Query 000228
Match_columns 1825
No_of_seqs 408 out of 2395
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 00:22:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000228.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000228hhsearch_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 7.9E-80 1.7E-84 733.5 42.3 600 48-864 228-841 (935)
2 KOG1803 DNA helicase [Replicat 100.0 1.1E-77 2.4E-82 720.4 36.9 607 60-869 3-638 (649)
3 TIGR00376 DNA helicase, putati 100.0 1.5E-71 3.2E-76 706.2 56.1 567 125-865 55-636 (637)
4 KOG1801 tRNA-splicing endonucl 100.0 2.5E-68 5.5E-73 690.4 19.3 790 25-872 6-822 (827)
5 KOG1805 DNA replication helica 100.0 5.5E-57 1.2E-61 558.8 21.4 389 254-862 667-1078(1100)
6 KOG1807 Helicases [Replication 100.0 1.3E-53 2.9E-58 515.7 40.9 291 559-863 688-980 (1025)
7 COG1112 Superfamily I DNA and 100.0 5.3E-43 1.1E-47 455.8 34.1 292 561-864 460-754 (767)
8 PF13087 AAA_12: AAA domain; P 100.0 3.8E-36 8.1E-41 330.6 6.4 197 642-838 1-200 (200)
9 KOG1804 RNA helicase [RNA proc 100.0 3E-34 6.5E-39 361.8 10.2 287 567-866 417-726 (775)
10 PF13086 AAA_11: AAA domain; P 100.0 5.1E-31 1.1E-35 292.7 14.8 105 256-376 1-113 (236)
11 KOG1806 DEAD box containing he 100.0 1E-30 2.2E-35 324.6 16.0 488 255-854 737-1263(1320)
12 PRK11054 helD DNA helicase IV; 99.9 3.7E-24 8E-29 274.8 27.4 225 589-858 429-677 (684)
13 TIGR01073 pcrA ATP-dependent D 99.9 1.2E-20 2.7E-25 246.2 32.7 67 256-331 4-74 (726)
14 PRK11773 uvrD DNA-dependent he 99.9 1.1E-20 2.4E-25 246.2 31.4 67 256-331 9-79 (721)
15 TIGR01075 uvrD DNA helicase II 99.9 1.7E-20 3.7E-25 244.5 30.8 67 256-331 4-74 (715)
16 PRK10919 ATP-dependent DNA hel 99.9 8.5E-20 1.8E-24 235.9 32.1 66 256-330 2-71 (672)
17 TIGR01447 recD exodeoxyribonuc 99.9 3.3E-20 7.2E-25 235.1 24.3 64 259-329 148-216 (586)
18 TIGR01448 recD_rel helicase, p 99.8 6.3E-20 1.4E-24 238.1 22.4 62 254-322 321-384 (720)
19 PRK10875 recD exonuclease V su 99.8 1.5E-19 3.2E-24 229.7 20.5 66 257-329 153-222 (615)
20 TIGR02785 addA_Gpos recombinat 99.8 2.1E-17 4.6E-22 225.5 38.1 68 256-332 1-71 (1232)
21 TIGR02768 TraA_Ti Ti-type conj 99.8 8.6E-18 1.9E-22 219.1 23.2 64 253-322 349-412 (744)
22 TIGR00609 recB exodeoxyribonuc 99.8 2.3E-16 4.9E-21 213.4 32.6 175 589-773 295-492 (1087)
23 PRK13909 putative recombinatio 99.7 2.6E-16 5.7E-21 209.9 29.9 158 588-773 326-494 (910)
24 TIGR02784 addA_alphas double-s 99.7 9.6E-15 2.1E-19 199.4 36.5 174 589-770 390-605 (1141)
25 PRK13826 Dtr system oriT relax 99.7 6.2E-16 1.3E-20 204.7 24.1 63 254-322 379-441 (1102)
26 PRK13889 conjugal transfer rel 99.7 5.1E-16 1.1E-20 204.8 21.9 63 254-322 344-406 (988)
27 PRK10876 recB exonuclease V su 99.7 6.1E-15 1.3E-19 200.3 32.7 175 588-772 375-573 (1181)
28 COG1074 RecB ATP-dependent exo 99.7 2.9E-15 6.2E-20 203.2 29.2 178 588-773 376-577 (1139)
29 TIGR01074 rep ATP-dependent DN 99.7 1.3E-14 2.9E-19 188.3 28.3 157 589-773 205-364 (664)
30 PF13604 AAA_30: AAA domain; P 99.6 7.8E-16 1.7E-20 171.6 11.6 65 256-325 1-65 (196)
31 COG0210 UvrD Superfamily I DNA 99.5 7.5E-13 1.6E-17 171.8 26.6 157 589-773 212-372 (655)
32 COG3973 Superfamily I DNA and 99.5 3.5E-13 7.6E-18 164.6 20.0 207 589-836 527-745 (747)
33 PRK13709 conjugal transfer nic 99.5 9.7E-13 2.1E-17 181.0 24.5 64 254-322 965-1032(1747)
34 PRK14712 conjugal transfer nic 99.5 7.7E-13 1.7E-17 179.8 21.1 64 255-323 834-901 (1623)
35 PF00580 UvrD-helicase: UvrD/R 99.4 1.5E-12 3.2E-17 152.1 18.0 68 257-333 1-72 (315)
36 TIGR02760 TraI_TIGR conjugativ 99.3 8.1E-12 1.8E-16 176.2 16.4 65 254-323 1017-1085(1960)
37 PF13245 AAA_19: Part of AAA d 99.2 3.7E-11 8E-16 115.2 7.7 58 263-326 1-62 (76)
38 PF01443 Viral_helicase1: Vira 99.1 4E-10 8.6E-15 127.5 10.7 169 590-834 62-233 (234)
39 TIGR02760 TraI_TIGR conjugativ 99.0 2.7E-08 5.8E-13 141.4 25.2 67 253-324 426-492 (1960)
40 PF09848 DUF2075: Uncharacteri 99.0 3.6E-09 7.8E-14 128.3 14.1 85 589-682 82-183 (352)
41 COG0507 RecD ATP-dependent exo 98.9 2.6E-09 5.6E-14 140.2 9.2 61 254-321 317-377 (696)
42 PF13361 UvrD_C: UvrD-like hel 98.3 9.6E-07 2.1E-11 104.5 6.1 99 658-772 1-99 (351)
43 TIGR02773 addB_Gpos ATP-depend 98.2 0.00012 2.7E-09 101.7 25.6 152 591-773 197-360 (1158)
44 PRK10536 hypothetical protein; 98.2 1.2E-05 2.7E-10 93.5 13.3 56 254-316 57-113 (262)
45 PF02562 PhoH: PhoH-like prote 98.1 1.2E-05 2.6E-10 91.1 11.2 54 256-316 4-59 (205)
46 smart00487 DEXDc DEAD-like hel 98.0 1.7E-05 3.7E-10 85.3 9.3 70 255-330 7-78 (201)
47 COG3972 Superfamily I DNA and 98.0 2.5E-05 5.3E-10 95.5 11.4 70 255-332 161-232 (660)
48 PF05970 PIF1: PIF1-like helic 98.0 1.2E-05 2.6E-10 98.5 7.3 66 256-322 1-66 (364)
49 KOG1804 RNA helicase [RNA proc 97.9 3.3E-06 7.2E-11 109.6 2.4 290 565-865 239-548 (775)
50 PF04851 ResIII: Type III rest 97.9 1.8E-05 3.9E-10 85.4 7.7 72 255-329 2-73 (184)
51 cd00046 DEXDc DEAD-like helica 97.7 6.9E-05 1.5E-09 75.8 7.4 51 280-330 2-54 (144)
52 PF13538 UvrD_C_2: UvrD-like h 97.6 1.5E-05 3.3E-10 79.6 0.5 50 781-834 55-104 (104)
53 PF00270 DEAD: DEAD/DEAH box h 97.6 0.00026 5.6E-09 76.0 9.8 67 258-331 1-69 (169)
54 cd00009 AAA The AAA+ (ATPases 97.2 0.0012 2.6E-08 67.6 8.1 60 258-321 3-62 (151)
55 cd00268 DEADc DEAD-box helicas 97.1 0.0021 4.6E-08 71.6 9.5 67 256-329 21-92 (203)
56 PRK10917 ATP-dependent DNA hel 97.0 0.0018 3.9E-08 85.7 10.1 79 253-332 258-336 (681)
57 PRK07952 DNA replication prote 97.0 0.0014 3E-08 76.6 7.9 66 258-328 78-144 (244)
58 TIGR00643 recG ATP-dependent D 97.0 0.002 4.4E-08 84.6 10.0 79 252-331 231-309 (630)
59 PHA02558 uvsW UvsW helicase; P 96.9 0.0025 5.5E-08 81.6 9.5 69 254-329 112-181 (501)
60 PRK08181 transposase; Validate 96.8 0.0037 8E-08 74.0 9.4 67 254-328 85-151 (269)
61 PRK05580 primosome assembly pr 96.8 0.0036 7.7E-08 82.9 10.0 72 254-329 142-213 (679)
62 cd01124 KaiC KaiC is a circadi 96.8 0.0019 4.1E-08 70.9 6.2 49 280-329 1-49 (187)
63 smart00382 AAA ATPases associa 96.8 0.0011 2.3E-08 67.0 3.7 41 278-318 2-42 (148)
64 PRK12377 putative replication 96.8 0.0018 4E-08 75.7 6.0 56 258-313 80-136 (248)
65 PRK08116 hypothetical protein; 96.8 0.0045 9.7E-08 73.3 9.3 61 253-313 85-149 (268)
66 PF07652 Flavi_DEAD: Flaviviru 96.7 0.0027 5.8E-08 68.5 6.0 52 277-328 3-55 (148)
67 KOG0989 Replication factor C, 96.7 0.0018 3.9E-08 76.6 4.9 50 260-310 40-92 (346)
68 TIGR00604 rad3 DNA repair heli 96.6 0.0051 1.1E-07 82.0 9.5 101 258-367 12-116 (705)
69 PTZ00424 helicase 45; Provisio 96.6 0.0061 1.3E-07 75.2 9.1 67 256-329 50-119 (401)
70 PRK06526 transposase; Provisio 96.6 0.0048 1E-07 72.6 7.6 57 253-313 77-133 (254)
71 PF13191 AAA_16: AAA ATPase do 96.5 0.0058 1.3E-07 66.6 7.3 51 259-310 6-56 (185)
72 TIGR01970 DEAH_box_HrpB ATP-de 96.5 0.0059 1.3E-07 82.1 8.7 65 260-330 5-69 (819)
73 TIGR00580 mfd transcription-re 96.5 0.008 1.7E-07 81.8 10.0 77 254-331 449-525 (926)
74 PF00448 SRP54: SRP54-type pro 96.5 0.0045 9.7E-08 70.1 6.3 44 279-322 2-48 (196)
75 PRK11664 ATP-dependent RNA hel 96.4 0.0063 1.4E-07 81.9 8.0 65 260-330 8-72 (812)
76 PRK09183 transposase/IS protei 96.3 0.0074 1.6E-07 71.1 7.3 58 252-313 80-137 (259)
77 COG1484 DnaC DNA replication p 96.3 0.0055 1.2E-07 72.1 6.2 56 258-314 85-141 (254)
78 PF00004 AAA: ATPase family as 96.3 0.0058 1.3E-07 62.8 5.7 48 281-331 1-51 (132)
79 PRK01172 ski2-like helicase; P 96.3 0.011 2.4E-07 78.4 9.5 69 254-329 20-88 (674)
80 PF06745 KaiC: KaiC; InterPro 96.2 0.0067 1.4E-07 69.4 6.2 52 277-329 18-70 (226)
81 PRK10689 transcription-repair 96.2 0.014 2.9E-07 81.2 10.0 77 253-330 597-673 (1147)
82 PRK06893 DNA replication initi 96.2 0.0055 1.2E-07 70.7 5.4 39 277-315 38-76 (229)
83 PRK11776 ATP-dependent RNA hel 96.2 0.014 3E-07 74.0 9.3 68 256-330 26-96 (460)
84 PRK08084 DNA replication initi 96.2 0.0098 2.1E-07 69.0 7.4 56 257-316 28-83 (235)
85 TIGR02928 orc1/cdc6 family rep 96.2 0.0057 1.2E-07 74.6 5.6 50 255-304 17-66 (365)
86 PF13401 AAA_22: AAA domain; P 96.2 0.0047 1E-07 63.8 4.0 55 277-331 3-63 (131)
87 TIGR03878 thermo_KaiC_2 KaiC d 96.1 0.0087 1.9E-07 70.5 6.7 51 277-328 35-85 (259)
88 PRK11192 ATP-dependent RNA hel 96.1 0.017 3.6E-07 72.5 9.4 68 256-330 23-97 (434)
89 COG1875 NYN ribonuclease and A 96.1 0.041 8.8E-07 66.8 11.8 38 591-628 352-390 (436)
90 PF01695 IstB_IS21: IstB-like 96.1 0.0077 1.7E-07 67.2 5.4 46 277-327 46-91 (178)
91 COG1061 SSL2 DNA or RNA helica 96.1 0.015 3.3E-07 73.5 8.6 72 252-329 32-103 (442)
92 cd01129 PulE-GspE PulE/GspE Th 96.0 0.011 2.3E-07 70.0 6.7 54 255-313 62-115 (264)
93 PRK14974 cell division protein 96.0 0.013 2.9E-07 71.5 7.6 46 278-323 140-188 (336)
94 PF13481 AAA_25: AAA domain; P 96.0 0.013 2.8E-07 64.9 7.0 52 278-330 32-93 (193)
95 TIGR01054 rgy reverse gyrase. 96.0 0.019 4.1E-07 80.0 9.8 70 255-331 77-146 (1171)
96 cd01120 RecA-like_NTPases RecA 96.0 0.0079 1.7E-07 63.5 4.8 40 280-319 1-40 (165)
97 TIGR03877 thermo_KaiC_1 KaiC d 95.9 0.011 2.5E-07 68.4 6.1 52 277-329 20-71 (237)
98 PRK11448 hsdR type I restricti 95.8 0.02 4.4E-07 79.4 9.0 73 255-329 412-486 (1123)
99 PRK06851 hypothetical protein; 95.8 0.0079 1.7E-07 74.0 4.4 46 278-323 30-77 (367)
100 PRK09401 reverse gyrase; Revie 95.8 0.025 5.5E-07 78.9 9.8 70 255-331 79-148 (1176)
101 PRK05973 replicative DNA helic 95.8 0.014 3.1E-07 68.0 6.3 52 277-329 63-114 (237)
102 PRK08727 hypothetical protein; 95.8 0.073 1.6E-06 61.8 12.1 37 278-314 41-77 (233)
103 COG4096 HsdR Type I site-speci 95.8 0.014 3E-07 76.5 6.6 76 254-331 163-240 (875)
104 PRK08533 flagellar accessory p 95.8 0.016 3.6E-07 67.1 6.6 51 277-328 23-73 (230)
105 PRK00411 cdc6 cell division co 95.7 0.017 3.6E-07 71.4 7.0 49 258-306 35-83 (394)
106 KOG0744 AAA+-type ATPase [Post 95.7 0.0065 1.4E-07 72.2 3.1 26 278-303 177-202 (423)
107 TIGR00064 ftsY signal recognit 95.7 0.022 4.8E-07 67.7 7.5 36 278-313 72-107 (272)
108 PRK04296 thymidine kinase; Pro 95.7 0.012 2.7E-07 66.0 5.0 37 278-314 2-38 (190)
109 TIGR02533 type_II_gspE general 95.7 0.015 3.2E-07 74.4 6.2 55 253-312 222-276 (486)
110 PRK02362 ski2-like helicase; P 95.7 0.029 6.2E-07 75.3 9.1 68 256-329 23-90 (737)
111 PRK00254 ski2-like helicase; P 95.6 0.03 6.5E-07 75.0 9.2 68 256-329 23-91 (720)
112 cd03115 SRP The signal recogni 95.6 0.014 3.1E-07 63.9 5.2 34 280-313 2-35 (173)
113 cd01122 GP4d_helicase GP4d_hel 95.6 0.02 4.4E-07 67.1 6.7 52 277-329 29-81 (271)
114 PRK06835 DNA replication prote 95.6 0.014 2.9E-07 71.2 5.3 37 278-314 183-219 (329)
115 PRK08939 primosomal protein Dn 95.6 0.017 3.6E-07 69.8 6.0 36 279-314 157-192 (306)
116 COG2256 MGS1 ATPase related to 95.6 0.03 6.4E-07 68.8 7.8 48 279-329 49-96 (436)
117 PRK08903 DnaA regulatory inact 95.5 0.028 6E-07 64.4 7.3 56 257-315 24-79 (227)
118 PRK11634 ATP-dependent RNA hel 95.5 0.036 7.7E-07 73.1 9.2 68 256-330 28-98 (629)
119 TIGR03880 KaiC_arch_3 KaiC dom 95.5 0.024 5.1E-07 64.9 6.5 52 277-329 15-66 (224)
120 cd00984 DnaB_C DnaB helicase C 95.5 0.025 5.5E-07 65.1 6.6 51 277-328 12-63 (242)
121 PRK09361 radB DNA repair and r 95.5 0.018 3.8E-07 65.9 5.3 39 277-315 22-60 (225)
122 PRK10436 hypothetical protein; 95.4 0.022 4.7E-07 72.4 6.5 53 254-311 199-251 (462)
123 KOG0991 Replication factor C, 95.4 0.027 5.8E-07 64.6 6.4 76 277-359 47-125 (333)
124 PRK06067 flagellar accessory p 95.4 0.026 5.7E-07 65.1 6.5 51 277-328 24-74 (234)
125 PRK13833 conjugal transfer pro 95.4 0.027 5.8E-07 68.5 6.8 51 255-311 127-179 (323)
126 TIGR03420 DnaA_homol_Hda DnaA 95.4 0.033 7.2E-07 63.3 7.2 57 257-317 21-77 (226)
127 PLN03025 replication factor C 95.4 0.021 4.6E-07 69.0 6.0 67 258-328 18-87 (319)
128 TIGR01650 PD_CobS cobaltochela 95.4 0.023 4.9E-07 69.0 6.1 45 252-302 44-88 (327)
129 KOG2028 ATPase related to the 95.4 0.02 4.2E-07 69.0 5.4 51 279-329 163-213 (554)
130 PRK04837 ATP-dependent RNA hel 95.4 0.049 1.1E-06 68.3 9.3 68 256-330 30-107 (423)
131 PRK06921 hypothetical protein; 95.4 0.018 3.9E-07 68.2 5.1 37 278-314 117-154 (266)
132 COG0467 RAD55 RecA-superfamily 95.3 0.02 4.3E-07 67.1 5.3 43 277-319 22-64 (260)
133 PRK10590 ATP-dependent RNA hel 95.3 0.051 1.1E-06 69.0 9.2 68 256-330 23-99 (456)
134 PRK05642 DNA replication initi 95.3 0.022 4.9E-07 66.1 5.4 36 279-314 46-81 (234)
135 PRK10416 signal recognition pa 95.3 0.021 4.6E-07 69.3 5.4 37 277-313 113-149 (318)
136 cd01394 radB RadB. The archaea 95.2 0.023 4.9E-07 64.7 5.2 37 277-313 18-54 (218)
137 PRK00771 signal recognition pa 95.2 0.023 5E-07 71.7 5.5 37 277-313 94-130 (437)
138 TIGR02237 recomb_radB DNA repa 95.2 0.025 5.4E-07 63.8 5.3 40 277-316 11-50 (209)
139 TIGR00603 rad25 DNA repair hel 95.2 0.062 1.3E-06 71.4 9.5 69 254-329 253-321 (732)
140 PRK14963 DNA polymerase III su 95.1 0.08 1.7E-06 68.1 10.3 27 278-304 36-62 (504)
141 PF07728 AAA_5: AAA domain (dy 95.1 0.023 5.1E-07 59.8 4.6 22 281-302 2-23 (139)
142 smart00488 DEXDc2 DEAD-like he 95.1 0.068 1.5E-06 64.1 9.0 72 255-329 7-84 (289)
143 smart00489 DEXDc3 DEAD-like he 95.1 0.068 1.5E-06 64.1 9.0 72 255-329 7-84 (289)
144 PRK14701 reverse gyrase; Provi 95.1 0.054 1.2E-06 77.6 9.3 70 255-331 78-147 (1638)
145 PRK10867 signal recognition pa 95.1 0.025 5.4E-07 71.3 5.4 39 278-316 100-140 (433)
146 PRK13894 conjugal transfer ATP 95.1 0.037 8.1E-07 67.3 6.7 55 256-316 132-188 (319)
147 TIGR01425 SRP54_euk signal rec 95.0 0.027 5.8E-07 70.7 5.5 44 278-321 100-146 (429)
148 PRK04328 hypothetical protein; 95.0 0.037 8E-07 64.9 6.4 52 277-329 22-73 (249)
149 TIGR03881 KaiC_arch_4 KaiC dom 95.0 0.038 8.1E-07 63.4 6.3 49 277-326 19-67 (229)
150 TIGR02782 TrbB_P P-type conjug 95.0 0.042 9E-07 66.3 6.9 53 256-314 116-170 (299)
151 TIGR00362 DnaA chromosomal rep 95.0 0.039 8.3E-07 69.0 6.7 57 258-314 115-174 (405)
152 TIGR03015 pepcterm_ATPase puta 95.0 0.04 8.7E-07 64.3 6.4 45 257-303 24-68 (269)
153 PF05496 RuvB_N: Holliday junc 95.0 0.015 3.3E-07 67.0 2.8 25 279-304 51-75 (233)
154 cd01131 PilT Pilus retraction 94.9 0.029 6.3E-07 63.4 5.0 35 279-313 2-37 (198)
155 TIGR03499 FlhF flagellar biosy 94.9 0.043 9.4E-07 65.5 6.7 38 277-314 193-232 (282)
156 TIGR02881 spore_V_K stage V sp 94.9 0.023 5E-07 66.8 4.3 27 279-305 43-69 (261)
157 TIGR00348 hsdR type I site-spe 94.9 0.056 1.2E-06 71.8 8.3 73 257-329 239-316 (667)
158 PRK00149 dnaA chromosomal repl 94.9 0.048 1E-06 69.2 7.4 57 258-314 127-186 (450)
159 TIGR01587 cas3_core CRISPR-ass 94.9 0.043 9.4E-07 66.9 6.8 50 281-330 2-53 (358)
160 TIGR02538 type_IV_pilB type IV 94.9 0.038 8.2E-07 72.0 6.5 54 253-311 296-349 (564)
161 PRK14962 DNA polymerase III su 94.9 0.027 5.8E-07 71.8 5.0 26 279-304 37-62 (472)
162 PRK14088 dnaA chromosomal repl 94.9 0.044 9.4E-07 69.4 6.7 61 254-314 106-168 (440)
163 TIGR02655 circ_KaiC circadian 94.8 0.035 7.5E-07 71.1 5.9 52 277-329 262-313 (484)
164 TIGR03158 cas3_cyano CRISPR-as 94.8 0.085 1.8E-06 65.0 8.8 63 261-331 2-64 (357)
165 PRK04537 ATP-dependent RNA hel 94.8 0.087 1.9E-06 68.9 9.3 68 256-330 31-108 (572)
166 TIGR02640 gas_vesic_GvpN gas v 94.7 0.059 1.3E-06 63.6 7.0 47 258-310 4-50 (262)
167 PRK04195 replication factor C 94.7 0.065 1.4E-06 68.6 7.9 57 256-315 17-73 (482)
168 PHA02653 RNA helicase NPH-II; 94.7 0.077 1.7E-06 70.3 8.7 53 278-330 179-246 (675)
169 PF05673 DUF815: Protein of un 94.7 0.056 1.2E-06 63.2 6.4 68 260-327 34-102 (249)
170 PHA02544 44 clamp loader, smal 94.7 0.06 1.3E-06 64.6 7.0 67 256-328 24-90 (316)
171 TIGR01074 rep ATP-dependent DN 94.6 0.012 2.7E-07 77.7 1.2 67 256-331 1-71 (664)
172 PF13173 AAA_14: AAA domain 94.6 0.071 1.5E-06 55.9 6.6 45 278-323 2-46 (128)
173 COG0552 FtsY Signal recognitio 94.6 0.04 8.6E-07 66.6 5.1 47 276-322 137-186 (340)
174 TIGR00595 priA primosomal prot 94.6 0.046 9.9E-07 70.4 6.0 48 282-329 1-48 (505)
175 PRK12422 chromosomal replicati 94.6 0.054 1.2E-06 68.7 6.5 37 279-315 142-178 (445)
176 PRK12323 DNA polymerase III su 94.6 0.088 1.9E-06 68.8 8.4 29 276-304 36-64 (700)
177 PRK14964 DNA polymerase III su 94.5 0.1 2.2E-06 66.8 9.0 49 278-326 35-105 (491)
178 PRK14961 DNA polymerase III su 94.5 0.038 8.2E-07 68.2 5.0 43 261-303 21-63 (363)
179 PRK12402 replication factor C 94.5 0.046 1E-06 65.8 5.7 44 258-305 20-63 (337)
180 PF13207 AAA_17: AAA domain; P 94.5 0.031 6.7E-07 57.2 3.6 23 280-302 1-23 (121)
181 cd01983 Fer4_NifH The Fer4_Nif 94.5 0.053 1.1E-06 52.2 5.0 33 281-313 2-34 (99)
182 TIGR02880 cbbX_cfxQ probable R 94.5 0.031 6.7E-07 66.8 4.0 27 280-306 60-86 (284)
183 KOG0743 AAA+-type ATPase [Post 94.5 0.02 4.3E-07 71.2 2.3 51 252-302 200-259 (457)
184 TIGR02012 tigrfam_recA protein 94.5 0.064 1.4E-06 65.2 6.6 41 277-317 54-94 (321)
185 COG2804 PulE Type II secretory 94.5 0.065 1.4E-06 67.8 6.8 53 254-311 239-291 (500)
186 PRK14722 flhF flagellar biosyn 94.5 0.046 9.9E-07 67.7 5.4 38 276-313 135-174 (374)
187 PRK09694 helicase Cas3; Provis 94.5 0.11 2.3E-06 70.7 9.3 72 254-332 284-357 (878)
188 PRK13342 recombination factor 94.4 0.084 1.8E-06 66.3 7.7 46 278-326 36-81 (413)
189 PF00308 Bac_DnaA: Bacterial d 94.4 0.07 1.5E-06 61.5 6.5 35 279-313 35-71 (219)
190 TIGR01967 DEAH_box_HrpA ATP-de 94.4 0.068 1.5E-06 74.6 7.4 65 261-331 71-136 (1283)
191 TIGR00959 ffh signal recogniti 94.4 0.046 1E-06 68.8 5.3 39 278-316 99-139 (428)
192 PRK13768 GTPase; Provisional 94.4 0.046 1E-06 64.3 5.0 35 279-313 3-37 (253)
193 PRK13767 ATP-dependent helicas 94.3 0.11 2.5E-06 71.0 9.3 68 256-330 32-108 (876)
194 PRK11889 flhF flagellar biosyn 94.3 0.069 1.5E-06 66.3 6.5 46 278-323 241-289 (436)
195 PTZ00112 origin recognition co 94.3 0.055 1.2E-06 71.9 5.9 48 257-304 759-807 (1164)
196 PRK14956 DNA polymerase III su 94.3 0.064 1.4E-06 68.2 6.2 26 279-304 41-66 (484)
197 PF05729 NACHT: NACHT domain 94.2 0.045 9.7E-07 58.3 4.1 27 280-306 2-28 (166)
198 cd01130 VirB11-like_ATPase Typ 94.2 0.07 1.5E-06 59.7 5.7 50 256-312 9-58 (186)
199 PRK11823 DNA repair protein Ra 94.2 0.071 1.5E-06 67.7 6.4 51 277-328 79-129 (446)
200 PRK14969 DNA polymerase III su 94.1 0.16 3.5E-06 65.8 9.4 27 278-304 38-64 (527)
201 COG2805 PilT Tfp pilus assembl 94.1 0.055 1.2E-06 64.4 4.7 36 276-311 123-159 (353)
202 PF13671 AAA_33: AAA domain; P 94.0 0.036 7.7E-07 58.3 2.9 22 280-301 1-22 (143)
203 COG1474 CDC6 Cdc6-related prot 94.0 0.069 1.5E-06 66.1 5.7 75 255-329 19-96 (366)
204 TIGR00635 ruvB Holliday juncti 94.0 0.073 1.6E-06 63.6 5.8 25 278-302 30-54 (305)
205 cd00983 recA RecA is a bacter 94.0 0.09 2E-06 64.1 6.5 41 277-317 54-94 (325)
206 cd01121 Sms Sms (bacterial rad 94.0 0.086 1.9E-06 65.4 6.5 51 277-328 81-131 (372)
207 PF00437 T2SE: Type II/IV secr 94.0 0.066 1.4E-06 63.1 5.3 50 259-314 114-163 (270)
208 TIGR02655 circ_KaiC circadian 94.0 0.074 1.6E-06 68.2 6.0 52 277-329 20-72 (484)
209 PRK00080 ruvB Holliday junctio 93.9 0.067 1.5E-06 65.0 5.3 46 257-302 29-75 (328)
210 PRK14958 DNA polymerase III su 93.9 0.16 3.6E-06 65.4 9.0 39 263-304 26-64 (509)
211 PRK05703 flhF flagellar biosyn 93.9 0.065 1.4E-06 67.6 5.3 38 278-315 221-261 (424)
212 CHL00181 cbbX CbbX; Provisiona 93.9 0.056 1.2E-06 64.8 4.4 36 279-314 60-99 (287)
213 PRK14960 DNA polymerase III su 93.8 0.15 3.3E-06 66.8 8.5 27 278-304 37-63 (702)
214 TIGR00750 lao LAO/AO transport 93.8 0.075 1.6E-06 64.0 5.5 37 277-313 33-69 (300)
215 PRK01297 ATP-dependent RNA hel 93.8 0.19 4E-06 64.2 9.2 68 256-330 109-186 (475)
216 TIGR02525 plasmid_TraJ plasmid 93.8 0.11 2.5E-06 64.3 7.1 35 278-312 149-185 (372)
217 TIGR01420 pilT_fam pilus retra 93.8 0.056 1.2E-06 66.3 4.3 37 277-313 121-158 (343)
218 PRK06851 hypothetical protein; 93.8 0.068 1.5E-06 66.0 5.1 45 278-322 214-260 (367)
219 TIGR01242 26Sp45 26S proteasom 93.8 0.074 1.6E-06 65.6 5.4 24 279-302 157-180 (364)
220 PRK12724 flagellar biosynthesi 93.8 0.074 1.6E-06 66.6 5.3 36 278-313 223-259 (432)
221 PRK00440 rfc replication facto 93.8 0.091 2E-06 62.7 5.9 45 258-306 22-66 (319)
222 COG1198 PriA Primosomal protei 93.8 0.16 3.5E-06 67.5 8.6 75 254-331 196-270 (730)
223 PRK12726 flagellar biosynthesi 93.6 0.085 1.8E-06 65.3 5.5 46 277-322 205-253 (407)
224 PRK06645 DNA polymerase III su 93.6 0.07 1.5E-06 68.6 5.0 44 261-304 26-69 (507)
225 KOG0651 26S proteasome regulat 93.6 0.051 1.1E-06 64.8 3.4 25 277-301 165-189 (388)
226 TIGR00150 HI0065_YjeE ATPase, 93.6 0.12 2.6E-06 55.5 5.8 53 258-315 4-56 (133)
227 PRK00889 adenylylsulfate kinas 93.6 0.1 2.2E-06 57.4 5.6 37 276-312 2-38 (175)
228 cd01125 repA Hexameric Replica 93.6 0.12 2.7E-06 59.9 6.5 52 279-331 2-65 (239)
229 PRK13531 regulatory ATPase Rav 93.6 0.064 1.4E-06 68.1 4.4 41 261-304 25-65 (498)
230 smart00763 AAA_PrkA PrkA AAA d 93.6 0.097 2.1E-06 64.4 5.7 50 254-303 53-103 (361)
231 PRK14957 DNA polymerase III su 93.5 0.073 1.6E-06 68.9 4.9 44 261-304 21-64 (546)
232 PF06309 Torsin: Torsin; Inte 93.5 0.25 5.4E-06 52.6 7.9 57 277-333 52-116 (127)
233 KOG2108 3'-5' DNA helicase [Re 93.5 0.037 7.9E-07 72.9 2.1 69 256-333 13-85 (853)
234 PHA00729 NTP-binding motif con 93.5 0.058 1.2E-06 62.6 3.5 24 280-303 19-42 (226)
235 PLN00206 DEAD-box ATP-dependen 93.5 0.22 4.8E-06 64.4 9.1 68 255-329 142-219 (518)
236 COG1643 HrpA HrpA-like helicas 93.5 0.21 4.5E-06 67.4 9.0 83 260-357 53-136 (845)
237 PTZ00110 helicase; Provisional 93.5 0.22 4.8E-06 64.8 9.1 67 256-329 152-226 (545)
238 PRK07133 DNA polymerase III su 93.5 0.23 5.1E-06 66.0 9.3 41 262-305 27-67 (725)
239 TIGR00614 recQ_fam ATP-depende 93.4 0.19 4.2E-06 64.1 8.5 64 255-328 10-73 (470)
240 PRK05896 DNA polymerase III su 93.4 0.11 2.3E-06 67.9 6.1 28 278-305 38-65 (605)
241 PRK03992 proteasome-activating 93.4 0.092 2E-06 65.5 5.4 25 278-302 165-189 (389)
242 PRK12723 flagellar biosynthesi 93.4 0.14 3.1E-06 63.8 7.0 45 277-321 173-224 (388)
243 PRK09302 circadian clock prote 93.4 0.12 2.6E-06 66.6 6.5 51 277-328 272-322 (509)
244 PF00910 RNA_helicase: RNA hel 93.4 0.069 1.5E-06 54.6 3.5 23 282-304 2-24 (107)
245 cd00544 CobU Adenosylcobinamid 93.4 0.11 2.3E-06 57.9 5.3 49 280-331 1-49 (169)
246 PRK14952 DNA polymerase III su 93.4 0.25 5.3E-06 64.7 9.3 27 278-304 35-61 (584)
247 PF13238 AAA_18: AAA domain; P 93.4 0.062 1.3E-06 55.0 3.2 21 282-302 2-22 (129)
248 PF02492 cobW: CobW/HypB/UreG, 93.4 0.092 2E-06 58.4 4.7 41 279-320 1-43 (178)
249 cd01393 recA_like RecA is a b 93.4 0.1 2.2E-06 59.4 5.3 40 277-316 18-63 (226)
250 PF13177 DNA_pol3_delta2: DNA 93.3 0.35 7.6E-06 53.2 9.1 45 261-305 2-46 (162)
251 PRK14087 dnaA chromosomal repl 93.3 0.2 4.3E-06 63.8 8.2 36 279-314 142-179 (450)
252 PF03308 ArgK: ArgK protein; 93.3 0.08 1.7E-06 62.3 4.2 37 277-313 28-64 (266)
253 PRK14970 DNA polymerase III su 93.2 0.094 2E-06 64.6 4.9 44 258-304 22-65 (367)
254 PRK07994 DNA polymerase III su 93.1 0.26 5.6E-06 65.0 9.0 27 279-305 39-65 (647)
255 PF03266 NTPase_1: NTPase; In 93.1 0.082 1.8E-06 58.7 3.9 29 281-309 2-30 (168)
256 TIGR00416 sms DNA repair prote 93.1 0.14 3E-06 65.2 6.4 51 277-328 93-143 (454)
257 PRK06620 hypothetical protein; 93.1 0.091 2E-06 60.4 4.3 44 255-298 18-64 (214)
258 TIGR02397 dnaX_nterm DNA polym 93.1 0.095 2.1E-06 63.7 4.7 44 258-304 19-62 (355)
259 COG1110 Reverse gyrase [DNA re 93.1 0.31 6.7E-06 65.5 9.4 71 255-332 81-151 (1187)
260 PRK05541 adenylylsulfate kinas 93.0 0.15 3.3E-06 56.1 5.9 37 276-312 5-41 (176)
261 cd03114 ArgK-like The function 93.0 0.12 2.5E-06 56.2 4.8 33 281-313 2-34 (148)
262 PRK07003 DNA polymerase III su 93.0 0.3 6.5E-06 64.9 9.2 27 278-304 38-64 (830)
263 PRK09354 recA recombinase A; P 93.0 0.16 3.5E-06 62.4 6.4 42 277-318 59-100 (349)
264 PF07726 AAA_3: ATPase family 93.0 0.044 9.5E-07 58.4 1.4 22 281-302 2-23 (131)
265 PRK11331 5-methylcytosine-spec 93.0 0.12 2.6E-06 65.2 5.5 43 255-303 177-219 (459)
266 PRK14951 DNA polymerase III su 93.0 0.24 5.2E-06 65.2 8.3 28 277-304 37-64 (618)
267 PRK14965 DNA polymerase III su 93.0 0.3 6.4E-06 64.1 9.2 42 260-304 23-64 (576)
268 PF03215 Rad17: Rad17 cell cyc 92.9 0.13 2.8E-06 66.4 5.7 46 257-302 23-69 (519)
269 TIGR01407 dinG_rel DnaQ family 92.9 0.31 6.6E-06 66.8 9.6 73 253-331 242-317 (850)
270 PF03205 MobB: Molybdopterin g 92.9 0.14 3E-06 55.3 5.0 38 279-316 1-38 (140)
271 COG4098 comFA Superfamily II D 92.9 0.24 5.2E-06 59.8 7.3 73 256-331 97-169 (441)
272 PRK13341 recombination factor 92.8 0.17 3.6E-06 67.8 6.8 25 278-302 52-76 (725)
273 cd02019 NK Nucleoside/nucleoti 92.8 0.15 3.2E-06 48.3 4.6 30 281-312 2-31 (69)
274 PRK14955 DNA polymerase III su 92.8 0.11 2.5E-06 64.8 4.9 27 278-304 38-64 (397)
275 KOG2108 3'-5' DNA helicase [Re 92.7 0.1 2.2E-06 68.8 4.5 54 781-834 674-740 (853)
276 TIGR02524 dot_icm_DotB Dot/Icm 92.7 0.16 3.5E-06 62.8 6.1 35 277-311 133-170 (358)
277 PRK09435 membrane ATPase/prote 92.7 0.14 3E-06 62.7 5.4 37 277-313 55-91 (332)
278 COG0714 MoxR-like ATPases [Gen 92.7 0.14 2.9E-06 62.5 5.3 60 258-324 29-88 (329)
279 PRK11057 ATP-dependent DNA hel 92.6 0.28 6E-06 64.7 8.3 63 256-328 25-87 (607)
280 PLN00020 ribulose bisphosphate 92.5 0.094 2E-06 64.5 3.6 33 277-312 147-179 (413)
281 TIGR00176 mobB molybdopterin-g 92.5 0.16 3.5E-06 55.6 5.0 35 281-315 2-36 (155)
282 PF01443 Viral_helicase1: Vira 92.4 0.073 1.6E-06 60.7 2.4 21 282-302 2-22 (234)
283 PRK08451 DNA polymerase III su 92.4 0.46 1E-05 61.6 9.7 28 277-304 35-62 (535)
284 PRK09111 DNA polymerase III su 92.4 0.33 7.1E-06 63.8 8.5 45 258-305 29-73 (598)
285 PRK09302 circadian clock prote 92.4 0.2 4.3E-06 64.7 6.4 52 277-329 30-82 (509)
286 PF05970 PIF1: PIF1-like helic 92.3 0.065 1.4E-06 66.2 1.9 75 589-669 101-193 (364)
287 PRK06696 uridine kinase; Valid 92.3 0.24 5.1E-06 57.1 6.3 38 276-313 20-57 (223)
288 PF00931 NB-ARC: NB-ARC domain 92.2 0.21 4.5E-06 58.7 5.9 70 259-330 2-74 (287)
289 TIGR03754 conj_TOL_TraD conjug 92.2 23 0.00049 47.5 24.5 53 278-332 180-232 (643)
290 PRK08691 DNA polymerase III su 92.2 0.49 1.1E-05 62.7 9.6 28 278-305 38-65 (709)
291 PF01078 Mg_chelatase: Magnesi 92.2 0.18 3.8E-06 57.9 4.9 33 259-297 9-41 (206)
292 PRK13766 Hef nuclease; Provisi 92.1 0.48 1E-05 64.1 9.8 67 255-329 14-81 (773)
293 COG0470 HolB ATPase involved i 92.1 0.19 4.2E-06 60.0 5.5 42 278-319 24-86 (325)
294 PRK05800 cobU adenosylcobinami 92.0 0.19 4.1E-06 55.9 4.9 50 280-332 3-52 (170)
295 PRK13764 ATPase; Provisional 92.0 0.17 3.6E-06 66.2 5.1 34 278-311 257-290 (602)
296 TIGR03689 pup_AAA proteasome A 91.9 0.11 2.5E-06 66.6 3.5 26 278-303 216-241 (512)
297 PRK07667 uridine kinase; Provi 91.9 0.23 5E-06 56.0 5.5 39 278-316 17-55 (193)
298 PF12846 AAA_10: AAA-like doma 91.9 0.22 4.8E-06 58.4 5.5 42 279-320 2-43 (304)
299 PRK10865 protein disaggregatio 91.9 0.24 5.1E-06 67.8 6.5 35 279-313 599-633 (857)
300 PHA02244 ATPase-like protein 91.9 0.18 4E-06 62.2 5.0 24 278-301 119-142 (383)
301 TIGR01360 aden_kin_iso1 adenyl 91.8 0.15 3.3E-06 56.0 3.9 25 278-302 3-27 (188)
302 COG1199 DinG Rad3-related DNA 91.8 0.49 1.1E-05 62.8 9.2 136 727-883 461-601 (654)
303 PRK05563 DNA polymerase III su 91.7 0.55 1.2E-05 61.4 9.4 28 277-304 37-64 (559)
304 PRK14949 DNA polymerase III su 91.7 0.16 3.4E-06 68.5 4.4 28 278-305 38-65 (944)
305 TIGR03600 phage_DnaB phage rep 91.6 0.3 6.5E-06 61.5 6.7 52 277-329 193-245 (421)
306 PTZ00361 26 proteosome regulat 91.6 0.14 3.1E-06 64.7 3.8 25 278-302 217-241 (438)
307 TIGR01359 UMP_CMP_kin_fam UMP- 91.6 0.13 2.9E-06 56.6 3.2 23 280-302 1-23 (183)
308 PTZ00454 26S protease regulato 91.6 0.14 3E-06 64.2 3.6 24 278-301 179-202 (398)
309 PF13555 AAA_29: P-loop contai 91.6 0.21 4.5E-06 47.0 3.9 28 279-306 24-51 (62)
310 PRK11131 ATP-dependent RNA hel 91.6 0.38 8.1E-06 67.5 8.0 66 261-332 78-144 (1294)
311 PRK08058 DNA polymerase III su 91.5 0.49 1.1E-05 57.9 8.2 45 261-305 11-55 (329)
312 PRK08233 hypothetical protein; 91.5 0.14 3E-06 56.1 3.2 25 278-302 3-27 (182)
313 PF05127 Helicase_RecD: Helica 91.5 0.052 1.1E-06 60.8 -0.2 48 282-329 1-49 (177)
314 cd01123 Rad51_DMC1_radA Rad51_ 91.5 0.18 3.9E-06 57.8 4.2 40 277-316 18-63 (235)
315 PRK14086 dnaA chromosomal repl 91.4 0.71 1.5E-05 60.6 9.7 36 279-314 315-352 (617)
316 PF03029 ATP_bind_1: Conserved 91.4 0.15 3.2E-06 59.7 3.4 30 283-312 1-30 (238)
317 TIGR03817 DECH_helic helicase/ 91.4 0.57 1.2E-05 63.3 9.2 67 256-329 36-104 (742)
318 PRK06762 hypothetical protein; 91.4 0.34 7.3E-06 52.8 5.9 33 278-313 2-34 (166)
319 TIGR03117 cas_csf4 CRISPR-asso 91.3 0.59 1.3E-05 61.8 9.0 54 277-330 15-70 (636)
320 PRK13900 type IV secretion sys 91.3 0.27 5.9E-06 60.3 5.7 45 261-312 149-193 (332)
321 COG1618 Predicted nucleotide k 91.3 0.19 4.1E-06 55.4 3.8 29 281-309 8-36 (179)
322 TIGR00665 DnaB replicative DNA 91.3 0.35 7.6E-06 61.1 6.8 52 277-329 194-246 (434)
323 PHA02624 large T antigen; Prov 91.2 0.22 4.7E-06 64.7 4.9 26 277-302 430-455 (647)
324 PF04665 Pox_A32: Poxvirus A32 91.2 0.2 4.3E-06 58.8 4.1 35 280-314 15-49 (241)
325 PRK06995 flhF flagellar biosyn 91.1 0.26 5.7E-06 63.0 5.4 37 277-313 255-293 (484)
326 PF13476 AAA_23: AAA domain; P 91.0 0.18 4E-06 55.4 3.5 27 278-304 19-45 (202)
327 COG0556 UvrB Helicase subunit 91.0 0.41 9E-06 60.6 6.8 74 254-332 10-83 (663)
328 PRK13851 type IV secretion sys 91.0 0.3 6.4E-06 60.2 5.6 51 258-315 148-198 (344)
329 cd02034 CooC The accessory pro 91.0 0.3 6.4E-06 51.1 4.8 44 281-327 2-45 (116)
330 TIGR01241 FtsH_fam ATP-depende 91.0 0.15 3.2E-06 65.6 3.1 33 280-315 90-122 (495)
331 PRK04301 radA DNA repair and r 91.0 0.33 7.2E-06 58.9 5.9 38 277-314 101-144 (317)
332 KOG1533 Predicted GTPase [Gene 91.0 0.2 4.4E-06 57.9 3.7 37 281-317 5-43 (290)
333 PRK05298 excinuclease ABC subu 90.9 0.64 1.4E-05 61.9 9.0 76 251-331 7-82 (652)
334 COG5192 BMS1 GTP-binding prote 90.9 0.27 5.9E-06 61.8 5.0 25 280-304 71-95 (1077)
335 cd02028 UMPK_like Uridine mono 90.9 0.28 6.2E-06 54.8 4.9 33 280-312 1-33 (179)
336 PRK00131 aroK shikimate kinase 90.9 0.21 4.6E-06 54.0 3.8 25 278-302 4-28 (175)
337 TIGR00041 DTMP_kinase thymidyl 90.9 0.31 6.8E-06 54.3 5.2 35 279-313 4-38 (195)
338 COG1703 ArgK Putative periplas 90.9 0.43 9.3E-06 57.2 6.4 38 276-313 49-86 (323)
339 PF06068 TIP49: TIP49 C-termin 90.8 0.25 5.4E-06 60.8 4.6 50 261-313 32-82 (398)
340 TIGR02639 ClpA ATP-dependent C 90.8 0.48 1E-05 63.9 7.8 53 280-332 205-269 (731)
341 COG1222 RPT1 ATP-dependent 26S 90.7 0.18 3.8E-06 61.5 3.2 22 278-299 185-206 (406)
342 PF13521 AAA_28: AAA domain; P 90.7 0.15 3.2E-06 55.6 2.3 21 281-301 2-22 (163)
343 PRK14954 DNA polymerase III su 90.7 0.24 5.1E-06 65.3 4.6 27 278-304 38-64 (620)
344 PRK06305 DNA polymerase III su 90.7 0.25 5.4E-06 63.0 4.6 29 277-305 38-66 (451)
345 cd02021 GntK Gluconate kinase 90.7 0.18 3.9E-06 53.9 2.9 22 280-301 1-22 (150)
346 PRK05480 uridine/cytidine kina 90.6 0.33 7.1E-06 55.1 5.2 26 277-302 5-30 (209)
347 TIGR00764 lon_rel lon-related 90.6 0.34 7.4E-06 63.9 5.9 63 261-326 23-86 (608)
348 TIGR03574 selen_PSTK L-seryl-t 90.5 0.31 6.7E-06 57.0 4.9 33 280-312 1-33 (249)
349 PRK14953 DNA polymerase III su 90.5 0.29 6.4E-06 62.9 5.1 44 261-304 21-64 (486)
350 cd02117 NifH_like This family 90.5 0.35 7.5E-06 55.1 5.2 31 282-312 4-34 (212)
351 PRK09519 recA DNA recombinatio 90.5 0.39 8.4E-06 64.5 6.3 49 277-325 59-107 (790)
352 cd02023 UMPK Uridine monophosp 90.5 0.29 6.4E-06 54.9 4.5 32 280-313 1-32 (198)
353 cd02027 APSK Adenosine 5'-phos 90.5 0.35 7.6E-06 52.4 4.9 32 280-311 1-32 (149)
354 PRK14712 conjugal transfer nic 90.4 0.6 1.3E-05 66.8 8.3 64 255-323 280-344 (1623)
355 TIGR01389 recQ ATP-dependent D 90.4 0.76 1.6E-05 60.5 8.8 63 256-328 13-75 (591)
356 PRK14527 adenylate kinase; Pro 90.4 0.25 5.4E-06 55.3 3.9 26 277-302 5-30 (191)
357 PRK06647 DNA polymerase III su 90.4 0.26 5.6E-06 64.4 4.5 41 262-305 25-65 (563)
358 PRK13407 bchI magnesium chelat 90.3 0.29 6.3E-06 60.1 4.6 39 261-301 13-52 (334)
359 PRK12608 transcription termina 90.3 0.35 7.7E-06 59.9 5.3 51 278-328 133-187 (380)
360 cd00550 ArsA_ATPase Oxyanion-t 90.3 0.32 6.9E-06 57.3 4.8 34 280-313 2-35 (254)
361 CHL00195 ycf46 Ycf46; Provisio 90.3 0.19 4.1E-06 64.5 3.1 24 278-301 259-282 (489)
362 PRK05564 DNA polymerase III su 90.2 0.94 2E-05 54.9 8.9 43 260-305 11-53 (313)
363 PRK08506 replicative DNA helic 90.2 0.47 1E-05 60.9 6.5 53 276-329 190-242 (472)
364 PRK05748 replicative DNA helic 90.2 0.49 1.1E-05 60.2 6.7 52 277-329 202-254 (448)
365 cd02025 PanK Pantothenate kina 90.1 0.33 7.3E-06 56.1 4.7 35 281-315 2-38 (220)
366 PRK14493 putative bifunctional 90.1 0.36 7.8E-06 57.7 5.1 34 280-314 3-36 (274)
367 TIGR01313 therm_gnt_kin carboh 90.1 0.2 4.4E-06 54.3 2.8 21 282-302 2-22 (163)
368 PRK08074 bifunctional ATP-depe 90.1 0.81 1.8E-05 63.3 9.1 65 253-325 254-324 (928)
369 PRK07246 bifunctional ATP-depe 90.1 1 2.3E-05 61.4 10.0 69 253-329 242-314 (820)
370 COG1200 RecG RecG-like helicas 90.1 0.59 1.3E-05 61.2 7.2 80 252-332 258-337 (677)
371 PRK07764 DNA polymerase III su 90.1 0.8 1.7E-05 62.3 8.8 27 278-304 37-63 (824)
372 cd01672 TMPK Thymidine monopho 90.0 0.41 8.9E-06 52.8 5.2 34 280-313 2-35 (200)
373 CHL00176 ftsH cell division pr 90.0 0.31 6.6E-06 64.5 4.8 34 279-315 217-250 (638)
374 PRK13765 ATP-dependent proteas 90.0 0.35 7.6E-06 63.9 5.3 51 261-314 36-87 (637)
375 PRK08118 topology modulation p 90.0 0.23 5E-06 54.9 3.1 22 281-302 4-25 (167)
376 PRK00698 tmk thymidylate kinas 90.0 0.63 1.4E-05 52.1 6.7 39 278-316 3-42 (205)
377 TIGR00455 apsK adenylylsulfate 90.0 0.49 1.1E-05 52.6 5.7 37 277-313 17-53 (184)
378 PRK10751 molybdopterin-guanine 89.9 0.41 8.9E-06 53.6 5.0 39 278-316 6-44 (173)
379 TIGR02322 phosphon_PhnN phosph 89.9 0.26 5.6E-06 54.3 3.5 24 279-302 2-25 (179)
380 PRK05342 clpX ATP-dependent pr 89.8 0.38 8.3E-06 60.6 5.2 25 278-302 108-132 (412)
381 COG1204 Superfamily II helicas 89.8 0.67 1.5E-05 62.6 7.8 66 256-327 31-97 (766)
382 CHL00095 clpC Clp protease ATP 89.8 0.85 1.8E-05 62.3 8.9 70 259-332 185-266 (821)
383 PRK05707 DNA polymerase III su 89.8 1.1 2.3E-05 55.1 8.9 73 278-360 22-119 (328)
384 TIGR03346 chaperone_ClpB ATP-d 89.8 0.31 6.7E-06 66.7 4.8 39 278-316 595-633 (852)
385 KOG0733 Nuclear AAA ATPase (VC 89.7 0.22 4.7E-06 63.8 3.0 80 277-359 222-339 (802)
386 PRK07399 DNA polymerase III su 89.7 1.5 3.3E-05 53.5 10.0 45 261-305 9-53 (314)
387 COG1223 Predicted ATPase (AAA+ 89.7 0.24 5.2E-06 58.0 3.0 52 278-332 151-205 (368)
388 TIGR00390 hslU ATP-dependent p 89.7 0.37 7.9E-06 60.6 4.8 25 278-302 47-71 (441)
389 PF03796 DnaB_C: DnaB-like hel 89.6 0.82 1.8E-05 53.7 7.5 54 277-331 18-72 (259)
390 COG1936 Predicted nucleotide k 89.6 0.24 5.2E-06 55.2 2.8 19 280-298 2-20 (180)
391 TIGR00678 holB DNA polymerase 89.5 0.42 9.1E-06 53.3 4.8 29 277-305 13-41 (188)
392 PLN02200 adenylate kinase fami 89.5 0.41 9E-06 55.9 4.9 24 278-301 43-66 (234)
393 COG0464 SpoVK ATPases of the A 89.5 0.4 8.7E-06 61.6 5.2 44 257-300 250-298 (494)
394 TIGR00602 rad24 checkpoint pro 89.5 0.47 1E-05 62.7 5.9 48 255-302 86-134 (637)
395 cd02035 ArsA ArsA ATPase funct 89.5 0.4 8.7E-06 55.0 4.7 34 280-313 1-34 (217)
396 PF05707 Zot: Zonular occluden 89.5 0.29 6.4E-06 55.2 3.6 32 280-311 2-34 (193)
397 PRK07940 DNA polymerase III su 89.5 0.36 7.8E-06 60.5 4.6 28 278-305 36-63 (394)
398 PF02399 Herpes_ori_bp: Origin 89.5 0.56 1.2E-05 62.6 6.5 54 276-329 47-101 (824)
399 PRK14948 DNA polymerase III su 89.5 0.36 7.9E-06 63.7 4.9 26 279-304 39-64 (620)
400 TIGR02236 recomb_radA DNA repa 89.5 0.37 8E-06 58.2 4.6 39 277-315 94-138 (310)
401 TIGR00708 cobA cob(I)alamin ad 89.4 0.57 1.2E-05 52.5 5.6 36 278-313 5-40 (173)
402 COG0210 UvrD Superfamily I DNA 89.4 0.1 2.2E-06 69.2 -0.3 67 256-331 2-72 (655)
403 PRK04040 adenylate kinase; Pro 89.4 0.29 6.4E-06 55.2 3.5 24 279-302 3-26 (188)
404 cd02040 NifH NifH gene encodes 89.4 0.4 8.8E-06 56.1 4.8 33 279-312 3-35 (270)
405 PRK12727 flagellar biosynthesi 89.4 0.46 9.9E-06 61.3 5.4 37 277-313 349-387 (559)
406 COG1702 PhoH Phosphate starvat 89.3 0.44 9.6E-06 58.0 5.0 56 255-320 127-184 (348)
407 TIGR03345 VI_ClpV1 type VI sec 89.3 0.44 9.6E-06 65.1 5.7 35 279-313 597-631 (852)
408 PRK11034 clpA ATP-dependent Cl 89.3 0.46 1E-05 64.0 5.7 32 279-313 489-520 (758)
409 cd00227 CPT Chloramphenicol (C 89.3 0.35 7.6E-06 53.4 3.9 25 278-302 2-26 (175)
410 PRK03839 putative kinase; Prov 89.3 0.32 6.8E-06 53.8 3.5 22 281-302 3-24 (180)
411 cd02020 CMPK Cytidine monophos 89.3 0.31 6.7E-06 51.3 3.3 23 280-302 1-23 (147)
412 COG4088 Predicted nucleotide k 89.3 0.34 7.4E-06 55.3 3.7 32 279-310 2-33 (261)
413 CHL00095 clpC Clp protease ATP 89.2 0.36 7.9E-06 65.8 4.7 55 260-314 513-575 (821)
414 PRK14950 DNA polymerase III su 89.2 0.37 8.1E-06 63.3 4.7 26 279-304 39-64 (585)
415 PRK03846 adenylylsulfate kinas 89.1 0.57 1.2E-05 52.9 5.5 37 276-312 22-58 (198)
416 PRK10865 protein disaggregatio 89.1 0.61 1.3E-05 63.9 6.7 38 277-314 198-242 (857)
417 TIGR02621 cas3_GSU0051 CRISPR- 89.1 0.76 1.6E-05 62.2 7.4 73 254-332 13-88 (844)
418 PF13479 AAA_24: AAA domain 89.1 0.28 6.2E-06 56.2 3.1 30 279-316 4-33 (213)
419 PRK05439 pantothenate kinase; 89.1 0.8 1.7E-05 55.7 7.0 37 277-313 85-123 (311)
420 PF06414 Zeta_toxin: Zeta toxi 89.1 0.39 8.5E-06 54.3 4.2 27 277-303 14-40 (199)
421 cd00561 CobA_CobO_BtuR ATP:cor 89.1 0.62 1.3E-05 51.5 5.5 35 278-312 2-36 (159)
422 TIGR01618 phage_P_loop phage n 88.9 0.26 5.7E-06 57.1 2.7 21 278-298 12-32 (220)
423 PRK14531 adenylate kinase; Pro 88.9 0.31 6.8E-06 54.3 3.2 22 280-301 4-25 (183)
424 PRK08760 replicative DNA helic 88.9 0.68 1.5E-05 59.5 6.5 53 276-329 227-280 (476)
425 KOG0738 AAA+-type ATPase [Post 88.9 0.26 5.7E-06 60.5 2.7 18 281-298 248-265 (491)
426 COG1102 Cmk Cytidylate kinase 88.8 0.33 7.1E-06 53.7 3.1 20 281-300 3-22 (179)
427 cd01428 ADK Adenylate kinase ( 88.8 0.3 6.5E-06 54.1 3.0 21 281-301 2-22 (194)
428 COG0378 HypB Ni2+-binding GTPa 88.7 0.41 9E-06 54.3 3.9 33 280-313 15-47 (202)
429 PF00176 SNF2_N: SNF2 family N 88.7 1.3 2.8E-05 52.1 8.2 69 261-330 2-81 (299)
430 TIGR00631 uvrb excinuclease AB 88.6 1.1 2.4E-05 59.7 8.5 74 253-331 6-79 (655)
431 PRK14532 adenylate kinase; Pro 88.6 0.3 6.5E-06 54.4 2.8 20 281-300 3-22 (188)
432 PRK09165 replicative DNA helic 88.6 0.75 1.6E-05 59.4 6.7 53 276-329 215-282 (497)
433 COG1419 FlhF Flagellar GTP-bin 88.6 0.79 1.7E-05 57.2 6.5 58 255-312 180-239 (407)
434 PRK09112 DNA polymerase III su 88.6 0.48 1E-05 58.6 4.8 45 261-305 28-72 (351)
435 PRK07261 topology modulation p 88.5 0.35 7.6E-06 53.6 3.3 21 281-301 3-23 (171)
436 TIGR00382 clpX endopeptidase C 88.5 0.52 1.1E-05 59.4 5.1 24 279-302 117-140 (413)
437 COG4889 Predicted helicase [Ge 88.5 0.67 1.4E-05 61.2 6.0 66 251-321 156-221 (1518)
438 PF02374 ArsA_ATPase: Anion-tr 88.4 0.57 1.2E-05 56.8 5.2 36 279-314 2-37 (305)
439 PRK08769 DNA polymerase III su 88.4 2 4.2E-05 52.7 9.7 46 260-305 8-53 (319)
440 PRK13947 shikimate kinase; Pro 88.4 0.35 7.6E-06 52.7 3.1 22 281-302 4-25 (171)
441 TIGR03346 chaperone_ClpB ATP-d 88.4 0.73 1.6E-05 63.2 6.8 36 278-313 194-236 (852)
442 PF00485 PRK: Phosphoribulokin 88.4 0.4 8.6E-06 53.9 3.6 29 280-308 1-29 (194)
443 cd03116 MobB Molybdenum is an 88.3 0.65 1.4E-05 51.3 5.1 35 280-314 3-37 (159)
444 PRK06547 hypothetical protein; 88.3 0.43 9.4E-06 53.2 3.8 26 276-301 13-38 (172)
445 COG3854 SpoIIIAA ncharacterize 88.3 0.53 1.1E-05 54.6 4.4 36 281-316 140-180 (308)
446 PF01580 FtsK_SpoIIIE: FtsK/Sp 88.3 0.51 1.1E-05 53.3 4.4 39 278-316 38-80 (205)
447 PRK14530 adenylate kinase; Pro 88.3 0.43 9.4E-06 54.5 3.9 24 279-302 4-27 (215)
448 PRK05595 replicative DNA helic 88.3 0.85 1.8E-05 58.0 6.8 52 277-329 200-252 (444)
449 PRK09087 hypothetical protein; 88.3 0.4 8.8E-06 55.6 3.7 23 278-300 44-66 (226)
450 PTZ00202 tuzin; Provisional 88.2 1.3 2.9E-05 55.9 8.1 66 258-329 267-332 (550)
451 TIGR02016 BchX chlorophyllide 88.1 0.57 1.2E-05 56.6 4.9 32 280-312 3-34 (296)
452 PF00406 ADK: Adenylate kinase 88.0 0.37 8E-06 51.9 2.9 20 283-302 1-20 (151)
453 PRK14494 putative molybdopteri 88.0 0.57 1.2E-05 54.7 4.6 38 280-317 3-40 (229)
454 PHA02542 41 41 helicase; Provi 88.0 0.62 1.3E-05 59.8 5.4 52 277-329 189-240 (473)
455 cd02037 MRP-like MRP (Multiple 88.0 0.64 1.4E-05 51.0 4.8 33 280-312 2-34 (169)
456 COG2255 RuvB Holliday junction 87.9 0.74 1.6E-05 54.9 5.4 27 277-304 51-77 (332)
457 KOG3347 Predicted nucleotide k 87.9 0.38 8.3E-06 52.5 2.9 22 278-299 7-28 (176)
458 COG1224 TIP49 DNA helicase TIP 87.8 0.59 1.3E-05 57.0 4.7 34 277-313 64-97 (450)
459 PF01637 Arch_ATPase: Archaeal 87.8 0.6 1.3E-05 52.4 4.6 38 261-302 7-44 (234)
460 TIGR00554 panK_bact pantothena 87.8 1 2.2E-05 54.5 6.7 36 277-313 61-99 (290)
461 PRK07471 DNA polymerase III su 87.8 0.65 1.4E-05 57.7 5.2 46 261-306 24-69 (365)
462 PRK13234 nifH nitrogenase redu 87.8 0.61 1.3E-05 56.1 4.9 33 279-312 6-38 (295)
463 KOG0952 DNA/RNA helicase MER3/ 87.7 1.1 2.5E-05 60.5 7.5 70 256-331 110-189 (1230)
464 PRK15455 PrkA family serine pr 87.7 0.62 1.3E-05 60.5 5.0 50 255-304 79-129 (644)
465 TIGR00763 lon ATP-dependent pr 87.7 0.42 9E-06 64.9 3.8 26 277-302 346-371 (775)
466 PRK02496 adk adenylate kinase; 87.7 0.44 9.6E-06 52.9 3.4 22 281-302 4-25 (184)
467 PRK01184 hypothetical protein; 87.6 0.42 9.2E-06 53.0 3.1 15 280-294 3-17 (184)
468 PRK05986 cob(I)alamin adenolsy 87.5 0.83 1.8E-05 52.0 5.4 37 278-314 22-58 (191)
469 KOG0741 AAA+-type ATPase [Post 87.5 0.37 8E-06 61.0 2.8 37 271-309 250-287 (744)
470 COG1855 ATPase (PilT family) [ 87.5 0.82 1.8E-05 57.2 5.7 49 250-307 244-292 (604)
471 PHA02774 E1; Provisional 87.5 0.62 1.3E-05 60.5 4.9 25 278-302 434-458 (613)
472 PRK14528 adenylate kinase; Pro 87.4 0.47 1E-05 53.3 3.4 22 280-301 3-24 (186)
473 PF10412 TrwB_AAD_bind: Type I 87.4 0.59 1.3E-05 58.5 4.5 40 279-318 16-55 (386)
474 PF12774 AAA_6: Hydrolytic ATP 87.3 0.49 1.1E-05 55.3 3.6 52 278-332 32-83 (231)
475 TIGR02639 ClpA ATP-dependent C 87.3 0.52 1.1E-05 63.6 4.3 24 279-302 485-508 (731)
476 PF01656 CbiA: CobQ/CobB/MinD/ 87.3 0.85 1.9E-05 50.3 5.3 34 280-313 1-34 (195)
477 TIGR03263 guanyl_kin guanylate 87.1 0.49 1.1E-05 52.0 3.3 22 279-300 2-23 (180)
478 TIGR00073 hypB hydrogenase acc 87.1 0.79 1.7E-05 52.2 5.0 35 278-313 22-56 (207)
479 PF12775 AAA_7: P-loop contain 87.1 0.45 9.8E-06 56.8 3.2 25 278-302 33-57 (272)
480 cd00464 SK Shikimate kinase (S 87.0 0.5 1.1E-05 50.3 3.2 22 281-302 2-23 (154)
481 TIGR02902 spore_lonB ATP-depen 86.9 0.59 1.3E-05 60.8 4.4 25 277-301 85-109 (531)
482 PRK06761 hypothetical protein; 86.9 0.6 1.3E-05 56.1 4.1 33 278-310 3-35 (282)
483 TIGR01243 CDC48 AAA family ATP 86.9 0.51 1.1E-05 63.7 3.9 25 278-302 212-236 (733)
484 TIGR02903 spore_lon_C ATP-depe 86.9 0.62 1.3E-05 61.7 4.6 25 278-302 175-199 (615)
485 TIGR02238 recomb_DMC1 meiotic 86.8 0.98 2.1E-05 55.1 5.9 40 277-316 95-140 (313)
486 PF01583 APS_kinase: Adenylyls 86.8 0.95 2.1E-05 50.0 5.2 35 278-312 2-36 (156)
487 PRK00300 gmk guanylate kinase; 86.7 0.54 1.2E-05 52.9 3.4 25 277-301 4-28 (205)
488 KOG0731 AAA+-type ATPase conta 86.7 0.41 8.8E-06 63.6 2.7 37 52-88 140-181 (774)
489 PRK13973 thymidylate kinase; P 86.6 1.3 2.9E-05 50.7 6.6 41 278-318 3-44 (213)
490 PRK08154 anaerobic benzoate ca 86.6 0.93 2E-05 55.0 5.5 47 256-302 107-157 (309)
491 PTZ00035 Rad51 protein; Provis 86.6 1.1 2.4E-05 55.2 6.2 39 277-315 117-161 (337)
492 PRK14959 DNA polymerase III su 86.4 0.65 1.4E-05 61.1 4.3 27 278-304 38-64 (624)
493 PF08433 KTI12: Chromatin asso 86.4 0.86 1.9E-05 54.5 5.0 35 279-313 2-36 (270)
494 KOG0652 26S proteasome regulat 86.3 0.59 1.3E-05 54.7 3.4 22 277-298 204-225 (424)
495 PF07724 AAA_2: AAA domain (Cd 86.3 0.84 1.8E-05 50.9 4.5 35 278-312 3-38 (171)
496 PF01745 IPT: Isopentenyl tran 86.2 0.62 1.3E-05 53.8 3.5 54 279-332 2-86 (233)
497 TIGR00235 udk uridine kinase. 86.2 0.64 1.4E-05 52.8 3.7 25 277-301 5-29 (207)
498 PRK14723 flhF flagellar biosyn 86.2 0.85 1.8E-05 61.2 5.2 45 278-322 185-234 (767)
499 PF00005 ABC_tran: ABC transpo 86.1 0.58 1.3E-05 49.0 3.0 24 277-300 10-33 (137)
500 PRK13235 nifH nitrogenase redu 86.1 0.86 1.9E-05 54.0 4.8 32 280-312 4-35 (274)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=7.9e-80 Score=733.47 Aligned_cols=600 Identities=25% Similarity=0.312 Sum_probs=447.4
Q ss_pred cccccccccCChhHHHhhchhhHHHHHHHHHHHhhhhccCCCceEEEeeeec-CCCCCceEEEEEeeecccccCCCCCCC
Q 000228 48 QVEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQVIAFEEL-KPYGTNQYGIEVDYWRNTISNSGKEPY 126 (1825)
Q Consensus 48 kVkkIP~TF~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~eIlsve~~-~~~~~~~ydI~v~~~~~~~~~~~~e~y 126 (1825)
+...+..+|.+..+|-++|-|++-.|+..+ ..+.+....+.+.++++ .-++...-.+.+...++ .-
T Consensus 228 ~~~hv~~ry~da~~y~~vf~pliklea~yd-----k~~Kes~~q~~~tvRW~~gLnkk~~a~f~~~k~~~--------e~ 294 (935)
T KOG1802|consen 228 EPPHVQLRYEDAYEYQNVFSPLIKLEADYD-----KRLKESQTQENGTVRWDIGLNKKRLAYFTLPKLDS--------EL 294 (935)
T ss_pred CCCcccccccchHHHhhhcchhhhhhhhhh-----hhhhhhcccccceEEeeeccccceEEEEecCCCcc--------hh
Confidence 567888999999999999999999999887 34444444455566665 22222233333433322 24
Q ss_pred CCCCCCEEEEeecCCCCccccccCCceeEEEEEEeccCCCccccccceEEEEecCCcccccCCCceEEEEEeeccchhHH
Q 000228 127 KTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNMQVHDKTKKSFFFIYLTNILPNKR 206 (1825)
Q Consensus 127 ~p~~GDIVlLt~~kP~~~sDL~r~~~~~~la~V~~v~~~~~~~~~~~~~~V~~sk~i~~~~~~~~~~~~v~L~Nl~T~~R 206 (1825)
+...||-+.|+...... ...-.+|+|.++.+...+. ..+-+..+.+ ...+....+.+-++.|-+++.|
T Consensus 295 kl~~GdE~~L~y~~~~~-------~~w~~~g~v~~~pd~~~dE---~~lEl~~~~~--~p~e~~~~Ftvd~vwk~ts~dr 362 (935)
T KOG1802|consen 295 KLAIGDEIRLTYSGGLV-------LPWNGIGSVLKIPDNNGDE---VKLELEFSQD--PPIEVTHGFTVDFVWKSTSFDR 362 (935)
T ss_pred ccccCCeeEEEecCCcC-------CcccccceEEecCCCCcce---eEEEeecCCC--CCcccccceEEEEEEcCccHHH
Confidence 67899999998743221 1133578899888764332 4455555544 2233455678999999999999
Q ss_pred HHHHHhcc-------CCchhHhhhcCCCCccccchhccccccCCCCCccCCCCCCCCCCHHHHHHHHHhhhhccCCCCCC
Q 000228 207 IWNSLHMC-------GNWKVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHRSG 279 (1825)
Q Consensus 207 i~~AL~~~-------~n~~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~~~~LNeSQ~eAV~saLsa~~c~h~~~ 279 (1825)
|..||... ..+-+.+.+..+.......+..+ +.+......+||.||..||...|+ ++
T Consensus 363 m~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP---------~~~s~~~lpkLN~SQ~~AV~~VL~-------rp 426 (935)
T KOG1802|consen 363 MQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLP---------RRFSVPNLPKLNASQSNAVKHVLQ-------RP 426 (935)
T ss_pred HHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCc---------hhhcCCCchhhchHHHHHHHHHHc-------CC
Confidence 99999762 22333333333333222222221 233344456899999999999997 79
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHHhhhhhccCCCCCCCCCCCCceEEeccCCC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKDR 358 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~klv~es~~~~~~~~~~~ygLgdIVRfGn~~r 358 (1825)
++|||||||||||.|+++++..|++. +.+||||||||.|||+++++|.+... .|||+-.+.|
T Consensus 427 lsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgL-----------------KVvRl~aksR 489 (935)
T KOG1802|consen 427 LSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGL-----------------KVVRLCAKSR 489 (935)
T ss_pred ceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCc-----------------eEeeeehhhh
Confidence 99999999999999999999999987 57999999999999999999998632 3899888777
Q ss_pred CCcCchhHHHhHHHHHHHHhhhccCCCCchhhhHhhHHHhhhhHHHHHHHHHHHhhhhcccccchhhHHHhhhhcCCcCC
Q 000228 359 LKVNPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKGE 438 (1825)
Q Consensus 359 mkI~~eL~~V~LD~RVe~L~~~f~~~~gWr~~L~Sli~lLe~~~~qY~~~lee~~~~~~~de~~~kr~ei~k~~~~~kk~ 438 (1825)
..+...+.-..|.+.++.... |
T Consensus 490 E~~~S~vs~L~lh~~~~~~~~---------------------p------------------------------------- 511 (935)
T KOG1802|consen 490 EDIESDVSFLSLHEQLRNMDK---------------------P------------------------------------- 511 (935)
T ss_pred hhccCCccHHHHHHHHhccCc---------------------H-------------------------------------
Confidence 544333333333322222000 0
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHHHHHHHHHHHHHHHhhhhcCCcchHHHHHHhhccccccch
Q 000228 439 RKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGIS 518 (1825)
Q Consensus 439 ~lsf~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~~m~~~l~lL~~le~LL~~~~i~~eeLk~~f~~l~~~~ks 518 (1825)
+|..+.. +-.+. +.+. .
T Consensus 512 -----------------------------------------ELq~l~k-------lkde~-----------gelS----~ 528 (935)
T KOG1802|consen 512 -----------------------------------------ELQKLLK-------LKDEG-----------GELS----S 528 (935)
T ss_pred -----------------------------------------HHHHHHh-------hhhhc-----------cccc----c
Confidence 0000000 00000 0000 0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCccchhHHHHHhhccCcEEEEccccccccccccCCCcCEEEEEc
Q 000228 519 WAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDE 598 (1825)
Q Consensus 519 ~~~~~~~~~~kL~e~R~ecl~~Lr~L~~~lk~l~lP~~~~r~~I~~~iLk~A~VI~~T~Sss~~L~~l~~~~fD~VIIDE 598 (1825)
+. ..+ ++ ...+..++.++..|+|||||+.+++.. .+....|..|+|||
T Consensus 529 sD------~~k-----------~~--------------~lk~~~e~ell~~AdVIccTcv~Agd~-rl~~~kfr~VLiDE 576 (935)
T KOG1802|consen 529 SD------EKK-----------YR--------------KLKRAAEKELLNQADVICCTCVGAGDR-RLSKFKFRTVLIDE 576 (935)
T ss_pred hh------hHH-----------HH--------------HHHHHHHHHHHhhcCEEEEecccccch-hhccccccEEEEec
Confidence 00 000 00 012344567899999999999999873 33347899999999
Q ss_pred CCCCChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhcCCCceecccccccCcccccccchhc
Q 000228 599 AAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPNLQF 678 (1825)
Q Consensus 599 AsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g~~~~~L~~QYRMhP~Is~fpNk~F 678 (1825)
|.|++||+++||+.+ |++++||||||+||+|++..+.++.+|+.+|||+||+..|...++|.+||||||.|++||+..|
T Consensus 577 aTQatEpe~LiPlvl-G~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~f 655 (935)
T KOG1802|consen 577 ATQATEPECLIPLVL-GAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMF 655 (935)
T ss_pred ccccCCcchhhhhhh-cceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhh
Confidence 999999999999997 8999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCcccccccchhccccCCC-CCceEEEEecCCccc--ccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEE
Q 000228 679 YRNQILDGANVKSKSYEKQYLTGTE-FGTYSFINIIGGRED--FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGV 755 (1825)
Q Consensus 679 Y~gkL~d~~sv~~~~~~~~~l~~~~-~~p~~FIdV~~G~ee--~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgI 755 (1825)
|+|.|.++....++.....++|.+. ..|+.|... .|.|+ ..|+|+.|..||..+..+|..|++.+.... .|||
T Consensus 656 Y~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~-~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~---qIGV 731 (935)
T KOG1802|consen 656 YEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVC-YGQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPS---QIGV 731 (935)
T ss_pred ccchhhcCcchhhhccCCCCCCCCCCCCccceEEe-ccceeeeccccceecHHHHHHHHHHHHHHHHcCCCHH---Heee
Confidence 9999999977666554333333221 347777777 66666 778999999999999999999999987644 5999
Q ss_pred EeecHHHHHHHHHHhchhhc--CCCCCcEEEccccCCCCceeeEEEEEeeecCCCCCcccCCCCCcceeecccccccEEE
Q 000228 756 VSPYTAQVVAIRKKIGFEYE--NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWI 833 (1825)
Q Consensus 756 ITPY~aQv~~Ir~~L~~~~~--~~~~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiI 833 (1825)
||||.+|...|-+.+..... ......|+|.|||+|||+|+|+||+||||+|...+|||+.|+|||||||||||++|+|
T Consensus 732 ITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvi 811 (935)
T KOG1802|consen 732 ITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVI 811 (935)
T ss_pred ecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEeecccccccccccCchhhhhhhhhcccceEE
Confidence 99999999999998865433 2233578999999999999999999999999999999999999999999999999999
Q ss_pred EechhhhcccchHHHHHHHHHhhcCceecCc
Q 000228 834 LGSERTLISSESIWGALVCDAKARQCFFNAD 864 (1825)
Q Consensus 834 VGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~ 864 (1825)
|||+..|++ ++.|..+|.|++++++++.+.
T Consensus 812 vGN~~~L~k-~~LW~~li~h~~eke~l~eg~ 841 (935)
T KOG1802|consen 812 VGNPKVLRK-HPLWGHLITHYKEKEVLVEGP 841 (935)
T ss_pred ecCHHHhhh-chHHHHHHHHhhcccceeecc
Confidence 999999987 799999999999999999854
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-77 Score=720.35 Aligned_cols=607 Identities=25% Similarity=0.316 Sum_probs=426.6
Q ss_pred hHHHhhchhhHHHHHHHHHHHhhhhccCCC--------ce---EEEeeeecCCCCCceEEEEEeeecccccCCCCCCCCC
Q 000228 60 KQYFGSFVFPLLEETRMQLRSGLEAMRRAP--------YA---QVIAFEELKPYGTNQYGIEVDYWRNTISNSGKEPYKT 128 (1825)
Q Consensus 60 ~eYl~SF~PlLLEEtrAdL~SSle~is~Ap--------~~---eIlsve~~~~~~~~~ydI~v~~~~~~~~~~~~e~y~p 128 (1825)
+++..-+.++|=+|=.+++.-.-..+.+-| ++ -.+...+++-.+..+-.+. +... ..-...+
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 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVSVRTGLGGKSLIVFS--KNRE-----VLPSNSF 75 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEEEeecccceEEEEec--cCcc-----ccCcCCC
Confidence 455666777777776666654444433333 22 1122233443332222222 2221 2345678
Q ss_pred CCCCEEEEeecCCCCccccccCCceeEEEEEEeccCCCccccccceEEEEecCCcccccCCCceEEEEEeeccchhHHHH
Q 000228 129 LPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNMQVHDKTKKSFFFIYLTNILPNKRIW 208 (1825)
Q Consensus 129 ~~GDIVlLt~~kP~~~sDL~r~~~~~~la~V~~v~~~~~~~~~~~~~~V~~sk~i~~~~~~~~~~~~v~L~Nl~T~~Ri~ 208 (1825)
++||+|.|.. +. ++....+++-|.|+.+.++.. ++.+.+...... ..+.+.+.+|.|..||.|+.
T Consensus 76 ~~gd~v~lr~--~~----~~~~~~~~~~GvV~~~~~~~i------~~a~ee~~d~~~---~~~~l~l~kl~n~vty~R~~ 140 (649)
T KOG1803|consen 76 GPGDVVWLRT--DK----LNNKSKPCTEGVVYRVAEDSI------DVAFEEEVDKPL---TLSSLRLLKLENKVTYRRMK 140 (649)
T ss_pred CCCcEEEEEc--cc----ccccCcccccceeEeeccchh------hHhHHhhhcccc---hhhHHHHHHhhhhhhheecH
Confidence 9999999972 21 111233478899999988742 233333332211 11255788999999999999
Q ss_pred HHHhcc-------CCchhHhhhcCCCCccccchhccccccCCCCCccCCCCCCCCCCHHHHHHHHHhhhhccCCCCCCeE
Q 000228 209 NSLHMC-------GNWKVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHRSGVE 281 (1825)
Q Consensus 209 ~AL~~~-------~n~~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~~~~LNeSQ~eAV~saLsa~~c~h~~~Vs 281 (1825)
.++... ...+++..+........ ..+. .. ......+.+||.||+.||..+++ +..+.
T Consensus 141 ~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~--------~~~~-~~-~~~~~~~~~ln~SQk~Av~~~~~------~k~l~ 204 (649)
T KOG1803|consen 141 DTMICLSKFSNPGPSSDVVETLFGDRKPIP--------SPNI-EI-KKITFFNKNLNSSQKAAVSFAIN------NKDLL 204 (649)
T ss_pred HHHhhHhhhcCccchhhhHHHHhccccCCC--------Cchh-hh-cccccCCccccHHHHHHHHHHhc------cCCce
Confidence 998652 22344544444332211 0100 00 11233466899999999999986 24899
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhhhhccCCCCCCCCCCCCceEEeccCCCCCc
Q 000228 282 LIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKDRLKV 361 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~es~~~~~~~~~~~ygLgdIVRfGn~~rmkI 361 (1825)
+||||||||||+|++.+|.++++++.|||||||||.|||||.+||.... ..++|+|+++|+
T Consensus 205 ~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~~~-----------------~~l~R~g~paRl-- 265 (649)
T KOG1803|consen 205 IIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTHLK-----------------LNLVRVGHPARL-- 265 (649)
T ss_pred EeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhcccc-----------------cchhhcCchhhh--
Confidence 9999999999999999999999999999999999999999999997421 149999999985
Q ss_pred CchhHHHhHHHHHHHHhhhccCCCCchhhhHhhHHHhhhhHHHHHHHHHHHhhhhcccccchhhHHHhhhhcCCcCCCcc
Q 000228 362 NPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKGERKP 441 (1825)
Q Consensus 362 ~~eL~~V~LD~RVe~L~~~f~~~~gWr~~L~Sli~lLe~~~~qY~~~lee~~~~~~~de~~~kr~ei~k~~~~~kk~~ls 441 (1825)
.+.+.+-++|..+..-.. .
T Consensus 266 ~~~~~~~sld~~~~t~d~-----------------------------------~-------------------------- 284 (649)
T KOG1803|consen 266 LESVADHSLDLLSNTKDN-----------------------------------S-------------------------- 284 (649)
T ss_pred hhhhhhhHHHHHHhcCch-----------------------------------h--------------------------
Confidence 223333333321111000 0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHHHHHHHHHHHHHHHhhhhcCCcchHHHHHHhhccccccchhHH
Q 000228 442 FLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGISWAF 521 (1825)
Q Consensus 442 f~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~~m~~~l~lL~~le~LL~~~~i~~eeLk~~f~~l~~~~ks~~~ 521 (1825)
......++.++.+ +...
T Consensus 285 ------~~~~~~sk~~d~~------------------------------------------------~~~~--------- 301 (649)
T KOG1803|consen 285 ------QNAKDISKDIDIL------------------------------------------------FQKN--------- 301 (649)
T ss_pred ------hhhhhhHHHHHHH------------------------------------------------hhhh---------
Confidence 0000000000000 0000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCccchhHHHHHhhccCcEEEEccccccccccccCCCcCEEEEEcCCC
Q 000228 522 VRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQ 601 (1825)
Q Consensus 522 ~~~~~~~kL~e~R~ecl~~Lr~L~~~lk~l~lP~~~~r~~I~~~iLk~A~VI~~T~Sss~~L~~l~~~~fD~VIIDEAsQ 601 (1825)
...+-...|......++.+++.+++ .+++.-..++.+++|||+|..++.. .......||+||||||+|
T Consensus 302 ----~~tk~~~~~~~~~~~i~~lrkdl~k-------re~~~v~eii~n~~VVfaTl~ga~~-~~~~~~~fD~vIIDEaaQ 369 (649)
T KOG1803|consen 302 ----TKTKNDKLRKGIRKEIKLLRKDLRK-------RERKTVKEIISNSRVVFATLGGALD-RLLRKRTFDLVIIDEAAQ 369 (649)
T ss_pred ----hcccchHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhhcccceEEEeccchhh-hhhcccCCCEEEEehhhh
Confidence 0000011222233333333322222 1234455689999999999998876 223346799999999999
Q ss_pred CChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhcC--CCceecccccccCcccccccchhcc
Q 000228 602 LKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLN--HSKHLLNIQYRMHPSISLFPNLQFY 679 (1825)
Q Consensus 602 a~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g--~~~~~L~~QYRMhP~Is~fpNk~FY 679 (1825)
+.|+++|||+. ..+++||+|||+||||+|.|..+...|++.|+|+|+.+.. .-..+|++|||||..|+.|+|..||
T Consensus 370 amE~~cWipvl--k~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY 447 (649)
T KOG1803|consen 370 AMEPQCWIPVL--KGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFY 447 (649)
T ss_pred hccchhhhHHh--cCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhhhc
Confidence 99999999996 4589999999999999999999999999999999998863 3578999999999999999999999
Q ss_pred ccccccCcccccccchhcccc---CCCCCceEEEEecCCccc------ccccccCCHHHHHHHHHHHHHHHHhhcCCCCC
Q 000228 680 RNQILDGANVKSKSYEKQYLT---GTEFGTYSFINIIGGRED------FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQK 750 (1825)
Q Consensus 680 ~gkL~d~~sv~~~~~~~~~l~---~~~~~p~~FIdV~~G~ee------~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~ 750 (1825)
+|+++++.++..+.+.+..-. ...+.|+.|+|+.+.... ...+|++|..||++|..+++.|+..+.. +
T Consensus 448 ~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~---p 524 (649)
T KOG1803|consen 448 NGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQ---P 524 (649)
T ss_pred CCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCC---h
Confidence 999999999888765443211 224689999999664322 2235999999999999999999999864 5
Q ss_pred ceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceeeEEEEEeeecCCCCCcccCCCCCcceeeccccccc
Q 000228 751 VSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHC 830 (1825)
Q Consensus 751 ~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~ 830 (1825)
.+|||||||++|+.++++... .....++|+|||+|||+|+|+||+|+||+|+.+.+||+.|.||+|||+||||++
T Consensus 525 ~dIaVIsPY~aQv~llR~~~~-----~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh 599 (649)
T KOG1803|consen 525 SDIAVISPYNAQVSLLREEDE-----EDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRARRH 599 (649)
T ss_pred hHeEEeccchHHHHHHhhccc-----ccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEeccce
Confidence 689999999999999993322 344579999999999999999999999999999999999999999999999999
Q ss_pred EEEEechhhhcccchHHHHHHHHHhhcCceecCccchhH
Q 000228 831 LWILGSERTLISSESIWGALVCDAKARQCFFNADEERNL 869 (1825)
Q Consensus 831 LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~dk~l 869 (1825)
+.||||..|+...+...++++.+..+++.++.++.++.+
T Consensus 600 ~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~~~~~~ 638 (649)
T KOG1803|consen 600 FVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPSILEYF 638 (649)
T ss_pred EEEEcCcHHHHhhHHHHHHHHHHhhhcceeccccchhhh
Confidence 999999999986678999999999999999866555443
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=1.5e-71 Score=706.15 Aligned_cols=567 Identities=27% Similarity=0.332 Sum_probs=397.7
Q ss_pred CCCCCCCCEEEEeecCCCCccccccCCceeEEEEEEeccCCCccccccceEEEEecCCcccccCCCceEEEEEeeccchh
Q 000228 125 PYKTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNMQVHDKTKKSFFFIYLTNILPN 204 (1825)
Q Consensus 125 ~y~p~~GDIVlLt~~kP~~~sDL~r~~~~~~la~V~~v~~~~~~~~~~~~~~V~~sk~i~~~~~~~~~~~~v~L~Nl~T~ 204 (1825)
...+.+||+|+++...|. ...+-|.|.++.+.. +.|....+... .....+.+.++.|.+||
T Consensus 55 ~~~~~~GD~v~i~~~~~~---------~~~~~g~V~~v~~~~--------i~v~~~~~~~~--~~~~~~~i~~~~~~~t~ 115 (637)
T TIGR00376 55 ATEISVGDIVLVSRGNPL---------QSDLTGVVTRVGKRF--------ITVALEESVPQ--WSLKRVRIDLYANDVTF 115 (637)
T ss_pred CCcCCCCCEEEEecCCCC---------CCCcEEEEEEEcCcE--------EEEEECCCCCc--ccCceEEEEEecCccHH
Confidence 358889999999965442 123579999998753 44443332111 11234789999999999
Q ss_pred HHHHHHHhccC--CchhHhhhcCCCCccccchhccccccCCCCCccCCCCCCCCCCHHHHHHHHHhhhhccCCCCCCeEE
Q 000228 205 KRIWNSLHMCG--NWKVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHRSGVEL 282 (1825)
Q Consensus 205 ~Ri~~AL~~~~--n~~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsL 282 (1825)
.||..||.... ..++.+.+|+...+.... . . ... ......||++|++||..++. +.++.+
T Consensus 116 ~rm~~aL~~l~~~~~~l~~~llg~~~p~~~~------~--~--~~~--~~~~~~ln~~Q~~Av~~~l~------~~~~~l 177 (637)
T TIGR00376 116 KRMKEALRALTENHSRLLEFILGREAPSKAS------E--I--HDF--QFFDPNLNESQKEAVSFALS------SKDLFL 177 (637)
T ss_pred HHHHHHHHHHHhchhhHHHHHhCCCCCCccc------c--c--ccc--cccCCCCCHHHHHHHHHHhc------CCCeEE
Confidence 99999998732 336777777654421100 0 0 001 11235899999999999986 258999
Q ss_pred EEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhhhhccCCCCCCCCCCCCceEEeccCCCCCcC
Q 000228 283 IWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKDRLKVN 362 (1825)
Q Consensus 283 IqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~es~~~~~~~~~~~ygLgdIVRfGn~~rmkI~ 362 (1825)
|+||||||||+|+++++..++..+.+||+|||||.|||++++||.+. . ..++|+|++.+ +.
T Consensus 178 I~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~-----~------------~~vvRlg~~~r--~~ 238 (637)
T TIGR00376 178 IHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALC-----D------------QKIVRLGHPAR--LL 238 (637)
T ss_pred EEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHhC-----C------------CcEEEeCCchh--cc
Confidence 99999999999999999999999999999999999999999999763 1 25999999987 46
Q ss_pred chhHHHhHHHHHHHHhhhccCCCCchhhhHhhHHHhhhhHHHHHHHHHHHhhhhcccccchhhHHHhhhhcCCcCCCcch
Q 000228 363 PGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKGERKPF 442 (1825)
Q Consensus 363 ~eL~~V~LD~RVe~L~~~f~~~~gWr~~L~Sli~lLe~~~~qY~~~lee~~~~~~~de~~~kr~ei~k~~~~~kk~~lsf 442 (1825)
+.+...++++.++.... + ..+.+.........+.+... .+..+..++ .++-
T Consensus 239 ~~~~~~sl~~~~~~~~~-------~--------~~~~~~~~~i~~~~~~~~~~-------------~~~~~~~~~-~~~~ 289 (637)
T TIGR00376 239 KSNKQHSLDYLIENHPK-------Y--------QIVADIREKIDELIEERNKK-------------LKPSPQKRR-GLSD 289 (637)
T ss_pred hhHHhccHHHHHhcChh-------H--------HHHHHHHHHHHHHHHHHHhh-------------ccchHhHhh-ccch
Confidence 77778888877664100 0 00000000000000000000 000000000 0000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHHHHHHHHHHHHHHHhhhhcCCcchHHHHHHhhccccccchhHHH
Q 000228 443 LKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGISWAFV 522 (1825)
Q Consensus 443 ~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~~m~~~l~lL~~le~LL~~~~i~~eeLk~~f~~l~~~~ks~~~~ 522 (1825)
...+ ..+++. .....+.......|..+..+...+
T Consensus 290 ~~~l-------~~~~~~--------~~~~~i~~~~~~~~~~~~~~~~~~------------------------------- 323 (637)
T TIGR00376 290 IKIL-------RKALKK--------REARGIESLKIASMAEWIETNKSI------------------------------- 323 (637)
T ss_pred HHHH-------HHHHhh--------hhhcccchhhhHHHHHHHHhhhhh-------------------------------
Confidence 0000 000000 000001111111111111111000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCccchhHHHHHhhccCcEEEEccccccccccccCCCcCEEEEEcCCCC
Q 000228 523 RKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQL 602 (1825)
Q Consensus 523 ~~~~~~kL~e~R~ecl~~Lr~L~~~lk~l~lP~~~~r~~I~~~iLk~A~VI~~T~Sss~~L~~l~~~~fD~VIIDEAsQa 602 (1825)
. ..++.+. ..+..+...+++.|+|+++|+.+ ..+....||+||||||+|+
T Consensus 324 ------------~---~~~~~~~-----------~~~~~~~~~il~~a~v~~st~~~----~~l~~~~Fd~vIIDEAsQ~ 373 (637)
T TIGR00376 324 ------------D---RLLKLLP-----------EIEERIENEILAESDVVQSTNSS----AGLKGWEFDVAVIDEASQA 373 (637)
T ss_pred ------------H---HHHHHHH-----------HHHHHHHHHHHhhCCEEEeccCc----HhhccCCCCEEEEECcccc
Confidence 0 0111111 12345667899999999888653 2234579999999999999
Q ss_pred ChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc-CCCceecccccccCcccccccchhcccc
Q 000228 603 KESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL-NHSKHLLNIQYRMHPSISLFPNLQFYRN 681 (1825)
Q Consensus 603 ~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~-g~~~~~L~~QYRMhP~Is~fpNk~FY~g 681 (1825)
+||++++|+.. ++++||||||+||||++.+.. ..+++.|+|+||... +...++|++||||||+|++|||..||+|
T Consensus 374 ~ep~~lipl~~--~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g 449 (637)
T TIGR00376 374 MEPSCLIPLLK--ARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNG 449 (637)
T ss_pred chHHHHHHHhh--CCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCC
Confidence 99999999974 479999999999999998865 457899999999986 3457899999999999999999999999
Q ss_pred ccccCcccccccchhccccC--------CCCCceEEEEecCCcc----cccccccCCHHHHHHHHHHHHHHHHhhcCCCC
Q 000228 682 QILDGANVKSKSYEKQYLTG--------TEFGTYSFINIIGGRE----DFIYHSCRNIVEVSAVIKILQKLYKAWVGSKQ 749 (1825)
Q Consensus 682 kL~d~~sv~~~~~~~~~l~~--------~~~~p~~FIdV~~G~e----e~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~ 749 (1825)
+|.+++++..+......... ....|+.|+|+.+... ...++|++|..||..|+++++.|++.+..
T Consensus 450 ~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~--- 526 (637)
T TIGR00376 450 KLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVP--- 526 (637)
T ss_pred ccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCC---
Confidence 99998877654322111000 1134899999965432 14578999999999999999999987654
Q ss_pred CceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceeeEEEEEeeecCCCCCcccCCCCCcceeecccccc
Q 000228 750 KVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARH 829 (1825)
Q Consensus 750 ~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~ 829 (1825)
+.+|||||||++|+..|++.|... ...++|+|||+|||+|+|+||+|+||+|..+.+||+.|.||+|||+||||+
T Consensus 527 ~~~IgVItPY~aQv~~L~~~l~~~-----~~~i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~ 601 (637)
T TIGR00376 527 ANDIGVITPYDAQVDLLRQLLEHR-----HIDIEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARR 601 (637)
T ss_pred cceEEEEcccHHHHHHHHHHHHhh-----CCCeEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhC
Confidence 458999999999999999999654 236999999999999999999999999998999999999999999999999
Q ss_pred cEEEEechhhhcccchHHHHHHHHHhhcCceecCcc
Q 000228 830 CLWILGSERTLISSESIWGALVCDAKARQCFFNADE 865 (1825)
Q Consensus 830 ~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~ 865 (1825)
+||||||..+|.+ ++.|++|+++++++|++..++.
T Consensus 602 ~LiIvGn~~~l~~-~~~~~~li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 602 KLIVIGDSRTLSN-HKFYKRLIEWCKQHGEVREAFK 636 (637)
T ss_pred ceEEEECHHHhcc-ChHHHHHHHHHHHCCCEEcCCC
Confidence 9999999999975 6899999999999999988754
No 4
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=2.5e-68 Score=690.39 Aligned_cols=790 Identities=29% Similarity=0.311 Sum_probs=586.9
Q ss_pred cccceeEeccchhhhcCcccccccccccccccCChhHHHhhchhhHHHHHHHHHHHhhhhccCCCceEEEeee---ecCC
Q 000228 25 GFAGHTVFSWSLEDIFSQSFFKDQVEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQVIAFE---ELKP 101 (1825)
Q Consensus 25 ~~L~~~VfSWSl~DilN~dL~k~kVkkIP~TF~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~eIlsve---~~~~ 101 (1825)
.++.+.++||++.|+.|+ +.+|+||.+..+|..+|.|+|+||+++++.++...++.+++..+...+ ...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~p~~~ee~~~~l~~s~~~~~~~~~~~~~~~~~~~~~~~ 78 (827)
T KOG1801|consen 6 TDLLDSSLSWSLRDVENE-------ETEPETFQSMEEYIREFFPPLLEECRSSLVSSSRKLKAPFLLEKPEQEQIAITKN 78 (827)
T ss_pred ccHHHHhHHHHhhhhhhh-------hccchhhhhHHHHHHHhhhhhhHHHHHHHhhhhhhhccchhhhhhhhhhhhcccC
Confidence 458999999999999998 999999999999999999999999999999999999988876644333 2211
Q ss_pred C---CCceEEEEEeeeccc-ccCCCCCCCCCCCCCEEEEeecCCCCccccccCCceeEEEEEEeccCCCccccccceEEE
Q 000228 102 Y---GTNQYGIEVDYWRNT-ISNSGKEPYKTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKV 177 (1825)
Q Consensus 102 ~---~~~~ydI~v~~~~~~-~~~~~~e~y~p~~GDIVlLt~~kP~~~sDL~r~~~~~~la~V~~v~~~~~~~~~~~~~~V 177 (1825)
+ ...++........+. .+ ........+++|++.+++..|...+++.-...++..+.+......... ....
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~k~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~ 152 (827)
T KOG1801|consen 79 NPTSKDLRQLTNEKNIFTKEKS-EKTASSVEKHLDNIRHSDAIGFAASDHIPGLLPYLASPDLEKGPSVDL-----SLAA 152 (827)
T ss_pred CCCchhhhcchhHHHHHhhhhc-cccccccccccchhhhcccCCccccccChhhhhhhccccccccccccc-----ccch
Confidence 1 112233322111110 00 012233458999999998888888876543344444444333322111 0111
Q ss_pred EecCCcccccCCCceEEEEEeeccchhHHHHHHHhcc-CCchhHhhhcCCCCccccchhccccccC-CCCCccCCCCCCC
Q 000228 178 KARNNMQVHDKTKKSFFFIYLTNILPNKRIWNSLHMC-GNWKVITQVLGTDSVVDERCELCSVQRK-GQWDEKFGPSFSS 255 (1825)
Q Consensus 178 ~~sk~i~~~~~~~~~~~~v~L~Nl~T~~Ri~~AL~~~-~n~~li~~IL~~~~~~~~~c~~c~~~~~-~~~~~i~~~~~~~ 255 (1825)
..+.+ ....+.+++.+++|+.|+|.+++.. .+..++...++........|..|..... .............
T Consensus 153 ~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~ 225 (827)
T KOG1801|consen 153 TKSLP-------SLICAGAFLRVLVENKNEYILIACHANNHGLHRPDLRFNEVNERTVHKVFENFSVIGSLFVGDVIRFT 225 (827)
T ss_pred hcccc-------ccchHHHHHHHHhhcchhhhhccccccccccccccccccccccccccccccccccccccchhhhhhhc
Confidence 11111 1111358999999999999999884 3445555556555543333333322211 1111123466778
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCC--ChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh-h
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGT--GKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK-E 332 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGT--GKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~-e 332 (1825)
+|+.+|..++..++....|.+...+.+||||||| |||+|...+...+....+++++|++||.++.++..|+.+... .
T Consensus 226 ~l~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~r~~~~~~~~ 305 (827)
T KOG1801|consen 226 KLSRDQEPLIRGVLSQRNCEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGLDCQMLVCSLSNSNILLLTSRLYKQTARF 305 (827)
T ss_pred ccchhhHHHHhhccCccccccccceeeeeCCCCccccceeccchHHHHHHhcccceeEeeccccchhhhHHHHHhccccC
Confidence 9999999999999999999999999999999999 999999999999999999999999999999999999999876 4
Q ss_pred hhccCCCCCCCCCCCCceEEeccCCCCCcC----chhHHHhHHHHHHHHhhhccCCCCchhhhHhhHHHhhhhHHHHHHH
Q 000228 333 SYKRDSRSNTPICPLGDILLFGNKDRLKVN----PGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIY 408 (1825)
Q Consensus 333 s~~~~~~~~~~~ygLgdIVRfGn~~rmkI~----~eL~~V~LD~RVe~L~~~f~~~~gWr~~L~Sli~lLe~~~~qY~~~ 408 (1825)
+.+ ...|++|+++..++..+|.+. ..+.+++...++..+..++.+..+|...+.++..+++++..++..+
T Consensus 306 s~e------~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ 379 (827)
T KOG1801|consen 306 SSE------KIVYGFGEIVLVENRTQLGIRLNKLISLPNSFGTIPTGSLSELSPPTGGIGSRLFSGEELLENNVPQSEKI 379 (827)
T ss_pred Cch------hhhhcccchhhhhhhHhhhhhhhhhcccccccccccccccchhhccccchhhhhHHHHHhhcCcHHHHHHH
Confidence 433 347899999999999888661 2344455667788899999999999999999999999999988877
Q ss_pred HHHHhhhhcccccchhhHHHhhhhcCCcCCCcchHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHHHHHHHHHHH
Q 000228 409 VEKLKEREDCNVNQSEEKECRKETEGSKGERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLL 488 (1825)
Q Consensus 409 lee~~~~~~~de~~~kr~ei~k~~~~~kk~~lsf~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~~m~~~l~lL 488 (1825)
........... .+.. .........++..+.+.............+.+|+|..++...+...+....+.+
T Consensus 380 ~~~~~~~~~s~---------~~~p--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~v~~~~~~~~ 448 (827)
T KOG1801|consen 380 VLMCLRMGFSL---------IQLP--VDNGRFLSREFAEENLRKLKPLPSIACIDLITHLPTLGLYDTNQVVRIGGGSVL 448 (827)
T ss_pred HHHHHhhchhh---------hccc--hhhccccchhhHHhhhhhcccchhhhhhcchhcCccceEecCCeeEEecCCccc
Confidence 76533221000 0000 011123344455555444443345566778888888876665422211111100
Q ss_pred HHHHh--hhhcCCcchHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCccchhHHHHHh
Q 000228 489 DSFGN--LLFQDNVVSKELEKLFSHSVDEGISWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFC 566 (1825)
Q Consensus 489 ~~le~--LL~~~~i~~eeLk~~f~~l~~~~ks~~~~~~~~~~kL~e~R~ecl~~Lr~L~~~lk~l~lP~~~~r~~I~~~i 566 (1825)
..... .+.......+...+...... .....+.+.+.... +.+.++.......++..+
T Consensus 449 ~~~~~~~~l~~~~~~~~~~~~~~~~~~------------------~i~~~~~~~l~~~~---~~~~i~~~~~~~~~~~~~ 507 (827)
T KOG1801|consen 449 NSGAIETVLEGDKIRKDKNKAIIERFN------------------GLPKNIPKALSIKD---DIFKIPSQLERPEVRILD 507 (827)
T ss_pred eeceeeeeehhhhhhhHHhhhhhhccc------------------cccccchhhhcccc---chhhhhhhccchhhhcch
Confidence 00000 00000000000000000000 01111222222221 223344445556667777
Q ss_pred hc----cCcEEEEccccccc-cccccCCCcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccC
Q 000228 567 FK----RASLFFSTASSSYK-LHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAG 641 (1825)
Q Consensus 567 Lk----~A~VI~~T~Sss~~-L~~l~~~~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~g 641 (1825)
+. .+.+|+||.++++. +......+++.||||||+|+.||+.++||++++.+|++++||+.||||+|.+..+..++
T Consensus 508 ~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k 587 (827)
T KOG1801|consen 508 LGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFK 587 (827)
T ss_pred hhhccccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhcccc
Confidence 77 99999999998887 44455679999999999999999999999998899999999999999999999999999
Q ss_pred CcccHHHHHhhcCCCceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCccc-cc
Q 000228 642 FGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGRED-FI 720 (1825)
Q Consensus 642 l~~SLFERLi~~g~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee-~~ 720 (1825)
+.+|+|+|+...+++.++|++||||||+|+.|||+.||+++|++++++....+.+.|+.+.+++||.|+++..|.|. ..
T Consensus 588 ~~~slf~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~~ 667 (827)
T KOG1801|consen 588 YMTSLFERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAGG 667 (827)
T ss_pred chhhHHHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEecccccccCC
Confidence 99999999999999999999999999999999999999999999999998889999999999999999999889888 55
Q ss_pred ccccCCHHHHHHHHHHHHHHHHhhcCCCC-CceEEEEeecHHHHHHHHHHhchhhcCCCC--CcEEEccccCCCCceeeE
Q 000228 721 YHSCRNIVEVSAVIKILQKLYKAWVGSKQ-KVSIGVVSPYTAQVVAIRKKIGFEYENKDG--FTVKVKSIDGFQGGEEDI 797 (1825)
Q Consensus 721 ~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~-~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~--~~V~V~TVD~FQG~EkDI 797 (1825)
+.|..|..|+.++..++..+.+...+... +..||||+||+.|+..+++.+...++.... ..+.|.|||+|||+|+||
T Consensus 668 ~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~di 747 (827)
T KOG1801|consen 668 GKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDI 747 (827)
T ss_pred CCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCce
Confidence 69999999999999999999998877666 779999999999999999999998873333 589999999999999999
Q ss_pred EEEEeeecCCCCCcccCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceecCccchhHHHH
Q 000228 798 IIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNADEERNLAKA 872 (1825)
Q Consensus 798 VILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~dk~l~~~ 872 (1825)
||+|+||++..|.+||+.+.+|+|||+||||+++|++||..+|...+..|..+|.+++.+||++++..+..+...
T Consensus 748 ii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~~~~~~~~ 822 (827)
T KOG1801|consen 748 IIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAADVNDFDQ 822 (827)
T ss_pred eEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccccccccccchhhh
Confidence 999999999999999999999999999999999999999999999888899999999999999999877665543
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=5.5e-57 Score=558.82 Aligned_cols=389 Identities=29% Similarity=0.415 Sum_probs=315.3
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKES 333 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~es 333 (1825)
.-.||..|+.|+..++.+ .+..||.|=|||||||||+.+|..|+..|++||++|+||.|||||+.||....
T Consensus 667 ~~~LN~dQr~A~~k~L~a------edy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~~--- 737 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAA------EDYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKGFG--- 737 (1100)
T ss_pred HhhcCHHHHHHHHHHHhc------cchheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHHHHHHHhccC---
Confidence 348999999999999985 68999999999999999999999999999999999999999999999998742
Q ss_pred hccCCCCCCCCCCCCceEEeccCCCCCcCchhHHHhHHHHHHHHhhhccCCCCchhhhHhhHHHhhhhHHHHHHHHHHHh
Q 000228 334 YKRDSRSNTPICPLGDILLFGNKDRLKVNPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLK 413 (1825)
Q Consensus 334 ~~~~~~~~~~~ygLgdIVRfGn~~rmkI~~eL~~V~LD~RVe~L~~~f~~~~gWr~~L~Sli~lLe~~~~qY~~~lee~~ 413 (1825)
. .++|+|.++++ +++++++.+..
T Consensus 738 -------------i-~~lRLG~~~ki--h~~v~e~~~~~----------------------------------------- 760 (1100)
T KOG1805|consen 738 -------------I-YILRLGSEEKI--HPDVEEFTLTN----------------------------------------- 760 (1100)
T ss_pred -------------c-ceeecCCcccc--chHHHHHhccc-----------------------------------------
Confidence 2 28999998863 44444442100
Q ss_pred hhhcccccchhhHHHhhhhcCCcCCCcchHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHHHHHHHHHHHHHHHh
Q 000228 414 EREDCNVNQSEEKECRKETEGSKGERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGN 493 (1825)
Q Consensus 414 ~~~~~de~~~kr~ei~k~~~~~kk~~lsf~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~~m~~~l~lL~~le~ 493 (1825)
..++.++
T Consensus 761 -------------------------~~s~ks~------------------------------------------------ 767 (1100)
T KOG1805|consen 761 -------------------------ETSEKSY------------------------------------------------ 767 (1100)
T ss_pred -------------------------ccchhhH------------------------------------------------
Confidence 0000000
Q ss_pred hhhcCCcchHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCccchhHHHHHhhccCcEE
Q 000228 494 LLFQDNVVSKELEKLFSHSVDEGISWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLF 573 (1825)
Q Consensus 494 LL~~~~i~~eeLk~~f~~l~~~~ks~~~~~~~~~~kL~e~R~ecl~~Lr~L~~~lk~l~lP~~~~r~~I~~~iLk~A~VI 573 (1825)
..+ ...+....||
T Consensus 768 ------------------------------------------------~~l-------------------~~~~~~~~IV 780 (1100)
T KOG1805|consen 768 ------------------------------------------------ADL-------------------KKFLDQTSIV 780 (1100)
T ss_pred ------------------------------------------------HHH-------------------HHHhCCCcEE
Confidence 000 0135667899
Q ss_pred EEccccccccccccCCCcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc
Q 000228 574 FSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL 653 (1825)
Q Consensus 574 ~~T~Sss~~L~~l~~~~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~ 653 (1825)
.|||-+..+.-. ....||++|||||+|+..|-++.|+.+. +++||||||.||||.|.+..++..|++.|||+||...
T Consensus 781 a~TClgi~~plf-~~R~FD~cIiDEASQI~lP~~LgPL~~s--~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~ 857 (1100)
T KOG1805|consen 781 ACTCLGINHPLF-VNRQFDYCIIDEASQILLPLCLGPLSFS--NKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEK 857 (1100)
T ss_pred EEEccCCCchhh-hccccCEEEEccccccccchhhhhhhhc--ceEEEecccccCCccccchhhhhcCcchHHHHHHhhh
Confidence 999999886222 2356999999999999999999999865 8999999999999999999999999999999999875
Q ss_pred C-CCceecccccccCcccccccchhccccccccCcccccc----------------cchhccccCC--CCCceEEEEecC
Q 000228 654 N-HSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSK----------------SYEKQYLTGT--EFGTYSFINIIG 714 (1825)
Q Consensus 654 g-~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~----------------~~~~~~l~~~--~~~p~~FIdV~~ 714 (1825)
. ..+..|+.||||+.+|+.++|++||+|+|+.+.....+ ....+|+... ...+++|+++..
T Consensus 858 hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~ 937 (1100)
T KOG1805|consen 858 HPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDT 937 (1100)
T ss_pred CchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCc
Confidence 3 45789999999999999999999999999876543321 1112333211 134677876643
Q ss_pred C--ccc-ccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCC
Q 000228 715 G--RED-FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQ 791 (1825)
Q Consensus 715 G--~ee-~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQ 791 (1825)
. .++ ...+...|..||..+.++++.+++.|.. +.+|||||||++|+.+|++.+... .++|.|||.||
T Consensus 938 ~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv~---~~dIGIis~YraQv~Li~~~l~~~-------~lEinTVD~yQ 1007 (1100)
T KOG1805|consen 938 CSTIESQGEKGGITNHGEAKLISELVEDFVKSGVK---PSDIGIISPYRAQVELIRKILSSA-------VLEINTVDRYQ 1007 (1100)
T ss_pred ccchhhhccccCcCchhHHHHHHHHHHHHHHcCCC---HHHeeeeehHHHHHHHHHhhcccc-------ceeeeehhhhc
Confidence 2 233 4556667999999999999999999886 457999999999999999999765 39999999999
Q ss_pred CceeeEEEEEeeecCCCCCcc-cCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceec
Q 000228 792 GGEEDIIIISTVRCNTGGSIG-FISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFN 862 (1825)
Q Consensus 792 G~EkDIVILS~VRSn~~g~iG-FL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~ 862 (1825)
|+++|+||+|+||+|.....| .|.|.||+|||+||||++||+||+..+|.. .+..++|+++...+..++.
T Consensus 1008 GRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~-~~~~~~l~~~l~~~~~l~~ 1078 (1100)
T KOG1805|consen 1008 GRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLES-YPPFRQLLKLLENRIELLT 1078 (1100)
T ss_pred CCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEeccccccc-CchHHHHHhhhhhhhhHHH
Confidence 999999999999999987776 678999999999999999999999999975 5789999999877665543
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-53 Score=515.67 Aligned_cols=291 Identities=28% Similarity=0.424 Sum_probs=250.9
Q ss_pred hhHHHHHhhccCcEEEEccccccccc-cccCCCcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCccccc-cc
Q 000228 559 KLVLEDFCFKRASLFFSTASSSYKLH-SVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVES-KI 636 (1825)
Q Consensus 559 r~~I~~~iLk~A~VI~~T~Sss~~L~-~l~~~~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S-~~ 636 (1825)
+.....++++.|+||.+|++++++++ .++.-.+.+|||.|||.+.|...+ |...+.+.|+||||||+||.|..-. ..
T Consensus 688 rn~~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiI-aal~p~~EhviLIGDHKQLrP~~~vy~L 766 (1025)
T KOG1807|consen 688 RNVFDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHII-AALTPHTEHVILIGDHKQLRPFSGVYKL 766 (1025)
T ss_pred HHHHHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchh-hhhcccceeEEEecchhhcCCCcchhhH
Confidence 44566789999999999999999855 344567899999999999998854 4444678999999999999997543 45
Q ss_pred ccccCCcccHHHHHhhcCCCceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCc
Q 000228 637 SDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGR 716 (1825)
Q Consensus 637 a~~~gl~~SLFERLi~~g~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ 716 (1825)
+..+++..|+||||+..|.|...|+.||||+|.|++.....||++ +.+++++....- .+++ .....|+......
T Consensus 767 ~q~fnL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~yed----I~gm-s~nlfFv~hnspe 840 (1025)
T KOG1807|consen 767 PQIFNLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKEYED----IRGM-SKNLFFVQHNSPE 840 (1025)
T ss_pred hHhcchhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhccccc----cccc-cceeeEEecCCcc
Confidence 566899999999999999999999999999999999999999986 778887764321 2333 4566777775555
Q ss_pred ccccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceee
Q 000228 717 EDFIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEED 796 (1825)
Q Consensus 717 ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkD 796 (1825)
+..++.|..|..||.+++++++.|++++..+ .+|.|+|+|++|...|++.+.+.+. ..|.|.|||+|||.|.|
T Consensus 841 e~~de~S~~NlhEa~mlv~l~kyli~q~y~p---sdIviLttY~gQk~ci~rllp~~~~----stv~VatVDsfQGeEnd 913 (1025)
T KOG1807|consen 841 ECMDEMSIGNLHEAGMLVKLTKYLIQQQYKP---SDIVILTTYNGQKECIKRLLPQNYR----STVQVATVDSFQGEEND 913 (1025)
T ss_pred cCcchhhhhhHHHHHHHHHHHHHHHhcCCCc---cceEEEeechhHHHHHHHHhHHHhc----CcceEEEeccccCcccc
Confidence 5566799999999999999999999987764 4799999999999999999998865 34999999999999999
Q ss_pred EEEEEeeecCCCCCcccCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceecC
Q 000228 797 IIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNA 863 (1825)
Q Consensus 797 IVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~ 863 (1825)
||++|+||+|.+|.+|||..++|++||+||||++|+||||...++.+.+.|.++|+-.++++.+-.+
T Consensus 914 IVLlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~ 980 (1025)
T KOG1807|consen 914 IVLLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEA 980 (1025)
T ss_pred EEEEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccccc
Confidence 9999999999999999999999999999999999999999999999889999999999998766443
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=5.3e-43 Score=455.81 Aligned_cols=292 Identities=34% Similarity=0.470 Sum_probs=248.9
Q ss_pred HHHHHhhccCcEEEEccccccccccccCCCcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCccccccccccc
Q 000228 561 VLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEA 640 (1825)
Q Consensus 561 ~I~~~iLk~A~VI~~T~Sss~~L~~l~~~~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~ 640 (1825)
.....+...+++|+||++.++. .......||+||||||+|+.++.+++|+.. ++++|++|||+||||++.+......
T Consensus 460 ~~~~~i~~~~~~~~~~~~~a~~-~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~--~~~~il~GD~kQL~p~~~~~~~~~~ 536 (767)
T COG1112 460 KAVTKILEAADVVLSTLSIAGF-SILKKYEFDYVIIDEASQATEPSALIALSR--AKKVILVGDHKQLPPTVFFKESSPE 536 (767)
T ss_pred HHHHHHHHhcCeEEEeccchhH-HHhcccccCEEEEcchhcccchhHHHhHhh--cCeEEEecCCccCCCeecchhhccc
Confidence 3444566666799999888765 222223799999999999999999999975 7999999999999999987655677
Q ss_pred CCcccHHHHHhhcCC-CceecccccccCcccccccchhccccccccCcccccccchhccccCC-CCCceEEEEecCCccc
Q 000228 641 GFGRSLFERLTSLNH-SKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGT-EFGTYSFINIIGGRED 718 (1825)
Q Consensus 641 gl~~SLFERLi~~g~-~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~-~~~p~~FIdV~~G~ee 718 (1825)
++..++|+++...+. ...+|+.||||||.|+.|+|..||+|++..+++...........+.. ...|+.|+++.+..+.
T Consensus 537 ~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 616 (767)
T COG1112 537 GLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEEF 616 (767)
T ss_pred chhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCcccc
Confidence 899999999999876 78999999999999999999999999999888766543322111111 2468999999555443
Q ss_pred ccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceeeEE
Q 000228 719 FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDII 798 (1825)
Q Consensus 719 ~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkDIV 798 (1825)
..+.+..|..||..+..++..+++.+.... +|||||||++|+..|++.+.... ..+.|+|||+|||+|+|||
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 678999999999999999999999887654 49999999999999999997652 5799999999999999999
Q ss_pred EEEeeecCCC-CCcccCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceecCc
Q 000228 799 IISTVRCNTG-GSIGFISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNAD 864 (1825)
Q Consensus 799 ILS~VRSn~~-g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~ 864 (1825)
|+|+||++.. +.+||+.|+||+|||+||||++|||||+..++.. .+.|+.++.+++.++++....
T Consensus 689 i~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~-~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 689 ILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLES-DPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhh-chhHHHHHHHHHhcCcEeecc
Confidence 9999999998 7999999999999999999999999999999975 689999999999999987665
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=3.8e-36 Score=330.63 Aligned_cols=197 Identities=36% Similarity=0.559 Sum_probs=140.2
Q ss_pred CcccHHHHHhhcC-CCceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCccccc
Q 000228 642 FGRSLFERLTSLN-HSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFI 720 (1825)
Q Consensus 642 l~~SLFERLi~~g-~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~ 720 (1825)
+++|||+|+...+ .+.++|++||||||+|++|+|+.||+|+|..+++.................|+.|+|+.+......
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~ 80 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSE 80 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEET
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccccccccc
Confidence 4789999999998 899999999999999999999999999999988766554431111223357899999966655433
Q ss_pred c--cccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceeeEE
Q 000228 721 Y--HSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDII 798 (1825)
Q Consensus 721 ~--~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkDIV 798 (1825)
. +|++|..||+.|+++++.|...+.....+.+|||||||++|+.+|++.+.+.........+.|+|||+|||+|+|||
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 89999999999999999999987754334689999999999999999998764321111299999999999999999
Q ss_pred EEEeeecCCCCCcccCCCCCcceeecccccccEEEEechh
Q 000228 799 IISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSER 838 (1825)
Q Consensus 799 ILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIVGn~~ 838 (1825)
|+|+|+++..+..||+.+++|+|||+||||+++|||||++
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 9999999987889999999999999999999999999973
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3e-34 Score=361.82 Aligned_cols=287 Identities=29% Similarity=0.300 Sum_probs=236.5
Q ss_pred hccCcEEEEcccccccccc--ccCCCcCEEEEEcCCCCChhHHHHHHHhcC-CCcEEEEccCCCCCcccccccccccCCc
Q 000228 567 FKRASLFFSTASSSYKLHS--VEIKPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAGFG 643 (1825)
Q Consensus 567 Lk~A~VI~~T~Sss~~L~~--l~~~~fD~VIIDEAsQa~E~esLIPL~l~~-~krlILVGDpkQLPPtV~S~~a~~~gl~ 643 (1825)
....+++.+|+++++.+.. .....|..+++|||++++|++++||+.... ..++||.|||+||+|++.+..+...|++
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 3456789999988887543 335789999999999999999999997432 3489999999999999999999999999
Q ss_pred ccHHHHHhhcCC------------CceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEE
Q 000228 644 RSLFERLTSLNH------------SKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFIN 711 (1825)
Q Consensus 644 ~SLFERLi~~g~------------~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FId 711 (1825)
+|||+|+..... -.+.|-.+||+||.|...+|+.||.+.|..............| ++.+.|.-
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 999999986521 1467899999999999999999999999876554433222222 23355655
Q ss_pred ecCCccc--ccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccC
Q 000228 712 IIGGRED--FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDG 789 (1825)
Q Consensus 712 V~~G~ee--~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~ 789 (1825)
+ .|..+ ..+.|++|..||..|..++..+....... ..||||||||++|+..|++.+... +..++.|++|..
T Consensus 572 ~-~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~--~~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe~ 644 (775)
T KOG1804|consen 572 A-PGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVAQ--PQDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVEE 644 (775)
T ss_pred c-ccccccccCChhhccHHHHHHHHHHHhccCCCCccc--cccceeeCcHHHHHHHHHHHhccc----CCCCCcccceee
Confidence 5 44444 66789999999999999988887665443 339999999999999999999876 566899999999
Q ss_pred CCCceeeEEEEEeeecCCC------CCcccCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceecC
Q 000228 790 FQGGEEDIIIISTVRCNTG------GSIGFISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNA 863 (1825)
Q Consensus 790 FQG~EkDIVILS~VRSn~~------g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~ 863 (1825)
|||+|+.|||+|+|||... ...+|+++++|+|||+|||+.-++++|+...+.. ++.|+.++..+.++|.+...
T Consensus 645 fqGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~-~~~~~~~l~~~~~n~~y~~c 723 (775)
T KOG1804|consen 645 FQGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGG-DPPWGLLLLLRVENGRYPGC 723 (775)
T ss_pred eccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccC-CCChhhheeeeecCCcccCC
Confidence 9999999999999999875 2234899999999999999999999999998864 78999999999999988776
Q ss_pred ccc
Q 000228 864 DEE 866 (1825)
Q Consensus 864 ~~d 866 (1825)
+-.
T Consensus 724 ~~~ 726 (775)
T KOG1804|consen 724 DFP 726 (775)
T ss_pred CCC
Confidence 543
No 10
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.97 E-value=5.1e-31 Score=292.67 Aligned_cols=105 Identities=30% Similarity=0.509 Sum_probs=69.7
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHH--------HHcCCcEEEEcCChHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTL--------LRIKCRTLACTPTNVAITELASRVL 327 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~L--------Lk~~~RILVcAPTN~AVDEVaeRL~ 327 (1825)
+||++|++||..+++. +.+++||||||||||+|++.++..+ ...+.+||+|||||.|||++++|+.
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 5899999999999873 4479999999999999999999999 4568999999999999999999999
Q ss_pred HHhhhhhccCCCCCCCCCCCCceEEeccCCCCCcCchhHHHhHHHHHHH
Q 000228 328 KLVKESYKRDSRSNTPICPLGDILLFGNKDRLKVNPGFEEIYLNYRIKK 376 (1825)
Q Consensus 328 klv~es~~~~~~~~~~~ygLgdIVRfGn~~rmkI~~eL~~V~LD~RVe~ 376 (1825)
+..... .......++|+|+.. ....+++..+.++..++.
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 234556666655554443
No 11
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.97 E-value=1e-30 Score=324.55 Aligned_cols=488 Identities=24% Similarity=0.326 Sum_probs=326.3
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
...|+.|.+||.+... ++.+.+.||||||||-+++.++..+... ..|+|+++.+|.|...+.+++.+.-.+
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 4578999999998864 8999999999999999999999999875 789999999999999999998775221
Q ss_pred hhccCCCCCCCCCCCCceEEeccCCCCCc-Cchh-----------HHHhHHHHHHHHhhhccCCCCchh-hhHhhHHHhh
Q 000228 333 SYKRDSRSNTPICPLGDILLFGNKDRLKV-NPGF-----------EEIYLNYRIKKLRECFAPLSGWRH-CFSSMIDLLE 399 (1825)
Q Consensus 333 s~~~~~~~~~~~ygLgdIVRfGn~~rmkI-~~eL-----------~~V~LD~RVe~L~~~f~~~~gWr~-~L~Sli~lLe 399 (1825)
-+.+.|.|+++.--- +.+. +..-+-+-+++|...+.....-.. +-.++..++.
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 123556665432100 1111 112255566666666554333333 2234444444
Q ss_pred hhHHHHHHHHHHHhhhhcccccchhhHHHhhhhcCCcCCCcchHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCChhhHH
Q 000228 400 DCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKGERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQ 479 (1825)
Q Consensus 400 ~~~~qY~~~lee~~~~~~~de~~~kr~ei~k~~~~~kk~~lsf~efvkerf~~l~~~L~~~i~~L~t~lP~s~iS~~~~~ 479 (1825)
...+.+.+++....+..+.+. ..+.. ....|.+|+. ..|...+...+..
T Consensus 876 ~V~~~wee~l~~v~~~~~~~~----~~~~~--------~~fpf~~~f~-------------------d~p~~vfeg~n~~ 924 (1320)
T KOG1806|consen 876 YVKRRWEEYLAKVDKGCDKDS----VDIVS--------NRFPFHSYFG-------------------DKPKPPFEGYNKE 924 (1320)
T ss_pred HHHhhhHHHHHHhccCCCchh----hhhHh--------hhCcchhhhh-------------------cCCCccccccchh
Confidence 444444444433221000000 00000 0112222221 1222222111111
Q ss_pred -HHHHHHHHHHHHHhhhhcCCcchHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc---ccCCC
Q 000228 480 -EMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGISWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDE---LNLPC 555 (1825)
Q Consensus 480 -~m~~~l~lL~~le~LL~~~~i~~eeLk~~f~~l~~~~ks~~~~~~~~~~kL~e~R~ecl~~Lr~L~~~lk~---l~lP~ 555 (1825)
.|- ....|+..++..-+.+.+ +++|.
T Consensus 925 ~d~~--------------------------------------------------~a~~cf~hl~~ifqqLee~rafellr 954 (1320)
T KOG1806|consen 925 NDMD--------------------------------------------------YATGCFRHLEYIFQQLEEFRAFELLR 954 (1320)
T ss_pred hhhh--------------------------------------------------hhhhhHHHHHHHHHHHHhcccccccc
Confidence 111 112222222222222222 22222
Q ss_pred ccchhHHHHHhhccCcEEEEccccccc-ccccc--CCCcCEEEEEcCCCCChhHHHHHHHhcC-------CCcEEEEccC
Q 000228 556 TTSKLVLEDFCFKRASLFFSTASSSYK-LHSVE--IKPLNFLVIDEAAQLKESESTIPLQLAG-------INHAVLIGDE 625 (1825)
Q Consensus 556 ~~~r~~I~~~iLk~A~VI~~T~Sss~~-L~~l~--~~~fD~VIIDEAsQa~E~esLIPL~l~~-------~krlILVGDp 625 (1825)
.........+-+.|.||.||+..++. ...+- ...||-+++.|+||+.|.+..||+.+.. .+++|++|||
T Consensus 955 -~~~dr~~Yll~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdh 1033 (1320)
T KOG1806|consen 955 -SGEDRELYLLVKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDH 1033 (1320)
T ss_pred -cchhHhhccCcccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccc
Confidence 33334444556899999999988764 22211 3578999999999999999999998632 4689999999
Q ss_pred CCCCccccccc-ccccCCcccHHHHHhhcCCCceecccccccCcccccccchhccccccccCcccccccchhccccCCCC
Q 000228 626 CQLPAMVESKI-SDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEF 704 (1825)
Q Consensus 626 kQLPPtV~S~~-a~~~gl~~SLFERLi~~g~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~ 704 (1825)
.|+||.+.... +......+|+|.|+...+.+.+-|+.|+|..++|+.+.+.. |.+ +...+.+..-...+..-.| ..
T Consensus 1034 hqlPPv~~n~afqkysnm~qslf~r~vRl~ip~i~lnaqgrar~sI~~Ly~wr-y~l-Lg~l~~v~~lp~f~~aNag-f~ 1110 (1320)
T KOG1806|consen 1034 HQLPPVVKNQAFQKYSNMEQSLFTRLVRLGVPIIDLNAQGRARASIASLYNWR-YPL-LGNLPHVSPLPRFQYANAG-FA 1110 (1320)
T ss_pred cccCCcccchHHHHHhcchhhhhhcceecccceecchhhhhHHHHHHHHHHhh-hcc-cccCcCCccchhhhccccC-ce
Confidence 99999996653 33446789999999999999999999999999999998865 543 3444444322111111011 12
Q ss_pred CceEEEEecC----CcccccccccCCHHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhc--CCC
Q 000228 705 GTYSFINIIG----GREDFIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYE--NKD 778 (1825)
Q Consensus 705 ~p~~FIdV~~----G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~--~~~ 778 (1825)
-++.|+++++ |+.+.....+.|..||+.++.+...+.--|.+.. .|.|+|.|++|+..|++.+..+.. +..
T Consensus 1111 ~~~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgypa~---Kisilttyngq~~lirdii~rrc~~nPfi 1187 (1320)
T KOG1806|consen 1111 YEFQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGYPAN---KISILTTYNGQKSLIRDIINRRCSHNPFI 1187 (1320)
T ss_pred eeEEEecchhhccccccCCCcccccCCchhhhHHHHHHHHHHhCCchh---HeeEEEeecchHHHHHHHHHHhccCCCcc
Confidence 4789999864 2223677889999999999999999888877655 499999999999999999988876 566
Q ss_pred CCcEEEccccCCCCceeeEEEEEeeecCCCCCcccCCCCCcceeecccccccEEEEechhhhccc---chHHHHHHHHH
Q 000228 779 GFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSERTLISS---ESIWGALVCDA 854 (1825)
Q Consensus 779 ~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s---~~~Wk~LI~~a 854 (1825)
+..-.|.|||.|||+..|.||+|+||+. .+|.+.|.+|+.||++|||.+++|.+....+.+. -+.|..+-..-
T Consensus 1188 g~pAkv~tvdk~qgqqndfiIlslv~tr---~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~p 1263 (1320)
T KOG1806|consen 1188 GQPAKVTTVDKFQGQQNDFIILSLVRTR---EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKRP 1263 (1320)
T ss_pred CCcccCCccccccccccceEEeeehhhh---hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhCc
Confidence 7788999999999999999999999987 4889999999999999999999999998877543 24566655443
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.92 E-value=3.7e-24 Score=274.84 Aligned_cols=225 Identities=19% Similarity=0.246 Sum_probs=140.2
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhc---CCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc-C-CCceecccc
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLA---GINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL-N-HSKHLLNIQ 663 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~---~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~-g-~~~~~L~~Q 663 (1825)
.+|++|+|||+++++..+.-+.-.+. +..++++|||+.|.-. ...|-...++..+... + ...+.|+++
T Consensus 429 ~~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY-------~frGa~~~~~~~f~~~f~~~~~~~L~~n 501 (684)
T PRK11054 429 SPWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIY-------RFSGADLSLTTAFHERFGEGDRCHLDTT 501 (684)
T ss_pred hcccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCcccc-------ccCCCChHHHHHHHhhcCCCeEEEeCCC
Confidence 46999999999999998865544442 2358999999999632 2234444555554432 2 246789999
Q ss_pred cccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHHHHh
Q 000228 664 YRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKA 743 (1825)
Q Consensus 664 YRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~ 743 (1825)
||++++|.+++|..+=++ +......... ...+. .|.+.+-- ..+++.+++.+..+...
T Consensus 502 YRs~~~I~~~An~~i~~n-----~~~~~k~l~s-~~~g~--~p~v~~~~--------------~~~~~~il~~l~~~~~~ 559 (684)
T PRK11054 502 YRFNSRIGEVANRFIQQN-----PHQLKKPLNS-LTKGD--KKAVTLLP--------------EDQLEALLDKLSGYAKP 559 (684)
T ss_pred CCCCHHHHHHHHHHHHhC-----ccccCCcccc-cCCCC--CceEEEeC--------------CHHHHHHHHHHHHhhcC
Confidence 999999999999654221 1100000000 00111 12222111 12455555555554422
Q ss_pred hcCCCCCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCceeeEEEEEeeecCCCCC-------------
Q 000228 744 WVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGS------------- 810 (1825)
Q Consensus 744 ~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~------------- 810 (1825)
..+|+||++|+.+...+-+.....+. ..+|.+.|+|...|.|+|.||+-.+.....|-
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 34899999999988766655554432 33799999999999999999997665432100
Q ss_pred ----cccC--CCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcC
Q 000228 811 ----IGFI--SKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQ 858 (1825)
Q Consensus 811 ----iGFL--~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rg 858 (1825)
-.|. .++|.++||+||||+.++|+.+... .+.||....+.+
T Consensus 631 ~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~~-------~S~fv~el~~~~ 677 (684)
T PRK11054 631 LPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKGN-------PSPFVEELKNLD 677 (684)
T ss_pred cccccccccHHHHHHHHHHhhhhhcEEEEEEcCCC-------CCHHHHHHhhCC
Confidence 0111 2366699999999999999987431 234555555443
No 13
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.88 E-value=1.2e-20 Score=246.15 Aligned_cols=67 Identities=34% Similarity=0.363 Sum_probs=59.6
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.||+.|++||... .+-.+|-|+||||||+|++..++.|+.. ..+||++++||.|+.||.+|+.+++.
T Consensus 4 ~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 4 HLNPEQREAVKTT---------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred ccCHHHHHHHhCC---------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 6999999999854 5678899999999999999999999974 36899999999999999999988743
No 14
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.88 E-value=1.1e-20 Score=246.19 Aligned_cols=67 Identities=30% Similarity=0.377 Sum_probs=59.9
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
+||+.|++||... .+..+|-|+||||||+|++..++.|+.. ..+||++++||.|+.||.+|+.+++.
T Consensus 9 ~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 9 SLNDKQREAVAAP---------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred hcCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 6999999999854 4678899999999999999999999973 47899999999999999999998753
No 15
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.87 E-value=1.7e-20 Score=244.47 Aligned_cols=67 Identities=31% Similarity=0.361 Sum_probs=59.9
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.||+.|++||... .+..+|-|+||||||+|++..++.|+.. ..+||++|+||.|++||.+|+.+++.
T Consensus 4 ~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 4 GLNDKQREAVAAP---------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred ccCHHHHHHHcCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 6999999999754 4678999999999999999999999974 36899999999999999999998754
No 16
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.86 E-value=8.5e-20 Score=235.94 Aligned_cols=66 Identities=30% Similarity=0.333 Sum_probs=58.8
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.||+.|++||... .+..+|.|+||||||+|++..++.|+.. ..+||++++||.|++||.+|+.+.+
T Consensus 2 ~Ln~~Q~~av~~~---------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 2 RLNPGQQQAVEFV---------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHh
Confidence 5999999999864 4667888999999999999999999964 3689999999999999999999864
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=99.85 E-value=3.3e-20 Score=235.15 Aligned_cols=64 Identities=41% Similarity=0.474 Sum_probs=56.5
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC-----CcEEEEcCChHHHHHHHHHHHHH
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK-----CRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~-----~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+.|+.|+..++. +++.+|.||||||||||+..++..+.... .+|+++|||+.|+..+.+.+...
T Consensus 148 ~~Qk~A~~~al~-------~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~ 216 (586)
T TIGR01447 148 NWQKVAVALALK-------SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKA 216 (586)
T ss_pred HHHHHHHHHHhh-------CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhh
Confidence 689999999986 68999999999999999999999987642 58999999999999887777553
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=99.84 E-value=6.3e-20 Score=238.06 Aligned_cols=62 Identities=26% Similarity=0.304 Sum_probs=55.6
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCChHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTNVAITEL 322 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN~AVDEV 322 (1825)
.+.||+.|++||..+.. +++.+|+|||||||||++.+++..+-..+ .+|++||||+.|++.+
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 46899999999999865 57999999999999999999998888777 8899999999999843
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.82 E-value=1.5e-19 Score=229.69 Aligned_cols=66 Identities=35% Similarity=0.462 Sum_probs=58.1
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
..+.|++|+..++. +++.+|.||||||||||+..++..+++. +.+|+++|||+.|+..+.+++...
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 45899999999986 6899999999999999999999998764 358999999999999988887654
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=99.81 E-value=2.1e-17 Score=225.50 Aligned_cols=68 Identities=22% Similarity=0.239 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC---CcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK---CRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~---~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
++++.|++||..- +.-.+|.|++|||||+|++..+..++..+ .+||++++||.|+.||.+||.+.+.+
T Consensus 1 ~~t~~Q~~ai~~~---------~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~ 71 (1232)
T TIGR02785 1 QWTDEQWQAIYTR---------GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQK 71 (1232)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHH
Confidence 4789999999832 45679999999999999999999888755 46999999999999999999987664
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=99.77 E-value=8.6e-18 Score=219.06 Aligned_cols=64 Identities=19% Similarity=0.188 Sum_probs=57.1
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHH
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITEL 322 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEV 322 (1825)
..+.||+.|++||..++. .+++.+|+||||||||+++.+++..+-..|.+|+.||||+.|+..+
T Consensus 349 ~~~~Ls~~Q~~Av~~i~~------s~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L 412 (744)
T TIGR02768 349 QHYRLSEEQYEAVRHVTG------SGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGL 412 (744)
T ss_pred ccCCCCHHHHHHHHHHhc------CCCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHH
Confidence 347899999999999875 2579999999999999999999888888899999999999999865
No 22
>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=99.75 E-value=2.3e-16 Score=213.38 Aligned_cols=175 Identities=15% Similarity=0.035 Sum_probs=107.7
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhcC-CC--cEEEEccCCCCCcccccccccccCCcccHHHHHhhcCCCceecccccc
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG-IN--HAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~~-~k--rlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g~~~~~L~~QYR 665 (1825)
..|++|+|||+++.+..+.-|.-.+.+ .. .+++||||+|- +....|-+...|-++.......+.|+++||
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 589999999999999998766555432 22 79999999995 233444455556555443335689999999
Q ss_pred cCcccccccchhcccccccc-----Ccccccccc---hhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHH
Q 000228 666 MHPSISLFPNLQFYRNQILD-----GANVKSKSY---EKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKIL 737 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d-----~~sv~~~~~---~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV 737 (1825)
++|.|.++.|..|-...-.. ...+..... .....++...+++.++..... .. +...+-..+|+.+.+.+
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~--~~~~~~~~~a~~~a~~I 444 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVE-SE--GVDDYRQTIAQKCAREI 444 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCc-cc--ccchHHHHHHHHHHHHH
Confidence 99999999999885421110 000110000 000112222345666554221 11 11112234566777777
Q ss_pred HHHHHhhc------------CCCCCceEEEEeecHHHHHHHHHHhchh
Q 000228 738 QKLYKAWV------------GSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 738 ~~Ll~~~~------------~~~~~~dIgIITPY~aQv~~Ir~~L~~~ 773 (1825)
..++..+. .+....+|+|+++.+.|...|++.|.+.
T Consensus 445 ~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~ 492 (1087)
T TIGR00609 445 ALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKA 492 (1087)
T ss_pred HHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHC
Confidence 77775531 1224569999999999999999998543
No 23
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.74 E-value=2.6e-16 Score=209.85 Aligned_cols=158 Identities=17% Similarity=0.193 Sum_probs=102.2
Q ss_pred CCCcCEEEEEcCCCCChhHHHHHHHh-----cC-----CCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc-CCC
Q 000228 588 IKPLNFLVIDEAAQLKESESTIPLQL-----AG-----INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL-NHS 656 (1825)
Q Consensus 588 ~~~fD~VIIDEAsQa~E~esLIPL~l-----~~-----~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~-g~~ 656 (1825)
...|++|+|||+++++..+.-+...+ .+ .+.+++|||++|- +....|-...+|.++... +..
T Consensus 326 ~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS-------IY~FRGA~~~~f~~~~~~~~~~ 398 (910)
T PRK13909 326 DSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS-------IYRFRGGKKELFDKVSKDFKQK 398 (910)
T ss_pred hcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh-------hhhhcCCChHHHHHHHHHhhhh
Confidence 35899999999999999885443332 11 3579999999995 233445566788877543 124
Q ss_pred ceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHH
Q 000228 657 KHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKI 736 (1825)
Q Consensus 657 ~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~i 736 (1825)
...|+++||++|.|.+|.|..|-.. ....+.. . . ......+.+.+... .. ....+++.+++.
T Consensus 399 ~~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~~---~---~-~~~~~~g~v~i~~~-~~---------~~~~~a~~ia~~ 460 (910)
T PRK13909 399 VDNLDTNYRSAPLIVDFVNEVFKKK-YKNYKTQ---Y---A-EQHKSGGYVEVVEV-AD---------ESEELLEQLLQE 460 (910)
T ss_pred hcccccCCCCChHHHHHHHHHHHHH-HHhhhhh---h---c-ccccCCCcEEEEEC-CC---------ccHHHHHHHHHH
Confidence 6789999999999999999888442 1110000 0 0 00011122222211 10 123467888888
Q ss_pred HHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchh
Q 000228 737 LQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 737 V~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~ 773 (1825)
|..++..+.. ..+|+||++.+.|+..+.+.|.+.
T Consensus 461 I~~l~~~g~~---~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 461 IQFLLEKGID---PDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHcCCC---cCCEEEEEecCccHHHHHHHHHhc
Confidence 9888877543 458999999998888888777554
No 24
>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=99.70 E-value=9.6e-15 Score=199.42 Aligned_cols=174 Identities=16% Similarity=0.150 Sum_probs=101.3
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhcC------------CCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc---
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG------------INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL--- 653 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~~------------~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~--- 653 (1825)
..|++|+|||+++.+..+.-|...+.. .+.+++|||++|. +....|-+..+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQS-------IY~FRGAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQS-------IYSFQGADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCccc-------CccccCCCHHHHHHHHHHHHH
Confidence 589999999999999998655444321 3679999999996 344455567777665331
Q ss_pred -------CCCceecccccccCcccccccchhccccccccC-cccccccchhccccCCCCCceEEEEecCCc--cccc---
Q 000228 654 -------NHSKHLLNIQYRMHPSISLFPNLQFYRNQILDG-ANVKSKSYEKQYLTGTEFGTYSFINIIGGR--EDFI--- 720 (1825)
Q Consensus 654 -------g~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~-~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~--ee~~--- 720 (1825)
......|+++||++|.|.++.|..|-+.....+ +.............+ ..+.+.++...... +...
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~~~-~~g~v~l~~~~~~~~~~~~~~~~ 541 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIRSD-LPGEVELWDLISPEEGEDPEDWT 541 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccccC-CCCceEEEeccCccccccccccc
Confidence 123578999999999999999999865221111 000000000000011 11233332221110 0000
Q ss_pred ------ccccCCHHHHHHHHHHHHHHHHhhcC-------CCCCceEEEEeecHHH-HHHHHHHh
Q 000228 721 ------YHSCRNIVEVSAVIKILQKLYKAWVG-------SKQKVSIGVVSPYTAQ-VVAIRKKI 770 (1825)
Q Consensus 721 ------~~S~~N~~EA~~Vv~iV~~Ll~~~~~-------~~~~~dIgIITPY~aQ-v~~Ir~~L 770 (1825)
........||+.|++.|+.++..+.. +....+|+|+++.+.+ ...|.+.|
T Consensus 542 ~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL 605 (1141)
T TIGR02784 542 APVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRAL 605 (1141)
T ss_pred cccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHH
Confidence 00111225889999999998876521 1235689999987765 45555555
No 25
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.70 E-value=6.2e-16 Score=204.70 Aligned_cols=63 Identities=17% Similarity=0.162 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITEL 322 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEV 322 (1825)
.+.||+.|++||....+ .+.+.+|+|+|||||||++..+...+-..|.+|+.+|||+.|+..+
T Consensus 379 ~~~Ls~eQ~~Av~~i~~------~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L 441 (1102)
T PRK13826 379 HARLSDEQKTAIEHVAG------PARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGL 441 (1102)
T ss_pred CCCCCHHHHHHHHHHhc------cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHH
Confidence 46899999999998643 3689999999999999999999888888899999999999999865
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.69 E-value=5.1e-16 Score=204.77 Aligned_cols=63 Identities=16% Similarity=0.177 Sum_probs=55.2
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITEL 322 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEV 322 (1825)
.+.||+.|++||..+++. +++.+|+|+|||||||++..+...+-..|.+|+.||||+.|+..+
T Consensus 344 g~~Ls~eQr~Av~~il~s------~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L 406 (988)
T PRK13889 344 GLVLSGEQADALAHVTDG------RDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENL 406 (988)
T ss_pred CCCCCHHHHHHHHHHhcC------CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHH
Confidence 467999999999998762 569999999999999998887777767799999999999999864
No 27
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.69 E-value=6.1e-15 Score=200.30 Aligned_cols=175 Identities=15% Similarity=0.090 Sum_probs=104.4
Q ss_pred CCCcCEEEEEcCCCCChhHHHHHHHhcC---CCcEEEEccCCCCCcccccccccccCCcccHHHHHhhcCCCceeccccc
Q 000228 588 IKPLNFLVIDEAAQLKESESTIPLQLAG---INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQY 664 (1825)
Q Consensus 588 ~~~fD~VIIDEAsQa~E~esLIPL~l~~---~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g~~~~~L~~QY 664 (1825)
...|++|+|||+++++..+.-|...+.+ ...+++||||+|--- ...|-+...|-.........+.|+++|
T Consensus 375 ~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQsIY-------~FRGAd~~~~l~~~~~~~~~~~L~~Ny 447 (1181)
T PRK10876 375 RTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQAIY-------AFRGADIFTYMKARSEVSAHYTLDTNW 447 (1181)
T ss_pred HhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccccc-------cCCCCCchHHHHHHhccCCeeECCCCc
Confidence 3589999999999999998766555542 246999999999632 222333322322222223467899999
Q ss_pred ccCcccccccchhccccccc------cCccccc--ccchhcc-ccCCCCCceEEEEecCCcccccccccCCHHHHHHHHH
Q 000228 665 RMHPSISLFPNLQFYRNQIL------DGANVKS--KSYEKQY-LTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIK 735 (1825)
Q Consensus 665 RMhP~Is~fpNk~FY~gkL~------d~~sv~~--~~~~~~~-l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~ 735 (1825)
|++|.|.++.|..|-...-. +...+.. ......+ ..+...++..+.-. .+. +.........||+.|++
T Consensus 448 RS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~--~~~~~~~~~~eA~~iA~ 524 (1181)
T PRK10876 448 RSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGE--GVGVGDYQQTMAQQCAA 524 (1181)
T ss_pred CcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCC--ccCcchHHHHHHHHHHH
Confidence 99999999999988553210 0000000 0000000 00111123333322 111 11112233568888888
Q ss_pred HHHHHHHhhc------------CCCCCceEEEEeecHHHHHHHHHHhch
Q 000228 736 ILQKLYKAWV------------GSKQKVSIGVVSPYTAQVVAIRKKIGF 772 (1825)
Q Consensus 736 iV~~Ll~~~~------------~~~~~~dIgIITPY~aQv~~Ir~~L~~ 772 (1825)
.|..++..+. .+....||+|+++.+.|...+++.|.+
T Consensus 525 ~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~ 573 (1181)
T PRK10876 525 QIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTL 573 (1181)
T ss_pred HHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHh
Confidence 8888886542 122457999999999999999999854
No 28
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.69 E-value=2.9e-15 Score=203.22 Aligned_cols=178 Identities=17% Similarity=0.109 Sum_probs=111.6
Q ss_pred CCCcCEEEEEcCCCCChhHHHHHHHhcC-----CCcEEEEccCCCCCcccccccccccCCcccHHHHHhh--cCCCceec
Q 000228 588 IKPLNFLVIDEAAQLKESESTIPLQLAG-----INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTS--LNHSKHLL 660 (1825)
Q Consensus 588 ~~~fD~VIIDEAsQa~E~esLIPL~l~~-----~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~--~g~~~~~L 660 (1825)
...|+.+.|||+++....+.-|--.+.. ...++|||||||. +....|-+..+|..... .....+.|
T Consensus 376 r~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQS-------IY~FRgAD~~~f~~a~~~~~~~~~~~L 448 (1139)
T COG1074 376 REQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQS-------IYRFRGADIFTFLEAASSEKAFARITL 448 (1139)
T ss_pred HhcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHH-------hhhhcCCChHHHHHHhhccccCceeec
Confidence 3689999999999999988655444432 2489999999995 45566777888888777 45678999
Q ss_pred ccccccCcccccccchhccccc------cccCcccccccchh--c-cccCCCCCceEEEEecCC-ccccc--ccccCCHH
Q 000228 661 NIQYRMHPSISLFPNLQFYRNQ------ILDGANVKSKSYEK--Q-YLTGTEFGTYSFINIIGG-REDFI--YHSCRNIV 728 (1825)
Q Consensus 661 ~~QYRMhP~Is~fpNk~FY~gk------L~d~~sv~~~~~~~--~-~l~~~~~~p~~FIdV~~G-~ee~~--~~S~~N~~ 728 (1825)
+++||+.|.+.++.|..|=+-. +...+ +....... . ...+.......+...+.. ..+.. ........
T Consensus 449 ~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~ 527 (1139)
T COG1074 449 ETNYRSTPELLNAVNALFKQAMFAYPGEIDYDP-VAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADL 527 (1139)
T ss_pred ccccCCcHHHHHHHHHHHhhhhhhcCCCCCCch-hhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHHHHHH
Confidence 9999999999999999986421 11101 00000000 0 000000111111111110 01101 11334455
Q ss_pred HHHHHHHHHHHHHHhhc-----CCCCCceEEEEeecHHHHHHHHHHhchh
Q 000228 729 EVSAVIKILQKLYKAWV-----GSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 729 EA~~Vv~iV~~Ll~~~~-----~~~~~~dIgIITPY~aQv~~Ir~~L~~~ 773 (1825)
||..|...+..+...+. .....+||+|+++-++++..|++.|.+.
T Consensus 528 ~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 528 EARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 66777777777665331 3456789999999999999999999765
No 29
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.66 E-value=1.3e-14 Score=188.26 Aligned_cols=157 Identities=15% Similarity=0.058 Sum_probs=98.2
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhcC-CCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc--CCCceecccccc
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL--NHSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~~-~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~--g~~~~~L~~QYR 665 (1825)
..|++|+|||+++++..+.-+.-.+.+ ..++++|||++|-.- ...|-+...|.++... +...+.|+++||
T Consensus 205 ~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~vGD~~QsIY-------~frga~~~~~~~~~~~~~~~~~~~L~~NyR 277 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVGDDDQSIY-------SWRGARPENLVLLKEDFPQLKVIKLEQNYR 277 (664)
T ss_pred HhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEEEcCCccccc-------CCCCCCHHHHHHHHHhCCCCeEEECCCCCC
Confidence 578999999999999998665555443 358999999999522 2223334444444332 234678999999
Q ss_pred cCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHHHHhhc
Q 000228 666 MHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAWV 745 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~~ 745 (1825)
++|+|.++.|..|-.+. ....+. ........+++.++...+ ...|++.|++.|.......
T Consensus 278 s~~~Il~~~n~l~~~~~-----~~~~~~---~~~~~~~g~~v~~~~~~~-----------~~~Ea~~ia~~I~~~~~~~- 337 (664)
T TIGR01074 278 STGRILKAANILIANNP-----HVFEKK---LFSELGYGEKIKVIECNN-----------EEHEAERIAGEIIAHKLVN- 337 (664)
T ss_pred ChHHHHHHHHHHHhcCc-----cccccc---ccccCCCCCceEEEeCCC-----------HHHHHHHHHHHHHHHHHcC-
Confidence 99999999998653321 000000 000001112333333311 2458888877765322211
Q ss_pred CCCCCceEEEEeecHHHHHHHHHHhchh
Q 000228 746 GSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 746 ~~~~~~dIgIITPY~aQv~~Ir~~L~~~ 773 (1825)
.....+|+||++.+.|...|...|.+.
T Consensus 338 -~~~~~diAVL~R~~~~~~~l~~~l~~~ 364 (664)
T TIGR01074 338 -KTQYKDYAILYRGNHQSRLLEKALMQN 364 (664)
T ss_pred -CCCcccEEEEEecCchHHHHHHHHHHc
Confidence 223468999999999999999999876
No 30
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.63 E-value=7.8e-16 Score=171.60 Aligned_cols=65 Identities=38% Similarity=0.452 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeR 325 (1825)
.||+.|++|+...+.. ...+.+|+||||||||+++..++..+...+.+|+++||||.|++++.++
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 4899999999999862 3579999999999999999999999999999999999999999986665
No 31
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.53 E-value=7.5e-13 Score=171.84 Aligned_cols=157 Identities=15% Similarity=0.090 Sum_probs=108.2
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhcC-CCcEEEEccCCCCCcccccccccccCCcccHHHHHhhcC--CCceecccccc
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLN--HSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~~-~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g--~~~~~L~~QYR 665 (1825)
.+|++|+|||+++.+..+..+.-.+.+ ...+++|||+.|.- ....|-....+.++.... .+.+.|..+||
T Consensus 212 ~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQsI-------Y~frGA~~~ni~~f~~df~~~~~i~Le~NyR 284 (655)
T COG0210 212 ARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQSI-------YGFRGADPENILDFEKDFPAAKVIKLEQNYR 284 (655)
T ss_pred hhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCcccc-------ceeCCCChHHHHHHHhhCCCCcEEEecCCCC
Confidence 589999999999999988655555544 46888999999952 234455555655555442 36899999999
Q ss_pred cCcccccccchhccccccccCcccccccchhcccc-CCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHHHHhh
Q 000228 666 MHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLT-GTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAW 744 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~-~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~ 744 (1825)
+.|.|....|...=++ +....+. .+.. ......+.++ .......||..+...+..+...+
T Consensus 285 St~~Il~~An~~i~~n-----~~r~~k~---l~~~~~~~~~~~~~~-----------~~~~~~~ea~~i~~~I~~l~~~~ 345 (655)
T COG0210 285 STPNILAAANKVIANN-----KKRQAKT---LRTEVEGSGEKVVLL-----------LANDEEDEARWIASEIDALIEIG 345 (655)
T ss_pred CcHHHHHHHHHHHhcC-----CccCCCc---ceeccCCCCCCceEE-----------eCCChHHHHHHHHHHHHHHHHcC
Confidence 9999999999765311 1111111 1111 1111122222 22334679999999999999887
Q ss_pred cCCCCCceEEEEeecHHHHHHHHHHhchh
Q 000228 745 VGSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 745 ~~~~~~~dIgIITPY~aQv~~Ir~~L~~~ 773 (1825)
. ....+|+|+...+.|...+.+.+...
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 23568999999999999999999854
No 32
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.52 E-value=3.5e-13 Score=164.65 Aligned_cols=207 Identities=23% Similarity=0.197 Sum_probs=139.2
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhc----CCCceeccccc
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL----NHSKHLLNIQY 664 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~----g~~~~~L~~QY 664 (1825)
..+..+|||||+.....+..---.+.++..+..+||-.|--- ..++ ..+.++|+... .+..+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i~-------~~~~-e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVIY-------DEAQ-ELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCceeh-------hhhc-ccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 467999999999988766444334566788999999999511 1111 13444554322 24567899999
Q ss_pred ccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHHHHhh
Q 000228 665 RMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAW 744 (1825)
Q Consensus 665 RMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~ 744 (1825)
|++.+|.+|+|...= +... .+++. . +|..+..-.+-.|..=++.+-+++.++-+.+
T Consensus 599 rSt~eI~efan~~l~-----d~~~--~~p~~----------------r-sge~p~~i~~~~ne~l~qr~~~ii~~mkk~~ 654 (747)
T COG3973 599 RSTAEIDEFANSLLP-----DRFR--IHPLT----------------R-SGEKPAVIMSVANEELVQRNPDIIPRMKKRG 654 (747)
T ss_pred cChHHHHHHHHHhcc-----CCCc--cchhh----------------c-CCCCceeeeccchHHHHHhhHHHHHHHHhcC
Confidence 999999999996532 1111 00100 0 2222222334456666777888888888775
Q ss_pred cCCCCCceEEEEeecHHHHHHHHHHhchhhc--------CCCCCcEEEccccCCCCceeeEEEEEeeecCCCCCcccCCC
Q 000228 745 VGSKQKVSIGVVSPYTAQVVAIRKKIGFEYE--------NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISK 816 (1825)
Q Consensus 745 ~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~--------~~~~~~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d 816 (1825)
. ..||||||...|...+-+.|+..-. ..-.....|--|+-..|.|+|.||+--.. +-. .--.+
T Consensus 655 ~-----etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e---~te~~ 725 (747)
T COG3973 655 S-----ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVE---ETEQD 725 (747)
T ss_pred C-----CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhc---ccccc
Confidence 4 3699999999999999998875422 22334678889999999999998874221 110 01236
Q ss_pred CCcceeecccccccEEEEec
Q 000228 817 PQRVNVALTRARHCLWILGS 836 (1825)
Q Consensus 817 ~rRLNVALTRAK~~LiIVGn 836 (1825)
.+-++||+|||-|.|+|+|-
T Consensus 726 ~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 726 LRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 78899999999999999874
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.50 E-value=9.7e-13 Score=181.00 Aligned_cols=64 Identities=22% Similarity=0.276 Sum_probs=54.4
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH----cCCcEEEEcCChHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR----IKCRTLACTPTNVAITEL 322 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk----~~~RILVcAPTN~AVDEV 322 (1825)
...||+.|++||..++.. .+.+.+|+|+|||||||++..++..+-. .+.+|+.||||+.|+.++
T Consensus 965 ~~~Lt~~Q~~Av~~il~s-----~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 965 MEGLTSGQRAATRMILES-----TDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEM 1032 (1747)
T ss_pred cCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHH
Confidence 357999999999999873 3579999999999999999888777643 356899999999999865
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.48 E-value=7.7e-13 Score=179.80 Aligned_cols=64 Identities=22% Similarity=0.278 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH----cCCcEEEEcCChHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR----IKCRTLACTPTNVAITELA 323 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk----~~~RILVcAPTN~AVDEVa 323 (1825)
..||+.|++||..++.. .+.+.+|+|+|||||||++..++..+.. .+.+|+.+|||+.|+.++.
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 4689999999999999999887665432 3678999999999998763
No 35
>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=99.45 E-value=1.5e-12 Score=152.10 Aligned_cols=68 Identities=31% Similarity=0.325 Sum_probs=59.4
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC----CcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK----CRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~----~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
||+.|.++|.. . ++..+|.|+||||||+|++..+..|+..+ .+||++++||.|+.++.+||...+.+
T Consensus 1 l~~eQ~~~i~~-~--------~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS-T--------EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS----------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-C--------CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 78999999997 2 58999999999999999999999999864 79999999999999999999998665
Q ss_pred h
Q 000228 333 S 333 (1825)
Q Consensus 333 s 333 (1825)
.
T Consensus 72 ~ 72 (315)
T PF00580_consen 72 E 72 (315)
T ss_dssp C
T ss_pred c
Confidence 3
No 36
>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=99.33 E-value=8.1e-12 Score=176.18 Aligned_cols=65 Identities=22% Similarity=0.274 Sum_probs=53.6
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH----HcCCcEEEEcCChHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL----RIKCRTLACTPTNVAITELA 323 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL----k~~~RILVcAPTN~AVDEVa 323 (1825)
...||+.|++||...++. .+.+.+|+|+|||||||++.+++..+. ..+.+|+.+|||+.|+.++.
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 467999999999998863 467999999999999999965444333 35789999999999999763
No 37
>PF13245 AAA_19: Part of AAA domain
Probab=99.19 E-value=3.7e-11 Score=115.15 Aligned_cols=58 Identities=38% Similarity=0.505 Sum_probs=52.3
Q ss_pred HHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHH
Q 000228 263 GAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 263 eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL 326 (1825)
+||..++. .+++.+|+||||||||+|++.++..++.. +.+||+++|||.|++++.+|+
T Consensus 1 ~av~~al~------~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALA------GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHh------hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36776665 26899999999999999999999999976 899999999999999999999
No 38
>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=99.08 E-value=4e-10 Score=127.49 Aligned_cols=169 Identities=19% Similarity=0.201 Sum_probs=97.6
Q ss_pred CcCEEEEEcCCCCChhHHHHHHHhcCCCcEEEEccCCCCCcccccccccccCCcccHHHHHhhcCCCceecccccccCcc
Q 000228 590 PLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPS 669 (1825)
Q Consensus 590 ~fD~VIIDEAsQa~E~esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl~~SLFERLi~~g~~~~~L~~QYRMhP~ 669 (1825)
.++++|||||+++........+...+.+.++++|||.|.++.-.........+.... .....+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISDI--------SHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccce--------eeeecceeEeecccc
Confidence 589999999999997665554445667899999999998765332211111111111 233456788999988
Q ss_pred cccccchhcc-ccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHHHHhhcCCC
Q 000228 670 ISLFPNLQFY-RNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAWVGSK 748 (1825)
Q Consensus 670 Is~fpNk~FY-~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~ 748 (1825)
+..+.+...+ ....... .+. .+.. .. ...
T Consensus 134 ~~~~~~~~~~~~~~~~~~------------------~~~-~~~~-~~------------------------------~~~ 163 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESS------------------VEF-RVET-DP------------------------------SGV 163 (234)
T ss_pred cceeeecccccCCceeec------------------ccc-cccc-cC------------------------------ccc
Confidence 8888875511 1000000 000 0000 00 000
Q ss_pred CCceEEEEeecHHHHHHHHHHhchhhcCCCCCcE-EEccccCCCCceeeEEEEEeeecCCCCCcccC-CCCCcceeeccc
Q 000228 749 QKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTV-KVKSIDGFQGGEEDIIIISTVRCNTGGSIGFI-SKPQRVNVALTR 826 (1825)
Q Consensus 749 ~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V-~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL-~d~rRLNVALTR 826 (1825)
+..+.+++. .....+.+. . .+.|++++||.|+|.|++-...... .... .++++++||+||
T Consensus 164 -~~~~~~~~~----~~~~~~~~~----------~~~~~T~~e~qG~tf~~V~l~~~~~~~---~~~~~~~~~~~~VALTR 225 (234)
T PF01443_consen 164 -DKVIVYLTF----TQAEKEQLG----------SDRVFTVHESQGLTFDNVTLVLLSDTD---NELYSESRNHLYVALTR 225 (234)
T ss_pred -CcccchhhH----HHHHHHHcC----------CCceechHHcceEEeCCEEEEECCCcc---cccccCCcccEEEEccc
Confidence 001222222 222222221 2 5899999999999998874443322 2223 368999999999
Q ss_pred ccccEEEE
Q 000228 827 ARHCLWIL 834 (1825)
Q Consensus 827 AK~~LiIV 834 (1825)
||+.|.|+
T Consensus 226 ~~~~l~i~ 233 (234)
T PF01443_consen 226 HTKSLVIL 233 (234)
T ss_pred cccEEEEE
Confidence 99999986
No 39
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.98 E-value=2.7e-08 Score=141.44 Aligned_cols=67 Identities=21% Similarity=0.165 Sum_probs=59.8
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHH
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELAS 324 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVae 324 (1825)
..+.||+.|++||..++.. .+.+.+|+||||||||+++..++..+-..|.+|.+||||+.|+..+.+
T Consensus 426 ~~~~Ls~~Q~~Av~~il~s-----~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e 492 (1960)
T TIGR02760 426 SEFALSPSNKDAVSTLFTS-----TKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQ 492 (1960)
T ss_pred ccCCCCHHHHHHHHHHHhC-----CCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHH
Confidence 3578999999999999872 468999999999999999999998888889999999999999986544
No 40
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=98.98 E-value=3.6e-09 Score=128.31 Aligned_cols=85 Identities=14% Similarity=0.161 Sum_probs=55.6
Q ss_pred CCcCEEEEEcCCCCChh----------HHHHHHHhcCCCcEEEEccCCCCCcccccccccccCC-cccHHHHHhhc-CCC
Q 000228 589 KPLNFLVIDEAAQLKES----------ESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGF-GRSLFERLTSL-NHS 656 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~----------esLIPL~l~~~krlILVGDpkQLPPtV~S~~a~~~gl-~~SLFERLi~~-g~~ 656 (1825)
..+|+||||||+.+.+- ..+.-+. ...+.+|++-|+.|. +.. ... ....++.+... +..
T Consensus 82 ~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~-~~~kv~v~f~D~~Q~---i~~-----~e~~~~~~l~~~~~~~~~~ 152 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEII-KRAKVVVFFYDENQS---IRP-----SEIGTLENLEEIAENLGIE 152 (352)
T ss_pred CcCCEEEEehhHhhhhccccccccccHHHHHHHH-hcCCEEEEEEccccE---eec-----ccCCCHHHHHHHHHhcCCc
Confidence 58999999999999881 2232222 235788888999984 111 111 12334444333 332
Q ss_pred c---eeccccccc--Ccccccccchhccccc
Q 000228 657 K---HLLNIQYRM--HPSISLFPNLQFYRNQ 682 (1825)
Q Consensus 657 ~---~~L~~QYRM--hP~Is~fpNk~FY~gk 682 (1825)
. +.|+.|||| .+++.+|....++...
T Consensus 153 ~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 153 VRHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred cccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 2 489999999 8999999998877654
No 41
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=98.89 E-value=2.6e-09 Score=140.18 Aligned_cols=61 Identities=25% Similarity=0.276 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITE 321 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDE 321 (1825)
.+.++++|.+|+..++. +++.++.||||||||+++..++..+...+..+++.|||-.|...
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 47899999999999987 78999999999999999999998888888889999999977663
No 42
>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=98.26 E-value=9.6e-07 Score=104.47 Aligned_cols=99 Identities=20% Similarity=0.206 Sum_probs=59.2
Q ss_pred eecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHH
Q 000228 658 HLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKIL 737 (1825)
Q Consensus 658 ~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV 737 (1825)
+.|+++||++|.|.++.|..|=................. ..+...+++.++..+. ...|++.|++.|
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~-----------~~~e~~~i~~~I 67 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--AENSEDGKISIIEFDN-----------EEEEAEYIAEEI 67 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--SSTCEESSEEEEEESS-----------HHHHHHHHHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--ccccccCCceeeccCC-----------HHHHHHHHHHHH
Confidence 469999999999999999887110000000000000000 0011113344444422 345899999999
Q ss_pred HHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhch
Q 000228 738 QKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGF 772 (1825)
Q Consensus 738 ~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~ 772 (1825)
..+...+.. ..+|+||++.+.|...|.+.|.+
T Consensus 68 ~~l~~~~~~---~~diAVL~R~~~~~~~i~~~L~~ 99 (351)
T PF13361_consen 68 KELIRNGIP---PSDIAVLVRTNSQIKEIEDALKE 99 (351)
T ss_dssp HHHHHTTS----GGGEEEEESSGGHHHHHHHHHHH
T ss_pred HHHhhcCCC---cccEEEEEECchhHHHHHHHHhh
Confidence 998877433 56899999999999999998843
No 43
>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=98.20 E-value=0.00012 Score=101.73 Aligned_cols=152 Identities=11% Similarity=-0.022 Sum_probs=82.9
Q ss_pred cCEEEEEcCCCCChhHHHHHHHhc-CCCcEEEEccCCCCCcccccc-cccccCCcccHHHHHhhcCCCceecccccccCc
Q 000228 591 LNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVESK-ISDEAGFGRSLFERLTSLNHSKHLLNIQYRMHP 668 (1825)
Q Consensus 591 fD~VIIDEAsQa~E~esLIPL~l~-~~krlILVGDpkQLPPtV~S~-~a~~~gl~~SLFERLi~~g~~~~~L~~QYRMhP 668 (1825)
..+|+|||+++.+..+.-+.-.+. .+++++++||..|.. ... ...-+.+....+.++.. .....+||..+
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 479999999999998864444433 467899999999862 100 00001112223333322 22334555554
Q ss_pred ccccccchh--------ccccccccCcccccccchhccccCCCCCceEEEEecCCcccccccccCCHHHHHHHHHHHHHH
Q 000228 669 SISLFPNLQ--------FYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKL 740 (1825)
Q Consensus 669 ~Is~fpNk~--------FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~ee~~~~S~~N~~EA~~Vv~iV~~L 740 (1825)
.|..-.+.. .....+...+.. . ......++.++...+ -..|++.|++.|..+
T Consensus 269 ~i~~~~~~~~~~~~~l~~Lek~l~~~~~~---~------~~~~~~~I~i~~~~~-----------~~~Eae~va~~I~~l 328 (1158)
T TIGR02773 269 PIFLNEYRPNKKNKELAHLEKQFDARPFN---A------YIEEDGSISIFEANN-----------RRAEVEGVARQILRL 328 (1158)
T ss_pred ccccccccCCCCCHHHHHHHHHHhhCCCC---C------CCCCCCCeEEEEcCC-----------HHHHHHHHHHHHHHH
Confidence 443211110 000001000000 0 001112333333211 246999999999999
Q ss_pred HHh-hcCCCCCceEEEEeec-HHHHHHHHHHhchh
Q 000228 741 YKA-WVGSKQKVSIGVVSPY-TAQVVAIRKKIGFE 773 (1825)
Q Consensus 741 l~~-~~~~~~~~dIgIITPY-~aQv~~Ir~~L~~~ 773 (1825)
+.. +. ...+|+|+++- +.+...|...|.+.
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 32 35689999999 89999999999764
No 44
>PRK10536 hypothetical protein; Provisional
Probab=98.20 E-value=1.2e-05 Score=93.45 Aligned_cols=56 Identities=20% Similarity=0.094 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEEcCCh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLACTPTN 316 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVcAPTN 316 (1825)
-.+.|..|..++..... ..+.++.||+|||||+++.++...++ ....+.++++.++
T Consensus 57 i~p~n~~Q~~~l~al~~-------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 57 ILARNEAQAHYLKAIES-------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred ccCCCHHHHHHHHHHhc-------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 34799999999885533 57999999999999999999888655 4333434444333
No 45
>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=98.14 E-value=1.2e-05 Score=91.13 Aligned_cols=54 Identities=30% Similarity=0.319 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCCh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTN 316 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN 316 (1825)
+.|+.|+.|+...+. .++..+.||+|||||.++.+....++..+ .||+++-|+-
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 689999999999875 67999999999999999988888888765 3666665543
No 46
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.02 E-value=1.7e-05 Score=85.27 Aligned_cols=70 Identities=27% Similarity=0.245 Sum_probs=61.2
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCChHHHHHHHHHHHHHh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
..+++.|.+++...+.. ....+|.||+|||||.++...+...+..+ .++|+++||+.++.++..++....
T Consensus 7 ~~~~~~Q~~~~~~~~~~------~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 7 EPLRPYQKEAIEALLSG------LRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred CCCCHHHHHHHHHHHcC------CCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 46899999999988751 16899999999999999988888888765 899999999999999999988764
No 47
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.02 E-value=2.5e-05 Score=95.50 Aligned_cols=70 Identities=19% Similarity=0.163 Sum_probs=58.0
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
.+++.-|.+|+.... .|...|+|-.|+|||-+++.-++.|-.+ +.||+++.+|..-...+..++.+....
T Consensus 161 anfD~~Q~kaa~~~~--------~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~ 232 (660)
T COG3972 161 ANFDTDQTKAAFQSG--------FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFM 232 (660)
T ss_pred hcccchhheeeeecC--------CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHH
Confidence 368899999877653 4778999999999999999988888765 579999999999888888887776543
No 48
>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=97.95 E-value=1.2e-05 Score=98.46 Aligned_cols=66 Identities=23% Similarity=0.314 Sum_probs=58.1
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITEL 322 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEV 322 (1825)
.||+.|+.|+...+.++. ...+....|.||+|||||+++.++...+...+..+++||||..|+.++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~-~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIE-NEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHH-ccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 489999999998877654 356778899999999999999999999888899999999999998864
No 49
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.95 E-value=3.3e-06 Score=109.64 Aligned_cols=290 Identities=22% Similarity=0.185 Sum_probs=189.1
Q ss_pred HhhccCcEEEEcccccccc--ccccCCCcCEEEEEcCCCCChhHHHHHHHhcC-CCcEEEEccCCCCCcccccccccccC
Q 000228 565 FCFKRASLFFSTASSSYKL--HSVEIKPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAG 641 (1825)
Q Consensus 565 ~iLk~A~VI~~T~Sss~~L--~~l~~~~fD~VIIDEAsQa~E~esLIPL~l~~-~krlILVGDpkQLPPtV~S~~a~~~g 641 (1825)
.+++ .+|++.|...+... .......+.+.+.|||+|+.+++.+.|+.++. ..+++|+||+.|+-|.+.+.......
T Consensus 239 ~~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~ 317 (775)
T KOG1804|consen 239 DLFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQA 317 (775)
T ss_pred hhcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhh
Confidence 3455 88888887766532 23335678899999999999999999988754 47899999999999998776655443
Q ss_pred CcccHHHHHhh----cCCCceecccccccCcccccccchhccccccccCcccccccchhccccCCCCCceEEEEecCCcc
Q 000228 642 FGRSLFERLTS----LNHSKHLLNIQYRMHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGRE 717 (1825)
Q Consensus 642 l~~SLFERLi~----~g~~~~~L~~QYRMhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~e 717 (1825)
+. .+-.++.. .+.+..-.+.+||++-.|..|.+..||... .++......... ...+.|..|....+...
T Consensus 318 ~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~--~~p~~a~~k~~~----~rl~~p~~~~~~~~~~~ 390 (775)
T KOG1804|consen 318 LH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILV--CAPSNASGKQPA----HRLHYPLTFSTARGEDV 390 (775)
T ss_pred hh-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhc--cccccccccccc----ccccccccccccccccc
Confidence 33 22222222 244567789999999999999999999653 333332211111 11134555655533222
Q ss_pred c-ccccccCCHHHHHHHHHHHHHHHHhhcCCC---CCceEEEEeecHHHHHHHHHHhchhhcCCCCCcEEEccccCCCCc
Q 000228 718 D-FIYHSCRNIVEVSAVIKILQKLYKAWVGSK---QKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGG 793 (1825)
Q Consensus 718 e-~~~~S~~N~~EA~~Vv~iV~~Ll~~~~~~~---~~~dIgIITPY~aQv~~Ir~~L~~~~~~~~~~~V~V~TVD~FQG~ 793 (1825)
. ......+|..|+..++.-++.+.+.+.... .-.++|++++|..|+..++..|.+..+.... ...-|-+-|=+
T Consensus 391 ~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stE---pe~lv~i~~~~ 467 (775)
T KOG1804|consen 391 RAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTE---PELLVPGKQFR 467 (775)
T ss_pred cccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccccccC---ccccccccccc
Confidence 2 345667888899999888888886544221 2347999999999999999988554321000 01112222222
Q ss_pred eeeEEEEEeeecCCC------CCcccCCCCCcceeecccccccEEEEechhhhccc---chHHHHHHHHHhhcCceecCc
Q 000228 794 EEDIIIISTVRCNTG------GSIGFISKPQRVNVALTRARHCLWILGSERTLISS---ESIWGALVCDAKARQCFFNAD 864 (1825)
Q Consensus 794 EkDIVILS~VRSn~~------g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s---~~~Wk~LI~~ak~rgc~~~~~ 864 (1825)
+...||+|+...--. ..--+-.+...+|-|+|||-...-.+|+...+... ..+|...+.-+-.+..||+..
T Consensus 468 ~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~e 547 (775)
T KOG1804|consen 468 QPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGE 547 (775)
T ss_pred ceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccc
Confidence 222566654443211 01112234677999999999999999999887533 367888888888888888764
Q ss_pred c
Q 000228 865 E 865 (1825)
Q Consensus 865 ~ 865 (1825)
-
T Consensus 548 L 548 (775)
T KOG1804|consen 548 L 548 (775)
T ss_pred e
Confidence 3
No 50
>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=97.94 E-value=1.8e-05 Score=85.45 Aligned_cols=72 Identities=22% Similarity=0.283 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++|.+.|.+|+...+....-....+..+|+||+|||||.++..++..+.. ++++++|+..-+++....+...
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 57899999999999875432112589999999999999999999998888 9999999999999998888554
No 51
>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=97.73 E-value=6.9e-05 Score=75.82 Aligned_cols=51 Identities=29% Similarity=0.398 Sum_probs=45.7
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
..+|.||||||||+++...+..+.. ...++++++|++..+.+..+++....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~ 54 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELF 54 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHh
Confidence 3689999999999999999999887 56899999999999999999888753
No 52
>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=97.61 E-value=1.5e-05 Score=79.64 Aligned_cols=50 Identities=26% Similarity=0.248 Sum_probs=39.2
Q ss_pred cEEEccccCCCCceeeEEEEEeeecCCCCCcccCCCCCcceeecccccccEEEE
Q 000228 781 TVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWIL 834 (1825)
Q Consensus 781 ~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIV 834 (1825)
.+.+.|+|.+||.|+|.||+........ -....++++||+||||+.|+||
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 7889999999999999999987666511 1234567999999999999997
No 53
>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=97.60 E-value=0.00026 Score=75.96 Aligned_cols=67 Identities=27% Similarity=0.259 Sum_probs=56.1
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCC--cEEEEcCChHHHHHHHHHHHHHhh
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC--RTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~--RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
++-|.+|+..+++ +.-.+|.||+|+|||......+...+..+. ++++++|+..-+.++..++.+...
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 4679999999985 345999999999999999877776665544 999999999999999999988744
No 54
>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=0.0012 Score=67.56 Aligned_cols=60 Identities=25% Similarity=0.326 Sum_probs=45.1
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITE 321 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDE 321 (1825)
++.+..++...+.. ......+|+||||||||+++..+...+...+..+..+..+..+...
T Consensus 3 ~~~~~~~i~~~~~~----~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~ 62 (151)
T cd00009 3 QEEAIEALREALEL----PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGL 62 (151)
T ss_pred hHHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhh
Confidence 34566666666542 2467899999999999999999988888778888888776655443
No 55
>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=97.06 E-value=0.0021 Score=71.60 Aligned_cols=67 Identities=22% Similarity=0.137 Sum_probs=54.5
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHH-HHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTV-SMLLLTLLRI----KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTI-aaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+++-|++|+...+. +.-.+|.+|+|+|||.+. ..++..+... +.++++++||..-+.++...+...
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 589999999999875 345899999999999884 4555555543 568999999999999988888775
No 56
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.04 E-value=0.0018 Score=85.73 Aligned_cols=79 Identities=19% Similarity=0.248 Sum_probs=65.7
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
..|.|++.|++|+......+... .+--.|++||.|||||-+....+...+..|.++|+.|||..-+.++++++.++...
T Consensus 258 l~f~lt~~Q~~ai~~I~~d~~~~-~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~ 336 (681)
T PRK10917 258 LPFELTGAQKRVVAEILADLASP-KPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEP 336 (681)
T ss_pred CCCCCCHHHHHHHHHHHHhhhcc-CCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhh
Confidence 45789999999999988754321 12357999999999999988777777788999999999999999999999987543
No 57
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.03 E-value=0.0014 Score=76.57 Aligned_cols=66 Identities=21% Similarity=0.214 Sum_probs=48.5
Q ss_pred CHHHHHHHHHhhhhccCC-CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCG-HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~-h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
++.|+.|+..+..-..-. +.....+++||||||||+++.+++..+...+.++++++ +.++..++..
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 466777887776532211 11246899999999999999999999999999998884 4455555554
No 58
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.00 E-value=0.002 Score=84.57 Aligned_cols=79 Identities=19% Similarity=0.257 Sum_probs=64.4
Q ss_pred CCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 252 SFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
...|.|++.|++|+...+..+.-. .+--.||+||.|||||.+....+...+..+.+++++|||..-+.++.+++.+...
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 345789999999999988754211 1224799999999999988776777778899999999999999999999988754
No 59
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.91 E-value=0.0025 Score=81.55 Aligned_cols=69 Identities=19% Similarity=0.175 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCC-cEEEEcCChHHHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC-RTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~-RILVcAPTN~AVDEVaeRL~kl 329 (1825)
...|.+-|++||..++. +.-.+++.|+|+|||.++..++..++..+. ++|+++||..-++++.+++.+.
T Consensus 112 ~~~~r~~Q~~av~~~l~-------~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLK-------NNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred cCCCCHHHHHHHHHHHh-------cCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 35799999999999886 233599999999999998877766666655 9999999999999999999875
No 60
>PRK08181 transposase; Validated
Probab=96.84 E-value=0.0037 Score=74.05 Aligned_cols=67 Identities=27% Similarity=0.387 Sum_probs=50.2
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...++..|..|+..|-.-++ ...-.+++||||||||+++.++...++..|.+++.+.. .+++..+..
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~---~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~-----~~L~~~l~~ 151 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLA---KGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT-----TDLVQKLQV 151 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHh---cCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH-----HHHHHHHHH
Confidence 34689999999877622111 24458999999999999999999999999999987753 345555543
No 61
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.82 E-value=0.0036 Score=82.94 Aligned_cols=72 Identities=22% Similarity=0.181 Sum_probs=62.8
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.|++.|++|+...+... .....|++||+|+|||.+...++...+..|.++|+++||..-+.++.+++.+.
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~----~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAA----GFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCCCCHHHHHHHHHHHhcc----CCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 4579999999999987632 23569999999999999998888888888999999999999999999999875
No 62
>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=96.80 E-value=0.0019 Score=70.92 Aligned_cols=49 Identities=31% Similarity=0.262 Sum_probs=40.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+.+|.||||||||++...++...++.|.+++..+... ..+++.+++...
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~-~~~~~~~~~~~~ 49 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE-SPEELIENAESL 49 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC-CHHHHHHHHHHc
Confidence 3689999999999999999999999999999987654 566666666543
No 63
>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=96.77 E-value=0.0011 Score=66.95 Aligned_cols=41 Identities=29% Similarity=0.329 Sum_probs=33.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVA 318 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~A 318 (1825)
+...+|.||||||||+++..++..+...+..++.++.+...
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~ 42 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDIL 42 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEcc
Confidence 46789999999999999999988887776567777766543
No 64
>PRK12377 putative replication protein; Provisional
Probab=96.76 E-value=0.0018 Score=75.72 Aligned_cols=56 Identities=23% Similarity=0.149 Sum_probs=40.6
Q ss_pred CHHHHHHHHHhhhhccCC-CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 258 NESQVGAMLACLRRLDCG-HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~-h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
++.|+.|+..+..-..-. ......+++||||||||+++.+++..+...+.++++++
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 467777776554322110 12356899999999999999999999999888876553
No 65
>PRK08116 hypothetical protein; Validated
Probab=96.76 E-value=0.0045 Score=73.31 Aligned_cols=61 Identities=16% Similarity=0.179 Sum_probs=44.4
Q ss_pred CCCCCCHHHHHHHHHhhhhccC----CCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 253 FSSTLNESQVGAMLACLRRLDC----GHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c----~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.+|.-++.|..|+..|..-++- ...+.-.+++||||||||+++.++...++..+.++++..
T Consensus 85 dnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 85 ENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred hcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 3455678888777766532211 112335899999999999999999999999888877665
No 66
>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=96.68 E-value=0.0027 Score=68.46 Aligned_cols=52 Identities=21% Similarity=0.364 Sum_probs=43.5
Q ss_pred CCCeEEEEcCCCCChhH-HHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTK-TVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTk-TIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
+..++.|.=.||+|||+ ++-.++..-+.++.|+||++||.+.+.||.+-|..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~ 55 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKG 55 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTT
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhc
Confidence 46799999999999999 68999999999999999999999999999887753
No 67
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.67 E-value=0.0018 Score=76.56 Aligned_cols=50 Identities=32% Similarity=0.340 Sum_probs=37.6
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc---CCcEE
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI---KCRTL 310 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~---~~RIL 310 (1825)
.|...|..-.++..- ...+..|.+||||||||.|+.++..+|... ++|||
T Consensus 40 gQe~vV~~L~~a~~~-~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl 92 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLR-RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVL 92 (346)
T ss_pred chHHHHHHHHHHHhh-cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchh
Confidence 577766655554432 356889999999999999999999998862 45665
No 68
>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=96.63 E-value=0.0051 Score=81.96 Aligned_cols=101 Identities=20% Similarity=0.184 Sum_probs=73.7
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChh-HHHHHHHHHHHHcC--CcEEEEcCChHHHHHHHHHHHHHhhhhh
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKT-KTVSMLLLTLLRIK--CRTLACTPTNVAITELASRVLKLVKESY 334 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKT-kTIaaLL~~LLk~~--~RILVcAPTN~AVDEVaeRL~klv~es~ 334 (1825)
=+.|++.+..+..++. .++..++.+|.||||| .+++..+.++...+ .||..|+.|+.-..++++-|.+......
T Consensus 12 y~~Q~~~m~~v~~~l~---~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~~~~~ 88 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLD---RGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLMSYRT 88 (705)
T ss_pred CHHHHHHHHHHHHHhc---cCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhhhccc
Confidence 4699998888877664 4678999999999999 55566666666555 7999999999999999999988631100
Q ss_pred ccCCCCCCCCCC-CCceEEeccCCCCCcCchhHH
Q 000228 335 KRDSRSNTPICP-LGDILLFGNKDRLKVNPGFEE 367 (1825)
Q Consensus 335 ~~~~~~~~~~yg-LgdIVRfGn~~rmkI~~eL~~ 367 (1825)
. . ..+. --..+-+|.++.+++++++..
T Consensus 89 ~-~-----~~~~~~i~~v~L~SR~~lCin~~v~~ 116 (705)
T TIGR00604 89 P-R-----IGEESPVSGLSLASRKNLCLHPEVSK 116 (705)
T ss_pred c-c-----cccCCceeEEEechHhhcccChHHHh
Confidence 0 0 0011 124677899999999887654
No 69
>PTZ00424 helicase 45; Provisional
Probab=96.58 E-value=0.0061 Score=75.20 Aligned_cols=67 Identities=25% Similarity=0.275 Sum_probs=52.9
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH---cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR---IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk---~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+++.|.+|+...+.. .=.+|++|+|||||.+....+...+. .+.++|+++||..-+.++.+.+...
T Consensus 50 ~~~~~Q~~ai~~i~~~-------~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 50 KPSAIQQRGIKPILDG-------YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCHHHHHHHHHHhCC-------CCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 5899999999998862 23679999999999876555555544 3578999999999888887776665
No 70
>PRK06526 transposase; Provisional
Probab=96.57 E-value=0.0048 Score=72.57 Aligned_cols=57 Identities=23% Similarity=0.272 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
....++..|...+..+ .=+ ....-.+|+||||||||+++.++...+...|.+++..+
T Consensus 77 ~~~~~~~~~~~~l~~~-~fi---~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t 133 (254)
T PRK06526 77 HQRSLKRDTIAHLGTL-DFV---TGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFAT 133 (254)
T ss_pred cCCCcchHHHHHHhcC-chh---hcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhh
Confidence 3446888777665433 111 12455899999999999999999999999999987743
No 71
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.50 E-value=0.0058 Score=66.61 Aligned_cols=51 Identities=22% Similarity=0.207 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEE
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTL 310 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RIL 310 (1825)
+.|.+.+...+. +...+.+.+.+|.||||||||+++..+...+...+.-++
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 468888888886 444567889999999999999999998888888754443
No 72
>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=96.49 E-value=0.0059 Score=82.14 Aligned_cols=65 Identities=23% Similarity=0.341 Sum_probs=53.5
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
..+..|..++. ++...+|+||||||||+.+-..+......+.+|+++.|+..|+.+++.|+.+..
T Consensus 5 ~~~~~i~~~l~------~~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~ 69 (819)
T TIGR01970 5 AVLPALRDALA------AHPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQL 69 (819)
T ss_pred HHHHHHHHHHH------cCCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 35667777776 368999999999999999876665554556799999999999999999997653
No 73
>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=96.48 E-value=0.008 Score=81.76 Aligned_cols=77 Identities=13% Similarity=0.066 Sum_probs=63.0
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.|.+++.|+.||..++..+.... +-=.||+||.|||||.+....+...+..+.++++++||..-+.++.+.+.+...
T Consensus 449 ~f~~T~~Q~~aI~~I~~d~~~~~-~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~ 525 (926)
T TIGR00580 449 PFEETPDQLKAIEEIKADMESPR-PMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFA 525 (926)
T ss_pred CCCCCHHHHHHHHHHHhhhcccC-cCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhc
Confidence 56799999999999988554211 123699999999999988776666677889999999999999999999988643
No 74
>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=96.46 E-value=0.0045 Score=70.10 Aligned_cols=44 Identities=30% Similarity=0.316 Sum_probs=33.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE-EcCCh--HHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA-CTPTN--VAITEL 322 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV-cAPTN--~AVDEV 322 (1825)
.+.++-||+|.|||||++.+.+.+...+.+|.+ |+-|. .|++++
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL 48 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQL 48 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHH
Confidence 478899999999999999999999988888744 54443 566654
No 75
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.38 E-value=0.0063 Score=81.91 Aligned_cols=65 Identities=22% Similarity=0.357 Sum_probs=50.1
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
+.+..|..++. ++...+|+||||||||+.+.-.+..-...+.+|+++.||..|+.+++.|+.+..
T Consensus 8 ~~~~~i~~~l~------~~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l 72 (812)
T PRK11664 8 AVLPELLTALK------TAPQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQL 72 (812)
T ss_pred HHHHHHHHHHH------hCCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHh
Confidence 45667777776 357899999999999999864333222234699999999999999999997654
No 76
>PRK09183 transposase/IS protein; Provisional
Probab=96.33 E-value=0.0074 Score=71.13 Aligned_cols=58 Identities=21% Similarity=0.281 Sum_probs=44.2
Q ss_pred CCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 252 SFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.....+|..|...+..+-- + ......+|+||||||||+++.++...+...|.+++.+.
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 3345678888877765411 1 23567889999999999999999888888898998765
No 77
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.32 E-value=0.0055 Score=72.06 Aligned_cols=56 Identities=23% Similarity=0.206 Sum_probs=42.1
Q ss_pred CHHHHHHHHHhhhhc-cCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 258 NESQVGAMLACLRRL-DCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~-~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
+..|++|+..+.+-. .++ +..-.++.||||||||++++++...+++.|.+|++..-
T Consensus 85 ~~~~~~~l~~~~~~~~~~~-~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~ 141 (254)
T COG1484 85 PGIDKKALEDLASLVEFFE-RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA 141 (254)
T ss_pred cchhHHHHHHHHHHHHHhc-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence 345666666665432 222 56678999999999999999999999977888887653
No 78
>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=96.32 E-value=0.0058 Score=62.76 Aligned_cols=48 Identities=25% Similarity=0.380 Sum_probs=31.2
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHH---HHHHHHHHHHHhh
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVA---ITELASRVLKLVK 331 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~A---VDEVaeRL~klv~ 331 (1825)
.||.||||||||+++..++..+ +..++-....... +.+...++...+.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~~~~~~~~i~~~~~ 51 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSYAGDSEQKIRDFFK 51 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSSTTHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccccccccccccccccc
Confidence 3799999999999998888876 4555555544443 2333444444433
No 79
>PRK01172 ski2-like helicase; Provisional
Probab=96.29 E-value=0.011 Score=78.35 Aligned_cols=69 Identities=14% Similarity=0.101 Sum_probs=57.5
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.|++.|.+|+....+ +.-.+|.+|.|+|||......+...+..+.++++++|+.+-+.+..+++.+.
T Consensus 20 ~~~l~~~Q~~ai~~l~~-------~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 20 DFELYDHQRMAIEQLRK-------GENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCCCHHHHHHHHHHhc-------CCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHHH
Confidence 45799999999998643 4568999999999999876666666667889999999999999998888764
No 80
>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=96.24 E-value=0.0067 Score=69.39 Aligned_cols=52 Identities=29% Similarity=0.385 Sum_probs=41.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+++.||.||||||||.....++..-+.. |.+++.++....+ +++.+++...
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~s~ 70 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMKSF 70 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHHTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHHHc
Confidence 47899999999999999999999999998 9999999875544 6677776644
No 81
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.22 E-value=0.014 Score=81.24 Aligned_cols=77 Identities=17% Similarity=0.111 Sum_probs=62.5
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
..|.+++.|++||..++..+... .+.=.||+||.|||||.++...+...+..+.++|+++||..=+.++...+.+..
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~~~-~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~ 673 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMCQP-LAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRF 673 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhhcC-CCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhh
Confidence 45789999999999998854321 123479999999999998776666666789999999999999999998888753
No 82
>PRK06893 DNA replication initiation factor; Validated
Probab=96.21 E-value=0.0055 Score=70.75 Aligned_cols=39 Identities=15% Similarity=0.228 Sum_probs=33.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
.++..+|+||||||||+++.++...+...+.++.....+
T Consensus 38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 356789999999999999999999999888887666553
No 83
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.21 E-value=0.014 Score=73.97 Aligned_cols=68 Identities=22% Similarity=0.308 Sum_probs=53.2
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc---CCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI---KCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~---~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.+++-|++|+...+. +.-.++++|+|||||.+...-+...+.. +.++|+++||..-+.++.+.+..+.
T Consensus 26 ~~t~iQ~~ai~~~l~-------g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 26 EMTPIQAQSLPAILA-------GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCHHHHHHHHHHhc-------CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 589999999999876 3459999999999997644333333332 3479999999999999998887763
No 84
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.21 E-value=0.0098 Score=68.98 Aligned_cols=56 Identities=20% Similarity=0.268 Sum_probs=40.8
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
-|.....++..+... ...+..+|+||||||||+++.++...+...+.+++......
T Consensus 28 ~n~~a~~~l~~~~~~----~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 28 DNDSLLAALQNALRQ----EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred ccHHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 455444444444321 23457899999999999999999998888888888876644
No 85
>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=96.19 E-value=0.0057 Score=74.61 Aligned_cols=50 Identities=26% Similarity=0.398 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+.=-+.|.+++...+....+...++..+|.||||||||+++..++..+..
T Consensus 17 l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 17 IVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34567899898888875433345578999999999999999888776643
No 86
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.15 E-value=0.0047 Score=63.82 Aligned_cols=55 Identities=24% Similarity=0.355 Sum_probs=37.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-----CCc-EEEEcCChHHHHHHHHHHHHHhh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-----KCR-TLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-----~~R-ILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
..++.+|.||||+|||+++..++..+... +.+ +.+.+|.......+...+...+.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 35789999999999999999999998763 344 44555555557777777776543
No 87
>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=96.15 E-value=0.0087 Score=70.48 Aligned_cols=51 Identities=20% Similarity=0.081 Sum_probs=41.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|.||||||||+....++...++.+.+++.++.-. ..+.+.+++..
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee-~~~~~~~~l~~ 85 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES-PANFVYTSLKE 85 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC-CchHHHHHHHH
Confidence 3689999999999999999999999888999999988764 33555555544
No 88
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=96.11 E-value=0.017 Score=72.53 Aligned_cols=68 Identities=28% Similarity=0.228 Sum_probs=53.0
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHH-HHHHH------cCCcEEEEcCChHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLL-LTLLR------IKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL-~~LLk------~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
.+++-|.+||..++. +.=.++++|+|||||.+....+ ..++. .+.++|+++||..-+.++.+.+..
T Consensus 23 ~p~~iQ~~ai~~~~~-------g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 23 RPTAIQAEAIPPALD-------GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred CCCHHHHHHHHHHhC-------CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 578899999999986 2349999999999998754333 33332 136899999999999999998877
Q ss_pred Hh
Q 000228 329 LV 330 (1825)
Q Consensus 329 lv 330 (1825)
+.
T Consensus 96 l~ 97 (434)
T PRK11192 96 LA 97 (434)
T ss_pred HH
Confidence 63
No 89
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.10 E-value=0.041 Score=66.82 Aligned_cols=38 Identities=39% Similarity=0.504 Sum_probs=31.1
Q ss_pred cCEEEEEcCCCCChhHHHHHHHhcC-CCcEEEEccCCCC
Q 000228 591 LNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQL 628 (1825)
Q Consensus 591 fD~VIIDEAsQa~E~esLIPL~l~~-~krlILVGDpkQL 628 (1825)
=..||||||+-++..+..-.+...| ..++|+.|||.|.
T Consensus 352 ~~FiIIDEaQNLTpheikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 352 DSFIIIDEAQNLTPHELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred cceEEEehhhccCHHHHHHHHHhccCCCEEEEcCCHHHc
Confidence 3689999999999888665555443 4799999999998
No 90
>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=96.07 E-value=0.0077 Score=67.19 Aligned_cols=46 Identities=26% Similarity=0.417 Sum_probs=34.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVL 327 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~ 327 (1825)
++.-.+|.||||||||+++++++..++..|.+++.+.. .+++.+|.
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~-----~~L~~~l~ 91 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA-----SDLLDELK 91 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH-----HHHHHHHH
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec-----Cceecccc
Confidence 45569999999999999999999999999999988753 34555554
No 91
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.05 E-value=0.015 Score=73.48 Aligned_cols=72 Identities=26% Similarity=0.280 Sum_probs=60.5
Q ss_pred CCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 252 SFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
...+.|.+-|++|+........ .++-.+|.-|||+|||.+.+.++..+-.+ +||++||...+++-.+++...
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~---~~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRR---TERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhcc---cCCceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHh
Confidence 3456899999999999987332 15778999999999999998888777554 999999999999999888775
No 92
>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=96.04 E-value=0.011 Score=70.04 Aligned_cols=54 Identities=24% Similarity=0.324 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..+.+.|.+++..++.. ..++.+|.||+|+|||||+.+++..+...+.+|+++-
T Consensus 62 lg~~~~~~~~l~~~~~~-----~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiE 115 (264)
T cd01129 62 LGLKPENLEIFRKLLEK-----PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVE 115 (264)
T ss_pred cCCCHHHHHHHHHHHhc-----CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC
Confidence 46889999999888752 4689999999999999999999888766566776653
No 93
>PRK14974 cell division protein FtsY; Provisional
Probab=96.04 E-value=0.013 Score=71.50 Aligned_cols=46 Identities=28% Similarity=0.278 Sum_probs=37.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC---hHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT---NVAITELA 323 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT---N~AVDEVa 323 (1825)
+.+.++.||||+|||||++.+...+...+.+|++++.. ..|++++.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~ 188 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLE 188 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHH
Confidence 56899999999999999999999998888888766533 55666543
No 94
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=96.02 E-value=0.013 Score=64.89 Aligned_cols=52 Identities=31% Similarity=0.414 Sum_probs=41.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH----------cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR----------IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk----------~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.++.+|.||||+|||+++..++..++. .+.+||.++.-+. ..++..|+....
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 689999999999999999999999997 5679999988886 667888888764
No 95
>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=95.98 E-value=0.019 Score=80.04 Aligned_cols=70 Identities=24% Similarity=0.198 Sum_probs=59.4
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
+.+.+-|+.++...+. +.-.++++|+|||||.++..++..+...+.++|+++||..-+.++.+++.+...
T Consensus 77 ~~p~~iQ~~~i~~il~-------G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~ 146 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVLR-------GDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAE 146 (1171)
T ss_pred CCCcHHHHHHHHHHhC-------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHH
Confidence 4688999999999886 345679999999999877666666666789999999999999999999998754
No 96
>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=95.97 E-value=0.0079 Score=63.45 Aligned_cols=40 Identities=23% Similarity=0.326 Sum_probs=34.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAI 319 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AV 319 (1825)
+.+|.||||||||+++..++..+...+.++++.+......
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE 40 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence 3689999999999999999999998899998887765443
No 97
>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=95.90 E-value=0.011 Score=68.40 Aligned_cols=52 Identities=19% Similarity=0.234 Sum_probs=44.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+.||.||||||||+....++..-++.|.+++.++.. ...+++.+++...
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e-e~~~~i~~~~~~~ 71 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE-EHPVQVRRNMAQF 71 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee-CCHHHHHHHHHHh
Confidence 478999999999999999999998888889999999854 4666788876654
No 98
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.84 E-value=0.02 Score=79.35 Aligned_cols=73 Identities=22% Similarity=0.114 Sum_probs=59.9
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+.|-+-|.+||.....++.- ...=.||+.|.|||||.|+..++..|++. ..|||++++++.=+++....+...
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~--g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVE--GQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHh--ccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 56899999999887765431 22348999999999999999999998875 379999999999999988877653
No 99
>PRK06851 hypothetical protein; Provisional
Probab=95.81 E-value=0.0079 Score=74.04 Aligned_cols=46 Identities=22% Similarity=0.368 Sum_probs=41.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCc--EEEEcCChHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCR--TLACTPTNVAITELA 323 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~R--ILVcAPTN~AVDEVa 323 (1825)
..+.+|.||||||||+++..++..+...+.. .+.|+..|.++|-|.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 5799999999999999999999999998876 688999999999654
No 100
>PRK09401 reverse gyrase; Reviewed
Probab=95.81 E-value=0.025 Score=78.85 Aligned_cols=70 Identities=20% Similarity=0.142 Sum_probs=58.9
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
+.+.+-|+.|+..++. +.-.+|++|.|||||.+...++..+...+.++|+++||..-+.++.+++.++..
T Consensus 79 ~~pt~iQ~~~i~~il~-------g~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~ 148 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLL-------GESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGE 148 (1176)
T ss_pred CCCcHHHHHHHHHHHC-------CCcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhh
Confidence 4789999999999876 445788999999999866555555556789999999999999999999998754
No 101
>PRK05973 replicative DNA helicase; Provisional
Probab=95.81 E-value=0.014 Score=67.99 Aligned_cols=52 Identities=19% Similarity=0.173 Sum_probs=44.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|.|+||+|||++...++...++.|.++++.+.--. .+++.+|+...
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 47899999999999999999999999889999988876654 47888888765
No 102
>PRK08727 hypothetical protein; Validated
Probab=95.80 E-value=0.073 Score=61.81 Aligned_cols=37 Identities=24% Similarity=0.168 Sum_probs=32.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
....+|+||||||||+++.++...+...+.++..++.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 4569999999999999999999999988888877663
No 103
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.80 E-value=0.014 Score=76.50 Aligned_cols=76 Identities=18% Similarity=0.197 Sum_probs=63.9
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
...+-.-|..||.....+..-+++ . .||.=.+|||||.|+.+++..|++.+ +|||..|-.|.-|++....+.....
T Consensus 163 ~i~~RyyQ~~AI~rv~Eaf~~g~~-r-aLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P 240 (875)
T COG4096 163 AIGPRYYQIIAIRRVIEAFSKGQN-R-ALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLP 240 (875)
T ss_pred cccchHHHHHHHHHHHHHHhcCCc-e-EEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCC
Confidence 446778899999999888765444 4 77777789999999999999999975 7999999999999998888776643
No 104
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.76 E-value=0.016 Score=67.06 Aligned_cols=51 Identities=20% Similarity=0.191 Sum_probs=41.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|.||||||||++...++..+++.+.+++.++... ..+++...+.+
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~-~~~~~~~~~~~ 73 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQL-TTTEFIKQMMS 73 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHH
Confidence 3679999999999999999999999999999998888555 44565555543
No 105
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.74 E-value=0.017 Score=71.40 Aligned_cols=49 Identities=41% Similarity=0.534 Sum_probs=36.1
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
-+.|.+.+...+...-....++..+|+||||||||+++..++..+-..+
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 4667777887775432123446679999999999999999988876654
No 106
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.74 E-value=0.0065 Score=72.23 Aligned_cols=26 Identities=42% Similarity=0.636 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
+.+.|++||||||||++-.++...|-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 68999999999999998877766664
No 107
>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=95.71 E-value=0.022 Score=67.70 Aligned_cols=36 Identities=31% Similarity=0.321 Sum_probs=31.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..+.++.||||+|||||++.+...+...+.+|++++
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~ 107 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA 107 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence 457777799999999999999999988888987664
No 108
>PRK04296 thymidine kinase; Provisional
Probab=95.67 E-value=0.012 Score=66.04 Aligned_cols=37 Identities=19% Similarity=0.325 Sum_probs=33.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
..+.+|.||||+|||+.+..++..+...+.++++..|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 3589999999999999999999999999999998743
No 109
>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=95.66 E-value=0.015 Score=74.40 Aligned_cols=55 Identities=25% Similarity=0.333 Sum_probs=44.7
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
....+.+.|.+++..++.. ..++.+|.||+|+|||||+.+++..+...+.+|+++
T Consensus 222 ~~Lg~~~~~~~~l~~~~~~-----~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTi 276 (486)
T TIGR02533 222 ETLGMSPELLSRFERLIRR-----PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTV 276 (486)
T ss_pred HHcCCCHHHHHHHHHHHhc-----CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEE
Confidence 3467899999999998763 578999999999999999998887776555566553
No 110
>PRK02362 ski2-like helicase; Provisional
Probab=95.65 E-value=0.029 Score=75.33 Aligned_cols=68 Identities=21% Similarity=0.161 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.|++.|.+|+...+. .+.-.+|..|+|+|||.+....+...+..+.++|+++|+.+-+.+...++.+.
T Consensus 23 ~l~p~Q~~ai~~~~~------~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 23 ELYPPQAEAVEAGLL------DGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred cCCHHHHHHHHHHHh------CCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHh
Confidence 699999999987554 24568999999999999876665565667899999999999999999988754
No 111
>PRK00254 ski2-like helicase; Provisional
Probab=95.63 E-value=0.03 Score=74.97 Aligned_cols=68 Identities=18% Similarity=0.147 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHH-HHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTV-SMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTI-aaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.|++.|.+|+...+. .+.-.+|.+|+|+|||.+. ..++..++..+.++++++|+.+-+.+..+++...
T Consensus 23 ~l~~~Q~~ai~~~~~------~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 23 ELYPPQAEALKSGVL------EGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred CCCHHHHHHHHHHHh------CCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHHH
Confidence 699999999987443 2456899999999999987 4455556667889999999999999999888763
No 112
>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=95.63 E-value=0.014 Score=63.91 Aligned_cols=34 Identities=35% Similarity=0.392 Sum_probs=30.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+.++.||||+|||+++..+...+...+.+++++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 5788999999999999999999999998987654
No 113
>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=95.62 E-value=0.02 Score=67.14 Aligned_cols=52 Identities=19% Similarity=0.243 Sum_probs=44.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
...+.+|.||||+|||+++..++..++.. +.++++.+.-. ..++++.|+...
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~~ 81 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLGQ 81 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHHH
Confidence 46799999999999999999999998887 99999998766 557788888664
No 114
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.60 E-value=0.014 Score=71.25 Aligned_cols=37 Identities=27% Similarity=0.250 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
..-.+++||||||||+++.+++..++..+.+|+..+.
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 3669999999999999999999999999998877654
No 115
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.58 E-value=0.017 Score=69.81 Aligned_cols=36 Identities=14% Similarity=0.118 Sum_probs=31.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
.-.+|+||||||||+++.+++..+...|.++.++..
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 358899999999999999999999999988876643
No 116
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.55 E-value=0.03 Score=68.76 Aligned_cols=48 Identities=23% Similarity=0.434 Sum_probs=32.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+-.+.||||||||||+...+.. ..+......+.+..-|.++..-+.+.
T Consensus 49 ~SmIl~GPPG~GKTTlA~liA~---~~~~~f~~~sAv~~gvkdlr~i~e~a 96 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLIAG---TTNAAFEALSAVTSGVKDLREIIEEA 96 (436)
T ss_pred ceeEEECCCCCCHHHHHHHHHH---hhCCceEEeccccccHHHHHHHHHHH
Confidence 4578899999999996554443 33566666666666666665555443
No 117
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.55 E-value=0.028 Score=64.41 Aligned_cols=56 Identities=13% Similarity=0.128 Sum_probs=40.2
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
-|.....++...... ....+..+|+||||||||+++.++...+...+.++..+...
T Consensus 24 ~~~~~~~~l~~~~~~---~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~ 79 (227)
T PRK08903 24 ENAELVARLRELAAG---PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA 79 (227)
T ss_pred CcHHHHHHHHHHHhc---cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence 455555555554331 12456889999999999999999999888888777666543
No 118
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=95.54 E-value=0.036 Score=73.09 Aligned_cols=68 Identities=22% Similarity=0.189 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH-H--cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL-R--IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL-k--~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.+++-|.+||...+. +.-.++++|+|||||.+...-+...+ . .+.++|+++||..-+.++++.+..+.
T Consensus 28 ~ptpiQ~~ai~~ll~-------g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 28 KPSPIQAECIPHLLN-------GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCHHHHHHHHHHHc-------CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 588999999999876 34589999999999987543333333 2 24589999999999999999888764
No 119
>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=95.49 E-value=0.024 Score=64.92 Aligned_cols=52 Identities=17% Similarity=0.123 Sum_probs=44.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+.+|.||||||||+....++...++.+.+++.++... ..+++.+++...
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~ 66 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSK 66 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHc
Confidence 3679999999999999999999999888999999988766 577887777553
No 120
>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=95.45 E-value=0.025 Score=65.07 Aligned_cols=51 Identities=18% Similarity=0.147 Sum_probs=43.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|.||||||||+++..++..++.. +.+++..+.-..+ .+++.|+..
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~-~~~~~r~~~ 63 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSK-EQLLQRLLA 63 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCH-HHHHHHHHH
Confidence 46799999999999999999999999988 9999999987744 466677654
No 121
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.45 E-value=0.018 Score=65.90 Aligned_cols=39 Identities=26% Similarity=0.455 Sum_probs=34.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
...+.+|.||||||||++...++...+..+.+++.++--
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 467999999999999999999999999888888887654
No 122
>PRK10436 hypothetical protein; Provisional
Probab=95.45 E-value=0.022 Score=72.40 Aligned_cols=53 Identities=26% Similarity=0.377 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA 311 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV 311 (1825)
...+.+.|.+.+..++.. +.++.||.||+|+|||||+.+++..+...+.+|++
T Consensus 199 ~LG~~~~~~~~l~~~~~~-----~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~T 251 (462)
T PRK10436 199 TLGMTPAQLAQFRQALQQ-----PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICS 251 (462)
T ss_pred HcCcCHHHHHHHHHHHHh-----cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEE
Confidence 357889999999988763 57999999999999999999988887666666654
No 123
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.42 E-value=0.027 Score=64.63 Aligned_cols=76 Identities=21% Similarity=0.269 Sum_probs=53.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEE-cCChHHHHHHHHHHHHHhhhhhccCCCCCCCCCCCCceEEe
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLAC-TPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLF 353 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVc-APTN~AVDEVaeRL~klv~es~~~~~~~~~~~ygLgdIVRf 353 (1825)
+-+-.+|.|||||||||.|..+...|+... .-+|=. |....-+|.|..+++........ ..-|--.|+-+
T Consensus 47 nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~kv~-------lp~grhKIiIL 119 (333)
T KOG0991|consen 47 NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQKKVT-------LPPGRHKIIIL 119 (333)
T ss_pred CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHHhhcc-------CCCCceeEEEe
Confidence 346689999999999999999999999743 345544 44455799999999876544311 11233367777
Q ss_pred ccCCCC
Q 000228 354 GNKDRL 359 (1825)
Q Consensus 354 Gn~~rm 359 (1825)
...+.|
T Consensus 120 DEADSM 125 (333)
T KOG0991|consen 120 DEADSM 125 (333)
T ss_pred eccchh
Confidence 777666
No 124
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.39 E-value=0.026 Score=65.05 Aligned_cols=51 Identities=20% Similarity=0.192 Sum_probs=43.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
.+.+.+|.||||||||+....++...++.+.+++.++..+. .+++..++.+
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 47899999999999999999999988889999999988754 4566666654
No 125
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.38 E-value=0.027 Score=68.53 Aligned_cols=51 Identities=18% Similarity=0.261 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH--cCCcEEE
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLA 311 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk--~~~RILV 311 (1825)
-.+++.|.+.+..|+.. ....+|.||||+||||++.+++..+.. .+.||++
T Consensus 127 g~~~~~~~~~L~~~v~~------~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 127 KIMTEAQASVIRSAIDS------RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 34778899999998874 455799999999999999998888764 3567665
No 126
>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=95.38 E-value=0.033 Score=63.26 Aligned_cols=57 Identities=12% Similarity=0.155 Sum_probs=40.4
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChH
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNV 317 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~ 317 (1825)
-|.+-.+++...+.. ..++..+|.||||||||+++..+...+...+.+++.+.-++.
T Consensus 21 ~~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~ 77 (226)
T TIGR03420 21 GNAELLAALRQLAAG----KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL 77 (226)
T ss_pred CcHHHHHHHHHHHhc----CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence 444444555554321 246789999999999999999999888877777776654443
No 127
>PLN03025 replication factor C subunit; Provisional
Probab=95.38 E-value=0.021 Score=69.01 Aligned_cols=67 Identities=25% Similarity=0.347 Sum_probs=40.1
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCC--cEEEEcCCh-HHHHHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC--RTLACTPTN-VAITELASRVLK 328 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~--RILVcAPTN-~AVDEVaeRL~k 328 (1825)
|+...+.+...+.. .+.+-.+++||||||||+++.++...+...+. .++-..++. .-++.+.+.+..
T Consensus 18 ~~~~~~~L~~~~~~----~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i~~ 87 (319)
T PLN03025 18 NEDAVSRLQVIARD----GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKIKM 87 (319)
T ss_pred cHHHHHHHHHHHhc----CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHHHH
Confidence 34444555544432 12344799999999999999999998876542 344343332 234444444443
No 128
>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=95.38 E-value=0.023 Score=69.01 Aligned_cols=45 Identities=18% Similarity=0.234 Sum_probs=38.0
Q ss_pred CCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 252 SFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
...|.++++-..+|..++.. ++-.+|.||||||||+++..+...|
T Consensus 44 d~~y~f~~~~~~~vl~~l~~------~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 44 DPAYLFDKATTKAICAGFAY------DRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred CCCccCCHHHHHHHHHHHhc------CCcEEEEeCCCChHHHHHHHHHHHH
Confidence 34689999999999999863 5679999999999999888777666
No 129
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.37 E-value=0.02 Score=68.99 Aligned_cols=51 Identities=25% Similarity=0.445 Sum_probs=36.1
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+-.+.|||||||||+++..++..--....|-+-++.||+-+.++..-+.+.
T Consensus 163 pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~a 213 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQA 213 (554)
T ss_pred CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHH
Confidence 457889999999999655444333333467888888988888776665544
No 130
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.36 E-value=0.049 Score=68.27 Aligned_cols=68 Identities=22% Similarity=0.109 Sum_probs=52.6
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHH-HHHHH---------cCCcEEEEcCChHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLL-LTLLR---------IKCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL-~~LLk---------~~~RILVcAPTN~AVDEVaeR 325 (1825)
.+++-|.+|+..++. +.=.++++|.|||||.+....+ ..++. .+.++|+++||..-+.++.+.
T Consensus 30 ~pt~iQ~~aip~il~-------g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~ 102 (423)
T PRK04837 30 NCTPIQALALPLTLA-------GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHAD 102 (423)
T ss_pred CCCHHHHHHHHHHhC-------CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHH
Confidence 578999999999886 3347899999999998754333 33332 135799999999999999888
Q ss_pred HHHHh
Q 000228 326 VLKLV 330 (1825)
Q Consensus 326 L~klv 330 (1825)
+..+.
T Consensus 103 ~~~l~ 107 (423)
T PRK04837 103 AEPLA 107 (423)
T ss_pred HHHHh
Confidence 77653
No 131
>PRK06921 hypothetical protein; Provisional
Probab=95.36 E-value=0.018 Score=68.24 Aligned_cols=37 Identities=24% Similarity=0.301 Sum_probs=32.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTP 314 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAP 314 (1825)
....+++||||||||+++.+++..++.. +..++.++.
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 4568999999999999999999999988 788877664
No 132
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.32 E-value=0.02 Score=67.15 Aligned_cols=43 Identities=35% Similarity=0.354 Sum_probs=38.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAI 319 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AV 319 (1825)
.+.+.||.||||||||......+...++.|.+++.+|..-.+.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~ 64 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPE 64 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHH
Confidence 4789999999999999999999999999999999988765443
No 133
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=95.31 E-value=0.051 Score=68.98 Aligned_cols=68 Identities=26% Similarity=0.246 Sum_probs=53.0
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH-Hc--------CCcEEEEcCChHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL-RI--------KCRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~--------~~RILVcAPTN~AVDEVaeRL 326 (1825)
.+++-|++||..++. ..=.++++|.|||||.+...-+...+ .. ..++|+++||..-+.++.+.+
T Consensus 23 ~pt~iQ~~ai~~il~-------g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~ 95 (456)
T PRK10590 23 EPTPIQQQAIPAVLE-------GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENV 95 (456)
T ss_pred CCCHHHHHHHHHHhC-------CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHH
Confidence 688999999999876 23389999999999987644443333 21 237999999999999999988
Q ss_pred HHHh
Q 000228 327 LKLV 330 (1825)
Q Consensus 327 ~klv 330 (1825)
....
T Consensus 96 ~~~~ 99 (456)
T PRK10590 96 RDYS 99 (456)
T ss_pred HHHh
Confidence 8763
No 134
>PRK05642 DNA replication initiation factor; Validated
Probab=95.26 E-value=0.022 Score=66.05 Aligned_cols=36 Identities=14% Similarity=0.286 Sum_probs=31.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
+..+|+||||||||+.+.++...+...+.+++..+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 567999999999999999998888888888877664
No 135
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.25 E-value=0.021 Score=69.27 Aligned_cols=37 Identities=27% Similarity=0.269 Sum_probs=32.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.+.+.++-||||+|||||++.+...+...+.+|++.+
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~ 149 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA 149 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence 4578899999999999999999999988888887664
No 136
>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=95.22 E-value=0.023 Score=64.65 Aligned_cols=37 Identities=30% Similarity=0.425 Sum_probs=33.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
...+.+|.||||||||++...++..+...+.+++..+
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 4789999999999999999999999998898988774
No 137
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.17 E-value=0.023 Score=71.68 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=32.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.+.+.++.||||+|||||++.++..+...+.+|++++
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~ 130 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA 130 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence 4678899999999999999999999988888887664
No 138
>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=95.16 E-value=0.025 Score=63.83 Aligned_cols=40 Identities=28% Similarity=0.503 Sum_probs=35.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
...+.+|.||||||||++...++......+.+++..+..+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 4689999999999999999999998888888888877654
No 139
>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=95.15 E-value=0.062 Score=71.35 Aligned_cols=69 Identities=16% Similarity=0.156 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
...|=+-|++|+...+.. ....-.+|.-|+|+|||.+..+++..+ +.++||++||...|++-.+.+.+.
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 467889999999988641 112457899999999999988776554 688999999999999999998875
No 140
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.14 E-value=0.08 Score=68.14 Aligned_cols=27 Identities=30% Similarity=0.460 Sum_probs=23.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|++||||||||+++..++..+..
T Consensus 36 ~ha~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 36 GHAYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence 345599999999999999988888875
No 141
>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=95.11 E-value=0.023 Score=59.83 Aligned_cols=22 Identities=50% Similarity=0.705 Sum_probs=19.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.++.||||||||+++..+...+
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 5899999999999998888777
No 142
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.11 E-value=0.068 Score=64.10 Aligned_cols=72 Identities=26% Similarity=0.218 Sum_probs=49.8
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHH-HHHHHHcCC-----cEEEEcCChHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSML-LLTLLRIKC-----RTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaL-L~~LLk~~~-----RILVcAPTN~AVDEVaeRL~k 328 (1825)
|..-+.|.+-+........ .++..+|.+|.|||||..+... +..+...+. +|+++++|+.-...+...+.+
T Consensus 7 y~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 7 YEPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 3447889985554444332 4678999999999999765433 444454444 899999999877776665554
Q ss_pred H
Q 000228 329 L 329 (1825)
Q Consensus 329 l 329 (1825)
.
T Consensus 84 ~ 84 (289)
T smart00488 84 L 84 (289)
T ss_pred c
Confidence 3
No 143
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.11 E-value=0.068 Score=64.10 Aligned_cols=72 Identities=26% Similarity=0.218 Sum_probs=49.8
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHH-HHHHHHcCC-----cEEEEcCChHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSML-LLTLLRIKC-----RTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaL-L~~LLk~~~-----RILVcAPTN~AVDEVaeRL~k 328 (1825)
|..-+.|.+-+........ .++..+|.+|.|||||..+... +..+...+. +|+++++|+.-...+...+.+
T Consensus 7 y~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 7 YEPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CCCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 3447889985554444332 4678999999999999765433 444454444 899999999877776665554
Q ss_pred H
Q 000228 329 L 329 (1825)
Q Consensus 329 l 329 (1825)
.
T Consensus 84 ~ 84 (289)
T smart00489 84 L 84 (289)
T ss_pred c
Confidence 3
No 144
>PRK14701 reverse gyrase; Provisional
Probab=95.10 E-value=0.054 Score=77.58 Aligned_cols=70 Identities=17% Similarity=0.142 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
+.+.+-|+.++..++. +.-.++++|.|||||.+...+...+...+.++|+++||..-+.++.+++..+..
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 4689999999999987 345689999999999965444444445688999999999999999999988643
No 145
>PRK10867 signal recognition particle protein; Provisional
Probab=95.08 E-value=0.025 Score=71.26 Aligned_cols=39 Identities=28% Similarity=0.290 Sum_probs=32.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEE-cCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLAC-TPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVc-APTN 316 (1825)
+.+.++.||||+|||||++.++..+... |.+|+++ +-+.
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~ 140 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVY 140 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcccc
Confidence 5688999999999999999999999988 8888654 4433
No 146
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.08 E-value=0.037 Score=67.25 Aligned_cols=55 Identities=24% Similarity=0.325 Sum_probs=43.1
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcCCh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTPTN 316 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAPTN 316 (1825)
-+++.|.+.+..|+.. +...+|.||||+||||++.+++..+.. ...|++++-.+.
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 3678899999888873 678999999999999999999987753 456777654443
No 147
>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=95.05 E-value=0.027 Score=70.72 Aligned_cols=44 Identities=25% Similarity=0.228 Sum_probs=35.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc-CCh--HHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT-PTN--VAITE 321 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA-PTN--~AVDE 321 (1825)
+.+.++.||||+|||||++.+...+.+.|.+|++++ -+. .|+++
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQ 146 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQ 146 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHH
Confidence 578999999999999999999999888888877654 343 45554
No 148
>PRK04328 hypothetical protein; Provisional
Probab=95.04 E-value=0.037 Score=64.86 Aligned_cols=52 Identities=19% Similarity=0.231 Sum_probs=41.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+.+|.||||||||++...++..-++.|.+++.++.... .+++.+++...
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~-~~~i~~~~~~~ 73 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEH-PVQVRRNMRQF 73 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCC-HHHHHHHHHHc
Confidence 47899999999999999999999998899999999886553 33466665543
No 149
>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=95.02 E-value=0.038 Score=63.36 Aligned_cols=49 Identities=22% Similarity=0.181 Sum_probs=38.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL 326 (1825)
.+.+.+|.||||||||+++..++...+..+.+++..+.-- ..+++..+.
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~-~~~~i~~~~ 67 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE-SRESIIRQA 67 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC-CHHHHHHHH
Confidence 4789999999999999999998888788888887776532 335555553
No 150
>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=95.02 E-value=0.042 Score=66.25 Aligned_cols=53 Identities=19% Similarity=0.232 Sum_probs=42.2
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcC
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTP 314 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAP 314 (1825)
.+++.|.+.+..|+.. ....+|.||+|+||||++.+++..+-.. +.||+++-.
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 4677888888888863 5678999999999999999988777653 577776543
No 151
>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=94.98 E-value=0.039 Score=68.95 Aligned_cols=57 Identities=19% Similarity=0.169 Sum_probs=38.2
Q ss_pred CHHHHHHHHHhhhhccCCC-CCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcC
Q 000228 258 NESQVGAMLACLRRLDCGH-RSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTP 314 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h-~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAP 314 (1825)
.++...|...+........ .....+|+||||||||+++.++...+... +.+++.+..
T Consensus 115 g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 115 GKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 3444445555544322211 12457899999999999999999998876 567777653
No 152
>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=94.97 E-value=0.04 Score=64.27 Aligned_cols=45 Identities=33% Similarity=0.320 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
..+.++.|+...-..++ ...++.+|+||||+|||+++..++..+-
T Consensus 24 ~~~~~~~~~~~l~~~~~--~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLS--QREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CCHHHHHHHHHHHHHHh--cCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 34556666665433221 2356899999999999999888765554
No 153
>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=94.96 E-value=0.015 Score=67.00 Aligned_cols=25 Identities=36% Similarity=0.626 Sum_probs=17.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+-.+.||||||||||++ .+++.-+.
T Consensus 51 ~h~lf~GPPG~GKTTLA-~IIA~e~~ 75 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLA-RIIANELG 75 (233)
T ss_dssp -EEEEESSTTSSHHHHH-HHHHHHCT
T ss_pred ceEEEECCCccchhHHH-HHHHhccC
Confidence 45899999999998754 44444443
No 154
>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=94.95 E-value=0.029 Score=63.44 Aligned_cols=35 Identities=26% Similarity=0.479 Sum_probs=28.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcA 313 (1825)
|+.+|.||+|+||||++.+++..+... +.+|++.-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 789999999999999999988887754 44666543
No 155
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.93 E-value=0.043 Score=65.52 Aligned_cols=38 Identities=29% Similarity=0.385 Sum_probs=31.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-C-CcEEEEcC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-K-CRTLACTP 314 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~-~RILVcAP 314 (1825)
.+.+.+|.||+|+|||||++.++..+... + .+|.+++-
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 45689999999999999999999999876 4 77765543
No 156
>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=94.93 E-value=0.023 Score=66.79 Aligned_cols=27 Identities=30% Similarity=0.348 Sum_probs=22.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
.-.+++||||||||+++..+...+...
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 456899999999999998887776543
No 157
>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=94.93 E-value=0.056 Score=71.79 Aligned_cols=73 Identities=18% Similarity=0.160 Sum_probs=59.5
Q ss_pred CCHHHHHHHHHhhhhccCCC---CCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRLDCGH---RSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~h---~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.-..|..||..++..+.-.. ...-.+||-|.|||||.|++.++..|+.. ..+||+++|++.=+++..+.+...
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 56789999999887653211 23468999999999999999999888753 579999999999999998887764
No 158
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.93 E-value=0.048 Score=69.15 Aligned_cols=57 Identities=21% Similarity=0.180 Sum_probs=38.2
Q ss_pred CHHHHHHHHHhhhhccCC-CCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcC
Q 000228 258 NESQVGAMLACLRRLDCG-HRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTP 314 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~-h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAP 314 (1825)
.++...|+..+....... ...+..+|+||||||||+++.++...+... +.+++.+..
T Consensus 127 g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 127 GKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 344444555554432221 122458999999999999999999998876 566766544
No 159
>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=94.92 E-value=0.043 Score=66.90 Aligned_cols=50 Identities=26% Similarity=0.374 Sum_probs=42.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.+|.||+|+|||.+....+...+. .+.|+++++|+...+.++.+++....
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 689999999999987666655553 35799999999999999999999864
No 160
>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=94.89 E-value=0.038 Score=72.02 Aligned_cols=54 Identities=22% Similarity=0.295 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA 311 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV 311 (1825)
....+.+.|.+.+..++.. ..++.||.||+|+|||||+.+++..+.....+|++
T Consensus 296 ~~lg~~~~~~~~l~~~~~~-----~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~t 349 (564)
T TIGR02538 296 DKLGFEPDQKALFLEAIHK-----PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIST 349 (564)
T ss_pred HHcCCCHHHHHHHHHHHHh-----cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEE
Confidence 4567889999999988763 47999999999999999998888877544555554
No 161
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.87 E-value=0.027 Score=71.80 Aligned_cols=26 Identities=35% Similarity=0.442 Sum_probs=22.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+..|++||||||||+++..++..+..
T Consensus 37 ~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 37 HAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 34699999999999999888877764
No 162
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=94.85 E-value=0.044 Score=69.43 Aligned_cols=61 Identities=20% Similarity=0.145 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEcC
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACTP 314 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcAP 314 (1825)
+|-..++...|...|.....-.......+|+||||||||+++.++...+... +.+++.+..
T Consensus 106 nFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 106 NFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred ccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 3344556666666655432211112358999999999999999999988875 467777654
No 163
>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=94.83 E-value=0.035 Score=71.10 Aligned_cols=52 Identities=25% Similarity=0.248 Sum_probs=44.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
..++.||-||||||||++....+...+++|.+++.++.-. ..+++..|...+
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eE-s~~~i~~~~~~l 313 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEE-SRAQLLRNAYSW 313 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeC-CHHHHHHHHHHc
Confidence 4789999999999999999999999999999999998544 666777776554
No 164
>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=94.76 E-value=0.085 Score=65.03 Aligned_cols=63 Identities=27% Similarity=0.316 Sum_probs=49.8
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
|.+|+...... ++++.+|.+|+|+|||..... .++..+.++++++|+++-+.+..+++.+...
T Consensus 2 Q~~~~~~~~~~-----~~~~~~i~apTGsGKT~~~~~---~~l~~~~~~~~~~P~~aL~~~~~~~~~~~~~ 64 (357)
T TIGR03158 2 QVATFEALQSK-----DADIIFNTAPTGAGKTLAWLT---PLLHGENDTIALYPTNALIEDQTEAIKEFVD 64 (357)
T ss_pred HHHHHHHHHcC-----CCCEEEEECCCCCCHHHHHHH---HHHHcCCCEEEEeChHHHHHHHHHHHHHHHH
Confidence 88888887652 346899999999999986532 2234567899999999999999999998764
No 165
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.76 E-value=0.087 Score=68.85 Aligned_cols=68 Identities=22% Similarity=0.175 Sum_probs=54.0
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHH-HHHHHHc---------CCcEEEEcCChHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSML-LLTLLRI---------KCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaL-L~~LLk~---------~~RILVcAPTN~AVDEVaeR 325 (1825)
.+++-|.+||-.++. +.=.++++|.|||||.+.... +..++.. +.++|+++||..-+.++.++
T Consensus 31 ~ptpiQ~~~ip~~l~-------G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~ 103 (572)
T PRK04537 31 RCTPIQALTLPVALP-------GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKD 103 (572)
T ss_pred CCCHHHHHHHHHHhC-------CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHH
Confidence 589999999999886 334899999999999875443 4444431 36899999999999999998
Q ss_pred HHHHh
Q 000228 326 VLKLV 330 (1825)
Q Consensus 326 L~klv 330 (1825)
+.++.
T Consensus 104 ~~~l~ 108 (572)
T PRK04537 104 AVKFG 108 (572)
T ss_pred HHHHh
Confidence 87764
No 166
>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=94.74 E-value=0.059 Score=63.61 Aligned_cols=47 Identities=21% Similarity=0.209 Sum_probs=30.9
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEE
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTL 310 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RIL 310 (1825)
+++.++.+..++..+. .+...++.||||||||+++.++...+ +.++.
T Consensus 4 t~~~~~l~~~~l~~l~---~g~~vLL~G~~GtGKT~lA~~la~~l---g~~~~ 50 (262)
T TIGR02640 4 TDAVKRVTSRALRYLK---SGYPVHLRGPAGTGKTTLAMHVARKR---DRPVM 50 (262)
T ss_pred CHHHHHHHHHHHHHHh---cCCeEEEEcCCCCCHHHHHHHHHHHh---CCCEE
Confidence 4455555555554333 25567899999999999988776533 54443
No 167
>PRK04195 replication factor C large subunit; Provisional
Probab=94.72 E-value=0.065 Score=68.59 Aligned_cols=57 Identities=21% Similarity=0.289 Sum_probs=39.2
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
-.++.+.+.+...+....-.......||+||||||||+++.+++..+ +..++.+..+
T Consensus 17 vg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~~~~ielnas 73 (482)
T PRK04195 17 VGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---GWEVIELNAS 73 (482)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEccc
Confidence 35777777777766542212235789999999999999998887665 5555555433
No 168
>PHA02653 RNA helicase NPH-II; Provisional
Probab=94.71 E-value=0.077 Score=70.32 Aligned_cols=53 Identities=26% Similarity=0.271 Sum_probs=40.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH---------HHH------cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLT---------LLR------IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~---------LLk------~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
+...+++||+|||||+.+-.++.. .+. .+.++++++||..|+.++..++.+.+
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 678899999999999876443321 111 24589999999999999999987753
No 169
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=94.68 E-value=0.056 Score=63.21 Aligned_cols=68 Identities=24% Similarity=0.342 Sum_probs=45.4
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChH-HHHHHHHHHH
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNV-AITELASRVL 327 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~-AVDEVaeRL~ 327 (1825)
.|++++..=....--..+..-.|+||++|||||.+|.+++......|-|++=+....- .+..+++.|.
T Consensus 34 ~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~ 102 (249)
T PF05673_consen 34 RQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred HHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHh
Confidence 4665554322221112344568999999999999999999999999999887776653 3344444433
No 170
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=94.66 E-value=0.06 Score=64.63 Aligned_cols=67 Identities=19% Similarity=0.272 Sum_probs=43.3
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
-.++...+.+...+.. .+.+.+.+++||||||||+++.++...+ +..++.+.++..-++.+.+.+..
T Consensus 24 ~~~~~~~~~l~~~~~~---~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~~~~~~i~~~l~~ 90 (316)
T PHA02544 24 ILPAADKETFKSIVKK---GRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSDCRIDFVRNRLTR 90 (316)
T ss_pred cCcHHHHHHHHHHHhc---CCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCcccHHHHHHHHHH
Confidence 4677777777776652 2345688889999999999988886654 44555554443224544444443
No 171
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=94.65 E-value=0.012 Score=77.73 Aligned_cols=67 Identities=30% Similarity=0.316 Sum_probs=59.4
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc----CCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI----KCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~----~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.||+.|++||... .+-.+|.|+||||||+|++..+..|+.. ..+||++|+||.|+.|+.+||.+.+.
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 4899999999754 4678999999999999999999999963 36899999999999999999998754
No 172
>PF13173 AAA_14: AAA domain
Probab=94.63 E-value=0.071 Score=55.94 Aligned_cols=45 Identities=27% Similarity=0.263 Sum_probs=37.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELA 323 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVa 323 (1825)
+.+.+|.||.|+||||++..++..+. .+.+++.+...........
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~ 46 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLA 46 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHh
Confidence 57999999999999999999998888 7778888877766665443
No 173
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.59 E-value=0.04 Score=66.58 Aligned_cols=47 Identities=30% Similarity=0.269 Sum_probs=39.6
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc---CChHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT---PTNVAITEL 322 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA---PTN~AVDEV 322 (1825)
+.+.+.|+-|..||||||||+.+...+...|.+|++.| +--.|++++
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL 186 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQL 186 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHH
Confidence 34789999999999999999999999999999998875 334566654
No 174
>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=94.58 E-value=0.046 Score=70.38 Aligned_cols=48 Identities=21% Similarity=0.304 Sum_probs=44.4
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
|++||.|+|||.+...++...+..|.++|+++|+..-+.++.+|+.+.
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 689999999999998888888889999999999999999999999875
No 175
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=94.57 E-value=0.054 Score=68.70 Aligned_cols=37 Identities=22% Similarity=0.338 Sum_probs=32.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
...+|+||||||||+++.++...+...+.+++.+...
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 4578999999999999999999999889999877653
No 176
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.56 E-value=0.088 Score=68.82 Aligned_cols=29 Identities=28% Similarity=0.249 Sum_probs=25.0
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+-+...|++||||||||+++..+...|..
T Consensus 36 RLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 36 RLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34557799999999999999999998885
No 177
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.55 E-value=0.1 Score=66.75 Aligned_cols=49 Identities=18% Similarity=0.228 Sum_probs=34.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcC---------------------Cc-EEEEcCChHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIK---------------------CR-TLACTPTNVAITELASRV 326 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~---------------------~R-ILVcAPTN~AVDEVaeRL 326 (1825)
+.-.|++||||||||+++..+...|.... .. +-+-|.+|.-||+|.+-+
T Consensus 35 ~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~Ii 105 (491)
T PRK14964 35 PQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVIL 105 (491)
T ss_pred CceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHHH
Confidence 45789999999999999888877775321 12 333455677788876544
No 178
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.54 E-value=0.038 Score=68.23 Aligned_cols=43 Identities=28% Similarity=0.259 Sum_probs=28.5
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
|..++....++...+.-+...|+.||||||||+++-.++..+.
T Consensus 21 q~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 21 QKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 5555544333332222344569999999999999988877765
No 179
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.53 E-value=0.046 Score=65.78 Aligned_cols=44 Identities=27% Similarity=0.344 Sum_probs=30.8
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
++...+.+..++.. . ..+..++.||||||||+++.++...+...
T Consensus 20 ~~~~~~~L~~~~~~---~-~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDS---P-NLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhC---C-CCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 45556666666542 1 22358999999999999998887776543
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=94.53 E-value=0.031 Score=57.24 Aligned_cols=23 Identities=43% Similarity=0.670 Sum_probs=19.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.+|.||||+||||++..+...+
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 35899999999999888776655
No 181
>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=94.52 E-value=0.053 Score=52.17 Aligned_cols=33 Identities=27% Similarity=0.280 Sum_probs=30.7
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.+|.|.+|+|||++...++..|.+.+.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999999999999888
No 182
>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=94.50 E-value=0.031 Score=66.80 Aligned_cols=27 Identities=33% Similarity=0.377 Sum_probs=22.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
-.+++||||||||+++..+...+...+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 588999999999999888877776643
No 183
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.48 E-value=0.02 Score=71.18 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=31.9
Q ss_pred CCCCCCCHHHHHHHHHhhhhcc-CC--------CCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 252 SFSSTLNESQVGAMLACLRRLD-CG--------HRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~-c~--------h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
....-+++-=++-|..-+..-- +. .=..=-|..||||||||+.|++++-.|
T Consensus 200 F~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 200 FETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc
Confidence 3344566666666655444311 00 111236999999999999999887665
No 184
>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=94.47 E-value=0.064 Score=65.21 Aligned_cols=41 Identities=17% Similarity=0.220 Sum_probs=35.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNV 317 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~ 317 (1825)
...+++|-||||||||++...++....+.+.+++....-+.
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~ 94 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA 94 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccch
Confidence 46799999999999999999999999999999888866553
No 185
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.47 E-value=0.065 Score=67.76 Aligned_cols=53 Identities=26% Similarity=0.362 Sum_probs=45.9
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA 311 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV 311 (1825)
...+++.|...+...+. .+.|+.|+.||-|+|||||+-+.+..+.....+|..
T Consensus 239 ~Lg~~~~~~~~~~~~~~-----~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~T 291 (500)
T COG2804 239 KLGMSPFQLARLLRLLN-----RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIIT 291 (500)
T ss_pred HhCCCHHHHHHHHHHHh-----CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEE
Confidence 34679999999999987 478999999999999999999999999887777654
No 186
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.46 E-value=0.046 Score=67.71 Aligned_cols=38 Identities=32% Similarity=0.401 Sum_probs=31.0
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHc-C-CcEEEEc
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRI-K-CRTLACT 313 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~-~RILVcA 313 (1825)
..+++.++.||||+|||||++.+...+... | .+|.+++
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit 174 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT 174 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 357899999999999999999999987654 4 5776554
No 187
>PRK09694 helicase Cas3; Provisional
Probab=94.46 E-value=0.11 Score=70.74 Aligned_cols=72 Identities=21% Similarity=0.239 Sum_probs=58.8
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.+..++-|+.+-.... .+++.+|.+|.|+|||..+...+..|+..+ .+|.++.||-+.++++.+|+.+...
T Consensus 284 ~~~p~p~Q~~~~~~~~-------~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 284 GYQPRQLQTLVDALPL-------QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCCChHHHHHHHhhcc-------CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 4578899997743221 378999999999999999877777777654 7999999999999999999988654
Q ss_pred h
Q 000228 332 E 332 (1825)
Q Consensus 332 e 332 (1825)
.
T Consensus 357 ~ 357 (878)
T PRK09694 357 K 357 (878)
T ss_pred H
Confidence 3
No 188
>PRK13342 recombination factor protein RarA; Reviewed
Probab=94.41 E-value=0.084 Score=66.29 Aligned_cols=46 Identities=24% Similarity=0.468 Sum_probs=31.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL 326 (1825)
.+-.+++||||||||+++..+...+ +.+...+..+...++++..-+
T Consensus 36 ~~~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~~~ir~ii 81 (413)
T PRK13342 36 LSSMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGVKDLREVI 81 (413)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccHHHHHHHH
Confidence 3467889999999999888775543 455555555555555554433
No 189
>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=94.40 E-value=0.07 Score=61.48 Aligned_cols=35 Identities=20% Similarity=0.329 Sum_probs=28.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcA 313 (1825)
....|+||+|+|||+++.++...+.+. +.||+...
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 357899999999999999999998874 66776654
No 190
>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=94.40 E-value=0.068 Score=74.57 Aligned_cols=65 Identities=22% Similarity=0.276 Sum_probs=51.0
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.++.|..++. .+.+.+|+||||+||||-+-.++...-. ...+|+++-|-..|+-.++.|+.+...
T Consensus 71 ~~~~Il~~l~------~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg 136 (1283)
T TIGR01967 71 KREDIAEAIA------ENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELG 136 (1283)
T ss_pred HHHHHHHHHH------hCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhC
Confidence 4577888886 3679999999999999988655544321 235788889999999999999998754
No 191
>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=94.39 E-value=0.046 Score=68.84 Aligned_cols=39 Identities=28% Similarity=0.269 Sum_probs=31.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEE-cCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLAC-TPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVc-APTN 316 (1825)
+.+.++.||||+|||||++.++..+. +.|.+|+++ +-+.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~ 139 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLY 139 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecccc
Confidence 56899999999999999999999987 467887654 4443
No 192
>PRK13768 GTPase; Provisional
Probab=94.38 E-value=0.046 Score=64.29 Aligned_cols=35 Identities=20% Similarity=0.153 Sum_probs=31.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
-+.+|.||||+||||++..+...+...|.+++++.
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 37899999999999999999999999999998864
No 193
>PRK13767 ATP-dependent helicase; Provisional
Probab=94.34 E-value=0.11 Score=70.99 Aligned_cols=68 Identities=22% Similarity=0.268 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHH-HHHHHHHc--------CCcEEEEcCChHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSM-LLLTLLRI--------KCRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaa-LL~~LLk~--------~~RILVcAPTN~AVDEVaeRL 326 (1825)
.+++-|.+|+...+. +.-.+|++|.|||||..... ++..++.. +.++|+++||.+-+.++..++
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 44689999999999987543 34444431 346999999999999998888
Q ss_pred HHHh
Q 000228 327 LKLV 330 (1825)
Q Consensus 327 ~klv 330 (1825)
...+
T Consensus 105 ~~~l 108 (876)
T PRK13767 105 EEPL 108 (876)
T ss_pred HHHH
Confidence 7654
No 194
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.32 E-value=0.069 Score=66.33 Aligned_cols=46 Identities=22% Similarity=0.232 Sum_probs=36.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC-Ch--HHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP-TN--VAITELA 323 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP-TN--~AVDEVa 323 (1825)
+.+.+|-||+|+|||||++.+...+...+.++++++. +. .|++++.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHH
Confidence 4688999999999999999999999888888866543 44 3666543
No 195
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.32 E-value=0.055 Score=71.91 Aligned_cols=48 Identities=27% Similarity=0.302 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHhhhhc-cCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRL-DCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~-~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
--+.|.+.|..+|... .....+.+.+|.||||||||.|+..++..|-.
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4567777777777642 22233345679999999999999888776643
No 196
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.27 E-value=0.064 Score=68.16 Aligned_cols=26 Identities=31% Similarity=0.473 Sum_probs=22.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
...|++||||||||+++..++..|..
T Consensus 41 ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 41 HAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 35699999999999999988888765
No 197
>PF05729 NACHT: NACHT domain
Probab=94.21 E-value=0.045 Score=58.29 Aligned_cols=27 Identities=33% Similarity=0.440 Sum_probs=23.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
+.+|.|+||+|||+++..++..+....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 679999999999999999988887754
No 198
>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=94.19 E-value=0.07 Score=59.67 Aligned_cols=50 Identities=24% Similarity=0.265 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
.+++.|.+.+..++. .....+|-||+|+||||++.+++.. +....++++.
T Consensus 9 ~~~~~~~~~l~~~v~------~g~~i~I~G~tGSGKTTll~aL~~~-i~~~~~~i~i 58 (186)
T cd01130 9 TFSPLQAAYLWLAVE------ARKNILISGGTGSGKTTLLNALLAF-IPPDERIITI 58 (186)
T ss_pred CCCHHHHHHHHHHHh------CCCEEEEECCCCCCHHHHHHHHHhh-cCCCCCEEEE
Confidence 478889999999987 3789999999999999999886654 4455566544
No 199
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.19 E-value=0.071 Score=67.66 Aligned_cols=51 Identities=22% Similarity=0.295 Sum_probs=41.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|.||||||||+++..++..+.+.+.++|.++... ..+++..|..+
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra~r 129 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRAER 129 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHHHH
Confidence 4679999999999999999999999888889998888644 44566666443
No 200
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.08 E-value=0.16 Score=65.79 Aligned_cols=27 Identities=30% Similarity=0.300 Sum_probs=22.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|+.||||||||+++..+...|..
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 445699999999999999888888864
No 201
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.07 E-value=0.055 Score=64.40 Aligned_cols=36 Identities=28% Similarity=0.478 Sum_probs=30.9
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcC-CcEEE
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIK-CRTLA 311 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~-~RILV 311 (1825)
...|+.||.||-|+|||||+++++-++-+.. ..||+
T Consensus 123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlT 159 (353)
T COG2805 123 SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILT 159 (353)
T ss_pred CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEE
Confidence 4689999999999999999999999988754 45665
No 202
>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=94.05 E-value=0.036 Score=58.31 Aligned_cols=22 Identities=32% Similarity=0.647 Sum_probs=17.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+.++.||||+||||++..+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999987766533
No 203
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.01 E-value=0.069 Score=66.15 Aligned_cols=75 Identities=23% Similarity=0.289 Sum_probs=54.5
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCc---EEEEcCChHHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCR---TLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~R---ILVcAPTN~AVDEVaeRL~kl 329 (1825)
..--++|.+.+..++...--++.+.-.+|-||||||||.|+..++..+...-.+ +=|=|..+.-..++..+|...
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 566788999999888865444555568999999999999999998888875322 333355555566666666654
No 204
>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=94.01 E-value=0.073 Score=63.60 Aligned_cols=25 Identities=32% Similarity=0.614 Sum_probs=20.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+..+++||||||||+++..+...+
T Consensus 30 ~~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 30 LDHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 3458999999999999988776654
No 205
>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=94.00 E-value=0.09 Score=64.05 Aligned_cols=41 Identities=15% Similarity=0.228 Sum_probs=36.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNV 317 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~ 317 (1825)
...++.|.||||||||++...++....+.+.+++.+..-+.
T Consensus 54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~ 94 (325)
T cd00983 54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHA 94 (325)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECcccc
Confidence 36799999999999999999999999999999998887654
No 206
>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=93.99 E-value=0.086 Score=65.44 Aligned_cols=51 Identities=22% Similarity=0.271 Sum_probs=41.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|.||||+|||+++..++..+...+.++|.++... ..+++..|..+
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE-s~~qi~~Ra~r 131 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE-SPEQIKLRADR 131 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc-CHHHHHHHHHH
Confidence 4689999999999999999999999998889999887654 34556555443
No 207
>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=93.99 E-value=0.066 Score=63.05 Aligned_cols=50 Identities=28% Similarity=0.351 Sum_probs=36.9
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
+...+.+..++. ..+..+|.||||+||||++.+++..+-....+|+++-.
T Consensus 114 ~~~~~~l~~~v~------~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd 163 (270)
T PF00437_consen 114 EEIAEFLRSAVR------GRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIED 163 (270)
T ss_dssp HHHHHHHHHCHH------TTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEES
T ss_pred HHHHHHHhhccc------cceEEEEECCCccccchHHHHHhhhccccccceEEecc
Confidence 444555555544 36899999999999999999998766555577777543
No 208
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.95 E-value=0.074 Score=68.16 Aligned_cols=52 Identities=17% Similarity=0.103 Sum_probs=41.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+.||.||||||||+.....+..-+.. +.++|.++.- ...+++..+..+.
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~ 72 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSF 72 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHc
Confidence 47899999999999999999998876665 8999988875 4556666665544
No 209
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=93.92 E-value=0.067 Score=65.00 Aligned_cols=46 Identities=22% Similarity=0.356 Sum_probs=29.7
Q ss_pred CCHHHHHHHHHhhhhc-cCCCCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRL-DCGHRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~-~c~h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
-.+...+++...+... ..+...+..+|+||||||||+++..+...+
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 3445555555544321 112334578999999999999998776655
No 210
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.91 E-value=0.16 Score=65.44 Aligned_cols=39 Identities=26% Similarity=0.206 Sum_probs=28.4
Q ss_pred HHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 263 GAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 263 eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+++..++.. +.-+...|++||||||||+++..+...|..
T Consensus 26 ~~L~~~~~~---~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 26 RALSNALDQ---QYLHHAYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred HHHHHHHHh---CCCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344455432 223456799999999999999998888875
No 211
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.90 E-value=0.065 Score=67.56 Aligned_cols=38 Identities=32% Similarity=0.342 Sum_probs=30.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH--HcCCcEEEE-cCC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL--RIKCRTLAC-TPT 315 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL--k~~~RILVc-APT 315 (1825)
+.+.++.||+|+|||||++.+...+. ..+.+|.++ +.+
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~ 261 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT 261 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence 45888999999999999999998887 456777654 444
No 212
>CHL00181 cbbX CbbX; Provisional
Probab=93.88 E-value=0.056 Score=64.83 Aligned_cols=36 Identities=28% Similarity=0.267 Sum_probs=26.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcC----CcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIK----CRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~----~RILVcAP 314 (1825)
...++.||||||||+++..+...+...+ ..++.+..
T Consensus 60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~ 99 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR 99 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH
Confidence 3478999999999999988877776543 23555553
No 213
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.84 E-value=0.15 Score=66.83 Aligned_cols=27 Identities=30% Similarity=0.284 Sum_probs=23.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|+.||||||||+++..++..|..
T Consensus 37 ~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 37 HHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 457799999999999999888888864
No 214
>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=93.84 E-value=0.075 Score=63.98 Aligned_cols=37 Identities=24% Similarity=0.272 Sum_probs=32.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
...+..|.||||+||||++..++..+...+.++.+++
T Consensus 33 ~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 33 NAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 4678888899999999999999999999999987765
No 215
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.81 E-value=0.19 Score=64.21 Aligned_cols=68 Identities=22% Similarity=0.219 Sum_probs=52.5
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHH-HHHHHHHHc---------CCcEEEEcCChHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVS-MLLLTLLRI---------KCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIa-aLL~~LLk~---------~~RILVcAPTN~AVDEVaeR 325 (1825)
.+++-|.+|+..++. +.=.+|.+|.|||||..-. .++..++.. +.++|+++||..-+.++.+.
T Consensus 109 ~~~~iQ~~ai~~~~~-------G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~ 181 (475)
T PRK01297 109 YCTPIQAQVLGYTLA-------GHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKD 181 (475)
T ss_pred CCCHHHHHHHHHHhC-------CCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHH
Confidence 589999999999876 3346789999999996642 334444442 35899999999999999888
Q ss_pred HHHHh
Q 000228 326 VLKLV 330 (1825)
Q Consensus 326 L~klv 330 (1825)
+..+.
T Consensus 182 ~~~l~ 186 (475)
T PRK01297 182 AAALT 186 (475)
T ss_pred HHHhh
Confidence 87763
No 216
>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=93.81 E-value=0.11 Score=64.32 Aligned_cols=35 Identities=20% Similarity=0.354 Sum_probs=29.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLAC 312 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVc 312 (1825)
.++.+|.||+|+|||||+.+++..+... +.+|+++
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 6899999999999999999999888753 4566654
No 217
>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=93.80 E-value=0.056 Score=66.32 Aligned_cols=37 Identities=22% Similarity=0.408 Sum_probs=29.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcA 313 (1825)
..++.+|.||+|+|||||+.+++..+... +.+|++.-
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 46899999999999999999988877643 45666653
No 218
>PRK06851 hypothetical protein; Provisional
Probab=93.80 E-value=0.068 Score=66.05 Aligned_cols=45 Identities=16% Similarity=0.198 Sum_probs=37.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE--EcCChHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA--CTPTNVAITEL 322 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV--cAPTN~AVDEV 322 (1825)
..+.+|.||||||||+++..++..+..+|.+|.+ |+.-+..+|-|
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 5789999999999999999999999999998866 56555555543
No 219
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.78 E-value=0.074 Score=65.60 Aligned_cols=24 Identities=38% Similarity=0.573 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.-.|++||||||||+++.++...+
T Consensus 157 ~gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhC
Confidence 348999999999999988776543
No 220
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.77 E-value=0.074 Score=66.63 Aligned_cols=36 Identities=28% Similarity=0.400 Sum_probs=29.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH-HHcCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL-LRIKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L-Lk~~~RILVcA 313 (1825)
+.+.+|.||||+|||||++.++..+ ...|.+|++++
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit 259 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYT 259 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEec
Confidence 4578899999999999999999765 56788886654
No 221
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.75 E-value=0.091 Score=62.74 Aligned_cols=45 Identities=29% Similarity=0.355 Sum_probs=31.9
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
.+.+.+++...+.. ...+..+|+||||||||+++..+...+...+
T Consensus 22 ~~~~~~~l~~~i~~----~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 22 QEEIVERLKSYVKE----KNMPHLLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred cHHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 34455566665542 2233469999999999999999888887654
No 222
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=93.75 E-value=0.16 Score=67.54 Aligned_cols=75 Identities=24% Similarity=0.184 Sum_probs=65.7
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
...||+.|+.|+....+.. +.....|++|.+|+|||-+-..++...+..|+.+|+.-|--.-..++.+|+...+.
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 4589999999999988753 23578999999999999999999999999999999999988888888889887643
No 223
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.64 E-value=0.085 Score=65.31 Aligned_cols=46 Identities=26% Similarity=0.227 Sum_probs=36.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE-cCCh--HHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC-TPTN--VAITEL 322 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc-APTN--~AVDEV 322 (1825)
.+.+.+|.||+|+|||||++.+...+...+.+|.++ +-|- .|++++
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQL 253 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQF 253 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHH
Confidence 467899999999999999999999988888888654 4443 345543
No 224
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=93.63 E-value=0.07 Score=68.58 Aligned_cols=44 Identities=18% Similarity=0.105 Sum_probs=30.6
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
|..++.....++..+.-+...|++||||||||+++..+...|..
T Consensus 26 q~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 26 QEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44444433222333334567899999999999999999888865
No 225
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.63 E-value=0.051 Score=64.76 Aligned_cols=25 Identities=40% Similarity=0.589 Sum_probs=19.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
.+-..+||||||||||...-++.+.
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~Vaa~ 189 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAVAAT 189 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHHHHh
Confidence 4678999999999999876555443
No 226
>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=93.60 E-value=0.12 Score=55.53 Aligned_cols=53 Identities=26% Similarity=0.253 Sum_probs=35.8
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
|+.+.+++-..+.. +-..+.+.++.||+|+|||+++..++..| +..--|.+||
T Consensus 4 s~~~t~~l~~~l~~--~l~~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPT 56 (133)
T TIGR00150 4 DEKAMDKFGKAFAK--PLDFGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPT 56 (133)
T ss_pred CHHHHHHHHHHHHH--hCCCCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCC
Confidence 34444555554442 11346799999999999999998888876 2223477777
No 227
>PRK00889 adenylylsulfate kinase; Provisional
Probab=93.59 E-value=0.1 Score=57.43 Aligned_cols=37 Identities=22% Similarity=0.143 Sum_probs=31.1
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
|.+.+..|.|+||+||||+...+...+...+.++.+.
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 5677999999999999999998888887777677655
No 228
>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=93.58 E-value=0.12 Score=59.87 Aligned_cols=52 Identities=21% Similarity=0.297 Sum_probs=40.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH------------cCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR------------IKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk------------~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.+.+|.||||||||+++..++.++.. .+.+||+.+--+.+ +++..|+.....
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i~~ 65 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAILQ 65 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHHHh
Confidence 47899999999999999999887653 35678887755533 578889888754
No 229
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.58 E-value=0.064 Score=68.14 Aligned_cols=41 Identities=22% Similarity=0.346 Sum_probs=29.2
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
|.++|..++.++- .++-.||.||||||||+++.++...+-.
T Consensus 25 re~vI~lll~aal---ag~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 25 RSHAIRLCLLAAL---SGESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred cHHHHHHHHHHHc---cCCCEEEECCCChhHHHHHHHHHHHhcc
Confidence 4455555554433 3678999999999999988777765543
No 230
>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=93.56 E-value=0.097 Score=64.42 Aligned_cols=50 Identities=20% Similarity=0.147 Sum_probs=33.6
Q ss_pred CCCCCHHHHHHHHHhhhhcc-CCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 254 SSTLNESQVGAMLACLRRLD-CGHRSGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~-c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
-+.+.+...+.|...-.+.. -.....+.++.||||||||+++.++...|-
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 35566666666654433321 123467899999999999998877766654
No 231
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.54 E-value=0.073 Score=68.93 Aligned_cols=44 Identities=25% Similarity=0.201 Sum_probs=30.1
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
|..++......+..+.-+...|++||||||||+++..++..|..
T Consensus 21 q~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 21 QQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 44444433333333333456799999999999999998888874
No 232
>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=93.50 E-value=0.25 Score=52.61 Aligned_cols=57 Identities=18% Similarity=0.225 Sum_probs=40.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCc---EEE-----EcCChHHHHHHHHHHHHHhhhh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCR---TLA-----CTPTNVAITELASRVLKLVKES 333 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~R---ILV-----cAPTN~AVDEVaeRL~klv~es 333 (1825)
++=+...+||||||||.+..-|+..|.+.|.+ |.. =-|.+.-|++-.+.|...+.+.
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I~~~ 116 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWIRGN 116 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHHHHH
Confidence 33455689999999999999999999987532 211 1256667777777777665553
No 233
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=93.48 E-value=0.037 Score=72.85 Aligned_cols=69 Identities=29% Similarity=0.340 Sum_probs=59.6
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC----CcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK----CRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~----~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
-||.+|..+....+ +...+|+| ||+|||.++...+++++... .-|++.+.||.|++++.+++.....
T Consensus 13 ~l~~~q~~~~~~~~--------~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~il~ 83 (853)
T KOG2108|consen 13 LLNKSQRFSALSPL--------RRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAILR 83 (853)
T ss_pred hhhhhhhhhhcCCC--------cccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHHhc
Confidence 58889998887653 47899999 79999999999999999754 4689999999999999999999876
Q ss_pred hh
Q 000228 332 ES 333 (1825)
Q Consensus 332 es 333 (1825)
.+
T Consensus 84 ~~ 85 (853)
T KOG2108|consen 84 TS 85 (853)
T ss_pred CC
Confidence 64
No 234
>PHA00729 NTP-binding motif containing protein
Probab=93.48 E-value=0.058 Score=62.56 Aligned_cols=24 Identities=25% Similarity=0.440 Sum_probs=21.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
-.+|.||||||||+++.++...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999999988765
No 235
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=93.47 E-value=0.22 Score=64.40 Aligned_cols=68 Identities=19% Similarity=0.167 Sum_probs=51.4
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHH-HHHHHHHHH---------cCCcEEEEcCChHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTV-SMLLLTLLR---------IKCRTLACTPTNVAITELAS 324 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTI-aaLL~~LLk---------~~~RILVcAPTN~AVDEVae 324 (1825)
..+++-|.+|+..++. +.=.++.+|.|||||..- ..++..++. .+.++|+++||..-+.++..
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 3689999999999986 345899999999999753 333333332 35689999999988888777
Q ss_pred HHHHH
Q 000228 325 RVLKL 329 (1825)
Q Consensus 325 RL~kl 329 (1825)
.+..+
T Consensus 215 ~~~~l 219 (518)
T PLN00206 215 QAKVL 219 (518)
T ss_pred HHHHH
Confidence 66554
No 236
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=93.47 E-value=0.21 Score=67.44 Aligned_cols=83 Identities=24% Similarity=0.309 Sum_probs=62.8
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEEcCChHHHHHHHHHHHHHhhhhhccCC
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLACTPTNVAITELASRVLKLVKESYKRDS 338 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVcAPTN~AVDEVaeRL~klv~es~~~~~ 338 (1825)
..+..|..++. ++.+.+|.||||+||||-+-..+...- ..+.+|.++=|-..|+-.+++|+.+.......
T Consensus 53 ~~~~~i~~ai~------~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G--- 123 (845)
T COG1643 53 AVRDEILKAIE------QNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLG--- 123 (845)
T ss_pred HHHHHHHHHHH------hCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcC---
Confidence 35678888887 478999999999999999876665555 34568888899999999999999997655322
Q ss_pred CCCCCCCCCCceEEeccCC
Q 000228 339 RSNTPICPLGDILLFGNKD 357 (1825)
Q Consensus 339 ~~~~~~ygLgdIVRfGn~~ 357 (1825)
--.|.-+||-+..
T Consensus 124 ------~~VGY~iRfe~~~ 136 (845)
T COG1643 124 ------ETVGYSIRFESKV 136 (845)
T ss_pred ------ceeeEEEEeeccC
Confidence 1234577776644
No 237
>PTZ00110 helicase; Provisional
Probab=93.46 E-value=0.22 Score=64.82 Aligned_cols=67 Identities=16% Similarity=0.084 Sum_probs=50.5
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHH-HHHHHHHH-------cCCcEEEEcCChHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVS-MLLLTLLR-------IKCRTLACTPTNVAITELASRVL 327 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIa-aLL~~LLk-------~~~RILVcAPTN~AVDEVaeRL~ 327 (1825)
.+++-|..|+-.+++ +.=.++.+|.|||||.+-. -++..+.. .+..+|+++||..-+.++.+.+.
T Consensus 152 ~pt~iQ~~aip~~l~-------G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~ 224 (545)
T PTZ00110 152 EPTPIQVQGWPIALS-------GRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCN 224 (545)
T ss_pred CCCHHHHHHHHHHhc-------CCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHH
Confidence 589999999999886 2345788999999998632 22333332 24579999999999998888877
Q ss_pred HH
Q 000228 328 KL 329 (1825)
Q Consensus 328 kl 329 (1825)
++
T Consensus 225 ~~ 226 (545)
T PTZ00110 225 KF 226 (545)
T ss_pred HH
Confidence 65
No 238
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=93.45 E-value=0.23 Score=65.98 Aligned_cols=41 Identities=27% Similarity=0.318 Sum_probs=29.1
Q ss_pred HHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 262 VGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 262 ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
.+.+..++.. +.-....|+.||||||||+++..++..|...
T Consensus 27 v~~L~~aI~~---~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 27 VQTLKNIIKS---NKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred HHHHHHHHHc---CCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 3344455442 2234567999999999999999988888764
No 239
>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=93.45 E-value=0.19 Score=64.06 Aligned_cols=64 Identities=20% Similarity=0.177 Sum_probs=48.8
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
..+.+-|.+||..++. +.-.+|..|.|||||.+ .++-.+ ..+..+||++||..-+.+...++..
T Consensus 10 ~~~r~~Q~~ai~~~l~-------g~dvlv~apTGsGKTl~--y~lp~l-~~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 10 SSFRPVQLEVINAVLL-------GRDCFVVMPTGGGKSLC--YQLPAL-CSDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CCCCHHHHHHHHHHHc-------CCCEEEEcCCCCcHhHH--HHHHHH-HcCCcEEEEecHHHHHHHHHHHHHH
Confidence 3689999999999987 23478999999999954 233333 3567899999999877777777654
No 240
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=93.45 E-value=0.11 Score=67.87 Aligned_cols=28 Identities=21% Similarity=0.376 Sum_probs=24.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
+...|++||||||||+++..+...|...
T Consensus 38 ~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 38 THAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4567899999999999999998888753
No 241
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.40 E-value=0.092 Score=65.52 Aligned_cols=25 Identities=36% Similarity=0.555 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.-.|+.||||||||+++.++...+
T Consensus 165 p~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred CCceEEECCCCCChHHHHHHHHHHh
Confidence 3457999999999999988776543
No 242
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.40 E-value=0.14 Score=63.81 Aligned_cols=45 Identities=22% Similarity=0.188 Sum_probs=34.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH----cCCcEEE-EcCC--hHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR----IKCRTLA-CTPT--NVAITE 321 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk----~~~RILV-cAPT--N~AVDE 321 (1825)
.+.+.++-||+|+|||||++.+.+.+.. .+.+|.+ ++-| ..|+++
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 3579999999999999999999988764 3567654 4444 556655
No 243
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=93.40 E-value=0.12 Score=66.61 Aligned_cols=51 Identities=25% Similarity=0.222 Sum_probs=43.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
.+.+.+|.||||||||+++..++...+..|.+++.++.... .+++.++...
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHHH
Confidence 47899999999999999999999999999999999988764 6667666654
No 244
>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=93.38 E-value=0.069 Score=54.60 Aligned_cols=23 Identities=43% Similarity=0.796 Sum_probs=19.8
Q ss_pred EEEcCCCCChhHHHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
.|+||||+|||+++..++..++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 58999999999998888777764
No 245
>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=93.38 E-value=0.11 Score=57.86 Aligned_cols=49 Identities=18% Similarity=0.204 Sum_probs=39.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
+.+|.||||+|||+....++.. .+.+++.+|-....=+++..|+.++..
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~~ 49 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHRK 49 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHHH
Confidence 4799999999999998887655 567888877776666789999888643
No 246
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.37 E-value=0.25 Score=64.74 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=23.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|+.||||||||+++..++..|..
T Consensus 35 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 35 NHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 446799999999999999999888874
No 247
>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=93.37 E-value=0.062 Score=54.99 Aligned_cols=21 Identities=43% Similarity=0.474 Sum_probs=18.9
Q ss_pred EEEcCCCCChhHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~L 302 (1825)
+|.|+|||||||++..|...+
T Consensus 2 ~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 689999999999998887776
No 248
>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=93.36 E-value=0.092 Score=58.38 Aligned_cols=41 Identities=32% Similarity=0.244 Sum_probs=30.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc--CChHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT--PTNVAIT 320 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA--PTN~AVD 320 (1825)
++.+|.|.+|+||||+|..++. ....+.|+.++. .-...+|
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 5789999999999999999998 666788877764 3333455
No 249
>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=93.35 E-value=0.1 Score=59.44 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=33.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcC------CcEEEEcCCh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIK------CRTLACTPTN 316 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~------~RILVcAPTN 316 (1825)
...+..|.||||+|||+++..++...+..+ .+++..+..+
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 478999999999999999999988887766 7777766554
No 250
>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=93.29 E-value=0.35 Score=53.24 Aligned_cols=45 Identities=22% Similarity=0.246 Sum_probs=29.7
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
|.+++........-+.-+..-|++||+|+||++++..++..++..
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~ 46 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCS 46 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-T
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 344444333333333445678999999999999999999999874
No 251
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=93.28 E-value=0.2 Score=63.76 Aligned_cols=36 Identities=17% Similarity=0.163 Sum_probs=28.8
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAP 314 (1825)
+..+|+||||||||+++.++...+.. .+.+++.++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 45789999999999999999887775 3567776554
No 252
>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=93.25 E-value=0.08 Score=62.30 Aligned_cols=37 Identities=32% Similarity=0.418 Sum_probs=28.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+..+.=|.||||.||+|++.+++..+...++||-|.|
T Consensus 28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 3456778999999999999999999999999875554
No 253
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.18 E-value=0.094 Score=64.58 Aligned_cols=44 Identities=23% Similarity=0.380 Sum_probs=30.7
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
++...+++...+. .++-++..|++||||+|||+++..+...+..
T Consensus 22 ~~~~~~~l~~~i~---~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 22 QSHITNTLLNAIE---NNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred cHHHHHHHHHHHH---cCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3444445555544 3344568999999999999999888666654
No 254
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=93.13 E-value=0.26 Score=65.05 Aligned_cols=27 Identities=30% Similarity=0.252 Sum_probs=23.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
...|++||||||||+++..+...|...
T Consensus 39 hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 39 HAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 447999999999999999998888763
No 255
>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=93.13 E-value=0.082 Score=58.66 Aligned_cols=29 Identities=31% Similarity=0.466 Sum_probs=22.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcE
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRT 309 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RI 309 (1825)
.+|.||||+||||++..++..|-..+.++
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~v 30 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLPV 30 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGGE
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCcc
Confidence 47999999999999988887776655443
No 256
>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=93.12 E-value=0.14 Score=65.18 Aligned_cols=51 Identities=20% Similarity=0.366 Sum_probs=40.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
...+.+|-|+||+|||+++..++..+...+.++|.++.-. ...++..|..+
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE-s~~qi~~ra~r 143 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE-SLQQIKMRAIR 143 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC-CHHHHHHHHHH
Confidence 4789999999999999999999999988888998887654 34555555443
No 257
>PRK06620 hypothetical protein; Validated
Probab=93.10 E-value=0.091 Score=60.42 Aligned_cols=44 Identities=20% Similarity=0.029 Sum_probs=26.9
Q ss_pred CCCCHHHHHHHHHhhhhccCCC-CC--CeEEEEcCCCCChhHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGH-RS--GVELIWGPPGTGKTKTVSML 298 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h-~~--~VsLIqGPPGTGKTkTIaaL 298 (1825)
|--.++-..|+..+.....-.. ++ +..+|+||||||||+++.++
T Consensus 18 Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~ 64 (214)
T PRK06620 18 FIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIW 64 (214)
T ss_pred hEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHH
Confidence 3444555556555544221111 11 45899999999999998764
No 258
>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=93.06 E-value=0.095 Score=63.75 Aligned_cols=44 Identities=27% Similarity=0.382 Sum_probs=32.0
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
++.+.+.+..++.. ++-+...|++||||||||+++..+...+..
T Consensus 19 ~~~~~~~l~~~~~~---~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKN---GRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHc---CCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 55566666666542 223456799999999999999888888764
No 259
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=93.06 E-value=0.31 Score=65.55 Aligned_cols=71 Identities=21% Similarity=0.181 Sum_probs=61.4
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
+.+=..|+-=....+. +.-+-|-+|+|+||||+...+...+..+|+|++++-||..-|.++.+||.++...
T Consensus 81 ~~~ws~QR~WakR~~r-------g~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~ 151 (1187)
T COG1110 81 FRPWSAQRVWAKRLVR-------GKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAED 151 (1187)
T ss_pred CCchHHHHHHHHHHHc-------CCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhh
Confidence 4566678887777765 4456788999999999999999999999999999999999999999999998654
No 260
>PRK05541 adenylylsulfate kinase; Provisional
Probab=93.04 E-value=0.15 Score=56.09 Aligned_cols=37 Identities=24% Similarity=0.147 Sum_probs=29.9
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+++.+.+|.||||+||||++..+...|-..+..+.++
T Consensus 5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4567999999999999999988888887666565554
No 261
>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=93.02 E-value=0.12 Score=56.19 Aligned_cols=33 Identities=27% Similarity=0.302 Sum_probs=29.7
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..+.||+|+|||+++..+...+...+.|++++.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~ 34 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLA 34 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence 457799999999999999999999999998876
No 262
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=92.99 E-value=0.3 Score=64.93 Aligned_cols=27 Identities=26% Similarity=0.251 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|+.||||||||+++..+...|..
T Consensus 38 ~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 38 HHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 456799999999999999888888864
No 263
>PRK09354 recA recombinase A; Provisional
Probab=92.99 E-value=0.16 Score=62.43 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=36.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVA 318 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~A 318 (1825)
...+++|.||||||||++...++....+.+.+++....-+..
T Consensus 59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~ 100 (349)
T PRK09354 59 RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHAL 100 (349)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccch
Confidence 367999999999999999999999999999998888776543
No 264
>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=92.99 E-value=0.044 Score=58.39 Aligned_cols=22 Identities=41% Similarity=0.551 Sum_probs=15.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.||+|+||+|||+++.++...+
T Consensus 2 vLleg~PG~GKT~la~~lA~~~ 23 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSL 23 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHT
T ss_pred EeeECCCccHHHHHHHHHHHHc
Confidence 5899999999999887766553
No 265
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.98 E-value=0.12 Score=65.18 Aligned_cols=43 Identities=28% Similarity=0.371 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
.-..+...+.+..++.+ ....++.||||||||+++..+...+.
T Consensus 177 ~~i~e~~le~l~~~L~~------~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 177 LFIPETTIETILKRLTI------KKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred ccCCHHHHHHHHHHHhc------CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 34567777788887763 56788899999999998876665553
No 266
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.96 E-value=0.24 Score=65.16 Aligned_cols=28 Identities=29% Similarity=0.266 Sum_probs=24.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
-+...|++||||||||+++..+...|..
T Consensus 37 l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 37 LHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3456799999999999999999888875
No 267
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.95 E-value=0.3 Score=64.07 Aligned_cols=42 Identities=24% Similarity=0.265 Sum_probs=30.1
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
.....+..++.. +.-+...|++||||||||+++..+...+..
T Consensus 23 ~v~~~L~~~i~~---~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 23 HVSRTLQNAIDT---GRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred HHHHHHHHHHHc---CCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 334455555542 233456799999999999999998888875
No 268
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.92 E-value=0.13 Score=66.41 Aligned_cols=46 Identities=30% Similarity=0.469 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHhhhhccCC-CCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRLDCG-HRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~c~-h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+....+-|...+..+-.. ....+.|+.||||+|||+||..+...|
T Consensus 23 vhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 23 VHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence 4455555666666543222 235699999999999999997776665
No 269
>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=92.90 E-value=0.31 Score=66.77 Aligned_cols=73 Identities=25% Similarity=0.241 Sum_probs=51.4
Q ss_pred CCCCCCHHHHH---HHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 253 FSSTLNESQVG---AMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 253 ~~~~LNeSQ~e---AV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
..|...+.|.+ +|..++. .+...+|.+|+|||||-.-..-+...+..+.+|+|++||..=.++++.+-...
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~------~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~~~~~ 315 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLT------HSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEKDIPL 315 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhc------cCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 34678899997 5555554 35678999999999997643332233336789999999999888887764444
Q ss_pred hh
Q 000228 330 VK 331 (1825)
Q Consensus 330 v~ 331 (1825)
+.
T Consensus 316 l~ 317 (850)
T TIGR01407 316 LN 317 (850)
T ss_pred HH
Confidence 33
No 270
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=92.90 E-value=0.14 Score=55.29 Aligned_cols=38 Identities=29% Similarity=0.347 Sum_probs=30.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
++..|.||.||||||++..++..|.++|.|+.+.-.++
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 36789999999999999999999999999988665444
No 271
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=92.85 E-value=0.24 Score=59.83 Aligned_cols=73 Identities=22% Similarity=0.250 Sum_probs=66.7
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.|++-|+.|-...+..++ +..-.|||+--|.|||..+-..+.+.+..|.+|.+.+|--.-+.|+..||...+.
T Consensus 97 ~Ls~~Q~~as~~l~q~i~---~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 97 TLSPGQKKASNQLVQYIK---QKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred ccChhHHHHHHHHHHHHH---hcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc
Confidence 699999999998888765 4567999999999999999999999999999999999999999999999998754
No 272
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=92.84 E-value=0.17 Score=67.80 Aligned_cols=25 Identities=32% Similarity=0.672 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+-.+++||||||||+++..+...+
T Consensus 52 ~~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 52 VGSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3456999999999999887776543
No 273
>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=92.84 E-value=0.15 Score=48.26 Aligned_cols=30 Identities=23% Similarity=0.188 Sum_probs=22.5
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
..|.||||+|||++...+...+ .+.++-+.
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 4678999999999988888777 44444433
No 274
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.78 E-value=0.11 Score=64.84 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=23.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|++||||||||+++-.+...|..
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 345789999999999999888888875
No 275
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=92.75 E-value=0.1 Score=68.83 Aligned_cols=54 Identities=24% Similarity=0.216 Sum_probs=40.1
Q ss_pred cEEEccccCCCCceeeEEEEEeeecCCCCCcc------------cCC-CCCcceeecccccccEEEE
Q 000228 781 TVKVKSIDGFQGGEEDIIIISTVRCNTGGSIG------------FIS-KPQRVNVALTRARHCLWIL 834 (1825)
Q Consensus 781 ~V~V~TVD~FQG~EkDIVILS~VRSn~~g~iG------------FL~-d~rRLNVALTRAK~~LiIV 834 (1825)
.+..+|+|...|.|+|+|-+...+....+.+- +.. .++-++||+||||..+|.-
T Consensus 674 ~~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 674 NVILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 36789999999999999999876655433222 222 3577999999999977654
No 276
>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=92.74 E-value=0.16 Score=62.75 Aligned_cols=35 Identities=23% Similarity=0.479 Sum_probs=28.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc---CCcEEE
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI---KCRTLA 311 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~---~~RILV 311 (1825)
+.++.+|.||+|+|||||+.+++..+... +.+|++
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt 170 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILT 170 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEE
Confidence 47999999999999999999988887643 235544
No 277
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=92.73 E-value=0.14 Score=62.72 Aligned_cols=37 Identities=22% Similarity=0.226 Sum_probs=32.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..-+.-|.||||+||||++..++..+...+.+|-+++
T Consensus 55 ~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~ 91 (332)
T PRK09435 55 NALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLA 91 (332)
T ss_pred CcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 3568889999999999999999999998888887765
No 278
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.72 E-value=0.14 Score=62.46 Aligned_cols=60 Identities=30% Similarity=0.424 Sum_probs=40.9
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELAS 324 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVae 324 (1825)
.+....++..++.+ .+-.|+.||||||||+++..+...+- .+-..+-|++.-.+.|-+-.
T Consensus 29 ~~~~~~~~l~a~~~------~~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d~~G~ 88 (329)
T COG0714 29 DEEVIELALLALLA------GGHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSDLLGT 88 (329)
T ss_pred cHHHHHHHHHHHHc------CCCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHHhcCc
Confidence 44555555555542 68899999999999998877766655 55555666666666664433
No 279
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=92.62 E-value=0.28 Score=64.73 Aligned_cols=63 Identities=21% Similarity=0.254 Sum_probs=48.4
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
.+.+-|++||...+. +.-.++.+|.|+|||.+ ..+..++ .+..+||++|+..-+.+...++..
T Consensus 25 ~~r~~Q~~ai~~il~-------g~dvlv~apTGsGKTl~--y~lpal~-~~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 25 QFRPGQQEIIDAVLS-------GRDCLVVMPTGGGKSLC--YQIPALV-LDGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCHHHHHHHHHHHc-------CCCEEEEcCCCchHHHH--HHHHHHH-cCCCEEEEecHHHHHHHHHHHHHH
Confidence 588999999999886 34568889999999954 3344444 356899999999887777777654
No 280
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=92.53 E-value=0.094 Score=64.52 Aligned_cols=33 Identities=18% Similarity=0.355 Sum_probs=24.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
.+-+.+||||||||||..+.++...+ +...+.+
T Consensus 147 ~PlgllL~GPPGcGKTllAraiA~el---g~~~i~v 179 (413)
T PLN00020 147 VPLILGIWGGKGQGKSFQCELVFKKM---GIEPIVM 179 (413)
T ss_pred CCeEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEE
Confidence 36688999999999999877776654 4444443
No 281
>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=92.52 E-value=0.16 Score=55.63 Aligned_cols=35 Identities=26% Similarity=0.276 Sum_probs=31.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
..|.||+|+|||+++..++..|...|.||.+.-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 56889999999999999999998888899887655
No 282
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.44 E-value=0.073 Score=60.67 Aligned_cols=21 Identities=33% Similarity=0.638 Sum_probs=18.8
Q ss_pred EEEcCCCCChhHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~L 302 (1825)
+|+||||+|||+.|..++...
T Consensus 2 vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 2 VVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred EEEcCCCCCHHHHHHHHHHhc
Confidence 799999999999998887776
No 283
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=92.43 E-value=0.46 Score=61.60 Aligned_cols=28 Identities=25% Similarity=0.325 Sum_probs=23.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
-+..-|++||||||||+++..++..++.
T Consensus 35 l~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 35 LAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred CCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 3445699999999999999999998875
No 284
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=92.42 E-value=0.33 Score=63.84 Aligned_cols=45 Identities=24% Similarity=0.296 Sum_probs=31.8
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
++...+.+..++. .+.-..-.|++||||||||+++..+...|...
T Consensus 29 q~~~v~~L~~~~~---~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 29 QEAMVRTLTNAFE---TGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cHHHHHHHHHHHH---cCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 3444445555544 22334568999999999999999999888753
No 285
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.39 E-value=0.2 Score=64.65 Aligned_cols=52 Identities=19% Similarity=0.220 Sum_probs=43.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+.||.||||||||+....++..-+.. |.++|.++... ..+++.+++...
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 47899999999999999999999888877 89998887666 556677776654
No 286
>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=92.33 E-value=0.065 Score=66.24 Aligned_cols=75 Identities=21% Similarity=0.305 Sum_probs=45.6
Q ss_pred CCcCEEEEEcCCCCChhHHHHHHH--------------hcCCCcEEEEccCCCCCccccccccccc-C--C-cccHHHHH
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQ--------------LAGINHAVLIGDECQLPAMVESKISDEA-G--F-GRSLFERL 650 (1825)
Q Consensus 589 ~~fD~VIIDEAsQa~E~esLIPL~--------------l~~~krlILVGDpkQLPPtV~S~~a~~~-g--l-~~SLFERL 650 (1825)
...+++||||++++.... +-.+- .+|...+|++||..||||++........ . + +..++..
T Consensus 101 ~~~~~lIiDEism~~~~~-l~~i~~~lr~i~~~~~~~~pFGG~~vil~GDf~QlpPV~~~~~~~~~~~~~~~~s~lw~~- 178 (364)
T PF05970_consen 101 RKADVLIIDEISMVSADM-LDAIDRRLRDIRKSKDSDKPFGGKQVILFGDFLQLPPVVPRGEREEIFNASIFSSPLWNQ- 178 (364)
T ss_pred hhheeeecccccchhHHH-HHHHHHhhhhhhcccchhhhcCcceEEeehhhhhcCCCcccccccceehhhccccccccc-
Confidence 456899999999987533 22111 1345689999999999999865422211 0 1 1112211
Q ss_pred hhcCCCceecccccccCcc
Q 000228 651 TSLNHSKHLLNIQYRMHPS 669 (1825)
Q Consensus 651 i~~g~~~~~L~~QYRMhP~ 669 (1825)
+..+.|+.++|....
T Consensus 179 ----~~~~~L~~~~R~~~~ 193 (364)
T PF05970_consen 179 ----FKIFELTKNMRQSDD 193 (364)
T ss_pred ----hhhhhhhhceeeccc
Confidence 235678888886543
No 287
>PRK06696 uridine kinase; Validated
Probab=92.31 E-value=0.24 Score=57.07 Aligned_cols=38 Identities=18% Similarity=0.089 Sum_probs=30.6
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..+-+..|.||||+||||+...|...|-..|..+++++
T Consensus 20 ~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 20 TRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 34679999999999999999888888766666666544
No 288
>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=92.24 E-value=0.21 Score=58.75 Aligned_cols=70 Identities=19% Similarity=0.184 Sum_probs=45.0
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC---CcEEEEcCChHHHHHHHHHHHHHh
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK---CRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~---~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
+++.+.|...|.... ....+..|+|+||+|||+++..++......+ ..+-+....+.....+...|...+
T Consensus 2 e~~~~~l~~~L~~~~--~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l 74 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNS--NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQL 74 (287)
T ss_dssp HHHHHHHHHHHHTTT--TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhCCC--CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccc
Confidence 456677777777422 4678999999999999999988886644332 233344443333355556665543
No 289
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=92.22 E-value=23 Score=47.46 Aligned_cols=53 Identities=25% Similarity=0.347 Sum_probs=46.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
.+-++|-||.|+|||+++..++.+.++.+..|++.=|.+.+ ++.+++......
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~~g~~vi~fDpkgD~--el~~~~~~~~~~ 232 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIRRGDVVIVFDPKGDA--DLLKRMYAEAKR 232 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCH--HHHHHHHHHHHH
Confidence 56799999999999999999999999999999999999977 677777766443
No 290
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=92.19 E-value=0.49 Score=62.71 Aligned_cols=28 Identities=29% Similarity=0.287 Sum_probs=23.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
+...|++||||||||+++..+...|...
T Consensus 38 ~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 38 HHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 4467999999999999999988887653
No 291
>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=92.16 E-value=0.18 Score=57.86 Aligned_cols=33 Identities=33% Similarity=0.386 Sum_probs=21.8
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHH
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSM 297 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaa 297 (1825)
+.-+.|+.-|... ..=.||.||||||||+++..
T Consensus 9 e~aKrAL~iAAaG------~h~lLl~GppGtGKTmlA~~ 41 (206)
T PF01078_consen 9 EEAKRALEIAAAG------GHHLLLIGPPGTGKTMLARR 41 (206)
T ss_dssp HHHHHHHHHHHHC------C--EEEES-CCCTHHHHHHH
T ss_pred HHHHHHHHHHHcC------CCCeEEECCCCCCHHHHHHH
Confidence 4556677766552 34689999999999996543
No 292
>PRK13766 Hef nuclease; Provisional
Probab=92.10 E-value=0.48 Score=64.12 Aligned_cols=67 Identities=21% Similarity=0.174 Sum_probs=55.1
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
...-+-|++++..++. +-.||..|.|+|||.+...++..++. .+.++|+++||..-+.+..+.+.+.
T Consensus 14 ~~~r~yQ~~~~~~~l~--------~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 14 IEARLYQQLLAATALK--------KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred CCccHHHHHHHHHHhc--------CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 3456779999998875 24799999999999987777776664 4689999999999999998888875
No 293
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.09 E-value=0.19 Score=59.99 Aligned_cols=42 Identities=31% Similarity=0.449 Sum_probs=34.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcC---------------------CcEEEEcCChHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIK---------------------CRTLACTPTNVAI 319 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~---------------------~RILVcAPTN~AV 319 (1825)
+...|+.||||||||+++-++...|...+ ..++...|+....
T Consensus 24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~ 86 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRK 86 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCC
Confidence 34699999999999999999999998543 4788888876654
No 294
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=92.02 E-value=0.19 Score=55.89 Aligned_cols=50 Identities=18% Similarity=0.183 Sum_probs=38.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
+.+|.||||||||+....++..+ +.+++..|.....-+++..|+..+...
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 67999999999999987775543 556666666566677899999887543
No 295
>PRK13764 ATPase; Provisional
Probab=91.99 E-value=0.17 Score=66.22 Aligned_cols=34 Identities=24% Similarity=0.200 Sum_probs=27.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA 311 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV 311 (1825)
.+..||.||||+||||++.+++..+...+..|++
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 4558999999999999999998888765544444
No 296
>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=91.94 E-value=0.11 Score=66.64 Aligned_cols=26 Identities=35% Similarity=0.563 Sum_probs=21.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
+.-.|+.||||||||+++.++...+-
T Consensus 216 p~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred CcceEEECCCCCcHHHHHHHHHHhhc
Confidence 34579999999999998888776653
No 297
>PRK07667 uridine kinase; Provisional
Probab=91.88 E-value=0.23 Score=55.97 Aligned_cols=39 Identities=18% Similarity=-0.026 Sum_probs=31.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
.-+..|.||||+||||+...+...|-..+.++.+...-+
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 458899999999999999888888877777766665444
No 298
>PF12846 AAA_10: AAA-like domain
Probab=91.87 E-value=0.22 Score=58.35 Aligned_cols=42 Identities=31% Similarity=0.358 Sum_probs=36.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAIT 320 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVD 320 (1825)
+-.+|-|++|+|||+++..++..++..+.++++.=|...-..
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH
Confidence 457999999999999999999999999999999988754443
No 299
>PRK10865 protein disaggregation chaperone; Provisional
Probab=91.86 E-value=0.24 Score=67.80 Aligned_cols=35 Identities=26% Similarity=0.335 Sum_probs=27.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+..++.||||||||+++.++...+...+...+.+.
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id 633 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFDSDDAMVRID 633 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEE
Confidence 57899999999999999888877776655554443
No 300
>PHA02244 ATPase-like protein
Probab=91.86 E-value=0.18 Score=62.22 Aligned_cols=24 Identities=17% Similarity=0.230 Sum_probs=20.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+.-.+|+||||||||+++.++...
T Consensus 119 ~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 119 NIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHH
Confidence 445788999999999999888765
No 301
>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=91.82 E-value=0.15 Score=56.04 Aligned_cols=25 Identities=24% Similarity=0.441 Sum_probs=21.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
-++.+|.||||+||||++..+...+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3689999999999999988777554
No 302
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.79 E-value=0.49 Score=62.85 Aligned_cols=136 Identities=13% Similarity=0.077 Sum_probs=82.6
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCceEEEEeecHHHHHHHHHHhchhhcC-----CCCCcEEEccccCCCCceeeEEEEE
Q 000228 727 IVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYEN-----KDGFTVKVKSIDGFQGGEEDIIIIS 801 (1825)
Q Consensus 727 ~~EA~~Vv~iV~~Ll~~~~~~~~~~dIgIITPY~aQv~~Ir~~L~~~~~~-----~~~~~V~V~TVD~FQG~EkDIVILS 801 (1825)
+...+.+.+.+..+++..+ +.+.|+.|-......+.+.+...... .+..... ..+..|.-.... .+.
T Consensus 461 ~~~~~~~~~~i~~~~~~~~-----~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~~~-~~l~~f~~~~~~--~~l 532 (654)
T COG1199 461 PELLAKLAAYLREILKASP-----GGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDERE-ELLEKFKASGEG--LIL 532 (654)
T ss_pred hHHHHHHHHHHHHHHhhcC-----CCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCcHH-HHHHHHHHhcCC--eEE
Confidence 4556667777777766543 35889999888888888887654210 0000000 234444433332 222
Q ss_pred eeecCCCCCcccCCCCCcceeecccccccEEEEechhhhcccchHHHHHHHHHhhcCceecCccchhHHHHHHHHHHHhh
Q 000228 802 TVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNADEERNLAKARLEVSKELV 881 (1825)
Q Consensus 802 ~VRSn~~g~iGFL~d~rRLNVALTRAK~~LiIVGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~dk~l~~~i~~~~~E~~ 881 (1825)
..+..-..++.|-.+.- .+++|+|=+-.-. .++.++.-..++++.|. ++..+-.+..++++...-++
T Consensus 533 v~~gsf~EGVD~~g~~l----------~~vvI~~lPfp~p-~dp~~~~r~~~~~~~g~--~~f~~~~l~~A~~~l~QavG 599 (654)
T COG1199 533 VGGGSFWEGVDFPGDAL----------RLVVIVGLPFPNP-DDPLLKARLEFLKRLGG--DPFEEFYLPPAVIKLRQAVG 599 (654)
T ss_pred EeeccccCcccCCCCCe----------eEEEEEecCCCCC-CCHHHHHHHHHHHHhcC--CCceEeehHHHHHHHHHhhc
Confidence 23333334566665543 4667777554332 46889999999998875 55555667888888888888
Q ss_pred hc
Q 000228 882 EI 883 (1825)
Q Consensus 882 ~~ 883 (1825)
++
T Consensus 600 Rl 601 (654)
T COG1199 600 RL 601 (654)
T ss_pred cc
Confidence 85
No 303
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=91.70 E-value=0.55 Score=61.42 Aligned_cols=28 Identities=32% Similarity=0.376 Sum_probs=23.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
-+...|+.||||||||+++..+...+..
T Consensus 37 ~~hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 37 ISHAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3557889999999999999998888874
No 304
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.68 E-value=0.16 Score=68.53 Aligned_cols=28 Identities=25% Similarity=0.207 Sum_probs=23.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
+...|++||||||||+++..+...|...
T Consensus 38 ~HAyLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 38 HHAYLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence 4556999999999999999998888753
No 305
>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=91.64 E-value=0.3 Score=61.49 Aligned_cols=52 Identities=19% Similarity=0.178 Sum_probs=44.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|-|+||+|||+++..++..+. ..+.+|++.+.-. ..++++.|+...
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 578999999999999999999998876 6789999998554 677788888764
No 306
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=91.63 E-value=0.14 Score=64.73 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.-.|+.||||||||+++.++...+
T Consensus 217 p~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhh
Confidence 3457889999999999988776543
No 307
>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=91.62 E-value=0.13 Score=56.62 Aligned_cols=23 Identities=26% Similarity=0.572 Sum_probs=18.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.+|.|||||||||....+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 35899999999999887765544
No 308
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=91.60 E-value=0.14 Score=64.24 Aligned_cols=24 Identities=38% Similarity=0.605 Sum_probs=19.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+.-.|+.||||||||+++.++...
T Consensus 179 pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CceEEEECCCCCCHHHHHHHHHHh
Confidence 455888999999999988776553
No 309
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=91.59 E-value=0.21 Score=47.00 Aligned_cols=28 Identities=32% Similarity=0.491 Sum_probs=24.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
.+++|.||.|+||||++-++...|....
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~~~ 51 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYGNT 51 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 4899999999999999998888876544
No 310
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=91.57 E-value=0.38 Score=67.48 Aligned_cols=66 Identities=24% Similarity=0.326 Sum_probs=49.7
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
.++.|..++. .+.+.+|.|++||||||.|-.++..+-.. ..+|.++-|-..|+-+++.|+.+....
T Consensus 78 ~r~~Il~ai~------~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 78 KKQDILEAIR------DHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHH------hCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 4557777776 36899999999999999776554433211 246777889999999999999987543
No 311
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=91.55 E-value=0.49 Score=57.91 Aligned_cols=45 Identities=24% Similarity=0.181 Sum_probs=32.9
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
|..++........-++-+..-|++||||+|||+++..++..++..
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 444544444443334556788999999999999999999998854
No 312
>PRK08233 hypothetical protein; Provisional
Probab=91.51 E-value=0.14 Score=56.07 Aligned_cols=25 Identities=28% Similarity=0.255 Sum_probs=21.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.-+..|-||||+||||++..+...+
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhC
Confidence 3578899999999999987777665
No 313
>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=91.49 E-value=0.052 Score=60.80 Aligned_cols=48 Identities=19% Similarity=0.240 Sum_probs=31.8
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHcCC-cEEEEcCChHHHHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTLLRIKC-RTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~LLk~~~-RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+|.|+.|.|||+++...++.++..+. +|+||||+-.++..+.+-+...
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~ 49 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKG 49 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC---
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhh
Confidence 57899999999999999999988765 9999999999999877665543
No 314
>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=91.48 E-value=0.18 Score=57.83 Aligned_cols=40 Identities=20% Similarity=0.285 Sum_probs=30.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc------CCcEEEEcCCh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI------KCRTLACTPTN 316 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~------~~RILVcAPTN 316 (1825)
.+.+..|.||||||||+++..++...+.. +.+++..+..+
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 47899999999999999999888765543 25666655444
No 315
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=91.42 E-value=0.71 Score=60.60 Aligned_cols=36 Identities=22% Similarity=0.225 Sum_probs=29.9
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAP 314 (1825)
...+|+||+|||||+++.++...+.. .+.+++.+..
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 34799999999999999999999876 3677776654
No 316
>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=91.41 E-value=0.15 Score=59.73 Aligned_cols=30 Identities=27% Similarity=0.225 Sum_probs=22.9
Q ss_pred EEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 283 IWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 283 IqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
|-||||+||||.+.++-..+-..+.++.++
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 679999999999999988887777666554
No 317
>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=91.39 E-value=0.57 Score=63.27 Aligned_cols=67 Identities=16% Similarity=0.125 Sum_probs=53.6
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHH-HHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSM-LLLTLLR-IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaa-LL~~LLk-~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
.+.+-|.+|+..++. +.=.++..|.|||||-.-.- ++..+.. .+.++|+.+||.+-+.++..++.++
T Consensus 36 ~p~~~Q~~ai~~il~-------G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 36 RPWQHQARAAELAHA-------GRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred cCCHHHHHHHHHHHC-------CCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 699999999999876 34589999999999976533 3333433 3568999999999999999998876
No 318
>PRK06762 hypothetical protein; Provisional
Probab=91.36 E-value=0.34 Score=52.77 Aligned_cols=33 Identities=30% Similarity=0.363 Sum_probs=24.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+.+.+|.||||+||||.+..+...+ +..+.++.
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 3578999999999999887777665 33454443
No 319
>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=91.34 E-value=0.59 Score=61.76 Aligned_cols=54 Identities=22% Similarity=0.272 Sum_probs=41.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHH-HHHHHH-cCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 277 RSGVELIWGPPGTGKTKTVSML-LLTLLR-IKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaL-L~~LLk-~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.+...+|.+|+|||||-.-..- +..+.. .+.|++|++||..=.+++...+..+.
T Consensus 15 ~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 15 QKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 4688999999999999654332 233332 57999999999999999998766553
No 320
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=91.33 E-value=0.27 Score=60.26 Aligned_cols=45 Identities=18% Similarity=0.087 Sum_probs=32.7
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
..+.+..|+.. ....+|.||+|+||||++.+++..+ -...||+++
T Consensus 149 ~~~~L~~~v~~------~~nili~G~tgSGKTTll~aL~~~i-p~~~ri~ti 193 (332)
T PRK13900 149 IKEFLEHAVIS------KKNIIISGGTSTGKTTFTNAALREI-PAIERLITV 193 (332)
T ss_pred HHHHHHHHHHc------CCcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEEe
Confidence 44555566652 5789999999999999998876544 446677663
No 321
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=91.31 E-value=0.19 Score=55.44 Aligned_cols=29 Identities=31% Similarity=0.355 Sum_probs=24.4
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcE
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRT 309 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RI 309 (1825)
..|.||||.||||++..++-.|-..|.++
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 57999999999999988888887776554
No 322
>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=91.29 E-value=0.35 Score=61.07 Aligned_cols=52 Identities=17% Similarity=0.065 Sum_probs=44.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|-|+||+|||+++..++..++. .|.+|++.+.-. ...+++.|+...
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 5779999999999999999999988775 588999998776 556688888765
No 323
>PHA02624 large T antigen; Provisional
Probab=91.23 E-value=0.22 Score=64.65 Aligned_cols=26 Identities=31% Similarity=0.318 Sum_probs=22.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.....+++||||||||+.+.+++..|
T Consensus 430 Kk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 430 KRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 45699999999999999998887766
No 324
>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=91.19 E-value=0.2 Score=58.77 Aligned_cols=35 Identities=31% Similarity=0.355 Sum_probs=30.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
-.+|-||+|||||+++..++..+-..-..|.+++|
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 35699999999999999999887777778888877
No 325
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.07 E-value=0.26 Score=62.99 Aligned_cols=37 Identities=32% Similarity=0.410 Sum_probs=29.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH-cC-CcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR-IK-CRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~-~RILVcA 313 (1825)
.+++.++-||+|.|||||++.|...+.. .| .+|.+++
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 4579999999999999999999988854 44 3675443
No 326
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=91.02 E-value=0.18 Score=55.42 Aligned_cols=27 Identities=30% Similarity=0.653 Sum_probs=24.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+++.+|.||-|||||+++-++.+.|-.
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L~~ 45 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYALGG 45 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHS
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHcC
Confidence 689999999999999999888777765
No 327
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=91.01 E-value=0.41 Score=60.65 Aligned_cols=74 Identities=18% Similarity=0.191 Sum_probs=59.9
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
.|.-...|-+||...+..+.. ...-....|-.|||||.|++.+|+.. +..+||.||+.+-+-++.+-+++.+.+
T Consensus 10 ~f~PaGDQP~AI~~Lv~gi~~--g~~~QtLLGvTGSGKTfT~AnVI~~~---~rPtLV~AhNKTLAaQLy~Efk~fFP~ 83 (663)
T COG0556 10 PFKPAGDQPEAIAELVEGIEN--GLKHQTLLGVTGSGKTFTMANVIAKV---QRPTLVLAHNKTLAAQLYSEFKEFFPE 83 (663)
T ss_pred CCCCCCCcHHHHHHHHHHHhc--CceeeEEeeeccCCchhHHHHHHHHh---CCCeEEEecchhHHHHHHHHHHHhCcC
Confidence 445555688899888776542 23467889999999999999988765 778999999999999999999988765
No 328
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.01 E-value=0.3 Score=60.21 Aligned_cols=51 Identities=25% Similarity=0.356 Sum_probs=36.3
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
++.....+..|+. .....+|.||+|+||||++.+++..+ ....|+++.=.+
T Consensus 148 ~~~~~~~l~~~v~------~~~nilI~G~tGSGKTTll~aLl~~i-~~~~rivtiEd~ 198 (344)
T PRK13851 148 NGDLEAFLHACVV------GRLTMLLCGPTGSGKTTMSKTLISAI-PPQERLITIEDT 198 (344)
T ss_pred cHHHHHHHHHHHH------cCCeEEEECCCCccHHHHHHHHHccc-CCCCCEEEECCC
Confidence 4455555666665 36789999999999999998877554 456677664433
No 329
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=91.00 E-value=0.3 Score=51.12 Aligned_cols=44 Identities=27% Similarity=0.265 Sum_probs=33.6
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVL 327 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~ 327 (1825)
.+++|.||+|||++...+...+.+.+.+|++.---. +.+.+++.
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 478999999999999999999988888887654222 44444443
No 330
>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=91.00 E-value=0.15 Score=65.61 Aligned_cols=33 Identities=27% Similarity=0.329 Sum_probs=24.2
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
=.|+.||||||||+++.++...+ +..++.++.+
T Consensus 90 giLL~GppGtGKT~la~alA~~~---~~~~~~i~~~ 122 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGS 122 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHHc---CCCeeeccHH
Confidence 37899999999999998886543 4455555443
No 331
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=90.97 E-value=0.33 Score=58.93 Aligned_cols=38 Identities=16% Similarity=0.262 Sum_probs=29.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc------CCcEEEEcC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI------KCRTLACTP 314 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~------~~RILVcAP 314 (1825)
.+.+++|.||||||||++...++...... +.+++.++.
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~t 144 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDT 144 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeC
Confidence 37899999999999999999998776543 236666554
No 332
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=90.95 E-value=0.2 Score=57.92 Aligned_cols=37 Identities=27% Similarity=0.430 Sum_probs=29.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE--cCChH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC--TPTNV 317 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc--APTN~ 317 (1825)
.+|.||||+||||-....-.-+-..|.++.++ -|-|.
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd 43 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPAND 43 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCccc
Confidence 58999999999999988888888888877664 45553
No 333
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=90.94 E-value=0.64 Score=61.93 Aligned_cols=76 Identities=16% Similarity=0.161 Sum_probs=60.4
Q ss_pred CCCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 251 PSFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 251 ~~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
....|.+++-|..|+...+....- . ..-.+|.|.+|+|||.+++.++.. .+.++|+++|+...+.++++.|....
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~-~-~~~~ll~Gl~gs~ka~lia~l~~~---~~r~vLIVt~~~~~A~~l~~dL~~~~ 81 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEA-G-EKHQTLLGVTGSGKTFTMANVIAR---LQRPTLVLAHNKTLAAQLYSEFKEFF 81 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhc-C-CCcEEEEcCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhc
Confidence 456789999999999988776531 1 113469999999999998875543 37789999999999999999998875
Q ss_pred h
Q 000228 331 K 331 (1825)
Q Consensus 331 ~ 331 (1825)
.
T Consensus 82 ~ 82 (652)
T PRK05298 82 P 82 (652)
T ss_pred C
Confidence 3
No 334
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=90.93 E-value=0.27 Score=61.79 Aligned_cols=25 Identities=32% Similarity=0.664 Sum_probs=22.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+..|.|||||||||+|..++..+-+
T Consensus 71 IvavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 71 IVAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHH
Confidence 4559999999999999999988876
No 335
>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=90.92 E-value=0.28 Score=54.76 Aligned_cols=33 Identities=30% Similarity=0.232 Sum_probs=26.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+..|.||||+||||++..+...+-..+.++.+.
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i 33 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVI 33 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 357999999999999988887776666666544
No 336
>PRK00131 aroK shikimate kinase; Reviewed
Probab=90.90 E-value=0.21 Score=54.01 Aligned_cols=25 Identities=24% Similarity=0.254 Sum_probs=20.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+...+|.||||||||++...+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 4578999999999999887776665
No 337
>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=90.86 E-value=0.31 Score=54.28 Aligned_cols=35 Identities=26% Similarity=0.190 Sum_probs=29.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
-+.+|.||||+||||.+..+...|-..|.+++++.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 47899999999999999998888877787776553
No 338
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=90.86 E-value=0.43 Score=57.23 Aligned_cols=38 Identities=26% Similarity=0.222 Sum_probs=33.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
++..+.=|.||||.||+|+|-+++..|...|+||-|.|
T Consensus 49 G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 49 GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 45668889999999999999999999999999986654
No 339
>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=90.84 E-value=0.25 Score=60.82 Aligned_cols=50 Identities=26% Similarity=0.240 Sum_probs=31.6
Q ss_pred HHHHHHHhhhhccCCC-CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 261 QVGAMLACLRRLDCGH-RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h-~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.++|.--.+..+.... .+...||.||||||||-++.++...| |.++-+|+
T Consensus 32 AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL---G~~~PF~~ 82 (398)
T PF06068_consen 32 AREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL---GEDVPFVS 82 (398)
T ss_dssp HHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC---TTTS-EEE
T ss_pred HHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh---CCCCCeeE
Confidence 4556655555554332 46789999999999999887776655 45554444
No 340
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.83 E-value=0.48 Score=63.87 Aligned_cols=53 Identities=23% Similarity=0.311 Sum_probs=34.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHc-------CCcEEEEcCChHH-----HHHHHHHHHHHhhh
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRI-------KCRTLACTPTNVA-----ITELASRVLKLVKE 332 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~-------~~RILVcAPTN~A-----VDEVaeRL~klv~e 332 (1825)
-.++.||||||||+++..+...+... +.+++.+..+..- ..+.-+|+.+.+.+
T Consensus 205 n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~ 269 (731)
T TIGR02639 205 NPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSE 269 (731)
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHHH
Confidence 35789999999999998888888653 4556554432211 12444666666554
No 341
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=90.74 E-value=0.18 Score=61.51 Aligned_cols=22 Identities=41% Similarity=0.681 Sum_probs=17.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLL 299 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL 299 (1825)
+.=.|..||||||||-++.+.+
T Consensus 185 PKGVLLYGPPGTGKTLLAkAVA 206 (406)
T COG1222 185 PKGVLLYGPPGTGKTLLAKAVA 206 (406)
T ss_pred CCceEeeCCCCCcHHHHHHHHH
Confidence 4457889999999998776553
No 342
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=90.73 E-value=0.15 Score=55.57 Aligned_cols=21 Identities=38% Similarity=0.480 Sum_probs=16.0
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~ 301 (1825)
..|.|||||||||++..|...
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 368999999999999887765
No 343
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.68 E-value=0.24 Score=65.29 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+.-.|++||||||||+++..+...|..
T Consensus 38 ~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 38 GHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred CeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 456889999999999999998888875
No 344
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=90.66 E-value=0.25 Score=62.95 Aligned_cols=29 Identities=28% Similarity=0.233 Sum_probs=24.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
-+...|++||||||||+++..++..+...
T Consensus 38 i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 38 AAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred CceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 34568999999999999999999888753
No 345
>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=90.65 E-value=0.18 Score=53.88 Aligned_cols=22 Identities=23% Similarity=0.379 Sum_probs=17.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+.+|.||||+||||+...+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3578999999999988776554
No 346
>PRK05480 uridine/cytidine kinase; Provisional
Probab=90.64 E-value=0.33 Score=55.07 Aligned_cols=26 Identities=31% Similarity=0.341 Sum_probs=21.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
++.+..|.||||+||||++..+...+
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 46789999999999999887776655
No 347
>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=90.58 E-value=0.34 Score=63.89 Aligned_cols=63 Identities=17% Similarity=0.103 Sum_probs=38.4
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC-CcEEEEcCChHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK-CRTLACTPTNVAITELASRV 326 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~-~RILVcAPTN~AVDEVaeRL 326 (1825)
|.+|+.....++. .+...++.||||||||+++.++...+-... .+++++..++.-..++...+
T Consensus 23 ~~~a~~~l~~a~~---~~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v 86 (608)
T TIGR00764 23 QEEAVEIIKKAAK---QKRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEV 86 (608)
T ss_pred HHHHHHHHHHHHH---cCCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHH
Confidence 5555443333222 245788999999999999888776554433 56666655544444443333
No 348
>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=90.53 E-value=0.31 Score=56.96 Aligned_cols=33 Identities=21% Similarity=0.273 Sum_probs=27.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+.++.|+||+||||.+..+...+-..+.++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 357899999999999999988887667666655
No 349
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.50 E-value=0.29 Score=62.85 Aligned_cols=44 Identities=25% Similarity=0.184 Sum_probs=27.7
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
|..++.....++..++-+...|+.||||||||+++..+...|..
T Consensus 21 q~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 21 QEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44444433333332333456789999999998887777776653
No 350
>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=90.49 E-value=0.35 Score=55.12 Aligned_cols=31 Identities=29% Similarity=0.408 Sum_probs=28.5
Q ss_pred EEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 282 LIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
.|-|-.|+||||+.+.+...|.+.|+|||++
T Consensus 4 av~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 4 AIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 3449999999999999999999999999987
No 351
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=90.47 E-value=0.39 Score=64.49 Aligned_cols=49 Identities=18% Similarity=0.178 Sum_probs=40.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeR 325 (1825)
...+++|.||||||||++...++......+.+++....-+..-.+.+++
T Consensus 59 ~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~ 107 (790)
T PRK09519 59 RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKK 107 (790)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHH
Confidence 4789999999999999999998888888899998888766555443333
No 352
>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=90.46 E-value=0.29 Score=54.92 Aligned_cols=32 Identities=22% Similarity=0.259 Sum_probs=23.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+..|.||||+||||++..+...+ .+.++.+..
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~ 32 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL--GNPKVVIIS 32 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh--CCCCeEEEE
Confidence 35789999999999998876665 444554443
No 353
>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=90.46 E-value=0.35 Score=52.39 Aligned_cols=32 Identities=22% Similarity=0.227 Sum_probs=25.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLA 311 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILV 311 (1825)
+.+|.|+||+|||+++..+...+...+.+++.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~ 32 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYV 32 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEE
Confidence 46789999999999998888888766766544
No 354
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=90.40 E-value=0.6 Score=66.76 Aligned_cols=64 Identities=13% Similarity=0.152 Sum_probs=55.7
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCC-CChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPG-TGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELA 323 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPG-TGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVa 323 (1825)
..+++.|.+|+...+. +.+.|.+|.|+-| ||||+++..++..+-..|.+|.+.|||+.|+..+.
T Consensus 280 ~~~~~~q~~Av~~il~-----dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~ 344 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQ-----DRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLK 344 (1623)
T ss_pred cccchhHHHHHHHHhc-----CCCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHH
Confidence 4578899999999986 3567888888877 99999999998888889999999999999998754
No 355
>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=90.38 E-value=0.76 Score=60.46 Aligned_cols=63 Identities=19% Similarity=0.216 Sum_probs=49.1
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
.+++-|.+||...+. +.-.++..|.|+|||.+. .+..++ .+..++|++|+..-+.+.+.++..
T Consensus 13 ~fr~~Q~~~i~~il~-------g~dvlv~~PTG~GKTl~y--~lpal~-~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 13 DFRPGQEEIISHVLD-------GRDVLVVMPTGGGKSLCY--QVPALL-LKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCHHHHHHHHHHHc-------CCCEEEEcCCCccHhHHH--HHHHHH-cCCcEEEEcCCHHHHHHHHHHHHH
Confidence 589999999999986 234788999999999764 344444 456789999999887777777765
No 356
>PRK14527 adenylate kinase; Provisional
Probab=90.37 E-value=0.25 Score=55.35 Aligned_cols=26 Identities=35% Similarity=0.624 Sum_probs=21.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
++.+.+|.||||+||||....+...+
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 46799999999999999887765444
No 357
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=90.36 E-value=0.26 Score=64.39 Aligned_cols=41 Identities=20% Similarity=0.306 Sum_probs=29.6
Q ss_pred HHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 262 VGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 262 ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
...+..++. -++-+...|+.||||||||+++..++..|...
T Consensus 25 v~~L~~~i~---~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 25 VETLKHSIE---SNKIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred HHHHHHHHH---cCCCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 334444443 22334567999999999999999999988753
No 358
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=90.26 E-value=0.29 Score=60.05 Aligned_cols=39 Identities=31% Similarity=0.338 Sum_probs=24.8
Q ss_pred HHHHHHHhhh-hccCCCCCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 261 QVGAMLACLR-RLDCGHRSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 261 Q~eAV~saLs-a~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
|.+|+...+- ++.. ..+=.|+.||||||||+++.++...
T Consensus 13 q~~~~~~l~~~~~~~--~~~~vLl~G~pG~gKT~lar~la~l 52 (334)
T PRK13407 13 QEEMKQAMVLTAIDP--GIGGVLVFGDRGTGKSTAVRALAAL 52 (334)
T ss_pred HHHHHHHHHHHHhcc--CCCcEEEEcCCCCCHHHHHHHHHHH
Confidence 6666554432 2211 1134999999999999987665444
No 359
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.25 E-value=0.35 Score=59.94 Aligned_cols=51 Identities=20% Similarity=0.209 Sum_probs=38.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcC----CcEEEEcCChHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIK----CRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~----~RILVcAPTN~AVDEVaeRL~k 328 (1825)
..=.+|.||||||||+++..++..+.... .-++.+.....-|.++...+..
T Consensus 133 GQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 133 GQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 44569999999999999999888887753 2355666666677777776654
No 360
>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=90.25 E-value=0.32 Score=57.33 Aligned_cols=34 Identities=21% Similarity=0.207 Sum_probs=31.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+.++.|.||+|||++.+++...+...|.|||++.
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd 35 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVS 35 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEe
Confidence 6788999999999999999999999999999875
No 361
>CHL00195 ycf46 Ycf46; Provisional
Probab=90.25 E-value=0.19 Score=64.49 Aligned_cols=24 Identities=29% Similarity=0.282 Sum_probs=19.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+.-.|+.||||||||.++.++...
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHH
Confidence 344789999999999988777554
No 362
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=90.25 E-value=0.94 Score=54.87 Aligned_cols=43 Identities=19% Similarity=0.196 Sum_probs=31.2
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
.+.+.+..++. .+.-+..-|+.||+|+|||+++..++..++..
T Consensus 11 ~~~~~l~~~~~---~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 11 NIKNRIKNSII---KNRFSHAHIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred HHHHHHHHHHH---cCCCCceEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 33444444443 23345678999999999999999999988763
No 363
>PRK08506 replicative DNA helicase; Provisional
Probab=90.17 E-value=0.47 Score=60.88 Aligned_cols=53 Identities=19% Similarity=0.203 Sum_probs=46.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+++.+.+|-|+||.|||+++..++...+..+.+|++.+.- ....+++.|+...
T Consensus 190 ~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rlla~ 242 (472)
T PRK08506 190 NKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRMLSA 242 (472)
T ss_pred CCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHHHHH
Confidence 3578999999999999999999999988889999988766 5788899998775
No 364
>PRK05748 replicative DNA helicase; Provisional
Probab=90.17 E-value=0.49 Score=60.18 Aligned_cols=52 Identities=13% Similarity=0.104 Sum_probs=43.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|-|+||+|||+++..++..... .+.++++.+.-. ..++++.|+...
T Consensus 202 ~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-s~~~l~~R~l~~ 254 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEM-GAESLVMRMLCA 254 (448)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCC-CHHHHHHHHHHH
Confidence 5789999999999999999999988764 588999987666 445888888754
No 365
>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=90.12 E-value=0.33 Score=56.05 Aligned_cols=35 Identities=26% Similarity=0.120 Sum_probs=25.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHH--cCCcEEEEcCC
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLR--IKCRTLACTPT 315 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk--~~~RILVcAPT 315 (1825)
.-|.||||+||||++..|...|-. .+.++.+++.-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D 38 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTD 38 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecC
Confidence 458899999999998777766543 44566665443
No 366
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=90.11 E-value=0.36 Score=57.71 Aligned_cols=34 Identities=32% Similarity=0.176 Sum_probs=29.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
+..|.|++||||||++..++..|..+| +|.++=.
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKh 36 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKH 36 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEE
Confidence 677899999999999999999999998 8766533
No 367
>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=90.09 E-value=0.2 Score=54.34 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=16.8
Q ss_pred EEEcCCCCChhHHHHHHHHHH
Q 000228 282 LIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 282 LIqGPPGTGKTkTIaaLL~~L 302 (1825)
+|.||||+||||+...+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 578999999998777666554
No 368
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.09 E-value=0.81 Score=63.32 Aligned_cols=65 Identities=25% Similarity=0.170 Sum_probs=51.1
Q ss_pred CCCCCCHHHHH---HHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHH---HHcCCcEEEEcCChHHHHHHHHH
Q 000228 253 FSSTLNESQVG---AMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTL---LRIKCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 253 ~~~~LNeSQ~e---AV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~L---Lk~~~RILVcAPTN~AVDEVaeR 325 (1825)
..|..-+.|.+ +|..++. .+...+|.+|+|||||.- .++-++ ...+++|+|+++|..=-++++.+
T Consensus 254 ~~~e~R~~Q~~m~~~v~~~l~------~~~~~~iEA~TGtGKTla--YLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 254 PKYEKREGQQEMMKEVYTALR------DSEHALIEAGTGTGKSLA--YLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCCcCCHHHHHHHHHHHHHHh------cCCCEEEECCCCCchhHH--HHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 45788899999 7777776 357889999999999964 333333 23689999999999999999887
No 369
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.08 E-value=1 Score=61.45 Aligned_cols=69 Identities=16% Similarity=0.142 Sum_probs=52.3
Q ss_pred CCCCCCHHHHH---HHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHH
Q 000228 253 FSSTLNESQVG---AMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLK 328 (1825)
Q Consensus 253 ~~~~LNeSQ~e---AV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~k 328 (1825)
..|...+.|.+ +|..++. .+...+|++|+|||||..-. +-.+.. .+.+++|.+||..-.+++..+-..
T Consensus 242 ~~~e~R~~Q~~ma~~V~~~l~------~~~~~~~eA~tGtGKT~ayl--lp~l~~~~~~~vvI~t~T~~Lq~Ql~~~~i~ 313 (820)
T PRK07246 242 LGLEERPKQESFAKLVGEDFH------DGPASFIEAQTGIGKTYGYL--LPLLAQSDQRQIIVSVPTKILQDQIMAEEVK 313 (820)
T ss_pred CCCccCHHHHHHHHHHHHHHh------CCCcEEEECCCCCcHHHHHH--HHHHHhcCCCcEEEEeCcHHHHHHHHHHHHH
Confidence 35788999999 8888876 36788999999999997542 233333 578999999999888888654333
Q ss_pred H
Q 000228 329 L 329 (1825)
Q Consensus 329 l 329 (1825)
.
T Consensus 314 ~ 314 (820)
T PRK07246 314 A 314 (820)
T ss_pred H
Confidence 3
No 370
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=90.08 E-value=0.59 Score=61.16 Aligned_cols=80 Identities=18% Similarity=0.219 Sum_probs=68.0
Q ss_pred CCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 252 SFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 252 ~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
...|.|+..|+.||.-....+... .+=..||||--|+|||-+++..+...+..|....+.|||-.-+.+-...+.+.+.
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~-~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~ 336 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASP-VPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLE 336 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCc-hhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhh
Confidence 345899999999999887765421 2335899999999999999888888999999999999999999999999998866
Q ss_pred h
Q 000228 332 E 332 (1825)
Q Consensus 332 e 332 (1825)
+
T Consensus 337 ~ 337 (677)
T COG1200 337 P 337 (677)
T ss_pred h
Confidence 5
No 371
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=90.08 E-value=0.8 Score=62.32 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=23.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
+...|++||||||||+++..+...|+.
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 456799999999999999999988874
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=90.03 E-value=0.41 Score=52.80 Aligned_cols=34 Identities=21% Similarity=0.201 Sum_probs=28.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+..|-||+|+||||.+..+...|-..|.++.++.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~ 35 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTR 35 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5678999999999999999888877788876664
No 373
>CHL00176 ftsH cell division protein; Validated
Probab=90.03 E-value=0.31 Score=64.54 Aligned_cols=34 Identities=26% Similarity=0.341 Sum_probs=24.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPT 315 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPT 315 (1825)
.-.|+.||||||||+++.++...+ +...+.++.+
T Consensus 217 ~gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s 250 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGS 250 (638)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHH
Confidence 347999999999999998886543 4555555443
No 374
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=89.99 E-value=0.35 Score=63.89 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=32.5
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC-CcEEEEcC
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK-CRTLACTP 314 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~-~RILVcAP 314 (1825)
|.+|+.....++. ++...+|.||||||||+++..+...+-... ..++....
T Consensus 36 q~~a~~~L~~~~~---~~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n 87 (637)
T PRK13765 36 QEHAVEVIKKAAK---QRRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN 87 (637)
T ss_pred hHHHHHHHHHHHH---hCCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence 5665554333322 346899999999999999988776543322 44554433
No 375
>PRK08118 topology modulation protein; Reviewed
Probab=89.99 E-value=0.23 Score=54.95 Aligned_cols=22 Identities=27% Similarity=0.373 Sum_probs=17.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999998766665543
No 376
>PRK00698 tmk thymidylate kinase; Validated
Probab=89.99 E-value=0.63 Score=52.07 Aligned_cols=39 Identities=21% Similarity=0.186 Sum_probs=31.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE-cCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC-TPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc-APTN 316 (1825)
+.+..|.||+|+||||.+..+...|-..|..+.++ .|.+
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~~~p~~ 42 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPGG 42 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEeeCCCC
Confidence 45889999999999999998888887777676665 4543
No 377
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=89.97 E-value=0.49 Score=52.62 Aligned_cols=37 Identities=24% Similarity=0.225 Sum_probs=30.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
++.+..|.|+||+||||++..+...+...+..+++..
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~ 53 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLD 53 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 5689999999999999999888888776666655554
No 378
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=89.94 E-value=0.41 Score=53.62 Aligned_cols=39 Identities=26% Similarity=0.127 Sum_probs=32.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
..+..|-||+|+||||++..++..|-..+.||-++-.+.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcC
Confidence 468899999999999999999999877787876655433
No 379
>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=89.92 E-value=0.26 Score=54.34 Aligned_cols=24 Identities=25% Similarity=0.422 Sum_probs=20.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 478999999999999998765554
No 380
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=89.84 E-value=0.38 Score=60.62 Aligned_cols=25 Identities=36% Similarity=0.476 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+-.|+.||||||||+++..+...+
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr~lA~~l 132 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQTLARIL 132 (412)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHHh
Confidence 3568999999999999888776544
No 381
>COG1204 Superfamily II helicase [General function prediction only]
Probab=89.81 E-value=0.67 Score=62.59 Aligned_cols=66 Identities=26% Similarity=0.214 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHH-HHHHHHHcCCcEEEEcCChHHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSM-LLLTLLRIKCRTLACTPTNVAITELASRVL 327 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaa-LL~~LLk~~~RILVcAPTN~AVDEVaeRL~ 327 (1825)
.|.++|+.||...+-. +.-.||..|-|+|||-++-. ++..+.+.+.|++.++|+++=+.|..+++.
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 6899999999998762 57799999999999998744 444455557999999999999999999998
No 382
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.80 E-value=0.85 Score=62.35 Aligned_cols=70 Identities=19% Similarity=0.304 Sum_probs=42.2
Q ss_pred HHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc-------CCcEEEEcCChHH-----HHHHHHHH
Q 000228 259 ESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI-------KCRTLACTPTNVA-----ITELASRV 326 (1825)
Q Consensus 259 eSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-------~~RILVcAPTN~A-----VDEVaeRL 326 (1825)
+.+.+.+...|.. ...++ -++.||||||||.++-.+...+... +.+++....++.- ..+.-+|+
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 EKEIERVIQILGR---RTKNN-PILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERL 260 (821)
T ss_pred HHHHHHHHHHHcc---cccCC-eEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHH
Confidence 4455556655542 22334 4899999999999998887777642 4566554433211 23455566
Q ss_pred HHHhhh
Q 000228 327 LKLVKE 332 (1825)
Q Consensus 327 ~klv~e 332 (1825)
...+.+
T Consensus 261 ~~i~~~ 266 (821)
T CHL00095 261 KRIFDE 266 (821)
T ss_pred HHHHHH
Confidence 666543
No 383
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=89.78 E-value=1.1 Score=55.10 Aligned_cols=73 Identities=18% Similarity=0.280 Sum_probs=47.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcC---------------------CcEEEEcCC----hHHHHHHHHHHHHHhhh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIK---------------------CRTLACTPT----NVAITELASRVLKLVKE 332 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~---------------------~RILVcAPT----N~AVDEVaeRL~klv~e 332 (1825)
+.--|+.||||+|||+++-.++..|+..+ ..+....|. ..-||+|.+-+ +.+..
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 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELV-SFVVQ 100 (328)
T ss_pred ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHH-HHHhh
Confidence 55788999999999999999999998631 246666664 24567766533 32222
Q ss_pred hhccCCCCCCCCCCCCceEEeccCCCCC
Q 000228 333 SYKRDSRSNTPICPLGDILLFGNKDRLK 360 (1825)
Q Consensus 333 s~~~~~~~~~~~ygLgdIVRfGn~~rmk 360 (1825)
. +..+-..|+.+.+.++|+
T Consensus 101 ~---------~~~~~~kv~iI~~a~~m~ 119 (328)
T PRK05707 101 T---------AQLGGRKVVLIEPAEAMN 119 (328)
T ss_pred c---------cccCCCeEEEECChhhCC
Confidence 1 122334677787777763
No 384
>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=89.78 E-value=0.31 Score=66.69 Aligned_cols=39 Identities=26% Similarity=0.287 Sum_probs=31.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
.+..|+.||||||||+++.++...+...+.+++.+-.+.
T Consensus 595 ~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~ 633 (852)
T TIGR03346 595 IGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSE 633 (852)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechh
Confidence 357899999999999999999888887777776655443
No 385
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=89.74 E-value=0.22 Score=63.85 Aligned_cols=80 Identities=25% Similarity=0.251 Sum_probs=48.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc--------------C-----------------CcEEE------EcCCh-HH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI--------------K-----------------CRTLA------CTPTN-VA 318 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--------------~-----------------~RILV------cAPTN-~A 318 (1825)
++.=.|+|||||+|||.++-++...|--. | .-|++ ++|.. .|
T Consensus 222 PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~a 301 (802)
T KOG0733|consen 222 PPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEA 301 (802)
T ss_pred CCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHHhccCCeEEEeecccccccchhhH
Confidence 34457999999999999888877766320 0 11222 45543 37
Q ss_pred HHHHHHHHHHHhhhhhccCCCCCCCCCCCCceEEeccCCCC
Q 000228 319 ITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKDRL 359 (1825)
Q Consensus 319 VDEVaeRL~klv~es~~~~~~~~~~~ygLgdIVRfGn~~rm 359 (1825)
-.+|-.|++..+..+.+.-+ ...+.|- .++.+|...|-
T Consensus 302 qreMErRiVaQLlt~mD~l~--~~~~~g~-~VlVIgATnRP 339 (802)
T KOG0733|consen 302 QREMERRIVAQLLTSMDELS--NEKTKGD-PVLVIGATNRP 339 (802)
T ss_pred HHHHHHHHHHHHHHhhhccc--ccccCCC-CeEEEecCCCC
Confidence 77888888777665543221 1111122 37778876664
No 386
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=89.70 E-value=1.5 Score=53.47 Aligned_cols=45 Identities=20% Similarity=0.175 Sum_probs=32.6
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
|.+++.....++.-++-++.-|+.||+|+||++++.+++..|+..
T Consensus 9 q~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 9 QPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 444444433333333446789999999999999999999999864
No 387
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=89.70 E-value=0.24 Score=58.02 Aligned_cols=52 Identities=29% Similarity=0.386 Sum_probs=29.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE-cCC--hHHHHHHHHHHHHHhhh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC-TPT--NVAITELASRVLKLVKE 332 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc-APT--N~AVDEVaeRL~klv~e 332 (1825)
+.-.|..||||||||.++.++.-. .+-.+|.+ |+. -.-|-+-+.|+.++...
T Consensus 151 PknVLFyGppGTGKTm~Akalane---~kvp~l~vkat~liGehVGdgar~Ihely~r 205 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMAKALANE---AKVPLLLVKATELIGEHVGDGARRIHELYER 205 (368)
T ss_pred cceeEEECCCCccHHHHHHHHhcc---cCCceEEechHHHHHHHhhhHHHHHHHHHHH
Confidence 456899999999999987665322 12233333 222 12344555666655443
No 388
>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=89.68 E-value=0.37 Score=60.55 Aligned_cols=25 Identities=32% Similarity=0.392 Sum_probs=20.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.-.|+.||||||||+++.++...+
T Consensus 47 p~~ILLiGppG~GKT~lAraLA~~l 71 (441)
T TIGR00390 47 PKNILMIGPTGVGKTEIARRLAKLA 71 (441)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3567999999999999887776554
No 389
>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=89.58 E-value=0.82 Score=53.70 Aligned_cols=54 Identities=24% Similarity=0.226 Sum_probs=44.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc-CCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI-KCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~-~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
++.+.+|-|+||.|||+++..++..++.. +.+||+.+.=. ...+++.|+.....
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm-~~~~l~~R~la~~s 72 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEM-SEEELAARLLARLS 72 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHHHHH
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCC-CHHHHHHHHHHHhh
Confidence 46799999999999999999999999987 59999999876 44568889887643
No 390
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=89.56 E-value=0.24 Score=55.23 Aligned_cols=19 Identities=42% Similarity=0.678 Sum_probs=15.2
Q ss_pred eEEEEcCCCCChhHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSML 298 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaL 298 (1825)
..+|.|+|||||||+...+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 4689999999999965443
No 391
>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=89.53 E-value=0.42 Score=53.30 Aligned_cols=29 Identities=31% Similarity=0.284 Sum_probs=24.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
-+..-|++||||||||+++..++..++..
T Consensus 13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 13 LAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 35679999999999999998888777653
No 392
>PLN02200 adenylate kinase family protein
Probab=89.52 E-value=0.41 Score=55.87 Aligned_cols=24 Identities=25% Similarity=0.490 Sum_probs=19.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+-+.+|.|||||||||....+...
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH
Confidence 457899999999999987776543
No 393
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=89.52 E-value=0.4 Score=61.56 Aligned_cols=44 Identities=32% Similarity=0.402 Sum_probs=30.1
Q ss_pred CCHHHHHHHHHhhhhcc-----CCCCCCeEEEEcCCCCChhHHHHHHHH
Q 000228 257 LNESQVGAMLACLRRLD-----CGHRSGVELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 257 LNeSQ~eAV~saLsa~~-----c~h~~~VsLIqGPPGTGKTkTIaaLL~ 300 (1825)
..+..+++|...+.... -...+...|+.||||||||.+..++..
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh
Confidence 44455666666655332 113345799999999999998877765
No 394
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.52 E-value=0.47 Score=62.69 Aligned_cols=48 Identities=23% Similarity=0.352 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHhhhhccCC-CCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCG-HRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~-h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.-.++.+.+.|...+....-. ....+.+|.||||||||+++..+...+
T Consensus 86 l~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 86 LAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred hcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 345666777777666543211 234579999999999999987776544
No 395
>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=89.51 E-value=0.4 Score=55.03 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=30.7
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+.++.|.||+|||++.+++...+.+.|.|||++.
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~ 34 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVS 34 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEE
Confidence 3578999999999999999999999999998864
No 396
>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=89.51 E-value=0.29 Score=55.15 Aligned_cols=32 Identities=25% Similarity=0.388 Sum_probs=21.7
Q ss_pred eEEEEcCCCCChhHHHHHH-HHHHHHcCCcEEE
Q 000228 280 VELIWGPPGTGKTKTVSML-LLTLLRIKCRTLA 311 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaL-L~~LLk~~~RILV 311 (1825)
|.+|.|.||+|||..++.. +...++.|.+|.+
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 6899999999999998887 7777777666654
No 397
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=89.50 E-value=0.36 Score=60.51 Aligned_cols=28 Identities=25% Similarity=0.430 Sum_probs=23.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
+.-.|++||||+|||+++..+...++..
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 4568899999999999998888877653
No 398
>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=89.50 E-value=0.56 Score=62.55 Aligned_cols=54 Identities=28% Similarity=0.327 Sum_probs=47.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
..+++.+|..|=|||||+.+...+...+ ..+.++|++|....=+.+++.|+...
T Consensus 47 ~~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 47 QKRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CCCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 3578999999999999998888777776 46899999999999999999999764
No 399
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.49 E-value=0.36 Score=63.74 Aligned_cols=26 Identities=38% Similarity=0.475 Sum_probs=23.2
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
.-.|++||||||||+++..++..|..
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 45699999999999999999988875
No 400
>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=89.47 E-value=0.37 Score=58.16 Aligned_cols=39 Identities=15% Similarity=0.296 Sum_probs=29.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH------cCCcEEEEcCC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR------IKCRTLACTPT 315 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk------~~~RILVcAPT 315 (1825)
...+++|.||||||||++...++..... .+.+++.+.--
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te 138 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTE 138 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECC
Confidence 3789999999999999999888776553 13366666543
No 401
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=89.44 E-value=0.57 Score=52.53 Aligned_cols=36 Identities=19% Similarity=0.189 Sum_probs=33.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
.++..|.+|||+|||+.+..+....+..|.||+++=
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQ 40 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQ 40 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence 588999999999999999999999999999998873
No 402
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=89.43 E-value=0.1 Score=69.21 Aligned_cols=67 Identities=34% Similarity=0.394 Sum_probs=60.0
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC----CcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK----CRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~----~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
.||+.|++||... .+..+|-++||||||+|++..++.|+..+ .+||++++||.|+.+|.+|+.++..
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 6999999999876 46677777779999999999999999864 5899999999999999999999865
No 403
>PRK04040 adenylate kinase; Provisional
Probab=89.43 E-value=0.29 Score=55.21 Aligned_cols=24 Identities=38% Similarity=0.537 Sum_probs=20.1
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+.+|.|+||+||||++..+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 478999999999999887776655
No 404
>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=56.09 Aligned_cols=33 Identities=21% Similarity=0.348 Sum_probs=30.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
.++++ |..|+||||+.+.+...|.+.|.|||++
T Consensus 3 ~iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 3 QIAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 36667 8999999999999999999999999986
No 405
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.38 E-value=0.46 Score=61.26 Aligned_cols=37 Identities=32% Similarity=0.424 Sum_probs=29.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcA 313 (1825)
.+++..|.||+|+|||||+..|...+... +.+|.+++
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 46788999999999999999999887765 45675543
No 406
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=89.35 E-value=0.44 Score=58.02 Aligned_cols=56 Identities=23% Similarity=0.163 Sum_probs=48.5
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC--CcEEEEcCChHHHH
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK--CRTLACTPTNVAIT 320 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~--~RILVcAPTN~AVD 320 (1825)
...++.|..-+.++.. +.+.+=.||.|||||.+.++.....+..+ .||+++=| ||+
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 3689999999998865 68999999999999999999988888876 69999888 666
No 407
>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=89.34 E-value=0.44 Score=65.12 Aligned_cols=35 Identities=34% Similarity=0.407 Sum_probs=27.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
++.|+.||||||||.++.++...|......+...-
T Consensus 597 ~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~d 631 (852)
T TIGR03345 597 GVFLLVGPSGVGKTETALALAELLYGGEQNLITIN 631 (852)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEe
Confidence 46899999999999999999888776555554443
No 408
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=89.28 E-value=0.46 Score=64.05 Aligned_cols=32 Identities=34% Similarity=0.412 Sum_probs=24.2
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
+..|+.||||||||.++..+...+ +.+.+.+-
T Consensus 489 ~~~Lf~GP~GvGKT~lAk~LA~~l---~~~~i~id 520 (758)
T PRK11034 489 GSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFD 520 (758)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh---CCCcEEee
Confidence 468999999999999998776655 45555443
No 409
>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=89.28 E-value=0.35 Score=53.45 Aligned_cols=25 Identities=20% Similarity=0.302 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.+.++.||||+||||+...+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 4589999999999999887775543
No 410
>PRK03839 putative kinase; Provisional
Probab=89.27 E-value=0.32 Score=53.85 Aligned_cols=22 Identities=41% Similarity=0.545 Sum_probs=17.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+|.||||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5788999999999776665544
No 411
>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=89.27 E-value=0.31 Score=51.31 Aligned_cols=23 Identities=35% Similarity=0.577 Sum_probs=18.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+..|.|||||||||+...+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999887776654
No 412
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.26 E-value=0.34 Score=55.29 Aligned_cols=32 Identities=28% Similarity=0.343 Sum_probs=27.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEE
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTL 310 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RIL 310 (1825)
++.++.||||+||||....++..|-..+.++.
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi 33 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVI 33 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhcc
Confidence 46789999999999999999888887766654
No 413
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.19 E-value=0.36 Score=65.82 Aligned_cols=55 Identities=20% Similarity=0.191 Sum_probs=36.0
Q ss_pred HHHHHHHHhhhhccCC--------CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 260 SQVGAMLACLRRLDCG--------HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~--------h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
-|.+||.....++... .+-+..|+.||||||||+++..+...|...+...+.+-.
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~ 575 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDM 575 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEc
Confidence 3666666554443211 112357899999999999999998888766555544433
No 414
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.18 E-value=0.37 Score=63.29 Aligned_cols=26 Identities=35% Similarity=0.419 Sum_probs=22.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
...|+.||||||||+++-.++..|..
T Consensus 39 ~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 39 HAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44599999999999999998888764
No 415
>PRK03846 adenylylsulfate kinase; Provisional
Probab=89.14 E-value=0.57 Score=52.94 Aligned_cols=37 Identities=24% Similarity=0.272 Sum_probs=29.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+++.+..|.|+||+||||++..+...|...+..+++.
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 3578999999999999998888877777666655554
No 416
>PRK10865 protein disaggregation chaperone; Provisional
Probab=89.14 E-value=0.61 Score=63.93 Aligned_cols=38 Identities=29% Similarity=0.359 Sum_probs=29.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH-------cCCcEEEEcC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR-------IKCRTLACTP 314 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk-------~~~RILVcAP 314 (1825)
..+..+++||||||||+++..+...+.. .+.+++....
T Consensus 198 ~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l 242 (857)
T PRK10865 198 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM 242 (857)
T ss_pred CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEeh
Confidence 4567789999999999999888887764 3567766533
No 417
>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=89.12 E-value=0.76 Score=62.23 Aligned_cols=73 Identities=15% Similarity=0.093 Sum_probs=53.6
Q ss_pred CCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc---CCcEEEEcCChHHHHHHHHHHHHHh
Q 000228 254 SSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI---KCRTLACTPTNVAITELASRVLKLV 330 (1825)
Q Consensus 254 ~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~---~~RILVcAPTN~AVDEVaeRL~klv 330 (1825)
.|...+-|+++|..++.. ....+++.|.|||||-+++.-+..+... ..+++.|+||..=++++.+.+.++.
T Consensus 13 G~~PtpiQ~~~i~~il~G------~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 13 GYSPFPWQLSLAERFVAG------QPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCCCCHHHHHHHHHHHcC------CCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHH
Confidence 345889999999998762 2368889999999998765323322211 2366668899999999999998875
Q ss_pred hh
Q 000228 331 KE 332 (1825)
Q Consensus 331 ~e 332 (1825)
..
T Consensus 87 k~ 88 (844)
T TIGR02621 87 ER 88 (844)
T ss_pred HH
Confidence 43
No 418
>PF13479 AAA_24: AAA domain
Probab=89.10 E-value=0.28 Score=56.16 Aligned_cols=30 Identities=40% Similarity=0.579 Sum_probs=23.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCCh
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTN 316 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN 316 (1825)
--.+|.||||+|||+++..+ .++|+...-+
T Consensus 4 ~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~ 33 (213)
T PF13479_consen 4 IKILIYGPPGSGKTTLAASL--------PKPLFIDTEN 33 (213)
T ss_pred eEEEEECCCCCCHHHHHHhC--------CCeEEEEeCC
Confidence 35799999999999988766 7777765544
No 419
>PRK05439 pantothenate kinase; Provisional
Probab=89.09 E-value=0.8 Score=55.74 Aligned_cols=37 Identities=24% Similarity=0.140 Sum_probs=26.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHc--CCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRI--KCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~--~~RILVcA 313 (1825)
.+-+..|.||||+||||+...+...|-.. +.++.+++
T Consensus 85 ~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 85 VPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 34578899999999999987766655332 45665554
No 420
>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=89.08 E-value=0.39 Score=54.28 Aligned_cols=27 Identities=30% Similarity=0.471 Sum_probs=20.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLL 303 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LL 303 (1825)
++-+.+|-||||+|||+++..++..+-
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 467899999999999999988877665
No 421
>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=89.05 E-value=0.62 Score=51.55 Aligned_cols=35 Identities=26% Similarity=0.259 Sum_probs=32.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
.++..|.+|||+|||+.+..+....+..|.||+++
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~v 36 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRALGHGYRVGVV 36 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 36888999999999999999999999999999984
No 422
>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=88.93 E-value=0.26 Score=57.12 Aligned_cols=21 Identities=52% Similarity=0.895 Sum_probs=18.3
Q ss_pred CCeEEEEcCCCCChhHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSML 298 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaL 298 (1825)
+...||.||||||||+++..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc
Confidence 567999999999999987655
No 423
>PRK14531 adenylate kinase; Provisional
Probab=88.90 E-value=0.31 Score=54.33 Aligned_cols=22 Identities=36% Similarity=0.587 Sum_probs=17.7
Q ss_pred eEEEEcCCCCChhHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
-.+|.||||+||||....+...
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4788999999999987666544
No 424
>PRK08760 replicative DNA helicase; Provisional
Probab=88.88 E-value=0.68 Score=59.50 Aligned_cols=53 Identities=17% Similarity=0.113 Sum_probs=44.4
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+++.+.+|-|+||+|||+++..++..... .+.+|++.+.-..+ ++++.|+...
T Consensus 227 ~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~-~ql~~Rl~a~ 280 (476)
T PRK08760 227 QPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA-SQLAMRLISS 280 (476)
T ss_pred CCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH-HHHHHHHHHh
Confidence 35789999999999999999999988864 58899998876644 6788898775
No 425
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.86 E-value=0.26 Score=60.45 Aligned_cols=18 Identities=50% Similarity=0.798 Sum_probs=15.0
Q ss_pred EEEEcCCCCChhHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSML 298 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaL 298 (1825)
.|..||||||||-++.++
T Consensus 248 vLm~GPPGTGKTlLAKAv 265 (491)
T KOG0738|consen 248 VLMVGPPGTGKTLLAKAV 265 (491)
T ss_pred eeeeCCCCCcHHHHHHHH
Confidence 688999999999866554
No 426
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=88.82 E-value=0.33 Score=53.67 Aligned_cols=20 Identities=40% Similarity=0.451 Sum_probs=15.6
Q ss_pred EEEEcCCCCChhHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~ 300 (1825)
-.|-|||||||||+...+..
T Consensus 3 ItIsG~pGsG~TTva~~lAe 22 (179)
T COG1102 3 ITISGLPGSGKTTVARELAE 22 (179)
T ss_pred EEeccCCCCChhHHHHHHHH
Confidence 46899999999997655543
No 427
>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=88.78 E-value=0.3 Score=54.13 Aligned_cols=21 Identities=38% Similarity=0.659 Sum_probs=16.6
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~ 301 (1825)
.+|.|||||||||+...+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 479999999999877666544
No 428
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=88.73 E-value=0.41 Score=54.32 Aligned_cols=33 Identities=30% Similarity=0.348 Sum_probs=27.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..-|-||||+|||++|-.++..|... .++.|++
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~ 47 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVIT 47 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEe
Confidence 45578999999999999999888776 7776654
No 429
>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=88.67 E-value=1.3 Score=52.15 Aligned_cols=69 Identities=23% Similarity=0.185 Sum_probs=45.5
Q ss_pred HHHHHHHhhhhc------cCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCC-----cEEEEcCChHHHHHHHHHHHHH
Q 000228 261 QVGAMLACLRRL------DCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC-----RTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 261 Q~eAV~saLsa~------~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~-----RILVcAPTN~AVDEVaeRL~kl 329 (1825)
|.+||.-.+... .-..+.+=.++.-.||+|||.++.+++..+...+. ++||++|+ ..+.+-...+.+.
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccc
Confidence 888888776642 00123445666667899999999999998877533 49999999 5667777777665
Q ss_pred h
Q 000228 330 V 330 (1825)
Q Consensus 330 v 330 (1825)
.
T Consensus 81 ~ 81 (299)
T PF00176_consen 81 F 81 (299)
T ss_dssp S
T ss_pred c
Confidence 4
No 430
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.65 E-value=1.1 Score=59.65 Aligned_cols=74 Identities=18% Similarity=0.188 Sum_probs=58.6
Q ss_pred CCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhh
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVK 331 (1825)
Q Consensus 253 ~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~ 331 (1825)
..|.-...|..|+...+....-. ..-.++.|.+|||||.|++.++.. .+..+||+||+..-+.++.+-|...+.
T Consensus 6 ~~~~~~~~Q~~ai~~l~~~~~~~--~~~~~l~Gvtgs~kt~~~a~~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~p 79 (655)
T TIGR00631 6 SPFQPAGDQPKAIAKLVEGLTDG--EKHQTLLGVTGSGKTFTMANVIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFFP 79 (655)
T ss_pred cCCCCChHHHHHHHHHHHhhhcC--CCcEEEECCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhCC
Confidence 34566778999999887765321 124569999999999999987755 367899999999999999999988754
No 431
>PRK14532 adenylate kinase; Provisional
Probab=88.64 E-value=0.3 Score=54.35 Aligned_cols=20 Identities=30% Similarity=0.660 Sum_probs=16.5
Q ss_pred EEEEcCCCCChhHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~ 300 (1825)
.+|.||||+||||....+..
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998766654
No 432
>PRK09165 replicative DNA helicase; Provisional
Probab=88.61 E-value=0.75 Score=59.43 Aligned_cols=53 Identities=21% Similarity=0.243 Sum_probs=43.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHHc---------------CCcEEEEcCChHHHHHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLTLLRI---------------KCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~---------------~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
+++.+.+|-|+||+|||+++..++...... +.+||+.+.-. ..++++.|+...
T Consensus 215 ~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEM-s~~ql~~R~la~ 282 (497)
T PRK09165 215 HPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEM-SAEQLATRILSE 282 (497)
T ss_pred CCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcC-CHHHHHHHHHHH
Confidence 357899999999999999999988887653 67888887665 458889998775
No 433
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=88.56 E-value=0.79 Score=57.20 Aligned_cols=58 Identities=21% Similarity=0.203 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHH--HcCCcEEEE
Q 000228 255 STLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLL--RIKCRTLAC 312 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LL--k~~~RILVc 312 (1825)
...-.++...+..++..-.--.++++..+-||-|-|||||++.|.+... ....||-++
T Consensus 180 ~~~~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiI 239 (407)
T COG1419 180 LRYFSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAII 239 (407)
T ss_pred hhhHHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEE
Confidence 3455566667766655210001378999999999999999999998887 445666443
No 434
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=88.55 E-value=0.48 Score=58.56 Aligned_cols=45 Identities=22% Similarity=0.154 Sum_probs=31.6
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
|.+|+.....+.....-+..-||.||+|+|||+++-.++..|+..
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 444544444433333345579999999999999999888888763
No 435
>PRK07261 topology modulation protein; Provisional
Probab=88.55 E-value=0.35 Score=53.60 Aligned_cols=21 Identities=29% Similarity=0.302 Sum_probs=17.6
Q ss_pred EEEEcCCCCChhHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~ 301 (1825)
.+|.||||+||||++..+...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 579999999999998776544
No 436
>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=88.53 E-value=0.52 Score=59.39 Aligned_cols=24 Identities=38% Similarity=0.494 Sum_probs=20.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+-.|+.||||||||+++.++...+
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l 140 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARIL 140 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhc
Confidence 568999999999999988776544
No 437
>COG4889 Predicted helicase [General function prediction only]
Probab=88.50 E-value=0.67 Score=61.24 Aligned_cols=66 Identities=23% Similarity=0.137 Sum_probs=52.3
Q ss_pred CCCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHH
Q 000228 251 PSFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITE 321 (1825)
Q Consensus 251 ~~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDE 321 (1825)
.....++-+.|+.||..++....- +..=.||.+| |||||.|...+..+|.. .|||..+||=.-+-+
T Consensus 156 l~~~kk~R~hQq~Aid~a~~~F~~--n~RGkLIMAc-GTGKTfTsLkisEala~--~~iL~LvPSIsLLsQ 221 (1518)
T COG4889 156 LKKPKKPRPHQQTAIDAAKEGFSD--NDRGKLIMAC-GTGKTFTSLKISEALAA--ARILFLVPSISLLSQ 221 (1518)
T ss_pred cCCCCCCChhHHHHHHHHHhhccc--ccCCcEEEec-CCCccchHHHHHHHHhh--hheEeecchHHHHHH
Confidence 344568999999999999886543 3445788876 99999999888888877 899999999755544
No 438
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=88.41 E-value=0.57 Score=56.84 Aligned_cols=36 Identities=33% Similarity=0.394 Sum_probs=32.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
.+.++.|.-|+||||+.+++...+...|.|||+++-
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 377899999999999999999999999999999853
No 439
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=88.40 E-value=2 Score=52.70 Aligned_cols=46 Identities=30% Similarity=0.275 Sum_probs=32.9
Q ss_pred HHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHc
Q 000228 260 SQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRI 305 (1825)
Q Consensus 260 SQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~ 305 (1825)
-|..+.......+.-++-+.--|+.||+|+||++++..++..|+..
T Consensus 8 W~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 8 WQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred cHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 4444544444433333445678999999999999999999999864
No 440
>PRK13947 shikimate kinase; Provisional
Probab=88.39 E-value=0.35 Score=52.74 Aligned_cols=22 Identities=36% Similarity=0.348 Sum_probs=17.5
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+|.||||||||++...+...|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 5789999999999876665544
No 441
>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=88.37 E-value=0.73 Score=63.19 Aligned_cols=36 Identities=31% Similarity=0.394 Sum_probs=27.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH-------cCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR-------IKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk-------~~~RILVcA 313 (1825)
.+.-+++||||||||+++..++..+.. .+.+++.+.
T Consensus 194 ~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~ 236 (852)
T TIGR03346 194 KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALD 236 (852)
T ss_pred CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEee
Confidence 456678999999999999888887765 356777653
No 442
>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=88.35 E-value=0.4 Score=53.95 Aligned_cols=29 Identities=31% Similarity=0.318 Sum_probs=23.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCR 308 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~R 308 (1825)
|.-|.||||+||||+...+...|-..+..
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 45699999999999988888777666544
No 443
>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=88.34 E-value=0.65 Score=51.29 Aligned_cols=35 Identities=26% Similarity=0.205 Sum_probs=29.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
+..|.|++|+|||+++..++..|-..+.++-++-.
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~ 37 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKH 37 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEe
Confidence 67899999999999999999988777777755543
No 444
>PRK06547 hypothetical protein; Provisional
Probab=88.34 E-value=0.43 Score=53.21 Aligned_cols=26 Identities=31% Similarity=0.247 Sum_probs=21.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 276 HRSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 276 h~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
+...+.+|.||||+||||+...+...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45678889999999999998777665
No 445
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=88.33 E-value=0.53 Score=54.60 Aligned_cols=36 Identities=25% Similarity=0.301 Sum_probs=28.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHH-----cCCcEEEEcCCh
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTLLR-----IKCRTLACTPTN 316 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~LLk-----~~~RILVcAPTN 316 (1825)
+||-||||+||||.+..+...+.- .+.||.++--+|
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 899999999999999888766654 356777765554
No 446
>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=88.31 E-value=0.51 Score=53.33 Aligned_cols=39 Identities=28% Similarity=0.363 Sum_probs=29.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH----cCCcEEEEcCCh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR----IKCRTLACTPTN 316 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk----~~~RILVcAPTN 316 (1825)
.+-.+|.|+||+|||+++..++..++. ...++-++-+..
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 346899999999999999999999998 456777777664
No 447
>PRK14530 adenylate kinase; Provisional
Probab=88.30 E-value=0.43 Score=54.52 Aligned_cols=24 Identities=33% Similarity=0.434 Sum_probs=19.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
...+|-||||+||||....+...+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 467889999999999877665444
No 448
>PRK05595 replicative DNA helicase; Provisional
Probab=88.27 E-value=0.85 Score=58.03 Aligned_cols=52 Identities=19% Similarity=0.096 Sum_probs=44.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|-|+||.|||+++..++..+. ..|.+|++.+.-. ...+++.|+...
T Consensus 200 ~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEm-s~~~l~~R~~a~ 252 (444)
T PRK05595 200 KGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEM-SKEQLAYKLLCS 252 (444)
T ss_pred CCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCC-CHHHHHHHHHHH
Confidence 578999999999999999999998765 5689999987755 777888898775
No 449
>PRK09087 hypothetical protein; Validated
Probab=88.26 E-value=0.4 Score=55.63 Aligned_cols=23 Identities=39% Similarity=0.498 Sum_probs=19.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~ 300 (1825)
++..+|+||||+||||++.++..
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~ 66 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWRE 66 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 56789999999999999885543
No 450
>PTZ00202 tuzin; Provisional
Probab=88.18 E-value=1.3 Score=55.87 Aligned_cols=66 Identities=20% Similarity=0.219 Sum_probs=45.1
Q ss_pred CHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 258 NESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 258 NeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
-+.+..++..++......+ +.+.+|.||||+|||+++..++..+ +.-.++.-|. ...+++..+...
T Consensus 267 ReaEla~Lr~VL~~~d~~~-privvLtG~~G~GKTTLlR~~~~~l---~~~qL~vNpr--g~eElLr~LL~A 332 (550)
T PTZ00202 267 REAEESWVRQVLRRLDTAH-PRIVVFTGFRGCGKSSLCRSAVRKE---GMPAVFVDVR--GTEDTLRSVVKA 332 (550)
T ss_pred cHHHHHHHHHHHhccCCCC-ceEEEEECCCCCCHHHHHHHHHhcC---CceEEEECCC--CHHHHHHHHHHH
Confidence 3566777777776444333 3599999999999999988777443 2335555555 457777777664
No 451
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=88.12 E-value=0.57 Score=56.55 Aligned_cols=32 Identities=25% Similarity=0.361 Sum_probs=28.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+.++ |-+|+|||||.+.+...|.+.|+|||++
T Consensus 3 Iav~-gKGGvGKTT~a~nLA~~La~~g~rVLlI 34 (296)
T TIGR02016 3 IAIY-GKGGSGKSFTTTNLSHMMAEMGKRVLQL 34 (296)
T ss_pred EEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 4555 9999999999999999999999999885
No 452
>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=88.01 E-value=0.37 Score=51.86 Aligned_cols=20 Identities=40% Similarity=0.684 Sum_probs=16.4
Q ss_pred EEcCCCCChhHHHHHHHHHH
Q 000228 283 IWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 283 IqGPPGTGKTkTIaaLL~~L 302 (1825)
|-||||+||||....+...+
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 67999999999887766654
No 453
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=87.99 E-value=0.57 Score=54.73 Aligned_cols=38 Identities=21% Similarity=0.177 Sum_probs=33.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNV 317 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~ 317 (1825)
+.-|.|++|+||||++..++..|..+|.||.++-+++.
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~ 40 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHH 40 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEeccc
Confidence 56789999999999999999999999999999866554
No 454
>PHA02542 41 41 helicase; Provisional
Probab=87.98 E-value=0.62 Score=59.75 Aligned_cols=52 Identities=17% Similarity=0.138 Sum_probs=43.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKL 329 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~kl 329 (1825)
++.+.+|-|+||.|||+++..++......|.+||+.+--- ...+++.|+...
T Consensus 189 ~G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM-~~~ql~~Rl~a~ 240 (473)
T PHA02542 189 RKTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEM-AEEVIAKRIDAN 240 (473)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccC-CHHHHHHHHHHH
Confidence 5789999999999999999999988888899999887544 336778888764
No 455
>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=87.96 E-value=0.64 Score=50.99 Aligned_cols=33 Identities=21% Similarity=0.336 Sum_probs=29.7
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+.+..+-+|+||||+.+.+...+...|.|||++
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 466778899999999999999999999999984
No 456
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=87.91 E-value=0.74 Score=54.91 Aligned_cols=27 Identities=33% Similarity=0.568 Sum_probs=19.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
.-+-.|+.||||+||||++ .+++.-+.
T Consensus 51 ~lDHvLl~GPPGlGKTTLA-~IIA~Emg 77 (332)
T COG2255 51 ALDHVLLFGPPGLGKTTLA-HIIANELG 77 (332)
T ss_pred CcCeEEeeCCCCCcHHHHH-HHHHHHhc
Confidence 3466899999999999855 44444443
No 457
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=87.88 E-value=0.38 Score=52.47 Aligned_cols=22 Identities=36% Similarity=0.483 Sum_probs=18.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLL 299 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL 299 (1825)
.+-.||.|-|||||||+...+.
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 3568999999999999876665
No 458
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=87.85 E-value=0.59 Score=57.04 Aligned_cols=34 Identities=32% Similarity=0.294 Sum_probs=25.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
...-.||.||||||||-++.++...| |..+=+|+
T Consensus 64 aGrgiLi~GppgTGKTAlA~gIa~eL---G~dvPF~~ 97 (450)
T COG1224 64 AGRGILIVGPPGTGKTALAMGIAREL---GEDVPFVA 97 (450)
T ss_pred cccEEEEECCCCCcHHHHHHHHHHHh---CCCCCcee
Confidence 45678999999999999887776665 44443433
No 459
>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=87.81 E-value=0.6 Score=52.40 Aligned_cols=38 Identities=26% Similarity=0.430 Sum_probs=27.9
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
..+.+...+.. ......+|.||+|+|||+++..++..+
T Consensus 7 el~~l~~~l~~----~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 7 ELEKLKELLES----GPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp HHHHHHHCHHH------SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHh----hcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 44566666653 236799999999999999887776655
No 460
>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=87.80 E-value=1 Score=54.46 Aligned_cols=36 Identities=25% Similarity=0.199 Sum_probs=24.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH---cCCcEEEEc
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR---IKCRTLACT 313 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk---~~~RILVcA 313 (1825)
.+-+.-|.||||+||||++..+ ..++. .+.+|.+.+
T Consensus 61 ~p~IIGIaG~~GSGKSTlar~L-~~ll~~~~~~g~V~vi~ 99 (290)
T TIGR00554 61 IPYIISIAGSVAVGKSTTARIL-QALLSRWPEHRKVELIT 99 (290)
T ss_pred CCEEEEEECCCCCCHHHHHHHH-HHHHhhcCCCCceEEEe
Confidence 4678889999999999988544 44444 134555544
No 461
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=87.77 E-value=0.65 Score=57.74 Aligned_cols=46 Identities=28% Similarity=0.270 Sum_probs=32.5
Q ss_pred HHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcC
Q 000228 261 QVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIK 306 (1825)
Q Consensus 261 Q~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~ 306 (1825)
|.+|+....+++.-+.-+.--|++||||+|||+++-.++..|+..+
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 5555444333333333456789999999999999999999998643
No 462
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=87.76 E-value=0.61 Score=56.15 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=30.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
-+++. |-.|+|||||.+.+...|.+.|+|||++
T Consensus 6 ~iai~-~KGGvGKTt~~~nLa~~la~~g~kVLli 38 (295)
T PRK13234 6 QIAFY-GKGGIGKSTTSQNTLAALVEMGQKILIV 38 (295)
T ss_pred EEEEE-CCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence 35566 9999999999999999999999999997
No 463
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=87.74 E-value=1.1 Score=60.52 Aligned_cols=70 Identities=19% Similarity=0.299 Sum_probs=59.2
Q ss_pred CCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH----------cCCcEEEEcCChHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR----------IKCRTLACTPTNVAITELASR 325 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk----------~~~RILVcAPTN~AVDEVaeR 325 (1825)
.||.-|-+++-.|.. .++-.||.+|-|+|||-+.---|..+++ .+-||+.+||+.+-+-|++..
T Consensus 110 ~fN~iQS~vFp~aY~------SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~ 183 (1230)
T KOG0952|consen 110 EFNRIQSEVFPVAYK------SNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDK 183 (1230)
T ss_pred HHHHHHHHhhhhhhc------CCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHH
Confidence 599999999998864 5889999999999999987666666766 356999999999999999998
Q ss_pred HHHHhh
Q 000228 326 VLKLVK 331 (1825)
Q Consensus 326 L~klv~ 331 (1825)
..+-+.
T Consensus 184 ~~kkl~ 189 (1230)
T KOG0952|consen 184 FSKKLA 189 (1230)
T ss_pred Hhhhcc
Confidence 877543
No 464
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=87.73 E-value=0.62 Score=60.49 Aligned_cols=50 Identities=16% Similarity=0.167 Sum_probs=32.0
Q ss_pred CCCCHHHHHHHHHhhhh-ccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 255 STLNESQVGAMLACLRR-LDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 255 ~~LNeSQ~eAV~saLsa-~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
|.+.+.-..-|....++ ..-.....+.++.||||+|||+++-.+...|=.
T Consensus 79 yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~ 129 (644)
T PRK15455 79 YGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER 129 (644)
T ss_pred cCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence 56666555544322111 122356789999999999999987777665443
No 465
>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=87.71 E-value=0.42 Score=64.86 Aligned_cols=26 Identities=31% Similarity=0.507 Sum_probs=22.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+..+.++.||||||||+++.++...+
T Consensus 346 ~~~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 346 KGPILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHh
Confidence 35689999999999999888887776
No 466
>PRK02496 adk adenylate kinase; Provisional
Probab=87.69 E-value=0.44 Score=52.89 Aligned_cols=22 Identities=36% Similarity=0.644 Sum_probs=17.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+|.||||+||||+...+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999877765544
No 467
>PRK01184 hypothetical protein; Provisional
Probab=87.56 E-value=0.42 Score=52.97 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=13.5
Q ss_pred eEEEEcCCCCChhHH
Q 000228 280 VELIWGPPGTGKTKT 294 (1825)
Q Consensus 280 VsLIqGPPGTGKTkT 294 (1825)
+.+|.||||+||||+
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 678999999999995
No 468
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=87.52 E-value=0.83 Score=51.96 Aligned_cols=37 Identities=14% Similarity=0.121 Sum_probs=34.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcC
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTP 314 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAP 314 (1825)
.+...|.||||+|||+.+..+....+..|.||+++=+
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQF 58 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQF 58 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence 6899999999999999999999999999999998744
No 469
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=87.52 E-value=0.37 Score=60.96 Aligned_cols=37 Identities=35% Similarity=0.639 Sum_probs=24.5
Q ss_pred hccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHH-cCCcE
Q 000228 271 RLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRT 309 (1825)
Q Consensus 271 a~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk-~~~RI 309 (1825)
.+.|.|=.++ |+.||||||||-.+..+ ..|+. +..||
T Consensus 250 ~lGi~HVKGi-LLyGPPGTGKTLiARqI-GkMLNArePKI 287 (744)
T KOG0741|consen 250 QLGIKHVKGI-LLYGPPGTGKTLIARQI-GKMLNAREPKI 287 (744)
T ss_pred HcCccceeeE-EEECCCCCChhHHHHHH-HHHhcCCCCcc
Confidence 3567777665 66899999999755544 44554 44444
No 470
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=87.49 E-value=0.82 Score=57.16 Aligned_cols=49 Identities=18% Similarity=0.042 Sum_probs=39.7
Q ss_pred CCCCCCCCCHHHHHHHHHhhhhccCCCCCCeEEEEcCCCCChhHHHHHHHHHHHHcCC
Q 000228 250 GPSFSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC 307 (1825)
Q Consensus 250 ~~~~~~~LNeSQ~eAV~saLsa~~c~h~~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~ 307 (1825)
..+..|.|++.=.+-+..-- .=.||.||||.||||.+.++...+...|+
T Consensus 244 ~~ledY~L~dkl~eRL~era---------eGILIAG~PGaGKsTFaqAlAefy~~~Gk 292 (604)
T COG1855 244 LSLEDYGLSDKLKERLEERA---------EGILIAGAPGAGKSTFAQALAEFYASQGK 292 (604)
T ss_pred echhhcCCCHHHHHHHHhhh---------cceEEecCCCCChhHHHHHHHHHHHhcCc
Confidence 45677999998887776542 23699999999999999999888888776
No 471
>PHA02774 E1; Provisional
Probab=87.48 E-value=0.62 Score=60.46 Aligned_cols=25 Identities=36% Similarity=0.579 Sum_probs=22.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
..-.+|+||||||||+...+++..|
T Consensus 434 knciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 434 KNCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred ccEEEEECCCCCCHHHHHHHHHHHh
Confidence 3579999999999999999988887
No 472
>PRK14528 adenylate kinase; Provisional
Probab=87.43 E-value=0.47 Score=53.29 Aligned_cols=22 Identities=32% Similarity=0.575 Sum_probs=17.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHH
Q 000228 280 VELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
..+|.||||+||||+...+...
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~ 24 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCER 24 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987666544
No 473
>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=87.36 E-value=0.59 Score=58.47 Aligned_cols=40 Identities=28% Similarity=0.331 Sum_probs=33.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVA 318 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~A 318 (1825)
.=.+|.|.||||||+++..++.++..++.+.+|.-|+..=
T Consensus 16 ~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~ 55 (386)
T PF10412_consen 16 RHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEF 55 (386)
T ss_dssp G-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHH
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchH
Confidence 3489999999999999999999999999999999988643
No 474
>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=87.32 E-value=0.49 Score=55.27 Aligned_cols=52 Identities=27% Similarity=0.236 Sum_probs=30.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEcCChHHHHHHHHHHHHHhhh
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKE 332 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcAPTN~AVDEVaeRL~klv~e 332 (1825)
.-...+.||+|||||.|+..+...| |+-+++.-.++.-=-..+.|+......
T Consensus 32 ~~~~~~~GpagtGKtetik~La~~l---G~~~~vfnc~~~~~~~~l~ril~G~~~ 83 (231)
T PF12774_consen 32 NLGGALSGPAGTGKTETIKDLARAL---GRFVVVFNCSEQMDYQSLSRILKGLAQ 83 (231)
T ss_dssp TTEEEEESSTTSSHHHHHHHHHHCT---T--EEEEETTSSS-HHHHHHHHHHHHH
T ss_pred CCCCCCcCCCCCCchhHHHHHHHHh---CCeEEEecccccccHHHHHHHHHHHhh
Confidence 4567799999999999988776554 555555333322222344555554433
No 475
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=87.29 E-value=0.52 Score=63.58 Aligned_cols=24 Identities=42% Similarity=0.558 Sum_probs=20.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+..|+.||||||||.++..+...+
T Consensus 485 ~~~lf~Gp~GvGKT~lA~~la~~l 508 (731)
T TIGR02639 485 GSFLFTGPTGVGKTELAKQLAEAL 508 (731)
T ss_pred eeEEEECCCCccHHHHHHHHHHHh
Confidence 457999999999999888887666
No 476
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=87.27 E-value=0.85 Score=50.26 Aligned_cols=34 Identities=26% Similarity=0.301 Sum_probs=29.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
|.+..+-.|+|||++.+.+...|..+|.|||+.-
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD 34 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGKKVLLID 34 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhccccccccccccc
Confidence 4567788999999999999999999999998853
No 477
>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=87.11 E-value=0.49 Score=52.03 Aligned_cols=22 Identities=41% Similarity=0.554 Sum_probs=18.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~ 300 (1825)
.+.+|.||||+||||++..+..
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 4789999999999997766654
No 478
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=87.08 E-value=0.79 Score=52.17 Aligned_cols=35 Identities=23% Similarity=0.231 Sum_probs=26.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
..+..+-||+|+||||++..++..+- .+.++.+..
T Consensus 22 ~~~i~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~ 56 (207)
T TIGR00073 22 LVVLNFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIE 56 (207)
T ss_pred cEEEEEECCCCCCHHHHHHHHHHHHh-cCCeEEEEE
Confidence 45666999999999999999988764 344655554
No 479
>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=87.07 E-value=0.45 Score=56.79 Aligned_cols=25 Identities=40% Similarity=0.603 Sum_probs=21.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.-.|+.||||||||.++...+..+
T Consensus 33 ~~pvLl~G~~GtGKT~li~~~l~~l 57 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQNFLSSL 57 (272)
T ss_dssp TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred CCcEEEECCCCCchhHHHHhhhccC
Confidence 4567999999999999998877654
No 480
>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=86.95 E-value=0.5 Score=50.32 Aligned_cols=22 Identities=32% Similarity=0.397 Sum_probs=18.2
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000228 281 ELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 281 sLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.+|.||||+|||+++..+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 4688999999999887776555
No 481
>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=86.94 E-value=0.59 Score=60.81 Aligned_cols=25 Identities=36% Similarity=0.709 Sum_probs=19.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
.+.-.+|.||||||||+++..+...
T Consensus 85 ~~~~vLi~Ge~GtGKt~lAr~i~~~ 109 (531)
T TIGR02902 85 NPQHVIIYGPPGVGKTAAARLVLEE 109 (531)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 3456799999999999977666544
No 482
>PRK06761 hypothetical protein; Provisional
Probab=86.91 E-value=0.6 Score=56.11 Aligned_cols=33 Identities=30% Similarity=0.296 Sum_probs=26.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTL 310 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RIL 310 (1825)
..+.+|.||||+||||++..+...|...+..+-
T Consensus 3 ~~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~ 35 (282)
T PRK06761 3 TKLIIIEGLPGFGKSTTAKMLNDILSQNGIEVE 35 (282)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhcCcCceEEE
Confidence 358899999999999999999888765555543
No 483
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=86.91 E-value=0.51 Score=63.66 Aligned_cols=25 Identities=36% Similarity=0.542 Sum_probs=19.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
+.-.|++||||||||+++.++...+
T Consensus 212 ~~giLL~GppGtGKT~laraia~~~ 236 (733)
T TIGR01243 212 PKGVLLYGPPGTGKTLLAKAVANEA 236 (733)
T ss_pred CceEEEECCCCCChHHHHHHHHHHh
Confidence 3458899999999999877765543
No 484
>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=86.87 E-value=0.62 Score=61.65 Aligned_cols=25 Identities=32% Similarity=0.630 Sum_probs=20.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
....+|.||||||||+++..+....
T Consensus 175 ~~~vlL~Gp~GtGKTTLAr~i~~~~ 199 (615)
T TIGR02903 175 PQHIILYGPPGVGKTTAARLALEEA 199 (615)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHhh
Confidence 4579999999999999887765443
No 485
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=86.85 E-value=0.98 Score=55.07 Aligned_cols=40 Identities=15% Similarity=0.101 Sum_probs=29.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH------cCCcEEEEcCCh
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR------IKCRTLACTPTN 316 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk------~~~RILVcAPTN 316 (1825)
...++.|.||||||||++...++..... .+.+++.+.--.
T Consensus 95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~ 140 (313)
T TIGR02238 95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG 140 (313)
T ss_pred CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence 3789999999999999998766643321 356777776443
No 486
>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=86.84 E-value=0.95 Score=50.00 Aligned_cols=35 Identities=23% Similarity=0.166 Sum_probs=27.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+-+..|.|.||+||||+..++-..|...+.++.+.
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 34778999999999988888888888888777664
No 487
>PRK00300 gmk guanylate kinase; Provisional
Probab=86.73 E-value=0.54 Score=52.91 Aligned_cols=25 Identities=36% Similarity=0.545 Sum_probs=20.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
++.+.+|.||+|+|||+++..+...
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhh
Confidence 5679999999999999877666554
No 488
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.68 E-value=0.41 Score=63.63 Aligned_cols=37 Identities=8% Similarity=0.109 Sum_probs=24.0
Q ss_pred cccccCChhHHHhhchhh-----HHHHHHHHHHHhhhhccCC
Q 000228 52 IPESFQSVKQYFGSFVFP-----LLEETRMQLRSGLEAMRRA 88 (1825)
Q Consensus 52 IP~TF~S~~eYl~SF~Pl-----LLEEtrAdL~SSle~is~A 88 (1825)
++.|+.++.=|+..+..+ ..|.+|.++.+-+.+-...
T Consensus 140 ~~~t~~~~~~f~~~~~~~~~~~~~~ei~~~df~~~~le~g~v 181 (774)
T KOG0731|consen 140 VQSTPKGLAVFMEALDLDRVESGWQEITWRDFKQKLLEKGEV 181 (774)
T ss_pred eecchhHHHHHHHHhccccccccceeeeHHHHHHHHhhccce
Confidence 667777776677666622 3368888887766664433
No 489
>PRK13973 thymidylate kinase; Provisional
Probab=86.59 E-value=1.3 Score=50.67 Aligned_cols=41 Identities=20% Similarity=0.238 Sum_probs=33.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE-cCChHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC-TPTNVA 318 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc-APTN~A 318 (1825)
+-+.+|-|++|+||||.+..+...|-..|.++.++ =|+...
T Consensus 3 g~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~ 44 (213)
T PRK13973 3 GRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSP 44 (213)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCc
Confidence 45888999999999999999999988888888777 466533
No 490
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=86.57 E-value=0.93 Score=55.02 Aligned_cols=47 Identities=21% Similarity=0.207 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHhhhhcc----CCCCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000228 256 TLNESQVGAMLACLRRLD----CGHRSGVELIWGPPGTGKTKTVSMLLLTL 302 (1825)
Q Consensus 256 ~LNeSQ~eAV~saLsa~~----c~h~~~VsLIqGPPGTGKTkTIaaLL~~L 302 (1825)
.|++.|++++...+..+- --+++....|.|+||+|||++...+...|
T Consensus 107 ~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 107 QASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred cCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 699999999988776531 11567789999999999999877765544
No 491
>PTZ00035 Rad51 protein; Provisional
Probab=86.55 E-value=1.1 Score=55.18 Aligned_cols=39 Identities=21% Similarity=0.193 Sum_probs=28.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHH------cCCcEEEEcCC
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLTLLR------IKCRTLACTPT 315 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~LLk------~~~RILVcAPT 315 (1825)
...++.|.||||||||++...++..... .+.+++.+.--
T Consensus 117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE 161 (337)
T PTZ00035 117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTE 161 (337)
T ss_pred CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEcc
Confidence 4789999999999999998766554431 34577665433
No 492
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.40 E-value=0.65 Score=61.09 Aligned_cols=27 Identities=26% Similarity=0.289 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR 304 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LLk 304 (1825)
....|++||||||||+++..+...|..
T Consensus 38 ~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 38 APAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhccc
Confidence 456889999999999999998888875
No 493
>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=86.37 E-value=0.86 Score=54.48 Aligned_cols=35 Identities=20% Similarity=0.185 Sum_probs=25.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEEc
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACT 313 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVcA 313 (1825)
++.+|.|.||+|||+.+..|...+-..+.++.++.
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 47899999999999988888888888778887776
No 494
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=86.34 E-value=0.59 Score=54.67 Aligned_cols=22 Identities=41% Similarity=0.637 Sum_probs=17.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSML 298 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaL 298 (1825)
.+.=.|..||||||||-.+.+-
T Consensus 204 pPKGvLmYGPPGTGKTlmARAc 225 (424)
T KOG0652|consen 204 PPKGVLMYGPPGTGKTLMARAC 225 (424)
T ss_pred CCCceEeeCCCCCcHHHHHHHH
Confidence 4455799999999999876543
No 495
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=86.26 E-value=0.84 Score=50.92 Aligned_cols=35 Identities=26% Similarity=0.290 Sum_probs=25.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH-HcCCcEEEE
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL-RIKCRTLAC 312 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~~RILVc 312 (1825)
-...++.||+|+|||.++..+...|. ....+.+..
T Consensus 3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~ 38 (171)
T PF07724_consen 3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRI 38 (171)
T ss_dssp SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEE
T ss_pred EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHH
Confidence 35789999999999998777776666 344455444
No 496
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=86.24 E-value=0.62 Score=53.75 Aligned_cols=54 Identities=28% Similarity=0.253 Sum_probs=35.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHH-----------------c----------CCcEEE----EcCChHHHHHHHHHHH
Q 000228 279 GVELIWGPPGTGKTKTVSMLLLTLLR-----------------I----------KCRTLA----CTPTNVAITELASRVL 327 (1825)
Q Consensus 279 ~VsLIqGPPGTGKTkTIaaLL~~LLk-----------------~----------~~RILV----cAPTN~AVDEVaeRL~ 327 (1825)
.+.+|+||+|||||.+..++....=- . -.|+.+ ++.-+.+.++..+||.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l~v~Sgrp~~~el~~~~RiyL~~r~l~~G~i~a~ea~~~Li 81 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPELSVGSGRPTPSELKGTRRIYLDDRPLSDGIINAEEAHERLI 81 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGGTTTTT---SGGGTT-EEEES----GGG-S--HHHHHHHHH
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEecceecccccccccCCCCHHHHcccceeeeccccccCCCcCHHHHHHHHH
Confidence 37899999999999998888776631 0 124544 3455778888888888
Q ss_pred HHhhh
Q 000228 328 KLVKE 332 (1825)
Q Consensus 328 klv~e 332 (1825)
..+..
T Consensus 82 ~~v~~ 86 (233)
T PF01745_consen 82 SEVNS 86 (233)
T ss_dssp HHHHT
T ss_pred HHHHh
Confidence 87665
No 497
>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=86.20 E-value=0.64 Score=52.85 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=19.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLLT 301 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~~ 301 (1825)
.+.+..|.||||+||||++..+...
T Consensus 5 ~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 5 KGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHH
Confidence 3567889999999999877666543
No 498
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=86.16 E-value=0.85 Score=61.22 Aligned_cols=45 Identities=31% Similarity=0.348 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH-HcC-CcEEEE-cCChH--HHHHH
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLL-RIK-CRTLAC-TPTNV--AITEL 322 (1825)
Q Consensus 278 ~~VsLIqGPPGTGKTkTIaaLL~~LL-k~~-~RILVc-APTN~--AVDEV 322 (1825)
+.+.++-||.|+|||||++.+...+. ..| ++|.++ +.|-. |++++
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL 234 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQL 234 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHH
Confidence 57999999999999999999998874 444 477554 43433 55543
No 499
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=86.07 E-value=0.58 Score=49.02 Aligned_cols=24 Identities=29% Similarity=0.434 Sum_probs=20.1
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHH
Q 000228 277 RSGVELIWGPPGTGKTKTVSMLLL 300 (1825)
Q Consensus 277 ~~~VsLIqGPPGTGKTkTIaaLL~ 300 (1825)
.+.+..|.||+|+|||+++..+..
T Consensus 10 ~g~~~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHTT
T ss_pred CCCEEEEEccCCCccccceeeecc
Confidence 478999999999999998865543
No 500
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=86.06 E-value=0.86 Score=53.98 Aligned_cols=32 Identities=22% Similarity=0.349 Sum_probs=29.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHHcCCcEEEE
Q 000228 280 VELIWGPPGTGKTKTVSMLLLTLLRIKCRTLAC 312 (1825)
Q Consensus 280 VsLIqGPPGTGKTkTIaaLL~~LLk~~~RILVc 312 (1825)
+++. |--|+|||||.+.+...|.+.|+|||++
T Consensus 4 iav~-~KGGVGKTT~~~nLA~~La~~G~rVLlI 35 (274)
T PRK13235 4 VAIY-GKGGIGKSTTTQNTVAGLAEMGKKVMVV 35 (274)
T ss_pred EEEe-CCCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 5566 8889999999999999999999999986
Done!