Aligned_cols=94 Identities=17% Similarity=0.285 Sum_probs=59.9
Q ss_pred ccEEEEccchHHHHHHHHHHhhhhcCC-------CCCeEEEecccCCCCcc---------------ccEEEEE---cccc
Q 008899 358 VSIGVVSPYTAQAVAIRKKIGSEYENK-------DGFTVKVKSIDGFQGGE---------------EDIIIIS---TVRC 412 (549)
Q Consensus 358 ~sIgIITPY~aQ~~~I~~~L~~~~~~~-------~~~~v~V~TVd~fQG~E---------------~DiVIlS---~vrs 412 (549)
..|.+.+|....+..+.+.+....... ......+.|+|++-|.. .|+||++ +|..
T Consensus 200 ~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~ 279 (615)
T PRK10875 200 CRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVDL 279 (615)
T ss_pred cEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhcccH
Confidence 469999999999999998886532211 11124678999888753 2566653 3221
Q ss_pred CCCCCcccCCCCCcceeeccccccceEEEeehhhhhc--cchHHHHHHHHH
Q 008899 413 NAGGSIGFISKPQRVNVALTRARHCLWILGNERTLIS--SESIWGALVCDA 461 (549)
Q Consensus 413 ~~~~~~GFl~d~~RlNVAlTRAR~~LiIiGn~~tL~~--~~~~w~~li~~~ 461 (549)
. .-.++--|+ .+...|++|||.+-|.+ .+..+..|++.+
T Consensus 280 ~---------lm~~ll~al-~~~~rlIlvGD~~QL~sV~~G~VL~DL~~~~ 320 (615)
T PRK10875 280 P---------MMARLIDAL-PPHARVIFLGDRDQLASVEAGAVLGDICRFA 320 (615)
T ss_pred H---------HHHHHHHhc-ccCCEEEEecchhhcCCCCCCchHHHHHHhh
Confidence 1 011111233 24457999999999875 368899998764
No 95
>PRK13766 Hef nuclease; Provisional
Probab=32.59 E-value=39 Score=39.66 Aligned_cols=43 Identities=14% Similarity=0.230 Sum_probs=30.6
Q ss_pred HHHHhcCCcEEEEccccchhh---cccCCCCCCEEEEEcCCCCChh
Q 008899 170 EDFCFKRASLFFSTASSSYKL---HSVEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 170 ~~~~l~~a~vI~~T~~sa~~l---~~~~~~~fd~VIVDEAsq~~e~ 212 (549)
+..+...++||++|+...... .......+++||||||..+...
T Consensus 101 r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~ 146 (773)
T PRK13766 101 RAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGN 146 (773)
T ss_pred HHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcccccc
Confidence 445667899999998765441 1223457999999999988754
No 96
>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=32.39 E-value=24 Score=33.13 Aligned_cols=44 Identities=20% Similarity=0.195 Sum_probs=27.5
Q ss_pred HHHHHHhcCCcEEEEccccchhh---ccc--CCCCCCEEEEEcCCCCCh
Q 008899 168 LLEDFCFKRASLFFSTASSSYKL---HSV--EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 168 ~i~~~~l~~a~vI~~T~~sa~~l---~~~--~~~~fd~VIVDEAsq~~e 211 (549)
...+....+|+||+++-.-.... ... -...-.+||||||..+..
T Consensus 111 ~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 111 YLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp HHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred HHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 34566788999999996643321 011 123567899999988754
No 97
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=31.58 E-value=55 Score=38.25 Aligned_cols=58 Identities=16% Similarity=0.292 Sum_probs=39.6
Q ss_pred CcEEEEccccchhhc-ccCCCCCCEEEEEcCCCCChhHHhHhhh---hcCCCeEEEEcCCCC
Q 008899 177 ASLFFSTASSSYKLH-SVEIKPLNFLVIDEAAQLKESESTIPLQ---LAGINHAVLIGDECQ 234 (549)
Q Consensus 177 a~vI~~T~~sa~~l~-~~~~~~fd~VIVDEAsq~~e~e~lipL~---l~~~~~vILvGD~~Q 234 (549)
..|+++|-....... .+....+++||.||+..+.-+.+-+.++ +....|+||-|=|.|
T Consensus 316 ~~ilitty~~~r~~~d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQ 377 (923)
T KOG0387|consen 316 GGILITTYDGFRIQGDDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQ 377 (923)
T ss_pred CcEEEEehhhhcccCcccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCcccc
Confidence 345555554433211 1223468999999999999887666554 345679999999999
No 98
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=31.52 E-value=32 Score=35.42 Aligned_cols=43 Identities=12% Similarity=0.046 Sum_probs=28.7
Q ss_pred HHHHHhcCCcEEEEccccchhhc---cc-CCCCCCEEEEEcCCCCCh
Q 008899 169 LEDFCFKRASLFFSTASSSYKLH---SV-EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 169 i~~~~l~~a~vI~~T~~sa~~l~---~~-~~~~fd~VIVDEAsq~~e 211 (549)
..+..+.+|+||+|.-.-..... .. ...+..+||||||..+.+
T Consensus 204 ~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d 250 (289)
T smart00489 204 ASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHH
Confidence 34455789999999976543211 10 122578999999999864
No 99
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=31.52 E-value=32 Score=35.42 Aligned_cols=43 Identities=12% Similarity=0.046 Sum_probs=28.7
Q ss_pred HHHHHhcCCcEEEEccccchhhc---cc-CCCCCCEEEEEcCCCCCh
Q 008899 169 LEDFCFKRASLFFSTASSSYKLH---SV-EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 169 i~~~~l~~a~vI~~T~~sa~~l~---~~-~~~~fd~VIVDEAsq~~e 211 (549)
..+..+.+|+||+|.-.-..... .. ...+..+||||||..+.+
T Consensus 204 ~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d 250 (289)
T smart00488 204 ASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHH
Confidence 34455789999999976543211 10 122578999999999864
No 100
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=30.99 E-value=53 Score=35.97 Aligned_cols=37 Identities=14% Similarity=0.196 Sum_probs=28.7
Q ss_pred CcEEEEccccchhh---cccCCCCCCEEEEEcCCCCChhH
Q 008899 177 ASLFFSTASSSYKL---HSVEIKPLNFLVIDEAAQLKESE 213 (549)
Q Consensus 177 a~vI~~T~~sa~~l---~~~~~~~fd~VIVDEAsq~~e~e 213 (549)
+.|+++|..++.+. .......|++||+||+.+++-+.
T Consensus 123 ~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~ 162 (442)
T COG1061 123 AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPS 162 (442)
T ss_pred CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHH
Confidence 67999999998873 22223479999999999998654
No 101
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=30.98 E-value=80 Score=34.89 Aligned_cols=52 Identities=17% Similarity=0.266 Sum_probs=38.3
Q ss_pred CCCcccHHHHHHHHhcCCcEEEEccccchhhccc-----CCCCCCEEEEEcCCCCCh
Q 008899 160 LPCTTSKLLLEDFCFKRASLFFSTASSSYKLHSV-----EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 160 ~p~~~~~~~i~~~~l~~a~vI~~T~~sa~~l~~~-----~~~~fd~VIVDEAsq~~e 211 (549)
..+..-.+++..+--++++|+++|+.-...+... .....+++|+|||-.+.+
T Consensus 115 vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLld 171 (567)
T KOG0345|consen 115 VGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLD 171 (567)
T ss_pred ecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchHhHhc
Confidence 3344456788888889999999999987764332 233678999999987764
No 102
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=30.64 E-value=39 Score=37.14 Aligned_cols=38 Identities=13% Similarity=0.312 Sum_probs=27.5
Q ss_pred hcCCcEEEEccccchhhccc---CCCCCCEEEEEcCCCCCh
Q 008899 174 FKRASLFFSTASSSYKLHSV---EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 174 l~~a~vI~~T~~sa~~l~~~---~~~~fd~VIVDEAsq~~e 211 (549)
-..++||++|+.....+... ....+++||||||-.+.+
T Consensus 211 ~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~ 251 (475)
T PRK01297 211 ARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLD 251 (475)
T ss_pred CCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHh
Confidence 35689999999876553322 234689999999987654
No 103
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=30.64 E-value=66 Score=36.55 Aligned_cols=41 Identities=15% Similarity=0.222 Sum_probs=28.2
Q ss_pred HHhcCCcEEEEccccchhhcc----cCCCCCCEEEEEcCCCCChh
Q 008899 172 FCFKRASLFFSTASSSYKLHS----VEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~----~~~~~fd~VIVDEAsq~~e~ 212 (549)
.+-+.++||++|+.....+.. .....+++||||||-.+.+.
T Consensus 130 ~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~ 174 (572)
T PRK04537 130 LLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDL 174 (572)
T ss_pred HHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHHHHhhc
Confidence 344578999999987654221 22346789999999877543
No 104
>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=30.05 E-value=1.7e+02 Score=33.85 Aligned_cols=67 Identities=16% Similarity=0.132 Sum_probs=37.5
Q ss_pred HHHHHHHHhc-CCcEEEEccccchhh-cc-c---CCCCCC-EEEEEcCCCCChhHHhHhh--hhcCCCeEEEEcCC
Q 008899 166 KLLLEDFCFK-RASLFFSTASSSYKL-HS-V---EIKPLN-FLVIDEAAQLKESESTIPL--QLAGINHAVLIGDE 232 (549)
Q Consensus 166 ~~~i~~~~l~-~a~vI~~T~~sa~~l-~~-~---~~~~fd-~VIVDEAsq~~e~e~lipL--~l~~~~~vILvGD~ 232 (549)
...+...+-. ...||+||..+.... .. . .....+ +||||||....-.....-+ .++.+..+-|.|=|
T Consensus 327 ~~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~~~~~~l~~~~p~a~~lGfTaTP 402 (667)
T TIGR00348 327 IAELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYGELAKNLKKALKNASFFGFTGTP 402 (667)
T ss_pred HHHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccchHHHHHHHhhCCCCcEEEEeCCC
Confidence 4555554433 478999999887641 11 1 111223 8999999777654432222 23444555565554
No 105
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=29.87 E-value=70 Score=30.46 Aligned_cols=34 Identities=15% Similarity=0.127 Sum_probs=19.7
Q ss_pred CCCEEEEEcCCCCC-hhHHhHhhhhcCCCeEEEEc
Q 008899 197 PLNFLVIDEAAQLK-ESESTIPLQLAGINHAVLIG 230 (549)
Q Consensus 197 ~fd~VIVDEAsq~~-e~e~lipL~l~~~~~vILvG 230 (549)
.+|+|+||||+-.+ ...-++-........+++.|
T Consensus 76 ~~dvI~IDEaQFf~~~i~~l~~~~~~~g~~Vi~~G 110 (176)
T PF00265_consen 76 DYDVIGIDEAQFFDEQIVQLVEILANKGIPVICAG 110 (176)
T ss_dssp TCSEEEESSGGGSTTTHHHHHHHHHHTT-EEEEEE
T ss_pred CCCEEEEechHhhHHHHHHHHHHHHhCCCeEEEEe
Confidence 49999999999888 22122222222345666554
No 106
>PRK02362 ski2-like helicase; Provisional
Probab=29.74 E-value=31 Score=40.36 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=28.4
Q ss_pred HhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 173 CFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
.+..++||+||+.....+.. .....+++||||||..+..
T Consensus 110 ~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d 151 (737)
T PRK02362 110 WLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDS 151 (737)
T ss_pred ccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCC
Confidence 45778999999876544222 2234789999999998864
No 107
>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=29.58 E-value=35 Score=40.02 Aligned_cols=47 Identities=19% Similarity=0.347 Sum_probs=32.1
Q ss_pred HhcCCcEEEEccccchh--hcc--------cCCCCCCEEEEEcCCCCChhHHhHhhh
Q 008899 173 CFKRASLFFSTASSSYK--LHS--------VEIKPLNFLVIDEAAQLKESESTIPLQ 219 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~--l~~--------~~~~~fd~VIVDEAsq~~e~e~lipL~ 219 (549)
....++|+.+|+...+. +.. ....++.++|||||-.+..-++-.||.
T Consensus 161 ~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartpli 217 (762)
T TIGR03714 161 KIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLV 217 (762)
T ss_pred HhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCee
Confidence 33679999999998852 111 113478999999998876655444443
No 108
>COG1204 Superfamily II helicase [General function prediction only]
Probab=29.01 E-value=60 Score=38.25 Aligned_cols=44 Identities=25% Similarity=0.314 Sum_probs=32.4
Q ss_pred HHHHHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCChh
Q 008899 169 LEDFCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKES 212 (549)
Q Consensus 169 i~~~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e~ 212 (549)
....-+..++||++|+-..-.+.. .....+++|||||+.++...
T Consensus 115 ~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~ 161 (766)
T COG1204 115 LDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDR 161 (766)
T ss_pred cchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCc
Confidence 334567889999999876654322 23447999999999998766
No 109
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=28.92 E-value=42 Score=35.26 Aligned_cols=46 Identities=20% Similarity=0.247 Sum_probs=34.2
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhh----cCCCeEEEEcC-CCCCCccccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQL----AGINHAVLIGD-ECQLPAMVAS 241 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l----~~~~~vILvGD-~~QLpPiv~s 241 (549)
+...++|||+|..+++...-..|.. ++...+||+.+ +.+|+|++.|
T Consensus 112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 3689999999999998765544432 23346888887 6888999876
No 110
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=27.92 E-value=42 Score=40.16 Aligned_cols=47 Identities=23% Similarity=0.405 Sum_probs=34.4
Q ss_pred CCcEEEEccccc-hhhcccC----------CCCCCEEEEEcCCCCChhHHhHhhhhcC
Q 008899 176 RASLFFSTASSS-YKLHSVE----------IKPLNFLVIDEAAQLKESESTIPLQLAG 222 (549)
Q Consensus 176 ~a~vI~~T~~sa-~~l~~~~----------~~~fd~VIVDEAsq~~e~e~lipL~l~~ 222 (549)
.++||++|+... ..+.... ..++.++|||||-.+..-++-.||.++|
T Consensus 183 ~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsmLiDEArTPLIISg 240 (970)
T PRK12899 183 QCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSILIDEARTPLIISG 240 (970)
T ss_pred CCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhhhhhccCCceeeeC
Confidence 599999999988 3321111 1256899999999998888888876544
No 111
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=27.90 E-value=86 Score=34.24 Aligned_cols=40 Identities=23% Similarity=0.292 Sum_probs=28.3
Q ss_pred HHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 172 FCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
.+-..++||++|+.....+.. .....+++||+|||-.+..
T Consensus 119 ~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~ 161 (460)
T PRK11776 119 SLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLD 161 (460)
T ss_pred HhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhC
Confidence 344789999999987665322 2234689999999986543
No 112
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=27.45 E-value=2.2e+02 Score=28.35 Aligned_cols=47 Identities=21% Similarity=0.359 Sum_probs=31.9
Q ss_pred cEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCC--------------CCccccEEEEEcc
Q 008899 359 SIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGF--------------QGGEEDIIIISTV 410 (549)
Q Consensus 359 sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~f--------------QG~E~DiVIlS~v 410 (549)
.||||+|-..|.....++.... ...+.+...--| +....|+|++.|.
T Consensus 127 ~vGVivP~~eQ~~~~~~kW~~l-----~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCm 187 (221)
T PF07302_consen 127 QVGVIVPLPEQIAQQAEKWQPL-----GNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCM 187 (221)
T ss_pred eEEEEecCHHHHHHHHHHHHhc-----CCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECC
Confidence 6999999999999887777553 123333333333 3445788998884
No 113
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=27.21 E-value=50 Score=38.25 Aligned_cols=89 Identities=17% Similarity=0.211 Sum_probs=50.7
Q ss_pred HHHHhhhhhhcccCCCCc-ccHHHHHHHHh------c--CCcEEEEccccchh-hcccCCCCCCEEEEEcCCCCChhHH-
Q 008899 146 SVLRNLWNSLDELNLPCT-TSKLLLEDFCF------K--RASLFFSTASSSYK-LHSVEIKPLNFLVIDEAAQLKESES- 214 (549)
Q Consensus 146 ~~l~~l~~~l~~~~~p~~-~~~~~i~~~~l------~--~a~vI~~T~~sa~~-l~~~~~~~fd~VIVDEAsq~~e~e~- 214 (549)
+++..+..+++.++..+. .+++.+++++- + ..+|++++-.-+.. -.....-++.++|.|||+-+.-..+
T Consensus 634 qEisrFlP~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDeky~qkvKWQYMILDEAQAIKSSsS~ 713 (1185)
T KOG0388|consen 634 QEISRFLPSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEKYLQKVKWQYMILDEAQAIKSSSSS 713 (1185)
T ss_pred HHHHHhCccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHHHHHhhhhhheehhHHHHhhhhhhh
Confidence 445555555566655554 34555555432 2 34566666443322 1112234788999999988765542
Q ss_pred -hHh-hhhcCCCeEEEEcCCCC
Q 008899 215 -TIP-LQLAGINHAVLIGDECQ 234 (549)
Q Consensus 215 -lip-L~l~~~~~vILvGD~~Q 234 (549)
|-. |.+....|+.|.|-|-|
T Consensus 714 RWKtLLsF~cRNRLLLTGTPIQ 735 (1185)
T KOG0388|consen 714 RWKTLLSFKCRNRLLLTGTPIQ 735 (1185)
T ss_pred HHHHHhhhhccceeeecCCccc
Confidence 222 23334469999999999
No 114
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=27.01 E-value=1.8e+02 Score=34.35 Aligned_cols=35 Identities=20% Similarity=0.212 Sum_probs=24.2
Q ss_pred CCcEEEEccccchhh--------cccCCCCCCEEEEEcCCCCC
Q 008899 176 RASLFFSTASSSYKL--------HSVEIKPLNFLVIDEAAQLK 210 (549)
Q Consensus 176 ~a~vI~~T~~sa~~l--------~~~~~~~fd~VIVDEAsq~~ 210 (549)
.++|.+||.-+.... .....+.||+||||||..-.
T Consensus 256 s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi 298 (875)
T COG4096 256 SSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGI 298 (875)
T ss_pred ceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhH
Confidence 478999998765431 11224569999999997653
No 115
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=26.48 E-value=1.3e+02 Score=29.18 Aligned_cols=40 Identities=20% Similarity=0.310 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhh
Q 008899 336 EVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGS 379 (549)
Q Consensus 336 Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~ 379 (549)
.+..|.++.+.+.+.|.-. -++.|+||++.++..++.+.+
T Consensus 80 niRRvaevAkll~daG~iv----iva~ISP~r~~R~~aR~~~~~ 119 (197)
T COG0529 80 NIRRVAEVAKLLADAGLIV----IVAFISPYREDRQMARELLGE 119 (197)
T ss_pred HHHHHHHHHHHHHHCCeEE----EEEeeCccHHHHHHHHHHhCc
Confidence 3455555555565555433 378999999999999998864
No 116
>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=26.42 E-value=47 Score=38.25 Aligned_cols=40 Identities=18% Similarity=0.236 Sum_probs=27.7
Q ss_pred hcCCcEEEEccccchhhc-c--cCCCCCCEEEEEcCCCCChhH
Q 008899 174 FKRASLFFSTASSSYKLH-S--VEIKPLNFLVIDEAAQLKESE 213 (549)
Q Consensus 174 l~~a~vI~~T~~sa~~l~-~--~~~~~fd~VIVDEAsq~~e~e 213 (549)
..+|+||++..+-..... . .-...+++||||||.++.+..
T Consensus 180 a~~AdivItNHalL~~~~~~~~~iLP~~~~lIiDEAH~L~d~A 222 (636)
T TIGR03117 180 ARRCRILFCTHAMLGLAFRDKWGLLPQPDILIVDEAHLFEQNI 222 (636)
T ss_pred cccCCEEEECHHHHHHHhhhhcCCCCCCCEEEEeCCcchHHHH
Confidence 688999999976443211 1 112458999999999997543
No 117
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=26.08 E-value=99 Score=35.92 Aligned_cols=43 Identities=19% Similarity=0.215 Sum_probs=28.1
Q ss_pred HHHHHHHh-cCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCCh
Q 008899 167 LLLEDFCF-KRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 167 ~~i~~~~l-~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e 211 (549)
+.+...+. .+++||++|...... ......+++||||||.....
T Consensus 354 ~~~~~~l~~g~~~IvVgT~~ll~~--~v~~~~l~lvVIDE~Hrfg~ 397 (681)
T PRK10917 354 REILEAIASGEADIVIGTHALIQD--DVEFHNLGLVIIDEQHRFGV 397 (681)
T ss_pred HHHHHHHhCCCCCEEEchHHHhcc--cchhcccceEEEechhhhhH
Confidence 33434443 369999999754432 22345789999999987643
No 118
>PTZ00293 thymidine kinase; Provisional
Probab=25.64 E-value=64 Score=31.84 Aligned_cols=35 Identities=11% Similarity=0.048 Sum_probs=20.7
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhhcCCCeEEEEc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIG 230 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l~~~~~vILvG 230 (549)
.++|+|+||||+-.++..-++-........||..|
T Consensus 76 ~~~dvI~IDEaQFf~~i~~~~~~l~~~g~~VivaG 110 (211)
T PTZ00293 76 KNYDVIAIDEGQFFPDLVEFSEAAANLGKIVIVAA 110 (211)
T ss_pred cCCCEEEEEchHhhHhHHHHHHHHHHCCCeEEEEe
Confidence 46899999999888542222222112335666655
No 119
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=25.44 E-value=79 Score=30.20 Aligned_cols=37 Identities=27% Similarity=0.445 Sum_probs=26.5
Q ss_pred CCCCEEEEEcCC------CCChhHHhHhhh-hcCCCeEEEEcCC
Q 008899 196 KPLNFLVIDEAA------QLKESESTIPLQ-LAGINHAVLIGDE 232 (549)
Q Consensus 196 ~~fd~VIVDEAs------q~~e~e~lipL~-l~~~~~vILvGD~ 232 (549)
..+|+||+||.. -+++.+.+-.+. .+..-.+||.|-.
T Consensus 96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~ 139 (173)
T TIGR00708 96 PELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRG 139 (173)
T ss_pred CCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCC
Confidence 579999999987 667777555554 2333479999974
No 120
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=24.86 E-value=1.1e+02 Score=35.30 Aligned_cols=40 Identities=18% Similarity=0.210 Sum_probs=28.3
Q ss_pred HHhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 172 FCFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
.+...++||++|+........ .....+.+||+|||-.+..
T Consensus 121 ~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~ 163 (629)
T PRK11634 121 ALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLR 163 (629)
T ss_pred HhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhh
Confidence 345679999999987654221 2245688999999987653
No 121
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=24.58 E-value=59 Score=40.07 Aligned_cols=35 Identities=17% Similarity=0.240 Sum_probs=25.7
Q ss_pred cCCcEEEEccccchhh-c-c------cCCCCCCEEEEEcCCCC
Q 008899 175 KRASLFFSTASSSYKL-H-S------VEIKPLNFLVIDEAAQL 209 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l-~-~------~~~~~fd~VIVDEAsq~ 209 (549)
.+.+|++||..+..+. . . .....||+||||||...
T Consensus 510 ~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs 552 (1123)
T PRK11448 510 DETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRG 552 (1123)
T ss_pred CCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCC
Confidence 4589999999876541 1 1 12457999999999985
No 122
>PRK01172 ski2-like helicase; Provisional
Probab=24.36 E-value=45 Score=38.52 Aligned_cols=39 Identities=21% Similarity=0.252 Sum_probs=27.7
Q ss_pred HhcCCcEEEEccccchhhccc---CCCCCCEEEEEcCCCCCh
Q 008899 173 CFKRASLFFSTASSSYKLHSV---EIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~l~~~---~~~~fd~VIVDEAsq~~e 211 (549)
.++.++||++|+..+..+... ....+++||||||..+.+
T Consensus 108 ~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d 149 (674)
T PRK01172 108 FIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGD 149 (674)
T ss_pred hhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccC
Confidence 457889999999655432111 134789999999998863
No 123
>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=23.37 E-value=1.2e+02 Score=35.45 Aligned_cols=60 Identities=13% Similarity=0.062 Sum_probs=36.7
Q ss_pred cCCcEEEEccccchhh-----------cccCCCCCCEEEEEcCCCCChhHHhHhhh-hcCCCeEEEEcCCCC
Q 008899 175 KRASLFFSTASSSYKL-----------HSVEIKPLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQ 234 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l-----------~~~~~~~fd~VIVDEAsq~~e~e~lipL~-l~~~~~vILvGD~~Q 234 (549)
..+.|+++|..+.... .......|++||+|||..++-+..--.+. +....++-|-|=|.+
T Consensus 342 ~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~~fr~il~~l~a~~RLGLTATP~R 413 (732)
T TIGR00603 342 GEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMFRRVLTIVQAHCKLGLTATLVR 413 (732)
T ss_pred cCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHHHHHHHHHhcCcCcEEEEeecCcc
Confidence 3578999998765421 11123478999999999997655332222 223346667666543
No 124
>COG2879 Uncharacterized small protein [Function unknown]
Probab=22.89 E-value=1.3e+02 Score=23.91 Aligned_cols=32 Identities=16% Similarity=0.343 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhHhhhhcccchhhhhhhhhccCCCCCcccHHHHHHHHHHH
Q 008899 10 SQYHIYVEKLEEREDCNVNQSEEKECRKETEGSKGECKPFLKYVKERFKR 59 (549)
Q Consensus 10 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (549)
..|+.||+.+..+ -..+..||.++|++++-+.
T Consensus 23 pdYdnYVehmr~~------------------hPd~p~mT~~EFfrec~da 54 (65)
T COG2879 23 PDYDNYVEHMRKK------------------HPDKPPMTYEEFFRECQDA 54 (65)
T ss_pred CcHHHHHHHHHHh------------------CcCCCcccHHHHHHHHHHh
Confidence 4688888766421 2234689999999887654
No 125
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=22.47 E-value=69 Score=27.73 Aligned_cols=33 Identities=36% Similarity=0.389 Sum_probs=21.4
Q ss_pred CEEEEEcCCCC-ChhHHhHhh-hh--cCCCeEEEEcCC
Q 008899 199 NFLVIDEAAQL-KESESTIPL-QL--AGINHAVLIGDE 232 (549)
Q Consensus 199 d~VIVDEAsq~-~e~e~lipL-~l--~~~~~vILvGD~ 232 (549)
.+||||||..+ +... +--+ .+ ...-++|++|-|
T Consensus 89 ~~lviDe~~~l~~~~~-l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLFSDEF-LEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHHTHHH-HHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcCCHHH-HHHHHHHHhCCCCeEEEEECh
Confidence 68999999998 5332 2222 12 223478999988
No 126
>PF13173 AAA_14: AAA domain
Probab=22.25 E-value=92 Score=27.44 Aligned_cols=37 Identities=19% Similarity=0.315 Sum_probs=25.1
Q ss_pred CCCEEEEEcCCCCChhHHhHhhhhcC--CCeEEEEcCCC
Q 008899 197 PLNFLVIDEAAQLKESESTIPLQLAG--INHAVLIGDEC 233 (549)
Q Consensus 197 ~fd~VIVDEAsq~~e~e~lipL~l~~--~~~vILvGD~~ 233 (549)
...+|+|||++.++.....+-...-. .-++|+.|=..
T Consensus 61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~ 99 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSS 99 (128)
T ss_pred CCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccch
Confidence 56889999999998766555443222 24777777643
No 127
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=22.22 E-value=75 Score=36.69 Aligned_cols=47 Identities=21% Similarity=0.280 Sum_probs=31.8
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhhh--cCCCeEEEEc---CCCCCCcccccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQL--AGINHAVLIG---DECQLPAMVASK 242 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~l--~~~~~vILvG---D~~QLpPiv~s~ 242 (549)
+++.++|||||.+++....-..|.. -+..++++++ |+..|+|++.|.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh
Confidence 4789999999999997553332221 1235666665 778888887664
No 128
>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=22.00 E-value=91 Score=34.85 Aligned_cols=32 Identities=19% Similarity=0.318 Sum_probs=23.6
Q ss_pred cCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCC
Q 008899 175 KRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLK 210 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~ 210 (549)
.+++||++|.+.... ....+++|||||+...+
T Consensus 75 g~~~IVVGTrsalf~----p~~~l~lIIVDEeh~~s 106 (505)
T TIGR00595 75 GEILVVIGTRSALFL----PFKNLGLIIVDEEHDSS 106 (505)
T ss_pred CCCCEEECChHHHcC----cccCCCEEEEECCCccc
Confidence 468999999875432 23478999999986654
No 129
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=21.66 E-value=1.5e+02 Score=34.13 Aligned_cols=35 Identities=26% Similarity=0.337 Sum_probs=25.2
Q ss_pred cCCcEEEEccccchhhcccCCCCCCEEEEEcCCCCCh
Q 008899 175 KRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~e 211 (549)
.+++||++|...... ......+++||||||.....
T Consensus 337 g~~~IiVgT~~ll~~--~~~~~~l~lvVIDEaH~fg~ 371 (630)
T TIGR00643 337 GQIHLVVGTHALIQE--KVEFKRLALVIIDEQHRFGV 371 (630)
T ss_pred CCCCEEEecHHHHhc--cccccccceEEEechhhccH
Confidence 468999999865432 22345789999999987643
No 130
>PRK00254 ski2-like helicase; Provisional
Probab=21.48 E-value=58 Score=38.01 Aligned_cols=39 Identities=21% Similarity=0.221 Sum_probs=28.1
Q ss_pred HhcCCcEEEEccccchhhcc---cCCCCCCEEEEEcCCCCCh
Q 008899 173 CFKRASLFFSTASSSYKLHS---VEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 173 ~l~~a~vI~~T~~sa~~l~~---~~~~~fd~VIVDEAsq~~e 211 (549)
.+.+++||++|+.....+.. .....+++|||||+..+..
T Consensus 111 ~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~ 152 (720)
T PRK00254 111 WLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGS 152 (720)
T ss_pred hhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCC
Confidence 45788999999876544322 2234789999999998764
No 131
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=21.28 E-value=3.4e+02 Score=28.69 Aligned_cols=69 Identities=22% Similarity=0.302 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCccEEEEccchHHHHHHHHHHhhhhc-------------------------------CC
Q 008899 336 EVSVVIKILQKLYKAWVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYE-------------------------------NK 384 (549)
Q Consensus 336 Ea~~V~~lv~~L~~~~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~-------------------------------~~ 384 (549)
|.=.|.++++.|...... ....|.+|-|-+.|+..+.++|.+.+. ++
T Consensus 9 eiwkikklik~le~argn--gtsmisliippkdqisr~skmLadeygtasnikSrVnRlsvl~AitSaq~rLklynkvPp 86 (431)
T KOG0688|consen 9 EIWKIKKLIKSLEDARGN--GTSMISLIIPPKDQISRVSKMLADEYGTASNIKSRVNRLSVLGAITSAQSRLKLYNKVPP 86 (431)
T ss_pred HHHHHHHHHHHHHHhcCC--CceeEEEEeCchHHHHHHHHHHHHhhhhhhhhhhhhcchhhhhhhhhhhhhhHHhccCCC
Confidence 555566677776654332 234699999999999999999976543 12
Q ss_pred CCCeEEEecccCCCCccccEEE
Q 008899 385 DGFTVKVKSIDGFQGGEEDIII 406 (549)
Q Consensus 385 ~~~~v~V~TVd~fQG~E~DiVI 406 (549)
.+..+.++||-.=+|.|+.+-|
T Consensus 87 nglvly~gti~tedgkekkv~i 108 (431)
T KOG0688|consen 87 NGLVLYTGTIVTEDGKEKKVNI 108 (431)
T ss_pred CceEEEeeeeEccCCceeeeec
Confidence 3446788999999999998776
No 132
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.22 E-value=69 Score=35.89 Aligned_cols=47 Identities=28% Similarity=0.354 Sum_probs=29.8
Q ss_pred CCCCEEEEEcCCCCChhHHhHhhh-h-cCCCe--EEEE-cCCCCCCcccccc
Q 008899 196 KPLNFLVIDEAAQLKESESTIPLQ-L-AGINH--AVLI-GDECQLPAMVASK 242 (549)
Q Consensus 196 ~~fd~VIVDEAsq~~e~e~lipL~-l-~~~~~--vILv-GD~~QLpPiv~s~ 242 (549)
.++.++|||||.+++....-..+. + -...+ +||+ .|+..++|++.|.
T Consensus 118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 478999999999998754322221 1 11233 3433 6888898886553
No 133
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=21.04 E-value=69 Score=35.81 Aligned_cols=40 Identities=23% Similarity=0.292 Sum_probs=28.7
Q ss_pred HHhcCCcEEEEccccchhhc---ccCCCCCCEEEEEcCCCCCh
Q 008899 172 FCFKRASLFFSTASSSYKLH---SVEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 172 ~~l~~a~vI~~T~~sa~~l~---~~~~~~fd~VIVDEAsq~~e 211 (549)
.+.+.++||++|+.....+. ......+.+||||||-.+.+
T Consensus 242 ~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~ 284 (518)
T PLN00206 242 RIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLE 284 (518)
T ss_pred HhcCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHHhh
Confidence 34567899999988765422 22345789999999987754
No 134
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=20.86 E-value=50 Score=39.34 Aligned_cols=47 Identities=23% Similarity=0.418 Sum_probs=34.0
Q ss_pred CCcEEEEccccch-hhcccC---------CCCCCEEEEEcCCCCChhHHhHhhhhcC
Q 008899 176 RASLFFSTASSSY-KLHSVE---------IKPLNFLVIDEAAQLKESESTIPLQLAG 222 (549)
Q Consensus 176 ~a~vI~~T~~sa~-~l~~~~---------~~~fd~VIVDEAsq~~e~e~lipL~l~~ 222 (549)
.++|+.+|+...+ .+...+ ...+.++|||||-.+.--++-.||.+.|
T Consensus 171 ~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPLIISg 227 (896)
T PRK13104 171 KADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPLIISG 227 (896)
T ss_pred CCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCceeeeC
Confidence 6899999999873 221111 1378999999998888777777776544
No 135
>PRK09401 reverse gyrase; Reviewed
Probab=20.77 E-value=88 Score=38.78 Aligned_cols=42 Identities=12% Similarity=0.153 Sum_probs=29.0
Q ss_pred HHHHHh-cCCcEEEEccccchhhc-ccCCCCCCEEEEEcCCCCC
Q 008899 169 LEDFCF-KRASLFFSTASSSYKLH-SVEIKPLNFLVIDEAAQLK 210 (549)
Q Consensus 169 i~~~~l-~~a~vI~~T~~sa~~l~-~~~~~~fd~VIVDEAsq~~ 210 (549)
....+. ..++|+++|+....+.. ......++++|||||-.+.
T Consensus 171 ~~~~l~~~~~~IlV~Tp~rL~~~~~~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 171 FLERLKEGDFDILVTTSQFLSKNFDELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred HHHHHhcCCCCEEEECHHHHHHHHHhccccccCEEEEEChHHhh
Confidence 333344 35899999998776532 2233469999999997665
No 136
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=20.60 E-value=87 Score=36.71 Aligned_cols=30 Identities=23% Similarity=0.267 Sum_probs=20.6
Q ss_pred CCEEEEEcCCCCChhHHhHhhhhcCCCeEEEE
Q 008899 198 LNFLVIDEAAQLKESESTIPLQLAGINHAVLI 229 (549)
Q Consensus 198 fd~VIVDEAsq~~e~e~lipL~l~~~~~vILv 229 (549)
.|+||||||+.++.|-.--.+. +-.++++.
T Consensus 324 ~DllvVDEAAaIplplL~~l~~--~~~rv~~s 353 (758)
T COG1444 324 ADLLVVDEAAAIPLPLLHKLLR--RFPRVLFS 353 (758)
T ss_pred CCEEEEehhhcCChHHHHHHHh--hcCceEEE
Confidence 8999999999998775433332 23666653
No 137
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=20.28 E-value=1.1e+02 Score=35.63 Aligned_cols=54 Identities=17% Similarity=0.145 Sum_probs=38.9
Q ss_pred HHHHHHHHHHh-hcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCC
Q 008899 340 VIKILQKLYKA-WVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGF 397 (549)
Q Consensus 340 V~~lv~~L~~~-~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~f 397 (549)
+..-+.+|+.. +.+ ..+|.+||+-++-+..+++.+.+.... ....+.|+|+|+|
T Consensus 39 l~~Ria~Li~~~~v~---p~~IL~lTFT~kAA~Em~~Rl~~~~~~-~~~~~~i~TfHs~ 93 (721)
T PRK11773 39 LVHRIAWLMQVENAS---PYSIMAVTFTNKAAAEMRHRIEQLLGT-SQGGMWVGTFHGL 93 (721)
T ss_pred HHHHHHHHHHcCCCC---hhHeEeeeccHHHHHHHHHHHHHHhcc-CCCCCEEEcHHHH
Confidence 44555566653 333 347999999999999999999775542 2346899999986
No 138
>COG4889 Predicted helicase [General function prediction only]
Probab=20.27 E-value=73 Score=37.91 Aligned_cols=35 Identities=20% Similarity=0.360 Sum_probs=27.1
Q ss_pred CcEEEEccccchhhc---ccCCCCCCEEEEEcCCCCCh
Q 008899 177 ASLFFSTASSSYKLH---SVEIKPLNFLVIDEAAQLKE 211 (549)
Q Consensus 177 a~vI~~T~~sa~~l~---~~~~~~fd~VIVDEAsq~~e 211 (549)
--|||||-.|+-... ..+...||+||.|||...+-
T Consensus 281 ~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEAHRTtG 318 (1518)
T COG4889 281 LTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEAHRTTG 318 (1518)
T ss_pred cEEEEEcccchHHHHHHHHcCCCCccEEEecchhcccc
Confidence 348999999877643 34567899999999987653
No 139
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=20.25 E-value=1.1e+02 Score=35.72 Aligned_cols=54 Identities=17% Similarity=0.180 Sum_probs=38.9
Q ss_pred HHHHHHHHHHh-hcCCCCCccEEEEccchHHHHHHHHHHhhhhcCCCCCeEEEecccCC
Q 008899 340 VIKILQKLYKA-WVGSKQKVSIGVVSPYTAQAVAIRKKIGSEYENKDGFTVKVKSIDGF 397 (549)
Q Consensus 340 V~~lv~~L~~~-~~~~~~~~sIgIITPY~aQ~~~I~~~L~~~~~~~~~~~v~V~TVd~f 397 (549)
++.-+.+|+.. +.+ ...|.+||+-+.-+..+++.+.+.... ....+.|+|+|+|
T Consensus 34 L~~Ria~Li~~~~v~---p~~IL~lTFTnkAA~em~~Rl~~~~~~-~~~~~~i~TfHs~ 88 (715)
T TIGR01075 34 LTHRIAWLLSVENAS---PHSIMAVTFTNKAAAEMRHRIGALLGT-SARGMWIGTFHGL 88 (715)
T ss_pred HHHHHHHHHHcCCCC---HHHeEeeeccHHHHHHHHHHHHHHhcc-cccCcEEEcHHHH
Confidence 45555666654 333 347999999999999999999775542 2346899999975
No 140
>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=20.12 E-value=1.6e+02 Score=35.64 Aligned_cols=33 Identities=27% Similarity=0.448 Sum_probs=23.6
Q ss_pred CCcEEEEccccchhhcccCCCCCCEEEEEcCCCCC
Q 008899 176 RASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLK 210 (549)
Q Consensus 176 ~a~vI~~T~~sa~~l~~~~~~~fd~VIVDEAsq~~ 210 (549)
.++||++|+.-..+ ......+.+||||||....
T Consensus 554 ~~dIVIGTp~ll~~--~v~f~~L~llVIDEahrfg 586 (926)
T TIGR00580 554 KIDILIGTHKLLQK--DVKFKDLGLLIIDEEQRFG 586 (926)
T ss_pred CceEEEchHHHhhC--CCCcccCCEEEeecccccc
Confidence 68999999843321 2234578999999998754
No 141
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=20.11 E-value=1.2e+02 Score=28.18 Aligned_cols=41 Identities=10% Similarity=0.136 Sum_probs=22.4
Q ss_pred cCCcEEEEccccchhh--cccCCCCCCEEEEEcCCCCChhHHhH
Q 008899 175 KRASLFFSTASSSYKL--HSVEIKPLNFLVIDEAAQLKESESTI 216 (549)
Q Consensus 175 ~~a~vI~~T~~sa~~l--~~~~~~~fd~VIVDEAsq~~e~e~li 216 (549)
....|-++|-....+. .......||+||+|||--.. +.++.
T Consensus 71 g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~D-p~sIA 113 (148)
T PF07652_consen 71 GSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTD-PTSIA 113 (148)
T ss_dssp SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--S-HHHHH
T ss_pred CCCcccccccHHHHHHhcCcccccCccEEEEeccccCC-HHHHh
Confidence 4455555555555542 22335579999999997654 44443
Done!