Query 048652
Match_columns 1382
No_of_seqs 476 out of 2473
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 11:40:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048652.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048652hhsearch_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 5E-77 1.1E-81 693.1 40.4 600 40-858 229-842 (935)
2 KOG1803 DNA helicase [Replicat 100.0 7.7E-77 1.7E-81 696.4 34.5 606 51-861 3-637 (649)
3 TIGR00376 DNA helicase, putati 100.0 2E-69 4.2E-74 677.0 52.7 567 116-858 55-636 (637)
4 KOG1801 tRNA-splicing endonucl 100.0 3.8E-66 8.2E-71 660.8 20.7 791 16-865 6-822 (827)
5 KOG1805 DNA replication helica 100.0 9.9E-57 2.1E-61 544.9 20.4 387 247-854 667-1077(1100)
6 KOG1807 Helicases [Replication 100.0 7.1E-51 1.5E-55 480.9 34.9 289 552-854 688-978 (1025)
7 COG1112 Superfamily I DNA and 100.0 3.2E-40 7E-45 428.6 35.0 292 554-857 460-754 (767)
8 PF13087 AAA_12: AAA domain; P 100.0 6.5E-35 1.4E-39 317.7 6.2 197 635-831 1-200 (200)
9 KOG1804 RNA helicase [RNA proc 100.0 4.4E-33 9.5E-38 344.3 10.0 285 560-857 417-724 (775)
10 KOG1806 DEAD box containing he 100.0 6.9E-30 1.5E-34 310.4 16.6 489 248-846 737-1262(1320)
11 PF13086 AAA_11: AAA domain; P 100.0 1.2E-29 2.5E-34 280.9 16.5 105 249-369 1-113 (236)
12 PRK11054 helD DNA helicase IV; 100.0 4.1E-27 8.9E-32 297.0 27.3 212 582-831 429-664 (684)
13 PRK11773 uvrD DNA-dependent he 99.9 4.3E-23 9.4E-28 265.4 28.7 69 248-325 8-80 (721)
14 TIGR01073 pcrA ATP-dependent D 99.9 3.7E-23 8E-28 266.7 27.5 68 248-324 3-74 (726)
15 TIGR01075 uvrD DNA helicase II 99.9 3.9E-23 8.4E-28 266.0 26.8 69 248-325 3-75 (715)
16 PRK10919 ATP-dependent DNA hel 99.9 1.4E-22 3E-27 258.0 26.7 67 249-324 2-72 (672)
17 TIGR01447 recD exodeoxyribonuc 99.9 5.5E-22 1.2E-26 246.9 24.0 63 252-321 148-215 (586)
18 TIGR01448 recD_rel helicase, p 99.9 1.5E-21 3.3E-26 249.2 22.9 62 247-315 321-384 (720)
19 PRK10875 recD exonuclease V su 99.9 4.2E-21 9.1E-26 239.3 24.5 66 250-322 153-222 (615)
20 TIGR02785 addA_Gpos recombinat 99.9 1.7E-19 3.7E-24 242.7 36.7 68 249-325 1-71 (1232)
21 TIGR02768 TraA_Ti Ti-type conj 99.8 4.2E-19 9E-24 227.7 22.8 64 247-316 350-413 (744)
22 PRK13909 putative recombinatio 99.8 1.1E-17 2.3E-22 220.1 33.8 157 582-766 327-494 (910)
23 TIGR00609 recB exodeoxyribonuc 99.8 6E-18 1.3E-22 225.6 31.7 174 582-765 295-491 (1087)
24 COG3973 Superfamily I DNA and 99.8 1.1E-17 2.4E-22 197.9 24.3 208 581-829 526-745 (747)
25 TIGR02784 addA_alphas double-s 99.8 1.5E-16 3.3E-21 214.4 38.2 85 582-673 390-496 (1141)
26 COG1074 RecB ATP-dependent exo 99.8 1.9E-17 4E-22 221.2 27.7 176 582-765 377-576 (1139)
27 PRK13826 Dtr system oriT relax 99.8 1.4E-17 2.9E-22 216.2 24.5 64 247-316 379-442 (1102)
28 PRK13889 conjugal transfer rel 99.8 1E-17 2.2E-22 216.8 21.2 64 247-316 344-407 (988)
29 PRK10876 recB exonuclease V su 99.8 6.8E-16 1.5E-20 206.4 37.2 174 582-765 376-573 (1181)
30 TIGR01074 rep ATP-dependent DN 99.7 6.8E-17 1.5E-21 207.4 23.7 156 582-766 205-364 (664)
31 PF13604 AAA_30: AAA domain; P 99.7 1E-16 2.2E-21 175.1 13.2 65 249-318 1-65 (196)
32 COG0210 UvrD Superfamily I DNA 99.6 4.4E-15 9.5E-20 190.5 21.8 157 582-766 212-372 (655)
33 PF00580 UvrD-helicase: UvrD/R 99.6 6.2E-14 1.4E-18 162.7 21.4 67 250-325 1-71 (315)
34 PRK13709 conjugal transfer nic 99.6 9.6E-14 2.1E-18 187.5 22.0 65 247-316 965-1033(1747)
35 PRK14712 conjugal transfer nic 99.5 2.4E-13 5.2E-18 181.3 22.3 64 248-316 834-901 (1623)
36 PF01443 Viral_helicase1: Vira 99.5 6.6E-14 1.4E-18 156.4 12.0 169 583-827 62-233 (234)
37 TIGR02760 TraI_TIGR conjugativ 99.4 1.5E-12 3.3E-17 180.8 17.0 65 247-316 1017-1085(1960)
38 PF13245 AAA_19: Part of AAA d 99.2 1.8E-11 3.9E-16 113.2 7.7 57 257-319 2-62 (76)
39 COG0507 RecD ATP-dependent exo 99.1 3.3E-11 7.1E-16 155.8 1.8 61 247-314 317-377 (696)
40 TIGR02760 TraI_TIGR conjugativ 99.1 7.4E-09 1.6E-13 144.8 24.1 66 247-317 427-492 (1960)
41 PF09848 DUF2075: Uncharacteri 99.1 6.9E-10 1.5E-14 132.3 12.0 86 582-675 82-183 (352)
42 PF05970 PIF1: PIF1-like helic 99.0 5.3E-10 1.1E-14 133.7 9.6 66 249-315 1-66 (364)
43 COG3972 Superfamily I DNA and 98.6 1.9E-07 4.1E-12 109.9 12.1 239 582-833 294-579 (660)
44 PRK10536 hypothetical protein; 98.6 5.8E-07 1.3E-11 101.1 14.5 57 245-308 55-113 (262)
45 TIGR02773 addB_Gpos ATP-depend 98.5 1.8E-05 4E-10 108.2 30.0 152 584-766 197-360 (1158)
46 PF13361 UvrD_C: UvrD-like hel 98.5 1.5E-07 3.3E-12 110.5 5.8 57 774-830 287-350 (351)
47 PF02562 PhoH: PhoH-like prote 98.4 1.1E-06 2.4E-11 96.3 10.2 54 249-309 4-59 (205)
48 smart00487 DEXDc DEAD-like hel 98.0 1.7E-05 3.7E-10 84.6 9.7 72 247-324 6-79 (201)
49 PF13538 UvrD_C_2: UvrD-like h 98.0 1.6E-06 3.4E-11 84.7 0.6 50 774-827 55-104 (104)
50 KOG1804 RNA helicase [RNA proc 97.9 2.8E-06 6E-11 107.7 1.2 286 559-858 240-548 (775)
51 PF04851 ResIII: Type III rest 97.9 2.1E-05 4.6E-10 83.8 7.7 72 248-322 2-73 (184)
52 cd00046 DEXDc DEAD-like helica 97.7 7.1E-05 1.5E-09 75.0 7.3 51 273-323 2-54 (144)
53 KOG0989 Replication factor C, 97.6 3.6E-05 7.8E-10 87.3 4.2 66 236-303 24-92 (346)
54 PF00270 DEAD: DEAD/DEAH box h 97.6 0.00021 4.5E-09 75.4 9.7 67 251-324 1-69 (169)
55 KOG2108 3'-5' DNA helicase [Re 97.5 8.4E-05 1.8E-09 93.7 5.5 70 248-326 12-85 (853)
56 COG4096 HsdR Type I site-speci 97.4 0.0025 5.4E-08 80.7 15.3 75 247-323 163-239 (875)
57 KOG0991 Replication factor C, 97.3 0.00019 4.1E-09 78.4 4.6 107 237-352 16-125 (333)
58 cd00009 AAA The AAA+ (ATPases 97.2 0.0011 2.5E-08 66.9 8.0 58 252-313 4-61 (151)
59 PRK07952 DNA replication prote 97.1 0.0011 2.4E-08 75.2 8.1 66 251-321 78-144 (244)
60 TIGR00643 recG ATP-dependent D 97.1 0.0016 3.4E-08 84.0 10.2 79 245-324 231-309 (630)
61 cd00268 DEADc DEAD-box helicas 97.1 0.0019 4.2E-08 70.7 9.3 67 249-322 21-92 (203)
62 PRK10917 ATP-dependent DNA hel 97.0 0.0021 4.6E-08 83.5 10.5 81 244-325 256-336 (681)
63 PLN03025 replication factor C 97.0 0.00057 1.2E-08 80.8 4.3 60 238-299 3-62 (319)
64 PRK08181 transposase; Validate 97.0 0.0016 3.4E-08 75.0 7.7 58 246-306 84-141 (269)
65 PF14938 SNAP: Soluble NSF att 96.9 0.0016 3.4E-08 75.7 7.4 121 891-1017 46-178 (282)
66 PRK12377 putative replication 96.9 0.0013 2.8E-08 74.8 6.2 56 251-306 80-136 (248)
67 smart00382 AAA ATPases associa 96.9 0.00075 1.6E-08 67.4 3.8 40 271-310 2-41 (148)
68 PHA02558 uvsW UvsW helicase; P 96.9 0.0026 5.6E-08 79.9 9.3 68 248-322 113-181 (501)
69 PRK05580 primosome assembly pr 96.9 0.0034 7.3E-08 81.5 10.0 73 246-322 141-213 (679)
70 cd01124 KaiC KaiC is a circadi 96.8 0.0018 3.9E-08 69.9 6.3 48 273-321 1-48 (187)
71 PRK06526 transposase; Provisio 96.8 0.0012 2.5E-08 75.6 4.6 57 246-306 77-133 (254)
72 PF07652 Flavi_DEAD: Flaviviru 96.7 0.0022 4.7E-08 66.4 5.6 50 271-320 4-54 (148)
73 PRK08116 hypothetical protein; 96.7 0.0053 1.1E-07 70.9 9.3 59 248-306 87-149 (268)
74 TIGR01970 DEAH_box_HrpB ATP-de 96.7 0.0038 8.3E-08 82.1 8.8 66 253-324 5-70 (819)
75 PTZ00424 helicase 45; Provisio 96.7 0.0048 1E-07 75.0 9.2 68 248-322 49-119 (401)
76 KOG3616 Selective LIM binding 96.6 0.0021 4.6E-08 78.6 5.4 81 937-1017 662-814 (1636)
77 COG2256 MGS1 ATPase related to 96.6 0.0055 1.2E-07 72.4 8.4 50 269-321 46-95 (436)
78 PRK11664 ATP-dependent RNA hel 96.6 0.0041 8.9E-08 81.9 8.3 66 253-324 8-73 (812)
79 PF13191 AAA_16: AAA ATPase do 96.6 0.0038 8.3E-08 66.9 6.4 51 252-303 6-56 (185)
80 KOG2028 ATPase related to the 96.6 0.0029 6.3E-08 73.2 5.7 53 269-321 160-212 (554)
81 TIGR00580 mfd transcription-re 96.5 0.0077 1.7E-07 80.1 10.0 78 246-324 448-525 (926)
82 COG1484 DnaC DNA replication p 96.5 0.0042 9.1E-08 71.1 6.4 56 252-307 86-141 (254)
83 PRK09183 transposase/IS protei 96.5 0.0047 1E-07 71.0 6.7 58 245-306 80-137 (259)
84 TIGR02928 orc1/cdc6 family rep 96.4 0.0036 7.9E-08 75.1 5.9 48 249-296 18-65 (365)
85 PHA02544 44 clamp loader, smal 96.4 0.0073 1.6E-07 71.1 8.3 79 236-320 9-89 (316)
86 PRK08084 DNA replication initi 96.4 0.0062 1.4E-07 68.9 7.4 40 270-309 44-83 (235)
87 PRK06893 DNA replication initi 96.4 0.0035 7.7E-08 70.6 5.2 39 270-308 38-76 (229)
88 COG1875 NYN ribonuclease and A 96.4 0.012 2.7E-07 68.7 9.5 39 583-621 351-390 (436)
89 PRK11776 ATP-dependent RNA hel 96.4 0.0095 2.1E-07 74.0 9.4 69 248-323 25-96 (460)
90 PRK14974 cell division protein 96.4 0.0069 1.5E-07 71.9 7.5 48 270-317 139-189 (336)
91 PF01695 IstB_IS21: IstB-like 96.4 0.0054 1.2E-07 66.5 6.1 38 270-307 46-83 (178)
92 TIGR00604 rad3 DNA repair heli 96.4 0.012 2.6E-07 77.1 10.4 103 250-360 11-116 (705)
93 PRK10689 transcription-repair 96.4 0.0063 1.4E-07 82.7 8.1 81 242-323 593-673 (1147)
94 PRK01172 ski2-like helicase; P 96.3 0.0098 2.1E-07 77.5 9.3 68 247-321 20-87 (674)
95 PF00004 AAA: ATPase family as 96.3 0.0025 5.5E-08 64.2 3.1 22 274-295 1-22 (132)
96 PF13401 AAA_22: AAA domain; P 96.3 0.0038 8.2E-08 63.2 4.1 54 271-324 4-63 (131)
97 PRK11192 ATP-dependent RNA hel 96.3 0.012 2.7E-07 72.5 9.3 69 248-323 22-97 (434)
98 PF05496 RuvB_N: Holliday junc 96.3 0.0029 6.4E-08 70.2 3.3 25 269-293 48-72 (233)
99 PRK06851 hypothetical protein; 96.2 0.0041 8.8E-08 74.4 4.7 46 271-316 30-77 (367)
100 PF06745 KaiC: KaiC; InterPro 96.2 0.0069 1.5E-07 67.8 6.2 51 271-322 19-70 (226)
101 PRK04195 replication factor C 96.2 0.014 2.9E-07 73.2 9.4 68 238-308 4-73 (482)
102 PF05673 DUF815: Protein of un 96.2 0.0084 1.8E-07 67.4 6.6 58 252-309 33-90 (249)
103 KOG0744 AAA+-type ATPase [Post 96.2 0.003 6.6E-08 72.3 3.1 26 271-296 177-202 (423)
104 cd01129 PulE-GspE PulE/GspE Th 96.2 0.0085 1.8E-07 69.0 6.8 53 249-306 63-115 (264)
105 TIGR03878 thermo_KaiC_2 KaiC d 96.2 0.0074 1.6E-07 69.3 6.3 50 271-321 36-85 (259)
106 PRK00411 cdc6 cell division co 96.2 0.0085 1.9E-07 72.7 7.1 49 251-299 35-83 (394)
107 PRK12402 replication factor C 96.2 0.0041 8.9E-08 73.6 4.1 58 237-298 4-63 (337)
108 TIGR01074 rep ATP-dependent DN 96.1 0.0022 4.8E-08 83.3 1.9 67 249-324 1-71 (664)
109 PF13481 AAA_25: AAA domain; P 96.1 0.011 2.3E-07 64.3 7.0 52 271-323 32-93 (193)
110 TIGR01054 rgy reverse gyrase. 96.1 0.015 3.3E-07 79.4 9.6 71 247-324 76-146 (1171)
111 cd01120 RecA-like_NTPases RecA 96.1 0.0084 1.8E-07 62.3 5.7 41 273-313 1-41 (165)
112 PRK00440 rfc replication facto 96.1 0.0072 1.6E-07 70.9 5.6 59 237-299 6-66 (319)
113 PF00448 SRP54: SRP54-type pro 96.1 0.0062 1.4E-07 67.0 4.7 45 272-316 2-49 (196)
114 TIGR00064 ftsY signal recognit 96.1 0.011 2.4E-07 68.4 6.9 46 271-316 72-120 (272)
115 KOG1920 IkappaB kinase complex 96.0 0.0086 1.9E-07 78.0 6.4 83 936-1018 952-1050(1265)
116 PRK13833 conjugal transfer pro 96.0 0.011 2.4E-07 69.8 6.9 51 249-305 128-180 (323)
117 PRK05973 replicative DNA helic 96.0 0.011 2.4E-07 66.8 6.5 52 270-322 63-114 (237)
118 PRK09401 reverse gyrase; Revie 96.0 0.018 3.9E-07 78.6 9.6 72 247-325 78-149 (1176)
119 PRK06835 DNA replication prote 96.0 0.0077 1.7E-07 71.4 5.2 37 271-307 183-219 (329)
120 PRK11634 ATP-dependent RNA hel 96.0 0.021 4.5E-07 73.6 9.4 70 248-324 27-99 (629)
121 PRK00254 ski2-like helicase; P 96.0 0.018 3.9E-07 75.6 9.1 68 248-321 22-90 (720)
122 PRK04296 thymidine kinase; Pro 95.9 0.0084 1.8E-07 65.6 5.0 36 272-307 3-38 (190)
123 TIGR03877 thermo_KaiC_1 KaiC d 95.9 0.012 2.5E-07 66.8 6.1 51 270-321 20-70 (237)
124 TIGR02881 spore_V_K stage V sp 95.9 0.0071 1.5E-07 69.5 4.4 29 270-298 41-69 (261)
125 COG1061 SSL2 DNA or RNA helica 95.9 0.021 4.5E-07 70.7 8.7 73 245-323 32-104 (442)
126 PRK02362 ski2-like helicase; P 95.9 0.02 4.2E-07 75.5 9.0 68 248-321 22-89 (737)
127 TIGR02533 type_II_gspE general 95.9 0.011 2.5E-07 73.6 6.2 54 247-305 223-276 (486)
128 cd03115 SRP The signal recogni 95.9 0.01 2.2E-07 63.6 5.0 34 273-306 2-35 (173)
129 TIGR01650 PD_CobS cobaltochela 95.9 0.011 2.4E-07 69.4 5.8 43 247-295 46-88 (327)
130 TIGR03420 DnaA_homol_Hda DnaA 95.9 0.013 2.9E-07 65.2 6.3 42 269-310 36-77 (226)
131 PRK08533 flagellar accessory p 95.8 0.016 3.4E-07 65.5 6.7 49 271-320 24-72 (230)
132 PRK10436 hypothetical protein; 95.8 0.014 3E-07 72.2 6.6 52 248-304 200-251 (462)
133 PRK08939 primosomal protein Dn 95.8 0.017 3.7E-07 67.9 6.9 37 271-307 156-192 (306)
134 TIGR02782 TrbB_P P-type conjug 95.8 0.018 3.8E-07 67.6 7.0 53 249-307 116-170 (299)
135 PRK08903 DnaA regulatory inact 95.8 0.019 4E-07 64.4 7.0 56 250-308 24-79 (227)
136 PRK14962 DNA polymerase III su 95.8 0.01 2.2E-07 73.7 5.2 26 272-297 37-62 (472)
137 PRK06921 hypothetical protein; 95.8 0.011 2.4E-07 68.1 5.2 37 271-307 117-154 (266)
138 PRK08727 hypothetical protein; 95.7 0.019 4.2E-07 64.9 7.0 37 271-307 41-77 (233)
139 PRK04837 ATP-dependent RNA hel 95.7 0.03 6.4E-07 68.9 9.2 69 248-323 29-107 (423)
140 cd01122 GP4d_helicase GP4d_hel 95.7 0.017 3.8E-07 66.4 6.7 51 271-322 30-81 (271)
141 PRK11448 hsdR type I restricti 95.7 0.025 5.5E-07 76.8 9.1 72 248-321 412-485 (1123)
142 PRK13894 conjugal transfer ATP 95.7 0.018 4E-07 68.0 6.9 55 249-309 132-188 (319)
143 PRK13342 recombination factor 95.7 0.018 4E-07 70.6 7.1 47 269-318 34-80 (413)
144 PRK10416 signal recognition pa 95.7 0.013 2.9E-07 69.2 5.4 37 270-306 113-149 (318)
145 TIGR02640 gas_vesic_GvpN gas v 95.7 0.02 4.3E-07 65.9 6.7 42 251-295 4-45 (262)
146 PF03215 Rad17: Rad17 cell cyc 95.6 0.013 2.8E-07 73.4 5.4 61 235-295 6-69 (519)
147 PRK05642 DNA replication initi 95.6 0.014 3.1E-07 65.9 5.3 36 272-307 46-81 (234)
148 PF07728 AAA_5: AAA domain (dy 95.6 0.014 3E-07 60.1 4.6 22 274-295 2-23 (139)
149 PRK14963 DNA polymerase III su 95.6 0.04 8.6E-07 69.1 9.5 43 254-297 19-62 (504)
150 smart00488 DEXDc2 DEAD-like he 95.6 0.043 9.3E-07 64.1 9.2 70 249-321 8-83 (289)
151 smart00489 DEXDc3 DEAD-like he 95.6 0.043 9.3E-07 64.1 9.2 70 249-321 8-83 (289)
152 cd00984 DnaB_C DnaB helicase C 95.6 0.023 4.9E-07 64.2 6.7 50 271-321 13-63 (242)
153 TIGR03880 KaiC_arch_3 KaiC dom 95.6 0.022 4.7E-07 63.8 6.5 51 271-322 16-66 (224)
154 PRK10590 ATP-dependent RNA hel 95.6 0.038 8.3E-07 68.7 9.2 69 248-323 22-99 (456)
155 TIGR01425 SRP54_euk signal rec 95.5 0.015 3.3E-07 70.8 5.5 45 271-315 100-147 (429)
156 PRK00771 signal recognition pa 95.5 0.015 3.2E-07 71.5 5.4 38 270-307 94-131 (437)
157 PRK10867 signal recognition pa 95.5 0.014 3.1E-07 71.5 5.2 37 271-307 100-137 (433)
158 PRK09361 radB DNA repair and r 95.5 0.016 3.5E-07 64.8 5.3 38 271-308 23-60 (225)
159 cd01131 PilT Pilus retraction 95.5 0.016 3.5E-07 63.8 5.0 35 272-306 2-37 (198)
160 COG0467 RAD55 RecA-superfamily 95.5 0.017 3.6E-07 66.4 5.2 41 271-311 23-63 (260)
161 PRK13341 recombination factor 95.4 0.018 4E-07 74.8 6.1 27 269-295 50-76 (725)
162 TIGR02397 dnaX_nterm DNA polym 95.4 0.012 2.6E-07 70.3 4.1 59 238-297 4-62 (355)
163 KOG2108 3'-5' DNA helicase [Re 95.4 0.018 3.9E-07 73.5 5.6 53 775-827 675-740 (853)
164 PRK06067 flagellar accessory p 95.4 0.028 6.1E-07 63.3 6.8 51 270-321 24-74 (234)
165 PRK14961 DNA polymerase III su 95.4 0.017 3.6E-07 69.7 5.2 44 253-296 20-63 (363)
166 PF00308 Bac_DnaA: Bacterial d 95.4 0.056 1.2E-06 60.6 8.9 35 272-306 35-71 (219)
167 PRK14088 dnaA chromosomal repl 95.4 0.029 6.2E-07 69.4 7.1 57 251-307 110-168 (440)
168 PF13173 AAA_14: AAA domain 95.4 0.036 7.8E-07 56.5 6.7 46 270-316 1-46 (128)
169 cd01394 radB RadB. The archaea 95.4 0.019 4.1E-07 63.9 5.1 36 271-306 19-54 (218)
170 COG2805 PilT Tfp pilus assembl 95.3 0.018 3.9E-07 65.9 4.8 37 269-305 123-160 (353)
171 PRK05896 DNA polymerase III su 95.3 0.019 4.1E-07 72.6 5.4 60 238-298 6-65 (605)
172 TIGR02237 recomb_radB DNA repa 95.3 0.021 4.6E-07 63.0 5.1 39 271-309 12-50 (209)
173 TIGR00348 hsdR type I site-spe 95.3 0.041 8.9E-07 71.5 8.4 73 250-322 239-316 (667)
174 TIGR02538 type_IV_pilB type IV 95.3 0.028 6.1E-07 71.6 6.8 53 247-304 297-349 (564)
175 COG1198 PriA Primosomal protei 95.2 0.065 1.4E-06 69.2 9.9 75 247-324 196-270 (730)
176 TIGR03499 FlhF flagellar biosy 95.2 0.032 6.8E-07 65.0 6.6 38 270-307 193-232 (282)
177 PRK14701 reverse gyrase; Provi 95.2 0.047 1E-06 76.5 9.2 70 248-324 78-147 (1638)
178 TIGR03015 pepcterm_ATPase puta 95.2 0.037 8.1E-07 63.4 7.1 44 251-296 25-68 (269)
179 PF14938 SNAP: Soluble NSF att 95.2 0.028 6.1E-07 65.3 6.1 185 894-1114 29-228 (282)
180 PF13207 AAA_17: AAA domain; P 95.2 0.016 3.5E-07 57.9 3.6 23 273-295 1-23 (121)
181 KOG0743 AAA+-type ATPase [Post 95.2 0.01 2.2E-07 71.4 2.3 50 246-295 201-259 (457)
182 TIGR00362 DnaA chromosomal rep 95.2 0.036 7.8E-07 67.8 7.3 56 252-307 116-174 (405)
183 CHL00181 cbbX CbbX; Provisiona 95.2 0.02 4.2E-07 66.9 4.7 38 271-308 59-100 (287)
184 TIGR02880 cbbX_cfxQ probable R 95.2 0.018 4E-07 67.0 4.4 28 272-299 59-86 (284)
185 PRK04328 hypothetical protein; 95.2 0.034 7.4E-07 63.5 6.5 51 270-321 22-72 (249)
186 COG1474 CDC6 Cdc6-related prot 95.2 0.027 5.9E-07 67.8 5.9 75 248-322 19-96 (366)
187 COG2804 PulE Type II secretory 95.2 0.037 7.9E-07 67.8 6.9 52 248-304 240-291 (500)
188 PF06309 Torsin: Torsin; Inte 95.1 0.035 7.5E-07 56.5 5.7 27 273-299 55-81 (127)
189 PRK04537 ATP-dependent RNA hel 95.1 0.06 1.3E-06 68.8 9.3 69 248-323 30-108 (572)
190 COG0552 FtsY Signal recognitio 95.1 0.023 5E-07 66.2 5.0 47 269-315 137-186 (340)
191 PRK00080 ruvB Holliday junctio 95.1 0.026 5.6E-07 67.1 5.6 44 252-295 31-75 (328)
192 PHA02653 RNA helicase NPH-II; 95.1 0.053 1.1E-06 70.1 8.6 53 271-323 179-246 (675)
193 TIGR03881 KaiC_arch_4 KaiC dom 95.1 0.042 9.2E-07 61.6 6.8 47 271-318 20-66 (229)
194 TIGR01587 cas3_core CRISPR-ass 95.1 0.037 7.9E-07 66.4 6.6 50 274-323 2-53 (358)
195 TIGR00635 ruvB Holliday juncti 95.0 0.026 5.6E-07 66.1 5.2 26 270-295 29-54 (305)
196 cd01130 VirB11-like_ATPase Typ 95.0 0.035 7.7E-07 60.4 5.9 51 248-305 8-58 (186)
197 TIGR02655 circ_KaiC circadian 95.0 0.03 6.5E-07 70.1 6.0 51 271-322 263-313 (484)
198 PRK14956 DNA polymerase III su 95.0 0.024 5.2E-07 69.8 5.0 57 240-297 10-66 (484)
199 TIGR00959 ffh signal recogniti 95.0 0.027 5.8E-07 69.1 5.3 37 271-307 99-136 (428)
200 PRK00149 dnaA chromosomal repl 95.0 0.05 1.1E-06 67.5 7.8 56 252-307 128-186 (450)
201 PTZ00112 origin recognition co 95.0 0.03 6.4E-07 72.2 5.7 48 250-297 759-807 (1164)
202 PRK06645 DNA polymerase III su 95.0 0.026 5.7E-07 70.5 5.2 59 238-297 11-69 (507)
203 PF13671 AAA_33: AAA domain; P 95.0 0.016 3.5E-07 59.6 2.9 23 273-295 1-23 (143)
204 TIGR03158 cas3_cyano CRISPR-as 95.0 0.071 1.5E-06 64.2 8.8 63 254-324 2-64 (357)
205 PRK14964 DNA polymerase III su 95.0 0.049 1.1E-06 67.8 7.4 51 269-319 33-105 (491)
206 TIGR02012 tigrfam_recA protein 94.9 0.043 9.3E-07 64.8 6.5 41 271-311 55-95 (321)
207 PRK13767 ATP-dependent helicas 94.9 0.068 1.5E-06 71.6 9.2 68 249-323 32-108 (876)
208 smart00763 AAA_PrkA PrkA AAA d 94.9 0.028 6E-07 66.9 4.9 50 247-296 53-103 (361)
209 COG0470 HolB ATPase involved i 94.9 0.034 7.4E-07 65.3 5.8 43 270-312 22-86 (325)
210 PRK11889 flhF flagellar biosyn 94.9 0.044 9.5E-07 65.8 6.5 47 270-316 240-289 (436)
211 TIGR00603 rad25 DNA repair hel 94.9 0.072 1.6E-06 68.9 9.0 69 247-322 253-321 (732)
212 cd01983 Fer4_NifH The Fer4_Nif 94.8 0.039 8.5E-07 51.9 4.9 33 274-306 2-34 (99)
213 PF05729 NACHT: NACHT domain 94.8 0.027 5.8E-07 58.9 4.1 27 273-299 2-28 (166)
214 PF07726 AAA_3: ATPase family 94.8 0.013 2.9E-07 59.6 1.6 23 273-295 1-23 (131)
215 PF00437 T2SE: Type II/IV secr 94.8 0.03 6.6E-07 64.5 4.8 38 271-308 127-164 (270)
216 PRK13768 GTPase; Provisional 94.8 0.032 7E-07 63.9 4.9 35 272-306 3-37 (253)
217 PRK13531 regulatory ATPase Rav 94.8 0.028 6.2E-07 69.1 4.6 41 254-297 25-65 (498)
218 TIGR00595 priA primosomal prot 94.8 0.036 7.9E-07 69.6 5.7 48 275-322 1-48 (505)
219 TIGR01242 26Sp45 26S proteasom 94.8 0.037 8E-07 66.8 5.6 25 271-295 156-180 (364)
220 PRK14970 DNA polymerase III su 94.7 0.022 4.8E-07 68.6 3.7 56 241-297 10-65 (367)
221 TIGR00150 HI0065_YjeE ATPase, 94.7 0.058 1.3E-06 55.7 6.1 54 251-309 4-57 (133)
222 TIGR01967 DEAH_box_HrpA ATP-de 94.7 0.061 1.3E-06 73.3 7.9 66 254-325 71-137 (1283)
223 PRK14957 DNA polymerase III su 94.7 0.033 7.1E-07 70.2 5.2 45 253-297 20-64 (546)
224 PRK14722 flhF flagellar biosyn 94.7 0.037 8E-07 66.6 5.3 39 269-307 135-175 (374)
225 PRK12422 chromosomal replicati 94.7 0.056 1.2E-06 66.8 7.0 37 272-308 142-178 (445)
226 PRK07764 DNA polymerase III su 94.7 0.2 4.3E-06 66.3 12.2 27 271-297 37-63 (824)
227 TIGR00750 lao LAO/AO transport 94.6 0.04 8.6E-07 64.7 5.4 38 269-306 32-69 (300)
228 PRK03992 proteasome-activating 94.6 0.042 9.2E-07 66.9 5.6 25 271-295 165-189 (389)
229 cd00983 recA RecA is a bacter 94.6 0.058 1.2E-06 63.8 6.5 42 271-312 55-96 (325)
230 PRK14960 DNA polymerase III su 94.6 0.058 1.3E-06 68.6 6.8 44 254-297 20-63 (702)
231 PF03308 ArgK: ArgK protein; 94.5 0.066 1.4E-06 60.7 6.5 51 254-306 14-64 (266)
232 PRK11823 DNA repair protein Ra 94.5 0.055 1.2E-06 67.0 6.4 50 271-321 80-129 (446)
233 PF03205 MobB: Molybdopterin g 94.5 0.047 1E-06 56.9 4.9 38 272-309 1-38 (140)
234 PHA00729 NTP-binding motif con 94.5 0.029 6.2E-07 62.8 3.5 26 271-296 17-42 (226)
235 PF02492 cobW: CobW/HypB/UreG, 94.5 0.042 9.2E-07 59.4 4.7 41 272-313 1-43 (178)
236 PRK12724 flagellar biosynthesi 94.5 0.045 9.7E-07 66.5 5.2 37 271-307 223-260 (432)
237 PRK01297 ATP-dependent RNA hel 94.5 0.11 2.4E-06 64.9 9.1 69 248-323 108-186 (475)
238 cd01121 Sms Sms (bacterial rad 94.5 0.063 1.4E-06 64.8 6.5 50 271-321 82-131 (372)
239 TIGR02525 plasmid_TraJ plasmid 94.5 0.07 1.5E-06 64.4 6.9 35 271-305 149-185 (372)
240 PRK14955 DNA polymerase III su 94.5 0.041 8.8E-07 67.2 5.0 27 271-297 38-64 (397)
241 TIGR01420 pilT_fam pilus retra 94.5 0.036 7.8E-07 66.3 4.5 37 270-306 121-158 (343)
242 PRK06851 hypothetical protein; 94.4 0.047 1E-06 65.5 5.2 45 271-315 214-260 (367)
243 PRK12323 DNA polymerase III su 94.4 0.068 1.5E-06 67.8 6.8 29 269-297 36-64 (700)
244 PRK00889 adenylylsulfate kinas 94.4 0.056 1.2E-06 58.0 5.4 37 269-305 2-38 (175)
245 PRK14958 DNA polymerase III su 94.4 0.07 1.5E-06 67.1 7.0 27 271-297 38-64 (509)
246 COG1703 ArgK Putative periplas 94.4 0.089 1.9E-06 60.6 7.1 40 267-306 47-86 (323)
247 PRK06696 uridine kinase; Valid 94.4 0.074 1.6E-06 59.7 6.5 38 269-306 20-57 (223)
248 PRK11331 5-methylcytosine-spec 94.4 0.054 1.2E-06 66.2 5.6 42 249-296 178-219 (459)
249 cd02019 NK Nucleoside/nucleoti 94.3 0.058 1.3E-06 49.1 4.5 30 274-305 2-31 (69)
250 PRK12726 flagellar biosynthesi 94.3 0.054 1.2E-06 64.8 5.4 46 270-315 205-253 (407)
251 PRK05703 flhF flagellar biosyn 94.3 0.05 1.1E-06 66.9 5.2 37 271-307 221-259 (424)
252 COG0714 MoxR-like ATPases [Gen 94.2 0.077 1.7E-06 63.1 6.6 58 251-315 29-86 (329)
253 COG4098 comFA Superfamily II D 94.2 0.12 2.5E-06 60.1 7.5 74 248-324 96-169 (441)
254 PRK12723 flagellar biosynthesi 94.2 0.052 1.1E-06 65.7 5.1 45 270-314 173-224 (388)
255 PTZ00110 helicase; Provisional 94.2 0.14 3E-06 65.2 9.1 69 247-322 150-226 (545)
256 PRK06620 hypothetical protein; 94.2 0.055 1.2E-06 60.5 4.9 21 272-292 45-65 (214)
257 PF13238 AAA_18: AAA domain; P 94.2 0.039 8.5E-07 55.3 3.4 22 274-295 1-22 (129)
258 COG1643 HrpA HrpA-like helicas 94.2 0.14 3.1E-06 67.2 9.2 68 253-326 53-121 (845)
259 PF01078 Mg_chelatase: Magnesi 94.2 0.058 1.3E-06 59.5 4.9 32 253-290 10-41 (206)
260 PRK09435 membrane ATPase/prote 94.2 0.06 1.3E-06 63.9 5.4 38 269-306 54-91 (332)
261 TIGR02655 circ_KaiC circadian 94.1 0.064 1.4E-06 67.2 5.9 51 270-321 20-71 (484)
262 PLN00206 DEAD-box ATP-dependen 94.1 0.14 3E-06 64.8 8.9 68 248-322 142-219 (518)
263 PF00910 RNA_helicase: RNA hel 94.1 0.045 9.7E-07 54.2 3.5 24 275-298 2-25 (107)
264 PF13177 DNA_pol3_delta2: DNA 94.1 0.23 4.9E-06 53.1 9.1 46 254-299 2-47 (162)
265 PRK14087 dnaA chromosomal repl 94.1 0.13 2.8E-06 63.8 8.4 45 272-317 142-188 (450)
266 COG1110 Reverse gyrase [DNA re 94.1 0.17 3.7E-06 65.9 9.3 72 247-325 80-151 (1187)
267 PF03266 NTPase_1: NTPase; In 94.1 0.051 1.1E-06 58.4 4.2 28 274-301 2-29 (168)
268 PRK14951 DNA polymerase III su 94.0 0.039 8.5E-07 70.4 3.7 56 241-297 9-64 (618)
269 cd00544 CobU Adenosylcobinamid 94.0 0.075 1.6E-06 57.2 5.3 50 273-325 1-50 (169)
270 PRK05541 adenylylsulfate kinas 94.0 0.083 1.8E-06 56.8 5.7 37 269-305 5-41 (176)
271 PHA02244 ATPase-like protein 94.0 0.069 1.5E-06 63.7 5.5 24 271-294 119-142 (383)
272 cd03114 ArgK-like The function 94.0 0.066 1.4E-06 56.3 4.7 33 274-306 2-34 (148)
273 KOG0651 26S proteasome regulat 94.0 0.042 9.1E-07 63.1 3.4 24 270-293 165-188 (388)
274 PF12846 AAA_10: AAA-like doma 94.0 0.065 1.4E-06 61.9 5.1 43 271-313 1-43 (304)
275 TIGR00614 recQ_fam ATP-depende 93.9 0.14 3E-06 64.0 8.3 64 248-321 10-73 (470)
276 PTZ00361 26 proteosome regulat 93.9 0.078 1.7E-06 65.3 5.8 25 271-295 217-241 (438)
277 TIGR00176 mobB molybdopterin-g 93.9 0.074 1.6E-06 56.4 4.9 36 273-308 1-36 (155)
278 PRK14953 DNA polymerase III su 93.9 0.049 1.1E-06 68.0 4.1 56 241-297 9-64 (486)
279 PRK09694 helicase Cas3; Provis 93.8 0.15 3.3E-06 67.6 8.7 72 247-325 284-357 (878)
280 PF04665 Pox_A32: Poxvirus A32 93.8 0.063 1.4E-06 60.8 4.4 36 273-308 15-50 (241)
281 TIGR00416 sms DNA repair prote 93.8 0.099 2.2E-06 64.9 6.5 50 271-321 94-143 (454)
282 COG2255 RuvB Holliday junction 93.8 0.094 2E-06 59.8 5.7 29 267-295 48-76 (332)
283 PRK09302 circadian clock prote 93.7 0.1 2.2E-06 65.8 6.7 50 271-321 273-322 (509)
284 PRK14949 DNA polymerase III su 93.7 0.062 1.3E-06 70.3 4.6 29 270-298 36-65 (944)
285 cd01125 repA Hexameric Replica 93.7 0.12 2.7E-06 58.4 6.7 53 272-325 2-66 (239)
286 PRK09354 recA recombinase A; P 93.7 0.11 2.4E-06 61.9 6.4 42 271-312 60-101 (349)
287 COG5192 BMS1 GTP-binding prote 93.6 0.068 1.5E-06 64.7 4.4 29 270-298 67-96 (1077)
288 cd01393 recA_like RecA is a b 93.6 0.094 2E-06 58.5 5.5 40 271-310 19-64 (226)
289 PRK13764 ATPase; Provisional 93.6 0.076 1.6E-06 67.5 5.1 34 271-304 257-290 (602)
290 PRK14969 DNA polymerase III su 93.5 0.076 1.6E-06 67.1 5.0 27 271-297 38-64 (527)
291 PRK07667 uridine kinase; Provi 93.5 0.099 2.2E-06 57.3 5.3 39 271-309 17-55 (193)
292 KOG1538 Uncharacterized conser 93.5 0.11 2.3E-06 64.0 5.9 80 938-1017 647-796 (1081)
293 COG0210 UvrD Superfamily I DNA 93.5 0.02 4.2E-07 74.5 -0.4 67 249-324 2-72 (655)
294 TIGR02524 dot_icm_DotB Dot/Icm 93.5 0.088 1.9E-06 63.3 5.2 35 270-304 133-170 (358)
295 PRK05800 cobU adenosylcobinami 93.4 0.11 2.3E-06 56.0 5.2 50 273-325 3-52 (170)
296 TIGR01360 aden_kin_iso1 adenyl 93.4 0.069 1.5E-06 57.6 3.8 25 271-295 3-27 (188)
297 PRK13900 type IV secretion sys 93.4 0.11 2.4E-06 61.8 5.8 44 255-305 150-193 (332)
298 PRK08451 DNA polymerase III su 93.4 0.063 1.4E-06 67.4 3.8 56 241-297 7-62 (535)
299 PRK06762 hypothetical protein; 93.4 0.13 2.7E-06 54.7 5.7 33 271-306 2-34 (166)
300 PRK14952 DNA polymerase III su 93.3 0.084 1.8E-06 67.2 4.9 43 254-297 18-61 (584)
301 TIGR03689 pup_AAA proteasome A 93.3 0.061 1.3E-06 67.2 3.5 61 61-129 23-93 (512)
302 PRK14948 DNA polymerase III su 93.3 0.078 1.7E-06 68.1 4.5 56 241-297 9-64 (620)
303 PF03029 ATP_bind_1: Conserved 93.2 0.068 1.5E-06 60.7 3.5 30 276-305 1-30 (238)
304 PLN00020 ribulose bisphosphate 93.2 0.063 1.4E-06 63.8 3.3 33 271-306 148-180 (413)
305 COG1618 Predicted nucleotide k 93.2 0.091 2E-06 55.4 4.0 29 274-302 8-36 (179)
306 PF13555 AAA_29: P-loop contai 93.2 0.094 2E-06 46.9 3.6 28 272-299 24-51 (62)
307 PRK13851 type IV secretion sys 93.2 0.12 2.6E-06 61.8 5.6 51 251-308 148-198 (344)
308 PF00931 NB-ARC: NB-ARC domain 93.2 0.15 3.1E-06 59.0 6.2 69 253-323 3-74 (287)
309 PRK11057 ATP-dependent DNA hel 93.1 0.21 4.7E-06 64.3 8.3 64 248-321 24-87 (607)
310 KOG1586 Protein required for f 93.1 0.1 2.2E-06 57.8 4.5 150 893-1050 27-203 (288)
311 PTZ00454 26S protease regulato 93.0 0.072 1.6E-06 65.0 3.6 24 271-294 179-202 (398)
312 TIGR01359 UMP_CMP_kin_fam UMP- 93.0 0.07 1.5E-06 57.5 3.2 23 273-295 1-23 (183)
313 PRK14954 DNA polymerase III su 93.0 0.099 2.1E-06 67.0 4.9 44 254-297 21-64 (620)
314 PRK11131 ATP-dependent RNA hel 93.0 0.21 4.7E-06 68.1 8.2 66 254-325 78-144 (1294)
315 PRK06305 DNA polymerase III su 93.0 0.1 2.3E-06 64.7 5.0 45 254-298 22-66 (451)
316 PRK08233 hypothetical protein; 93.0 0.073 1.6E-06 57.1 3.2 25 271-295 3-27 (182)
317 KOG1533 Predicted GTPase [Gene 93.0 0.079 1.7E-06 58.7 3.3 38 274-311 5-44 (290)
318 PRK14965 DNA polymerase III su 92.9 0.19 4E-06 64.4 7.2 27 271-297 38-64 (576)
319 PRK13407 bchI magnesium chelat 92.9 0.11 2.5E-06 61.7 5.0 41 254-295 13-53 (334)
320 COG4088 Predicted nucleotide k 92.9 0.092 2E-06 57.3 3.7 33 272-304 2-34 (261)
321 PRK00131 aroK shikimate kinase 92.9 0.096 2.1E-06 55.6 4.0 25 271-295 4-28 (175)
322 PRK07133 DNA polymerase III su 92.9 0.11 2.3E-06 67.2 5.0 57 241-298 11-67 (725)
323 TIGR00602 rad24 checkpoint pro 92.8 0.13 2.7E-06 66.1 5.5 60 236-295 72-134 (637)
324 PF06068 TIP49: TIP49 C-termin 92.8 0.12 2.6E-06 61.3 4.9 43 254-296 32-75 (398)
325 PRK06647 DNA polymerase III su 92.8 0.11 2.3E-06 66.2 4.8 45 254-298 21-65 (563)
326 TIGR01407 dinG_rel DnaQ family 92.8 0.31 6.8E-06 65.3 9.4 76 246-324 242-317 (850)
327 PRK09302 circadian clock prote 92.8 0.16 3.5E-06 64.1 6.4 52 270-322 30-82 (509)
328 PRK10865 protein disaggregatio 92.8 0.16 3.5E-06 67.8 6.7 34 272-305 599-632 (857)
329 cd02028 UMPK_like Uridine mono 92.8 0.13 2.8E-06 55.8 4.8 33 273-305 1-33 (179)
330 PRK13766 Hef nuclease; Provisi 92.8 0.26 5.6E-06 65.5 8.6 67 249-323 15-82 (773)
331 PRK10751 molybdopterin-guanine 92.7 0.15 3.4E-06 54.9 5.2 40 270-309 5-44 (173)
332 TIGR03574 selen_PSTK L-seryl-t 92.7 0.13 2.8E-06 58.7 4.8 33 273-305 1-33 (249)
333 TIGR03817 DECH_helic helicase/ 92.7 0.32 7E-06 64.1 9.1 69 248-323 35-105 (742)
334 CHL00176 ftsH cell division pr 92.6 0.12 2.7E-06 66.4 5.0 35 271-308 216-250 (638)
335 PRK07994 DNA polymerase III su 92.5 0.13 2.8E-06 66.0 5.0 27 272-298 39-65 (647)
336 cd02034 CooC The accessory pro 92.5 0.17 3.7E-06 51.0 4.9 44 274-320 2-45 (116)
337 cd02027 APSK Adenosine 5'-phos 92.5 0.16 3.4E-06 53.4 4.8 32 273-304 1-32 (149)
338 PF05127 Helicase_RecD: Helica 92.5 0.035 7.7E-07 59.9 -0.1 47 275-321 1-48 (177)
339 PRK14086 dnaA chromosomal repl 92.5 0.45 9.7E-06 60.6 9.5 36 272-307 315-352 (617)
340 COG1102 Cmk Cytidylate kinase 92.5 0.097 2.1E-06 55.2 3.1 22 274-295 3-24 (179)
341 cd02021 GntK Gluconate kinase 92.5 0.09 1.9E-06 54.8 2.9 22 273-294 1-22 (150)
342 PRK07940 DNA polymerase III su 92.5 0.14 3.1E-06 62.3 5.0 28 271-298 36-63 (394)
343 PRK09111 DNA polymerase III su 92.4 0.13 2.8E-06 65.8 4.8 59 239-298 15-73 (598)
344 COG1222 RPT1 ATP-dependent 26S 92.4 0.094 2E-06 61.5 3.2 22 271-292 185-206 (406)
345 PRK05342 clpX ATP-dependent pr 92.4 0.17 3.6E-06 62.0 5.5 25 271-295 108-132 (412)
346 TIGR00041 DTMP_kinase thymidyl 92.3 0.17 3.7E-06 55.1 5.1 35 272-306 4-38 (195)
347 PRK08058 DNA polymerase III su 92.3 0.36 7.9E-06 57.5 8.2 45 254-298 11-55 (329)
348 PF01580 FtsK_SpoIIIE: FtsK/Sp 92.3 0.13 2.9E-06 56.6 4.3 39 271-309 38-80 (205)
349 PRK08118 topology modulation p 92.3 0.11 2.3E-06 55.8 3.3 22 274-295 4-25 (167)
350 PRK14527 adenylate kinase; Pro 92.3 0.12 2.7E-06 56.3 3.9 26 270-295 5-30 (191)
351 PF13521 AAA_28: AAA domain; P 92.3 0.092 2E-06 55.7 2.8 21 274-294 2-22 (163)
352 PHA02624 large T antigen; Prov 92.3 0.15 3.3E-06 64.1 4.9 49 247-295 406-455 (647)
353 TIGR00390 hslU ATP-dependent p 92.3 0.16 3.6E-06 61.5 5.1 25 271-295 47-71 (441)
354 COG0378 HypB Ni2+-binding GTPa 92.2 0.13 2.8E-06 55.9 3.8 34 273-307 15-48 (202)
355 PRK07003 DNA polymerase III su 92.2 0.15 3.4E-06 65.6 5.1 27 271-297 38-64 (830)
356 COG1936 Predicted nucleotide k 92.2 0.1 2.2E-06 55.8 2.9 20 273-292 2-21 (180)
357 TIGR03600 phage_DnaB phage rep 92.2 0.24 5.3E-06 61.0 6.7 52 270-322 193-245 (421)
358 COG1223 Predicted ATPase (AAA+ 92.2 0.1 2.2E-06 58.6 2.9 51 271-324 151-204 (368)
359 PRK08691 DNA polymerase III su 92.2 0.16 3.4E-06 65.3 5.0 28 271-298 38-65 (709)
360 PRK05707 DNA polymerase III su 92.1 0.49 1.1E-05 56.4 8.9 72 271-352 22-118 (328)
361 cd01123 Rad51_DMC1_radA Rad51_ 92.1 0.14 3E-06 57.5 4.1 40 270-309 18-63 (235)
362 PRK14493 putative bifunctional 92.1 0.18 3.8E-06 58.5 5.0 34 272-306 2-35 (274)
363 TIGR03117 cas_csf4 CRISPR-asso 92.1 0.44 9.4E-06 61.2 8.8 53 271-323 16-70 (636)
364 TIGR01241 FtsH_fam ATP-depende 92.1 0.11 2.4E-06 65.3 3.6 35 271-308 88-122 (495)
365 PRK06995 flhF flagellar biosyn 92.0 0.18 3.9E-06 62.6 5.3 37 270-306 255-293 (484)
366 PRK14950 DNA polymerase III su 92.0 0.16 3.4E-06 65.3 4.9 27 271-297 38-64 (585)
367 PRK05480 uridine/cytidine kina 92.0 0.19 4.2E-06 55.6 5.0 26 270-295 5-30 (209)
368 KOG0952 DNA/RNA helicase MER3/ 92.0 0.31 6.7E-06 63.7 7.3 70 248-323 109-188 (1230)
369 cd02025 PanK Pantothenate kina 92.0 0.17 3.7E-06 56.8 4.6 34 274-307 2-37 (220)
370 PRK05439 pantothenate kinase; 92.0 0.32 6.9E-06 57.3 7.0 38 269-306 84-123 (311)
371 PRK06547 hypothetical protein; 91.9 0.2 4.2E-06 54.2 4.7 26 269-294 13-38 (172)
372 cd01672 TMPK Thymidine monopho 91.8 0.21 4.6E-06 54.0 5.1 34 273-306 2-35 (200)
373 KOG0990 Replication factor C, 91.8 0.081 1.8E-06 61.2 1.8 61 235-297 28-88 (360)
374 TIGR00455 apsK adenylylsulfate 91.8 0.25 5.5E-06 53.5 5.6 38 269-306 16-53 (184)
375 cd02023 UMPK Uridine monophosp 91.8 0.18 3.9E-06 55.3 4.4 32 273-306 1-32 (198)
376 cd00550 ArsA_ATPase Oxyanion-t 91.8 0.19 4E-06 57.7 4.7 35 273-307 2-36 (254)
377 TIGR00665 DnaB replicative DNA 91.8 0.28 6.2E-06 60.6 6.7 52 270-322 194-246 (434)
378 PRK04040 adenylate kinase; Pro 91.8 0.14 3E-06 56.1 3.5 24 272-295 3-26 (188)
379 PRK09112 DNA polymerase III su 91.7 0.2 4.3E-06 60.2 5.1 45 254-298 28-72 (351)
380 PRK14712 conjugal transfer nic 91.7 0.42 9.2E-06 66.6 8.7 66 248-318 280-346 (1623)
381 TIGR02688 conserved hypothetic 91.7 0.55 1.2E-05 57.1 8.6 30 270-299 208-238 (449)
382 CHL00195 ycf46 Ycf46; Provisio 91.7 0.15 3.2E-06 63.8 4.0 25 271-295 259-283 (489)
383 PRK00698 tmk thymidylate kinas 91.7 0.37 8.1E-06 52.7 6.8 39 271-309 3-42 (205)
384 COG1199 DinG Rad3-related DNA 91.6 0.52 1.1E-05 61.4 9.2 155 721-899 462-621 (654)
385 KOG3347 Predicted nucleotide k 91.6 0.14 3.1E-06 53.2 3.1 22 271-292 7-28 (176)
386 cd00227 CPT Chloramphenicol (C 91.6 0.17 3.6E-06 54.5 3.9 25 271-295 2-26 (175)
387 TIGR01313 therm_gnt_kin carboh 91.6 0.12 2.6E-06 54.7 2.8 21 275-295 2-22 (163)
388 PRK05563 DNA polymerase III su 91.6 0.19 4.2E-06 64.0 5.0 27 271-297 38-64 (559)
389 PRK14959 DNA polymerase III su 91.6 0.12 2.5E-06 65.9 3.0 27 271-297 38-64 (624)
390 TIGR02322 phosphon_PhnN phosph 91.6 0.15 3.2E-06 54.9 3.5 24 272-295 2-25 (179)
391 PRK12608 transcription termina 91.6 0.29 6.4E-06 58.7 6.1 52 270-321 132-187 (380)
392 TIGR01389 recQ ATP-dependent D 91.5 0.5 1.1E-05 60.8 8.8 64 248-321 12-75 (591)
393 TIGR00382 clpX endopeptidase C 91.5 0.23 5E-06 60.7 5.3 24 272-295 117-140 (413)
394 TIGR00764 lon_rel lon-related 91.5 0.29 6.2E-06 63.0 6.4 45 271-315 37-82 (608)
395 COG1204 Superfamily II helicas 91.5 0.31 6.8E-06 64.0 6.9 66 249-320 31-97 (766)
396 TIGR01618 phage_P_loop phage n 91.5 0.13 2.9E-06 57.5 3.0 30 271-307 12-41 (220)
397 TIGR00554 panK_bact pantothena 91.5 0.37 8E-06 56.3 6.7 37 269-306 60-99 (290)
398 COG0593 DnaA ATPase involved i 91.5 0.57 1.2E-05 57.0 8.4 48 270-317 112-164 (408)
399 PF13476 AAA_23: AAA domain; P 91.4 0.15 3.3E-06 55.1 3.4 28 271-298 19-46 (202)
400 PF08433 KTI12: Chromatin asso 91.4 0.23 4.9E-06 57.6 4.9 35 272-306 2-36 (270)
401 TIGR00708 cobA cob(I)alamin ad 91.4 0.31 6.6E-06 52.6 5.5 38 271-308 5-42 (173)
402 PRK03839 putative kinase; Prov 91.4 0.16 3.5E-06 54.7 3.5 23 273-295 2-24 (180)
403 PRK04301 radA DNA repair and r 91.4 0.3 6.4E-06 57.9 6.0 38 271-308 102-145 (317)
404 PRK09519 recA DNA recombinatio 91.4 0.3 6.4E-06 63.8 6.3 48 271-318 60-107 (790)
405 PLN03142 Probable chromatin-re 91.4 1.8 3.8E-05 58.7 13.6 60 248-310 168-230 (1033)
406 PRK07471 DNA polymerase III su 91.3 0.26 5.6E-06 59.5 5.5 46 254-299 24-69 (365)
407 TIGR00678 holB DNA polymerase 91.3 0.22 4.8E-06 54.2 4.4 29 270-298 13-41 (188)
408 PRK14531 adenylate kinase; Pro 91.3 0.16 3.6E-06 55.1 3.4 23 273-295 4-26 (183)
409 PRK08154 anaerobic benzoate ca 91.3 0.29 6.4E-06 57.8 5.8 48 248-295 106-157 (309)
410 cd03116 MobB Molybdenum is an 91.3 0.27 5.9E-06 52.4 5.0 37 272-308 2-38 (159)
411 PRK07261 topology modulation p 91.2 0.16 3.5E-06 54.6 3.3 21 274-294 3-23 (171)
412 PF02374 ArsA_ATPase: Anion-tr 91.2 0.25 5.5E-06 58.2 5.1 36 272-307 2-37 (305)
413 PF12775 AAA_7: P-loop contain 91.2 0.15 3.2E-06 59.2 3.1 27 271-297 33-59 (272)
414 PF06414 Zeta_toxin: Zeta toxi 91.2 0.19 4.1E-06 55.4 3.8 27 270-296 14-40 (199)
415 TIGR03346 chaperone_ClpB ATP-d 91.1 0.22 4.7E-06 66.7 5.0 37 272-308 596-632 (852)
416 PRK05748 replicative DNA helic 91.1 0.37 7.9E-06 59.9 6.7 52 270-322 202-254 (448)
417 PRK14530 adenylate kinase; Pro 91.1 0.19 4.2E-06 55.9 3.9 24 272-295 4-27 (215)
418 cd02117 NifH_like This family 91.1 0.28 6.1E-06 54.5 5.1 32 274-305 3-34 (212)
419 PRK13765 ATP-dependent proteas 91.1 0.29 6.4E-06 62.9 5.9 50 254-306 36-86 (637)
420 cd02020 CMPK Cytidine monophos 91.1 0.18 3.9E-06 51.9 3.3 23 273-295 1-23 (147)
421 PF01583 APS_kinase: Adenylyls 91.1 0.31 6.7E-06 51.7 5.1 35 271-305 2-36 (156)
422 PRK03846 adenylylsulfate kinas 91.1 0.31 6.7E-06 53.6 5.4 37 269-305 22-58 (198)
423 CHL00095 clpC Clp protease ATP 91.0 0.23 4.9E-06 66.3 5.0 53 253-305 513-573 (821)
424 TIGR02639 ClpA ATP-dependent C 91.0 0.25 5.4E-06 65.1 5.3 70 255-325 188-269 (731)
425 PRK08506 replicative DNA helic 91.0 0.37 7.9E-06 60.3 6.5 52 270-322 191-242 (472)
426 COG1200 RecG RecG-like helicas 91.0 0.49 1.1E-05 60.0 7.5 81 244-325 257-337 (677)
427 PRK05298 excinuclease ABC subu 91.0 0.65 1.4E-05 60.5 9.0 76 244-324 7-82 (652)
428 PF00485 PRK: Phosphoribulokin 91.0 0.19 4.1E-06 55.1 3.6 29 273-301 1-29 (194)
429 cd02035 ArsA ArsA ATPase funct 91.0 0.25 5.5E-06 55.2 4.6 35 273-307 1-35 (217)
430 TIGR00763 lon ATP-dependent pr 91.0 0.3 6.5E-06 64.8 6.0 26 270-295 346-371 (775)
431 COG1702 PhoH Phosphate starvat 90.9 0.29 6.3E-06 57.5 5.1 56 248-313 127-184 (348)
432 PRK14532 adenylate kinase; Pro 90.9 0.17 3.6E-06 55.0 3.0 21 274-294 3-23 (188)
433 cd00561 CobA_CobO_BtuR ATP:cor 90.9 0.36 7.9E-06 51.4 5.5 37 271-307 2-38 (159)
434 PRK14494 putative molybdopteri 90.9 0.26 5.7E-06 55.5 4.6 39 272-310 2-40 (229)
435 PRK09087 hypothetical protein; 90.9 0.19 4.1E-06 56.7 3.6 24 271-294 44-67 (226)
436 PHA02542 41 41 helicase; Provi 90.9 0.41 8.9E-06 59.7 6.7 52 270-322 189-240 (473)
437 cd01428 ADK Adenylate kinase ( 90.9 0.18 3.8E-06 54.8 3.2 21 274-294 2-22 (194)
438 KOG0733 Nuclear AAA ATPase (VC 90.9 0.16 3.4E-06 63.0 3.0 25 271-295 223-247 (802)
439 COG1224 TIP49 DNA helicase TIP 90.8 0.29 6.4E-06 57.4 5.0 26 270-295 64-89 (450)
440 CHL00095 clpC Clp protease ATP 90.8 0.49 1.1E-05 63.2 7.8 70 252-325 185-266 (821)
441 PRK07246 bifunctional ATP-depe 90.8 1.2 2.5E-05 59.5 11.2 64 247-318 243-310 (820)
442 PRK12727 flagellar biosynthesi 90.7 0.3 6.6E-06 60.9 5.3 37 270-306 349-387 (559)
443 PRK15455 PrkA family serine pr 90.7 0.3 6.5E-06 61.3 5.2 51 248-298 79-130 (644)
444 TIGR02902 spore_lonB ATP-depen 90.7 0.24 5.3E-06 62.7 4.6 29 267-295 82-110 (531)
445 TIGR03345 VI_ClpV1 type VI sec 90.7 0.34 7.3E-06 64.7 6.1 53 253-305 570-630 (852)
446 PLN02200 adenylate kinase fami 90.7 0.21 4.5E-06 56.7 3.6 25 271-295 43-67 (234)
447 PF02367 UPF0079: Uncharacteri 90.6 0.27 5.8E-06 50.1 4.0 37 270-309 14-50 (123)
448 COG0464 SpoVK ATPases of the A 90.6 0.3 6.5E-06 61.5 5.3 44 250-293 250-298 (494)
449 PF13479 AAA_24: AAA domain 90.6 0.18 3.8E-06 56.3 3.0 31 271-309 3-33 (213)
450 PRK05986 cob(I)alamin adenolsy 90.6 0.54 1.2E-05 51.5 6.5 38 271-308 22-59 (191)
451 TIGR03346 chaperone_ClpB ATP-d 90.5 0.51 1.1E-05 63.3 7.6 50 256-306 180-236 (852)
452 TIGR02903 spore_lon_C ATP-depe 90.5 0.27 5.8E-06 63.4 4.8 26 270-295 174-199 (615)
453 PF03796 DnaB_C: DnaB-like hel 90.5 0.66 1.4E-05 53.2 7.6 53 271-324 19-72 (259)
454 KOG0738 AAA+-type ATPase [Post 90.5 0.17 3.7E-06 59.8 2.7 20 273-292 247-266 (491)
455 TIGR00073 hypB hydrogenase acc 90.5 0.52 1.1E-05 52.2 6.4 37 269-306 20-56 (207)
456 PRK02496 adk adenylate kinase; 90.4 0.22 4.7E-06 54.0 3.4 22 274-295 4-25 (184)
457 TIGR02030 BchI-ChlI magnesium 90.4 0.37 7.9E-06 57.6 5.6 41 254-295 9-49 (337)
458 PRK06761 hypothetical protein; 90.4 0.25 5.4E-06 57.4 4.0 34 271-304 3-36 (282)
459 PRK10865 protein disaggregatio 90.4 0.42 9.1E-06 64.0 6.7 50 257-307 186-242 (857)
460 KOG1586 Protein required for f 90.4 0.26 5.6E-06 54.8 3.9 177 913-1114 29-227 (288)
461 PRK11034 clpA ATP-dependent Cl 90.4 0.28 6E-06 64.5 4.9 24 272-295 489-512 (758)
462 COG3854 SpoIIIAA ncharacterize 90.4 0.31 6.7E-06 54.2 4.4 37 273-309 139-180 (308)
463 PF00406 ADK: Adenylate kinase 90.3 0.2 4.4E-06 52.4 2.9 20 276-295 1-20 (151)
464 PRK14528 adenylate kinase; Pro 90.3 0.24 5.3E-06 54.0 3.6 23 273-295 3-25 (186)
465 TIGR02621 cas3_GSU0051 CRISPR- 90.2 0.57 1.2E-05 61.7 7.4 72 248-325 14-88 (844)
466 PF05707 Zot: Zonular occluden 90.2 0.26 5.7E-06 54.1 3.8 32 273-304 2-34 (193)
467 PF12774 AAA_6: Hydrolytic ATP 90.2 0.43 9.4E-06 54.0 5.6 50 271-325 32-83 (231)
468 TIGR03345 VI_ClpV1 type VI sec 90.1 0.61 1.3E-05 62.4 7.8 71 254-325 192-274 (852)
469 KOG0741 AAA+-type ATPase [Post 90.1 0.21 4.6E-06 61.0 3.1 52 250-302 230-287 (744)
470 COG3911 Predicted ATPase [Gene 90.1 0.24 5.2E-06 51.5 3.1 35 271-309 9-43 (183)
471 TIGR02774 rexB_recomb ATP-depe 90.0 8.8 0.00019 53.0 18.7 159 583-766 185-348 (1076)
472 PF00176 SNF2_N: SNF2 family N 90.0 0.91 2E-05 52.4 8.3 70 253-323 1-81 (299)
473 TIGR02236 recomb_radA DNA repa 89.9 0.33 7.1E-06 57.3 4.6 39 271-309 95-139 (310)
474 PRK13947 shikimate kinase; Pro 89.9 0.26 5.5E-06 52.5 3.3 23 273-295 3-25 (171)
475 PF02399 Herpes_ori_bp: Origin 89.9 0.46 9.9E-06 61.5 6.0 53 270-322 48-101 (824)
476 PRK09165 replicative DNA helic 89.9 0.55 1.2E-05 59.1 6.7 52 270-322 216-282 (497)
477 PRK08760 replicative DNA helic 89.9 0.54 1.2E-05 58.8 6.6 52 270-322 228-280 (476)
478 TIGR03029 EpsG chain length de 89.8 0.62 1.4E-05 53.8 6.7 36 270-305 102-138 (274)
479 PRK10646 ADP-binding protein; 89.8 0.58 1.3E-05 49.5 5.8 54 251-309 10-63 (153)
480 PRK10463 hydrogenase nickel in 89.7 0.61 1.3E-05 54.4 6.4 50 251-305 88-137 (290)
481 PRK01184 hypothetical protein; 89.7 0.25 5.4E-06 53.4 3.1 16 273-288 3-18 (184)
482 PRK05595 replicative DNA helic 89.7 0.61 1.3E-05 58.0 6.8 53 270-323 200-253 (444)
483 PRK05564 DNA polymerase III su 89.7 0.4 8.7E-06 56.6 5.1 32 267-298 22-53 (313)
484 PRK05201 hslU ATP-dependent pr 89.7 0.42 9E-06 58.2 5.1 25 271-295 50-74 (443)
485 cd00464 SK Shikimate kinase (S 89.6 0.29 6.2E-06 51.0 3.4 22 274-295 2-23 (154)
486 PF01637 Arch_ATPase: Archaeal 89.6 0.35 7.7E-06 53.4 4.3 37 255-295 8-44 (234)
487 PRK13973 thymidylate kinase; P 89.6 0.65 1.4E-05 51.8 6.4 40 271-310 3-43 (213)
488 PTZ00202 tuzin; Provisional 89.6 0.79 1.7E-05 55.8 7.3 65 252-322 268-332 (550)
489 TIGR03263 guanyl_kin guanylate 89.5 0.28 6.2E-06 52.6 3.3 22 272-293 2-23 (180)
490 TIGR02639 ClpA ATP-dependent C 89.5 0.34 7.4E-06 63.9 4.7 24 272-295 485-508 (731)
491 cd02037 MRP-like MRP (Multiple 89.5 0.43 9.3E-06 50.9 4.7 33 273-305 2-34 (169)
492 PRK14489 putative bifunctional 89.5 0.46 1E-05 57.5 5.4 42 270-311 204-245 (366)
493 cd02040 NifH NifH gene encodes 89.4 0.4 8.7E-06 55.0 4.7 32 273-305 4-35 (270)
494 TIGR00235 udk uridine kinase. 89.3 0.32 6.8E-06 53.9 3.6 26 270-295 5-30 (207)
495 KOG4284 DEAD box protein [Tran 89.3 0.62 1.3E-05 58.0 6.2 66 251-323 49-117 (980)
496 PRK07993 DNA polymerase III su 89.3 1.1 2.4E-05 53.5 8.4 76 268-353 21-121 (334)
497 PF10412 TrwB_AAD_bind: Type I 89.3 0.5 1.1E-05 57.6 5.5 43 271-313 15-57 (386)
498 PRK00279 adk adenylate kinase; 89.2 0.3 6.5E-06 54.4 3.4 19 274-292 3-21 (215)
499 TIGR03575 selen_PSTK_euk L-ser 89.2 0.41 8.8E-06 57.1 4.6 35 273-307 1-36 (340)
500 COG4889 Predicted helicase [Ge 89.2 0.59 1.3E-05 59.9 6.1 65 244-313 156-220 (1518)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=5e-77 Score=693.08 Aligned_cols=600 Identities=26% Similarity=0.328 Sum_probs=441.2
Q ss_pred ccccccccCChHHHHhhchhhHHHHHHHHHHHhhhccCCCCceEEEeeeec-CCCCCceEEEEEeeecccccCCCCCCCC
Q 048652 40 VEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAEVIAFEEL-KPYGANRYGIEVDYWRNTICNSGKEPYK 118 (1382)
Q Consensus 40 v~~IP~tF~S~~~Y~~sF~ppLlEEtra~l~Ssle~is~ap~~~i~~ve~~-~~~~~~~y~i~v~~~~~~~~~~~~e~y~ 118 (1382)
...+-.+|.+..+|-++|-|++-.|+..+ ..+.+....+.+.++=. +-++...-.+.+...++ ..+
T Consensus 229 ~~hv~~ry~da~~y~~vf~pliklea~yd-----k~~Kes~~q~~~tvRW~~gLnkk~~a~f~~~k~~~--------e~k 295 (935)
T KOG1802|consen 229 PPHVQLRYEDAYEYQNVFSPLIKLEADYD-----KRLKESQTQENGTVRWDIGLNKKRLAYFTLPKLDS--------ELK 295 (935)
T ss_pred CCcccccccchHHHhhhcchhhhhhhhhh-----hhhhhhcccccceEEeeeccccceEEEEecCCCcc--------hhc
Confidence 55677899999999999999999999887 23333333343444422 22222223333333222 256
Q ss_pred CCCCCEEEeeccCCCCcccccccCceEEEEEEEeecCCcccccccccceEEEEecCCccccCCCCceEEEEEEeccchhH
Q 048652 119 TLPGDILVLADFKPEKVSDLLRVGRMWTFVSVTMVPDDEVENKNKKKNYYEVKARNNLQVHDGTKKSFFFIYLTNILPSK 198 (1382)
Q Consensus 119 ~~~GDIv~Ls~~kP~~~sdl~~~~~~~~~a~V~~v~~~~~~~~~~~~~~~~v~~s~~i~~~~~~~~~~~~v~L~n~~T~~ 198 (1382)
.-.||-+.|+...-.. +. --.+|+|.++.+...+ ...+.+..+.+ ........+.+-|+.|-+++.
T Consensus 296 l~~GdE~~L~y~~~~~---~~----w~~~g~v~~~pd~~~d-----E~~lEl~~~~~--~p~e~~~~Ftvd~vwk~ts~d 361 (935)
T KOG1802|consen 296 LAIGDEIRLTYSGGLV---LP----WNGIGSVLKIPDNNGD-----EVKLELEFSQD--PPIEVTHGFTVDFVWKSTSFD 361 (935)
T ss_pred cccCCeeEEEecCCcC---Cc----ccccceEEecCCCCcc-----eeEEEeecCCC--CCcccccceEEEEEEcCccHH
Confidence 7799999998542211 11 1247888888775422 12344444443 223344566799999999999
Q ss_pred HHHHHHhccCC------chhhhhhcC-CCccchhhhhhhccccCCCCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCC
Q 048652 199 RIWNSLHMCGN------WKVITQVLG-TDSVVEESCELCSLQRKGIWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKS 271 (1382)
Q Consensus 199 R~~~aL~~~~~------~~li~~iL~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~ 271 (1382)
||..||..+.. .-+...+|. +.......+. .+..+......+||.||..||...|+ .
T Consensus 362 rm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~---------LP~~~s~~~lpkLN~SQ~~AV~~VL~-------r 425 (935)
T KOG1802|consen 362 RMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKL---------LPRRFSVPNLPKLNASQSNAVKHVLQ-------R 425 (935)
T ss_pred HHHHHHHHhhhccccchhhhhhHHhcCcchhhhhccc---------CchhhcCCCchhhchHHHHHHHHHHc-------C
Confidence 99999987221 112223333 2222111111 12234445677999999999999998 6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHHhhhhhcCCCCccccccCCcceEEeccCC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRLVKESYKRDSRNNTPFCPLGDILLFGNKD 350 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l~~es~~~~~~~~~~~~~lgdIVr~Gn~~ 350 (1382)
+++|||||||||||.|.++++.+|+++ ..+||||||||.|||++++++.+... .|||+-.++
T Consensus 426 plsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgL-----------------KVvRl~aks 488 (935)
T KOG1802|consen 426 PLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGL-----------------KVVRLCAKS 488 (935)
T ss_pred CceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCc-----------------eEeeeehhh
Confidence 999999999999999999999999987 67999999999999999999998543 388888877
Q ss_pred CCCcCchhhhhcHHHHHHHHhhhccCCcccchhhhhhhHHHhhHHHHHHHHHHHHhhhhccccchhHHHHHhhhhccCcC
Q 048652 351 RLKVNPGFEEIYLDYRVKRLMECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNENQSEEKKCRKETEGSKG 430 (1382)
Q Consensus 351 rm~I~~~L~~v~Ld~Rv~~L~~~f~~~tgW~~~l~s~i~~Le~~~~~y~~~l~~~k~~~~~~~~~~~~~~i~~~~~~~kk 430 (1382)
|-.+..++.-..|.+.++++.. | + ++
T Consensus 489 RE~~~S~vs~L~lh~~~~~~~~---p--------------------E----Lq--------------------------- 514 (935)
T KOG1802|consen 489 REDIESDVSFLSLHEQLRNMDK---P--------------------E----LQ--------------------------- 514 (935)
T ss_pred hhhccCCccHHHHHHHHhccCc---H--------------------H----HH---------------------------
Confidence 7655444444444443333111 0 0 00
Q ss_pred CCCchhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHHhHHHHHHHHHHHHHHHhccCCCHHHHHHHhccccccch
Q 048652 431 ECKPFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQDMVALKSLLDSFRSLLFQKNVVSEELEKLFSHSVDEDF 510 (1382)
Q Consensus 431 ~~~sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~~m~~~~~lL~~l~~lL~~~~l~~eel~~~~~~~~~~~~ 510 (1382)
+ +++ +.+...+...
T Consensus 515 ----------------------------------------------------~---l~k-----------lkde~gelS~ 528 (935)
T KOG1802|consen 515 ----------------------------------------------------K---LLK-----------LKDEGGELSS 528 (935)
T ss_pred ----------------------------------------------------H---HHh-----------hhhhcccccc
Confidence 0 000 0000000000
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchhhHHHHHHhcCCcEEEEccccccccccccCCCccEEEec
Q 048652 511 SLAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKQLLKDFCFKRASLFFSTASSSYKLHSVKIEPLNFLVID 590 (1382)
Q Consensus 511 ~~~~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~~~~~~i~~~iL~~a~VI~~T~sss~~l~~~~~~~fd~VIID 590 (1382)
+ ...| +. ...+.....++..|+||||||.+++.... ....|..|+||
T Consensus 529 s------------D~~k------~~--------------~lk~~~e~ell~~AdVIccTcv~Agd~rl-~~~kfr~VLiD 575 (935)
T KOG1802|consen 529 S------------DEKK------YR--------------KLKRAAEKELLNQADVICCTCVGAGDRRL-SKFKFRTVLID 575 (935)
T ss_pred h------------hhHH------HH--------------HHHHHHHHHHHhhcCEEEEecccccchhh-ccccccEEEEe
Confidence 0 0000 00 01233455689999999999999986333 33689999999
Q ss_pred ccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhcCCCceecccccCCCcccccccccc
Q 048652 591 EAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLLNHSKHLLDIQYRMHPSISLFPNLQ 670 (1382)
Q Consensus 591 EAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~~~~~~~L~~QYRmhp~I~~f~n~~ 670 (1382)
||.|++||+++||+.+ +++++||||||+||.|++.-+.+..+||.+|||+||+..|...++|.+||||||.|++||++.
T Consensus 576 EaTQatEpe~LiPlvl-G~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~ 654 (935)
T KOG1802|consen 576 EATQATEPECLIPLVL-GAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNM 654 (935)
T ss_pred cccccCCcchhhhhhh-cceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhh
Confidence 9999999999999987 899999999999999999999899999999999999999999999999999999999999999
Q ss_pred ccccccccCcccccccccccCCCCCC-CCCeEEEEecCCcccc--cccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEE
Q 048652 671 FYRNQILDGANVKSKSYEKHYLPGTE-FGPYTFINIIGGREEF--IYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIG 747 (1382)
Q Consensus 671 FY~g~L~~~~~v~~~~~~~~~l~~~~-~~p~~fidv~~g~e~~--~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~Ig 747 (1382)
||+|.|.++.....+......+|-+. ..|+.|... .|.|+. .|+|+.|..||..+.++|+.|++.+..+. .||
T Consensus 655 fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~-~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~---qIG 730 (935)
T KOG1802|consen 655 FYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVC-YGQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPS---QIG 730 (935)
T ss_pred hccchhhcCcchhhhccCCCCCCCCCCCCccceEEe-ccceeeeccccceecHHHHHHHHHHHHHHHHcCCCHH---Hee
Confidence 99999999977666554332222221 347777776 666655 78999999999999999999999987654 799
Q ss_pred EEeccHHHHHHHHHHHhhhhcC--CCCCcEEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeecccccceEE
Q 048652 748 VVSPYTAQVVAIRKKIGSEYEN--KDGFTVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLW 825 (1382)
Q Consensus 748 VITPY~aQv~~I~~~L~~~~~~--~~~~~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~ 825 (1382)
|||||.+|...|-..+...... .--..|+|.|||+|||+|+|+||+||||+|....+||+.|+||||||+||||++|+
T Consensus 731 VITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glv 810 (935)
T KOG1802|consen 731 VITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLV 810 (935)
T ss_pred eecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEeecccccccccccCchhhhhhhhhcccceE
Confidence 9999999999999888654321 11246799999999999999999999999999999999999999999999999999
Q ss_pred EEechhhhhcCccHHHHHHHHHHhcCceecccc
Q 048652 826 ILGNERTLISSESIWGTLVCDAKARQCFFKADE 858 (1382)
Q Consensus 826 IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~~ 858 (1382)
||||...|.+ .++|..+|.++++++|++.++-
T Consensus 811 ivGN~~~L~k-~~LW~~li~h~~eke~l~eg~l 842 (935)
T KOG1802|consen 811 IVGNPKVLRK-HPLWGHLITHYKEKEVLVEGPL 842 (935)
T ss_pred EecCHHHhhh-chHHHHHHHHhhcccceeecch
Confidence 9999999998 5999999999999999998643
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=7.7e-77 Score=696.43 Aligned_cols=606 Identities=25% Similarity=0.323 Sum_probs=423.7
Q ss_pred HHHHhhchhhHHHHHHHHHHHhhhccCCCC--------ce-EE--EeeeecCCCCCceEEEEEeeecccccCCCCCCCCC
Q 048652 51 KQYFGSFVFPLLEETRMQLRSGLEAMRRAP--------YA-EV--IAFEELKPYGANRYGIEVDYWRNTICNSGKEPYKT 119 (1382)
Q Consensus 51 ~~Y~~sF~ppLlEEtra~l~Ssle~is~ap--------~~-~i--~~ve~~~~~~~~~y~i~v~~~~~~~~~~~~e~y~~ 119 (1382)
+++..-+.++|=+|=.+++.-.-..+.+-| ++ .. +...+++..+..+-.+.... . ..-...+
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~ie~l~~~g~~i~nl~~v~~~tGl~g~~li~f~~~~--~-----~lp~~~~ 75 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVSVRTGLGGKSLIVFSKNR--E-----VLPSNSF 75 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEEEeecccceEEEEeccCc--c-----ccCcCCC
Confidence 455556666666666666644433333333 22 11 22234454443333333222 1 2334678
Q ss_pred CCCCEEEeeccCCCCcccccccCceEEEEEEEeecCCcccccccccceEEEEecCCccccCCCCceEEEEEEeccchhHH
Q 048652 120 LPGDILVLADFKPEKVSDLLRVGRMWTFVSVTMVPDDEVENKNKKKNYYEVKARNNLQVHDGTKKSFFFIYLTNILPSKR 199 (1382)
Q Consensus 120 ~~GDIv~Ls~~kP~~~sdl~~~~~~~~~a~V~~v~~~~~~~~~~~~~~~~v~~s~~i~~~~~~~~~~~~v~L~n~~T~~R 199 (1382)
.+||+|.|.. +.. +....+++-|+|+++.++..+ +.+........ ..+...+..|.|..||.|
T Consensus 76 ~~gd~v~lr~--~~~----~~~~~~~~~GvV~~~~~~~i~--------~a~ee~~d~~~---~~~~l~l~kl~n~vty~R 138 (649)
T KOG1803|consen 76 GPGDVVWLRT--DKL----NNKSKPCTEGVVYRVAEDSID--------VAFEEEVDKPL---TLSSLRLLKLENKVTYRR 138 (649)
T ss_pred CCCcEEEEEc--ccc----cccCcccccceeEeeccchhh--------HhHHhhhcccc---hhhHHHHHHhhhhhhhee
Confidence 8999999962 211 122345788999999877322 22222222111 112457889999999999
Q ss_pred HHHHHhcc-------CCchhhhhhcCCCccchhhhhhhccccCCCCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCC
Q 048652 200 IWNSLHMC-------GNWKVITQVLGTDSVVEESCELCSLQRKGIWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSG 272 (1382)
Q Consensus 200 ~~~aL~~~-------~~~~li~~iL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~ 272 (1382)
+..++... ...+++..+........ ..+ . ........+..||.||+.||..+++. ..
T Consensus 139 ~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~--------~~~-~-~~~~~~~~~~~ln~SQk~Av~~~~~~------k~ 202 (649)
T KOG1803|consen 139 MKDTMICLSKFSNPGPSSDVVETLFGDRKPIP--------SPN-I-EIKKITFFNKNLNSSQKAAVSFAINN------KD 202 (649)
T ss_pred cHHHHhhHhhhcCccchhhhHHHHhccccCCC--------Cch-h-hhcccccCCccccHHHHHHHHHHhcc------CC
Confidence 99998652 23344444444332211 000 0 01122345678999999999999873 48
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhhhhcCCCCccccccCCcceEEeccCCCC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKESYKRDSRNNTPFCPLGDILLFGNKDRL 352 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~es~~~~~~~~~~~~~lgdIVr~Gn~~rm 352 (1382)
+.+|+||||||||+|++.+|.++++++.|||||||||.|||||.+||..... .++|+|++.|+
T Consensus 203 l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~~~~-----------------~l~R~g~paRl 265 (649)
T KOG1803|consen 203 LLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTHLKL-----------------NLVRVGHPARL 265 (649)
T ss_pred ceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhccccc-----------------chhhcCchhhh
Confidence 9999999999999999999999999999999999999999999999984322 48999999986
Q ss_pred CcCchhhhhcHHHHHHHHhhhccCCcccchhhhhhhHHHhhHHHHHHHHHHHHhhhhccccchhHHHHHhhhhccCcCCC
Q 048652 353 KVNPGFEEIYLDYRVKRLMECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNENQSEEKKCRKETEGSKGEC 432 (1382)
Q Consensus 353 ~I~~~L~~v~Ld~Rv~~L~~~f~~~tgW~~~l~s~i~~Le~~~~~y~~~l~~~k~~~~~~~~~~~~~~i~~~~~~~kk~~ 432 (1382)
.+.+.+.++|.-+..-- +
T Consensus 266 --~~~~~~~sld~~~~t~d-----------------------------------------~------------------- 283 (649)
T KOG1803|consen 266 --LESVADHSLDLLSNTKD-----------------------------------------N------------------- 283 (649)
T ss_pred --hhhhhhhHHHHHHhcCc-----------------------------------------h-------------------
Confidence 22222222221111100 0
Q ss_pred CchhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHHhHHHHHHHHHHHHHHHhccCCCHHHHHHHhccccccchhh
Q 048652 433 KPFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQDMVALKSLLDSFRSLLFQKNVVSEELEKLFSHSVDEDFSL 512 (1382)
Q Consensus 433 ~sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~~m~~~~~lL~~l~~lL~~~~l~~eel~~~~~~~~~~~~~~ 512 (1382)
+. .....++++. .. +...
T Consensus 284 -----~~--~~~~~sk~~d----------------------------~~--------------------~~~~------- 301 (649)
T KOG1803|consen 284 -----SQ--NAKDISKDID----------------------------IL--------------------FQKN------- 301 (649)
T ss_pred -----hh--hhhhhHHHHH----------------------------HH--------------------hhhh-------
Confidence 00 0000000000 00 0000
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchhhHHHHHHhcCCcEEEEccccccccccccCCCccEEEeccc
Q 048652 513 AFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKQLLKDFCFKRASLFFSTASSSYKLHSVKIEPLNFLVIDEA 592 (1382)
Q Consensus 513 ~~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~~~~~~i~~~iL~~a~VI~~T~sss~~l~~~~~~~fd~VIIDEA 592 (1382)
...+....+......++.+++.+++ ........++.+++|||+|..++.. .......||+||||||
T Consensus 302 ------~~tk~~~~~~~~~~~i~~lrkdl~k-------re~~~v~eii~n~~VVfaTl~ga~~-~~~~~~~fD~vIIDEa 367 (649)
T KOG1803|consen 302 ------TKTKNDKLRKGIRKEIKLLRKDLRK-------RERKTVKEIISNSRVVFATLGGALD-RLLRKRTFDLVIIDEA 367 (649)
T ss_pred ------hcccchHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhhcccceEEEeccchhh-hhhcccCCCEEEEehh
Confidence 0001112233344444444433222 1334455689999999999988876 2223367999999999
Q ss_pred ccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc--CCCceecccccCCCcccccccccc
Q 048652 593 AQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL--NHSKHLLDIQYRMHPSISLFPNLQ 670 (1382)
Q Consensus 593 sQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~--~~~~~~L~~QYRmhp~I~~f~n~~ 670 (1382)
+|+.|+++|+|+. ..+++||+|||+||||+|.+..+...|++.|+|+|+... +....+|++|||||..|+.|+|..
T Consensus 368 aQamE~~cWipvl--k~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~ 445 (649)
T KOG1803|consen 368 AQAMEPQCWIPVL--KGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEV 445 (649)
T ss_pred hhhccchhhhHHh--cCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhh
Confidence 9999999999995 458999999999999999999999999999999999876 335789999999999999999999
Q ss_pred ccccccccCcccccccccccCC---CCCCCCCeEEEEecCCcccc------cccCCCCHHHHHHHHHHHHHHHHhhcCCC
Q 048652 671 FYRNQILDGANVKSKSYEKHYL---PGTEFGPYTFINIIGGREEF------IYHSCRNMVEVSVVIKILQKLYKAWVGSK 741 (1382)
Q Consensus 671 FY~g~L~~~~~v~~~~~~~~~l---~~~~~~p~~fidv~~g~e~~------~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~ 741 (1382)
||+|++.++..+..+....... ....+.|+.|+|+.+..... ...|++|..||+.|..++++|+..+..+
T Consensus 446 fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~p- 524 (649)
T KOG1803|consen 446 FYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQP- 524 (649)
T ss_pred hcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCCh-
Confidence 9999999999888765443211 12246899999996543211 2358999999999999999999998754
Q ss_pred CCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeeccccc
Q 048652 742 QMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRAR 821 (1382)
Q Consensus 742 ~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK 821 (1382)
.+|||||||++|+..+++.. .....+++|+|||+|||+|+|+||||+||||+.+.+||+.|.||||||+||||
T Consensus 525 --~dIaVIsPY~aQv~llR~~~-----~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaR 597 (649)
T KOG1803|consen 525 --SDIAVISPYNAQVSLLREED-----EEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRAR 597 (649)
T ss_pred --hHeEEeccchHHHHHHhhcc-----cccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEecc
Confidence 48999999999999999322 22445799999999999999999999999999999999999999999999999
Q ss_pred ceEEEEechhhhhcCccHHHHHHHHHHhcCceeccccchh
Q 048652 822 HCLWILGNERTLISSESIWGTLVCDAKARQCFFKADEDRN 861 (1382)
Q Consensus 822 ~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~~~~~ 861 (1382)
++++||||..++.....+.+++++++.+++.++.++.++.
T Consensus 598 Rh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~~~~~ 637 (649)
T KOG1803|consen 598 RHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPSILEY 637 (649)
T ss_pred ceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccccchhh
Confidence 9999999999998667899999999999999886544433
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=2e-69 Score=677.03 Aligned_cols=567 Identities=28% Similarity=0.331 Sum_probs=394.2
Q ss_pred CCCCCCCCEEEeeccCCCCcccccccCceEEEEEEEeecCCcccccccccceEEEEecCCccccCCCCceEEEEEEeccc
Q 048652 116 PYKTLPGDILVLADFKPEKVSDLLRVGRMWTFVSVTMVPDDEVENKNKKKNYYEVKARNNLQVHDGTKKSFFFIYLTNIL 195 (1382)
Q Consensus 116 ~y~~~~GDIv~Ls~~kP~~~sdl~~~~~~~~~a~V~~v~~~~~~~~~~~~~~~~v~~s~~i~~~~~~~~~~~~v~L~n~~ 195 (1382)
...+.+||+|+++...|.. ..+-|+|+++.+.. +.|....+... .....+.+.++.|.+
T Consensus 55 ~~~~~~GD~v~i~~~~~~~---------~~~~g~V~~v~~~~----------i~v~~~~~~~~--~~~~~~~i~~~~~~~ 113 (637)
T TIGR00376 55 ATEISVGDIVLVSRGNPLQ---------SDLTGVVTRVGKRF----------ITVALEESVPQ--WSLKRVRIDLYANDV 113 (637)
T ss_pred CCcCCCCCEEEEecCCCCC---------CCcEEEEEEEcCcE----------EEEEECCCCCc--ccCceEEEEEecCcc
Confidence 3578899999999654421 23578999987642 44444332221 112347899999999
Q ss_pred hhHHHHHHHhccC--CchhhhhhcCCCccchhhhhhhccccCCCCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCe
Q 048652 196 PSKRIWNSLHMCG--NWKVITQVLGTDSVVEESCELCSLQRKGIWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGV 273 (1382)
Q Consensus 196 T~~R~~~aL~~~~--~~~li~~iL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~ 273 (1382)
||.||..||..+. ...+++.+|....+.... .. ... ......||++|+.||..++.. .++
T Consensus 114 t~~rm~~aL~~l~~~~~~l~~~llg~~~p~~~~------~~-----~~~-~~~~~~ln~~Q~~Av~~~l~~------~~~ 175 (637)
T TIGR00376 114 TFKRMKEALRALTENHSRLLEFILGREAPSKAS------EI-----HDF-QFFDPNLNESQKEAVSFALSS------KDL 175 (637)
T ss_pred HHHHHHHHHHHHHhchhhHHHHHhCCCCCCccc------cc-----ccc-cccCCCCCHHHHHHHHHHhcC------CCe
Confidence 9999999998843 235666676654331100 00 000 112358999999999998763 589
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhhhhcCCCCccccccCCcceEEeccCCCCC
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKESYKRDSRNNTPFCPLGDILLFGNKDRLK 353 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~es~~~~~~~~~~~~~lgdIVr~Gn~~rm~ 353 (1382)
.+|+||||||||+|+++++..++..+.+||+|||||.|||++++||.... ..++|+|++.++
T Consensus 176 ~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~~-----------------~~vvRlg~~~r~- 237 (637)
T TIGR00376 176 FLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALCD-----------------QKIVRLGHPARL- 237 (637)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHhCC-----------------CcEEEeCCchhc-
Confidence 99999999999999999999999999999999999999999999998631 259999999874
Q ss_pred cCchhhhhcHHHHHHHHhhhccCCcccchhhhhhhHHHhhHHHHHHHHHHHHhhhhccccchhHHHHHhhhhccCcCCCC
Q 048652 354 VNPGFEEIYLDYRVKRLMECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNENQSEEKKCRKETEGSKGECK 433 (1382)
Q Consensus 354 I~~~L~~v~Ld~Rv~~L~~~f~~~tgW~~~l~s~i~~Le~~~~~y~~~l~~~k~~~~~~~~~~~~~~i~~~~~~~kk~~~ 433 (1382)
.+.+...++++.+..-.. ...+.+...+.....+... +.. +
T Consensus 238 -~~~~~~~sl~~~~~~~~~---------------~~~~~~~~~~i~~~~~~~~----------------~~~----~--- 278 (637)
T TIGR00376 238 -LKSNKQHSLDYLIENHPK---------------YQIVADIREKIDELIEERN----------------KKL----K--- 278 (637)
T ss_pred -chhHHhccHHHHHhcChh---------------HHHHHHHHHHHHHHHHHHH----------------hhc----c---
Confidence 667778888876653100 0001111111111100000 000 0
Q ss_pred chhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHHhHHHHHHHHHHHHHHHhccCCCHHHHHHHhccccccchhhh
Q 048652 434 PFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQDMVALKSLLDSFRSLLFQKNVVSEELEKLFSHSVDEDFSLA 513 (1382)
Q Consensus 434 sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~~m~~~~~lL~~l~~lL~~~~l~~eel~~~~~~~~~~~~~~~ 513 (1382)
...+ .+ ....-...+++-...-....+....+.
T Consensus 279 ~~~~------------~~---------------------~~~~~~~~l~~~~~~~~~~~i~~~~~~-------------- 311 (637)
T TIGR00376 279 PSPQ------------KR---------------------RGLSDIKILRKALKKREARGIESLKIA-------------- 311 (637)
T ss_pred chHh------------Hh---------------------hccchHHHHHHHHhhhhhcccchhhhH--------------
Confidence 0000 00 000000001000000000000000000
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchhhHHHHHHhcCCcEEEEccccccccccccCCCccEEEecccc
Q 048652 514 FVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKQLLKDFCFKRASLFFSTASSSYKLHSVKIEPLNFLVIDEAA 593 (1382)
Q Consensus 514 ~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~~~~~~i~~~iL~~a~VI~~T~sss~~l~~~~~~~fd~VIIDEAs 593 (1382)
.... ...+...+..+...+. ..+..+...++..|+++++|+.+. .+....||+||||||+
T Consensus 312 -----~~~~----~~~~~~~~~~~~~~~~-------~~~~~~~~~il~~a~v~~st~~~~----~l~~~~Fd~vIIDEAs 371 (637)
T TIGR00376 312 -----SMAE----WIETNKSIDRLLKLLP-------EIEERIENEILAESDVVQSTNSSA----GLKGWEFDVAVIDEAS 371 (637)
T ss_pred -----HHHH----HHHhhhhhHHHHHHHH-------HHHHHHHHHHHhhCCEEEeccCcH----hhccCCCCEEEEECcc
Confidence 0000 0001111111111111 124456778999999998885432 2345699999999999
Q ss_pred cCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc-CCCceecccccCCCcccccccccccc
Q 048652 594 QLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL-NHSKHLLDIQYRMHPSISLFPNLQFY 672 (1382)
Q Consensus 594 Q~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~-~~~~~~L~~QYRmhp~I~~f~n~~FY 672 (1382)
|++||++++|+.. .+++||||||+||||++.+.. ..+++.|+|+||... +...++|++||||||+|++|+|..||
T Consensus 372 Q~~ep~~lipl~~--~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY 447 (637)
T TIGR00376 372 QAMEPSCLIPLLK--ARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFY 447 (637)
T ss_pred ccchHHHHHHHhh--CCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhc
Confidence 9999999999963 479999999999999998754 467899999999976 33478999999999999999999999
Q ss_pred ccccccCcccccccccccC--CC------CCCCCCeEEEEecCCcc----cccccCCCCHHHHHHHHHHHHHHHHhhcCC
Q 048652 673 RNQILDGANVKSKSYEKHY--LP------GTEFGPYTFINIIGGRE----EFIYHSCRNMVEVSVVIKILQKLYKAWVGS 740 (1382)
Q Consensus 673 ~g~L~~~~~v~~~~~~~~~--l~------~~~~~p~~fidv~~g~e----~~~~~S~~N~~Ea~~V~~lV~~L~~~~~~~ 740 (1382)
+|+|.+++.+..+...... .+ .....|+.|+|+.+... ...+.|++|..||..|+++++.|++.+..
T Consensus 448 ~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~- 526 (637)
T TIGR00376 448 NGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVP- 526 (637)
T ss_pred CCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCC-
Confidence 9999988776554321110 00 01134899999965432 12567999999999999999999987654
Q ss_pred CCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeecccc
Q 048652 741 KQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRA 820 (1382)
Q Consensus 741 ~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRA 820 (1382)
+.+|||||||++|+..|++.|... ...+.|.|||+|||+|+|+||+|+||+|..+.+||+.|.||||||+|||
T Consensus 527 --~~~IgVItPY~aQv~~L~~~l~~~-----~~~i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRA 599 (637)
T TIGR00376 527 --ANDIGVITPYDAQVDLLRQLLEHR-----HIDIEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRA 599 (637)
T ss_pred --cceEEEEcccHHHHHHHHHHHHhh-----CCCeEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhh
Confidence 348999999999999999999654 2369999999999999999999999999988999999999999999999
Q ss_pred cceEEEEechhhhhcCccHHHHHHHHHHhcCceecccc
Q 048652 821 RHCLWILGNERTLISSESIWGTLVCDAKARQCFFKADE 858 (1382)
Q Consensus 821 K~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~~ 858 (1382)
|++||||||..+|.+ +++|++|+++++++||+..++.
T Consensus 600 K~~LiIvGn~~~l~~-~~~~~~li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 600 RRKLIVIGDSRTLSN-HKFYKRLIEWCKQHGEVREAFK 636 (637)
T ss_pred hCceEEEECHHHhcc-ChHHHHHHHHHHHCCCEEcCCC
Confidence 999999999999975 5899999999999999988754
No 4
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=3.8e-66 Score=660.77 Aligned_cols=791 Identities=29% Similarity=0.307 Sum_probs=587.1
Q ss_pred ccccceEeccchHHHhhhccccccccccccccCChHHHHhhchhhHHHHHHHHHHHhhhccCCCCceEEEeee---ecCC
Q 048652 16 GFTGHTVFSWSLENIFNQSLFKDQVEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAEVIAFE---ELKP 92 (1382)
Q Consensus 16 ~~l~~~V~SWs~~diln~dl~~~kv~~IP~tF~S~~~Y~~sF~ppLlEEtra~l~Ssle~is~ap~~~i~~ve---~~~~ 92 (1382)
.+|++.++||++.|+.|+ +++|+||.+.++|..+|.|+|+||+++++.++...++.+++..+...+ ...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~p~~~ee~~~~l~~s~~~~~~~~~~~~~~~~~~~~~~~ 78 (827)
T KOG1801|consen 6 TDLLDSSLSWSLRDVENE-------ETEPETFQSMEEYIREFFPPLLEECRSSLVSSSRKLKAPFLLEKPEQEQIAITKN 78 (827)
T ss_pred ccHHHHhHHHHhhhhhhh-------hccchhhhhHHHHHHHhhhhhhHHHHHHHhhhhhhhccchhhhhhhhhhhhcccC
Confidence 358999999999999998 999999999999999999999999999999999999988886654443 1211
Q ss_pred C---CCceEEEEEeeecccccCCCCCCCCCCCCCEEEeeccCCCCcccccccCceEEEEEEEeecCCcccccccccceEE
Q 048652 93 Y---GANRYGIEVDYWRNTICNSGKEPYKTLPGDILVLADFKPEKVSDLLRVGRMWTFVSVTMVPDDEVENKNKKKNYYE 169 (1382)
Q Consensus 93 ~---~~~~y~i~v~~~~~~~~~~~~e~y~~~~GDIv~Ls~~kP~~~sdl~~~~~~~~~a~V~~v~~~~~~~~~~~~~~~~ 169 (1382)
+ ..+++........+...-........+++|++.+++..|...++..-...++..+.+......... ...
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~ 151 (827)
T KOG1801|consen 79 NPTSKDLRQLTNEKNIFTKEKSEKTASSVEKHLDNIRHSDAIGFAASDHIPGLLPYLASPDLEKGPSVDL-------SLA 151 (827)
T ss_pred CCCchhhhcchhHHHHHhhhhccccccccccccchhhhcccCCccccccChhhhhhhccccccccccccc-------ccc
Confidence 1 112333222111110000122233457999999998888887776543344555444333222111 011
Q ss_pred EEecCCccccCCCCceEEEEEEeccchhHHHHHHHhccC-CchhhhhhcCCCccchhhhhhhccccC-CCCccccCCCCC
Q 048652 170 VKARNNLQVHDGTKKSFFFIYLTNILPSKRIWNSLHMCG-NWKVITQVLGTDSVVEESCELCSLQRK-GIWDEKFGPSLS 247 (1382)
Q Consensus 170 v~~s~~i~~~~~~~~~~~~v~L~n~~T~~R~~~aL~~~~-~~~li~~iL~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 247 (1382)
...+. .....+.+++.+++|+.|+|.+++... +..++..-++........|..|..... ....-..+....
T Consensus 152 ~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~ 224 (827)
T KOG1801|consen 152 ATKSL-------PSLICAGAFLRVLVENKNEYILIACHANNHGLHRPDLRFNEVNERTVHKVFENFSVIGSLFVGDVIRF 224 (827)
T ss_pred hhccc-------cccchHHHHHHHHhhcchhhhhccccccccccccccccccccccccccccccccccccccchhhhhhh
Confidence 11111 111123689999999999999999843 445555555555443333333322211 000011224566
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCC--chHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh-
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGT--GKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK- 324 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGT--GKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~- 324 (1382)
.+|+.+|..++..++....|.+...+.+||||||| |||+|...+...+....+++++|+++|.++.++..|+.+...
T Consensus 225 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~r~~~~~~~ 304 (827)
T KOG1801|consen 225 TKLSRDQEPLIRGVLSQRNCEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGLDCQMLVCSLSNSNILLLTSRLYKQTAR 304 (827)
T ss_pred cccchhhHHHHhhccCccccccccceeeeeCCCCccccceeccchHHHHHHhcccceeEeeccccchhhhHHHHHhcccc
Confidence 78999999999999999999999999999999999 999999999999999999999999999999999999999877
Q ss_pred hhhcCCCCccccccCCcceEEeccCCCCCc----CchhhhhcHHHHHHHHhhhccCCcccchhhhhhhHHHhhHHHHHHH
Q 048652 325 ESYKRDSRNNTPFCPLGDILLFGNKDRLKV----NPGFEEIYLDYRVKRLMECFAPLSGWRHCFSSMIDLLEDCVSQYHI 400 (1382)
Q Consensus 325 es~~~~~~~~~~~~~lgdIVr~Gn~~rm~I----~~~L~~v~Ld~Rv~~L~~~f~~~tgW~~~l~s~i~~Le~~~~~y~~ 400 (1382)
.+.+ ...|++++++..++..+|.+ ...+..++...++..+..++.+..+|...+.++..++++...++..
T Consensus 305 ~s~e------~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 378 (827)
T KOG1801|consen 305 FSSE------KIVYGFGEIVLVENRTQLGIRLNKLISLPNSFGTIPTGSLSELSPPTGGIGSRLFSGEELLENNVPQSEK 378 (827)
T ss_pred CCch------hhhhcccchhhhhhhHhhhhhhhhhcccccccccccccccchhhccccchhhhhHHHHHhhcCcHHHHHH
Confidence 4433 34789999999999998876 2245566667788889999999999999999999999999988887
Q ss_pred HHHHHhhhhccccchhHHHHHhhhhccCcCCCCchhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHHhHHHHHHH
Q 048652 401 YVEKLKEREDCNENQSEEKKCRKETEGSKGECKPFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQDMVALKSL 480 (1382)
Q Consensus 401 ~l~~~k~~~~~~~~~~~~~~i~~~~~~~kk~~~sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~~m~~~~~l 480 (1382)
+............ ............++..+.+.............+..|+|+.++...+...+....+.
T Consensus 379 ~~~~~~~~~~s~~-----------~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~v~~~~~~~ 447 (827)
T KOG1801|consen 379 IVLMCLRMGFSLI-----------QLPVDNGRFLSREFAEENLRKLKPLPSIACIDLITHLPTLGLYDTNQVVRIGGGSV 447 (827)
T ss_pred HHHHHHhhchhhh-----------ccchhhccccchhhHHhhhhhcccchhhhhhcchhcCccceEecCCeeEEecCCcc
Confidence 7764322210000 00011122344556556665555545667778889999888766553332222111
Q ss_pred HHHHHH--HHhccCCCHHHHHHHhccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchhhHHHHH
Q 048652 481 LDSFRS--LLFQKNVVSEELEKLFSHSVDEDFSLAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKQLLKDF 558 (1382)
Q Consensus 481 L~~l~~--lL~~~~l~~eel~~~~~~~~~~~~~~~~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~~~~~~i~~~ 558 (1382)
+..... .+.......+...+...... . ....+...+.... ..+..+...........
T Consensus 448 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~------------~------i~~~~~~~l~~~~---~~~~i~~~~~~~~~~~~ 506 (827)
T KOG1801|consen 448 LNSGAIETVLEGDKIRKDKNKAIIERFN------------G------LPKNIPKALSIKD---DIFKIPSQLERPEVRIL 506 (827)
T ss_pred ceeceeeeeehhhhhhhHHhhhhhhccc------------c------ccccchhhhcccc---chhhhhhhccchhhhcc
Confidence 111000 00000000000000000000 0 0111111111111 11223333344455566
Q ss_pred Hhc----CCcEEEEccccccc-cccccCCCccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccC
Q 048652 559 CFK----RASLFFSTASSSYK-LHSVKIEPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGA 633 (1382)
Q Consensus 559 iL~----~a~VI~~T~sss~~-l~~~~~~~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~ 633 (1382)
++. .+.+|+||.++++. +......+++.++||||+|..|+..++||++.+.+|++++||+.||||+|.+..+..+
T Consensus 507 ~~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~ 586 (827)
T KOG1801|consen 507 DLGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCF 586 (827)
T ss_pred hhhhccccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccc
Confidence 666 99999999998877 5555678999999999999999999999999889999999999999999999999999
Q ss_pred CccccHHHHHHhcCCCceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccc-
Q 048652 634 SFGRSLFERLTLLNHSKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEF- 712 (1382)
Q Consensus 634 g~~~SLFeRL~~~~~~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~- 712 (1382)
++.+|+|+|+...+++.++|++||||||+|+.|||..||+++|.+++.+....+...++.+..++||.|+++..|.|..
T Consensus 587 k~~~slf~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~ 666 (827)
T KOG1801|consen 587 KYMTSLFERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAG 666 (827)
T ss_pred cchhhHHHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEecccccccC
Confidence 9999999999999999999999999999999999999999999999999988889999999999999999998898887
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHhhcCCCC-CceEEEEeccHHHHHHHHHHHhhhhcCCC--CCcEEEecccCCCCcccc
Q 048652 713 IYHSCRNMVEVSVVIKILQKLYKAWVGSKQ-MVSIGVVSPYTAQVVAIRKKIGSEYENKD--GFTVKVKSVDGFQGGEED 789 (1382)
Q Consensus 713 ~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~-~~~IgVITPY~aQv~~I~~~L~~~~~~~~--~~~v~V~TVD~fQG~E~D 789 (1382)
.+.|..|..|+.++..++..+.+....... +..||||+||+.|+.++++.+...+.... .+.+.+.|||+|||+|.|
T Consensus 667 ~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~d 746 (827)
T KOG1801|consen 667 GGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERD 746 (827)
T ss_pred CCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCc
Confidence 668999999999999999999988776655 67899999999999999999998877333 358999999999999999
Q ss_pred EEEEeecccCCCCCcccccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCceeccccchhHHHH
Q 048652 790 IIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFFKADEDRNLAKA 865 (1382)
Q Consensus 790 iVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~~~~~l~~~ 865 (1382)
|+|+|+||++..+.+||+.+.+|+|||+||||+++|++||..+|..++..|..++.+++.+||++++..+......
T Consensus 747 iii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~~~~~~~~ 822 (827)
T KOG1801|consen 747 IIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAADVNDFDQ 822 (827)
T ss_pred eeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccccccccccchhhh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999776665544
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=9.9e-57 Score=544.92 Aligned_cols=387 Identities=29% Similarity=0.392 Sum_probs=312.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKES 326 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~es 326 (1382)
.-.||..|+.|+..++.+ ....||.|=|||||||||+.+|..|+..|++||++|.||.|||||.-+|......
T Consensus 667 ~~~LN~dQr~A~~k~L~a------edy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~~i~- 739 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAA------EDYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKGFGIY- 739 (1100)
T ss_pred HhhcCHHHHHHHHHHHhc------cchheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHHHHHHHhccCcc-
Confidence 348999999999999986 8999999999999999999999999999999999999999999999999874332
Q ss_pred hcCCCCccccccCCcceEEeccCCCCCcCchhhhhcHHHHHHHHhhhccCCcccchhhhhhhHHHhhHHHHHHHHHHHHh
Q 048652 327 YKRDSRNNTPFCPLGDILLFGNKDRLKVNPGFEEIYLDYRVKRLMECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLK 406 (1382)
Q Consensus 327 ~~~~~~~~~~~~~lgdIVr~Gn~~rm~I~~~L~~v~Ld~Rv~~L~~~f~~~tgW~~~l~s~i~~Le~~~~~y~~~l~~~k 406 (1382)
++|+|.++++ +++++++++.+
T Consensus 740 ----------------~lRLG~~~ki--h~~v~e~~~~~----------------------------------------- 760 (1100)
T KOG1805|consen 740 ----------------ILRLGSEEKI--HPDVEEFTLTN----------------------------------------- 760 (1100)
T ss_pred ----------------eeecCCcccc--chHHHHHhccc-----------------------------------------
Confidence 8999999854 44443332200
Q ss_pred hhhccccchhHHHHHhhhhccCcCCCCchhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHHhHHHHHHHHHHHHH
Q 048652 407 EREDCNENQSEEKKCRKETEGSKGECKPFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQDMVALKSLLDSFRS 486 (1382)
Q Consensus 407 ~~~~~~~~~~~~~~i~~~~~~~kk~~~sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~~m~~~~~lL~~l~~ 486 (1382)
..+++.
T Consensus 761 -------------------------~~s~ks------------------------------------------------- 766 (1100)
T KOG1805|consen 761 -------------------------ETSEKS------------------------------------------------- 766 (1100)
T ss_pred -------------------------ccchhh-------------------------------------------------
Confidence 000000
Q ss_pred HHhccCCCHHHHHHHhccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCcchhhHHHHHHhcCCcEE
Q 048652 487 LLFQKNVVSEELEKLFSHSVDEDFSLAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKQLLKDFCFKRASLF 566 (1382)
Q Consensus 487 lL~~~~l~~eel~~~~~~~~~~~~~~~~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~~~~~~i~~~iL~~a~VI 566 (1382)
+..+ +..++...||
T Consensus 767 -----------------------------------------------~~~l-------------------~~~~~~~~IV 780 (1100)
T KOG1805|consen 767 -----------------------------------------------YADL-------------------KKFLDQTSIV 780 (1100)
T ss_pred -----------------------------------------------HHHH-------------------HHHhCCCcEE
Confidence 0000 0135678899
Q ss_pred EEccccccccccccCCCccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc
Q 048652 567 FSTASSSYKLHSVKIEPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL 646 (1382)
Q Consensus 567 ~~T~sss~~l~~~~~~~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~ 646 (1382)
.|||-+..+. ......||++|||||+|+..|-++.|+.+. .++||||||.||||.|.+..++..|++.|||+||...
T Consensus 781 a~TClgi~~p-lf~~R~FD~cIiDEASQI~lP~~LgPL~~s--~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~ 857 (1100)
T KOG1805|consen 781 ACTCLGINHP-LFVNRQFDYCIIDEASQILLPLCLGPLSFS--NKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEK 857 (1100)
T ss_pred EEEccCCCch-hhhccccCEEEEccccccccchhhhhhhhc--ceEEEecccccCCccccchhhhhcCcchHHHHHHhhh
Confidence 9999998752 222357999999999999999999999764 8999999999999999999999999999999999875
Q ss_pred CC-CceecccccCCCccccccccccccccccccCcccccccc----------------cccCCC---CCCCCCeEEEEec
Q 048652 647 NH-SKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSY----------------EKHYLP---GTEFGPYTFINII 706 (1382)
Q Consensus 647 ~~-~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~----------------~~~~l~---~~~~~p~~fidv~ 706 (1382)
.. .+..|+.||||..+|+.++|.+||+|+|..+........ ..+|+. .+ ..++.|++++
T Consensus 858 hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p-~~~v~f~~~D 936 (1100)
T KOG1805|consen 858 HPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEP-TRDVCFVNTD 936 (1100)
T ss_pred CchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcC-CccceEEecC
Confidence 43 477899999999999999999999999998765443210 011111 11 2456676664
Q ss_pred CC--cccc-cccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCC
Q 048652 707 GG--REEF-IYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGF 783 (1382)
Q Consensus 707 ~g--~e~~-~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~f 783 (1382)
.. -++. ..+...|..||..|+++++.++..|.... +|||||||++|+..|++.+... .++|.|||.|
T Consensus 937 ~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv~~~---dIGIis~YraQv~Li~~~l~~~-------~lEinTVD~y 1006 (1100)
T KOG1805|consen 937 TCSTIESQGEKGGITNHGEAKLISELVEDFVKSGVKPS---DIGIISPYRAQVELIRKILSSA-------VLEINTVDRY 1006 (1100)
T ss_pred cccchhhhccccCcCchhHHHHHHHHHHHHHHcCCCHH---HeeeeehHHHHHHHHHhhcccc-------ceeeeehhhh
Confidence 32 2333 45566799999999999999999998754 8999999999999999998765 3999999999
Q ss_pred CCccccEEEEeecccCCCCCcc-cccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCcee
Q 048652 784 QGGEEDIIIISTVRCNTGGSIG-FISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFF 854 (1382)
Q Consensus 784 QG~E~DiVIlS~Vrsn~~~~iG-Fl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~ 854 (1382)
||+++|+||+|+||+|.....| .+.|.+|+|||+||||+.|++||+..+|... +.+++|+++...+..++
T Consensus 1007 QGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~-~~~~~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1007 QGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESY-PPFRQLLKLLENRIELL 1077 (1100)
T ss_pred cCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccC-chHHHHHhhhhhhhhHH
Confidence 9999999999999999887766 5789999999999999999999999999766 77899999887665443
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=7.1e-51 Score=480.91 Aligned_cols=289 Identities=28% Similarity=0.431 Sum_probs=246.8
Q ss_pred hhHHHHHHhcCCcEEEEcccccccccc-ccCCCccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccc-cc
Q 048652 552 KQLLKDFCFKRASLFFSTASSSYKLHS-VKIEPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVES-KI 629 (1382)
Q Consensus 552 ~~~i~~~iL~~a~VI~~T~sss~~l~~-~~~~~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s-~~ 629 (1382)
+.....++++.++||++|++++++++. +..-.+.+|||.||+.+.|+..+.++ .+.+.|+||||||+||.|.... +.
T Consensus 688 rn~~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal-~p~~EhviLIGDHKQLrP~~~vy~L 766 (1025)
T KOG1807|consen 688 RNVFDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAAL-TPHTEHVILIGDHKQLRPFSGVYKL 766 (1025)
T ss_pred HHHHHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhh-cccceeEEEecchhhcCCCcchhhH
Confidence 345566789999999999999988544 34456799999999999998854444 4678999999999999997543 35
Q ss_pred cccCCccccHHHHHHhcCCCceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCc
Q 048652 630 SDGASFGRSLFERLTLLNHSKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGR 709 (1382)
Q Consensus 630 a~~~g~~~SLFeRL~~~~~~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~ 709 (1382)
+..+++..|+||||+..|.|-..|+.||||+|.|++.....||++ |.+++++..-. . .+|+ .....|+.+....
T Consensus 767 ~q~fnL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~ye--d--I~gm-s~nlfFv~hnspe 840 (1025)
T KOG1807|consen 767 PQIFNLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKEYE--D--IRGM-SKNLFFVQHNSPE 840 (1025)
T ss_pred hHhcchhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhcccc--c--cccc-cceeeEEecCCcc
Confidence 566889999999999999999999999999999999999999985 77777765422 1 3343 3456677664444
Q ss_pred ccccccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCcccc
Q 048652 710 EEFIYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEED 789 (1382)
Q Consensus 710 e~~~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~D 789 (1382)
+..++.|+.|..||.+++++++.|+.++..+. +|.|+|+|++|...|++.+.+.+. ..|.|.|||+|||.|.|
T Consensus 841 e~~de~S~~NlhEa~mlv~l~kyli~q~y~ps---dIviLttY~gQk~ci~rllp~~~~----stv~VatVDsfQGeEnd 913 (1025)
T KOG1807|consen 841 ECMDEMSIGNLHEAGMLVKLTKYLIQQQYKPS---DIVILTTYNGQKECIKRLLPQNYR----STVQVATVDSFQGEEND 913 (1025)
T ss_pred cCcchhhhhhHHHHHHHHHHHHHHHhcCCCcc---ceEEEeechhHHHHHHHHhHHHhc----CcceEEEeccccCcccc
Confidence 44477999999999999999999999877654 899999999999999999988865 34999999999999999
Q ss_pred EEEEeecccCCCCCcccccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCcee
Q 048652 790 IIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFF 854 (1382)
Q Consensus 790 iVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~ 854 (1382)
||++|+||+|..|.+||+.-++|++||+||||++|+||||...+.++.++|.++|+..++.+.+-
T Consensus 914 IVLlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig 978 (1025)
T KOG1807|consen 914 IVLLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIG 978 (1025)
T ss_pred EEEEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccc
Confidence 99999999999999999999999999999999999999999999998999999999999876553
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.2e-40 Score=428.56 Aligned_cols=292 Identities=35% Similarity=0.481 Sum_probs=246.3
Q ss_pred HHHHHHhcCCcEEEEccccccccccccCCCccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccC
Q 048652 554 LLKDFCFKRASLFFSTASSSYKLHSVKIEPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGA 633 (1382)
Q Consensus 554 ~i~~~iL~~a~VI~~T~sss~~l~~~~~~~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~ 633 (1382)
.....+...+++|+||++.++.. ......||++|||||+|+.++.+++|+.. ++++|++|||+||||++........
T Consensus 460 ~~~~~i~~~~~~~~~~~~~a~~~-~~~~~~fd~viiDEAsQ~~~~~~~~~l~~--~~~~il~GD~kQL~p~~~~~~~~~~ 536 (767)
T COG1112 460 KAVTKILEAADVVLSTLSIAGFS-ILKKYEFDYVIIDEASQATEPSALIALSR--AKKVILVGDHKQLPPTVFFKESSPE 536 (767)
T ss_pred HHHHHHHHhcCeEEEeccchhHH-HhcccccCEEEEcchhcccchhHHHhHhh--cCeEEEecCCccCCCeecchhhccc
Confidence 34445666667899988877642 22222799999999999999999999975 7999999999999999987645667
Q ss_pred CccccHHHHHHhcCC-CceecccccCCCccccccccccccccccccCcccccccccccCCCCC-CCCCeEEEEecCCccc
Q 048652 634 SFGRSLFERLTLLNH-SKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGT-EFGPYTFINIIGGREE 711 (1382)
Q Consensus 634 g~~~SLFeRL~~~~~-~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~-~~~p~~fidv~~g~e~ 711 (1382)
++..++|+++...+. ...+|+.||||||.|+.|+|..||+|++..++............+.. ...|+.++++.+..+.
T Consensus 537 ~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 616 (767)
T COG1112 537 GLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEEF 616 (767)
T ss_pred chhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCcccc
Confidence 889999999998775 78999999999999999999999999999887765543221111111 1368899999555443
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCccccEE
Q 048652 712 FIYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEEDII 791 (1382)
Q Consensus 712 ~~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~DiV 791 (1382)
....+..|..||..+..++..+++.+.... +|||||||++|+..|++.+.... ..+.|+|||+|||+|+|+|
T Consensus 617 ~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~---~igvis~y~~q~~~i~~~~~~~~-----~~v~v~tvd~fQG~EkdvI 688 (767)
T COG1112 617 FESKSKLNELEAEIVKVIVDELLKDGLEEN---DIGVISPYRAQVSLIRRLLNEAG-----KGVEVGTVDGFQGREKDVI 688 (767)
T ss_pred cCccceecHHHHHHHHHHHHHHHHcCCcHH---HcceecccHHHHHHHHHHHHhcC-----CceEEeeccccCCccCcEE
Confidence 478899999999999999999999887654 59999999999999999997653 4799999999999999999
Q ss_pred EEeecccCCC-CCcccccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCceeccc
Q 048652 792 IISTVRCNTG-GSIGFISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFFKAD 857 (1382)
Q Consensus 792 IlS~Vrsn~~-~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~ 857 (1382)
|+|+||++.. +.+||+.|+||+|||+||||++|||||+..++... +.|+.++.+++..+++....
T Consensus 689 i~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~-~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 689 ILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESD-PLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhc-hhHHHHHHHHHhcCcEeecc
Confidence 9999999988 79999999999999999999999999999988664 99999999999999987764
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=6.5e-35 Score=317.70 Aligned_cols=197 Identities=38% Similarity=0.584 Sum_probs=139.8
Q ss_pred ccccHHHHHHhcC-CCceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCccccc
Q 048652 635 FGRSLFERLTLLN-HSKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFI 713 (1382)
Q Consensus 635 ~~~SLFeRL~~~~-~~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~ 713 (1382)
+++|||+|+...+ .+.++|++||||||+|++|+|..||+|+|.++++.................|+.|+|+.+......
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 4689999999998 899999999999999999999999999999988766655431112223357899999966554443
Q ss_pred c--cCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCccccEE
Q 048652 714 Y--HSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEEDII 791 (1382)
Q Consensus 714 ~--~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~DiV 791 (1382)
. +|+.|..||.+|+++++.|...+.....+.+|||||||++|+.+|++.|.+.........+.|+|||+|||+|+|+|
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 2 89999999999999999999987765334589999999999999999998764321111299999999999999999
Q ss_pred EEeecccCCCCCcccccCCCcceeecccccceEEEEechh
Q 048652 792 IISTVRCNTGGSIGFISNPQRVNVALTRARHCLWILGNER 831 (1382)
Q Consensus 792 IlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~ 831 (1382)
|+|+|+++.....||+.+++|+|||+||||++||||||.+
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 9999999977889999999999999999999999999974
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.98 E-value=4.4e-33 Score=344.29 Aligned_cols=285 Identities=29% Similarity=0.299 Sum_probs=231.7
Q ss_pred hcCCcEEEEcccccccccc--ccCCCccEEEecccccCChHHHHHHHHhc-CCCeEEEEecCCCCCccccccccccCCcc
Q 048652 560 FKRASLFFSTASSSYKLHS--VKIEPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVESKISDGASFG 636 (1382)
Q Consensus 560 L~~a~VI~~T~sss~~l~~--~~~~~fd~VIIDEAsQ~~E~e~lipL~l~-~~krlVLVGD~~QLpP~V~s~~a~~~g~~ 636 (1382)
+...+++.+|+++++.+.. .+...|.+++||||++.+|++.++|+... ...++||.|||+||+|++++..+...|++
T Consensus 417 ~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~ 496 (775)
T KOG1804|consen 417 VWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLD 496 (775)
T ss_pred ccceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhccc
Confidence 3456889999988877544 34578999999999999999999998643 23489999999999999999999999999
Q ss_pred ccHHHHHHhcC--------C----CceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEE
Q 048652 637 RSLFERLTLLN--------H----SKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFIN 704 (1382)
Q Consensus 637 ~SLFeRL~~~~--------~----~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fid 704 (1382)
.|||+|+.... . -.+.|-.+||+||.|...+|+.||.+.|..............+ ++.+.|.-
T Consensus 497 rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~w-----~~liif~g 571 (775)
T KOG1804|consen 497 RSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLELW-----SGLILFYG 571 (775)
T ss_pred HHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHHhc-----ccceeccc
Confidence 99999998641 1 2466999999999999999999999999866554443222211 22355655
Q ss_pred ecCCcccc--cccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccC
Q 048652 705 IIGGREEF--IYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDG 782 (1382)
Q Consensus 705 v~~g~e~~--~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~ 782 (1382)
+ .|..+. ...|+.|..||..|..++..+........ .||||||||++|+..|++.+... +..++.|++|..
T Consensus 572 ~-~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~~--~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe~ 644 (775)
T KOG1804|consen 572 A-PGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVAQP--QDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVEE 644 (775)
T ss_pred c-ccccccccCChhhccHHHHHHHHHHHhccCCCCcccc--ccceeeCcHHHHHHHHHHHhccc----CCCCCcccceee
Confidence 5 444443 66799999999999888888766554333 39999999999999999999876 567899999999
Q ss_pred CCCccccEEEEeecccCCC------CCcccccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCceecc
Q 048652 783 FQGGEEDIIIISTVRCNTG------GSIGFISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFFKA 856 (1382)
Q Consensus 783 fQG~E~DiVIlS~Vrsn~~------~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~ 856 (1382)
|||+|+.+||+|+|||... ...+|+++++|+|||+|||+.-++++|+...+. .++.|+.++..+..+|.+...
T Consensus 645 fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~-~~~~~~~~l~~~~~n~~y~~c 723 (775)
T KOG1804|consen 645 FQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLG-GDPPWGLLLLLRVENGRYPGC 723 (775)
T ss_pred eccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCccccc-CCCChhhheeeeecCCcccCC
Confidence 9999999999999999864 122389999999999999999999999999775 469999999999988877665
Q ss_pred c
Q 048652 857 D 857 (1382)
Q Consensus 857 ~ 857 (1382)
+
T Consensus 724 ~ 724 (775)
T KOG1804|consen 724 D 724 (775)
T ss_pred C
Confidence 3
No 10
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.96 E-value=6.9e-30 Score=310.38 Aligned_cols=489 Identities=24% Similarity=0.308 Sum_probs=319.1
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
...|+.|-+||.+..+ ++.+.|.||||||||.+++.++..+... ..|+|+++.+|.|...+-+++.++-.+
T Consensus 737 v~ft~~qveai~sg~q-------pgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d 809 (1320)
T KOG1806|consen 737 VKFTPTQVEAILSGMQ-------PGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVD 809 (1320)
T ss_pred hccCHHHHHHHHhcCC-------CCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccc
Confidence 4578999999998876 8999999999999999999999999887 789999999999999999888775332
Q ss_pred hhcCCCCccccccCCcceEEeccCCCCC-cCchh-----------hhhcHHHHHHHHhhhccCCcccch-hhhhhhHHHh
Q 048652 326 SYKRDSRNNTPFCPLGDILLFGNKDRLK-VNPGF-----------EEIYLDYRVKRLMECFAPLSGWRH-CFSSMIDLLE 392 (1382)
Q Consensus 326 s~~~~~~~~~~~~~lgdIVr~Gn~~rm~-I~~~L-----------~~v~Ld~Rv~~L~~~f~~~tgW~~-~l~s~i~~Le 392 (1382)
.+-++|.|+.+.-- =+.++ +..-+-+.+++|.+.+.....-.. +...+..++-
T Consensus 810 --------------~rhLlrlg~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~ 875 (1320)
T KOG1806|consen 810 --------------ERHLLRLGHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLA 875 (1320)
T ss_pred --------------hhhHHHhcccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhh
Confidence 11244555432100 00000 111234555555554432211111 1222333333
Q ss_pred hHHHHHHHHHHHHhhhhccccchhHHHHHhhhhccCcCCCCchhHHHHhhhhhhhhhHHhhHHHhhcCCCccccchhhHH
Q 048652 393 DCVSQYHIYVEKLKEREDCNENQSEEKKCRKETEGSKGECKPFLEYVRESFNCAVIPLRNCIFIFCTHLPKTYISENSFQ 472 (1382)
Q Consensus 393 ~~~~~y~~~l~~~k~~~~~~~~~~~~~~i~~~~~~~kk~~~sf~eflk~r~~~l~~~L~~~~~~l~~~lP~s~i~~~~~~ 472 (1382)
...+....|+..++...+... ... .....+|.+|+.+ .|+..+...+..
T Consensus 876 ~V~~~wee~l~~v~~~~~~~~----~~~--------~~~~fpf~~~f~d-------------------~p~~vfeg~n~~ 924 (1320)
T KOG1806|consen 876 YVKRRWEEYLAKVDKGCDKDS----VDI--------VSNRFPFHSYFGD-------------------KPKPPFEGYNKE 924 (1320)
T ss_pred HHHhhhHHHHHHhccCCCchh----hhh--------HhhhCcchhhhhc-------------------CCCccccccchh
Confidence 333333333332210000000 000 0011233333221 222222221111
Q ss_pred hHHHHHHHHHHHHHHHhccCCCHHHHHHHhccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCc--c
Q 048652 473 DMVALKSLLDSFRSLLFQKNVVSEELEKLFSHSVDEDFSLAFVGKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCT--T 550 (1382)
Q Consensus 473 ~m~~~~~lL~~l~~lL~~~~l~~eel~~~~~~~~~~~~~~~~~~~~~~~~l~~~R~~~~~~L~~L~~~l~~~~lp~~--~ 550 (1382)
+ ..+....|+..++..-.++.+++.... .
T Consensus 925 ~-------------------------------------------------d~~~a~~cf~hl~~ifqqLee~rafellr~ 955 (1320)
T KOG1806|consen 925 N-------------------------------------------------DMDYATGCFRHLEYIFQQLEEFRAFELLRS 955 (1320)
T ss_pred h-------------------------------------------------hhhhhhhhHHHHHHHHHHHHhccccccccc
Confidence 1 001112233333333333333322211 1
Q ss_pred hhhHHHHHHhcCCcEEEEccccccc-cccc--cCCCccEEEecccccCChHHHHHHHHhcC-------CCeEEEEecCCC
Q 048652 551 SKQLLKDFCFKRASLFFSTASSSYK-LHSV--KIEPLNFLVIDEAAQLKESESTIPLQLAG-------INHAVLIGDECQ 620 (1382)
Q Consensus 551 ~~~~i~~~iL~~a~VI~~T~sss~~-l~~~--~~~~fd~VIIDEAsQ~~E~e~lipL~l~~-------~krlVLVGD~~Q 620 (1382)
........+.+.|.||.||+..++. .... ....+|=+++.|++|+.|.+..+|+.+.. .+++|++||+.|
T Consensus 956 ~~dr~~Yll~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhq 1035 (1320)
T KOG1806|consen 956 GEDRELYLLVKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQ 1035 (1320)
T ss_pred chhHhhccCcccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccc
Confidence 1222333345899999999988753 2221 24578999999999999999999987632 468999999999
Q ss_pred CCccccc-cccccCCccccHHHHHHhcCCCceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCC
Q 048652 621 LPAMVES-KISDGASFGRSLFERLTLLNHSKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGP 699 (1382)
Q Consensus 621 LpP~V~s-~~a~~~g~~~SLFeRL~~~~~~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p 699 (1382)
+||++.. .+.......+|+|.|+...+.|.+-|+.|+|..++|+.+.|..+ . .|...+.+......+..-.|. .-+
T Consensus 1036 lPPv~~n~afqkysnm~qslf~r~vRl~ip~i~lnaqgrar~sI~~Ly~wry-~-lLg~l~~v~~lp~f~~aNagf-~~~ 1112 (1320)
T KOG1806|consen 1036 LPPVVKNQAFQKYSNMEQSLFTRLVRLGVPIIDLNAQGRARASIASLYNWRY-P-LLGNLPHVSPLPRFQYANAGF-AYE 1112 (1320)
T ss_pred cCCcccchHHHHHhcchhhhhhcceecccceecchhhhhHHHHHHHHHHhhh-c-ccccCcCCccchhhhccccCc-eee
Confidence 9999954 45555677899999999999999999999999999999998664 3 234444433322111111111 247
Q ss_pred eEEEEecC--Cc--ccccccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhc--CCCCC
Q 048652 700 YTFINIIG--GR--EEFIYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYE--NKDGF 773 (1382)
Q Consensus 700 ~~fidv~~--g~--e~~~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~--~~~~~ 773 (1382)
+.|+++++ |. .++....+.|..||+.++.+...+..-|.... .|.|+|.|++|+..|++.+..... ...+.
T Consensus 1113 ~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgypa~---Kisilttyngq~~lirdii~rrc~~nPfig~ 1189 (1320)
T KOG1806|consen 1113 FQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGYPAN---KISILTTYNGQKSLIRDIINRRCSHNPFIGQ 1189 (1320)
T ss_pred EEEecchhhccccccCCCcccccCCchhhhHHHHHHHHHHhCCchh---HeeEEEeecchHHHHHHHHHHhccCCCccCC
Confidence 88999865 22 22266778899999999999999988887765 599999999999999999988765 34566
Q ss_pred cEEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeecccccceEEEEechhhhhcC---ccHHHHHHHH
Q 048652 774 TVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLWILGNERTLISS---ESIWGTLVCD 846 (1382)
Q Consensus 774 ~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s---~~~W~~li~~ 846 (1382)
.-.|.|||.|||+..|.||+|+|++. .+|.+.|.+|+.||+||||-+|+|++....+.+. .+.|+.|-..
T Consensus 1190 pAkv~tvdk~qgqqndfiIlslv~tr---~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~ 1262 (1320)
T KOG1806|consen 1190 PAKVTTVDKFQGQQNDFIILSLVRTR---EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKR 1262 (1320)
T ss_pred cccCCccccccccccceEEeeehhhh---hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhC
Confidence 78999999999999999999999987 5788999999999999999999999999877653 3566665443
No 11
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.96 E-value=1.2e-29 Score=280.87 Aligned_cols=105 Identities=28% Similarity=0.467 Sum_probs=71.1
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH--------HHcCCceEEecCChHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL--------LRIKCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L--------l~~~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
+||++|++||..++.. +.+.+||||||||||+|++.++..+ ...+.+||+|||||.|||++.+||.
T Consensus 1 ~ln~~Q~~Ai~~~~~~------~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~ 74 (236)
T PF13086_consen 1 KLNESQREAIQSALSS------NGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLK 74 (236)
T ss_dssp ---HHHHHHHHHHCTS------SE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcC------CCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHH
Confidence 4899999999999873 3369999999999999999999999 4568999999999999999999999
Q ss_pred HHhhhhhcCCCCccccccCCcceEEeccCCCCCcCchhhhhcHHHHHHH
Q 048652 321 RLVKESYKRDSRNNTPFCPLGDILLFGNKDRLKVNPGFEEIYLDYRVKR 369 (1382)
Q Consensus 321 ~l~~es~~~~~~~~~~~~~lgdIVr~Gn~~rm~I~~~L~~v~Ld~Rv~~ 369 (1382)
+..... .......++|+|++. ....+++..+.++..+..
T Consensus 75 ~~~~~~---------~~~~~~~~ir~~~~~-~~~~~~~~~~~~~~~~~~ 113 (236)
T PF13086_consen 75 KLLDED---------GKVYKPKIIRLGSEE-EKIHEDLQKFSLESKLEQ 113 (236)
T ss_dssp C-----------------TT--EEE---GG-TTS--TTGGGBHHHHHHT
T ss_pred hhcccc---------ccccccchhhhcccc-cccccccccccccccccc
Confidence 822221 012334699999987 234667777776665554
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.95 E-value=4.1e-27 Score=297.04 Aligned_cols=212 Identities=19% Similarity=0.258 Sum_probs=134.3
Q ss_pred CCccEEEecccccCChHHHHHHHHhc---CCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc-C-CCceecccc
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLA---GINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL-N-HSKHLLDIQ 656 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~---~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~-~-~~~~~L~~Q 656 (1382)
.+|++|+|||+|+++..+.-+.-.+. +..++++|||+.|. +....|-...++..+... + ...+.|+++
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 46999999999999999866554442 24589999999993 122233344455544332 2 246789999
Q ss_pred cCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHh
Q 048652 657 YRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKA 736 (1382)
Q Consensus 657 YRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~ 736 (1382)
||++++|.+++|..+=.+. ........ ....+. .|.+.+-. ..+.+.+++.+......
T Consensus 502 YRs~~~I~~~An~~i~~n~-----~~~~k~l~-s~~~g~--~p~v~~~~--------------~~~~~~il~~l~~~~~~ 559 (684)
T PRK11054 502 YRFNSRIGEVANRFIQQNP-----HQLKKPLN-SLTKGD--KKAVTLLP--------------EDQLEALLDKLSGYAKP 559 (684)
T ss_pred CCCCHHHHHHHHHHHHhCc-----cccCCccc-ccCCCC--CceEEEeC--------------CHHHHHHHHHHHHhhcC
Confidence 9999999999987652211 10000000 001111 22222211 02445555555544322
Q ss_pred hcCCCCCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCccccEEEEeecccCCCCC-------------
Q 048652 737 WVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGEEDIIIISTVRCNTGGS------------- 803 (1382)
Q Consensus 737 ~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~------------- 803 (1382)
..+|+||++|+.+...+.+.+...++ ..+|.+.|+|.++|.|+|.||+..+.....|-
T Consensus 560 ------~~~I~IL~R~~~~~~~~l~~~~~~~~---~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~ 630 (684)
T PRK11054 560 ------DERILLLARYHHLRPALLDKAATRWP---KLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEAL 630 (684)
T ss_pred ------CCcEEEEEechhhHHHHHHHHHhhcc---cCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcc
Confidence 34899999999988766555554433 23699999999999999999997664332100
Q ss_pred ----ccc--ccCCCcceeecccccceEEEEechh
Q 048652 804 ----IGF--ISNPQRVNVALTRARHCLWILGNER 831 (1382)
Q Consensus 804 ----iGF--l~d~rRLNVAlTRAK~~L~IVGn~~ 831 (1382)
-.| -.++|.+|||+||||+.|+|+.+..
T Consensus 631 ~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~ 664 (684)
T PRK11054 631 LPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKG 664 (684)
T ss_pred cccccccccHHHHHHHHHHhhhhhcEEEEEEcCC
Confidence 011 1247779999999999999998743
No 13
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.91 E-value=4.3e-23 Score=265.38 Aligned_cols=69 Identities=30% Similarity=0.320 Sum_probs=61.9
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..||+.|++||... .+..+|.|+||||||+|++.++++|+.. +.+||++|+||.|+.||.+|+.+++
T Consensus 8 ~~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 8 DSLNDKQREAVAAP---------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred HhcCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence 47999999999843 6789999999999999999999999974 4799999999999999999999976
Q ss_pred hh
Q 048652 324 KE 325 (1382)
Q Consensus 324 ~e 325 (1382)
..
T Consensus 79 ~~ 80 (721)
T PRK11773 79 GT 80 (721)
T ss_pred cc
Confidence 53
No 14
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.91 E-value=3.7e-23 Score=266.74 Aligned_cols=68 Identities=31% Similarity=0.308 Sum_probs=61.2
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..||+.|++||... .+..+|-|+||||||+|+..++++|+.. +.+||++|+||.|+.||.+|+.+++
T Consensus 3 ~~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~ 73 (726)
T TIGR01073 3 AHLNPEQREAVKTT---------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLL 73 (726)
T ss_pred cccCHHHHHHHhCC---------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHh
Confidence 46999999999843 6889999999999999999999999974 4799999999999999999999875
Q ss_pred h
Q 048652 324 K 324 (1382)
Q Consensus 324 ~ 324 (1382)
.
T Consensus 74 ~ 74 (726)
T TIGR01073 74 G 74 (726)
T ss_pred c
Confidence 4
No 15
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.91 E-value=3.9e-23 Score=265.96 Aligned_cols=69 Identities=32% Similarity=0.304 Sum_probs=61.8
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..||+.|++||... .+..+|.|+||||||+|++.++++|+.. +.+||++|+||.|++||.+|+.+++
T Consensus 3 ~~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 3 DGLNDKQREAVAAP---------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred cccCHHHHHHHcCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence 46999999999743 6789999999999999999999999974 4799999999999999999999976
Q ss_pred hh
Q 048652 324 KE 325 (1382)
Q Consensus 324 ~e 325 (1382)
..
T Consensus 74 ~~ 75 (715)
T TIGR01075 74 GT 75 (715)
T ss_pred cc
Confidence 53
No 16
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.90 E-value=1.4e-22 Score=258.01 Aligned_cols=67 Identities=30% Similarity=0.269 Sum_probs=60.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
.||++|++||... .+..+|.|+||||||+|++.++++|+.. +.+||++|+||.|+.+|.+|+.+.+.
T Consensus 2 ~Ln~~Q~~av~~~---------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEFV---------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 6999999999843 6788999999999999999999999964 46899999999999999999998754
No 17
>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=99.89 E-value=5.5e-22 Score=246.87 Aligned_cols=63 Identities=38% Similarity=0.423 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC-----CceEEecCChHHHHHHHHHHHH
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK-----CRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~-----~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+.|+.|+..++. +++.+|.||||||||||+..++..|.... .+|+++|||+.|+..+.+.+..
T Consensus 148 ~~Qk~A~~~al~-------~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 148 NWQKVAVALALK-------SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred HHHHHHHHHHhh-------CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 689999999987 68999999999999999999999987642 5899999999999987777654
No 18
>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=99.88 E-value=1.5e-21 Score=249.20 Aligned_cols=62 Identities=26% Similarity=0.255 Sum_probs=55.7
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCChHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTNVAITEL 315 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN~AVDeV 315 (1382)
...||+.|++||..++. +++.+|+|||||||||++.+++..+...+ .+|++||||+.|++.+
T Consensus 321 ~~~l~~~Q~~Ai~~~~~-------~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ-------HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred CCCCCHHHHHHHHHHHh-------CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHH
Confidence 45799999999999865 57999999999999999999998888777 8999999999999844
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.87 E-value=4.2e-21 Score=239.26 Aligned_cols=66 Identities=32% Similarity=0.399 Sum_probs=58.1
Q ss_pred CCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHH
Q 048652 250 LNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.|+.|+..++. .++.+|.||||||||||+..++..+++. +.+|+++|||+.|+..+.+++...
T Consensus 153 ~~d~Qk~Av~~a~~-------~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~ 222 (615)
T PRK10875 153 EVDWQKVAAAVALT-------RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKA 222 (615)
T ss_pred CCHHHHHHHHHHhc-------CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhh
Confidence 45899999999987 6899999999999999999999998764 358999999999999888877653
No 20
>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=99.86 E-value=1.7e-19 Score=242.69 Aligned_cols=68 Identities=22% Similarity=0.231 Sum_probs=59.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC---CceEEecCChHHHHHHHHHHHHHhhh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK---CRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~---~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
++++.|++||.. .....+|.|+||||||+|++.++..++..+ .+||++|+||.|+.||.+|+.+.+.+
T Consensus 1 ~~t~~Q~~ai~~---------~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~ 71 (1232)
T TIGR02785 1 QWTDEQWQAIYT---------RGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQK 71 (1232)
T ss_pred CCCHHHHHHHhC---------CCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHH
Confidence 378999999983 256789999999999999999999888754 46999999999999999999887654
No 21
>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=99.82 E-value=4.2e-19 Score=227.73 Aligned_cols=64 Identities=20% Similarity=0.171 Sum_probs=56.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa 316 (1382)
...||+.|+.||..++.. .++.+|+|||||||||++.+++..+-..+.+|++||||+.|+..+.
T Consensus 350 ~~~Ls~~Q~~Av~~i~~s------~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTGS------GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred cCCCCHHHHHHHHHHhcC------CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHH
Confidence 467999999999988752 5799999999999999999998888888999999999999998654
No 22
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.81 E-value=1.1e-17 Score=220.11 Aligned_cols=157 Identities=17% Similarity=0.185 Sum_probs=99.3
Q ss_pred CCccEEEecccccCChHHHHHHHHhc-----C-----CCeEEEEecCCCCCccccccccccCCccccHHHHHHhc-CCCc
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLA-----G-----INHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL-NHSK 650 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~-----~-----~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~-~~~~ 650 (1382)
..|++|+|||+|+++..|.-+...+. + .+.+++|||++|- +....|-...+|.++... +...
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS-------IY~FRGA~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS-------IYRFRGGKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh-------hhhhcCCChHHHHHHHHHhhhhh
Confidence 57999999999999999854443321 1 3579999999992 233334455678877543 2246
Q ss_pred eecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHH
Q 048652 651 HLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKIL 730 (1382)
Q Consensus 651 ~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV 730 (1382)
..|++|||++|+|.+++|..|-.. ....+. .. . ......+.+.+... . .....++..+++.|
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~-~~-~-----~~~~~~g~v~i~~~-~---------~~~~~~a~~ia~~I 461 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKK-YKNYKT-QY-A-----EQHKSGGYVEVVEV-A---------DESEELLEQLLQEI 461 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHH-HHhhhh-hh-c-----ccccCCCcEEEEEC-C---------CccHHHHHHHHHHH
Confidence 789999999999999999988431 110000 00 0 00011122222221 1 01234578888888
Q ss_pred HHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhh
Q 048652 731 QKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSE 766 (1382)
Q Consensus 731 ~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~ 766 (1382)
..++..+.. ..+|+||++.+.|+..+.+.|.+.
T Consensus 462 ~~l~~~g~~---~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 462 QFLLEKGID---PDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHcCCC---cCCEEEEEecCccHHHHHHHHHhc
Confidence 888877643 448999999888777776666543
No 23
>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=99.81 E-value=6e-18 Score=225.58 Aligned_cols=174 Identities=16% Similarity=0.039 Sum_probs=104.7
Q ss_pred CCccEEEecccccCChHHHHHHHHhcC-CC--eEEEEecCCCCCccccccccccCCccccHHHHHHhcCCCceecccccC
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLAG-IN--HAVLIGDECQLPAMVESKISDGASFGRSLFERLTLLNHSKHLLDIQYR 658 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~~-~k--rlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~~~~~~~L~~QYR 658 (1382)
..|++|+|||+|+++..|.-+.-.+.+ .. .+++||||+|- +....|-+...|-++...-...+.|++|||
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 589999999999999999776655543 22 79999999992 233334444555555433335689999999
Q ss_pred CCcccccccccccccccccc-----Ccccccccc---cccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHH
Q 048652 659 MHPSISLFPNLQFYRNQILD-----GANVKSKSY---EKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKIL 730 (1382)
Q Consensus 659 mhp~I~~f~n~~FY~g~L~~-----~~~v~~~~~---~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV 730 (1382)
++|+|.+++|..|-...-.. ...+..... .....++...+++.++....... +....-..+|..+...|
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~---~~~~~~~~~a~~~a~~I 444 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE---GVDDYRQTIAQKCAREI 444 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc---ccchHHHHHHHHHHHHH
Confidence 99999999999885321100 001111000 00011222234555554422110 00011234566677777
Q ss_pred HHHHHhhc------------CCCCCceEEEEeccHHHHHHHHHHHhh
Q 048652 731 QKLYKAWV------------GSKQMVSIGVVSPYTAQVVAIRKKIGS 765 (1382)
Q Consensus 731 ~~L~~~~~------------~~~~~~~IgVITPY~aQv~~I~~~L~~ 765 (1382)
..++..+. .+....||+|+++.+.|...+++.|.+
T Consensus 445 ~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~ 491 (1087)
T TIGR00609 445 ALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKK 491 (1087)
T ss_pred HHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHH
Confidence 77665431 223456999999998888888887754
No 24
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.78 E-value=1.1e-17 Score=197.91 Aligned_cols=208 Identities=24% Similarity=0.203 Sum_probs=142.8
Q ss_pred CCCccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc----CCCceecccc
Q 048652 581 IEPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL----NHSKHLLDIQ 656 (1382)
Q Consensus 581 ~~~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~----~~~~~~L~~Q 656 (1382)
...+.++|||||++.+..+....-.+.++..+.++||..|-- ...++ ..+.++|+... ...-+.|..+
T Consensus 526 ~~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i-------~~~~~-e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 526 ERRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVI-------YDEAQ-ELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred cccccceeechhhhcchhhhHHHhhhhhhccceEeccCCcee-------hhhhc-ccCHHHHHHHHHhCCCchhhhhhhh
Confidence 346899999999999998876666677888999999999921 11111 12455555432 2346779999
Q ss_pred cCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHh
Q 048652 657 YRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKA 736 (1382)
Q Consensus 657 YRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~ 736 (1382)
||++.+|.+|+|...= +.....+ +...+..|.+ -.+..|..=++.+-+++.++-+.
T Consensus 598 yrSt~eI~efan~~l~-----d~~~~~p-------~~rsge~p~~------------i~~~~ne~l~qr~~~ii~~mkk~ 653 (747)
T COG3973 598 YRSTAEIDEFANSLLP-----DRFRIHP-------LTRSGEKPAV------------IMSVANEELVQRNPDIIPRMKKR 653 (747)
T ss_pred hcChHHHHHHHHHhcc-----CCCccch-------hhcCCCCcee------------eeccchHHHHHhhHHHHHHHHhc
Confidence 9999999999986642 1111100 0001112222 22334555567777788888776
Q ss_pred hcCCCCCceEEEEeccHHHHHHHHHHHhhhhc--------CCCCCcEEEecccCCCCccccEEEEeecccCCCCCccccc
Q 048652 737 WVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYE--------NKDGFTVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFIS 808 (1382)
Q Consensus 737 ~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~--------~~~~~~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~ 808 (1382)
+.. .||||||.-+|+..+.+.|+..-. ..-..+..|..|+-.+|.|+|.||+--.. +-. .--.
T Consensus 654 ~~e-----tiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e---~te~ 724 (747)
T COG3973 654 GSE-----TIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVE---ETEQ 724 (747)
T ss_pred CCC-----ceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhc---cccc
Confidence 654 799999999999999999976532 23334688999999999999998875432 111 1124
Q ss_pred CCCcceeecccccceEEEEec
Q 048652 809 NPQRVNVALTRARHCLWILGN 829 (1382)
Q Consensus 809 d~rRLNVAlTRAK~~L~IVGn 829 (1382)
+.+-||||+|||-|.|+|+|-
T Consensus 725 ~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 725 DLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred chhhHHHHHHHHHHHHHHhhc
Confidence 788999999999999999874
No 25
>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=99.78 E-value=1.5e-16 Score=214.40 Aligned_cols=85 Identities=20% Similarity=0.216 Sum_probs=64.0
Q ss_pred CCccEEEecccccCChHHHHHHHHhcC------------CCeEEEEecCCCCCccccccccccCCccccHHHHHHhc---
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLAG------------INHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL--- 646 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~~------------~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~--- 646 (1382)
..|++|+|||+|+++..|.-+...+.. .+.+++|||++| .+....|-+..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ-------SIY~FRGAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ-------SIYSFQGADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc-------cCccccCCCHHHHHHHHHHHHH
Confidence 589999999999999999665544421 367999999999 2334445566677665321
Q ss_pred -------CCCceecccccCCCccccccccccccc
Q 048652 647 -------NHSKHLLDIQYRMHPSISLFPNLQFYR 673 (1382)
Q Consensus 647 -------~~~~~~L~~QYRmhp~I~~f~n~~FY~ 673 (1382)
......|++|||++|+|.+++|..|-+
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 123578999999999999999999855
No 26
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.78 E-value=1.9e-17 Score=221.24 Aligned_cols=176 Identities=17% Similarity=0.121 Sum_probs=109.4
Q ss_pred CCccEEEecccccCChHHHHHHHHhcC-----CCeEEEEecCCCCCccccccccccCCccccHHHHHHh--cCCCceecc
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLAG-----INHAVLIGDECQLPAMVESKISDGASFGRSLFERLTL--LNHSKHLLD 654 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~~-----~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~--~~~~~~~L~ 654 (1382)
..|++|+|||+|+.+..|.-|.-.+.. ...++|||||+| .+....|-+..+|..... .......|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ-------SIY~FRgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ-------SIYRFRGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH-------HhhhhcCCChHHHHHHhhccccCceeecc
Confidence 589999999999999999666544432 248999999999 244555667778888777 456688999
Q ss_pred cccCCCccccccccccccccc-cccCccccccccccc----CCCCC---CCCCe-EEEEecCC-cccc--cccCCCCHHH
Q 048652 655 IQYRMHPSISLFPNLQFYRNQ-ILDGANVKSKSYEKH----YLPGT---EFGPY-TFINIIGG-REEF--IYHSCRNMVE 722 (1382)
Q Consensus 655 ~QYRmhp~I~~f~n~~FY~g~-L~~~~~v~~~~~~~~----~l~~~---~~~p~-~fidv~~g-~e~~--~~~S~~N~~E 722 (1382)
+|||++|++.+++|..|=.-. ... +.+....+... ..++. ...|. .+...+.. .... .........+
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 528 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYP-GEIDYDPVAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADLE 528 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcC-CCCCCchhhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHHHHHHH
Confidence 999999999999999985321 000 00110000000 00000 00111 11111100 0000 0112334566
Q ss_pred HHHHHHHHHHHHHhhc-----CCCCCceEEEEeccHHHHHHHHHHHhh
Q 048652 723 VSVVIKILQKLYKAWV-----GSKQMVSIGVVSPYTAQVVAIRKKIGS 765 (1382)
Q Consensus 723 a~~V~~lV~~L~~~~~-----~~~~~~~IgVITPY~aQv~~I~~~L~~ 765 (1382)
|..|...+..+...+. .+...+||+|+++-+.++..|++.|++
T Consensus 529 a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~ 576 (1139)
T COG1074 529 ARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKK 576 (1139)
T ss_pred HHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHh
Confidence 7777777777765432 345677999999999999999888866
No 27
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.77 E-value=1.4e-17 Score=216.19 Aligned_cols=64 Identities=17% Similarity=0.126 Sum_probs=56.7
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa 316 (1382)
...||+.|+.||..... ..++.+|+|+|||||||++..+...+-..|.+|+.+|||+.|+..+.
T Consensus 379 ~~~Ls~eQ~~Av~~i~~------~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 379 HARLSDEQKTAIEHVAG------PARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCCCCHHHHHHHHHHhc------cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHH
Confidence 36899999999998654 26899999999999999999998888888999999999999998653
No 28
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.76 E-value=1e-17 Score=216.79 Aligned_cols=64 Identities=16% Similarity=0.130 Sum_probs=55.6
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa 316 (1382)
...||+.|+.||..++.. .++.+|+|+|||||||++..+...+-..+.+|+.||||+.|+..+.
T Consensus 344 g~~Ls~eQr~Av~~il~s------~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~ 407 (988)
T PRK13889 344 GLVLSGEQADALAHVTDG------RDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLE 407 (988)
T ss_pred CCCCCHHHHHHHHHHhcC------CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHh
Confidence 357999999999988763 5699999999999999998877777777999999999999998653
No 29
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.76 E-value=6.8e-16 Score=206.44 Aligned_cols=174 Identities=15% Similarity=0.069 Sum_probs=100.9
Q ss_pred CCccEEEecccccCChHHHHHHHHhcC---CCeEEEEecCCCCCccccccccccCCccccHHHHHHhcCCCceecccccC
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLAG---INHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLLNHSKHLLDIQYR 658 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~~---~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~~~~~~~L~~QYR 658 (1382)
..|++|+|||+|+++..+.-+...+.. ...+++||||+|- +....|-+...|-.........+.|++|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQs-------IY~FRGAd~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQA-------IYAFRGADIFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccc-------cccCCCCCchHHHHHHhccCCeeECCCCcC
Confidence 589999999999999999776665542 3479999999993 122222232223222222234678999999
Q ss_pred CCccccccccccccccccc------cCcccccc--cccccC-CCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHH
Q 048652 659 MHPSISLFPNLQFYRNQIL------DGANVKSK--SYEKHY-LPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKI 729 (1382)
Q Consensus 659 mhp~I~~f~n~~FY~g~L~------~~~~v~~~--~~~~~~-l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~l 729 (1382)
++++|.+++|..|-...-. +-.++... .....+ ..+...+++.+.-. .+... ........||..++..
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~--~~~~~~~~eA~~iA~~ 525 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGEGV--GVGDYQQTMAQQCAAQ 525 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCCcc--CcchHHHHHHHHHHHH
Confidence 9999999999988543210 00001000 000000 00111123333222 11110 1112235578888888
Q ss_pred HHHHHHhhc------------CCCCCceEEEEeccHHHHHHHHHHHhh
Q 048652 730 LQKLYKAWV------------GSKQMVSIGVVSPYTAQVVAIRKKIGS 765 (1382)
Q Consensus 730 V~~L~~~~~------------~~~~~~~IgVITPY~aQv~~I~~~L~~ 765 (1382)
|..++..+. .+....||+|+++.+.|...+++.|.+
T Consensus 526 I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~ 573 (1181)
T PRK10876 526 IRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTL 573 (1181)
T ss_pred HHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHh
Confidence 888876542 123456999999998888888777754
No 30
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.74 E-value=6.8e-17 Score=207.37 Aligned_cols=156 Identities=15% Similarity=0.079 Sum_probs=97.5
Q ss_pred CCccEEEecccccCChHHHHHHHHhc-CCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc--CCCceecccccC
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL--NHSKHLLDIQYR 658 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~-~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~--~~~~~~L~~QYR 658 (1382)
..|++|+|||+|+++..+.-+...+. ...++++|||++|- +....|-+...|.++... +...+.|.+|||
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 47899999999999999966665543 34589999999992 112223333444444332 234678999999
Q ss_pred CCccccccccccccccccccCcccccccccccCCC-CCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHhh
Q 048652 659 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLP-GTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKAW 737 (1382)
Q Consensus 659 mhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~-~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~~ 737 (1382)
++++|.+++|..|-.+. .. +.+...+ ....+++.++... ....|+..|+..|.......
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 99999999998653321 00 0000000 0111233333321 12458888877775322111
Q ss_pred cCCCCCceEEEEeccHHHHHHHHHHHhhh
Q 048652 738 VGSKQMVSIGVVSPYTAQVVAIRKKIGSE 766 (1382)
Q Consensus 738 ~~~~~~~~IgVITPY~aQv~~I~~~L~~~ 766 (1382)
.....+|+||++.+.|...+...|.+.
T Consensus 338 --~~~~~diAVL~R~~~~~~~l~~~l~~~ 364 (664)
T TIGR01074 338 --KTQYKDYAILYRGNHQSRLLEKALMQN 364 (664)
T ss_pred --CCCcccEEEEEecCchHHHHHHHHHHc
Confidence 223458999999999999999999775
No 31
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.69 E-value=1e-16 Score=175.06 Aligned_cols=65 Identities=40% Similarity=0.424 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~R 318 (1382)
.||+.|++|+...+.. ...+.+|+||||||||+++..++..+...+.+|+++||||.|++++.++
T Consensus 1 ~L~~~Q~~a~~~~l~~-----~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRAILTS-----GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHC-----TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhc-----CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHh
Confidence 4899999999999873 3569999999999999999999999999999999999999999987666
No 32
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.64 E-value=4.4e-15 Score=190.51 Aligned_cols=157 Identities=15% Similarity=0.110 Sum_probs=107.2
Q ss_pred CCccEEEecccccCChHHHHHHHHhcC-CCeEEEEecCCCCCccccccccccCCccccHHHHHHhcC--CCceecccccC
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLLN--HSKHLLDIQYR 658 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~l~~-~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~~--~~~~~L~~QYR 658 (1382)
.+|++|+|||+|+....+..+.-.+.+ ...+++|||+.|- +....|-....+.++...- .+.+.|..+||
T Consensus 212 ~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQs-------IY~frGA~~~ni~~f~~df~~~~~i~Le~NyR 284 (655)
T COG0210 212 ARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQS-------IYGFRGADPENILDFEKDFPAAKVIKLEQNYR 284 (655)
T ss_pred hhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCccc-------cceeCCCChHHHHHHHhhCCCCcEEEecCCCC
Confidence 589999999999999999766655544 4688899999992 2224444555555554432 36889999999
Q ss_pred CCccccccccccccccccccCcccccccccccCCC-CCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHhh
Q 048652 659 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLP-GTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKAW 737 (1382)
Q Consensus 659 mhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~-~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~~ 737 (1382)
+.+.|...+|..+=.+. ....... +.. ......+.++ .......||..+...+..+...+
T Consensus 285 St~~Il~~An~~i~~n~-----~r~~k~l---~~~~~~~~~~~~~~-----------~~~~~~~ea~~i~~~I~~l~~~~ 345 (655)
T COG0210 285 STPNILAAANKVIANNK-----KRQAKTL---RTEVEGSGEKVVLL-----------LANDEEDEARWIASEIDALIEIG 345 (655)
T ss_pred CcHHHHHHHHHHHhcCC-----ccCCCcc---eeccCCCCCCceEE-----------eCCChHHHHHHHHHHHHHHHHcC
Confidence 99999999997764211 1111110 011 1111122222 22334679999999999998887
Q ss_pred cCCCCCceEEEEeccHHHHHHHHHHHhhh
Q 048652 738 VGSKQMVSIGVVSPYTAQVVAIRKKIGSE 766 (1382)
Q Consensus 738 ~~~~~~~~IgVITPY~aQv~~I~~~L~~~ 766 (1382)
. ....+|+|+...+.|...+.+.+...
T Consensus 346 ~--~~~~d~aiL~R~n~~s~~~e~~l~~~ 372 (655)
T COG0210 346 K--VNYSDIAILYRTNAQSRLIEEALRAA 372 (655)
T ss_pred C--CChhhEEEEEecCcchHHHHHHHHHc
Confidence 4 23458999999999999999999754
No 33
>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=99.59 E-value=6.2e-14 Score=162.67 Aligned_cols=67 Identities=31% Similarity=0.273 Sum_probs=59.4
Q ss_pred CCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC----CceEEecCChHHHHHHHHHHHHHhhh
Q 048652 250 LNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK----CRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~----~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
||+.|.++|... .+..+|.|+||||||+|++.++..|+..+ .+||++|+||.|+.++.+||...+.+
T Consensus 1 l~~eQ~~~i~~~---------~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRST---------EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS----------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhCC---------CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 789999999972 68999999999999999999999999864 79999999999999999999998765
No 34
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.56 E-value=9.6e-14 Score=187.54 Aligned_cols=65 Identities=22% Similarity=0.230 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH----cCCceEEecCChHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR----IKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~----~~~RILVcAPTN~AVDeVa 316 (1382)
...||+.|+.||..++.. ...+.+|+|+|||||||++..++..+-. .+.+|+.||||+.|+.++.
T Consensus 965 ~~~Lt~~Q~~Av~~il~s-----~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709 965 MEGLTSGQRAATRMILES-----TDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred cCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence 357999999999999873 3579999999999999999988877643 2578999999999998654
No 35
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.53 E-value=2.4e-13 Score=181.32 Aligned_cols=64 Identities=22% Similarity=0.240 Sum_probs=54.3
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH----cCCceEEecCChHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR----IKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~----~~~RILVcAPTN~AVDeVa 316 (1382)
..||+.|++||..++.. ...+.+|+|+|||||||++..++..+.. .+.+|+.+|||+.|+..+.
T Consensus 834 ~~Lt~~Qr~Av~~iLts-----~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~ 901 (1623)
T PRK14712 834 EKLTSGQRAATRMILET-----SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMR 901 (1623)
T ss_pred cccCHHHHHHHHHHHhC-----CCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHH
Confidence 47999999999999873 3689999999999999999887766532 3678999999999998764
No 36
>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=99.51 E-value=6.6e-14 Score=156.38 Aligned_cols=169 Identities=19% Similarity=0.168 Sum_probs=98.0
Q ss_pred CccEEEecccccCChHHHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhcCCCceecccccCCCcc
Q 048652 583 PLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLLNHSKHLLDIQYRMHPS 662 (1382)
Q Consensus 583 ~fd~VIIDEAsQ~~E~e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~~~~~~~L~~QYRmhp~ 662 (1382)
++++++|||+++++.......+...+++.++++|||.|.+..-.........+... -.....+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISD--------ISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccc--------eeeeecceeEeecccc
Confidence 58999999999999766555555566789999999999866533221111111111 1233457788999988
Q ss_pred cccccccccc-ccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHhhcCCC
Q 048652 663 ISLFPNLQFY-RNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKAWVGSK 741 (1382)
Q Consensus 663 I~~f~n~~FY-~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~ 741 (1382)
+..+.+...+ ...... ..+. .+.. . ....
T Consensus 134 ~~~~~~~~~~~~~~~~~------------------~~~~-~~~~-~------------------------------~~~~ 163 (234)
T PF01443_consen 134 RFDIISALVYTEDHVES------------------SVEF-RVET-D------------------------------PSGV 163 (234)
T ss_pred cceeeecccccCCceee------------------cccc-cccc-c------------------------------Cccc
Confidence 8888775511 110000 0000 0000 0 0000
Q ss_pred CCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcE-EEecccCCCCccccEEEEeecccCCCCCcccc-cCCCcceeeccc
Q 048652 742 QMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTV-KVKSVDGFQGGEEDIIIISTVRCNTGGSIGFI-SNPQRVNVALTR 819 (1382)
Q Consensus 742 ~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v-~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl-~d~rRLNVAlTR 819 (1382)
+ ..+.+++...+.. +.+ .. .+.|++.+||.|+|.|++-...... .... .++++++||+||
T Consensus 164 ~-~~~~~~~~~~~~~----~~~----------~~~~~~T~~e~qG~tf~~V~l~~~~~~~---~~~~~~~~~~~~VALTR 225 (234)
T PF01443_consen 164 D-KVIVYLTFTQAEK----EQL----------GSDRVFTVHESQGLTFDNVTLVLLSDTD---NELYSESRNHLYVALTR 225 (234)
T ss_pred C-cccchhhHHHHHH----HHc----------CCCceechHHcceEEeCCEEEEECCCcc---cccccCCcccEEEEccc
Confidence 0 0122222222221 111 12 5899999999999988875543322 1222 369999999999
Q ss_pred ccceEEEE
Q 048652 820 ARHCLWIL 827 (1382)
Q Consensus 820 AK~~L~IV 827 (1382)
||+.|.|+
T Consensus 226 ~~~~l~i~ 233 (234)
T PF01443_consen 226 HTKSLVIL 233 (234)
T ss_pred cccEEEEE
Confidence 99999986
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=99.41 E-value=1.5e-12 Score=180.82 Aligned_cols=65 Identities=23% Similarity=0.248 Sum_probs=53.7
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH----HcCCceEEecCChHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL----RIKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll----~~~~RILVcAPTN~AVDeVa 316 (1382)
...||+.|+.||...+.. ...+.+|+|+|||||||++..++..+. ..+.+|+.+|||+.|+.++.
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~~-----~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIIST-----KDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred cCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHH
Confidence 457999999999998863 357999999999999999965544433 35889999999999999774
No 38
>PF13245 AAA_19: Part of AAA domain
Probab=99.23 E-value=1.8e-11 Score=113.25 Aligned_cols=57 Identities=40% Similarity=0.471 Sum_probs=51.3
Q ss_pred HHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHH
Q 048652 257 AVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRA 319 (1382)
Q Consensus 257 AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL 319 (1382)
||..++. .+++.+|+||||||||+|+..++..++.. +.+||+++|||.|++++.+|+
T Consensus 2 av~~al~------~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALA------GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHh------hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 5665655 26899999999999999999999999976 899999999999999999999
No 39
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.07 E-value=3.3e-11 Score=155.83 Aligned_cols=61 Identities=25% Similarity=0.227 Sum_probs=54.6
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITE 314 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDe 314 (1382)
...++++|..|+..++. ++..+|.||||||||+++...+..+......+++.+||-.|...
T Consensus 317 ~~~~~~~q~~a~~vl~~-------de~smlt~~~~~~~~~~~~~~~~l~~~~~~~~l~aa~tG~a~~~ 377 (696)
T COG0507 317 KLRLSLEQKEALDVLVV-------DEVSMLTGGPGTGKTTAIKAIARLIKEGDGDQLLAAPTGKAAKR 377 (696)
T ss_pred CCCcCcccHHHHHHHhc-------CCeeEEeccCCcchHHHHHHHHHHHHhcCCcEEeechhhHHHHH
Confidence 36899999999999987 79999999999999999999988888888889999999977663
No 40
>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=99.06 E-value=7.4e-09 Score=144.76 Aligned_cols=66 Identities=20% Similarity=0.153 Sum_probs=59.2
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~ 317 (1382)
...||+.|++||..++.. ...+.+|+|||||||||++..++..+-..|.+|.+||||+.|+..+.+
T Consensus 427 ~~~Ls~~Q~~Av~~il~s-----~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e 492 (1960)
T TIGR02760 427 EFALSPSNKDAVSTLFTS-----TKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQ 492 (1960)
T ss_pred cCCCCHHHHHHHHHHHhC-----CCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHH
Confidence 468999999999998873 468999999999999999999998888889999999999999986654
No 41
>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=99.05 E-value=6.9e-10 Score=132.27 Aligned_cols=86 Identities=14% Similarity=0.166 Sum_probs=55.1
Q ss_pred CCccEEEecccccCChH----------HHHHHHHhcCCCeEEEEecCCCCCccccccccccCCccccHHHHHHhc-CCC-
Q 048652 582 EPLNFLVIDEAAQLKES----------ESTIPLQLAGINHAVLIGDECQLPAMVESKISDGASFGRSLFERLTLL-NHS- 649 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~----------e~lipL~l~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~SLFeRL~~~-~~~- 649 (1382)
..+|+||||||+.+..- ..+.-+ +...+.+|++-|+.|. +.. .+.+ ....++.+... +..
T Consensus 82 ~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i-~~~~kv~v~f~D~~Q~---i~~---~e~~-~~~~l~~~~~~~~~~~ 153 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEI-IKRAKVVVFFYDENQS---IRP---SEIG-TLENLEEIAENLGIEV 153 (352)
T ss_pred CcCCEEEEehhHhhhhccccccccccHHHHHHH-HhcCCEEEEEEccccE---eec---ccCC-CHHHHHHHHHhcCCcc
Confidence 58999999999999881 222222 2235788999999993 211 1111 12234444332 332
Q ss_pred -c-eecccccCC--Cccccccccccccccc
Q 048652 650 -K-HLLDIQYRM--HPSISLFPNLQFYRNQ 675 (1382)
Q Consensus 650 -~-~~L~~QYRm--hp~I~~f~n~~FY~g~ 675 (1382)
. +.|+.|||| .+++.+|++..++...
T Consensus 154 ~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 154 RHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred ccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 2 389999999 8999999988876543
No 42
>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=99.03 E-value=5.3e-10 Score=133.75 Aligned_cols=66 Identities=23% Similarity=0.265 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITEL 315 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeV 315 (1382)
.||+.|+.++...+.++.. ..+....|.||+|||||+++.++...+...+..+++||||..|+.++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~-~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIEN-EEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHc-cCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 4899999999999887643 56778899999999999999999999988899999999999998765
No 43
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.62 E-value=1.9e-07 Score=109.86 Aligned_cols=239 Identities=17% Similarity=0.173 Sum_probs=127.0
Q ss_pred CCccEEEecccccCChHHHHHHHH---hcCCCeEEEEecCCCC-------Ccc-ccccccccCCccccHHHHHHhcCCCc
Q 048652 582 EPLNFLVIDEAAQLKESESTIPLQ---LAGINHAVLIGDECQL-------PAM-VESKISDGASFGRSLFERLTLLNHSK 650 (1382)
Q Consensus 582 ~~fd~VIIDEAsQ~~E~e~lipL~---l~~~krlVLVGD~~QL-------pP~-V~s~~a~~~g~~~SLFeRL~~~~~~~ 650 (1382)
.-+|+|+|||+|+.+. ..+-|. ....+++|.+||..|- ||. +....... ....+ +.| ..-..
T Consensus 294 ~~yD~ilIDE~QDFP~--~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg-~P~V~-l~r---adr~D 366 (660)
T COG3972 294 KAYDYILIDESQDFPQ--SFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDG-EPRVN-LAR---ADRND 366 (660)
T ss_pred ccccEEEecccccCCH--HHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCC-Ccccc-ccc---Ccccc
Confidence 4689999999999864 333333 3467899999999994 332 11111110 00011 001 11234
Q ss_pred eecccccCCCcccccccccc---cccccc--ccCccc-cccccc--c-c-------CCCCCCCCCeEEEEecCCcccc--
Q 048652 651 HLLDIQYRMHPSISLFPNLQ---FYRNQI--LDGANV-KSKSYE--K-H-------YLPGTEFGPYTFINIIGGREEF-- 712 (1382)
Q Consensus 651 ~~L~~QYRmhp~I~~f~n~~---FY~g~L--~~~~~v-~~~~~~--~-~-------~l~~~~~~p~~fidv~~g~e~~-- 712 (1382)
+.|..-||..|...-++..+ .|.+-. -+.|.. .+-.|. + . .+..+......|++..+..+..
T Consensus 367 iVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~ 446 (660)
T COG3972 367 IVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHL 446 (660)
T ss_pred chHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhhe
Confidence 67999999988766555443 233211 111110 000000 0 0 0000001111223221111111
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHH----HHHHHHHHHhhhhc--------------CCCCCc
Q 048652 713 IYHSCRNMVEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTA----QVVAIRKKIGSEYE--------------NKDGFT 774 (1382)
Q Consensus 713 ~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~a----Qv~~I~~~L~~~~~--------------~~~~~~ 774 (1382)
--.+---..|+.+|...+....+... .+.||.||.+--. -...+.+.|....- -.....
T Consensus 447 fi~fd~~~deivwi~~qI~~~~edeL---e~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgk 523 (660)
T COG3972 447 FIGFDNGPDEIVWIIIQIKEFREDEL---EQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGK 523 (660)
T ss_pred eeccCCcchhhHHHHHHHHHhccccc---ccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCce
Confidence 00111124577777777776433333 3458999987433 23333333332210 011126
Q ss_pred EEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeecccccceEEEEechhhh
Q 048652 775 VKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLWILGNERTL 833 (1382)
Q Consensus 775 v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L 833 (1382)
|.+.+|.+..|.|+.+|+.-.+..-. .|....+|-+.+|+||.|--+-|+|-...+
T Consensus 524 vtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~glgpqm 579 (660)
T COG3972 524 VTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVGLGPQM 579 (660)
T ss_pred EEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhccChHH
Confidence 89999999999999999987765543 465667789999999999988888844433
No 44
>PRK10536 hypothetical protein; Provisional
Probab=98.59 E-value=5.8e-07 Score=101.08 Aligned_cols=57 Identities=23% Similarity=0.146 Sum_probs=42.5
Q ss_pred CCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH-HcCC-ceEEecCC
Q 048652 245 SLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL-RIKC-RTLACTPT 308 (1382)
Q Consensus 245 ~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~-RILVcAPT 308 (1382)
......|..|..++....+ .++.++.||+|||||+++.++....+ .... +++++-|+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~-------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 55 SPILARNEAQAHYLKAIES-------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred ccccCCCHHHHHHHHHHhc-------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 3445799999998886543 57999999999999999999888655 4334 44444444
No 45
>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=98.54 E-value=1.8e-05 Score=108.18 Aligned_cols=152 Identities=11% Similarity=-0.020 Sum_probs=83.5
Q ss_pred ccEEEecccccCChHHHHHHHHh-cCCCeEEEEecCCCCCcccccccc-ccCCccccHHHHHHhcCCCceecccccCCCc
Q 048652 584 LNFLVIDEAAQLKESESTIPLQL-AGINHAVLIGDECQLPAMVESKIS-DGASFGRSLFERLTLLNHSKHLLDIQYRMHP 661 (1382)
Q Consensus 584 fd~VIIDEAsQ~~E~e~lipL~l-~~~krlVLVGD~~QLpP~V~s~~a-~~~g~~~SLFeRL~~~~~~~~~L~~QYRmhp 661 (1382)
..+|+|||+++.+..+.-+.-.+ ..+++++++||..|-. ..... .-+.+....+.++.. +.+..+||..+
T Consensus 197 ~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~-----~~~~~~~~~~~ 268 (1158)
T TIGR02773 197 GAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKE-----LAKELGIEVEE 268 (1158)
T ss_pred CCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHH-----HHHHcCCCccc
Confidence 46999999999999986555444 3467899999999951 10000 001121223333322 22334555555
Q ss_pred ccccccccc--------ccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHH
Q 048652 662 SISLFPNLQ--------FYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKL 733 (1382)
Q Consensus 662 ~I~~f~n~~--------FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L 733 (1382)
.|..-.+.. .....+...+.. .......++.++.. . .-..|++.|+..|..+
T Consensus 269 ~i~~~~~~~~~~~~~l~~Lek~l~~~~~~---------~~~~~~~~I~i~~~-~----------~~~~Eae~va~~I~~l 328 (1158)
T TIGR02773 269 PIFLNEYRPNKKNKELAHLEKQFDARPFN---------AYIEEDGSISIFEA-N----------NRRAEVEGVARQILRL 328 (1158)
T ss_pred ccccccccCCCCCHHHHHHHHHHhhCCCC---------CCCCCCCCeEEEEc-C----------CHHHHHHHHHHHHHHH
Confidence 443211110 000011111000 00011123333332 1 1256999999999998
Q ss_pred HHh-hcCCCCCceEEEEecc-HHHHHHHHHHHhhh
Q 048652 734 YKA-WVGSKQMVSIGVVSPY-TAQVVAIRKKIGSE 766 (1382)
Q Consensus 734 ~~~-~~~~~~~~~IgVITPY-~aQv~~I~~~L~~~ 766 (1382)
+.. +. ...+|+|+++. +.+...|...|.+.
T Consensus 329 ~~~~g~---~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 329 TRDKQY---RYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred HHcCCC---ChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 875 33 24589999999 89999999999764
No 46
>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=98.46 E-value=1.5e-07 Score=110.53 Aligned_cols=57 Identities=25% Similarity=0.279 Sum_probs=42.7
Q ss_pred cEEEecccCCCCccccEEEEeecccCCCCC---c----ccccCCCcceeecccccceEEEEech
Q 048652 774 TVKVKSVDGFQGGEEDIIIISTVRCNTGGS---I----GFISNPQRVNVALTRARHCLWILGNE 830 (1382)
Q Consensus 774 ~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~---i----GFl~d~rRLNVAlTRAK~~L~IVGn~ 830 (1382)
.|.|+|||+..|.|+|+||+.....+.-+. + .+-.+.|.+|||+||||+.|+|++..
T Consensus 287 ~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 287 GVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp SEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred CcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 689999999999999999998775553221 1 12235677899999999999999864
No 47
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=98.40 E-value=1.1e-06 Score=96.32 Aligned_cols=54 Identities=28% Similarity=0.264 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCCh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTN 309 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN 309 (1382)
..|+.|+.++...+. .++..+.||+|||||.++.+....++..+ .||+++-|+-
T Consensus 4 p~~~~Q~~~~~al~~-------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v 59 (205)
T PF02562_consen 4 PKNEEQKFALDALLN-------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPV 59 (205)
T ss_dssp --SHHHHHHHHHHHH--------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S-
T ss_pred CCCHHHHHHHHHHHh-------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCC
Confidence 689999999999885 68999999999999999999888888765 4676665554
No 48
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.04 E-value=1.7e-05 Score=84.59 Aligned_cols=72 Identities=24% Similarity=0.168 Sum_probs=61.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCChHHHHHHHHHHHHHhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
...+++.|.+++...+.. ....+|.||+|||||+++...+...+... .++|+++||+..+.++..++.....
T Consensus 6 ~~~~~~~Q~~~~~~~~~~------~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 6 FEPLRPYQKEAIEALLSG------LRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred CCCCCHHHHHHHHHHHcC------CCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 457899999999988762 17999999999999999888888887765 8999999999999999988887643
No 49
>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=97.99 E-value=1.6e-06 Score=84.73 Aligned_cols=50 Identities=24% Similarity=0.248 Sum_probs=39.5
Q ss_pred cEEEecccCCCCccccEEEEeecccCCCCCcccccCCCcceeecccccceEEEE
Q 048652 774 TVKVKSVDGFQGGEEDIIIISTVRCNTGGSIGFISNPQRVNVALTRARHCLWIL 827 (1382)
Q Consensus 774 ~v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IV 827 (1382)
.+.+.|+|++||.|+|.||+........ -....+++|||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~~----~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSNF----DELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGSG----CGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcccC----CchhhccEEeeHhHhhhhhCCC
Confidence 6889999999999999999988765511 1235677999999999999997
No 50
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.93 E-value=2.8e-06 Score=107.71 Aligned_cols=286 Identities=22% Similarity=0.218 Sum_probs=187.4
Q ss_pred HhcCCcEEEEccccccc--cccccCCCccEEEecccccCChHHHHHHHHhc-CCCeEEEEecCCCCCccccccccccCCc
Q 048652 559 CFKRASLFFSTASSSYK--LHSVKIEPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVESKISDGASF 635 (1382)
Q Consensus 559 iL~~a~VI~~T~sss~~--l~~~~~~~fd~VIIDEAsQ~~E~e~lipL~l~-~~krlVLVGD~~QLpP~V~s~~a~~~g~ 635 (1382)
+++ .+|++.|...+.. ........+.+++.|||.|+.++..+.|+.++ ...+++|+||+.|+-|.+.+.......+
T Consensus 240 ~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~ 318 (775)
T KOG1804|consen 240 LFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQAL 318 (775)
T ss_pred hcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhh
Confidence 344 7788888776653 23333567899999999999999999998764 3568999999999999887655543332
Q ss_pred cccHHHHHH----hcCCCceecccccCCCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCccc
Q 048652 636 GRSLFERLT----LLNHSKHLLDIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREE 711 (1382)
Q Consensus 636 ~~SLFeRL~----~~~~~~~~L~~QYRmhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~ 711 (1382)
. .+..++. -.+.+.+-...+||++-.|..|.+..||.... ++....-.. .......|..|.........
T Consensus 319 ~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~--~p~~a~~k~----~~~rl~~p~~~~~~~~~~~~ 391 (775)
T KOG1804|consen 319 H-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVC--APSNASGKQ----PAHRLHYPLTFSTARGEDVR 391 (775)
T ss_pred h-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhcc--ccccccccc----cccccccccccccccccccc
Confidence 2 2222221 12556777899999999999999999996532 222221111 11112345555554222111
Q ss_pred c-cccCCCCHHHHHHHHHHHHHHHHhhcCCC---CCceEEEEeccHHHHHHHHHHHhhhhcCCCCCcEEEecccCCCCcc
Q 048652 712 F-IYHSCRNMVEVSVVIKILQKLYKAWVGSK---QMVSIGVVSPYTAQVVAIRKKIGSEYENKDGFTVKVKSVDGFQGGE 787 (1382)
Q Consensus 712 ~-~~~S~~N~~Ea~~V~~lV~~L~~~~~~~~---~~~~IgVITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVD~fQG~E 787 (1382)
. ....++|..|+..++.-++.+.+.+.... .-.++|++++|..|+..++..|.+.-+ +.+...--.+|..
T Consensus 392 ~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg------~stEpe~lv~i~~ 465 (775)
T KOG1804|consen 392 AKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAG------VSTEPELLVPGKQ 465 (775)
T ss_pred ccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccc------cccCccccccccc
Confidence 1 44567888899888888888886554221 223689999999999999988854422 2222222233333
Q ss_pred cc---EEEEeecccCCC------CCcccccCCCcceeecccccceEEEEechhhhhcC---ccHHHHHHHHHHhcCceec
Q 048652 788 ED---IIIISTVRCNTG------GSIGFISNPQRVNVALTRARHCLWILGNERTLISS---ESIWGTLVCDAKARQCFFK 855 (1382)
Q Consensus 788 ~D---iVIlS~Vrsn~~------~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s---~~~W~~li~~~~~r~~~~~ 855 (1382)
+- .||+++....-+ ..--+-.+...+|.|+|||-...-.+|+.+.+..- ..+|...+..+-.+..+|+
T Consensus 466 ~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~ 545 (775)
T KOG1804|consen 466 FRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYL 545 (775)
T ss_pred ccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccc
Confidence 32 566665432211 01112235778999999999999999999987654 4789999888888888888
Q ss_pred ccc
Q 048652 856 ADE 858 (1382)
Q Consensus 856 ~~~ 858 (1382)
..-
T Consensus 546 ~eL 548 (775)
T KOG1804|consen 546 GEL 548 (775)
T ss_pred cce
Confidence 643
No 51
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=97.92 E-value=2.1e-05 Score=83.84 Aligned_cols=72 Identities=21% Similarity=0.240 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
++|.+.|.+|+...+..+......+..+|+||+|||||-++..++..+.. ++++++|+..-+++....+...
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHHh
Confidence 46889999999999976544323689999999999999999998988888 9999999999888888888443
No 52
>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=97.72 E-value=7.1e-05 Score=74.99 Aligned_cols=51 Identities=27% Similarity=0.330 Sum_probs=45.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH--cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLR--IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~--~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..+|.||||||||+++...+..+.. ...++++++|++..+.+..+++....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~ 54 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELF 54 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHh
Confidence 4789999999999999999999887 46899999999999999998887754
No 53
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.65 E-value=3.6e-05 Score=87.29 Aligned_cols=66 Identities=33% Similarity=0.381 Sum_probs=50.3
Q ss_pred CCCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceE
Q 048652 236 GIWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTL 303 (1382)
Q Consensus 236 ~~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RIL 303 (1382)
..|.++++|....++- .|...|.....++.. ...++.|.+||||||||+|+.++..+|... ++|||
T Consensus 24 ~swteKYrPkt~de~~-gQe~vV~~L~~a~~~-~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl 92 (346)
T KOG0989|consen 24 RSWTEKYRPKTFDELA-GQEHVVQVLKNALLR-RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVL 92 (346)
T ss_pred cchHHHhCCCcHHhhc-chHHHHHHHHHHHhh-cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchh
Confidence 3478888887766665 455666665555555 567999999999999999999999999863 56666
No 54
>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=97.64 E-value=0.00021 Score=75.44 Aligned_cols=67 Identities=22% Similarity=0.199 Sum_probs=56.0
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCC--ceEEecCChHHHHHHHHHHHHHhh
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKC--RTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~--RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
++-|.+++...++ ....+|.||+|+|||......+...+..+. ++++++|+..-+.++..++.....
T Consensus 1 t~~Q~~~~~~i~~-------~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~ 69 (169)
T PF00270_consen 1 TPLQQEAIEAIIS-------GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFS 69 (169)
T ss_dssp -HHHHHHHHHHHT-------TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHHc-------CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccc
Confidence 4679999999875 466999999999999999877766665544 999999999999999999887644
No 55
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.53 E-value=8.4e-05 Score=93.73 Aligned_cols=70 Identities=26% Similarity=0.274 Sum_probs=59.9
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
.-||.+|..+....+ +..-+|+| ||+|||.++...+++++.. ...|++.+.||.|++++..++....
T Consensus 12 ~~l~~~q~~~~~~~~--------~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~il 82 (853)
T KOG2108|consen 12 SLLNKSQRFSALSPL--------RRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAIL 82 (853)
T ss_pred hhhhhhhhhhhcCCC--------cccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHHh
Confidence 468888988777642 47889999 8999999999999999976 3578999999999999999999987
Q ss_pred hhh
Q 048652 324 KES 326 (1382)
Q Consensus 324 ~es 326 (1382)
...
T Consensus 83 ~~~ 85 (853)
T KOG2108|consen 83 RTS 85 (853)
T ss_pred cCC
Confidence 665
No 56
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.36 E-value=0.0025 Score=80.75 Aligned_cols=75 Identities=17% Similarity=0.133 Sum_probs=61.6
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCChHHHHHHHHHHHHHh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
.-.+-.-|..||.....++..+++. .||.=.+|||||.|+.+++..|++.+ +|||..|-.|+-|++....+....
T Consensus 163 ~i~~RyyQ~~AI~rv~Eaf~~g~~r--aLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~ 239 (875)
T COG4096 163 AIGPRYYQIIAIRRVIEAFSKGQNR--ALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFL 239 (875)
T ss_pred cccchHHHHHHHHHHHHHHhcCCce--EEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhC
Confidence 3456678999999999988776544 66666679999999999999999985 899999999998888776665543
No 57
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.34 E-value=0.00019 Score=78.37 Aligned_cols=107 Identities=21% Similarity=0.262 Sum_probs=71.8
Q ss_pred CCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEe-cCChHHHH
Q 048652 237 IWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLAC-TPTNVAIT 313 (1382)
Q Consensus 237 ~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVc-APTN~AVD 313 (1382)
.|.++++|....+.-... +...-++.+...++-|..+|.|||||||||.+.++...|+.. +.-+|=. |.....+|
T Consensus 16 ~wVeKYrP~~l~dIVGNe--~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGID 93 (333)
T KOG0991|consen 16 PWVEKYRPSVLQDIVGNE--DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGID 93 (333)
T ss_pred hHHHhhCchHHHHhhCCH--HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccH
Confidence 478877776655443332 444455666677889999999999999999999999999975 3445543 44455788
Q ss_pred HHHHHHHHHhhhhhcCCCCccccccCCcceEEeccCCCC
Q 048652 314 ELASRALRLVKESYKRDSRNNTPFCPLGDILLFGNKDRL 352 (1382)
Q Consensus 314 eVa~RL~~l~~es~~~~~~~~~~~~~lgdIVr~Gn~~rm 352 (1382)
-|..++....... ....-|.-.|+-+...+.|
T Consensus 94 vVRn~IK~FAQ~k-------v~lp~grhKIiILDEADSM 125 (333)
T KOG0991|consen 94 VVRNKIKMFAQKK-------VTLPPGRHKIIILDEADSM 125 (333)
T ss_pred HHHHHHHHHHHhh-------ccCCCCceeEEEeeccchh
Confidence 8888887654432 1112233356666666655
No 58
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.17 E-value=0.0011 Score=66.93 Aligned_cols=58 Identities=26% Similarity=0.298 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
+.+..++...+. .......+|+||||||||+++..+...+...+..++.+..+..+..
T Consensus 4 ~~~~~~i~~~~~----~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~ 61 (151)
T cd00009 4 EEAIEALREALE----LPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEG 61 (151)
T ss_pred HHHHHHHHHHHh----CCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhh
Confidence 344555555544 2346789999999999999999998888877788888777655443
No 59
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.13 E-value=0.0011 Score=75.19 Aligned_cols=66 Identities=21% Similarity=0.166 Sum_probs=47.5
Q ss_pred CHHHHHHHHHHHhhcccC-CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 251 NEPQVGAVFACLRRLDCD-HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~-~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
++.|+.|+..+..-.... +.....+++||||||||+++.+++..+...+.++++++ +.++..++..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it-----~~~l~~~l~~ 144 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-----VADIMSAMKD 144 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-----HHHHHHHHHH
Confidence 456777777665532211 12257899999999999999999999999999998884 3444444443
No 60
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.10 E-value=0.0016 Score=84.00 Aligned_cols=79 Identities=22% Similarity=0.243 Sum_probs=65.2
Q ss_pred CCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 245 SLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 245 ~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
...+.|++.|++|+...+..+..+ .+-..||+||.|||||.+....+...+..+.++++++||..-+.++..++.++..
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~-~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~ 309 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSD-VPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLA 309 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccC-CCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhc
Confidence 456789999999999998754321 2235799999999999988776777778899999999999999999999988654
No 61
>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=97.09 E-value=0.0019 Score=70.66 Aligned_cols=67 Identities=22% Similarity=0.158 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHH-HHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKT-VSMLLFSLLRI----KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTtt-I~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
.+++-|++|+...+. ....+|.+|+|+|||.+ +..++..+... +.++++++||..-+.+++..+...
T Consensus 21 ~~~~~Q~~~~~~~~~-------~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 21 KPTPIQARAIPPLLS-------GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 589999999998876 46799999999999988 45555555543 568999999999999888887764
No 62
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.03 E-value=0.0021 Score=83.50 Aligned_cols=81 Identities=21% Similarity=0.225 Sum_probs=67.1
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHh
Q 048652 244 PSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 244 ~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
....+.|++.|++|+......+... .+.-.|++||.|||||-+....+...+..+.++|++|||..-+.++++++.++.
T Consensus 256 ~~l~f~lt~~Q~~ai~~I~~d~~~~-~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~ 334 (681)
T PRK10917 256 ASLPFELTGAQKRVVAEILADLASP-KPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLL 334 (681)
T ss_pred HhCCCCCCHHHHHHHHHHHHhhhcc-CCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHH
Confidence 3456789999999999998854322 233689999999999999887777777889999999999999999999999876
Q ss_pred hh
Q 048652 324 KE 325 (1382)
Q Consensus 324 ~e 325 (1382)
..
T Consensus 335 ~~ 336 (681)
T PRK10917 335 EP 336 (681)
T ss_pred hh
Confidence 43
No 63
>PLN03025 replication factor C subunit; Provisional
Probab=96.98 E-value=0.00057 Score=80.76 Aligned_cols=60 Identities=32% Similarity=0.432 Sum_probs=40.6
Q ss_pred CccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 238 WDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 238 ~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
|.++++|....++-. |..++. .|..+...++.+..+++||||||||+++.+++..+...+
T Consensus 3 w~~kyrP~~l~~~~g-~~~~~~-~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 3 WVEKYRPTKLDDIVG-NEDAVS-RLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred hhhhcCCCCHHHhcC-cHHHHH-HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccc
Confidence 666666666555542 333333 333333344567799999999999999999999987654
No 64
>PRK08181 transposase; Validated
Probab=96.98 E-value=0.0016 Score=75.04 Aligned_cols=58 Identities=28% Similarity=0.334 Sum_probs=46.2
Q ss_pred CCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
....++..|..++..+-.=+ ......+++||||||||+++.++...++..+.+++.++
T Consensus 84 ~~~~~~~~~~~~L~~~~~~~---~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 84 AVPMVSKAQVMAIAAGDSWL---AKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR 141 (269)
T ss_pred CCCCCCHHHHHHHHHHHHHH---hcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence 34578999999987662111 12456999999999999999999999999999988775
No 65
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=96.94 E-value=0.0016 Score=75.66 Aligned_cols=121 Identities=24% Similarity=0.376 Sum_probs=75.0
Q ss_pred eeccCcccccccccccchhhhcc---cccccchHhhcCccccCChHHHHHhHHHHHHHHHhcCCChhhhhHhhchhh-HH
Q 048652 891 CYKPKYEKTTLCYDKDGETYWEG---RSTATDRKAAADPMCSSNPKEVKFNLQEAAEIFAAIGMPDSAVRCFNDLEK-YE 966 (1382)
Q Consensus 891 ~~~~~~~~~~~cf~~ag~~~~~~---~a~a~~l~~~a~~~~~~~~~~~~~~~~~aa~~fe~~~~~~~aa~c~~~~~~-y~ 966 (1382)
-..++|++|..||++|++.+... ...|-.+..+|......+++.+-..|++|.++|.+.|.+..||+|+..+++ |+
T Consensus 46 k~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye 125 (282)
T PF14938_consen 46 KLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYE 125 (282)
T ss_dssp HHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHC
T ss_pred HHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence 34568888888888888877631 222333446777788889999999999999999999999999999988887 55
Q ss_pred hh-hchHHHHhhHhhccChhHHHHHhhhcCchH-------HHhHHHHHhcCchhHHHHH
Q 048652 967 RA-GRFDELMMLEEGSGNFMEAANTAVLGGDIF-------LATDLLQKAGNFREASKLV 1017 (1382)
Q Consensus 967 ~a-~~~~el~~~~~~~~~~~eaa~~~~~~g~~~-------~~~~~l~~~~~~~~~~~~~ 1017 (1382)
+- |+++ .=+..|.+|++++...|... ..++++.+.|++++|.+..
T Consensus 126 ~~~~d~e------~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~ 178 (282)
T PF14938_consen 126 EQLGDYE------KAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIY 178 (282)
T ss_dssp CTT--HH------HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred HHcCCHH------HHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 54 4542 22233444444444444432 2233334444555555443
No 66
>PRK12377 putative replication protein; Provisional
Probab=96.91 E-value=0.0013 Score=74.81 Aligned_cols=56 Identities=23% Similarity=0.109 Sum_probs=40.0
Q ss_pred CHHHHHHHHHHHhhccc-CCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 251 NEPQVGAVFACLRRLDC-DHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~-~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
++.|+.|+..+..-... .......+++||||||||+++.+++..+...+..++.++
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~ 136 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT 136 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence 45676666654332111 012357899999999999999999999998888875553
No 67
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.91 E-value=0.00075 Score=67.43 Aligned_cols=40 Identities=28% Similarity=0.288 Sum_probs=33.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNV 310 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~ 310 (1382)
....+|.||||||||+++..++..+...+..++.++.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~ 41 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDI 41 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEc
Confidence 4789999999999999999998888777656777776664
No 68
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.90 E-value=0.0026 Score=79.90 Aligned_cols=68 Identities=21% Similarity=0.160 Sum_probs=58.0
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCC-ceEEecCChHHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKC-RTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~-RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.+-|++||..++. ..-.++++|+|+|||.++..++..++..+. ++|+++||..-++++.+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~-------~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLK-------NNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHh-------cCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 5789999999998886 344699999999999998877766666655 9999999999999999998764
No 69
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.85 E-value=0.0034 Score=81.47 Aligned_cols=73 Identities=23% Similarity=0.127 Sum_probs=63.0
Q ss_pred CCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
....|++.|++|+...+... .....+++||+|+|||.+...++...+..+.++|+++||..=+.++.+++.+.
T Consensus 141 ~~~~Lt~~Q~~ai~~i~~~~----~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 141 EPPTLNPEQAAAVEAIRAAA----GFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCCCCCHHHHHHHHHHHhcc----CCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 34579999999999987632 23569999999999999998888888888999999999999999999998764
No 70
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.84 E-value=0.0018 Score=69.85 Aligned_cols=48 Identities=31% Similarity=0.258 Sum_probs=40.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+.+|.||||||||++...++...++.+.+++..+... ..+++..++.+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~-~~~~~~~~~~~ 48 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE-SPEELIENAES 48 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC-CHHHHHHHHHH
Confidence 3689999999999999999999999999999988754 45666666654
No 71
>PRK06526 transposase; Provisional
Probab=96.79 E-value=0.0012 Score=75.58 Aligned_cols=57 Identities=23% Similarity=0.187 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
....++..|......+=- + ......+|+||||||||+++.++...+...|.+++..+
T Consensus 77 ~~~~~~~~~~~~l~~~~f-i---~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t 133 (254)
T PRK06526 77 HQRSLKRDTIAHLGTLDF-V---TGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFAT 133 (254)
T ss_pred cCCCcchHHHHHHhcCch-h---hcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhh
Confidence 345688877655443311 1 13467899999999999999999999999998887643
No 72
>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=96.74 E-value=0.0022 Score=66.44 Aligned_cols=50 Identities=22% Similarity=0.310 Sum_probs=42.1
Q ss_pred CCeEEEEcCCCCchHH-HHHHHHHHHHHcCCceEEecCChHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTK-TVSMLLFSLLRIKCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTt-tI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
..+..|.=.||+|||+ ++-.++..-+.++.|+||++||...++||.+-|.
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTT
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHh
Confidence 5789999999999999 6899999999999999999999999999987764
No 73
>PRK08116 hypothetical protein; Validated
Probab=96.72 E-value=0.0053 Score=70.88 Aligned_cols=59 Identities=17% Similarity=0.164 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHhhcc---c-CCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 248 STLNEPQVGAVFACLRRLD---C-DHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~---~-~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+.-++.|..|+..+..-+. . ...+...+++||||||||+++.++...++..+.+++..+
T Consensus 87 f~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 87 FLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred ccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 3446777767665543221 1 112335899999999999999999999998888877665
No 74
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=96.69 E-value=0.0038 Score=82.06 Aligned_cols=66 Identities=21% Similarity=0.267 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
..+..|..++.. ++..+|+|||||||||.+-..+......+.+|+++.||..|+.+++.|+.+...
T Consensus 5 ~~~~~i~~~l~~------~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~~ 70 (819)
T TIGR01970 5 AVLPALRDALAA------HPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQLG 70 (819)
T ss_pred HHHHHHHHHHHc------CCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 345677777763 689999999999999998776655444567999999999999999999976543
No 75
>PTZ00424 helicase 45; Provisional
Probab=96.69 E-value=0.0048 Score=75.01 Aligned_cols=68 Identities=22% Similarity=0.263 Sum_probs=53.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH---cCCceEEecCChHHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR---IKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~---~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+++.|.+|+...+. ..-.+|++|+|||||.+....+...+. .+.++|+++||..-+.++...+...
T Consensus 49 ~~~~~~Q~~ai~~i~~-------~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 49 EKPSAIQQRGIKPILD-------GYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCHHHHHHHHHHhC-------CCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 3689999999999887 345789999999999876655555544 3578999999998888877766654
No 76
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=96.63 E-value=0.0021 Score=78.61 Aligned_cols=81 Identities=25% Similarity=0.299 Sum_probs=69.7
Q ss_pred HhHHHHHHHHHhcCCChhhhhHhhchhhHHhhhch---------------------------------------------
Q 048652 937 FNLQEAAEIFAAIGMPDSAVRCFNDLEKYERAGRF--------------------------------------------- 971 (1382)
Q Consensus 937 ~~~~~aa~~fe~~~~~~~aa~c~~~~~~y~~a~~~--------------------------------------------- 971 (1382)
..|.+|.++||.|-++++|.+||.+..-|.||=.+
T Consensus 662 elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~~~kaiea 741 (1636)
T KOG3616|consen 662 ELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANCLIKAIEA 741 (1636)
T ss_pred HHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhhHHHHHHH
Confidence 47899999999999999999999999999999554
Q ss_pred ---------------------------HHHHhhHhhccChhHHHHHhhhcCchHHHhHHHHHhcCchhHHHHH
Q 048652 972 ---------------------------DELMMLEEGSGNFMEAANTAVLGGDIFLATDLLQKAGNFREASKLV 1017 (1382)
Q Consensus 972 ---------------------------~el~~~~~~~~~~~eaa~~~~~~g~~~~~~~~l~~~~~~~~~~~~~ 1017 (1382)
-|++.-=...|.|+-|-.++-..|..-.||+||.++|.|++|.++.
T Consensus 742 ai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla 814 (1636)
T KOG3616|consen 742 AIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLA 814 (1636)
T ss_pred HhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHH
Confidence 2222222567889999999999999999999999999999999987
No 77
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.61 E-value=0.0055 Score=72.44 Aligned_cols=50 Identities=22% Similarity=0.335 Sum_probs=36.3
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+.-+-++.||||||||||++..+.. ..+......+.+...|.++..-+.+
T Consensus 46 ~~l~SmIl~GPPG~GKTTlA~liA~---~~~~~f~~~sAv~~gvkdlr~i~e~ 95 (436)
T COG2256 46 GHLHSMILWGPPGTGKTTLARLIAG---TTNAAFEALSAVTSGVKDLREIIEE 95 (436)
T ss_pred CCCceeEEECCCCCCHHHHHHHHHH---hhCCceEEeccccccHHHHHHHHHH
Confidence 4467899999999999998766554 3366677777777777766555544
No 78
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.61 E-value=0.0041 Score=81.87 Aligned_cols=66 Identities=18% Similarity=0.273 Sum_probs=50.3
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
+.+..|..++.. ++..+|+|||||||||.+-..+..-...+.+|+|+.||..|+.+++.|+.+...
T Consensus 8 ~~~~~i~~~l~~------~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l~ 73 (812)
T PRK11664 8 AVLPELLTALKT------APQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQLG 73 (812)
T ss_pred HHHHHHHHHHHh------CCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHhC
Confidence 345567777763 678999999999999998644332222345999999999999999999976543
No 79
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.57 E-value=0.0038 Score=66.86 Aligned_cols=51 Identities=22% Similarity=0.156 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceE
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTL 303 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RIL 303 (1382)
++|.+.+...+. ....+.+.+.+|.||||||||+++..+...+...+.-++
T Consensus 6 ~~e~~~l~~~l~-~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~ 56 (185)
T PF13191_consen 6 EEEIERLRDLLD-AAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVI 56 (185)
T ss_dssp HHHHHHHHHTTG-GTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EE
T ss_pred HHHHHHHHHHHH-HHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEE
Confidence 456777887776 455667889999999999999999998888887743333
No 80
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.57 E-value=0.0029 Score=73.16 Aligned_cols=53 Identities=23% Similarity=0.392 Sum_probs=39.7
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+.-+-.++|||||||||+++..++..--....|.+-++.||+-+.++..-+.+
T Consensus 160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~ 212 (554)
T KOG2028|consen 160 NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQ 212 (554)
T ss_pred CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHH
Confidence 44577999999999999987665554444457788889999887777655543
No 81
>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=96.51 E-value=0.0077 Score=80.13 Aligned_cols=78 Identities=14% Similarity=0.065 Sum_probs=63.7
Q ss_pred CCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
..+.+++.|.+||...+..+... .+.-.||+||.|||||.++...+...+..+.++++++||..=+.++.+.+.+...
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~-~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~ 525 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESP-RPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFA 525 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhccc-CcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhc
Confidence 35679999999999998865432 2235799999999999998776666677789999999999999999988887643
No 82
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.49 E-value=0.0042 Score=71.10 Aligned_cols=56 Identities=21% Similarity=0.177 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
..+++|+..+..-..--.+..-.++.||||||||++++++...+++.|.+|+.++-
T Consensus 86 ~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~ 141 (254)
T COG1484 86 GIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA 141 (254)
T ss_pred chhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence 34555555554322111256789999999999999999999999977888877653
No 83
>PRK09183 transposase/IS protein; Provisional
Probab=96.48 E-value=0.0047 Score=70.95 Aligned_cols=58 Identities=17% Similarity=0.228 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 245 SLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 245 ~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
.....+|..|...+..+-. + .+....+|+||||||||+++.++...+...+.+++.+.
T Consensus 80 ~~~~~~~~~~i~~L~~~~~-i---~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 80 TFATGAPQKQLQSLRSLSF-I---ERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred ccCCCCCHHHHHHHhcCCc-h---hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 3445678877776654311 1 23567889999999999999999888888888888765
No 84
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=96.44 E-value=0.0036 Score=75.08 Aligned_cols=48 Identities=21% Similarity=0.295 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
.--+.|.+.+...+........++..+|.||||||||+++..++..+.
T Consensus 18 ~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~ 65 (365)
T TIGR02928 18 VHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE 65 (365)
T ss_pred CCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence 456788888888887654455567899999999999999988776664
No 85
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=96.44 E-value=0.0073 Score=71.09 Aligned_cols=79 Identities=20% Similarity=0.309 Sum_probs=48.5
Q ss_pred CCCccccCCCCCCC--CCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 236 GIWDEKFGPSLSST--LNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 236 ~~~~~~~~~~~~~~--LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
-.|.++++|....+ .++...+.+...+.. .+.+.+.+++||||||||+++.++...+ +..++.+.++..-++
T Consensus 9 ~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~---~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~~~~~ 82 (316)
T PHA02544 9 FMWEQKYRPSTIDECILPAADKETFKSIVKK---GRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSDCRID 82 (316)
T ss_pred CcceeccCCCcHHHhcCcHHHHHHHHHHHhc---CCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCcccHH
Confidence 35777777655444 455555555555542 2334577779999999999998887665 445555555542244
Q ss_pred HHHHHHH
Q 048652 314 ELASRAL 320 (1382)
Q Consensus 314 eVa~RL~ 320 (1382)
.+...+.
T Consensus 83 ~i~~~l~ 89 (316)
T PHA02544 83 FVRNRLT 89 (316)
T ss_pred HHHHHHH
Confidence 4444443
No 86
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.44 E-value=0.0062 Score=68.88 Aligned_cols=40 Identities=15% Similarity=0.161 Sum_probs=34.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
..+..+|+||||||||+++.++...+...+.+++..+...
T Consensus 44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 3468999999999999999999998888888888776643
No 87
>PRK06893 DNA replication initiation factor; Validated
Probab=96.42 E-value=0.0035 Score=70.57 Aligned_cols=39 Identities=13% Similarity=0.174 Sum_probs=33.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
..+..+|+||||||||+++.++...+...+.++.....+
T Consensus 38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 356789999999999999999999999888877666553
No 88
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.41 E-value=0.012 Score=68.68 Aligned_cols=39 Identities=38% Similarity=0.493 Sum_probs=32.3
Q ss_pred CccEEEecccccCChHHHHHHHHhc-CCCeEEEEecCCCC
Q 048652 583 PLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQL 621 (1382)
Q Consensus 583 ~fd~VIIDEAsQ~~E~e~lipL~l~-~~krlVLVGD~~QL 621 (1382)
+=.+|||||||-++..+..-.+... ...++|+.|||.|.
T Consensus 351 ~~~FiIIDEaQNLTpheikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 351 PDSFIIIDEAQNLTPHELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred ccceEEEehhhccCHHHHHHHHHhccCCCEEEEcCCHHHc
Confidence 4478999999999999977666643 45699999999997
No 89
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.40 E-value=0.0095 Score=74.03 Aligned_cols=69 Identities=22% Similarity=0.278 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..+++-|.+|+...+. ..-.+++||.|||||.+...-+...+.. +.++|+++||..-+.++...+..+.
T Consensus 25 ~~~t~iQ~~ai~~~l~-------g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 25 TEMTPIQAQSLPAILA-------GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCHHHHHHHHHHhc-------CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 3689999999999886 4569999999999997654433333332 3579999999999999988877654
No 90
>PRK14974 cell division protein FtsY; Provisional
Probab=96.38 E-value=0.0069 Score=71.90 Aligned_cols=48 Identities=29% Similarity=0.297 Sum_probs=38.4
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC---hHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT---NVAITELAS 317 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT---N~AVDeVa~ 317 (1382)
++.+.++.||||+|||||++.+...+...+.+|++++.- ..|++++..
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHH
Confidence 356899999999999999999999998888888776543 456665543
No 91
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.38 E-value=0.0054 Score=66.49 Aligned_cols=38 Identities=29% Similarity=0.400 Sum_probs=31.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
+..-.++.||||||||+++.+++..++..+.+++.+..
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~ 83 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA 83 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec
Confidence 45679999999999999999999999999999888763
No 92
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.38 E-value=0.012 Score=77.08 Aligned_cols=103 Identities=17% Similarity=0.127 Sum_probs=73.2
Q ss_pred CCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchH-HHHHHHHHHHHHcC--CceEEecCChHHHHHHHHHHHHHhhhh
Q 048652 250 LNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKT-KTVSMLLFSLLRIK--CRTLACTPTNVAITELASRALRLVKES 326 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKT-ttI~~li~~Ll~~~--~RILVcAPTN~AVDeVa~RL~~l~~es 326 (1382)
.=+.|++.+..+..++.. .+..++.+|.||||| .++...++++...+ .+|..|+.|+.-..++..-|.+....
T Consensus 11 ~y~~Q~~~m~~v~~~l~~---~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~~~- 86 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDR---GDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLMSY- 86 (705)
T ss_pred CCHHHHHHHHHHHHHhcc---CCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhhhc-
Confidence 457999988888887653 678999999999999 55666666666555 79999999999999988888775311
Q ss_pred hcCCCCccccccCCcceEEeccCCCCCcCchhhh
Q 048652 327 YKRDSRNNTPFCPLGDILLFGNKDRLKVNPGFEE 360 (1382)
Q Consensus 327 ~~~~~~~~~~~~~lgdIVr~Gn~~rm~I~~~L~~ 360 (1382)
+....+ ....-..+-+|.++.+.|++++..
T Consensus 87 ~~~~~~----~~~~i~~v~L~SR~~lCin~~v~~ 116 (705)
T TIGR00604 87 RTPRIG----EESPVSGLSLASRKNLCLHPEVSK 116 (705)
T ss_pred cccccc----cCCceeEEEechHhhcccChHHHh
Confidence 000000 000114677899999988776654
No 93
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.37 E-value=0.0063 Score=82.66 Aligned_cols=81 Identities=19% Similarity=0.095 Sum_probs=64.5
Q ss_pred cCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 242 FGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 242 ~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+.....+.+++.|.+||..++..+.. ..+.-.||+||.|||||.++...+...+..+.++|+++||..=+.++...+.+
T Consensus 593 ~~~~~~~~~T~~Q~~aI~~il~d~~~-~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 593 FCDSFPFETTPDQAQAINAVLSDMCQ-PLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHHhhc-CCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHH
Confidence 33345678999999999999886542 22345899999999999988766666667899999999999999998888876
Q ss_pred Hh
Q 048652 322 LV 323 (1382)
Q Consensus 322 l~ 323 (1382)
..
T Consensus 672 ~~ 673 (1147)
T PRK10689 672 RF 673 (1147)
T ss_pred hh
Confidence 43
No 94
>PRK01172 ski2-like helicase; Provisional
Probab=96.34 E-value=0.0098 Score=77.49 Aligned_cols=68 Identities=15% Similarity=0.072 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
.+.|++.|.+|+....+ +...+|.+|.|+|||......+...+..+.++++++|+..-+.+..+++.+
T Consensus 20 ~~~l~~~Q~~ai~~l~~-------~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 20 DFELYDHQRMAIEQLRK-------GENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCCCHHHHHHHHHHhc-------CCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHH
Confidence 35699999999998644 567999999999999987666666666688999999999888888888765
No 95
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=96.33 E-value=0.0025 Score=64.20 Aligned_cols=22 Identities=50% Similarity=0.634 Sum_probs=19.5
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.||.||||||||+++..++..+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 4899999999999998887776
No 96
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.29 E-value=0.0038 Score=63.17 Aligned_cols=54 Identities=22% Similarity=0.271 Sum_probs=36.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc------CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI------KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~------~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
.++.+|.||||+|||+++..++..+... ..-+.+..|.......+...+.....
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 6799999999999999999999988763 33445555555556677777666543
No 97
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=96.28 E-value=0.012 Score=72.46 Aligned_cols=69 Identities=30% Similarity=0.295 Sum_probs=53.9
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHH-HHHHHHc------CCceEEecCChHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSML-LFSLLRI------KCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~l-i~~Ll~~------~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
..+++-|.+||..++. ..-.++++|+|||||.+...- +..++.. +.++|+++||..-+.++.+.+.
T Consensus 22 ~~p~~iQ~~ai~~~~~-------g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~ 94 (434)
T PRK11192 22 TRPTAIQAEAIPPALD-------GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAR 94 (434)
T ss_pred CCCCHHHHHHHHHHhC-------CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHH
Confidence 3578899999999986 345999999999999875433 3333321 3689999999999999988887
Q ss_pred HHh
Q 048652 321 RLV 323 (1382)
Q Consensus 321 ~l~ 323 (1382)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 754
No 98
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=96.27 E-value=0.0029 Score=70.18 Aligned_cols=25 Identities=32% Similarity=0.508 Sum_probs=17.6
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLF 293 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~ 293 (1382)
..-+..++|||||+||||++..+..
T Consensus 48 ~~l~h~lf~GPPG~GKTTLA~IIA~ 72 (233)
T PF05496_consen 48 EALDHMLFYGPPGLGKTTLARIIAN 72 (233)
T ss_dssp S---EEEEESSTTSSHHHHHHHHHH
T ss_pred CCcceEEEECCCccchhHHHHHHHh
Confidence 4467899999999999887654443
No 99
>PRK06851 hypothetical protein; Provisional
Probab=96.25 E-value=0.0041 Score=74.36 Aligned_cols=46 Identities=22% Similarity=0.326 Sum_probs=41.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCc--eEEecCChHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCR--TLACTPTNVAITELA 316 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~R--ILVcAPTN~AVDeVa 316 (1382)
..+.+|.|||||||||++..++..+...+.. .+.|++.|.++|-|.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 6899999999999999999999999988776 689999999999654
No 100
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.23 E-value=0.0069 Score=67.81 Aligned_cols=51 Identities=27% Similarity=0.352 Sum_probs=40.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.||.||||||||+.....+..-+.. +.+++.++....+ +++.+++.+.
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~s~ 70 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMKSF 70 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHHTT
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHHHc
Confidence 6799999999999999999999998888 9999999976544 6666665543
No 101
>PRK04195 replication factor C large subunit; Provisional
Probab=96.23 E-value=0.014 Score=73.16 Aligned_cols=68 Identities=24% Similarity=0.317 Sum_probs=45.0
Q ss_pred CccccCCCCCC--CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 238 WDEKFGPSLSS--TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 238 ~~~~~~~~~~~--~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
|.++++|.... -.++.+...+...+............||+||||||||+++.+++..+ +..++.+..+
T Consensus 4 W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~~~~ielnas 73 (482)
T PRK04195 4 WVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---GWEVIELNAS 73 (482)
T ss_pred chhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEccc
Confidence 55555554433 25666667777666543322336789999999999999998887765 5555555443
No 102
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=96.22 E-value=0.0084 Score=67.45 Aligned_cols=58 Identities=24% Similarity=0.288 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
+.|++++..-...+.........|+||++|||||++|.+++......|.|++=+....
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~ 90 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKED 90 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHH
Confidence 4677777766666555556678999999999999999999999999999988777665
No 103
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.20 E-value=0.003 Score=72.28 Aligned_cols=26 Identities=42% Similarity=0.560 Sum_probs=22.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
+.+.|++||||||||++-.++...|-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 67999999999999999888777663
No 104
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=96.20 E-value=0.0085 Score=69.03 Aligned_cols=53 Identities=25% Similarity=0.291 Sum_probs=42.9
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
.+.+.|.+++..++.. ..++.+|.||+|+||||++.+++..+...+.+|+++-
T Consensus 63 g~~~~~~~~l~~~~~~-----~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiE 115 (264)
T cd01129 63 GLKPENLEIFRKLLEK-----PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVE 115 (264)
T ss_pred CCCHHHHHHHHHHHhc-----CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC
Confidence 5788899998887752 4689999999999999999999888766556666653
No 105
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=96.19 E-value=0.0074 Score=69.32 Aligned_cols=50 Identities=16% Similarity=0.001 Sum_probs=40.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|.||||||||+....++...++.+.+++.++.-. ..+.+.+++..
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee-~~~~~~~~l~~ 85 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES-PANFVYTSLKE 85 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC-CchHHHHHHHH
Confidence 679999999999999999999999888899999998764 33555555543
No 106
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.17 E-value=0.0085 Score=72.73 Aligned_cols=49 Identities=35% Similarity=0.409 Sum_probs=37.6
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
-+.|.+.+...+........++..+|+||||||||+++..++..+-..+
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 4667778888876543344567789999999999999999988876554
No 107
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.15 E-value=0.0041 Score=73.62 Aligned_cols=58 Identities=29% Similarity=0.441 Sum_probs=36.6
Q ss_pred CCccccCCCCCCCCC--HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 237 IWDEKFGPSLSSTLN--EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 237 ~~~~~~~~~~~~~LN--~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.|.++++|....++- +...+.+..++. ....+..++.||||||||+++.++...+...
T Consensus 4 ~w~~ky~P~~~~~~~g~~~~~~~L~~~~~----~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 4 LWTEKYRPALLEDILGQDEVVERLSRAVD----SPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred chHHhhCCCcHHHhcCCHHHHHHHHHHHh----CCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 466666655443333 333333333333 2334578999999999999998888777543
No 108
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.15 E-value=0.0022 Score=83.35 Aligned_cols=67 Identities=28% Similarity=0.268 Sum_probs=60.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
.||+.|++||... .+..+|.|+||||||+|++.++.+|+.. +.+||++|+||.|+.++..||.+.+.
T Consensus 1 ~Ln~~Q~~av~~~---------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 1 KLNPQQQEAVEYV---------TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 4899999998743 6789999999999999999999999964 47899999999999999999998764
No 109
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=96.14 E-value=0.011 Score=64.30 Aligned_cols=52 Identities=29% Similarity=0.349 Sum_probs=41.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH----------cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR----------IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~----------~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..+.+|.||||+|||+++..++..++. .+.+||.++.-+. ..++..|+....
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 679999999999999999999999987 5679999998886 667888887754
No 110
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=96.11 E-value=0.015 Score=79.38 Aligned_cols=71 Identities=21% Similarity=0.130 Sum_probs=60.3
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
...+.+-|+.++...+. +.-.++++|+|||||.++..++..+...+.++|+++||..=+.++..++.+...
T Consensus 76 g~~p~~iQ~~~i~~il~-------G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~ 146 (1171)
T TIGR01054 76 GSEPWSIQKMWAKRVLR-------GDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAE 146 (1171)
T ss_pred CCCCcHHHHHHHHHHhC-------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHH
Confidence 34688999999998887 456789999999999877666666666789999999999999999999988765
No 111
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.10 E-value=0.0084 Score=62.31 Aligned_cols=41 Identities=20% Similarity=0.263 Sum_probs=35.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
+.+|.||||||||+++..++..+...+.+++..+......+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 46899999999999999999999888899998887665443
No 112
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=96.07 E-value=0.0072 Score=70.90 Aligned_cols=59 Identities=31% Similarity=0.415 Sum_probs=39.3
Q ss_pred CCccccCCCCCCCCC--HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 237 IWDEKFGPSLSSTLN--EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 237 ~~~~~~~~~~~~~LN--~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
.|.++++|....++- +.+.+.+...+. .+..+..+|+||||||||+++..+...+...+
T Consensus 6 ~w~~kyrP~~~~~~~g~~~~~~~l~~~i~----~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 6 IWVEKYRPRTLDEIVGQEEIVERLKSYVK----EKNMPHLLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred ccchhhCCCcHHHhcCcHHHHHHHHHHHh----CCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 477777775544443 333333333332 34455689999999999999999988887554
No 113
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=96.06 E-value=0.0062 Score=67.01 Aligned_cols=45 Identities=29% Similarity=0.266 Sum_probs=34.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC-Ch--HHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP-TN--VAITELA 316 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP-TN--~AVDeVa 316 (1382)
.+.++-||+|.|||||++.+.+.+...+.+|.+++- |. .|++++.
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~ 49 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLK 49 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHH
Confidence 478899999999999999999999988888866543 33 5666553
No 114
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=96.06 E-value=0.011 Score=68.39 Aligned_cols=46 Identities=30% Similarity=0.293 Sum_probs=35.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC---ChHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP---TNVAITELA 316 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP---TN~AVDeVa 316 (1382)
..+.++.||||+|||||++.+...+...+.+|++++- ...|+.++.
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~ 120 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLE 120 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHH
Confidence 4577777999999999999999999888889877652 233455443
No 115
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=96.05 E-value=0.0086 Score=78.00 Aligned_cols=83 Identities=25% Similarity=0.301 Sum_probs=71.9
Q ss_pred HHhHHHHHHHHHhcCCChhhhhHhhchhhHHhhhch--------HHHHhhH-------hhccChhHHHHHhhh-cCchHH
Q 048652 936 KFNLQEAAEIFAAIGMPDSAVRCFNDLEKYERAGRF--------DELMMLE-------EGSGNFMEAANTAVL-GGDIFL 999 (1382)
Q Consensus 936 ~~~~~~aa~~fe~~~~~~~aa~c~~~~~~y~~a~~~--------~el~~~~-------~~~~~~~eaa~~~~~-~g~~~~ 999 (1382)
..-+.+||-+||.+|+.++|-+||...|+.+.|=.+ ||+..++ -+.|+..|||.|.++ .+|..+
T Consensus 952 ~~~~~~Aal~Ye~~GklekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~ 1031 (1265)
T KOG1920|consen 952 ELMSDEAALMYERCGKLEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEE 1031 (1265)
T ss_pred hccccHHHHHHHHhccHHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHH
Confidence 445689999999999999999999999999988555 6665444 678999999999876 579999
Q ss_pred HhHHHHHhcCchhHHHHHH
Q 048652 1000 ATDLLQKAGNFREASKLVL 1018 (1382)
Q Consensus 1000 ~~~~l~~~~~~~~~~~~~~ 1018 (1382)
|+.+|++|..|++|+..+-
T Consensus 1032 av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1032 AVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred HHHHHhhHhHHHHHHHHHH
Confidence 9999999999999998773
No 116
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.04 E-value=0.011 Score=69.76 Aligned_cols=51 Identities=16% Similarity=0.201 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEe
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLAC 305 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVc 305 (1382)
.+++.|...+..++.. ....+|.||+|+||||++.+++..+... ..|++++
T Consensus 128 ~~~~~~~~~L~~~v~~------~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivti 180 (323)
T PRK13833 128 IMTEAQASVIRSAIDS------RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVIL 180 (323)
T ss_pred CCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEe
Confidence 4778888888888874 5678999999999999999998887643 4566653
No 117
>PRK05973 replicative DNA helicase; Provisional
Probab=96.03 E-value=0.011 Score=66.85 Aligned_cols=52 Identities=19% Similarity=0.114 Sum_probs=44.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
+..+.+|.|+||+|||+....++...+..|.+++..+.--. .+++.+|+...
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~ 114 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRAL 114 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHc
Confidence 36799999999999999999999999888999999887665 47788887764
No 118
>PRK09401 reverse gyrase; Reviewed
Probab=96.01 E-value=0.018 Score=78.58 Aligned_cols=72 Identities=15% Similarity=0.087 Sum_probs=60.7
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
...+++-|+.++...+. ..-.++++|.|||||..+..++..+...+.++|+++||..=+.++..++......
T Consensus 78 G~~pt~iQ~~~i~~il~-------g~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~~ 149 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLLL-------GESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGEK 149 (1176)
T ss_pred CCCCcHHHHHHHHHHHC-------CCcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhhh
Confidence 34789999999998876 4678999999999998766555666667899999999999999999999987653
No 119
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.97 E-value=0.0077 Score=71.38 Aligned_cols=37 Identities=27% Similarity=0.204 Sum_probs=33.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
....+++||||||||+++.+++..++..+.+|+..+.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence 3679999999999999999999999999988877664
No 120
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=95.96 E-value=0.021 Score=73.57 Aligned_cols=70 Identities=21% Similarity=0.184 Sum_probs=54.6
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH-H--cCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL-R--IKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll-~--~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
..+++-|.+||...+. ..-.++++|+|||||.+...-+...+ . .+.++|+++||..-+.++++.+.....
T Consensus 27 ~~ptpiQ~~ai~~ll~-------g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~ 99 (629)
T PRK11634 27 EKPSPIQAECIPHLLN-------GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSK 99 (629)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHh
Confidence 3688999999998876 45699999999999988644333333 2 245899999999999999988877543
No 121
>PRK00254 ski2-like helicase; Provisional
Probab=95.96 E-value=0.018 Score=75.58 Aligned_cols=68 Identities=19% Similarity=0.135 Sum_probs=56.2
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHH-HHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTV-SMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI-~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..||+.|.+|+...+.. +.-.+|++|+|+|||.+. ..++..++..+.++++++|+.+-+.+...++..
T Consensus 22 ~~l~~~Q~~ai~~~~~~------g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 22 EELYPPQAEALKSGVLE------GKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCHHHHHHHHHHHhC------CCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 47999999999875442 567999999999999988 445556666788999999999999998888765
No 122
>PRK04296 thymidine kinase; Provisional
Probab=95.95 E-value=0.0084 Score=65.62 Aligned_cols=36 Identities=17% Similarity=0.315 Sum_probs=32.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
.+.+|.||||+||||.+..++..+...+.++++..|
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 588999999999999999999999999999998844
No 123
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=95.92 E-value=0.012 Score=66.75 Aligned_cols=51 Identities=20% Similarity=0.232 Sum_probs=42.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
...+.+|.||||||||+....++..-+..+.+++.++..- ..+++.+++.+
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee-~~~~i~~~~~~ 70 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE-HPVQVRRNMAQ 70 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC-CHHHHHHHHHH
Confidence 3679999999999999999999988888899999999654 56667777654
No 124
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=95.91 E-value=0.0071 Score=69.46 Aligned_cols=29 Identities=28% Similarity=0.259 Sum_probs=23.9
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.....++.||||||||+++..+...+...
T Consensus 41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 41 QVLHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred CcceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 34678999999999999998887776543
No 125
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=95.89 E-value=0.021 Score=70.67 Aligned_cols=73 Identities=22% Similarity=0.199 Sum_probs=60.6
Q ss_pred CCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHh
Q 048652 245 SLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 245 ~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
.....|.+-|++|+.+.+..... ..-.+|.-|||+|||.+.+.++..+-.. +||++||..-+++.++++....
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~~ 104 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKFL 104 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhccc---CCceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHhc
Confidence 34567999999999999874322 5678999999999999998887777554 9999999999999998887753
No 126
>PRK02362 ski2-like helicase; Provisional
Probab=95.89 E-value=0.02 Score=75.47 Aligned_cols=68 Identities=24% Similarity=0.180 Sum_probs=57.1
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..|++.|.+|+...+.. ..-.+|.+|.|+|||.+....+...+..+.++++++||..=+.+...++.+
T Consensus 22 ~~l~p~Q~~ai~~~~~~------g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~ 89 (737)
T PRK02362 22 EELYPPQAEAVEAGLLD------GKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFER 89 (737)
T ss_pred CcCCHHHHHHHHHHHhC------CCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHH
Confidence 47999999999875542 568999999999999998666555556788999999999999999888875
No 127
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=95.86 E-value=0.011 Score=73.57 Aligned_cols=54 Identities=26% Similarity=0.309 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
...+.+.|.+.+..++.. ..++.+|.||+|+|||||+.+++..+...+.+|+++
T Consensus 223 ~Lg~~~~~~~~l~~~~~~-----~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTi 276 (486)
T TIGR02533 223 TLGMSPELLSRFERLIRR-----PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTV 276 (486)
T ss_pred HcCCCHHHHHHHHHHHhc-----CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEE
Confidence 346889999999888763 578999999999999999998887776555556553
No 128
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.86 E-value=0.01 Score=63.65 Aligned_cols=34 Identities=32% Similarity=0.324 Sum_probs=30.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+.++.||||+|||+++..+...+...+.+++++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 5788999999999999999999988888887765
No 129
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=95.86 E-value=0.011 Score=69.41 Aligned_cols=43 Identities=19% Similarity=0.226 Sum_probs=36.7
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.|.++++...+|..++.. .+..+|.||||||||+++..+...|
T Consensus 46 ~y~f~~~~~~~vl~~l~~------~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 46 AYLFDKATTKAICAGFAY------DRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred CccCCHHHHHHHHHHHhc------CCcEEEEeCCCChHHHHHHHHHHHH
Confidence 578999999999988874 5789999999999999998776665
No 130
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=95.85 E-value=0.013 Score=65.18 Aligned_cols=42 Identities=12% Similarity=0.173 Sum_probs=33.8
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNV 310 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~ 310 (1382)
...+..+|.||||||||+++..+...+...+..++.+.-++.
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~ 77 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL 77 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence 346789999999999999999999888877777766654443
No 131
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.84 E-value=0.016 Score=65.52 Aligned_cols=49 Identities=18% Similarity=0.192 Sum_probs=39.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
..+.+|.||||||||+++..++..+++.+.+++.+++.... +++...+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~-~~~~~~~~ 72 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT-TEFIKQMM 72 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHH
Confidence 57999999999999999999999999999999888865543 55544443
No 132
>PRK10436 hypothetical protein; Provisional
Probab=95.81 E-value=0.014 Score=72.17 Aligned_cols=52 Identities=25% Similarity=0.310 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
..+.+.|.+.+...+.. ..++.||.||.|+|||||+.+++..+...+.+|++
T Consensus 200 LG~~~~~~~~l~~~~~~-----~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~T 251 (462)
T PRK10436 200 LGMTPAQLAQFRQALQQ-----PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICS 251 (462)
T ss_pred cCcCHHHHHHHHHHHHh-----cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEE
Confidence 46788898888887763 47999999999999999999988887666666655
No 133
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.78 E-value=0.017 Score=67.93 Aligned_cols=37 Identities=14% Similarity=0.063 Sum_probs=32.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
..-.+++||||||||+++.+++..+...+.++..+..
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 3568999999999999999999999999888876644
No 134
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=95.77 E-value=0.018 Score=67.61 Aligned_cols=53 Identities=19% Similarity=0.177 Sum_probs=42.3
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecC
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTP 307 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAP 307 (1382)
.+++.|...+..++.. ....+|.||+|+||||++.+++..+-.. ..||+++--
T Consensus 116 ~~~~~~~~~L~~~v~~------~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd 170 (299)
T TIGR02782 116 IMTAAQRDVLREAVLA------RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIED 170 (299)
T ss_pred CCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECC
Confidence 4677788888888774 5788999999999999999988777654 567776543
No 135
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.77 E-value=0.019 Score=64.41 Aligned_cols=56 Identities=13% Similarity=0.080 Sum_probs=39.4
Q ss_pred CCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 250 LNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
-|.....++..... .....+..+|+||||||||+++.++...+...+..+..+...
T Consensus 24 ~~~~~~~~l~~~~~---~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~ 79 (227)
T PRK08903 24 ENAELVARLRELAA---GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA 79 (227)
T ss_pred CcHHHHHHHHHHHh---ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence 34444444444333 123456899999999999999999999888887777666543
No 136
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.76 E-value=0.01 Score=73.72 Aligned_cols=26 Identities=38% Similarity=0.382 Sum_probs=22.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+..|++|||||||||++..+...+..
T Consensus 37 ~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 37 HAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 44799999999999999998888764
No 137
>PRK06921 hypothetical protein; Provisional
Probab=95.75 E-value=0.011 Score=68.12 Aligned_cols=37 Identities=24% Similarity=0.258 Sum_probs=32.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAP 307 (1382)
....+++||||||||+++.+++..++.. +..++.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 5679999999999999999999999988 788877664
No 138
>PRK08727 hypothetical protein; Validated
Probab=95.75 E-value=0.019 Score=64.88 Aligned_cols=37 Identities=24% Similarity=0.117 Sum_probs=32.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
....+|+||||||||+++.++...+...+.++..++.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 4579999999999999999999999988888877663
No 139
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.74 E-value=0.03 Score=68.90 Aligned_cols=69 Identities=25% Similarity=0.160 Sum_probs=53.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHH-HHHH---------cCCceEEecCChHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLF-SLLR---------IKCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~-~Ll~---------~~~RILVcAPTN~AVDeVa~ 317 (1382)
..+++-|.+|+-..+. ..-.++++|.|||||.+...-+. .++. .+.++|+++||..-+.++..
T Consensus 29 ~~pt~iQ~~aip~il~-------g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~ 101 (423)
T PRK04837 29 HNCTPIQALALPLTLA-------GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHA 101 (423)
T ss_pred CCCCHHHHHHHHHHhC-------CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHH
Confidence 3688999999998887 45689999999999987643333 3332 13689999999999999988
Q ss_pred HHHHHh
Q 048652 318 RALRLV 323 (1382)
Q Consensus 318 RL~~l~ 323 (1382)
.+..+.
T Consensus 102 ~~~~l~ 107 (423)
T PRK04837 102 DAEPLA 107 (423)
T ss_pred HHHHHh
Confidence 776654
No 140
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=95.73 E-value=0.017 Score=66.38 Aligned_cols=51 Identities=18% Similarity=0.169 Sum_probs=44.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.+|.||||+|||+++..++..++.. +.+++..+.-. ..++++.|+...
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~~ 81 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLGQ 81 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHHH
Confidence 6799999999999999999999998877 99999998766 457788888664
No 141
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.73 E-value=0.025 Score=76.78 Aligned_cols=72 Identities=22% Similarity=0.104 Sum_probs=59.4
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..|-+-|.+||.....++... ..-.||+.|.|||||.|+..++..|++. ..|||++++++.=+++....+..
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g--~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEG--QREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhc--cCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHh
Confidence 468899999999887765322 2458899999999999999999988875 37999999999988888877665
No 142
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.72 E-value=0.018 Score=67.99 Aligned_cols=55 Identities=24% Similarity=0.283 Sum_probs=43.3
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH--cCCceEEecCCh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR--IKCRTLACTPTN 309 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~--~~~RILVcAPTN 309 (1382)
.+++.|.+.+..++.. ....+|.||||+||||++.+++..+.. ...|++++-.+.
T Consensus 132 ~~~~~~~~~L~~~v~~------~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~ 188 (319)
T PRK13894 132 IMTAAQREAIIAAVRA------HRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTG 188 (319)
T ss_pred CCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCC
Confidence 3677888888888774 678999999999999999999988753 356777655544
No 143
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.71 E-value=0.018 Score=70.58 Aligned_cols=47 Identities=23% Similarity=0.408 Sum_probs=33.0
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~R 318 (1382)
+..+..+++||||||||+++..+...+ +.+...+..+...++.+..-
T Consensus 34 ~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~~~ir~i 80 (413)
T PRK13342 34 GRLSSMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGVKDLREV 80 (413)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccHHHHHHH
Confidence 445678999999999999998876543 45566666665556555443
No 144
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.66 E-value=0.013 Score=69.17 Aligned_cols=37 Identities=30% Similarity=0.244 Sum_probs=32.6
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
.+.+.++.||||+|||||+..+...+...+.+|++++
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~ 149 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA 149 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence 3568899999999999999999999988888888765
No 145
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.65 E-value=0.02 Score=65.90 Aligned_cols=42 Identities=24% Similarity=0.180 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
++..++.+..++..+. .+...++.||||||||+++.++...+
T Consensus 4 t~~~~~l~~~~l~~l~---~g~~vLL~G~~GtGKT~lA~~la~~l 45 (262)
T TIGR02640 4 TDAVKRVTSRALRYLK---SGYPVHLRGPAGTGKTTLAMHVARKR 45 (262)
T ss_pred CHHHHHHHHHHHHHHh---cCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3444444444444332 25678899999999999998877633
No 146
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=95.62 E-value=0.013 Score=73.43 Aligned_cols=61 Identities=31% Similarity=0.438 Sum_probs=41.7
Q ss_pred CCCCccccCCCCCCCC--CHHHHHHHHHHHhhcccC-CCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 235 KGIWDEKFGPSLSSTL--NEPQVGAVFACLRRLDCD-HKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 235 ~~~~~~~~~~~~~~~L--N~sQ~~AV~~~l~~~~~~-~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
...|.+.+.|....+| +....+.|..-|...-.. ....+.|+.||||+||||||..+...|
T Consensus 6 ~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 6 SEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence 3457777776665554 444455666666653222 235699999999999999998877665
No 147
>PRK05642 DNA replication initiation factor; Validated
Probab=95.61 E-value=0.014 Score=65.94 Aligned_cols=36 Identities=11% Similarity=0.221 Sum_probs=31.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
+..+|+||||||||+++.++...+...+.+++..+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 578999999999999999998888888888877664
No 148
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.59 E-value=0.014 Score=60.13 Aligned_cols=22 Identities=50% Similarity=0.601 Sum_probs=20.0
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.++.||||||||+++..+...+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999998887777
No 149
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.58 E-value=0.04 Score=69.12 Aligned_cols=43 Identities=28% Similarity=0.262 Sum_probs=29.0
Q ss_pred HHHHHHHHHhhcccCCCCCe-EEEEcCCCCchHHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGV-ELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~-~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|..++......+.. ++.+. .|++|||||||||++..+...+..
T Consensus 19 q~~v~~~L~~~i~~-~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 19 QEHVKEVLLAALRQ-GRLGHAYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred hHHHHHHHHHHHHc-CCCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence 44444433222222 33444 499999999999999999888874
No 150
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.58 E-value=0.043 Score=64.14 Aligned_cols=70 Identities=20% Similarity=0.143 Sum_probs=49.0
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHH-HHHHHHHHHcCC-----ceEEecCChHHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTV-SMLLFSLLRIKC-----RTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI-~~li~~Ll~~~~-----RILVcAPTN~AVDeVa~RL~~ 321 (1382)
.--+.|.+-+......+. +.+..+|.+|.|||||-.+ ...+.++...+. +|+++++|+.-...+...+.+
T Consensus 8 ~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 8 EPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 347889885555555432 3678999999999999665 444455555554 899999999876666555443
No 151
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.58 E-value=0.043 Score=64.14 Aligned_cols=70 Identities=20% Similarity=0.143 Sum_probs=49.0
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHH-HHHHHHHHHcCC-----ceEEecCChHHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTV-SMLLFSLLRIKC-----RTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI-~~li~~Ll~~~~-----RILVcAPTN~AVDeVa~RL~~ 321 (1382)
.--+.|.+-+......+. +.+..+|.+|.|||||-.+ ...+.++...+. +|+++++|+.-...+...+.+
T Consensus 8 ~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 8 EPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 347889885555555432 3678999999999999665 444455555554 899999999876666555443
No 152
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.58 E-value=0.023 Score=64.20 Aligned_cols=50 Identities=16% Similarity=0.070 Sum_probs=42.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|.||||||||+++..++..++.. +.+++.++.-..+- +++.|+..
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~~ 63 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLLA 63 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHHH
Confidence 5699999999999999999999999888 99999999877544 56667654
No 153
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=95.57 E-value=0.022 Score=63.77 Aligned_cols=51 Identities=20% Similarity=0.137 Sum_probs=43.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.+|.||||+|||+....++...++.+.+++.++... ..+++.+++.+.
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~ 66 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSK 66 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHc
Confidence 579999999999999999999999888999999998866 567777776553
No 154
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=95.56 E-value=0.038 Score=68.69 Aligned_cols=69 Identities=23% Similarity=0.206 Sum_probs=53.9
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH-Hc--------CCceEEecCChHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL-RI--------KCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll-~~--------~~RILVcAPTN~AVDeVa~R 318 (1382)
..+++-|.+||...+. ..-.++++|.|||||.+...-+...+ .. +.++|+++||..-+.++.+.
T Consensus 22 ~~pt~iQ~~ai~~il~-------g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~ 94 (456)
T PRK10590 22 REPTPIQQQAIPAVLE-------GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGEN 94 (456)
T ss_pred CCCCHHHHHHHHHHhC-------CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHH
Confidence 4689999999998876 34589999999999987644443333 21 24799999999999999888
Q ss_pred HHHHh
Q 048652 319 ALRLV 323 (1382)
Q Consensus 319 L~~l~ 323 (1382)
+....
T Consensus 95 ~~~~~ 99 (456)
T PRK10590 95 VRDYS 99 (456)
T ss_pred HHHHh
Confidence 87754
No 155
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.55 E-value=0.015 Score=70.84 Aligned_cols=45 Identities=27% Similarity=0.266 Sum_probs=36.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC-Ch--HHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP-TN--VAITEL 315 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP-TN--~AVDeV 315 (1382)
+.+.++.||||+|||||++.+...+...+.+|++++- +. .|++++
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQL 147 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQL 147 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHH
Confidence 5689999999999999999999998888889877654 22 455543
No 156
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.55 E-value=0.015 Score=71.49 Aligned_cols=38 Identities=21% Similarity=0.163 Sum_probs=33.1
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
.+.+.++.||||+|||||++.+...+...+.++++++.
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~ 131 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA 131 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC
Confidence 46689999999999999999999999888888887654
No 157
>PRK10867 signal recognition particle protein; Provisional
Probab=95.54 E-value=0.014 Score=71.47 Aligned_cols=37 Identities=30% Similarity=0.278 Sum_probs=32.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAP 307 (1382)
+.+.++.||||+|||||++.++.++... +.+|++++-
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~ 137 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA 137 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc
Confidence 5688999999999999999999999888 888876553
No 158
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.53 E-value=0.016 Score=64.81 Aligned_cols=38 Identities=21% Similarity=0.358 Sum_probs=34.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
..+.+|.||||||||+++..++...+..+.+++.++.-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 56999999999999999999999999888888887655
No 159
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=95.47 E-value=0.016 Score=63.77 Aligned_cols=35 Identities=26% Similarity=0.426 Sum_probs=28.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcA 306 (1382)
++.+|.||+|+||||++.+++..+... +.+|++.-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 789999999999999999988887654 44665543
No 160
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.46 E-value=0.017 Score=66.37 Aligned_cols=41 Identities=32% Similarity=0.347 Sum_probs=37.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVA 311 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~A 311 (1382)
..+.||.||||||||+.....+...++.+.+++.+|..-.+
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~ 63 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESP 63 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCH
Confidence 68999999999999999999999999999999998876544
No 161
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=95.45 E-value=0.018 Score=74.79 Aligned_cols=27 Identities=30% Similarity=0.599 Sum_probs=22.3
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
++.+..+++|||||||||++..+...+
T Consensus 50 ~~~~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 50 DRVGSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 455678999999999999998877554
No 162
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=95.43 E-value=0.012 Score=70.34 Aligned_cols=59 Identities=22% Similarity=0.187 Sum_probs=35.3
Q ss_pred CccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 238 WDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 238 ~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|.+.++|....++- .|..++......+...+-++..|++||||||||+++..+...|..
T Consensus 4 ~~~~~rp~~~~~ii-g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 4 LARKYRPQTFEDVI-GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred HHHHhCCCcHhhcc-CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33444444433332 234444433333323333456899999999999999988888764
No 163
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=95.43 E-value=0.018 Score=73.50 Aligned_cols=53 Identities=23% Similarity=0.211 Sum_probs=39.7
Q ss_pred EEEecccCCCCccccEEEEeecccCCCCCcc------------cc-cCCCcceeecccccceEEEE
Q 048652 775 VKVKSVDGFQGGEEDIIIISTVRCNTGGSIG------------FI-SNPQRVNVALTRARHCLWIL 827 (1382)
Q Consensus 775 v~V~TVD~fQG~E~DiVIlS~Vrsn~~~~iG------------Fl-~d~rRLNVAlTRAK~~L~IV 827 (1382)
+..+|+|...|.|+|+|-+...+....+.+- |. ..++.++||+||||+.+|.-
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 6789999999999999999876554333221 11 13578999999999977654
No 164
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.42 E-value=0.028 Score=63.35 Aligned_cols=51 Identities=18% Similarity=0.175 Sum_probs=42.3
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
...+.+|.||||||||+....++...++.+.+++.++.... .+++..++.+
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~-~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT-SKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC-HHHHHHHHHH
Confidence 36799999999999999999999988889999999998764 3556655544
No 165
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.42 E-value=0.017 Score=69.71 Aligned_cols=44 Identities=30% Similarity=0.160 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
-|..++....+.+..+.-+...++.|||||||||++..++..+.
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 45555554433333333334569999999999999988887775
No 166
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=95.37 E-value=0.056 Score=60.57 Aligned_cols=35 Identities=20% Similarity=0.284 Sum_probs=28.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcA 306 (1382)
....|+||+|+|||+++.++...+.+. +.+|+.+.
T Consensus 35 ~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 468999999999999999999998874 56776654
No 167
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.36 E-value=0.029 Score=69.38 Aligned_cols=57 Identities=18% Similarity=0.105 Sum_probs=39.7
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecC
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTP 307 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAP 307 (1382)
.++...|...+.......+.....+|+||||||||+++.++...+... +.+++.++.
T Consensus 110 g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 110 GPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 455555665555432222223469999999999999999999998875 467777654
No 168
>PF13173 AAA_14: AAA domain
Probab=95.36 E-value=0.036 Score=56.50 Aligned_cols=46 Identities=26% Similarity=0.222 Sum_probs=38.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELA 316 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa 316 (1382)
|.++.+|.||.|+||||++..++..+. .+.+++.+...........
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~ 46 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLA 46 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHh
Confidence 367999999999999999999998888 7788888888777665544
No 169
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=95.35 E-value=0.019 Score=63.89 Aligned_cols=36 Identities=28% Similarity=0.333 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
..+.+|.||||||||+++..++..+...+.+++..+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 678999999999999999999999998888888775
No 170
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.35 E-value=0.018 Score=65.92 Aligned_cols=37 Identities=24% Similarity=0.375 Sum_probs=31.4
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEe
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLAC 305 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVc 305 (1382)
...++.||.||-|+|||||+++++-++-+. ...||++
T Consensus 123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI 160 (353)
T COG2805 123 SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI 160 (353)
T ss_pred CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe
Confidence 458999999999999999999999999766 4566663
No 171
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=95.33 E-value=0.019 Score=72.56 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=37.6
Q ss_pred CccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 238 WDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 238 ~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
|.+.++|....++- .|..++......+..++-+...|++||||||||+++..+...|...
T Consensus 6 ~~~KyRP~~F~dII-GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 6 FYRKYRPHNFKQII-GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred HHHHhCCCCHHHhc-CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 34445554444444 2444444433333333334568899999999999999999988753
No 172
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=95.29 E-value=0.021 Score=63.04 Aligned_cols=39 Identities=23% Similarity=0.410 Sum_probs=34.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
..+.+|.||||||||++...++......+.+++.++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 579999999999999999999999888888888877754
No 173
>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=95.27 E-value=0.041 Score=71.50 Aligned_cols=73 Identities=18% Similarity=0.123 Sum_probs=59.6
Q ss_pred CCHHHHHHHHHHHhhcccCC---CCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecCChHHHHHHHHHHHHH
Q 048652 250 LNEPQVGAVFACLRRLDCDH---KSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~~~---~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
.-..|..||..++..+.... ...-.+||-|.|||||-|+..++..|+.. ..+||+++|++.=+++....+...
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 56789999999988765421 23578999999999999999999888753 579999999999888888777653
No 174
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=95.26 E-value=0.028 Score=71.59 Aligned_cols=53 Identities=21% Similarity=0.261 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
...+.+.|.+.+..++.. ..++.+|.||+|+|||||+.+++..+.....+|++
T Consensus 297 ~lg~~~~~~~~l~~~~~~-----~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~t 349 (564)
T TIGR02538 297 KLGFEPDQKALFLEAIHK-----PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIST 349 (564)
T ss_pred HcCCCHHHHHHHHHHHHh-----cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEE
Confidence 456788888898887763 47999999999999999998888877544445554
No 175
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=95.25 E-value=0.065 Score=69.21 Aligned_cols=75 Identities=25% Similarity=0.145 Sum_probs=65.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
...||+.|..|+....... +.....|+.|.+|+|||.+-..++...+..|+.+|+.-|--.=..++..|+...+.
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~---~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 196 WLALNQEQQAAVEAILSSL---GGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred ccccCHHHHHHHHHHHHhc---ccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC
Confidence 4689999999999988753 33678999999999999999999999999999999999988888888888887543
No 176
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.24 E-value=0.032 Score=64.99 Aligned_cols=38 Identities=29% Similarity=0.331 Sum_probs=31.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc-C-CceEEecC
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI-K-CRTLACTP 307 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~-~RILVcAP 307 (1382)
.+.+.+|.||+|+|||||++.++..+... + .+|.+++-
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 35589999999999999999999998865 4 78776654
No 177
>PRK14701 reverse gyrase; Provisional
Probab=95.22 E-value=0.047 Score=76.54 Aligned_cols=70 Identities=14% Similarity=0.073 Sum_probs=57.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
+.+++-|+.++..+++ ..-.++++|.|||||.+...+...+...+.++|+++||..=+.++..++..+..
T Consensus 78 ~~pt~iQ~~~i~~il~-------G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~ 147 (1638)
T PRK14701 78 FEFWSIQKTWAKRILR-------GKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCE 147 (1638)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHh
Confidence 3689999999999987 456789999999999965444444445678999999999999999999988654
No 178
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=95.22 E-value=0.037 Score=63.38 Aligned_cols=44 Identities=27% Similarity=0.228 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
.+.+++|+...-..+. ...++.+|+||||+||||++..+...+-
T Consensus 25 ~~~~~~~~~~l~~~~~--~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLS--QREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CHHHHHHHHHHHHHHh--cCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 4445555554433221 2356899999999999999988766554
No 179
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=95.21 E-value=0.028 Score=65.31 Aligned_cols=185 Identities=22% Similarity=0.319 Sum_probs=91.5
Q ss_pred cCcccccccccccchhhhccc----ccccchHhhcCccccCChHHHHHhHHHHHHHHHhcCCChhhhhHhhchhh-HHhh
Q 048652 894 PKYEKTTLCYDKDGETYWEGR----STATDRKAAADPMCSSNPKEVKFNLQEAAEIFAAIGMPDSAVRCFNDLEK-YERA 968 (1382)
Q Consensus 894 ~~~~~~~~cf~~ag~~~~~~~----a~a~~l~~~a~~~~~~~~~~~~~~~~~aa~~fe~~~~~~~aa~c~~~~~~-y~~a 968 (1382)
.+|+.|.-+|++||..|+... |..+.++++--.....++..+-..|.+|+.||... +++.|.+||.++-+ |.+.
T Consensus 29 ~~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~ 107 (282)
T PF14938_consen 29 PDYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREA 107 (282)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhc
Confidence 488888888888888775432 22233333222222333444444556677777666 66666666666655 5555
Q ss_pred hch-------HHHHhhHhhc-cChhHHHHHhhhcCchHHHhHHHHHhcCchhHHHHHHHHHHhhccCCCCCCCCCCcccc
Q 048652 969 GRF-------DELMMLEEGS-GNFMEAANTAVLGGDIFLATDLLQKAGNFREASKLVLNFVFSNSLWSPGSRGWPLKQFT 1040 (1382)
Q Consensus 969 ~~~-------~el~~~~~~~-~~~~eaa~~~~~~g~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~lw~~~~~~~~~~~~~ 1040 (1382)
|++ .+++.+=+.. |++++|.+.+ .+|++++...|.-..+.+..++-.-+... ++++
T Consensus 108 G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y------~~A~~~y~~e~~~~~a~~~~~~~A~l~~~---------l~~y- 171 (282)
T PF14938_consen 108 GRFSQAAKCLKELAEIYEEQLGDYEKAIEYY------QKAAELYEQEGSPHSAAECLLKAADLYAR---------LGRY- 171 (282)
T ss_dssp T-HHHHHHHHHHHHHHHCCTT--HHHHHHHH------HHHHHHHHHTT-HHHHHHHHHHHHHHHHH---------TT-H-
T ss_pred CcHHHHHHHHHHHHHHHHHHcCCHHHHHHHH------HHHHHHHHHCCChhhHHHHHHHHHHHHHH---------hCCH-
Confidence 555 3333333333 4555555433 34555666666555555544333322211 1133
Q ss_pred cHHHHHHHHHHHhhhccchhhhhhhhhhhcccccccc--HHHHHHHHhhhccccceehhhhhhhhhhhhccccccc
Q 048652 1041 QEEELLQKAKSLAKNDSNQFYEFVCAEADILSNDQSN--LLMMNQQFIDSKRHQNIRGEILSSRMILDFHLHSNAS 1114 (1382)
Q Consensus 1041 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1114 (1382)
.+|.+.-+++- -.|++...+...-+. |-.+..+|. .|+++.+++-++-..+..++
T Consensus 172 ------~~A~~~~e~~~-----~~~l~~~l~~~~~~~~~l~a~l~~L~--------~~D~v~A~~~~~~~~~~~~~ 228 (282)
T PF14938_consen 172 ------EEAIEIYEEVA-----KKCLENNLLKYSAKEYFLKAILCHLA--------MGDYVAARKALERYCSQDPS 228 (282)
T ss_dssp ------HHHHHHHHHHH-----HTCCCHCTTGHHHHHHHHHHHHHHHH--------TT-HHHHHHHHHHHGTTSTT
T ss_pred ------HHHHHHHHHHH-----HHhhcccccchhHHHHHHHHHHHHHH--------cCCHHHHHHHHHHHHhhCCC
Confidence 44444444432 235555544322221 223444444 46788899888876655543
No 180
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=95.21 E-value=0.016 Score=57.90 Aligned_cols=23 Identities=39% Similarity=0.561 Sum_probs=19.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.+|.||||+||||++..+...+
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 46899999999999988776655
No 181
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.01 Score=71.39 Aligned_cols=50 Identities=20% Similarity=0.233 Sum_probs=33.7
Q ss_pred CCCCCCHHHHHHHHHHHhhcccC---------CCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCD---------HKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~---------~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
...-+++.=++-|..=|..+... .-..=.|+.||||||||+.|++++-.|
T Consensus 201 ~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 201 ETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc
Confidence 33446666666666666553211 112348999999999999999987776
No 182
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=95.20 E-value=0.036 Score=67.81 Aligned_cols=56 Identities=16% Similarity=0.118 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhhcccCC-CCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecC
Q 048652 252 EPQVGAVFACLRRLDCDH-KSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTP 307 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~-~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAP 307 (1382)
++...|...+.......+ .....+|+||||||||+++.++...+... +.+++.++.
T Consensus 116 ~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 116 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 344445554443322211 23468999999999999999999998876 567777653
No 183
>CHL00181 cbbX CbbX; Provisional
Probab=95.20 E-value=0.02 Score=66.87 Aligned_cols=38 Identities=26% Similarity=0.205 Sum_probs=28.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcC----CceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIK----CRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~----~RILVcAPT 308 (1382)
....++.||||||||+++..+...+...+ ..++.+..+
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~ 100 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD 100 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH
Confidence 44689999999999999999888776543 235555533
No 184
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=95.18 E-value=0.018 Score=66.99 Aligned_cols=28 Identities=32% Similarity=0.235 Sum_probs=23.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
...+++||||||||+++..+...+...+
T Consensus 59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 3789999999999999988887776653
No 185
>PRK04328 hypothetical protein; Provisional
Probab=95.17 E-value=0.034 Score=63.52 Aligned_cols=51 Identities=20% Similarity=0.230 Sum_probs=41.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
...+.+|.||||||||++...++..-++.+.+++.++..... +++..++.+
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~-~~i~~~~~~ 72 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHP-VQVRRNMRQ 72 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCH-HHHHHHHHH
Confidence 367999999999999999999999988899999999865533 335555444
No 186
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.15 E-value=0.027 Score=67.76 Aligned_cols=75 Identities=19% Similarity=0.187 Sum_probs=54.4
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCc---eEEecCChHHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCR---TLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~R---ILVcAPTN~AVDeVa~RL~~l 322 (1382)
..-=++|...+..++...-..+.+...+|-||||||||.|+..+...+.....+ +-|=+..+.-..++..++...
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~ 96 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK 96 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence 456678999999998887777777779999999999999999888888766322 334344444455555555553
No 187
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.15 E-value=0.037 Score=67.85 Aligned_cols=52 Identities=25% Similarity=0.309 Sum_probs=44.1
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
..+++.|...+...++ ...|+.||.||-|+|||||+-+.+..+.....+|.+
T Consensus 240 Lg~~~~~~~~~~~~~~-----~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~T 291 (500)
T COG2804 240 LGMSPFQLARLLRLLN-----RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIIT 291 (500)
T ss_pred hCCCHHHHHHHHHHHh-----CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEE
Confidence 3468889999998887 368999999999999999999999988877766554
No 188
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=95.15 E-value=0.035 Score=56.50 Aligned_cols=27 Identities=26% Similarity=0.190 Sum_probs=23.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
+...+||||||||.+...++.+|.+.|
T Consensus 55 VlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 55 VLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred EEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 566899999999999999998888765
No 189
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.15 E-value=0.06 Score=68.78 Aligned_cols=69 Identities=22% Similarity=0.189 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHH-HHHHHHc---------CCceEEecCChHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSML-LFSLLRI---------KCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~l-i~~Ll~~---------~~RILVcAPTN~AVDeVa~ 317 (1382)
..+++-|..+|-.++. ..-.++++|.|||||.+.... +..++.. +.++|+++||..-+.++..
T Consensus 30 ~~ptpiQ~~~ip~~l~-------G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~ 102 (572)
T PRK04537 30 TRCTPIQALTLPVALP-------GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHK 102 (572)
T ss_pred CCCCHHHHHHHHHHhC-------CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHH
Confidence 4689999999999886 456999999999999876443 3444331 3689999999999999988
Q ss_pred HHHHHh
Q 048652 318 RALRLV 323 (1382)
Q Consensus 318 RL~~l~ 323 (1382)
++..+.
T Consensus 103 ~~~~l~ 108 (572)
T PRK04537 103 DAVKFG 108 (572)
T ss_pred HHHHHh
Confidence 877654
No 190
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.15 E-value=0.023 Score=66.25 Aligned_cols=47 Identities=32% Similarity=0.250 Sum_probs=40.0
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC---ChHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP---TNVAITEL 315 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP---TN~AVDeV 315 (1382)
+.+.+.|+.|..||||||||+-+...+...|.+||+.|- --.|++++
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL 186 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQL 186 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHH
Confidence 457799999999999999999999999999999998763 44566655
No 191
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.14 E-value=0.026 Score=67.09 Aligned_cols=44 Identities=20% Similarity=0.294 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhhcc-cCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 252 EPQVGAVFACLRRLD-CDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~-~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...+++...+.... .+...+..+|+||||||||+++..+...+
T Consensus 31 ~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 31 EKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 344445544444321 23345689999999999999998776655
No 192
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.12 E-value=0.053 Score=70.07 Aligned_cols=53 Identities=23% Similarity=0.206 Sum_probs=40.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH---------HHH------cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFS---------LLR------IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~---------Ll~------~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
+...+++||.|||||+.+-..+.. .+. .+.++++++||..++.++..++.+.+
T Consensus 179 gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 179 RKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred CCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHh
Confidence 678999999999999986443321 111 24689999999999999999887654
No 193
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=95.08 E-value=0.042 Score=61.60 Aligned_cols=47 Identities=21% Similarity=0.154 Sum_probs=37.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~R 318 (1382)
..+.+|.||||||||+++..++...+..+.+++.++.-- ..+++..+
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~-~~~~i~~~ 66 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE-SRESIIRQ 66 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC-CHHHHHHH
Confidence 679999999999999999998888778888887777533 23555544
No 194
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=95.05 E-value=0.037 Score=66.36 Aligned_cols=50 Identities=24% Similarity=0.329 Sum_probs=42.4
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHH--cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLR--IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~--~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
.+|.||+|+|||.+....+...+. .+.++++++|+...+.++..++....
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHh
Confidence 689999999999997666665553 35799999999999999999998854
No 195
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=95.05 E-value=0.026 Score=66.11 Aligned_cols=26 Identities=31% Similarity=0.524 Sum_probs=21.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+..+++||||||||+++..+...+
T Consensus 29 ~~~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 29 ALDHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 35678999999999999998876654
No 196
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=95.05 E-value=0.035 Score=60.42 Aligned_cols=51 Identities=22% Similarity=0.230 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
-.+++.|...+..++.. ....+|.||+|+||||++.+++..+ ....+++++
T Consensus 8 g~~~~~~~~~l~~~v~~------g~~i~I~G~tGSGKTTll~aL~~~i-~~~~~~i~i 58 (186)
T cd01130 8 GTFSPLQAAYLWLAVEA------RKNILISGGTGSGKTTLLNALLAFI-PPDERIITI 58 (186)
T ss_pred CCCCHHHHHHHHHHHhC------CCEEEEECCCCCCHHHHHHHHHhhc-CCCCCEEEE
Confidence 35788899999998874 7899999999999999998866544 444555543
No 197
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.03 E-value=0.03 Score=70.11 Aligned_cols=51 Identities=27% Similarity=0.245 Sum_probs=43.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..+.||-||||||||++....+...++++.+++.++.-- ..+++..|..++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eE-s~~~i~~~~~~l 313 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKERAILFAYEE-SRAQLLRNAYSW 313 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeC-CHHHHHHHHHHc
Confidence 679999999999999999999999999999999999644 566677776554
No 198
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.03 E-value=0.024 Score=69.85 Aligned_cols=57 Identities=25% Similarity=0.248 Sum_probs=34.7
Q ss_pred cccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 240 EKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 240 ~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
.+++|....++- -|..++......+..+.-+...|++|||||||||++..++..|..
T Consensus 10 ~KyRP~~f~dvV-GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 10 RKYRPQFFRDVI-HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred HHhCCCCHHHHh-ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 344444444443 254444433222222222335799999999999999999888865
No 199
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=95.02 E-value=0.027 Score=69.07 Aligned_cols=37 Identities=30% Similarity=0.304 Sum_probs=31.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAP 307 (1382)
+.+.++.||||+|||||++.++..+. +.+.+|++++-
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~ 136 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVAC 136 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEec
Confidence 56899999999999999999999987 56788766544
No 200
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.01 E-value=0.05 Score=67.54 Aligned_cols=56 Identities=18% Similarity=0.128 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHhhcccC-CCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecC
Q 048652 252 EPQVGAVFACLRRLDCD-HKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTP 307 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~-~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAP 307 (1382)
++...|+..+..-.... ...+..+|+||||||||+++.++...+... +.+++.++.
T Consensus 128 ~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 128 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 33444555544432221 123568999999999999999999999877 566666544
No 201
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.99 E-value=0.03 Score=72.24 Aligned_cols=48 Identities=27% Similarity=0.236 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHhhccc-CCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 250 LNEPQVGAVFACLRRLDC-DHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~~-~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
-=+.|.+.|..+|..... ...+.+..|.||||||||.|+..++..|..
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 457788888888775433 233345679999999999999998877753
No 202
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.99 E-value=0.026 Score=70.55 Aligned_cols=59 Identities=24% Similarity=0.184 Sum_probs=38.4
Q ss_pred CccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 238 WDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 238 ~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|...++|....++- .|..++......+..+.-++..|++|||||||||++..+...|..
T Consensus 11 la~kyRP~~f~dli-Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 11 FARKYRPSNFAELQ-GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred hhhhhCCCCHHHhc-CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33444544444443 344455433333444444578999999999999999999988864
No 203
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=94.98 E-value=0.016 Score=59.59 Aligned_cols=23 Identities=35% Similarity=0.587 Sum_probs=18.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.++.||||+||||++..+...+
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRL 23 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHS
T ss_pred CEEEECCCCCCHHHHHHHHHHHC
Confidence 57899999999999987765443
No 204
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=94.98 E-value=0.071 Score=64.21 Aligned_cols=63 Identities=27% Similarity=0.288 Sum_probs=49.4
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
|.+|+.+... .+.++.+|.+|+|+|||..... .++..+.++++++|+++-+.+..+++.+...
T Consensus 2 Q~~~~~~~~~-----~~~~~~~i~apTGsGKT~~~~~---~~l~~~~~~~~~~P~~aL~~~~~~~~~~~~~ 64 (357)
T TIGR03158 2 QVATFEALQS-----KDADIIFNTAPTGAGKTLAWLT---PLLHGENDTIALYPTNALIEDQTEAIKEFVD 64 (357)
T ss_pred HHHHHHHHHc-----CCCCEEEEECCCCCCHHHHHHH---HHHHcCCCEEEEeChHHHHHHHHHHHHHHHH
Confidence 7778887765 2346899999999999986532 2234567899999999999999999888654
No 205
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.96 E-value=0.049 Score=67.76 Aligned_cols=51 Identities=16% Similarity=0.146 Sum_probs=35.9
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHc---------------------CCc-eEEecCChHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRI---------------------KCR-TLACTPTNVAITELASRA 319 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---------------------~~R-ILVcAPTN~AVDeVa~RL 319 (1382)
.-+...|++|||||||||++..+...|... ... +-+-+.+|..||+|.+-+
T Consensus 33 ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~Ii 105 (491)
T PRK14964 33 KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVIL 105 (491)
T ss_pred CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHHH
Confidence 334579999999999999998888777532 112 334455678888877544
No 206
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=94.94 E-value=0.043 Score=64.75 Aligned_cols=41 Identities=12% Similarity=0.114 Sum_probs=35.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVA 311 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~A 311 (1382)
..+++|.||||||||++...++....+.+.+++.+..-...
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~ 95 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHAL 95 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchh
Confidence 57999999999999999999999999999888888766533
No 207
>PRK13767 ATP-dependent helicase; Provisional
Probab=94.93 E-value=0.068 Score=71.62 Aligned_cols=68 Identities=22% Similarity=0.248 Sum_probs=53.6
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHH-HHHHHHHc--------CCceEEecCChHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSM-LLFSLLRI--------KCRTLACTPTNVAITELASRA 319 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~-li~~Ll~~--------~~RILVcAPTN~AVDeVa~RL 319 (1382)
.+++-|.+|+...++ ....+|++|.|||||..... ++..++.. +.++|+++||.+-+.++..++
T Consensus 32 ~~tpiQ~~Ai~~il~-------g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L 104 (876)
T PRK13767 32 TFTPPQRYAIPLIHE-------GKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNL 104 (876)
T ss_pred CCCHHHHHHHHHHHc-------CCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHH
Confidence 599999999998765 46799999999999988644 34444431 357999999999999998888
Q ss_pred HHHh
Q 048652 320 LRLV 323 (1382)
Q Consensus 320 ~~l~ 323 (1382)
...+
T Consensus 105 ~~~l 108 (876)
T PRK13767 105 EEPL 108 (876)
T ss_pred HHHH
Confidence 7543
No 208
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=94.92 E-value=0.028 Score=66.94 Aligned_cols=50 Identities=20% Similarity=0.130 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHHHhhccc-CCCCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDC-DHKSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~-~~~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
.+.+.+...+.|...-..... .....+.++.|||||||||++.++...|-
T Consensus 53 ~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~ 103 (361)
T smart00763 53 FFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLE 103 (361)
T ss_pred ccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence 345555655555443332221 23467999999999999999987776663
No 209
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=94.92 E-value=0.034 Score=65.30 Aligned_cols=43 Identities=30% Similarity=0.383 Sum_probs=34.8
Q ss_pred CCCe-EEEEcCCCCchHHHHHHHHHHHHHcC---------------------CceEEecCChHHH
Q 048652 270 KSGV-ELRWGPPGTGKTKTVSMLLFSLLRIK---------------------CRTLACTPTNVAI 312 (1382)
Q Consensus 270 ~~~~-~LI~GPPGTGKTttI~~li~~Ll~~~---------------------~RILVcAPTN~AV 312 (1382)
+.++ .|+.||||||||+++.++...|...+ ..++...|+....
T Consensus 22 ~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~ 86 (325)
T COG0470 22 RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRK 86 (325)
T ss_pred CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCC
Confidence 3455 99999999999999999999998543 4788888876654
No 210
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.92 E-value=0.044 Score=65.84 Aligned_cols=47 Identities=21% Similarity=0.232 Sum_probs=37.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC-Ch--HHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP-TN--VAITELA 316 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP-TN--~AVDeVa 316 (1382)
.+.+.+|.||+|+|||||++.+...+...+.++++++. +. .|++++.
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHH
Confidence 34688999999999999999999999888888877664 33 3666544
No 211
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.90 E-value=0.072 Score=68.89 Aligned_cols=69 Identities=12% Similarity=0.087 Sum_probs=55.9
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...|=+-|++|+...+.. +...-.+|.-|+|+|||.+...++..+ +.++||++||...|++-.+.+.+.
T Consensus 253 ~~~LRpYQ~eAl~~~~~~----gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGN----GRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCCcCHHHHHHHHHHHhc----CCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 356889999999987642 222467899999999999998766544 678999999999999999988864
No 212
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=94.83 E-value=0.039 Score=51.93 Aligned_cols=33 Identities=27% Similarity=0.223 Sum_probs=30.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
.++.|.+|+|||+++..++..|.+.+.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999999999999988
No 213
>PF05729 NACHT: NACHT domain
Probab=94.82 E-value=0.027 Score=58.91 Aligned_cols=27 Identities=30% Similarity=0.352 Sum_probs=23.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
+.+|.|+||+|||+++..++..+....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 689999999999999999888887664
No 214
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=94.80 E-value=0.013 Score=59.65 Aligned_cols=23 Identities=43% Similarity=0.421 Sum_probs=15.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.||+|+||+|||+++.++...+
T Consensus 1 HvLleg~PG~GKT~la~~lA~~~ 23 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKALARSL 23 (131)
T ss_dssp -EEEES---HHHHHHHHHHHHHT
T ss_pred CEeeECCCccHHHHHHHHHHHHc
Confidence 47999999999999998766554
No 215
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=94.79 E-value=0.03 Score=64.47 Aligned_cols=38 Identities=29% Similarity=0.341 Sum_probs=31.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
.+..+|.||||+||||++.+++..+-....+|+++-.+
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~ 164 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDP 164 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESS
T ss_pred ceEEEEECCCccccchHHHHHhhhccccccceEEeccc
Confidence 68999999999999999999887665555787776543
No 216
>PRK13768 GTPase; Provisional
Probab=94.78 E-value=0.032 Score=63.89 Aligned_cols=35 Identities=20% Similarity=0.110 Sum_probs=31.8
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
-+.+|.||||+||||++..+...+...|.+++++.
T Consensus 3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 3 YIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 47899999999999999999999999999998875
No 217
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.77 E-value=0.028 Score=69.12 Aligned_cols=41 Identities=24% Similarity=0.349 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|.++|..++.++.. .+..||.||||||||+++.++...+-.
T Consensus 25 re~vI~lll~aala---g~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 25 RSHAIRLCLLAALS---GESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred cHHHHHHHHHHHcc---CCCEEEECCCChhHHHHHHHHHHHhcc
Confidence 34455555444332 789999999999999999887776543
No 218
>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=94.76 E-value=0.036 Score=69.62 Aligned_cols=48 Identities=21% Similarity=0.247 Sum_probs=44.2
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 275 LRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 275 LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
|++||.|+|||.+...++...+..+.++|+++|+..-+.++..|+.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 689999999999998888888899999999999999999999998874
No 219
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=94.76 E-value=0.037 Score=66.77 Aligned_cols=25 Identities=36% Similarity=0.517 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.-.+++||||||||+++.++...+
T Consensus 156 p~gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 156 PKGVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhC
Confidence 3458999999999999998876654
No 220
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.74 E-value=0.022 Score=68.64 Aligned_cols=56 Identities=23% Similarity=0.304 Sum_probs=35.7
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+++|....++. -|..++....+.+..++-++..+++||||+|||+++..+...+..
T Consensus 10 k~rP~~~~~ii-g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 10 KYRPQTFDDVV-GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred HHCCCcHHhcC-CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34444444442 344455444444444444568999999999999999888777654
No 221
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=94.74 E-value=0.058 Score=55.67 Aligned_cols=54 Identities=26% Similarity=0.190 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
++.+..++...+... -....+.++.||+|+||||++..++..| +..--|.+||=
T Consensus 4 s~~~t~~l~~~l~~~--l~~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPTf 57 (133)
T TIGR00150 4 DEKAMDKFGKAFAKP--LDFGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPTF 57 (133)
T ss_pred CHHHHHHHHHHHHHh--CCCCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCCe
Confidence 344444555555431 1235699999999999999999888876 22234777773
No 222
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.72 E-value=0.061 Score=73.32 Aligned_cols=66 Identities=18% Similarity=0.205 Sum_probs=51.4
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
.+..|..++.. +.+.+|+||||+||||-+-.++...-. ...+|+++-|-..|+..++.|+.+....
T Consensus 71 ~~~~Il~~l~~------~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~ 137 (1283)
T TIGR01967 71 KREDIAEAIAE------NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGT 137 (1283)
T ss_pred HHHHHHHHHHh------CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCC
Confidence 34677777764 689999999999999988655544321 2357888899999999999999987643
No 223
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.72 E-value=0.033 Score=70.16 Aligned_cols=45 Identities=24% Similarity=0.158 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
.|..++......+....-+...|++||||||||+++..+...|..
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 355555544444433333445899999999999999999988874
No 224
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.71 E-value=0.037 Score=66.57 Aligned_cols=39 Identities=28% Similarity=0.323 Sum_probs=31.3
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHc-C-CceEEecC
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRI-K-CRTLACTP 307 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~-~RILVcAP 307 (1382)
...++.++.||||+|||||+..+...+... + .+|.+++.
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 346799999999999999999999887644 5 57766653
No 225
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=94.68 E-value=0.056 Score=66.84 Aligned_cols=37 Identities=22% Similarity=0.314 Sum_probs=32.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
...+|+||||||||+++.++...+...+.+++.++..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~ 178 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSE 178 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHH
Confidence 4689999999999999999999999888898877653
No 226
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.65 E-value=0.2 Score=66.32 Aligned_cols=27 Identities=37% Similarity=0.380 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++||||||||+++..+...|+.
T Consensus 37 ~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 37 NHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 345799999999999999999999874
No 227
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=94.65 E-value=0.04 Score=64.72 Aligned_cols=38 Identities=21% Similarity=0.193 Sum_probs=33.5
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
....+..|.||||+||||++..++..+...+.++.+++
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 34678889999999999999999999999899988765
No 228
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=94.61 E-value=0.042 Score=66.88 Aligned_cols=25 Identities=36% Similarity=0.517 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.-.|+.||||||||+++.++...+
T Consensus 165 p~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred CCceEEECCCCCChHHHHHHHHHHh
Confidence 4568999999999999988876543
No 229
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=94.61 E-value=0.058 Score=63.75 Aligned_cols=42 Identities=12% Similarity=0.105 Sum_probs=36.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAI 312 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AV 312 (1382)
..++.|.||||||||++...++....+.+.+++.+.+-+..-
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~ 96 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALD 96 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHH
Confidence 569999999999999999999999999999999888766443
No 230
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.59 E-value=0.058 Score=68.55 Aligned_cols=44 Identities=25% Similarity=0.110 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|..++....+.+..+.-+...|+.|||||||||++..+...|..
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 33343333333333333456799999999999999999888864
No 231
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=94.55 E-value=0.066 Score=60.75 Aligned_cols=51 Identities=22% Similarity=0.249 Sum_probs=34.9
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+...+...+.. ..++..+.=|.||||.||+|++..++..+...+.+|-|+|
T Consensus 14 ~~~~ll~~l~~--~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 14 EARELLKRLYP--HTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp HHHHHHHHHGG--GTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred HHHHHHHHHHh--hcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 33444444432 2345568889999999999999999999999998876654
No 232
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.52 E-value=0.055 Score=67.00 Aligned_cols=50 Identities=24% Similarity=0.286 Sum_probs=40.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|.||||+|||+++..++..+.+.+.++|.++... ..+++..|..+
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra~r 129 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRAER 129 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHHHH
Confidence 569999999999999999999999988889999888654 44566666443
No 233
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=94.52 E-value=0.047 Score=56.88 Aligned_cols=38 Identities=29% Similarity=0.304 Sum_probs=30.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
++..|.||.||||||++..++..|.+++.++.++-.++
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~ 38 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTD 38 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-S
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEcc
Confidence 46889999999999999999999999999988655444
No 234
>PHA00729 NTP-binding motif containing protein
Probab=94.49 E-value=0.029 Score=62.83 Aligned_cols=26 Identities=19% Similarity=0.240 Sum_probs=22.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
....+|.|||||||||++.++...+.
T Consensus 17 f~nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 17 FVSAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred eEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 34689999999999999999988764
No 235
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=94.48 E-value=0.042 Score=59.40 Aligned_cols=41 Identities=29% Similarity=0.182 Sum_probs=30.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec--CChHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT--PTNVAIT 313 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA--PTN~AVD 313 (1382)
|+.+|.|.+|+||||++..++. ....+.|+.++. +-...+|
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD 43 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNID 43 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHH
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccc
Confidence 5889999999999999999998 666677877764 3334455
No 236
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.46 E-value=0.045 Score=66.45 Aligned_cols=37 Identities=27% Similarity=0.343 Sum_probs=30.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH-HHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL-LRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L-l~~~~RILVcAP 307 (1382)
+.+.+|.||||+|||||++.++..+ ...+.+|++++-
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 4578899999999999999999765 577888877664
No 237
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.46 E-value=0.11 Score=64.86 Aligned_cols=69 Identities=23% Similarity=0.233 Sum_probs=53.5
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHH-HHHHHHHHc---------CCceEEecCChHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVS-MLLFSLLRI---------KCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~-~li~~Ll~~---------~~RILVcAPTN~AVDeVa~ 317 (1382)
..+++-|.+|+..++. ..-.+|.+|.|||||.... .++..++.. ..++|+++||..-+.++..
T Consensus 108 ~~~~~iQ~~ai~~~~~-------G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~ 180 (475)
T PRK01297 108 PYCTPIQAQVLGYTLA-------GHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAK 180 (475)
T ss_pred CCCCHHHHHHHHHHhC-------CCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHH
Confidence 3689999999998876 4567899999999996643 233444443 3589999999999999888
Q ss_pred HHHHHh
Q 048652 318 RALRLV 323 (1382)
Q Consensus 318 RL~~l~ 323 (1382)
.+..+.
T Consensus 181 ~~~~l~ 186 (475)
T PRK01297 181 DAAALT 186 (475)
T ss_pred HHHHhh
Confidence 887654
No 238
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=94.46 E-value=0.063 Score=64.83 Aligned_cols=50 Identities=24% Similarity=0.261 Sum_probs=40.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|.||||+|||+++..++..+...+.++|.++... ..+++..|..+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE-s~~qi~~Ra~r 131 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE-SPEQIKLRADR 131 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc-CHHHHHHHHHH
Confidence 579999999999999999999999998888999887654 34566655544
No 239
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.45 E-value=0.07 Score=64.35 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=29.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEe
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLAC 305 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVc 305 (1382)
.++.+|.||+|+|||||+.+++..+... ..+|+++
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 6899999999999999999999988754 3566654
No 240
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.45 E-value=0.041 Score=67.23 Aligned_cols=27 Identities=19% Similarity=0.113 Sum_probs=23.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++||||+||||++..+...|..
T Consensus 38 ~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 38 GHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred ceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345889999999999999999888875
No 241
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=94.45 E-value=0.036 Score=66.34 Aligned_cols=37 Identities=22% Similarity=0.361 Sum_probs=29.8
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEec
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACT 306 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcA 306 (1382)
..++.+|.||+|+|||||+.+++..+... +.+|+++-
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiE 158 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIE 158 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEc
Confidence 36899999999999999999988877644 45666643
No 242
>PRK06851 hypothetical protein; Provisional
Probab=94.41 E-value=0.047 Score=65.49 Aligned_cols=45 Identities=16% Similarity=0.156 Sum_probs=39.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE--ecCChHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA--CTPTNVAITEL 315 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV--cAPTN~AVDeV 315 (1382)
....+|.|||||||||++..++..+..+|.+|.+ |+.-+..+|-|
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD~v 260 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLDMV 260 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcceE
Confidence 5789999999999999999999999999988776 77777666644
No 243
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.41 E-value=0.068 Score=67.82 Aligned_cols=29 Identities=31% Similarity=0.196 Sum_probs=24.7
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+-....|++|||||||||++..+...|..
T Consensus 36 RLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 36 RLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33445699999999999999999999975
No 244
>PRK00889 adenylylsulfate kinase; Provisional
Probab=94.41 E-value=0.056 Score=58.02 Aligned_cols=37 Identities=19% Similarity=0.077 Sum_probs=31.0
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
|...+.+|.|+||+||||++..+...+...+.++.++
T Consensus 2 ~~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 2 QRGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 4567999999999999999999988887667667655
No 245
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.39 E-value=0.07 Score=67.07 Aligned_cols=27 Identities=30% Similarity=0.212 Sum_probs=23.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++|||||||||++..+...|..
T Consensus 38 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 38 HHAYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred CeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345699999999999999999998875
No 246
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=94.39 E-value=0.089 Score=60.56 Aligned_cols=40 Identities=23% Similarity=0.138 Sum_probs=35.7
Q ss_pred cCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 267 CDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 267 ~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
..++..+.=|.||||.||+|++-.++..|...|.||-|+|
T Consensus 47 ~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 47 RTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred cCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 4467789999999999999999999999999999987654
No 247
>PRK06696 uridine kinase; Validated
Probab=94.38 E-value=0.074 Score=59.65 Aligned_cols=38 Identities=13% Similarity=0.009 Sum_probs=30.9
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+.+-+..|.||||+||||++..+...|-..+..+++++
T Consensus 20 ~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 20 TRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 45679999999999999999998888866666666554
No 248
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.35 E-value=0.054 Score=66.22 Aligned_cols=42 Identities=26% Similarity=0.369 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
-..+...+.+..++.. .+..++.||||||||+++..+...+.
T Consensus 178 ~i~e~~le~l~~~L~~------~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 178 FIPETTIETILKRLTI------KKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred cCCHHHHHHHHHHHhc------CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 3456666677777663 67899999999999999876665543
No 249
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=94.33 E-value=0.058 Score=49.06 Aligned_cols=30 Identities=20% Similarity=0.107 Sum_probs=22.9
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
..|.||||+||||++..+...+ .+.++-+.
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i 31 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVL 31 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEE
Confidence 4688999999999998888777 44444443
No 250
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.29 E-value=0.054 Score=64.84 Aligned_cols=46 Identities=26% Similarity=0.233 Sum_probs=36.1
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC-Ch--HHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP-TN--VAITEL 315 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP-TN--~AVDeV 315 (1382)
...+.+|.||+|+|||||++.+...+...+.+|.+++- |- .|++++
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQL 253 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQF 253 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHH
Confidence 46789999999999999999999998888888866553 32 345544
No 251
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.28 E-value=0.05 Score=66.90 Aligned_cols=37 Identities=32% Similarity=0.293 Sum_probs=30.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHH--HcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLL--RIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll--~~~~RILVcAP 307 (1382)
..+.++.||+|+|||||++.+...+. ..+.+|.+++.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 45888999999999999999998886 45677776553
No 252
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.22 E-value=0.077 Score=63.11 Aligned_cols=58 Identities=29% Similarity=0.385 Sum_probs=40.7
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHH
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITEL 315 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeV 315 (1382)
.+....++..++.. .+..++.||||||||+++..+...+- .+...+-|+|...+.|-+
T Consensus 29 ~~~~~~~~l~a~~~------~~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d~~ 86 (329)
T COG0714 29 DEEVIELALLALLA------GGHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSDLL 86 (329)
T ss_pred cHHHHHHHHHHHHc------CCCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHHhc
Confidence 34444444445443 78999999999999999988766665 566666677776666643
No 253
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=94.21 E-value=0.12 Score=60.13 Aligned_cols=74 Identities=22% Similarity=0.183 Sum_probs=66.8
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
-.|++-|+.|-...++.+.. ..-.|||+--|+|||..+-..+.+.+..|.+|.+.+|--.-+.|+.-||.....
T Consensus 96 G~Ls~~Q~~as~~l~q~i~~---k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 96 GTLSPGQKKASNQLVQYIKQ---KEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred cccChhHHHHHHHHHHHHHh---cCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc
Confidence 37999999999988887643 567999999999999999999999999999999999999999999999988654
No 254
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.21 E-value=0.052 Score=65.74 Aligned_cols=45 Identities=27% Similarity=0.142 Sum_probs=33.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHH----cCCceEEecC-C--hHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLR----IKCRTLACTP-T--NVAITE 314 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~----~~~RILVcAP-T--N~AVDe 314 (1382)
.+.+.++.||+|+|||||++.+.+.+.. .+.+|.+++- | ..|+++
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ 224 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ 224 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH
Confidence 3578999999999999999999887763 3567765443 3 345554
No 255
>PTZ00110 helicase; Provisional
Probab=94.18 E-value=0.14 Score=65.22 Aligned_cols=69 Identities=14% Similarity=0.075 Sum_probs=52.0
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHH-HHHHHHHHc-------CCceEEecCChHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVS-MLLFSLLRI-------KCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~-~li~~Ll~~-------~~RILVcAPTN~AVDeVa~R 318 (1382)
...+++-|..|+-.+++ ..-.++.+|.|||||.+.. -++..+... +..+|+++||..-+.++...
T Consensus 150 ~~~pt~iQ~~aip~~l~-------G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~ 222 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALS-------GRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQ 222 (545)
T ss_pred CCCCCHHHHHHHHHHhc-------CCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHH
Confidence 34689999999999887 4567889999999998632 233333322 46799999999888888777
Q ss_pred HHHH
Q 048652 319 ALRL 322 (1382)
Q Consensus 319 L~~l 322 (1382)
+.+.
T Consensus 223 ~~~~ 226 (545)
T PTZ00110 223 CNKF 226 (545)
T ss_pred HHHH
Confidence 7664
No 256
>PRK06620 hypothetical protein; Validated
Probab=94.18 E-value=0.055 Score=60.46 Aligned_cols=21 Identities=29% Similarity=0.253 Sum_probs=18.2
Q ss_pred CeEEEEcCCCCchHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li 292 (1382)
+..+|+||||+|||+++.++.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~ 65 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQ 65 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 568999999999999998643
No 257
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=94.18 E-value=0.039 Score=55.26 Aligned_cols=22 Identities=36% Similarity=0.298 Sum_probs=19.4
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+|.|+|||||||++..+...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 3689999999999998888776
No 258
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.18 E-value=0.14 Score=67.18 Aligned_cols=68 Identities=19% Similarity=0.268 Sum_probs=55.8
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecCChHHHHHHHHHHHHHhhhh
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTPTNVAITELASRALRLVKES 326 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAPTN~AVDeVa~RL~~l~~es 326 (1382)
..+..|..++.. +.+.+|.||||+||||-+-..+...- ..+.+|.++=|-..|+-.++.|+.+...+.
T Consensus 53 ~~~~~i~~ai~~------~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~ 121 (845)
T COG1643 53 AVRDEILKAIEQ------NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEK 121 (845)
T ss_pred HHHHHHHHHHHh------CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCC
Confidence 456678888874 89999999999999999876665554 345688888999999999999999887653
No 259
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=94.16 E-value=0.058 Score=59.52 Aligned_cols=32 Identities=31% Similarity=0.280 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHH
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSM 290 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~ 290 (1382)
.-++|+.-+... ....|+.||||||||+++..
T Consensus 10 ~aKrAL~iAAaG------~h~lLl~GppGtGKTmlA~~ 41 (206)
T PF01078_consen 10 EAKRALEIAAAG------GHHLLLIGPPGTGKTMLARR 41 (206)
T ss_dssp HHHHHHHHHHHC------C--EEEES-CCCTHHHHHHH
T ss_pred HHHHHHHHHHcC------CCCeEEECCCCCCHHHHHHH
Confidence 345566555442 46899999999999998643
No 260
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.15 E-value=0.06 Score=63.93 Aligned_cols=38 Identities=18% Similarity=0.147 Sum_probs=32.9
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+...+.-|.||||+||||++..++..+...+.+|-|++
T Consensus 54 ~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~ 91 (332)
T PRK09435 54 GNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLA 91 (332)
T ss_pred CCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 34568999999999999999999999998888887765
No 261
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=94.13 E-value=0.064 Score=67.17 Aligned_cols=51 Identities=20% Similarity=0.109 Sum_probs=40.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+....||.||||||||+.....+..-+.. +.++|.++.- ...+++.....+
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~ 71 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARS 71 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHH
Confidence 36799999999999999999998876665 8999998875 344555555544
No 262
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=94.11 E-value=0.14 Score=64.76 Aligned_cols=68 Identities=21% Similarity=0.140 Sum_probs=51.8
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHH-HHHHHHHHH---------cCCceEEecCChHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTV-SMLLFSLLR---------IKCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI-~~li~~Ll~---------~~~RILVcAPTN~AVDeVa~ 317 (1382)
..+++-|..|+...++ ..-.++.+|.|||||..- ..++..++. .+.++|+++||..-+.++..
T Consensus 142 ~~ptpiQ~~aip~il~-------g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~ 214 (518)
T PLN00206 142 EFPTPIQMQAIPAALS-------GRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVED 214 (518)
T ss_pred CCCCHHHHHHHHHHhc-------CCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHH
Confidence 4789999999999886 467999999999999763 333334332 35689999999988877766
Q ss_pred HHHHH
Q 048652 318 RALRL 322 (1382)
Q Consensus 318 RL~~l 322 (1382)
.+..+
T Consensus 215 ~~~~l 219 (518)
T PLN00206 215 QAKVL 219 (518)
T ss_pred HHHHH
Confidence 65543
No 263
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=94.09 E-value=0.045 Score=54.19 Aligned_cols=24 Identities=38% Similarity=0.634 Sum_probs=20.5
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHc
Q 048652 275 LRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 275 LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.|+||||+|||+++..++..++..
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 589999999999998888777643
No 264
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=94.08 E-value=0.23 Score=53.07 Aligned_cols=46 Identities=20% Similarity=0.163 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
|.+++......+..+.-+...|++||+|+||++++..++..++...
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~ 47 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSN 47 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 3344444333333333445679999999999999999999998753
No 265
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=94.08 E-value=0.13 Score=63.78 Aligned_cols=45 Identities=11% Similarity=0.058 Sum_probs=32.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecCChHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAPTN~AVDeVa~ 317 (1382)
...+|+||||||||+++.++...+... +.+++.++. ......+..
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~ 188 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG-DEFARKAVD 188 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH-HHHHHHHHH
Confidence 468999999999999999998887753 567776655 334444443
No 266
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=94.06 E-value=0.17 Score=65.95 Aligned_cols=72 Identities=17% Similarity=0.120 Sum_probs=62.5
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
.+++-..|+-=....+. +.-.-|.+|+|+||||+...+...+.+.|.|++++-||..-|.++.+||.++...
T Consensus 80 G~~~ws~QR~WakR~~r-------g~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~ 151 (1187)
T COG1110 80 GFRPWSAQRVWAKRLVR-------GKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAED 151 (1187)
T ss_pred CCCchHHHHHHHHHHHc-------CCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhh
Confidence 34566678877777766 4667788999999999999999999999999999999999999999999998765
No 267
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=94.06 E-value=0.051 Score=58.38 Aligned_cols=28 Identities=29% Similarity=0.398 Sum_probs=21.6
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCc
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCR 301 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~R 301 (1382)
.+|.||||+||||++..++..|-..+.+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~ 29 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLP 29 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGG
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCc
Confidence 5899999999999998888777555433
No 268
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.00 E-value=0.039 Score=70.39 Aligned_cols=56 Identities=29% Similarity=0.192 Sum_probs=36.6
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
++++....++-. |..++....+.+..+.-+...|++|||||||||++..+...|..
T Consensus 9 KyRP~~f~dviG-Qe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 9 KYRPRSFSEMVG-QEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred HHCCCCHHHhcC-cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 445544445553 55554433333333333445699999999999999999988875
No 269
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=94.00 E-value=0.075 Score=57.19 Aligned_cols=50 Identities=20% Similarity=0.151 Sum_probs=39.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
+.+|.||||+|||+.+..++.. .+.+++.+|-....-+++..|+.+....
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~~~ 50 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHRKR 50 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHHHh
Confidence 4689999999999999887655 5678888777766677899998886443
No 270
>PRK05541 adenylylsulfate kinase; Provisional
Probab=94.00 E-value=0.083 Score=56.76 Aligned_cols=37 Identities=22% Similarity=0.084 Sum_probs=29.6
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+++.+.++.||||+||||++..+...|-..+..+.++
T Consensus 5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 3467999999999999999988888887665555554
No 271
>PHA02244 ATPase-like protein
Probab=94.00 E-value=0.069 Score=63.74 Aligned_cols=24 Identities=17% Similarity=0.152 Sum_probs=20.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~ 294 (1382)
+...+|+||||||||+++.++...
T Consensus 119 ~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 119 NIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHH
Confidence 556888999999999999888765
No 272
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.98 E-value=0.066 Score=56.30 Aligned_cols=33 Identities=24% Similarity=0.233 Sum_probs=29.9
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
..+.||+|+|||+++..+...+...+.|++++.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~ 34 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLA 34 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence 467899999999999999999999999998876
No 273
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.97 E-value=0.042 Score=63.10 Aligned_cols=24 Identities=38% Similarity=0.498 Sum_probs=19.1
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLF 293 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~ 293 (1382)
.+-..+||||||||||-..-++.+
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~Vaa 188 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAVAA 188 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHHHH
Confidence 366899999999999987755443
No 274
>PF12846 AAA_10: AAA-like domain
Probab=93.96 E-value=0.065 Score=61.89 Aligned_cols=43 Identities=28% Similarity=0.300 Sum_probs=38.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
+++.+|.|++|+|||+++..++..++..+.++++.=|...-..
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP 43 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH
Confidence 3689999999999999999999999999999999988765444
No 275
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.92 E-value=0.14 Score=63.96 Aligned_cols=64 Identities=20% Similarity=0.122 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+++.|.+||...+. ..-.+|..|.|||||.+- ++-.+ ..+..+||++||..=+.+...++..
T Consensus 10 ~~~r~~Q~~ai~~~l~-------g~dvlv~apTGsGKTl~y--~lp~l-~~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 10 SSFRPVQLEVINAVLL-------GRDCFVVMPTGGGKSLCY--QLPAL-CSDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEcCCCCcHhHHH--HHHHH-HcCCcEEEEecHHHHHHHHHHHHHH
Confidence 4789999999999987 346899999999999543 23333 3467899999999776666666654
No 276
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.89 E-value=0.078 Score=65.25 Aligned_cols=25 Identities=32% Similarity=0.461 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...|+.||||||||+++.++...+
T Consensus 217 p~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhh
Confidence 4568899999999999998876643
No 277
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=93.86 E-value=0.074 Score=56.41 Aligned_cols=36 Identities=25% Similarity=0.234 Sum_probs=31.5
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
+..|.||+|+||||++..++..|...|.++-++-+.
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 356889999999999999999998888899887655
No 278
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.85 E-value=0.049 Score=68.04 Aligned_cols=56 Identities=25% Similarity=0.194 Sum_probs=34.0
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
.++|....++- .|..++......+..+.-++..|+.||||||||+++..+...|..
T Consensus 9 kyRP~~f~dii-Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 9 KYRPKFFKEVI-GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred hhCCCcHHHcc-ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34444433443 355555444333333333445789999999998888887777763
No 279
>PRK09694 helicase Cas3; Provisional
Probab=93.84 E-value=0.15 Score=67.61 Aligned_cols=72 Identities=18% Similarity=0.182 Sum_probs=57.8
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCChHHHHHHHHHHHHHhh
Q 048652 247 SSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
.+..++-|+.+.... ..+++.+|.+|.|+|||..+...+..|+..+ .+|+++.||-+.++++..|+.+...
T Consensus 284 ~~~p~p~Q~~~~~~~-------~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 284 GYQPRQLQTLVDALP-------LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCCChHHHHHHHhhc-------cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 456788887663221 1378999999999999999888777777654 7999999999999999999987554
Q ss_pred h
Q 048652 325 E 325 (1382)
Q Consensus 325 e 325 (1382)
.
T Consensus 357 ~ 357 (878)
T PRK09694 357 K 357 (878)
T ss_pred H
Confidence 3
No 280
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=93.80 E-value=0.063 Score=60.76 Aligned_cols=36 Identities=28% Similarity=0.332 Sum_probs=31.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
-.+|-||+|||||+++..++..+...-..|.+++|+
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~~ 50 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITPE 50 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEecC
Confidence 467999999999999999998888877888888883
No 281
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=93.77 E-value=0.099 Score=64.85 Aligned_cols=50 Identities=22% Similarity=0.357 Sum_probs=40.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|-|+||+||||++..++..+...+.++|.++.-.. ..++..|..+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra~r 143 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRAIR 143 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHHHH
Confidence 5799999999999999999999999888889988876543 4566555443
No 282
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=93.77 E-value=0.094 Score=59.82 Aligned_cols=29 Identities=31% Similarity=0.469 Sum_probs=22.4
Q ss_pred cCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 267 CDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 267 ~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
++..-++.|+.||||+||||++..+...|
T Consensus 48 r~e~lDHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 48 RGEALDHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred cCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence 44557899999999999999876554444
No 283
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=93.73 E-value=0.1 Score=65.82 Aligned_cols=50 Identities=26% Similarity=0.171 Sum_probs=43.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+|.||||||||+++..++...+..+.+++.++.... .+++..++..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHHH
Confidence 6799999999999999999999999999999999998764 5666666544
No 284
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.70 E-value=0.062 Score=70.27 Aligned_cols=29 Identities=24% Similarity=0.140 Sum_probs=24.1
Q ss_pred CCCe-EEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 270 KSGV-ELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 270 ~~~~-~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
+-+. .|++|||||||||++..+...|...
T Consensus 36 rl~HAyLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 36 RLHHAYLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence 3444 5999999999999999999888753
No 285
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=93.69 E-value=0.12 Score=58.43 Aligned_cols=53 Identities=19% Similarity=0.233 Sum_probs=41.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH------------cCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLR------------IKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~------------~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
.+.+|.||||||||+++..++.++.. .+.+||+.+--+.+ +++..|+......
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i~~~ 66 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAILQH 66 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHHHhh
Confidence 47899999999999999999887653 35678888755533 5788898887553
No 286
>PRK09354 recA recombinase A; Provisional
Probab=93.67 E-value=0.11 Score=61.85 Aligned_cols=42 Identities=12% Similarity=0.087 Sum_probs=36.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAI 312 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AV 312 (1382)
..+++|.||||||||++...++....+.+.+++.+..-+..-
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~ 101 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALD 101 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchH
Confidence 569999999999999999999999999998888887766443
No 287
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=93.63 E-value=0.068 Score=64.72 Aligned_cols=29 Identities=28% Similarity=0.426 Sum_probs=23.3
Q ss_pred CCCe-EEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 270 KSGV-ELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 270 ~~~~-~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.+++ ..|.|||||||||+|..++..+-+.
T Consensus 67 PPPfIvavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 67 PPPFIVAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred CCCeEEEeecCCCCChhHHHHHHHHHHHHh
Confidence 3444 4499999999999999999887653
No 288
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=93.62 E-value=0.094 Score=58.53 Aligned_cols=40 Identities=15% Similarity=0.125 Sum_probs=33.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcC------CceEEecCChH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIK------CRTLACTPTNV 310 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~------~RILVcAPTN~ 310 (1382)
..+..|.||||+|||+++..++...+..+ .+++..+..+.
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 67999999999999999999988887665 77777666543
No 289
>PRK13764 ATPase; Provisional
Probab=93.57 E-value=0.076 Score=67.47 Aligned_cols=34 Identities=21% Similarity=0.121 Sum_probs=27.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
....||.||||+||||++.+++..+...+..|++
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 4668999999999999999999888765554444
No 290
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.53 E-value=0.076 Score=67.11 Aligned_cols=27 Identities=33% Similarity=0.242 Sum_probs=23.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++|||||||||++..+...|..
T Consensus 38 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 38 HHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344699999999999999999888864
No 291
>PRK07667 uridine kinase; Provisional
Probab=93.52 E-value=0.099 Score=57.34 Aligned_cols=39 Identities=15% Similarity=-0.087 Sum_probs=31.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
.-+..|.||||+||||++..+...|-..+.++.++.--+
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 458899999999999999988888877777766665444
No 292
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=93.50 E-value=0.11 Score=64.03 Aligned_cols=80 Identities=24% Similarity=0.325 Sum_probs=64.0
Q ss_pred hHHHHHHHHHhcCCChhhhhHhhchhhHHhhhch----------------------------------------------
Q 048652 938 NLQEAAEIFAAIGMPDSAVRCFNDLEKYERAGRF---------------------------------------------- 971 (1382)
Q Consensus 938 ~~~~aa~~fe~~~~~~~aa~c~~~~~~y~~a~~~---------------------------------------------- 971 (1382)
-|+|||.+|-+.|.-.||-+.|-++.-|.-|+.+
T Consensus 647 KF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~ 726 (1081)
T KOG1538|consen 647 KFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEIC 726 (1081)
T ss_pred hHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhh
Confidence 4788888888888888888888887766655554
Q ss_pred ---------------------HHHHhhH---hhccChhHHHHHhhhcCchHHHhHHHHHhcCchhHHHHH
Q 048652 972 ---------------------DELMMLE---EGSGNFMEAANTAVLGGDIFLATDLLQKAGNFREASKLV 1017 (1382)
Q Consensus 972 ---------------------~el~~~~---~~~~~~~eaa~~~~~~g~~~~~~~~l~~~~~~~~~~~~~ 1017 (1382)
|-|+.++ ..+.-|--||+||+..||..--++|-+++|.|++|..++
T Consensus 727 ~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W~eAFalA 796 (1081)
T KOG1538|consen 727 GDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRWDEAFALA 796 (1081)
T ss_pred hcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccchHhHhhh
Confidence 3333333 455667889999999999999999999999999999877
No 293
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=93.47 E-value=0.02 Score=74.50 Aligned_cols=67 Identities=33% Similarity=0.344 Sum_probs=61.9
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc----CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI----KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~----~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
.||+.|++||... .+..+|-++||||||+|++.++++|+.. +.+||++++||.|+.+|.+|+.++..
T Consensus 2 ~Ln~~Q~~av~~~---------~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 2 KLNPEQREAVLHP---------DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCCHHHHHHHhcC---------CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 6999999999965 6889999999999999999999999987 46899999999999999999999875
No 294
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=93.46 E-value=0.088 Score=63.32 Aligned_cols=35 Identities=20% Similarity=0.412 Sum_probs=28.4
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEE
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLA 304 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILV 304 (1382)
..++.+|.||+|+|||||+.+++..+... +.+|++
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt 170 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILT 170 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEE
Confidence 37999999999999999999998888653 235554
No 295
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=93.40 E-value=0.11 Score=56.02 Aligned_cols=50 Identities=18% Similarity=0.118 Sum_probs=38.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
+.+|.||||||||+....++..+ +.+++.+|.....-+++..|+......
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h~~~ 52 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHHRQR 52 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHHHhc
Confidence 57999999999999988776543 556667776666677899999887554
No 296
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=93.39 E-value=0.069 Score=57.56 Aligned_cols=25 Identities=20% Similarity=0.341 Sum_probs=21.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
-++.+|.||||+||||++..+...+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999999999998877654
No 297
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.38 E-value=0.11 Score=61.82 Aligned_cols=44 Identities=16% Similarity=0.034 Sum_probs=32.1
Q ss_pred HHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 255 VGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 255 ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
...+..++.. ....+|.||+|+||||++.+++..+ ....||+++
T Consensus 150 ~~~L~~~v~~------~~nili~G~tgSGKTTll~aL~~~i-p~~~ri~ti 193 (332)
T PRK13900 150 KEFLEHAVIS------KKNIIISGGTSTGKTTFTNAALREI-PAIERLITV 193 (332)
T ss_pred HHHHHHHHHc------CCcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEEe
Confidence 3445555553 6789999999999999998876555 445677663
No 298
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.36 E-value=0.063 Score=67.44 Aligned_cols=56 Identities=23% Similarity=0.208 Sum_probs=34.2
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+++|....++-. |..++......+..+.-+...|++||||||||+++..++..|+.
T Consensus 7 KyRP~~fdeiiG-qe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 7 KYRPKHFDELIG-QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred HHCCCCHHHccC-cHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 444444334433 43333333233323333345699999999999999999999874
No 299
>PRK06762 hypothetical protein; Provisional
Probab=93.35 E-value=0.13 Score=54.72 Aligned_cols=33 Identities=27% Similarity=0.287 Sum_probs=25.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+.+.+|.||||+||||++..+...+ +..+.++.
T Consensus 2 ~~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~ 34 (166)
T PRK06762 2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS 34 (166)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEec
Confidence 4688999999999999998877766 33454443
No 300
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.33 E-value=0.084 Score=67.16 Aligned_cols=43 Identities=30% Similarity=0.242 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhcccCCCCC-eEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSG-VELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~-~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|..++....+.+. .++-+ ..|+.|||||||||++..++..|..
T Consensus 18 q~~i~~~L~~~i~-~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 18 QEHVTEPLSSALD-AGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred cHHHHHHHHHHHH-cCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4444443322222 33334 4699999999999999999988874
No 301
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=93.29 E-value=0.061 Score=67.23 Aligned_cols=61 Identities=21% Similarity=0.273 Sum_probs=37.7
Q ss_pred HHHHHHHHH---HHhhhccCCCCceEEEeeeecCCCCC-------ceEEEEEeeecccccCCCCCCCCCCCCCEEEeec
Q 048652 61 LLEETRMQL---RSGLEAMRRAPYAEVIAFEELKPYGA-------NRYGIEVDYWRNTICNSGKEPYKTLPGDILVLAD 129 (1382)
Q Consensus 61 LlEEtra~l---~Ssle~is~ap~~~i~~ve~~~~~~~-------~~y~i~v~~~~~~~~~~~~e~y~~~~GDIv~Ls~ 129 (1382)
++.+.|++| ...++.+.+.|...-+-+....+.+. .-|.+.+++.- ..-.+.+|+-|.|.+
T Consensus 23 ~l~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~~--------~~~~l~~g~~v~l~e 93 (512)
T TIGR03689 23 LLKAARDKLSKLKSQLEQLAQPPSTYGTFLQTAIDDETAEVFTAGRRMRVTVSPNV--------NAAELVPGQTVRLNE 93 (512)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcceEEEEEeccCCCeEEEEeCCceEEEEeCCCC--------CHHHCCCCCEEEECC
Confidence 456666664 56777888888876554544122211 34556655433 346788999999975
No 302
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.26 E-value=0.078 Score=68.14 Aligned_cols=56 Identities=29% Similarity=0.246 Sum_probs=35.5
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
++++....++-. |..++......+..+.-.+..|++||||||||+++..++..|..
T Consensus 9 kyRP~~f~~liG-q~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 9 KYRPQRFDELVG-QEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred HhCCCcHhhccC-hHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence 444444444432 44444433333332333467899999999999999999999875
No 303
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=93.23 E-value=0.068 Score=60.70 Aligned_cols=30 Identities=27% Similarity=0.159 Sum_probs=23.2
Q ss_pred EEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 276 RWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 276 I~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
|-||||+||||.+.++...+-..+.++.++
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~v 30 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIV 30 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEE
Confidence 679999999999999999887777666553
No 304
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=93.22 E-value=0.063 Score=63.78 Aligned_cols=33 Identities=15% Similarity=0.314 Sum_probs=24.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+-..+||||||||||..+.++...+ +...++++
T Consensus 148 PlgllL~GPPGcGKTllAraiA~el---g~~~i~vs 180 (413)
T PLN00020 148 PLILGIWGGKGQGKSFQCELVFKKM---GIEPIVMS 180 (413)
T ss_pred CeEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEE
Confidence 5679999999999999987776654 44444443
No 305
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.19 E-value=0.091 Score=55.41 Aligned_cols=29 Identities=28% Similarity=0.269 Sum_probs=23.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCce
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRT 302 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RI 302 (1382)
..|.||||.||||++.-++-.|-..+.++
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 67999999999999988777777666554
No 306
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.19 E-value=0.094 Score=46.88 Aligned_cols=28 Identities=29% Similarity=0.393 Sum_probs=24.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
.+++|.||.|+||||++-++...|....
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~~~ 51 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYGNT 51 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 4899999999999999999888876544
No 307
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.18 E-value=0.12 Score=61.78 Aligned_cols=51 Identities=25% Similarity=0.319 Sum_probs=36.3
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
++.....+..++.. ....+|.||+||||||++.+++..+ ....|++++=.+
T Consensus 148 ~~~~~~~l~~~v~~------~~nilI~G~tGSGKTTll~aLl~~i-~~~~rivtiEd~ 198 (344)
T PRK13851 148 NGDLEAFLHACVVG------RLTMLLCGPTGSGKTTMSKTLISAI-PPQERLITIEDT 198 (344)
T ss_pred cHHHHHHHHHHHHc------CCeEEEECCCCccHHHHHHHHHccc-CCCCCEEEECCC
Confidence 34455556666553 6889999999999999998877654 345677664444
No 308
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=93.17 E-value=0.15 Score=59.00 Aligned_cols=69 Identities=17% Similarity=0.117 Sum_probs=43.4
Q ss_pred HHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC---CceEEecCChHHHHHHHHHHHHHh
Q 048652 253 PQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK---CRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~---~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
.+.+.|...|.... +..++..|+|+||+|||+++..++......+ ..+-+....+.-...+...+...+
T Consensus 3 ~~~~~l~~~L~~~~--~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l 74 (287)
T PF00931_consen 3 KEIEKLKDWLLDNS--NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQL 74 (287)
T ss_dssp HHHHHHHHHHHTTT--TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred HHHHHHHHHhhCCC--CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccc
Confidence 45566777766422 5678999999999999999988886644322 234344433333355555555544
No 309
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=93.14 E-value=0.21 Score=64.35 Aligned_cols=64 Identities=20% Similarity=0.188 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+.+.|++||...+. ..-.+|.+|.|+|||.+- .+..++ .+..+||++|+..=+.+...++..
T Consensus 24 ~~~r~~Q~~ai~~il~-------g~dvlv~apTGsGKTl~y--~lpal~-~~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 24 QQFRPGQQEIIDAVLS-------GRDCLVVMPTGGGKSLCY--QIPALV-LDGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEcCCCchHHHHH--HHHHHH-cCCCEEEEecHHHHHHHHHHHHHH
Confidence 3688999999999886 456788999999999653 333443 356799999998777776666654
No 310
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.10 E-value=0.1 Score=57.79 Aligned_cols=150 Identities=20% Similarity=0.302 Sum_probs=69.1
Q ss_pred ccCcccccccccccchhhhcccc----cccchHhhcCccccCChHHHHHhHHHHHHHHHhcCCChhhhhH-------hhc
Q 048652 893 KPKYEKTTLCYDKDGETYWEGRS----TATDRKAAADPMCSSNPKEVKFNLQEAAEIFAAIGMPDSAVRC-------FND 961 (1382)
Q Consensus 893 ~~~~~~~~~cf~~ag~~~~~~~a----~a~~l~~~a~~~~~~~~~~~~~~~~~aa~~fe~~~~~~~aa~c-------~~~ 961 (1382)
++.|+.|.-||++|+..|+=.+. .-+.++++-=.+...+...+-.-|-+|+.||-+. ++.+|+.| |.+
T Consensus 27 ~~k~eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~-~~~eAv~cL~~aieIyt~ 105 (288)
T KOG1586|consen 27 SNKYEEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKV-DPEEAVNCLEKAIEIYTD 105 (288)
T ss_pred CcchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhcc-ChHHHHHHHHHHHHHHHh
Confidence 45778887888888777653321 2223322222222233333444455555555554 44444444 223
Q ss_pred hhhHHhhhch---------HHHHhhHhhccChhHHHHHhhhcCchHHHhHHHHHh-------cCchhHHHHHHHHHHhhc
Q 048652 962 LEKYERAGRF---------DELMMLEEGSGNFMEAANTAVLGGDIFLATDLLQKA-------GNFREASKLVLNFVFSNS 1025 (1382)
Q Consensus 962 ~~~y~~a~~~---------~el~~~~~~~~~~~eaa~~~~~~g~~~~~~~~l~~~-------~~~~~~~~~~~~~~~~~~ 1025 (1382)
.|+|.+|.+. .||-..|.-.+-|+.||+-++.+--+..|-.|+.|. +.+.+|++.. ..|.-+|
T Consensus 106 ~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iy-eqva~~s 184 (288)
T KOG1586|consen 106 MGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIY-EQVARSS 184 (288)
T ss_pred hhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHh
Confidence 3444444333 233333344455555555555544444444444442 3444444432 3333343
Q ss_pred cCCCCCCCCCCcccccHHHHHHHHH
Q 048652 1026 LWSPGSRGWPLKQFTQEEELLQKAK 1050 (1382)
Q Consensus 1026 lw~~~~~~~~~~~~~~~~~~~~~~~ 1050 (1382)
+ +-|+-...-|..+|..++
T Consensus 185 ~------~n~LLKys~KdyflkAgL 203 (288)
T KOG1586|consen 185 L------DNNLLKYSAKDYFLKAGL 203 (288)
T ss_pred c------cchHHHhHHHHHHHHHHH
Confidence 3 223333444556666554
No 311
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.05 E-value=0.072 Score=64.96 Aligned_cols=24 Identities=38% Similarity=0.562 Sum_probs=19.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~ 294 (1382)
+.-.|+.||||||||+++.++...
T Consensus 179 pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CceEEEECCCCCCHHHHHHHHHHh
Confidence 456889999999999998776554
No 312
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=93.05 E-value=0.07 Score=57.50 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=18.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.+|.|||||||||+...+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 46899999999999987766544
No 313
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.04 E-value=0.099 Score=67.00 Aligned_cols=44 Identities=18% Similarity=0.092 Sum_probs=30.4
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
|..++....+.+..++-+...|++|||||||||++..+...|..
T Consensus 21 Qe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 21 QEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 44444433333333333445889999999999999999988875
No 314
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.00 E-value=0.21 Score=68.07 Aligned_cols=66 Identities=21% Similarity=0.261 Sum_probs=50.0
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHHhhh
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l~~e 325 (1382)
.++.|..++.. +.+.+|.|++||||||.|-.++..+-.. ..+|.++-|...|+-+++.|+.+....
T Consensus 78 ~r~~Il~ai~~------~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 78 KKQDILEAIRD------HQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHHh------CCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 34567777763 6899999999999999776555443211 246777889999999999999987654
No 315
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=92.99 E-value=0.1 Score=64.67 Aligned_cols=45 Identities=24% Similarity=0.141 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
|..++......+..+.-+...|++||||||||+++..++..+...
T Consensus 22 q~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 22 QDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred cHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 444544333333333334568999999999999999999988753
No 316
>PRK08233 hypothetical protein; Provisional
Probab=92.96 E-value=0.073 Score=57.07 Aligned_cols=25 Identities=24% Similarity=0.194 Sum_probs=21.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+..|.||||+||||++..+...+
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhC
Confidence 3678899999999999998777665
No 317
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=92.95 E-value=0.079 Score=58.69 Aligned_cols=38 Identities=26% Similarity=0.357 Sum_probs=30.4
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEe--cCChHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC--TPTNVA 311 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc--APTN~A 311 (1382)
-+|.||||+||||-...+..-+-..|+++.++ -|-|.+
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~ 44 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDN 44 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccC
Confidence 47899999999999999888888888876664 466643
No 318
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.93 E-value=0.19 Score=64.40 Aligned_cols=27 Identities=33% Similarity=0.279 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++||||||||+++..+...|..
T Consensus 38 ~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 38 AHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 455799999999999999999988874
No 319
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=92.92 E-value=0.11 Score=61.70 Aligned_cols=41 Identities=29% Similarity=0.178 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
|.+++...+-+... ...+..|+.||||||||+++.++...|
T Consensus 13 q~~~~~~l~~~~~~-~~~~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 13 QEEMKQAMVLTAID-PGIGGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred HHHHHHHHHHHHhc-cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence 55665544432110 013679999999999999986655443
No 320
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.92 E-value=0.092 Score=57.29 Aligned_cols=33 Identities=27% Similarity=0.265 Sum_probs=27.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
++.++.||||+||||....++..|-..+.++..
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~ 34 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIH 34 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhccc
Confidence 578999999999999999988888776655543
No 321
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.90 E-value=0.096 Score=55.56 Aligned_cols=25 Identities=24% Similarity=0.171 Sum_probs=21.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...+|.|||||||||+...+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 5688999999999999987776665
No 322
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=92.90 E-value=0.11 Score=67.23 Aligned_cols=57 Identities=25% Similarity=0.222 Sum_probs=34.7
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 241 KFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 241 ~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.++|....++-. |..++......+..+.-+...|+.||||||||+++..++..|...
T Consensus 11 KyRP~~f~dIiG-Qe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 11 KYRPKTFDDIVG-QDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred HhCCCCHHHhcC-cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 344443333332 444444333333333334567999999999999999998888753
No 323
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.84 E-value=0.13 Score=66.09 Aligned_cols=60 Identities=25% Similarity=0.410 Sum_probs=40.2
Q ss_pred CCCccccCCCCCCC--CCHHHHHHHHHHHhhcccC-CCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 236 GIWDEKFGPSLSST--LNEPQVGAVFACLRRLDCD-HKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 236 ~~~~~~~~~~~~~~--LN~sQ~~AV~~~l~~~~~~-~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..|.++++|....+ .++.+.+.|...+...... ....+.+|.|||||||||++..+...+
T Consensus 72 ~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 72 EPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 34666666665443 4566666777776643322 223579999999999999998776554
No 324
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=92.83 E-value=0.12 Score=61.33 Aligned_cols=43 Identities=26% Similarity=0.197 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhcccCC-CCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDH-KSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~-~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
.++|.--.+..+.... .....|+.||||||||.++.++...|=
T Consensus 32 AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 32 AREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELG 75 (398)
T ss_dssp HHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhC
Confidence 4455554555443332 367899999999999999988877664
No 325
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=92.82 E-value=0.11 Score=66.17 Aligned_cols=45 Identities=20% Similarity=0.192 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
|..++......+..++-++..|++||||||||+++..++..|...
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 444444433333333445568999999999999999999998753
No 326
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=92.82 E-value=0.31 Score=65.33 Aligned_cols=76 Identities=22% Similarity=0.199 Sum_probs=51.8
Q ss_pred CCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHhh
Q 048652 246 LSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 246 ~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
..+...+.|.+.+......+. .....+|.+|+|||||-.-..-+...+..+.+|+|.+||..=.+++..+-...+.
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~---~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~~~~~l~ 317 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLT---HSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEKDIPLLN 317 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhc---cCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHHHHHH
Confidence 345778999974444443332 2567899999999999664333333333678999999999988888776444443
No 327
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.81 E-value=0.16 Score=64.10 Aligned_cols=52 Identities=19% Similarity=0.160 Sum_probs=42.3
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.||.||||||||+....++..-+.. +.++|.++... ..+++..++.+.
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~ 82 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASF 82 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHc
Confidence 36799999999999999999999888877 89999887766 455666666553
No 328
>PRK10865 protein disaggregation chaperone; Provisional
Probab=92.81 E-value=0.16 Score=67.83 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=27.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+..++.||||||||+++.++...+...+..++.+
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~i 632 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFDSDDAMVRI 632 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEE
Confidence 4789999999999999998888777665555433
No 329
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=92.79 E-value=0.13 Score=55.81 Aligned_cols=33 Identities=27% Similarity=0.169 Sum_probs=26.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+..|.||||+||||++..+...+-..+.++.++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i 33 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVI 33 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 367999999999999988887776666665554
No 330
>PRK13766 Hef nuclease; Provisional
Probab=92.78 E-value=0.26 Score=65.49 Aligned_cols=67 Identities=19% Similarity=0.140 Sum_probs=54.3
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..-+-|+.++..++. .-.||..|.|+|||.+...++..++. .+.++|+++||..-+.+....+.+..
T Consensus 15 ~~r~yQ~~~~~~~l~--------~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 15 EARLYQQLLAATALK--------KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred CccHHHHHHHHHHhc--------CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 455668888888875 36899999999999988777776664 46899999999999999888887653
No 331
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=92.74 E-value=0.15 Score=54.94 Aligned_cols=40 Identities=23% Similarity=0.051 Sum_probs=32.9
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
..++..|.||+|+||||++..++..|-..+.||-++-.+.
T Consensus 5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~ 44 (173)
T PRK10751 5 MIPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH 44 (173)
T ss_pred CceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcC
Confidence 3578999999999999999999998877777776665433
No 332
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=92.73 E-value=0.13 Score=58.73 Aligned_cols=33 Identities=21% Similarity=0.211 Sum_probs=27.5
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+.++.|+||+||||.+..+...+-..+.++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 368999999999999999998887666666655
No 333
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=92.70 E-value=0.32 Score=64.08 Aligned_cols=69 Identities=14% Similarity=0.043 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHH-HHHHHHc-CCceEEecCChHHHHHHHHHHHHHh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSML-LFSLLRI-KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~l-i~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
..+++.|.+|+..++. ..-.++..|.|||||-.-..- +..+... +.++|+++||..=+.++..++.++.
T Consensus 35 ~~p~~~Q~~ai~~il~-------G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 35 HRPWQHQARAAELAHA-------GRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred CcCCHHHHHHHHHHHC-------CCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 4699999999999876 467999999999999775433 3334333 5799999999998899988888753
No 334
>CHL00176 ftsH cell division protein; Validated
Probab=92.61 E-value=0.12 Score=66.41 Aligned_cols=35 Identities=26% Similarity=0.283 Sum_probs=25.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
+.-.|+.||||||||+++.++...+ +...+.++.+
T Consensus 216 p~gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s 250 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGS 250 (638)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHH
Confidence 3458999999999999998886543 4455555443
No 335
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=92.55 E-value=0.13 Score=66.01 Aligned_cols=27 Identities=30% Similarity=0.204 Sum_probs=23.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
...|++|||||||||++..+...|...
T Consensus 39 hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 39 HAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 346999999999999999999888763
No 336
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=92.54 E-value=0.17 Score=51.00 Aligned_cols=44 Identities=25% Similarity=0.186 Sum_probs=33.7
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
.+++|.||+|||++...+...+...+.+|+++---. +.+.+++.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~---~~~~~~~~ 45 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP---DDLPERLS 45 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc---hhhHHHHh
Confidence 579999999999999999999988888887655322 44444443
No 337
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=92.51 E-value=0.16 Score=53.42 Aligned_cols=32 Identities=22% Similarity=0.164 Sum_probs=26.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
+.+|.|+||+||||++..+...+...+.++++
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~ 32 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYV 32 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEE
Confidence 46899999999999999988888766665544
No 338
>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=92.49 E-value=0.035 Score=59.93 Aligned_cols=47 Identities=19% Similarity=0.249 Sum_probs=31.5
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHcCC-ceEEecCChHHHHHHHHHHHH
Q 048652 275 LRWGPPGTGKTKTVSMLLFSLLRIKC-RTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 275 LI~GPPGTGKTttI~~li~~Ll~~~~-RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+|.|+.|.|||+++...++.++..+. +|+||||+-.++..+.+-+..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~ 48 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEK 48 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHh
Confidence 58899999999999999999988864 999999999999977655544
No 339
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=92.47 E-value=0.45 Score=60.61 Aligned_cols=36 Identities=19% Similarity=0.232 Sum_probs=30.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEecC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACTP 307 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcAP 307 (1382)
...+|+||+|||||+++.++...+... +.+++.++.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 358999999999999999999998763 677776654
No 340
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=92.47 E-value=0.097 Score=55.19 Aligned_cols=22 Identities=36% Similarity=0.354 Sum_probs=17.2
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
..|.|||||||||+...+.-.+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 5689999999999976655443
No 341
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=92.47 E-value=0.09 Score=54.81 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=18.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~ 294 (1382)
+.+|.||||+||||+...+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999998776554
No 342
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=92.45 E-value=0.14 Score=62.32 Aligned_cols=28 Identities=25% Similarity=0.373 Sum_probs=23.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
+...|++||||+|||+++..+...++..
T Consensus 36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 36 THAWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 4568999999999999999988877654
No 343
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=92.44 E-value=0.13 Score=65.78 Aligned_cols=59 Identities=22% Similarity=0.180 Sum_probs=37.6
Q ss_pred ccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 239 DEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 239 ~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
..+++|....++-. |..++....+.+....-+...|++||||||||+++..+...|...
T Consensus 15 a~KyRP~~f~dliG-q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 15 ARKYRPQTFDDLIG-QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred HhhhCCCCHHHhcC-cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 33555555445543 333433333333333334579999999999999999999988754
No 344
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=92.41 E-value=0.094 Score=61.53 Aligned_cols=22 Identities=41% Similarity=0.605 Sum_probs=17.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li 292 (1382)
+.=.|+.||||||||-++.+..
T Consensus 185 PKGVLLYGPPGTGKTLLAkAVA 206 (406)
T COG1222 185 PKGVLLYGPPGTGKTLLAKAVA 206 (406)
T ss_pred CCceEeeCCCCCcHHHHHHHHH
Confidence 4458899999999998876543
No 345
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=92.37 E-value=0.17 Score=62.04 Aligned_cols=25 Identities=36% Similarity=0.380 Sum_probs=21.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+..|+.||||||||+++..+...+
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr~lA~~l 132 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQTLARIL 132 (412)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHHh
Confidence 4679999999999999998876544
No 346
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=92.34 E-value=0.17 Score=55.07 Aligned_cols=35 Identities=23% Similarity=0.110 Sum_probs=29.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
.+..|.||||+||||.+..+...|-..|.+++++.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 57899999999999999999888877787776543
No 347
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=92.33 E-value=0.36 Score=57.50 Aligned_cols=45 Identities=29% Similarity=0.164 Sum_probs=32.3
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
|..++......+..++-++..|++||||+|||+++..++..++..
T Consensus 11 q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 11 QPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred HHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 444544443434344445667999999999999999999998854
No 348
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=92.33 E-value=0.13 Score=56.59 Aligned_cols=39 Identities=26% Similarity=0.297 Sum_probs=30.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH----cCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR----IKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~----~~~RILVcAPTN 309 (1382)
.+..+|.|+||+|||+++..++..++. ...++.++-+..
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~ 80 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKG 80 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTS
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCc
Confidence 568999999999999999999999998 356777887765
No 349
>PRK08118 topology modulation protein; Reviewed
Probab=92.30 E-value=0.11 Score=55.80 Aligned_cols=22 Identities=27% Similarity=0.280 Sum_probs=18.2
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999877766554
No 350
>PRK14527 adenylate kinase; Provisional
Probab=92.29 E-value=0.12 Score=56.33 Aligned_cols=26 Identities=38% Similarity=0.567 Sum_probs=21.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
++.+.+|.||||+||||.+..+...+
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 46799999999999999987765444
No 351
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=92.28 E-value=0.092 Score=55.68 Aligned_cols=21 Identities=33% Similarity=0.362 Sum_probs=16.3
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~ 294 (1382)
..|.|||||||||++..+...
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 478999999999999887765
No 352
>PHA02624 large T antigen; Provisional
Probab=92.27 E-value=0.15 Score=64.11 Aligned_cols=49 Identities=22% Similarity=0.107 Sum_probs=31.6
Q ss_pred CCCCCHHHHHHHHHHHhhccc-CCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 247 SSTLNEPQVGAVFACLRRLDC-DHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 247 ~~~LN~sQ~~AV~~~l~~~~~-~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
...+++.=...+..++..+.. -......+++||||||||+.+.+++..|
T Consensus 406 ~q~l~~~~~~~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 406 LHCLLPNFDDVIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HhccchhhHHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 345664221334444443321 1335699999999999999999888777
No 353
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=92.26 E-value=0.16 Score=61.53 Aligned_cols=25 Identities=32% Similarity=0.310 Sum_probs=21.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...++.||||||||+++.++...+
T Consensus 47 p~~ILLiGppG~GKT~lAraLA~~l 71 (441)
T TIGR00390 47 PKNILMIGPTGVGKTEIARRLAKLA 71 (441)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988776655
No 354
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=92.25 E-value=0.13 Score=55.93 Aligned_cols=34 Identities=29% Similarity=0.267 Sum_probs=28.5
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
..-|-||||+|||++|-.++..|... .++-|++.
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~ 48 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITG 48 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEec
Confidence 56788999999999999999988777 77777653
No 355
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=92.23 E-value=0.15 Score=65.58 Aligned_cols=27 Identities=26% Similarity=0.191 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++|||||||||++..+...|..
T Consensus 38 ~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 38 HHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 445699999999999999998888864
No 356
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=92.22 E-value=0.1 Score=55.75 Aligned_cols=20 Identities=35% Similarity=0.501 Sum_probs=16.2
Q ss_pred eEEEEcCCCCchHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li 292 (1382)
..+|.|+|||||||+...+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 46899999999999875543
No 357
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=92.19 E-value=0.24 Score=60.96 Aligned_cols=52 Identities=19% Similarity=0.116 Sum_probs=44.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||+|||+++..++..+. ..+.+|++++.-. ..++++.|+...
T Consensus 193 ~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~~ 245 (421)
T TIGR03600 193 KGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLAS 245 (421)
T ss_pred CCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHHH
Confidence 367999999999999999999998886 6789999998654 667788888764
No 358
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=92.15 E-value=0.1 Score=58.65 Aligned_cols=51 Identities=31% Similarity=0.374 Sum_probs=29.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChH---HHHHHHHHHHHHhh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNV---AITELASRALRLVK 324 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~---AVDeVa~RL~~l~~ 324 (1382)
+...|..||||||||.++.++.... +-.+|.+-.|.. -|-+-+.|+.++..
T Consensus 151 PknVLFyGppGTGKTm~Akalane~---kvp~l~vkat~liGehVGdgar~Ihely~ 204 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMAKALANEA---KVPLLLVKATELIGEHVGDGARRIHELYE 204 (368)
T ss_pred cceeEEECCCCccHHHHHHHHhccc---CCceEEechHHHHHHHhhhHHHHHHHHHH
Confidence 5679999999999999876654221 223333322221 24455556655543
No 359
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=92.15 E-value=0.16 Score=65.26 Aligned_cols=28 Identities=32% Similarity=0.222 Sum_probs=23.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
+...|++||||||||+++..+...|...
T Consensus 38 ~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 38 HHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 3457999999999999999998888643
No 360
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=92.11 E-value=0.49 Score=56.35 Aligned_cols=72 Identities=17% Similarity=0.247 Sum_probs=47.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcC---------------------CceEEecCC----hHHHHHHHHHHHHHhhh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIK---------------------CRTLACTPT----NVAITELASRALRLVKE 325 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~---------------------~RILVcAPT----N~AVDeVa~RL~~l~~e 325 (1382)
+...|+.||||+|||+++..++..|+... ..+..+.|. ..-||+|.+ +.+....
T Consensus 22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~-l~~~~~~ 100 (328)
T PRK05707 22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRE-LVSFVVQ 100 (328)
T ss_pred ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHH-HHHHHhh
Confidence 45688999999999999999999998631 246666664 245777765 3332221
Q ss_pred hhcCCCCccccccCCcceEEeccCCCC
Q 048652 326 SYKRDSRNNTPFCPLGDILLFGNKDRL 352 (1382)
Q Consensus 326 s~~~~~~~~~~~~~lgdIVr~Gn~~rm 352 (1382)
. +..+...|+.+.+.++|
T Consensus 101 ~---------~~~~~~kv~iI~~a~~m 118 (328)
T PRK05707 101 T---------AQLGGRKVVLIEPAEAM 118 (328)
T ss_pred c---------cccCCCeEEEECChhhC
Confidence 1 11233357777777766
No 361
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=92.11 E-value=0.14 Score=57.53 Aligned_cols=40 Identities=15% Similarity=0.212 Sum_probs=30.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc------CCceEEecCCh
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI------KCRTLACTPTN 309 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~------~~RILVcAPTN 309 (1382)
...+..|.||||||||+++..++...+.. +.+++..+.-+
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 36799999999999999999998775543 25666665544
No 362
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=92.09 E-value=0.18 Score=58.52 Aligned_cols=34 Identities=29% Similarity=0.108 Sum_probs=29.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
++..|.|++||||||++..++..|..+| +|.++=
T Consensus 2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK 35 (274)
T PRK14493 2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK 35 (274)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence 4678999999999999999999999988 776653
No 363
>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=92.07 E-value=0.44 Score=61.23 Aligned_cols=53 Identities=23% Similarity=0.188 Sum_probs=40.6
Q ss_pred CCeEEEEcCCCCchHHHHH-HHHHHHHH-cCCceEEecCChHHHHHHHHHHHHHh
Q 048652 271 SGVELRWGPPGTGKTKTVS-MLLFSLLR-IKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~-~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
....+|.+|.|||||-.-. ..+..+.. .+.+|+|++||..=.+++...+..+.
T Consensus 16 ~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 16 KRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 6889999999999995543 33333333 47999999999999999998666543
No 364
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=92.06 E-value=0.11 Score=65.28 Aligned_cols=35 Identities=26% Similarity=0.251 Sum_probs=25.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
+.-.|+.||||||||+++.++...+ +..++.++.+
T Consensus 88 ~~giLL~GppGtGKT~la~alA~~~---~~~~~~i~~~ 122 (495)
T TIGR01241 88 PKGVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGS 122 (495)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHc---CCCeeeccHH
Confidence 3458999999999999998886543 4455555443
No 365
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.04 E-value=0.18 Score=62.63 Aligned_cols=37 Identities=32% Similarity=0.395 Sum_probs=29.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHH-HcC-CceEEec
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLL-RIK-CRTLACT 306 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~-~RILVcA 306 (1382)
...+.++.||+|.|||||+..+...+. ..+ .+|.+++
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 357999999999999999999998885 444 4675544
No 366
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.04 E-value=0.16 Score=65.26 Aligned_cols=27 Identities=33% Similarity=0.357 Sum_probs=23.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
....|+.||||||||+++..++..|..
T Consensus 38 ~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 38 AHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345699999999999999999888863
No 367
>PRK05480 uridine/cytidine kinase; Provisional
Probab=92.02 E-value=0.19 Score=55.58 Aligned_cols=26 Identities=31% Similarity=0.256 Sum_probs=22.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
++.+..|.||||+||||++..+...+
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 46789999999999999997777665
No 368
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=92.00 E-value=0.31 Score=63.68 Aligned_cols=70 Identities=14% Similarity=0.230 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH----------cCCceEEecCChHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR----------IKCRTLACTPTNVAITELAS 317 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~----------~~~RILVcAPTN~AVDeVa~ 317 (1382)
..||.-|-.+.-.|..+ +...||++|-|+|||-++.--+..+++ .+.||+.+||+.+-+-|++.
T Consensus 109 ~~fN~iQS~vFp~aY~S------neNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~ 182 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKS------NENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVD 182 (1230)
T ss_pred HHHHHHHHHhhhhhhcC------CCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHH
Confidence 46999999999888764 889999999999999998777777777 35799999999999999988
Q ss_pred HHHHHh
Q 048652 318 RALRLV 323 (1382)
Q Consensus 318 RL~~l~ 323 (1382)
...+-+
T Consensus 183 ~~~kkl 188 (1230)
T KOG0952|consen 183 KFSKKL 188 (1230)
T ss_pred HHhhhc
Confidence 876643
No 369
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=91.98 E-value=0.17 Score=56.76 Aligned_cols=34 Identities=24% Similarity=0.043 Sum_probs=24.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHH--cCCceEEecC
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLR--IKCRTLACTP 307 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~--~~~RILVcAP 307 (1382)
..|.||||+||||++..+...|-. .+.++.+++-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 568899999999999877766543 3456666544
No 370
>PRK05439 pantothenate kinase; Provisional
Probab=91.97 E-value=0.32 Score=57.30 Aligned_cols=38 Identities=21% Similarity=0.072 Sum_probs=27.0
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcA 306 (1382)
+.+-+..|.||||+||||++..+...|-.. +.++.+++
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 344578899999999999998776655332 45565554
No 371
>PRK06547 hypothetical protein; Provisional
Probab=91.87 E-value=0.2 Score=54.16 Aligned_cols=26 Identities=27% Similarity=0.150 Sum_probs=21.9
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHH
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~ 294 (1382)
+...+.+|.||||+||||++..+...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45678899999999999999777665
No 372
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=91.85 E-value=0.21 Score=54.00 Aligned_cols=34 Identities=21% Similarity=0.149 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+..|.||+|+||||.+..+...|-..|.++.++.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~ 35 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTR 35 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5689999999999999999998877788876664
No 373
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=91.84 E-value=0.081 Score=61.18 Aligned_cols=61 Identities=26% Similarity=0.368 Sum_probs=39.3
Q ss_pred CCCCccccCCCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 235 KGIWDEKFGPSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 235 ~~~~~~~~~~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
...|++.+++.....+-. |+ -+.+.+.........+..|.-||||||||+|+.+....|..
T Consensus 28 ~~pwvekyrP~~l~dv~~-~~-ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~ 88 (360)
T KOG0990|consen 28 PQPWVEKYRPPFLGIVIK-QE-PIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYS 88 (360)
T ss_pred CCCCccCCCCchhhhHhc-CC-chhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcC
Confidence 345777776655433322 22 33444444444455679999999999999999877655543
No 374
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=91.83 E-value=0.25 Score=53.51 Aligned_cols=38 Identities=24% Similarity=0.200 Sum_probs=30.5
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+.+.+.+|.|+||+||||++..+...+...+..+++..
T Consensus 16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~ 53 (184)
T TIGR00455 16 HRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLD 53 (184)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 34679999999999999999998888776666655554
No 375
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=91.79 E-value=0.18 Score=55.26 Aligned_cols=32 Identities=19% Similarity=0.183 Sum_probs=23.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+..|.||||+||||++..+...+ .+.++.++.
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL--GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh--CCCCeEEEE
Confidence 35799999999999998877665 334444433
No 376
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=91.78 E-value=0.19 Score=57.71 Aligned_cols=35 Identities=20% Similarity=0.146 Sum_probs=32.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
+.++.|.||+||||+.+++...+...+.|||+++-
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~ 36 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeC
Confidence 67899999999999999999999999999999863
No 377
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=91.77 E-value=0.28 Score=60.58 Aligned_cols=52 Identities=17% Similarity=0.014 Sum_probs=43.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||+|||+++..++..+.. .+.+|+.++.-. ...+++.|+...
T Consensus 194 ~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm-~~~~i~~R~~~~ 246 (434)
T TIGR00665 194 PSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEM-SAEQLAMRMLSS 246 (434)
T ss_pred CCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcC-CHHHHHHHHHHH
Confidence 3569999999999999999999998875 588999998877 456678888764
No 378
>PRK04040 adenylate kinase; Provisional
Probab=91.75 E-value=0.14 Score=56.05 Aligned_cols=24 Identities=38% Similarity=0.451 Sum_probs=20.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+.+|.|+||+||||++..+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 478999999999999998776665
No 379
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=91.73 E-value=0.2 Score=60.15 Aligned_cols=45 Identities=20% Similarity=0.068 Sum_probs=33.1
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
|..|+......+....-+...||.||+|+|||+++..++..|+..
T Consensus 28 h~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 28 HEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred cHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 455555555544444445579999999999999999998888764
No 380
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=91.73 E-value=0.42 Score=66.59 Aligned_cols=66 Identities=12% Similarity=0.096 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCC-CchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPG-TGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPG-TGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~R 318 (1382)
..++..|..|+...+. ..+.+.+|.|+-| ||||+++..++..+-..|.+|.+.|||+.|+..+.+.
T Consensus 280 ~~~~~~q~~Av~~il~-----dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQ-----DRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhc-----CCCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHHhc
Confidence 4578999999999986 3567888888877 9999999998888888999999999999999988764
No 381
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=91.72 E-value=0.55 Score=57.12 Aligned_cols=30 Identities=27% Similarity=0.228 Sum_probs=24.3
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHH-HHHcC
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFS-LLRIK 299 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~-Ll~~~ 299 (1382)
++...+.-||||||||++..++..+ .+..|
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 3578999999999999999987766 55554
No 382
>CHL00195 ycf46 Ycf46; Provisional
Probab=91.69 E-value=0.15 Score=63.82 Aligned_cols=25 Identities=28% Similarity=0.201 Sum_probs=20.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.-.|+.||||||||.++.++...+
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHh
Confidence 4568999999999999987775543
No 383
>PRK00698 tmk thymidylate kinase; Validated
Probab=91.67 E-value=0.37 Score=52.70 Aligned_cols=39 Identities=18% Similarity=0.115 Sum_probs=31.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe-cCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC-TPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc-APTN 309 (1382)
+.+..|.||+|+||||++..+...|-..+..+.++ -|.+
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~~~p~~ 42 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPGG 42 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEeeCCCC
Confidence 46889999999999999999988887777666654 4443
No 384
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.65 E-value=0.52 Score=61.40 Aligned_cols=155 Identities=12% Similarity=0.118 Sum_probs=90.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCceEEEEeccHHHHHHHHHHHhhhhcC-----CCCCcEEEecccCCCCccccEEEEee
Q 048652 721 VEVSVVIKILQKLYKAWVGSKQMVSIGVVSPYTAQVVAIRKKIGSEYEN-----KDGFTVKVKSVDGFQGGEEDIIIIST 795 (1382)
Q Consensus 721 ~Ea~~V~~lV~~L~~~~~~~~~~~~IgVITPY~aQv~~I~~~L~~~~~~-----~~~~~v~V~TVD~fQG~E~DiVIlS~ 795 (1382)
...+.+...+..++...++ .+.|+.|.....+.+.+.+...... .+..... ..+..|.-.....+.+.
T Consensus 462 ~~~~~~~~~i~~~~~~~~~-----~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~~~-~~l~~f~~~~~~~~lv~- 534 (654)
T COG1199 462 ELLAKLAAYLREILKASPG-----GVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDERE-ELLEKFKASGEGLILVG- 534 (654)
T ss_pred HHHHHHHHHHHHHHhhcCC-----CEEEEeccHHHHHHHHHHHhhcCccceeeecCCCcHH-HHHHHHHHhcCCeEEEe-
Confidence 4555666666666655432 5889999888888888887754210 0000000 23334433333222222
Q ss_pred cccCCCCCcccccCCCcceeecccccceEEEEechhhhhcCccHHHHHHHHHHhcCceeccccchhHHHHHHHHhhhhhh
Q 048652 796 VRCNTGGSIGFISNPQRVNVALTRARHCLWILGNERTLISSESIWGTLVCDAKARQCFFKADEDRNLAKARLEVSKESVE 875 (1382)
Q Consensus 796 Vrsn~~~~iGFl~d~rRLNVAlTRAK~~L~IVGn~~~L~~s~~~W~~li~~~~~r~~~~~~~~~~~l~~~i~~~~~e~~~ 875 (1382)
+..-..++.|-.+.- .+++|+|=+= -...++.++.-..++++.|. ++..+-.+..++.+..|..|-
T Consensus 535 -~gsf~EGVD~~g~~l----------~~vvI~~lPf-p~p~dp~~~~r~~~~~~~g~--~~f~~~~l~~A~~~l~QavGR 600 (654)
T COG1199 535 -GGSFWEGVDFPGDAL----------RLVVIVGLPF-PNPDDPLLKARLEFLKRLGG--DPFEEFYLPPAVIKLRQAVGR 600 (654)
T ss_pred -eccccCcccCCCCCe----------eEEEEEecCC-CCCCCHHHHHHHHHHHHhcC--CCceEeehHHHHHHHHHhhcc
Confidence 222223455554443 3555655443 33456889999999998876 566666788899888888877
Q ss_pred cccccccccccCCeeeeccCcccc
Q 048652 876 IDAESLTSRSQRGKLCYKPKYEKT 899 (1382)
Q Consensus 876 ~~~~~~~~~~~~~k~~~~~~~~~~ 899 (1382)
+-.+. ...|.-+...++|.+.
T Consensus 601 lIR~~---~D~G~ivllD~R~~~~ 621 (654)
T COG1199 601 LIRSE---DDRGVIVLLDKRYATK 621 (654)
T ss_pred ccccC---CCceEEEEecccchhh
Confidence 65322 2445666777766663
No 385
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=91.65 E-value=0.14 Score=53.21 Aligned_cols=22 Identities=36% Similarity=0.406 Sum_probs=19.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li 292 (1382)
.+..||.|-|||||||+...+.
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5789999999999999986655
No 386
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=91.64 E-value=0.17 Score=54.54 Aligned_cols=25 Identities=20% Similarity=0.213 Sum_probs=20.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+.++.||||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 4589999999999999987776553
No 387
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=91.61 E-value=0.12 Score=54.67 Aligned_cols=21 Identities=33% Similarity=0.488 Sum_probs=17.3
Q ss_pred EEEcCCCCchHHHHHHHHHHH
Q 048652 275 LRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 275 LI~GPPGTGKTttI~~li~~L 295 (1382)
+|.||||+||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 578999999998887766554
No 388
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=91.59 E-value=0.19 Score=63.96 Aligned_cols=27 Identities=33% Similarity=0.359 Sum_probs=23.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
+...|++||||||||+++..+...+..
T Consensus 38 ~hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 38 SHAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 445788999999999999999888864
No 389
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.59 E-value=0.12 Score=65.95 Aligned_cols=27 Identities=26% Similarity=0.229 Sum_probs=24.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
.+..|++||||||||+++..+...|..
T Consensus 38 ~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 38 APAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhccc
Confidence 567889999999999999999988875
No 390
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=91.57 E-value=0.15 Score=54.86 Aligned_cols=24 Identities=25% Similarity=0.336 Sum_probs=20.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 478999999999999998766554
No 391
>PRK12608 transcription termination factor Rho; Provisional
Probab=91.56 E-value=0.29 Score=58.72 Aligned_cols=52 Identities=17% Similarity=0.160 Sum_probs=39.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcC----CceEEecCChHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIK----CRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~----~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
+..-.+|.||||||||+++..++..+.... .-++++.....-|.++...+..
T Consensus 132 kGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 132 KGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 355679999999999999999988887753 2455666666677776666654
No 392
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=91.54 E-value=0.5 Score=60.82 Aligned_cols=64 Identities=19% Similarity=0.166 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~ 321 (1382)
..+++-|.+||...+. ..-.+|..|.|+|||.+.. +..++ .+..++|++|+..-+.+...++..
T Consensus 12 ~~fr~~Q~~~i~~il~-------g~dvlv~~PTG~GKTl~y~--lpal~-~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 12 DDFRPGQEEIISHVLD-------GRDVLVVMPTGGGKSLCYQ--VPALL-LKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEcCCCccHhHHHH--HHHHH-cCCcEEEEcCCHHHHHHHHHHHHH
Confidence 4699999999999987 3468999999999997753 34444 456789999998777776666655
No 393
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=91.52 E-value=0.23 Score=60.71 Aligned_cols=24 Identities=38% Similarity=0.394 Sum_probs=20.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+..|+.||||||||+++.++...+
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l 140 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARIL 140 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhc
Confidence 579999999999999998877544
No 394
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=91.52 E-value=0.29 Score=63.02 Aligned_cols=45 Identities=18% Similarity=0.077 Sum_probs=31.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcC-CceEEecCChHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIK-CRTLACTPTNVAITEL 315 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~-~RILVcAPTN~AVDeV 315 (1382)
....+++||||||||+++.++...+-... .+++++.-++.-..++
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~ 82 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPR 82 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHH
Confidence 45888999999999999998776664433 5566555544333333
No 395
>COG1204 Superfamily II helicase [General function prediction only]
Probab=91.51 E-value=0.31 Score=63.98 Aligned_cols=66 Identities=24% Similarity=0.199 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHH-HHHHcCCceEEecCChHHHHHHHHHHH
Q 048652 249 TLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLF-SLLRIKCRTLACTPTNVAITELASRAL 320 (1382)
Q Consensus 249 ~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~-~Ll~~~~RILVcAPTN~AVDeVa~RL~ 320 (1382)
.|+++|+.||...+-. ....||..|-|+|||-++-..+. .+.+.+.+++.++|+++=+.|..+++.
T Consensus 31 el~~~qq~av~~~~~~------~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~ 97 (766)
T COG1204 31 ELFNPQQEAVEKGLLS------DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS 97 (766)
T ss_pred HhhHHHHHHhhccccC------CCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh
Confidence 7899999999988763 68999999999999999854444 444557999999999999999999888
No 396
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=91.47 E-value=0.13 Score=57.54 Aligned_cols=30 Identities=40% Similarity=0.588 Sum_probs=22.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
+...||.|||||||||++..+ ..++|+..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~-------~~~~~~~~~ 41 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL-------PGKTLVLSF 41 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc-------CCCCEEEec
Confidence 567999999999999987654 244555554
No 397
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=91.46 E-value=0.37 Score=56.33 Aligned_cols=37 Identities=22% Similarity=0.152 Sum_probs=24.9
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILVcA 306 (1382)
+.+-+..|.||||+||||++..+. .++.. +.+|.+++
T Consensus 60 ~~p~IIGIaG~~GSGKSTlar~L~-~ll~~~~~~g~V~vi~ 99 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTARILQ-ALLSRWPEHRKVELIT 99 (290)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHH-HHHhhcCCCCceEEEe
Confidence 345678899999999999985544 44442 33555443
No 398
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=91.45 E-value=0.57 Score=56.96 Aligned_cols=48 Identities=19% Similarity=0.134 Sum_probs=36.9
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCC--ceEEecCCh---HHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKC--RTLACTPTN---VAITELAS 317 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~--RILVcAPTN---~AVDeVa~ 317 (1382)
..++..||||.|.|||+++.++.......+. +++-.+..+ ..|..+.+
T Consensus 112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~ 164 (408)
T COG0593 112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRD 164 (408)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHh
Confidence 3678999999999999999999999998865 677666533 34444443
No 399
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=91.45 E-value=0.15 Score=55.06 Aligned_cols=28 Identities=25% Similarity=0.598 Sum_probs=24.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
+++.+|.||-||||||++-++.+.|-..
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L~~~ 46 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYALGGQ 46 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHSS
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 6899999999999999998887777543
No 400
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=91.42 E-value=0.23 Score=57.56 Aligned_cols=35 Identities=20% Similarity=0.126 Sum_probs=26.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
++.+|.|.||+||||.+..+...+-..+.++.+++
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEc
Confidence 68999999999999999999888888878887776
No 401
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=91.42 E-value=0.31 Score=52.61 Aligned_cols=38 Identities=16% Similarity=0.079 Sum_probs=34.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
.+...|.+|||+||||.+..+....+..+.+|+++=+-
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFl 42 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFI 42 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEe
Confidence 58999999999999999999999999999999987543
No 402
>PRK03839 putative kinase; Provisional
Probab=91.41 E-value=0.16 Score=54.73 Aligned_cols=23 Identities=35% Similarity=0.458 Sum_probs=18.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+|.||||+||||+...+...+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36788999999999877665554
No 403
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=91.38 E-value=0.3 Score=57.90 Aligned_cols=38 Identities=16% Similarity=0.215 Sum_probs=29.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc------CCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI------KCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~------~~RILVcAPT 308 (1382)
..+++|.||||||||++...++...... +.+++.++.-
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te 145 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTE 145 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCC
Confidence 6799999999999999999998776543 2356555543
No 404
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=91.37 E-value=0.3 Score=63.79 Aligned_cols=48 Identities=15% Similarity=0.100 Sum_probs=39.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~R 318 (1382)
..+++|.||||||||++...++......+.+++.+.+-+..-.+.+++
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~ 107 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKK 107 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHH
Confidence 679999999999999999998888888899998888777655444443
No 405
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=91.35 E-value=1.8 Score=58.67 Aligned_cols=60 Identities=17% Similarity=0.094 Sum_probs=45.3
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEEecCChH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLACTPTNV 310 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILVcAPTN~ 310 (1382)
..|-+-|..++...+... + +..-.++.=.+|.|||-.+.+++.++... ..++||++|...
T Consensus 168 ~~Lr~YQleGlnWLi~l~-~--~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl 230 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLY-E--NGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST 230 (1033)
T ss_pred cchHHHHHHHHHHHHHHH-h--cCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH
Confidence 468899999999887632 1 12335667779999999998888888653 357899999764
No 406
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=91.32 E-value=0.26 Score=59.51 Aligned_cols=46 Identities=24% Similarity=0.159 Sum_probs=33.8
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK 299 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~ 299 (1382)
|.+|+....+.+....-+...|++||||+|||+++..++..|+..+
T Consensus 24 q~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 24 HAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred hHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 5555555444444444455699999999999999999999998653
No 407
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=91.29 E-value=0.22 Score=54.15 Aligned_cols=29 Identities=31% Similarity=0.229 Sum_probs=24.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
-++..|++||||+|||+++..++..++..
T Consensus 13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 13 LAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 35679999999999999998888777643
No 408
>PRK14531 adenylate kinase; Provisional
Probab=91.29 E-value=0.16 Score=55.06 Aligned_cols=23 Identities=35% Similarity=0.465 Sum_probs=18.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
-.+|.||||+||||....+...+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999976665543
No 409
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=91.28 E-value=0.29 Score=57.75 Aligned_cols=48 Identities=21% Similarity=0.142 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHhhcc----cCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 248 STLNEPQVGAVFACLRRLD----CDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~----~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..|++.|++++...+..+. .-++.....|.|+||+||||+...+...|
T Consensus 106 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 106 EQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred hcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 4799999999998887742 22566789999999999999987765544
No 410
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=91.27 E-value=0.27 Score=52.37 Aligned_cols=37 Identities=24% Similarity=0.137 Sum_probs=30.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
.+..|.|++|+||||++..++..|-..+.++-++-..
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~ 38 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHD 38 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEec
Confidence 4678999999999999999999887777777665443
No 411
>PRK07261 topology modulation protein; Provisional
Probab=91.22 E-value=0.16 Score=54.61 Aligned_cols=21 Identities=24% Similarity=0.186 Sum_probs=18.0
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~ 294 (1382)
.+|.||||+||||++..+...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 579999999999999886544
No 412
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=91.20 E-value=0.25 Score=58.20 Aligned_cols=36 Identities=31% Similarity=0.341 Sum_probs=32.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
.+.++.|.-|+||||+.+++..++...|.|||+++-
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~ 37 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVST 37 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEES
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeec
Confidence 478999999999999999999999999999999863
No 413
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=91.18 E-value=0.15 Score=59.17 Aligned_cols=27 Identities=41% Similarity=0.446 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR 297 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~ 297 (1382)
....|+.||||||||.++...+..+-.
T Consensus 33 ~~pvLl~G~~GtGKT~li~~~l~~l~~ 59 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQNFLSSLDS 59 (272)
T ss_dssp TEEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred CCcEEEECCCCCchhHHHHhhhccCCc
Confidence 567899999999999999887765433
No 414
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=91.17 E-value=0.19 Score=55.38 Aligned_cols=27 Identities=30% Similarity=0.389 Sum_probs=20.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLL 296 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll 296 (1382)
++.+.+|-||||+|||+++..++..+-
T Consensus 14 ~P~~~i~aG~~GsGKSt~~~~~~~~~~ 40 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLARQLLEEFG 40 (199)
T ss_dssp S-EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred CCEEEEEeCCCCCCHHHHHHHhhhhcc
Confidence 467888999999999999988776654
No 415
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=91.13 E-value=0.22 Score=66.71 Aligned_cols=37 Identities=27% Similarity=0.257 Sum_probs=30.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
+..++.||||||||+++.++...+...+..++.+-.+
T Consensus 596 ~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s 632 (852)
T TIGR03346 596 GSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMS 632 (852)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEech
Confidence 5689999999999999999998887776666655443
No 416
>PRK05748 replicative DNA helicase; Provisional
Probab=91.13 E-value=0.37 Score=59.94 Aligned_cols=52 Identities=13% Similarity=0.034 Sum_probs=43.2
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||+|||+++..++..... .+.++++.+.-.. .++++.|+...
T Consensus 202 ~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms-~~~l~~R~l~~ 254 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMG-AESLVMRMLCA 254 (448)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCC-HHHHHHHHHHH
Confidence 4679999999999999999999988764 5889999987664 45788888754
No 417
>PRK14530 adenylate kinase; Provisional
Probab=91.12 E-value=0.19 Score=55.90 Aligned_cols=24 Identities=33% Similarity=0.354 Sum_probs=19.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+..+|.||||+||||+...+...+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 568899999999999987765444
No 418
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=91.11 E-value=0.28 Score=54.50 Aligned_cols=32 Identities=25% Similarity=0.294 Sum_probs=29.0
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
..|.|..|.||||+.+.+...|.+.|+|||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 34559999999999999999999999999986
No 419
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=91.10 E-value=0.29 Score=62.92 Aligned_cols=50 Identities=22% Similarity=0.149 Sum_probs=32.5
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC-CceEEec
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK-CRTLACT 306 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~-~RILVcA 306 (1382)
|.+|+......+.. ....+|.||||||||+++..+...+-... ..++...
T Consensus 36 q~~a~~~L~~~~~~---~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~ 86 (637)
T PRK13765 36 QEHAVEVIKKAAKQ---RRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYP 86 (637)
T ss_pred hHHHHHHHHHHHHh---CCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEee
Confidence 55665544333222 45899999999999999988776653332 4445433
No 420
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=91.10 E-value=0.18 Score=51.93 Aligned_cols=23 Identities=30% Similarity=0.468 Sum_probs=19.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+..|.|||||||||++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988777654
No 421
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=91.08 E-value=0.31 Score=51.73 Aligned_cols=35 Identities=23% Similarity=0.109 Sum_probs=28.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+-+..|.|.||+||||++.++-..|...+.++.+.
T Consensus 2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 2 GFVIWLTGLSGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp -EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 45788999999999999999888888888777664
No 422
>PRK03846 adenylylsulfate kinase; Provisional
Probab=91.08 E-value=0.31 Score=53.63 Aligned_cols=37 Identities=27% Similarity=0.233 Sum_probs=29.6
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+++.+..|.|+||+||||++..+...|...+..++..
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 4567999999999999999888888777666655554
No 423
>CHL00095 clpC Clp protease ATP binding subunit
Probab=91.04 E-value=0.23 Score=66.34 Aligned_cols=53 Identities=23% Similarity=0.189 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhhccc-------CCC-CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 253 PQVGAVFACLRRLDC-------DHK-SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~-------~~~-~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
-|..||.....++.+ .++ .+..|+.||||||||+++.++...|.......+.+
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~ 573 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRL 573 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEE
Confidence 466677666555431 111 23578999999999999999988887665554444
No 424
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=91.03 E-value=0.25 Score=65.14 Aligned_cols=70 Identities=19% Similarity=0.180 Sum_probs=41.4
Q ss_pred HHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc-------CCceEEecCChH-----HHHHHHHHHHHH
Q 048652 255 VGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI-------KCRTLACTPTNV-----AITELASRALRL 322 (1382)
Q Consensus 255 ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-------~~RILVcAPTN~-----AVDeVa~RL~~l 322 (1382)
.+-|...+..+.+. .....++.||||||||+++..+...+... +.+++.+..+.. -..+.-+|+.+.
T Consensus 188 ~~ei~~~~~~L~~~-~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i 266 (731)
T TIGR02639 188 EDELERTIQVLCRR-KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAV 266 (731)
T ss_pred HHHHHHHHHHHhcC-CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHH
Confidence 33444444333233 34456899999999999999988888653 455665443221 122344566665
Q ss_pred hhh
Q 048652 323 VKE 325 (1382)
Q Consensus 323 ~~e 325 (1382)
+.+
T Consensus 267 ~~~ 269 (731)
T TIGR02639 267 VSE 269 (731)
T ss_pred HHH
Confidence 543
No 425
>PRK08506 replicative DNA helicase; Provisional
Probab=91.01 E-value=0.37 Score=60.29 Aligned_cols=52 Identities=17% Similarity=0.132 Sum_probs=45.6
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||.|||+++..++...+..+.+|++.+.- -...+++.|+...
T Consensus 191 ~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rlla~ 242 (472)
T PRK08506 191 KGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRMLSA 242 (472)
T ss_pred CCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHHHHH
Confidence 467999999999999999999999988889999998776 4778899998874
No 426
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=91.01 E-value=0.49 Score=60.01 Aligned_cols=81 Identities=16% Similarity=0.184 Sum_probs=69.0
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHh
Q 048652 244 PSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 244 ~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
....+.|+..|+++|......+..+ .+=.-||||-=|+|||-++.......+..|....+.|||-.=+.+-...+.+..
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~-~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l 335 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASP-VPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWL 335 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCc-hhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHh
Confidence 4567899999999999998765442 233689999999999999988888889999999999999999988888888876
Q ss_pred hh
Q 048652 324 KE 325 (1382)
Q Consensus 324 ~e 325 (1382)
.+
T Consensus 336 ~~ 337 (677)
T COG1200 336 EP 337 (677)
T ss_pred hh
Confidence 64
No 427
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=91.00 E-value=0.65 Score=60.45 Aligned_cols=76 Identities=16% Similarity=0.127 Sum_probs=59.9
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHHh
Q 048652 244 PSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 244 ~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
....+.+++.|..++...+..+... . +..+|.|.+|+|||.+++.++.. .+..+|+++|+...+.++.+.|....
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~-~-~~~ll~Gl~gs~ka~lia~l~~~---~~r~vLIVt~~~~~A~~l~~dL~~~~ 81 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAG-E-KHQTLLGVTGSGKTFTMANVIAR---LQRPTLVLAHNKTLAAQLYSEFKEFF 81 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcC-C-CcEEEEcCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhc
Confidence 3456789999999999887765322 1 13469999999999998765543 36789999999999999999998765
Q ss_pred h
Q 048652 324 K 324 (1382)
Q Consensus 324 ~ 324 (1382)
.
T Consensus 82 ~ 82 (652)
T PRK05298 82 P 82 (652)
T ss_pred C
Confidence 3
No 428
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=90.99 E-value=0.19 Score=55.08 Aligned_cols=29 Identities=28% Similarity=0.219 Sum_probs=23.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCc
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCR 301 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~R 301 (1382)
+..|.||||+||||++..+...|-..+..
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~ 29 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNKRGIP 29 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTCTTT
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCccCcC
Confidence 45799999999999998888888766544
No 429
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=90.98 E-value=0.25 Score=55.18 Aligned_cols=35 Identities=23% Similarity=0.196 Sum_probs=31.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
+.++.|.||+|||++.+.+...+.+.|.|||++..
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 35789999999999999999999999999988653
No 430
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=90.96 E-value=0.3 Score=64.81 Aligned_cols=26 Identities=35% Similarity=0.441 Sum_probs=22.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.++.++.||||||||+++.++...+
T Consensus 346 ~~~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 346 KGPILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHh
Confidence 45689999999999999998887776
No 431
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=90.92 E-value=0.29 Score=57.46 Aligned_cols=56 Identities=23% Similarity=0.162 Sum_probs=48.2
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC--CceEEecCChHHHH
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK--CRTLACTPTNVAIT 313 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~--~RILVcAPTN~AVD 313 (1382)
...++.|..-+.++.. ..+..=.||.|||||.+.++.....+..+ .||++.=| ||+
T Consensus 127 ~~kt~~Q~~y~eai~~-------~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP---aVE 184 (348)
T COG1702 127 IPKTPGQNMYPEAIEE-------HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP---AVE 184 (348)
T ss_pred EecChhHHHHHHHHHh-------cCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc---chh
Confidence 4689999999988866 68899999999999999999988888876 69999988 555
No 432
>PRK14532 adenylate kinase; Provisional
Probab=90.92 E-value=0.17 Score=55.00 Aligned_cols=21 Identities=29% Similarity=0.536 Sum_probs=17.4
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~ 294 (1382)
.+|.||||+||||+...+...
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999998776543
No 433
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=90.91 E-value=0.36 Score=51.39 Aligned_cols=37 Identities=22% Similarity=0.147 Sum_probs=33.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTP 307 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAP 307 (1382)
.+...|.+|||+||||.+..+....+..|.||+++-+
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQF 38 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQF 38 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEE
Confidence 4788999999999999999999999999999999544
No 434
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=90.90 E-value=0.26 Score=55.54 Aligned_cols=39 Identities=21% Similarity=0.113 Sum_probs=34.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNV 310 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~ 310 (1382)
.+.-|.|++|+||||++..++..|..++.||.++-+++.
T Consensus 2 ~vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~ 40 (229)
T PRK14494 2 RAIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHH 40 (229)
T ss_pred eEEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEeccc
Confidence 367799999999999999999999999999999966554
No 435
>PRK09087 hypothetical protein; Validated
Probab=90.90 E-value=0.19 Score=56.66 Aligned_cols=24 Identities=38% Similarity=0.394 Sum_probs=20.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~ 294 (1382)
.+...|+||||+|||+++.++...
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh
Confidence 567999999999999999865543
No 436
>PHA02542 41 41 helicase; Provisional
Probab=90.88 E-value=0.41 Score=59.73 Aligned_cols=52 Identities=13% Similarity=0.049 Sum_probs=43.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||.|||+++..++......|.+||+.+.--. ..+++.|+...
T Consensus 189 ~G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM~-~~ql~~Rl~a~ 240 (473)
T PHA02542 189 RKTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEMA-EEVIAKRIDAN 240 (473)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccCC-HHHHHHHHHHH
Confidence 46799999999999999999999988888999999886543 36788888764
No 437
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=90.88 E-value=0.18 Score=54.79 Aligned_cols=21 Identities=38% Similarity=0.561 Sum_probs=17.1
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFS 294 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~ 294 (1382)
.+|.|||||||||+...+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988666544
No 438
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=90.86 E-value=0.16 Score=63.01 Aligned_cols=25 Identities=36% Similarity=0.469 Sum_probs=21.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.=.|++||||+|||.++-++...|
T Consensus 223 prGvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 223 PRGVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred CCceeeeCCCCccHHHHHHHHhhhc
Confidence 4458999999999999998887666
No 439
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.83 E-value=0.29 Score=57.40 Aligned_cols=26 Identities=38% Similarity=0.403 Sum_probs=22.4
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
...-.||.||||||||-++.++...|
T Consensus 64 aGrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 64 AGRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred cccEEEEECCCCCcHHHHHHHHHHHh
Confidence 35679999999999999998887776
No 440
>CHL00095 clpC Clp protease ATP binding subunit
Probab=90.80 E-value=0.49 Score=63.25 Aligned_cols=70 Identities=20% Similarity=0.213 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc-------CCceEEecCChHH-----HHHHHHHH
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI-------KCRTLACTPTNVA-----ITELASRA 319 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-------~~RILVcAPTN~A-----VDeVa~RL 319 (1382)
+.+.+.+...|. +. ..+..++.||||||||+++-.+...+... +.+++....++.- ..+.-+|+
T Consensus 185 ~~ei~~~~~~L~---r~-~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~rl 260 (821)
T CHL00095 185 EKEIERVIQILG---RR-TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERL 260 (821)
T ss_pred HHHHHHHHHHHc---cc-ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHH
Confidence 334444444443 22 23455899999999999998888877643 4566654443221 23445566
Q ss_pred HHHhhh
Q 048652 320 LRLVKE 325 (1382)
Q Consensus 320 ~~l~~e 325 (1382)
...+.+
T Consensus 261 ~~i~~~ 266 (821)
T CHL00095 261 KRIFDE 266 (821)
T ss_pred HHHHHH
Confidence 655543
No 441
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.78 E-value=1.2 Score=59.52 Aligned_cols=64 Identities=14% Similarity=0.090 Sum_probs=49.4
Q ss_pred CCCCCHHHHH---HHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHH
Q 048652 247 SSTLNEPQVG---AVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASR 318 (1382)
Q Consensus 247 ~~~LN~sQ~~---AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~R 318 (1382)
.+...+.|.+ +|..++.. ....+|++|+|||||..-..- .+.. .+.+++|.+||..=.+++..+
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~------~~~~~~eA~tGtGKT~ayllp--~l~~~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHD------GPASFIEAQTGIGKTYGYLLP--LLAQSDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhC------CCcEEEECCCCCcHHHHHHHH--HHHhcCCCcEEEEeCcHHHHHHHHHH
Confidence 4678899999 77777763 678999999999999765332 3333 478999999999888888544
No 442
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.74 E-value=0.3 Score=60.92 Aligned_cols=37 Identities=30% Similarity=0.352 Sum_probs=29.8
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc--CCceEEec
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI--KCRTLACT 306 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~--~~RILVcA 306 (1382)
..++..|.||+|+|||||+..+...+... +.+|.+++
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 35788999999999999999999887765 45676554
No 443
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=90.71 E-value=0.3 Score=61.31 Aligned_cols=51 Identities=20% Similarity=0.169 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHhh-cccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 248 STLNEPQVGAVFACLRR-LDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~-~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
+.+.+.-.+-|....++ ..-.....+.++.||||+|||+++..+...|-.-
T Consensus 79 yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~ 130 (644)
T PRK15455 79 YGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV 130 (644)
T ss_pred cCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence 45555544444322111 1223456899999999999999988777655443
No 444
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=90.69 E-value=0.24 Score=62.74 Aligned_cols=29 Identities=31% Similarity=0.642 Sum_probs=22.9
Q ss_pred cCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 267 CDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 267 ~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...+...+|.||||||||+++..+....
T Consensus 82 ~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~ 110 (531)
T TIGR02902 82 CGPNPQHVIIYGPPGVGKTAAARLVLEEA 110 (531)
T ss_pred hCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 44556788999999999999987776543
No 445
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=90.69 E-value=0.34 Score=64.73 Aligned_cols=53 Identities=30% Similarity=0.235 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhhccc--------CCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 253 PQVGAVFACLRRLDC--------DHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 253 sQ~~AV~~~l~~~~~--------~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
-|..||......+.+ .+..++.|+.||||||||.++.++...|......+...
T Consensus 570 GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~ 630 (852)
T TIGR03345 570 GQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITI 630 (852)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEE
Confidence 355566655554322 12224689999999999999999988876554444443
No 446
>PLN02200 adenylate kinase family protein
Probab=90.69 E-value=0.21 Score=56.68 Aligned_cols=25 Identities=20% Similarity=0.401 Sum_probs=20.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+.+.+|.|||||||||....+...+
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 4578999999999999987775543
No 447
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=90.63 E-value=0.27 Score=50.15 Aligned_cols=37 Identities=32% Similarity=0.247 Sum_probs=25.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
...+.++.|+=|+||||.+..++..| +..--|.|||=
T Consensus 14 ~g~vi~L~GdLGaGKTtf~r~l~~~l---g~~~~V~SPTF 50 (123)
T PF02367_consen 14 PGDVILLSGDLGAGKTTFVRGLARAL---GIDEEVTSPTF 50 (123)
T ss_dssp S-EEEEEEESTTSSHHHHHHHHHHHT---T--S----TTT
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHc---CCCCCcCCCCe
Confidence 36799999999999999999888877 22225666654
No 448
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=90.63 E-value=0.3 Score=61.45 Aligned_cols=44 Identities=30% Similarity=0.345 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHhhcc-----cCCCCCeEEEEcCCCCchHHHHHHHHH
Q 048652 250 LNEPQVGAVFACLRRLD-----CDHKSGVELRWGPPGTGKTKTVSMLLF 293 (1382)
Q Consensus 250 LN~sQ~~AV~~~l~~~~-----~~~~~~~~LI~GPPGTGKTttI~~li~ 293 (1382)
..+..+++|...+.... ....+...|+.||||||||.++.++..
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh
Confidence 44555666666655432 123345799999999999999887765
No 449
>PF13479 AAA_24: AAA domain
Probab=90.63 E-value=0.18 Score=56.28 Aligned_cols=31 Identities=35% Similarity=0.497 Sum_probs=24.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
+--.+|.||||+|||+++..+ .++|++..-+
T Consensus 3 ~~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~ 33 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLAASL--------PKPLFIDTEN 33 (213)
T ss_pred ceEEEEECCCCCCHHHHHHhC--------CCeEEEEeCC
Confidence 345899999999999998765 6777766544
No 450
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=90.60 E-value=0.54 Score=51.52 Aligned_cols=38 Identities=11% Similarity=0.051 Sum_probs=35.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCC
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPT 308 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPT 308 (1382)
.+...|.||+|+||||.+..+....+..|.+|+++=+-
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFl 59 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFI 59 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEe
Confidence 68999999999999999999999999999999997653
No 451
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=90.50 E-value=0.51 Score=63.27 Aligned_cols=50 Identities=24% Similarity=0.266 Sum_probs=34.1
Q ss_pred HHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH-------cCCceEEec
Q 048652 256 GAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR-------IKCRTLACT 306 (1382)
Q Consensus 256 ~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~-------~~~RILVcA 306 (1382)
..|...+..+.+ ...+..+++||||||||+++..++..+.. .+.+++.+.
T Consensus 180 ~ei~~~~~~l~r-~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~ 236 (852)
T TIGR03346 180 EEIRRTIQVLSR-RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALD 236 (852)
T ss_pred HHHHHHHHHHhc-CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEee
Confidence 345555543322 33456778999999999999988887765 256777654
No 452
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=90.49 E-value=0.27 Score=63.41 Aligned_cols=26 Identities=31% Similarity=0.489 Sum_probs=21.3
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.....+|.|||||||||++..+....
T Consensus 174 ~~~~vlL~Gp~GtGKTTLAr~i~~~~ 199 (615)
T TIGR02903 174 FPQHIILYGPPGVGKTTAARLALEEA 199 (615)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 35679999999999999987765544
No 453
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=90.48 E-value=0.66 Score=53.18 Aligned_cols=53 Identities=21% Similarity=0.153 Sum_probs=44.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHc-CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRI-KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~-~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
..+.+|-|+||.|||+++..++..++.. +.+|+..+.=.. .++++.|+.....
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la~~s 72 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLARLS 72 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHHHhh
Confidence 5699999999999999999999999987 699999998764 4568889887543
No 454
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.46 E-value=0.17 Score=59.84 Aligned_cols=20 Identities=45% Similarity=0.574 Sum_probs=16.3
Q ss_pred eEEEEcCCCCchHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li 292 (1382)
-.|..||||||||-++.++.
T Consensus 247 gvLm~GPPGTGKTlLAKAvA 266 (491)
T KOG0738|consen 247 GVLMVGPPGTGKTLLAKAVA 266 (491)
T ss_pred eeeeeCCCCCcHHHHHHHHH
Confidence 37889999999998876544
No 455
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=90.45 E-value=0.52 Score=52.24 Aligned_cols=37 Identities=24% Similarity=0.256 Sum_probs=28.1
Q ss_pred CCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec
Q 048652 269 HKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT 306 (1382)
Q Consensus 269 ~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA 306 (1382)
+..++..|.||+|+||||++..++..+-. +.++.+..
T Consensus 20 ~~~~~i~~~G~~gsGKTTli~~l~~~~~~-~~~v~v~~ 56 (207)
T TIGR00073 20 HGLVVLNFMSSPGSGKTTLIEKLIDNLKD-EVKIAVIE 56 (207)
T ss_pred cCcEEEEEECCCCCCHHHHHHHHHHHHhc-CCeEEEEE
Confidence 44667889999999999999998887643 34655554
No 456
>PRK02496 adk adenylate kinase; Provisional
Probab=90.45 E-value=0.22 Score=53.97 Aligned_cols=22 Identities=36% Similarity=0.566 Sum_probs=18.3
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999987776554
No 457
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=90.45 E-value=0.37 Score=57.57 Aligned_cols=41 Identities=32% Similarity=0.237 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
|..++...+-.+.. ...+..+|.|||||||||++.++...+
T Consensus 9 q~~~~~al~~~~~~-~~~g~vli~G~~G~gKttl~r~~~~~~ 49 (337)
T TIGR02030 9 QDEMKLALLLNVID-PKIGGVMVMGDRGTGKSTAVRALAALL 49 (337)
T ss_pred HHHHHHHHHHHhcC-CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence 55555554433322 235678999999999999987655433
No 458
>PRK06761 hypothetical protein; Provisional
Probab=90.45 E-value=0.25 Score=57.43 Aligned_cols=34 Identities=26% Similarity=0.196 Sum_probs=27.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA 304 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV 304 (1382)
..+.+|.||||+||||++..+...|...+.++-+
T Consensus 3 ~~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~ 36 (282)
T PRK06761 3 TKLIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL 36 (282)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence 3589999999999999999998888655555443
No 459
>PRK10865 protein disaggregation chaperone; Provisional
Probab=90.44 E-value=0.42 Score=63.99 Aligned_cols=50 Identities=24% Similarity=0.278 Sum_probs=34.2
Q ss_pred HHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHH-------cCCceEEecC
Q 048652 257 AVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLR-------IKCRTLACTP 307 (1382)
Q Consensus 257 AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~-------~~~RILVcAP 307 (1382)
-|...+..+. ....+..+++||||||||+++..+...+.. .+.+++....
T Consensus 186 ei~~~i~iL~-r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l 242 (857)
T PRK10865 186 EIRRTIQVLQ-RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM 242 (857)
T ss_pred HHHHHHHHHh-cCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEeh
Confidence 3555544322 234567789999999999999888888764 2567766543
No 460
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.43 E-value=0.26 Score=54.75 Aligned_cols=177 Identities=14% Similarity=0.151 Sum_probs=111.7
Q ss_pred ccccccchHhhcCccccCCh--HHHHHhHHHHHHHHHhcCCChhhhhHhhchhh-HHhhhch------HHHHhhHhhccC
Q 048652 913 GRSTATDRKAAADPMCSSNP--KEVKFNLQEAAEIFAAIGMPDSAVRCFNDLEK-YERAGRF------DELMMLEEGSGN 983 (1382)
Q Consensus 913 ~~a~a~~l~~~a~~~~~~~~--~~~~~~~~~aa~~fe~~~~~~~aa~c~~~~~~-y~~a~~~------~el~~~~~~~~~ 983 (1382)
|...|+.|-..|+++-+..+ .+|=-.|-+||+|.-..|....||.||.++.+ |+|..-- +--.++--.+||
T Consensus 29 k~eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL~~aieIyt~~Gr 108 (288)
T KOG1586|consen 29 KYEEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCLEKAIEIYTDMGR 108 (288)
T ss_pred chHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHhhhH
Confidence 55566666666666655543 55666788999999999999999999999886 8887332 222245588999
Q ss_pred hhHHHHHhhhc--------CchHHHhHHHHHhcCc---hhHHHHHHHHHHhhccCCCCCCCCCCcccccHHHHHHHHHHH
Q 048652 984 FMEAANTAVLG--------GDIFLATDLLQKAGNF---REASKLVLNFVFSNSLWSPGSRGWPLKQFTQEEELLQKAKSL 1052 (1382)
Q Consensus 984 ~~eaa~~~~~~--------g~~~~~~~~l~~~~~~---~~~~~~~~~~~~~~~lw~~~~~~~~~~~~~~~~~~~~~~~~~ 1052 (1382)
|--||+-|... .|+..||..|+.|++| +++.... +.|+++. .+++-..+.-.+|..-
T Consensus 109 f~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssA-NKC~lKv-----------A~yaa~leqY~~Ai~i 176 (288)
T KOG1586|consen 109 FTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSA-NKCLLKV-----------AQYAAQLEQYSKAIDI 176 (288)
T ss_pred HHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhH-HHHHHHH-----------HHHHHHHHHHHHHHHH
Confidence 98887655544 4566789999999987 5666666 5566653 2344444444444332
Q ss_pred hhhccchhhhhhhhhhhccccccccH--HHHHHHHhhhccccceehhhhhhhhhhhhccccccc
Q 048652 1053 AKNDSNQFYEFVCAEADILSNDQSNL--LMMNQQFIDSKRHQNIRGEILSSRMILDFHLHSNAS 1114 (1382)
Q Consensus 1053 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1114 (1382)
=+.| +=..+ +.+| .+...+|+.---|.=..++.++++.-|.-+....++
T Consensus 177 yeqv-------a~~s~------~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~ 227 (288)
T KOG1586|consen 177 YEQV-------ARSSL------DNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPA 227 (288)
T ss_pred HHHH-------HHHhc------cchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCc
Confidence 2211 11111 1122 244555555555665667777777777666666555
No 461
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=90.40 E-value=0.28 Score=64.46 Aligned_cols=24 Identities=42% Similarity=0.487 Sum_probs=20.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+..|+.||||||||.++..+...+
T Consensus 489 ~~~Lf~GP~GvGKT~lAk~LA~~l 512 (758)
T PRK11034 489 GSFLFAGPTGVGKTEVTVQLSKAL 512 (758)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 468999999999999998776655
No 462
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=90.39 E-value=0.31 Score=54.17 Aligned_cols=37 Identities=22% Similarity=0.134 Sum_probs=28.5
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHc-----CCceEEecCCh
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRI-----KCRTLACTPTN 309 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~-----~~RILVcAPTN 309 (1382)
.+||-||||+||||.+..+...+..- +.||.++--+|
T Consensus 139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 48999999999999998887766543 56777665554
No 463
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=90.34 E-value=0.2 Score=52.44 Aligned_cols=20 Identities=35% Similarity=0.557 Sum_probs=16.8
Q ss_pred EEcCCCCchHHHHHHHHHHH
Q 048652 276 RWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 276 I~GPPGTGKTttI~~li~~L 295 (1382)
|.||||+||||....+...+
T Consensus 1 i~G~PgsGK~t~~~~la~~~ 20 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRY 20 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHhc
Confidence 67999999999988776654
No 464
>PRK14528 adenylate kinase; Provisional
Probab=90.29 E-value=0.24 Score=53.98 Aligned_cols=23 Identities=35% Similarity=0.531 Sum_probs=18.5
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+|.||||+||||+...+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999987765443
No 465
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=90.24 E-value=0.57 Score=61.68 Aligned_cols=72 Identities=14% Similarity=0.079 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEEecCChHHHHHHHHHHHHHhh
Q 048652 248 STLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLACTPTNVAITELASRALRLVK 324 (1382)
Q Consensus 248 ~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILVcAPTN~AVDeVa~RL~~l~~ 324 (1382)
+..++-|.++|...+.. ....+++.|.|||||-+++.-+..+... ..+++.|.||..=++++.+.+.++..
T Consensus 14 ~~PtpiQ~~~i~~il~G------~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k 87 (844)
T TIGR02621 14 YSPFPWQLSLAERFVAG------QPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGE 87 (844)
T ss_pred CCCCHHHHHHHHHHHcC------CCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHH
Confidence 44889999999998762 2368889999999998764333322211 34666688999999999998888765
Q ss_pred h
Q 048652 325 E 325 (1382)
Q Consensus 325 e 325 (1382)
.
T Consensus 88 ~ 88 (844)
T TIGR02621 88 R 88 (844)
T ss_pred H
Confidence 3
No 466
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=90.19 E-value=0.26 Score=54.06 Aligned_cols=32 Identities=22% Similarity=0.306 Sum_probs=21.5
Q ss_pred eEEEEcCCCCchHHHHHHH-HHHHHHcCCceEE
Q 048652 273 VELRWGPPGTGKTKTVSML-LFSLLRIKCRTLA 304 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~l-i~~Ll~~~~RILV 304 (1382)
+.+|.|.||+|||..++.. +...++.+.+|.+
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 6799999999999998887 7777777666664
No 467
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=90.19 E-value=0.43 Score=53.98 Aligned_cols=50 Identities=28% Similarity=0.269 Sum_probs=30.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEE--ecCChHHHHHHHHHHHHHhhh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLA--CTPTNVAITELASRALRLVKE 325 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILV--cAPTN~AVDeVa~RL~~l~~e 325 (1382)
.-...+.||+|||||.|+..+...| |+-+++ |++.- =-....|+......
T Consensus 32 ~~~~~~~GpagtGKtetik~La~~l---G~~~~vfnc~~~~--~~~~l~ril~G~~~ 83 (231)
T PF12774_consen 32 NLGGALSGPAGTGKTETIKDLARAL---GRFVVVFNCSEQM--DYQSLSRILKGLAQ 83 (231)
T ss_dssp TTEEEEESSTTSSHHHHHHHHHHCT---T--EEEEETTSSS---HHHHHHHHHHHHH
T ss_pred CCCCCCcCCCCCCchhHHHHHHHHh---CCeEEEecccccc--cHHHHHHHHHHHhh
Confidence 4566789999999999987765544 445554 44433 23345566665543
No 468
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=90.14 E-value=0.61 Score=62.39 Aligned_cols=71 Identities=18% Similarity=0.181 Sum_probs=43.3
Q ss_pred HHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc-------CCceEEecCCh-----HHHHHHHHHHHH
Q 048652 254 QVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI-------KCRTLACTPTN-----VAITELASRALR 321 (1382)
Q Consensus 254 Q~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~-------~~RILVcAPTN-----~AVDeVa~RL~~ 321 (1382)
|...|...+..+ |....+..+++||||+|||+++-.++..+... +.+++....+. .-..+..+||..
T Consensus 192 r~~ei~~~i~~l-~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk~ 270 (852)
T TIGR03345 192 RDDEIRQMIDIL-LRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFENRLKS 270 (852)
T ss_pred CHHHHHHHHHHH-hcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHHHHHHH
Confidence 344455555533 22334566899999999999998888877543 35555333322 123455567766
Q ss_pred Hhhh
Q 048652 322 LVKE 325 (1382)
Q Consensus 322 l~~e 325 (1382)
.+.+
T Consensus 271 ii~e 274 (852)
T TIGR03345 271 VIDE 274 (852)
T ss_pred HHHH
Confidence 6654
No 469
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.10 E-value=0.21 Score=60.96 Aligned_cols=52 Identities=27% Similarity=0.323 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHH------HhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCce
Q 048652 250 LNEPQVGAVFAC------LRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRT 302 (1382)
Q Consensus 250 LN~sQ~~AV~~~------l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RI 302 (1382)
++.-=++|..+- +..+.|+|-.+ .|+.||||||||-.+..+-..|-.+..+|
T Consensus 230 Fs~IFRRAFAsRvFpp~vie~lGi~HVKG-iLLyGPPGTGKTLiARqIGkMLNArePKI 287 (744)
T KOG0741|consen 230 FSDIFRRAFASRVFPPEVIEQLGIKHVKG-ILLYGPPGTGKTLIARQIGKMLNAREPKI 287 (744)
T ss_pred HHHHHHHHHHhhcCCHHHHHHcCccceee-EEEECCCCCChhHHHHHHHHHhcCCCCcc
Confidence 344445555543 23356777655 46799999999988777665554444444
No 470
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.09 E-value=0.24 Score=51.51 Aligned_cols=35 Identities=26% Similarity=0.283 Sum_probs=26.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
..+.++.|.||.||||++.+ |.+.|.-+..-+++.
T Consensus 9 ~~~fIltGgpGaGKTtLL~a----La~~Gfatvee~~r~ 43 (183)
T COG3911 9 HKRFILTGGPGAGKTTLLAA----LARAGFATVEEAGRD 43 (183)
T ss_pred ceEEEEeCCCCCcHHHHHHH----HHHcCceeeccchhh
Confidence 46999999999999998754 556666665555544
No 471
>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=90.02 E-value=8.8 Score=52.97 Aligned_cols=159 Identities=14% Similarity=0.071 Sum_probs=92.0
Q ss_pred CccEEEecccccCChHHHHHHHHh-cCCCeEEEEecCCCCCccccccccccCCcccc---HHHHHHhcCCCceecccccC
Q 048652 583 PLNFLVIDEAAQLKESESTIPLQL-AGINHAVLIGDECQLPAMVESKISDGASFGRS---LFERLTLLNHSKHLLDIQYR 658 (1382)
Q Consensus 583 ~fd~VIIDEAsQ~~E~e~lipL~l-~~~krlVLVGD~~QLpP~V~s~~a~~~g~~~S---LFeRL~~~~~~~~~L~~QYR 658 (1382)
.--.|+|||+++.++.+.-+.-.+ ..++++++++|..|..+ ........-|..+ +.+.....+.+...+..+||
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 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAY--KSSFSEGNLYQASVKFLHDLAQKYQTKAEFISSTHE 262 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCcccc--ccCCCcccchHHHHHHHHHHHHHcCCCcccCccccc
Confidence 346899999999999996555443 46789999999988542 0000010001111 22222223555555668899
Q ss_pred CCccccccccccccccccccCcccccccccccCCCCCCCCCeEEEEecCCcccccccCCCCHHHHHHHHHHHHHHHHhhc
Q 048652 659 MHPSISLFPNLQFYRNQILDGANVKSKSYEKHYLPGTEFGPYTFINIIGGREEFIYHSCRNMVEVSVVIKILQKLYKAWV 738 (1382)
Q Consensus 659 mhp~I~~f~n~~FY~g~L~~~~~v~~~~~~~~~l~~~~~~p~~fidv~~g~e~~~~~S~~N~~Ea~~V~~lV~~L~~~~~ 738 (1382)
.+|+|..+.+..+ .......... ..++.....+.++.. ..-..|++.|...|..|+..+.
T Consensus 263 ~~~~L~~Le~~~~-~~~~~~~~~~--------~~~~~~~~~I~i~~a-----------~n~~~Eve~va~~I~~lv~~g~ 322 (1076)
T TIGR02774 263 SKDSFDKLSRLLE-ASHDFSELAL--------DLDDKDKDNLTIWSC-----------LTQKEEVEHVARSIRQKLYEGY 322 (1076)
T ss_pred cCHHHHHHHHHHh-hcccCCcccc--------cCCCCCCCceEEEEc-----------CCHHHHHHHHHHHHHHHHHcCC
Confidence 9998888776222 1100000000 001110012333222 1125699999999999988754
Q ss_pred CCCCCceEEEEeccHHH-HHHHHHHHhhh
Q 048652 739 GSKQMVSIGVVSPYTAQ-VVAIRKKIGSE 766 (1382)
Q Consensus 739 ~~~~~~~IgVITPY~aQ-v~~I~~~L~~~ 766 (1382)
. ..+|+|+++-..+ ...|...+.+.
T Consensus 323 r---y~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 323 R---YKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred C---hhheEEEcCCHHHHHHHHHHHHhhc
Confidence 3 4599999999888 77777777654
No 472
>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=89.99 E-value=0.91 Score=52.44 Aligned_cols=70 Identities=23% Similarity=0.151 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhhc------ccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCC-----ceEEecCChHHHHHHHHHHHH
Q 048652 253 PQVGAVFACLRRL------DCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKC-----RTLACTPTNVAITELASRALR 321 (1382)
Q Consensus 253 sQ~~AV~~~l~~~------~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~-----RILVcAPTN~AVDeVa~RL~~ 321 (1382)
.|.+||...+... .......-.++.-.||+|||.++.+++..+...+. ++||++|+ ..+.+-..-+.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 3888888887753 11233456777778999999999999998877533 49999999 555666665555
Q ss_pred Hh
Q 048652 322 LV 323 (1382)
Q Consensus 322 l~ 323 (1382)
..
T Consensus 80 ~~ 81 (299)
T PF00176_consen 80 WF 81 (299)
T ss_dssp HS
T ss_pred cc
Confidence 43
No 473
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=89.94 E-value=0.33 Score=57.29 Aligned_cols=39 Identities=18% Similarity=0.275 Sum_probs=29.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH------cCCceEEecCCh
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLR------IKCRTLACTPTN 309 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~------~~~RILVcAPTN 309 (1382)
..+++|.||||||||++...++..... .+.+++.++.-.
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~ 139 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN 139 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence 679999999999999999988777643 123666655433
No 474
>PRK13947 shikimate kinase; Provisional
Probab=89.90 E-value=0.26 Score=52.53 Aligned_cols=23 Identities=30% Similarity=0.202 Sum_probs=18.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~L 295 (1382)
..+|.|||||||||+...+...|
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHh
Confidence 36899999999999987665544
No 475
>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=89.90 E-value=0.46 Score=61.53 Aligned_cols=53 Identities=28% Similarity=0.275 Sum_probs=46.8
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
..++.+|.+|=||||||.+...+...+ ....++|++|..+.-+.+++.|+...
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 478999999999999999888777776 44799999999999999999999764
No 476
>PRK09165 replicative DNA helicase; Provisional
Probab=89.89 E-value=0.55 Score=59.13 Aligned_cols=52 Identities=21% Similarity=0.174 Sum_probs=42.7
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHc---------------CCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRI---------------KCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~---------------~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
...+.+|-|+||+|||+++..++...... +.+||+.+.-.. .+++..|+...
T Consensus 216 ~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs-~~ql~~R~la~ 282 (497)
T PRK09165 216 PSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMS-AEQLATRILSE 282 (497)
T ss_pred CCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCC-HHHHHHHHHHH
Confidence 46789999999999999999988887653 578998877664 47888898774
No 477
>PRK08760 replicative DNA helicase; Provisional
Probab=89.86 E-value=0.54 Score=58.80 Aligned_cols=52 Identities=17% Similarity=0.049 Sum_probs=43.8
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHH-cCCceEEecCChHHHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLR-IKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~-~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
+..+.+|-|+||.|||+++..++..... .+.+|++.+.-..+ ++++.|+...
T Consensus 228 ~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~-~ql~~Rl~a~ 280 (476)
T PRK08760 228 PTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA-SQLAMRLISS 280 (476)
T ss_pred CCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH-HHHHHHHHHh
Confidence 4679999999999999999999988864 58899999886644 6788898875
No 478
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=89.84 E-value=0.62 Score=53.79 Aligned_cols=36 Identities=14% Similarity=0.070 Sum_probs=29.6
Q ss_pred CCCeEEEE-cCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 270 KSGVELRW-GPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 270 ~~~~~LI~-GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
...+..|. +.||.||||++..+...+...|.|||++
T Consensus 102 ~~~vi~vts~~~g~Gktt~a~nLA~~la~~g~~VllI 138 (274)
T TIGR03029 102 GRKALAVVSAKSGEGCSYIAANLAIVFSQLGEKTLLI 138 (274)
T ss_pred CCeEEEEECCCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 34444454 5599999999999999999999999986
No 479
>PRK10646 ADP-binding protein; Provisional
Probab=89.82 E-value=0.58 Score=49.52 Aligned_cols=54 Identities=22% Similarity=0.164 Sum_probs=37.8
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCCh
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTN 309 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN 309 (1382)
++.+.+++...+...- ....+.++.|+=|+||||.+..++..| +.+--|.|||=
T Consensus 10 s~~~t~~l~~~la~~l--~~g~vi~L~GdLGaGKTtf~rgl~~~L---g~~~~V~SPTF 63 (153)
T PRK10646 10 DEQATLDLGARVAKAC--DGATVIYLYGDLGAGKTTFSRGFLQAL---GHQGNVKSPTY 63 (153)
T ss_pred CHHHHHHHHHHHHHhC--CCCcEEEEECCCCCCHHHHHHHHHHHc---CCCCCCCCCCE
Confidence 4555556665554321 235689999999999999999999888 32223778875
No 480
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=89.73 E-value=0.61 Score=54.35 Aligned_cols=50 Identities=22% Similarity=0.123 Sum_probs=34.2
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
|+......+.-+.. +...+.-|.||||+||||++..++..|... .++.|+
T Consensus 88 n~~~a~~~r~~~~~----~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~-~~~~VI 137 (290)
T PRK10463 88 NNRLAERNRARFAA----RKQLVLNLVSSPGSGKTTLLTETLMRLKDS-VPCAVI 137 (290)
T ss_pred hHHHHHHHHHHHHh----cCCeEEEEECCCCCCHHHHHHHHHHHhccC-CCEEEE
Confidence 44444444444442 445678899999999999999998887654 355554
No 481
>PRK01184 hypothetical protein; Provisional
Probab=89.72 E-value=0.25 Score=53.43 Aligned_cols=16 Identities=31% Similarity=0.376 Sum_probs=14.2
Q ss_pred eEEEEcCCCCchHHHH
Q 048652 273 VELRWGPPGTGKTKTV 288 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI 288 (1382)
+.+|.||||+||||+.
T Consensus 3 ~i~l~G~~GsGKsT~a 18 (184)
T PRK01184 3 IIGVVGMPGSGKGEFS 18 (184)
T ss_pred EEEEECCCCCCHHHHH
Confidence 6789999999999964
No 482
>PRK05595 replicative DNA helicase; Provisional
Probab=89.66 E-value=0.61 Score=57.96 Aligned_cols=53 Identities=19% Similarity=0.024 Sum_probs=44.3
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecCChHHHHHHHHHHHHHh
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
...+.+|-|+||.|||+++..++..+. ..+.+|++.+.-. ...+++.|+....
T Consensus 200 ~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEm-s~~~l~~R~~a~~ 253 (444)
T PRK05595 200 KGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEM-SKEQLAYKLLCSE 253 (444)
T ss_pred CCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCC-CHHHHHHHHHHHh
Confidence 367999999999999999999998765 6689999998755 6778888988753
No 483
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=89.66 E-value=0.4 Score=56.62 Aligned_cols=32 Identities=19% Similarity=0.217 Sum_probs=26.2
Q ss_pred cCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc
Q 048652 267 CDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI 298 (1382)
Q Consensus 267 ~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~ 298 (1382)
.+.-+...|+.||+|+|||+++..++..|+..
T Consensus 22 ~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 22 KNRFSHAHIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred cCCCCceEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 33445677999999999999999999888754
No 484
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=89.66 E-value=0.42 Score=58.21 Aligned_cols=25 Identities=32% Similarity=0.310 Sum_probs=20.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+...|+.||||||||+++..+...+
T Consensus 50 ~~~ILliGp~G~GKT~LAr~LAk~l 74 (443)
T PRK05201 50 PKNILMIGPTGVGKTEIARRLAKLA 74 (443)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999987765544
No 485
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=89.64 E-value=0.29 Score=50.97 Aligned_cols=22 Identities=32% Similarity=0.310 Sum_probs=18.7
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+|.||||+||||++..+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 4789999999999998876655
No 486
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=89.58 E-value=0.35 Score=53.37 Aligned_cols=37 Identities=27% Similarity=0.366 Sum_probs=26.4
Q ss_pred HHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 255 VGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 255 ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
.+.+...+.. +...+.+|.||+|+|||+++..++..+
T Consensus 8 l~~l~~~l~~----~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 8 LEKLKELLES----GPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp HHHHHHCHHH------SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHh----hcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 3445555542 346899999999999999987776655
No 487
>PRK13973 thymidylate kinase; Provisional
Probab=89.57 E-value=0.65 Score=51.76 Aligned_cols=40 Identities=20% Similarity=0.196 Sum_probs=33.7
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEec-CChH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACT-PTNV 310 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcA-PTN~ 310 (1382)
..+.+|-|++|+||||.+..+...|-..|.++.++. |+..
T Consensus 3 g~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~ 43 (213)
T PRK13973 3 GRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGS 43 (213)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCC
Confidence 458899999999999999999999988888887763 6653
No 488
>PTZ00202 tuzin; Provisional
Probab=89.56 E-value=0.79 Score=55.84 Aligned_cols=65 Identities=18% Similarity=0.171 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHHHHHHHHHHH
Q 048652 252 EPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAITELASRALRL 322 (1382)
Q Consensus 252 ~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVDeVa~RL~~l 322 (1382)
+.+..++...+......+ +.+.+|.||||+|||+++..++..+ +.-.++.-|+ ..+++...+...
T Consensus 268 eaEla~Lr~VL~~~d~~~-privvLtG~~G~GKTTLlR~~~~~l---~~~qL~vNpr--g~eElLr~LL~A 332 (550)
T PTZ00202 268 EAEESWVRQVLRRLDTAH-PRIVVFTGFRGCGKSSLCRSAVRKE---GMPAVFVDVR--GTEDTLRSVVKA 332 (550)
T ss_pred HHHHHHHHHHHhccCCCC-ceEEEEECCCCCCHHHHHHHHHhcC---CceEEEECCC--CHHHHHHHHHHH
Confidence 455667777776443333 4599999999999999988877544 2335556565 346666666654
No 489
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=89.48 E-value=0.28 Score=52.64 Aligned_cols=22 Identities=36% Similarity=0.440 Sum_probs=18.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLF 293 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~ 293 (1382)
.+.+|.||||+||||++..+..
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 4789999999999998776655
No 490
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=89.48 E-value=0.34 Score=63.90 Aligned_cols=24 Identities=42% Similarity=0.491 Sum_probs=20.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 048652 272 GVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 272 ~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
+..++.||||||||.++..+...+
T Consensus 485 ~~~lf~Gp~GvGKT~lA~~la~~l 508 (731)
T TIGR02639 485 GSFLFTGPTGVGKTELAKQLAEAL 508 (731)
T ss_pred eeEEEECCCCccHHHHHHHHHHHh
Confidence 458999999999999998887665
No 491
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=89.47 E-value=0.43 Score=50.95 Aligned_cols=33 Identities=18% Similarity=0.278 Sum_probs=29.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+.+..+-+|+||||+.+.+...+...|.|||++
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~~vllv 34 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLL 34 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCCcEEEE
Confidence 456677799999999999999999999999984
No 492
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=89.45 E-value=0.46 Score=57.50 Aligned_cols=42 Identities=21% Similarity=0.121 Sum_probs=37.0
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVA 311 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~A 311 (1382)
+.++.-|.|+||+||||++..++..|-.++.+|-++-.+...
T Consensus 204 ~~~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h~ 245 (366)
T PRK14489 204 APPLLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSHHR 245 (366)
T ss_pred CccEEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCcc
Confidence 356899999999999999999999999999999888776654
No 493
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=89.41 E-value=0.4 Score=54.99 Aligned_cols=32 Identities=22% Similarity=0.351 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHcCCceEEe
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLLRIKCRTLAC 305 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVc 305 (1382)
+.++ |..|+||||+.+.+...|...|.|||++
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 5566 8999999999999999999999999986
No 494
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=89.33 E-value=0.32 Score=53.90 Aligned_cols=26 Identities=27% Similarity=0.209 Sum_probs=20.5
Q ss_pred CCCeEEEEcCCCCchHHHHHHHHHHH
Q 048652 270 KSGVELRWGPPGTGKTKTVSMLLFSL 295 (1382)
Q Consensus 270 ~~~~~LI~GPPGTGKTttI~~li~~L 295 (1382)
...+..|.||||+||||++..+...+
T Consensus 5 ~g~vi~I~G~sGsGKSTl~~~l~~~l 30 (207)
T TIGR00235 5 KGIIIGIGGGSGSGKTTVARKIYEQL 30 (207)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence 35688899999999999886665543
No 495
>KOG4284 consensus DEAD box protein [Transcription]
Probab=89.30 E-value=0.62 Score=58.04 Aligned_cols=66 Identities=21% Similarity=0.221 Sum_probs=46.9
Q ss_pred CHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHc---CCceEEecCChHHHHHHHHHHHHHh
Q 048652 251 NEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRI---KCRTLACTPTNVAITELASRALRLV 323 (1382)
Q Consensus 251 N~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~---~~RILVcAPTN~AVDeVa~RL~~l~ 323 (1382)
++-|..||-.++.. ==++||+-.|||||-+-+.++..=+.. ...+++++||..-.-+|-+-+.++.
T Consensus 49 tkiQaaAIP~~~~k-------mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~ 117 (980)
T KOG4284|consen 49 TKIQAAAIPAIFSK-------MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVA 117 (980)
T ss_pred Cchhhhhhhhhhcc-------cceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhc
Confidence 45688899888763 347899999999998765544333322 4678999999976666666655543
No 496
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=89.26 E-value=1.1 Score=53.52 Aligned_cols=76 Identities=13% Similarity=0.113 Sum_probs=49.3
Q ss_pred CCCCCeEEEEcCCCCchHHHHHHHHHHHHHcC---------------------CceEEecCC----hHHHHHHHHHHHHH
Q 048652 268 DHKSGVELRWGPPGTGKTKTVSMLLFSLLRIK---------------------CRTLACTPT----NVAITELASRALRL 322 (1382)
Q Consensus 268 ~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~---------------------~RILVcAPT----N~AVDeVa~RL~~l 322 (1382)
++-+...|+.||+|+||++++.++..+|+..+ ..+..++|. ..-||+|.+-...+
T Consensus 21 ~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~ 100 (334)
T PRK07993 21 GRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKL 100 (334)
T ss_pred CCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHH
Confidence 34456788999999999999999999998631 234555664 24577776533333
Q ss_pred hhhhhcCCCCccccccCCcceEEeccCCCCC
Q 048652 323 VKESYKRDSRNNTPFCPLGDILLFGNKDRLK 353 (1382)
Q Consensus 323 ~~es~~~~~~~~~~~~~lgdIVr~Gn~~rm~ 353 (1382)
.... ..+...|+.+.+.++|.
T Consensus 101 ~~~~----------~~g~~kV~iI~~ae~m~ 121 (334)
T PRK07993 101 YEHA----------RLGGAKVVWLPDAALLT 121 (334)
T ss_pred hhcc----------ccCCceEEEEcchHhhC
Confidence 2221 22333588888887773
No 497
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=89.25 E-value=0.5 Score=57.63 Aligned_cols=43 Identities=23% Similarity=0.258 Sum_probs=35.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 271 SGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 271 ~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
....+|.|.||||||+++..++..+..++.+.+|.-|+..-+.
T Consensus 15 ~~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~~~ 57 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEFTE 57 (386)
T ss_dssp GG-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHHHH
T ss_pred hCcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchHHH
Confidence 4689999999999999999999999999999999999974433
No 498
>PRK00279 adk adenylate kinase; Reviewed
Probab=89.22 E-value=0.3 Score=54.40 Aligned_cols=19 Identities=32% Similarity=0.672 Sum_probs=15.9
Q ss_pred EEEEcCCCCchHHHHHHHH
Q 048652 274 ELRWGPPGTGKTKTVSMLL 292 (1382)
Q Consensus 274 ~LI~GPPGTGKTttI~~li 292 (1382)
.+|.||||+||||+...+.
T Consensus 3 I~v~G~pGsGKsT~a~~la 21 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIA 21 (215)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999999876554
No 499
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=89.20 E-value=0.41 Score=57.13 Aligned_cols=35 Identities=20% Similarity=0.139 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH-HcCCceEEecC
Q 048652 273 VELRWGPPGTGKTKTVSMLLFSLL-RIKCRTLACTP 307 (1382)
Q Consensus 273 ~~LI~GPPGTGKTttI~~li~~Ll-~~~~RILVcAP 307 (1382)
+.++.|+||+||||++..+...|. ..|.+|.+++-
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~ 36 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITY 36 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcc
Confidence 357899999999999999998887 56888887654
No 500
>COG4889 Predicted helicase [General function prediction only]
Probab=89.20 E-value=0.59 Score=59.87 Aligned_cols=65 Identities=22% Similarity=0.106 Sum_probs=50.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcccCCCCCeEEEEcCCCCchHHHHHHHHHHHHHcCCceEEecCChHHHH
Q 048652 244 PSLSSTLNEPQVGAVFACLRRLDCDHKSGVELRWGPPGTGKTKTVSMLLFSLLRIKCRTLACTPTNVAIT 313 (1382)
Q Consensus 244 ~~~~~~LN~sQ~~AV~~~l~~~~~~~~~~~~LI~GPPGTGKTttI~~li~~Ll~~~~RILVcAPTN~AVD 313 (1382)
.....++-+.|+.||..++..+..+ ..=.||.+| |||||.|...+.-+|.. .|||.++||-.-+.
T Consensus 156 l~~~kk~R~hQq~Aid~a~~~F~~n--~RGkLIMAc-GTGKTfTsLkisEala~--~~iL~LvPSIsLLs 220 (1518)
T COG4889 156 LKKPKKPRPHQQTAIDAAKEGFSDN--DRGKLIMAC-GTGKTFTSLKISEALAA--ARILFLVPSISLLS 220 (1518)
T ss_pred cCCCCCCChhHHHHHHHHHhhcccc--cCCcEEEec-CCCccchHHHHHHHHhh--hheEeecchHHHHH
Confidence 4456789999999999999987663 344566665 99999998887777766 89999999875443
Done!