Query 038763
Match_columns 690
No_of_seqs 417 out of 2309
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 03:02:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038763.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038763hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1803 DNA helicase [Replicat 100.0 4E-117 9E-122 938.1 45.0 625 14-688 3-647 (649)
2 TIGR00376 DNA helicase, putati 100.0 6.6E-94 1.4E-98 815.3 59.3 578 26-672 1-636 (637)
3 KOG1802 RNA helicase nonsense 100.0 1.6E-88 3.4E-93 718.1 41.8 589 3-677 229-847 (935)
4 KOG1805 DNA replication helica 100.0 1.9E-74 4E-79 636.3 30.7 566 13-675 480-1084(1100)
5 KOG1807 Helicases [Replication 100.0 4.6E-52 1E-56 446.9 32.1 276 382-680 692-990 (1025)
6 COG1112 Superfamily I DNA and 100.0 9.2E-47 2E-51 448.2 38.6 421 233-671 273-754 (767)
7 PF13087 AAA_12: AAA domain; P 100.0 1.1E-38 2.5E-43 316.1 10.3 194 440-646 1-200 (200)
8 KOG1801 tRNA-splicing endonucl 100.0 8.6E-36 1.9E-40 347.1 22.4 271 387-672 513-815 (827)
9 KOG1804 RNA helicase [RNA proc 100.0 2.3E-36 5.1E-41 338.5 11.8 352 252-669 327-722 (775)
10 PF13086 AAA_11: AAA domain; P 100.0 4.6E-29 1E-33 252.7 12.0 197 234-432 1-235 (236)
11 KOG1806 DEAD box containing he 100.0 3.9E-28 8.4E-33 269.1 16.3 406 235-660 739-1262(1320)
12 PRK11054 helD DNA helicase IV; 99.9 5.1E-26 1.1E-30 260.5 23.9 196 415-659 460-675 (684)
13 PRK11773 uvrD DNA-dependent he 99.9 1.3E-24 2.9E-29 254.0 27.5 126 414-579 240-365 (721)
14 TIGR01075 uvrD DNA helicase II 99.9 1.7E-24 3.6E-29 253.3 26.0 126 414-579 235-360 (715)
15 TIGR01073 pcrA ATP-dependent D 99.9 7.6E-24 1.6E-28 248.5 28.5 124 414-577 236-360 (726)
16 PRK10919 ATP-dependent DNA hel 99.9 2.7E-23 5.8E-28 240.2 26.6 65 234-302 2-70 (672)
17 TIGR01074 rep ATP-dependent DN 99.9 1.6E-21 3.5E-26 227.4 24.3 64 234-301 1-68 (664)
18 TIGR01448 recD_rel helicase, p 99.9 5.4E-21 1.2E-25 221.7 19.8 65 233-299 322-388 (720)
19 TIGR01447 recD exodeoxyribonuc 99.9 1.7E-20 3.7E-25 211.6 20.9 63 237-301 148-215 (586)
20 PRK10875 recD exonuclease V su 99.8 1.8E-20 3.8E-25 211.7 18.9 65 235-301 153-221 (615)
21 TIGR02768 TraA_Ti Ti-type conj 99.8 2.4E-19 5.3E-24 208.6 21.2 65 233-298 351-415 (744)
22 COG0210 UvrD Superfamily I DNA 99.8 2.5E-18 5.5E-23 200.4 21.6 129 415-582 241-370 (655)
23 TIGR00609 recB exodeoxyribonuc 99.8 1.8E-18 3.9E-23 209.6 18.9 144 416-582 327-490 (1087)
24 PRK13889 conjugal transfer rel 99.8 5.7E-18 1.2E-22 198.8 19.5 168 234-483 346-517 (988)
25 PRK13826 Dtr system oriT relax 99.8 1.4E-17 3.1E-22 196.2 21.6 64 234-298 381-444 (1102)
26 TIGR02785 addA_Gpos recombinat 99.8 2E-17 4.4E-22 202.7 23.2 63 235-301 2-67 (1232)
27 PRK13909 putative recombinatio 99.7 1.4E-16 3.1E-21 190.5 21.8 127 416-582 366-492 (910)
28 COG1074 RecB ATP-dependent exo 99.7 2.5E-16 5.4E-21 191.4 22.4 152 415-582 410-575 (1139)
29 PF13604 AAA_30: AAA domain; P 99.7 1.5E-16 3.3E-21 156.5 9.8 66 234-299 1-66 (196)
30 TIGR02784 addA_alphas double-s 99.7 2.1E-14 4.6E-19 176.3 28.5 49 253-301 12-63 (1141)
31 PRK10876 recB exonuclease V su 99.7 1.4E-14 3E-19 176.4 26.0 50 252-301 18-79 (1181)
32 COG3973 Superfamily I DNA and 99.6 6.5E-15 1.4E-19 158.2 19.0 179 414-644 554-745 (747)
33 PRK14712 conjugal transfer nic 99.6 1.7E-14 3.8E-19 174.7 21.8 167 234-476 835-1009(1623)
34 PRK13709 conjugal transfer nic 99.6 2.1E-14 4.5E-19 176.4 21.9 173 233-482 966-1146(1747)
35 PF13245 AAA_19: Part of AAA d 99.5 6.7E-14 1.4E-18 115.0 7.6 58 241-299 1-62 (76)
36 TIGR02760 TraI_TIGR conjugativ 99.5 8.3E-13 1.8E-17 166.9 17.4 65 233-297 1018-1086(1960)
37 PF01443 Viral_helicase1: Vira 99.4 4.9E-13 1.1E-17 135.7 7.3 49 591-642 184-233 (234)
38 COG0507 RecD ATP-dependent exo 99.1 9.4E-11 2E-15 137.7 8.5 64 233-298 318-381 (696)
39 PF05970 PIF1: PIF1-like helic 99.1 1.6E-10 3.4E-15 124.9 6.6 62 234-295 1-66 (364)
40 PF09848 DUF2075: Uncharacteri 99.0 3.1E-09 6.8E-14 114.5 15.4 49 253-301 3-53 (352)
41 PF13361 UvrD_C: UvrD-like hel 99.0 4.7E-10 1E-14 120.4 7.4 58 588-645 286-350 (351)
42 PF00580 UvrD-helicase: UvrD/R 99.0 9.7E-10 2.1E-14 116.4 7.2 63 235-301 1-67 (315)
43 TIGR02760 TraI_TIGR conjugativ 98.9 3.9E-09 8.4E-14 134.2 12.4 66 234-299 429-494 (1960)
44 COG3972 Superfamily I DNA and 98.5 1.6E-06 3.5E-11 92.3 12.6 101 540-643 453-574 (660)
45 PF02562 PhoH: PhoH-like prote 98.5 3.9E-07 8.5E-12 89.3 7.5 55 233-289 3-59 (205)
46 smart00487 DEXDc DEAD-like hel 98.3 2.9E-06 6.3E-11 82.5 9.4 69 233-302 7-77 (201)
47 PRK10536 hypothetical protein; 98.3 4.8E-06 1E-10 83.9 10.4 62 230-294 55-118 (262)
48 PF13538 UvrD_C_2: UvrD-like h 98.3 1.6E-07 3.5E-12 82.4 -0.1 50 589-642 55-104 (104)
49 TIGR02773 addB_Gpos ATP-depend 98.2 2E-05 4.4E-10 97.8 17.3 45 540-584 314-360 (1158)
50 PF04851 ResIII: Type III rest 98.1 5.9E-06 1.3E-10 79.9 6.9 65 234-301 3-72 (184)
51 PF00270 DEAD: DEAD/DEAH box h 98.0 3.4E-05 7.5E-10 73.6 9.6 65 236-302 1-67 (169)
52 cd00046 DEXDc DEAD-like helica 98.0 1.6E-05 3.5E-10 72.5 6.9 49 254-302 3-53 (144)
53 PRK11776 ATP-dependent RNA hel 97.9 0.0018 3.8E-08 72.8 22.2 68 232-301 24-94 (460)
54 PRK08181 transposase; Validate 97.8 8.5E-05 1.8E-09 76.5 9.0 64 232-300 85-150 (269)
55 PF07652 Flavi_DEAD: Flaviviru 97.7 5.9E-05 1.3E-09 69.0 6.2 53 251-303 4-57 (148)
56 PRK07952 DNA replication prote 97.7 0.00013 2.8E-09 74.1 8.1 61 235-300 77-143 (244)
57 cd00009 AAA The AAA+ (ATPases 97.7 0.00015 3.2E-09 66.7 8.0 61 236-296 3-64 (151)
58 cd01124 KaiC KaiC is a circadi 97.7 7.5E-05 1.6E-09 72.7 6.1 51 254-305 2-52 (187)
59 PRK05580 primosome assembly pr 97.6 0.00015 3.3E-09 84.8 9.4 75 233-307 143-219 (679)
60 cd00268 DEADc DEAD-box helicas 97.6 0.00034 7.4E-09 69.1 9.5 68 233-302 20-92 (203)
61 PHA02558 uvsW UvsW helicase; P 97.5 0.00027 5.9E-09 80.0 9.0 68 234-303 114-182 (501)
62 PRK06851 hypothetical protein; 97.5 0.0012 2.6E-08 70.7 12.7 48 251-298 30-79 (367)
63 PRK12377 putative replication 97.5 0.00025 5.5E-09 72.1 6.9 52 236-287 80-137 (248)
64 KOG0989 Replication factor C, 97.4 0.00013 2.9E-09 74.2 4.7 34 244-277 49-83 (346)
65 PRK06526 transposase; Provisio 97.4 0.00031 6.8E-09 71.9 7.2 62 233-300 79-142 (254)
66 PF06745 KaiC: KaiC; InterPro 97.4 0.00026 5.6E-09 71.4 6.5 54 251-305 19-73 (226)
67 PTZ00424 helicase 45; Provisio 97.4 0.00055 1.2E-08 75.3 9.4 69 232-302 48-119 (401)
68 PF01695 IstB_IS21: IstB-like 97.4 0.00029 6.2E-09 68.2 6.1 45 252-301 48-92 (178)
69 smart00382 AAA ATPases associa 97.3 0.00015 3.3E-09 66.0 3.5 43 252-294 3-45 (148)
70 TIGR00643 recG ATP-dependent D 97.3 0.00048 1E-08 80.2 8.5 69 234-302 235-307 (630)
71 PRK10917 ATP-dependent DNA hel 97.3 0.0006 1.3E-08 80.0 9.0 69 234-302 261-333 (681)
72 PRK05973 replicative DNA helic 97.3 0.00048 1E-08 69.4 6.9 59 245-305 59-117 (237)
73 cd01129 PulE-GspE PulE/GspE Th 97.3 0.00047 1E-08 71.2 6.7 55 234-288 63-117 (264)
74 PRK08084 DNA replication initi 97.3 0.00077 1.7E-08 68.4 8.0 58 232-289 25-83 (235)
75 COG1484 DnaC DNA replication p 97.3 0.00058 1.3E-08 70.0 7.1 62 235-301 84-150 (254)
76 PRK14974 cell division protein 97.3 0.00075 1.6E-08 71.7 7.9 57 252-308 141-200 (336)
77 PRK02362 ski2-like helicase; P 97.3 0.001 2.3E-08 78.9 10.1 77 232-309 21-100 (737)
78 TIGR00064 ftsY signal recognit 97.3 0.00092 2E-08 69.2 8.4 59 252-310 73-134 (272)
79 PF00448 SRP54: SRP54-type pro 97.2 0.00074 1.6E-08 66.4 7.3 57 253-309 3-62 (196)
80 TIGR03877 thermo_KaiC_1 KaiC d 97.2 0.0005 1.1E-08 69.9 6.4 54 251-305 21-74 (237)
81 PRK06851 hypothetical protein; 97.2 0.0024 5.2E-08 68.4 11.4 46 251-296 214-261 (367)
82 PRK08116 hypothetical protein; 97.2 0.0013 2.8E-08 68.1 9.0 34 253-286 116-149 (268)
83 PRK09183 transposase/IS protei 97.2 0.00073 1.6E-08 69.6 6.8 55 231-286 81-137 (259)
84 PRK06893 DNA replication initi 97.2 0.001 2.2E-08 67.3 7.5 38 251-288 39-76 (229)
85 PRK08533 flagellar accessory p 97.2 0.00083 1.8E-08 67.9 6.9 53 251-304 24-76 (230)
86 KOG0744 AAA+-type ATPase [Post 97.2 0.00027 6E-09 72.2 3.2 26 251-276 177-202 (423)
87 PRK08903 DnaA regulatory inact 97.1 0.0013 2.9E-08 66.3 7.8 56 233-288 22-79 (227)
88 TIGR03880 KaiC_arch_3 KaiC dom 97.1 0.001 2.2E-08 67.0 6.9 55 251-306 16-70 (224)
89 TIGR03878 thermo_KaiC_2 KaiC d 97.1 0.001 2.2E-08 68.6 6.8 48 251-299 36-83 (259)
90 PRK11192 ATP-dependent RNA hel 97.1 0.002 4.4E-08 71.7 9.7 68 232-301 21-95 (434)
91 KOG1804 RNA helicase [RNA proc 97.1 0.00023 5.1E-09 81.9 2.1 229 414-667 292-543 (775)
92 PRK06067 flagellar accessory p 97.1 0.0013 2.7E-08 66.8 7.1 54 251-305 25-78 (234)
93 TIGR00580 mfd transcription-re 97.1 0.0017 3.7E-08 77.9 9.2 68 234-301 451-522 (926)
94 PRK04328 hypothetical protein; 97.0 0.0011 2.4E-08 67.9 6.5 54 251-305 23-76 (249)
95 PRK06835 DNA replication prote 97.0 0.0024 5.1E-08 67.9 9.1 36 252-287 184-219 (329)
96 TIGR01970 DEAH_box_HrpB ATP-de 97.0 0.0016 3.4E-08 77.4 8.4 62 239-301 6-67 (819)
97 PRK10416 signal recognition pa 97.0 0.0018 4E-08 68.5 8.0 57 252-308 115-174 (318)
98 PF13401 AAA_22: AAA domain; P 97.0 0.00062 1.3E-08 62.0 3.9 51 251-301 4-60 (131)
99 PRK00254 ski2-like helicase; P 97.0 0.0021 4.6E-08 76.2 9.3 69 232-301 21-90 (720)
100 cd01120 RecA-like_NTPases RecA 97.0 0.0011 2.3E-08 62.5 5.5 40 254-293 2-41 (165)
101 TIGR02533 type_II_gspE general 97.0 0.001 2.2E-08 74.6 6.0 52 234-285 225-276 (486)
102 PRK01172 ski2-like helicase; P 97.0 0.002 4.4E-08 75.8 8.9 66 234-301 22-87 (674)
103 COG1061 SSL2 DNA or RNA helica 97.0 0.0017 3.7E-08 72.2 7.8 65 234-302 36-103 (442)
104 PF00004 AAA: ATPase family as 97.0 0.00051 1.1E-08 62.4 3.0 32 254-288 1-32 (132)
105 COG1875 NYN ribonuclease and A 97.0 0.0039 8.4E-08 65.2 9.6 57 232-288 226-285 (436)
106 PF13191 AAA_16: AAA ATPase do 97.0 0.0016 3.4E-08 63.0 6.6 46 238-283 7-56 (185)
107 PRK10436 hypothetical protein; 97.0 0.0012 2.7E-08 73.2 6.4 51 234-284 201-251 (462)
108 COG1198 PriA Primosomal protei 97.0 0.002 4.3E-08 74.5 8.3 69 233-301 197-267 (730)
109 PRK04296 thymidine kinase; Pro 97.0 0.0011 2.3E-08 65.0 5.2 36 252-287 3-38 (190)
110 cd03115 SRP The signal recogni 96.9 0.0012 2.7E-08 63.4 5.3 34 253-286 2-35 (173)
111 PRK11664 ATP-dependent RNA hel 96.9 0.0018 3.8E-08 77.0 7.6 62 239-301 9-70 (812)
112 PRK11634 ATP-dependent RNA hel 96.9 0.0037 8E-08 72.5 9.5 68 232-301 26-96 (629)
113 TIGR03881 KaiC_arch_4 KaiC dom 96.9 0.0019 4.2E-08 65.1 6.4 54 251-305 20-73 (229)
114 PRK10590 ATP-dependent RNA hel 96.9 0.0041 9E-08 69.6 9.6 70 231-302 20-98 (456)
115 COG2804 PulE Type II secretory 96.9 0.0019 4.1E-08 70.7 6.5 48 234-281 241-288 (500)
116 TIGR03420 DnaA_homol_Hda DnaA 96.8 0.003 6.6E-08 63.5 7.7 57 235-291 21-78 (226)
117 PRK10867 signal recognition pa 96.8 0.0029 6.3E-08 69.5 8.0 58 252-309 101-162 (433)
118 PRK09401 reverse gyrase; Revie 96.8 0.003 6.5E-08 77.8 9.0 67 234-302 80-146 (1176)
119 PRK04837 ATP-dependent RNA hel 96.8 0.0041 9E-08 69.0 9.4 69 231-301 27-105 (423)
120 PTZ00110 helicase; Provisional 96.8 0.0045 9.7E-08 70.8 9.8 72 229-302 147-226 (545)
121 PRK10689 transcription-repair 96.8 0.0034 7.4E-08 77.1 9.2 67 234-301 600-671 (1147)
122 TIGR01054 rgy reverse gyrase. 96.8 0.0036 7.8E-08 77.2 9.3 67 234-302 78-144 (1171)
123 TIGR01425 SRP54_euk signal rec 96.8 0.0035 7.7E-08 68.5 8.3 56 252-307 101-159 (429)
124 PRK13833 conjugal transfer pro 96.8 0.0026 5.6E-08 67.2 6.9 51 235-286 129-181 (323)
125 PRK00771 signal recognition pa 96.8 0.0034 7.3E-08 69.1 8.0 55 252-306 96-153 (437)
126 PRK06921 hypothetical protein; 96.8 0.0039 8.5E-08 64.4 8.0 36 252-287 118-154 (266)
127 COG0552 FtsY Signal recognitio 96.8 0.003 6.5E-08 65.7 6.9 58 252-309 140-200 (340)
128 TIGR02655 circ_KaiC circadian 96.8 0.0022 4.7E-08 72.3 6.5 54 251-305 263-316 (484)
129 PRK11889 flhF flagellar biosyn 96.7 0.0029 6.3E-08 67.8 6.8 56 252-307 242-300 (436)
130 TIGR02237 recomb_radB DNA repa 96.7 0.0029 6.2E-08 62.9 6.5 47 251-297 12-58 (209)
131 TIGR02655 circ_KaiC circadian 96.7 0.0023 5.1E-08 72.0 6.2 54 251-305 21-75 (484)
132 COG0467 RAD55 RecA-superfamily 96.7 0.0022 4.7E-08 66.2 5.5 52 251-303 23-74 (260)
133 TIGR02538 type_IV_pilB type IV 96.7 0.0026 5.6E-08 72.9 6.4 50 234-283 299-348 (564)
134 PRK04537 ATP-dependent RNA hel 96.7 0.006 1.3E-07 70.1 9.4 69 232-302 29-107 (572)
135 TIGR00959 ffh signal recogniti 96.7 0.0053 1.1E-07 67.4 8.4 59 252-310 100-162 (428)
136 PF13481 AAA_25: AAA domain; P 96.7 0.0036 7.8E-08 61.2 6.4 50 251-301 32-91 (193)
137 KOG0991 Replication factor C, 96.6 0.0028 6.1E-08 62.1 5.3 51 250-300 47-100 (333)
138 cd01394 radB RadB. The archaea 96.6 0.0025 5.3E-08 63.9 5.2 37 251-287 19-55 (218)
139 cd01122 GP4d_helicase GP4d_hel 96.6 0.0036 7.7E-08 65.0 6.6 50 251-301 30-80 (271)
140 PRK14722 flhF flagellar biosyn 96.6 0.0057 1.2E-07 65.8 8.2 56 251-306 137-197 (374)
141 PHA00729 NTP-binding motif con 96.6 0.006 1.3E-07 60.8 7.8 24 253-276 19-42 (226)
142 PRK08727 hypothetical protein; 96.6 0.0038 8.3E-08 63.3 6.6 36 252-287 42-77 (233)
143 TIGR02782 TrbB_P P-type conjug 96.6 0.0042 9.1E-08 65.3 7.1 54 234-288 116-171 (299)
144 COG2805 PilT Tfp pilus assembl 96.6 0.0033 7.2E-08 64.1 5.9 35 246-280 120-154 (353)
145 TIGR00603 rad25 DNA repair hel 96.6 0.0053 1.1E-07 71.3 8.4 66 234-302 255-321 (732)
146 PRK13894 conjugal transfer ATP 96.6 0.0037 8E-08 66.2 6.5 54 235-289 133-188 (319)
147 PF02492 cobW: CobW/HypB/UreG, 96.6 0.0041 9E-08 60.2 6.4 58 252-312 1-60 (178)
148 PRK11448 hsdR type I restricti 96.6 0.0056 1.2E-07 75.0 8.8 70 234-303 413-487 (1123)
149 PRK05642 DNA replication initi 96.6 0.0058 1.3E-07 62.0 7.6 36 252-287 46-81 (234)
150 TIGR03499 FlhF flagellar biosy 96.6 0.0055 1.2E-07 63.9 7.6 37 252-288 195-233 (282)
151 cd00984 DnaB_C DnaB helicase C 96.6 0.0043 9.3E-08 63.1 6.6 49 251-300 13-62 (242)
152 PLN03025 replication factor C 96.5 0.0035 7.6E-08 66.7 5.8 44 236-279 18-62 (319)
153 PLN00206 DEAD-box ATP-dependen 96.5 0.01 2.2E-07 67.5 9.8 70 230-301 139-218 (518)
154 PRK08939 primosomal protein Dn 96.5 0.0029 6.2E-08 66.7 4.9 35 253-287 158-192 (306)
155 PRK09361 radB DNA repair and r 96.5 0.0034 7.5E-08 63.2 5.4 38 251-288 23-60 (225)
156 PRK12402 replication factor C 96.5 0.0044 9.6E-08 66.4 6.4 43 236-278 20-63 (337)
157 PF13207 AAA_17: AAA domain; P 96.5 0.0022 4.8E-08 57.5 3.4 23 253-275 1-23 (121)
158 TIGR02012 tigrfam_recA protein 96.5 0.0052 1.1E-07 64.8 6.6 43 251-293 55-97 (321)
159 COG4096 HsdR Type I site-speci 96.5 0.0052 1.1E-07 70.4 6.9 69 234-302 165-238 (875)
160 PRK12726 flagellar biosynthesi 96.5 0.0078 1.7E-07 64.3 7.7 56 251-306 206-264 (407)
161 TIGR03015 pepcterm_ATPase puta 96.4 0.006 1.3E-07 63.1 6.7 42 235-276 24-68 (269)
162 TIGR03158 cas3_cyano CRISPR-as 96.4 0.0094 2E-07 64.5 8.4 61 239-302 2-62 (357)
163 cd01130 VirB11-like_ATPase Typ 96.4 0.0053 1.2E-07 59.9 5.9 50 234-285 9-58 (186)
164 smart00488 DEXDc2 DEAD-like he 96.4 0.011 2.4E-07 61.9 8.5 65 236-301 10-83 (289)
165 smart00489 DEXDc3 DEAD-like he 96.4 0.011 2.4E-07 61.9 8.5 65 236-301 10-83 (289)
166 TIGR00614 recQ_fam ATP-depende 96.4 0.012 2.7E-07 66.1 9.5 74 233-311 10-83 (470)
167 TIGR02881 spore_V_K stage V sp 96.4 0.0029 6.3E-08 65.3 4.0 28 252-279 43-70 (261)
168 PF00308 Bac_DnaA: Bacterial d 96.4 0.011 2.3E-07 59.4 7.9 52 235-286 15-71 (219)
169 PRK00411 cdc6 cell division co 96.4 0.0096 2.1E-07 65.3 8.3 28 252-279 56-83 (394)
170 PRK01297 ATP-dependent RNA hel 96.4 0.013 2.9E-07 66.0 9.5 70 231-302 106-185 (475)
171 PRK05703 flhF flagellar biosyn 96.4 0.0078 1.7E-07 66.4 7.4 46 252-297 222-272 (424)
172 PRK09302 circadian clock prote 96.4 0.006 1.3E-07 69.3 6.7 54 251-305 273-326 (509)
173 PF07728 AAA_5: AAA domain (dy 96.3 0.0045 9.8E-08 57.1 4.6 40 254-296 2-42 (139)
174 PF13173 AAA_14: AAA domain 96.3 0.0071 1.5E-07 55.1 5.8 43 251-294 2-44 (128)
175 cd01131 PilT Pilus retraction 96.3 0.0052 1.1E-07 60.6 5.1 36 252-287 2-38 (198)
176 TIGR02928 orc1/cdc6 family rep 96.3 0.005 1.1E-07 66.8 5.5 42 236-277 20-66 (365)
177 TIGR00595 priA primosomal prot 96.3 0.0052 1.1E-07 69.4 5.8 48 255-302 1-48 (505)
178 TIGR00348 hsdR type I site-spe 96.3 0.0099 2.2E-07 69.6 8.2 69 235-303 239-317 (667)
179 PF05496 RuvB_N: Holliday junc 96.3 0.0061 1.3E-07 60.3 5.3 24 252-276 51-74 (233)
180 cd01983 Fer4_NifH The Fer4_Nif 96.3 0.0067 1.5E-07 51.5 5.1 33 254-286 2-34 (99)
181 TIGR00604 rad3 DNA repair heli 96.3 0.0097 2.1E-07 70.3 8.0 66 235-301 11-82 (705)
182 PF03205 MobB: Molybdopterin g 96.3 0.0056 1.2E-07 56.8 4.7 38 252-289 1-38 (140)
183 PRK11823 DNA repair protein Ra 96.3 0.0081 1.8E-07 66.8 6.8 53 251-304 80-132 (446)
184 cd00983 recA RecA is a bacter 96.3 0.0083 1.8E-07 63.3 6.5 42 251-292 55-96 (325)
185 TIGR01650 PD_CobS cobaltochela 96.3 0.006 1.3E-07 64.1 5.4 41 235-276 49-89 (327)
186 KOG0743 AAA+-type ATPase [Post 96.2 0.0024 5.1E-08 68.7 2.3 22 254-275 238-259 (457)
187 KOG2028 ATPase related to the 96.2 0.006 1.3E-07 63.5 5.1 47 251-297 162-208 (554)
188 PF05729 NACHT: NACHT domain 96.2 0.0048 1E-07 58.3 4.2 27 253-279 2-28 (166)
189 cd01121 Sms Sms (bacterial rad 96.2 0.0096 2.1E-07 64.4 6.9 53 251-304 82-134 (372)
190 PRK14701 reverse gyrase; Provi 96.2 0.013 2.7E-07 74.3 8.8 67 234-302 79-145 (1638)
191 PF05673 DUF815: Protein of un 96.2 0.02 4.4E-07 57.4 8.4 56 252-307 53-109 (249)
192 TIGR02880 cbbX_cfxQ probable R 96.1 0.0044 9.6E-08 64.7 3.9 27 253-279 60-86 (284)
193 COG4088 Predicted nucleotide k 96.1 0.0049 1.1E-07 59.4 3.7 34 252-285 2-35 (261)
194 PRK13767 ATP-dependent helicas 96.1 0.016 3.4E-07 70.0 9.0 66 233-300 31-105 (876)
195 PF13671 AAA_33: AAA domain; P 96.1 0.0036 7.8E-08 57.9 2.7 39 253-301 1-39 (143)
196 COG1702 PhoH Phosphate starvat 96.1 0.0074 1.6E-07 62.9 5.1 54 232-287 126-181 (348)
197 PRK12723 flagellar biosynthesi 96.1 0.014 3E-07 63.4 7.4 54 252-306 175-236 (388)
198 PRK13768 GTPase; Provisional 96.1 0.0072 1.6E-07 62.0 5.0 34 253-286 4-37 (253)
199 PRK09302 circadian clock prote 96.1 0.0096 2.1E-07 67.7 6.4 54 251-305 31-85 (509)
200 PRK12724 flagellar biosynthesi 96.1 0.0078 1.7E-07 65.3 5.3 36 252-287 224-260 (432)
201 cd02019 NK Nucleoside/nucleoti 96.1 0.0091 2E-07 48.0 4.5 30 254-285 2-31 (69)
202 PRK00149 dnaA chromosomal repl 96.1 0.021 4.5E-07 63.9 8.9 37 252-288 149-187 (450)
203 TIGR02640 gas_vesic_GvpN gas v 96.0 0.015 3.2E-07 60.1 7.1 33 253-288 23-56 (262)
204 TIGR01587 cas3_core CRISPR-ass 96.0 0.011 2.3E-07 64.0 6.3 49 254-302 2-52 (358)
205 PHA02653 RNA helicase NPH-II; 96.0 0.019 4E-07 66.8 8.5 62 238-301 168-244 (675)
206 TIGR00176 mobB molybdopterin-g 96.0 0.0075 1.6E-07 57.0 4.3 36 254-289 2-37 (155)
207 PF03308 ArgK: ArgK protein; 96.0 0.015 3.2E-07 58.7 6.5 35 252-286 30-64 (266)
208 PRK09354 recA recombinase A; P 96.0 0.013 2.8E-07 62.4 6.4 43 251-293 60-102 (349)
209 TIGR00416 sms DNA repair prote 96.0 0.013 2.9E-07 65.2 6.8 52 251-303 94-145 (454)
210 PF06309 Torsin: Torsin; Inte 96.0 0.013 2.9E-07 52.5 5.5 26 254-279 56-81 (127)
211 CHL00181 cbbX CbbX; Provisiona 96.0 0.0069 1.5E-07 63.3 4.3 27 253-279 61-87 (287)
212 COG2256 MGS1 ATPase related to 95.9 0.011 2.4E-07 62.8 5.5 41 252-295 49-89 (436)
213 TIGR00750 lao LAO/AO transport 95.9 0.01 2.2E-07 62.6 5.4 36 251-286 34-69 (300)
214 PF03266 NTPase_1: NTPase; In 95.9 0.0074 1.6E-07 57.8 4.0 27 254-280 2-28 (168)
215 TIGR01420 pilT_fam pilus retra 95.9 0.011 2.3E-07 63.7 5.6 38 250-287 121-159 (343)
216 PF01078 Mg_chelatase: Magnesi 95.9 0.0096 2.1E-07 58.4 4.7 36 237-273 9-44 (206)
217 cd00544 CobU Adenosylcobinamid 95.9 0.01 2.2E-07 56.9 4.7 47 253-302 1-47 (169)
218 TIGR00635 ruvB Holliday juncti 95.9 0.011 2.4E-07 62.4 5.5 24 252-275 31-54 (305)
219 PHA02544 44 clamp loader, smal 95.9 0.021 4.7E-07 60.5 7.7 52 235-289 25-78 (316)
220 PRK14712 conjugal transfer nic 95.8 0.022 4.8E-07 71.2 8.4 66 233-298 280-346 (1623)
221 PF00437 T2SE: Type II/IV secr 95.8 0.01 2.2E-07 61.5 4.8 53 235-288 112-164 (270)
222 TIGR02524 dot_icm_DotB Dot/Icm 95.8 0.013 2.8E-07 63.1 5.6 28 250-277 133-160 (358)
223 PRK14494 putative molybdopteri 95.8 0.02 4.3E-07 57.4 6.6 60 253-312 3-65 (229)
224 PRK11057 ATP-dependent DNA hel 95.8 0.033 7.2E-07 64.7 9.4 70 233-307 24-93 (607)
225 PRK13766 Hef nuclease; Provisi 95.8 0.035 7.7E-07 66.6 9.8 66 234-302 15-81 (773)
226 PRK12422 chromosomal replicati 95.8 0.021 4.6E-07 63.4 7.3 35 253-287 143-177 (445)
227 PF12846 AAA_10: AAA-like doma 95.8 0.028 6.2E-07 58.7 8.0 55 252-310 2-56 (304)
228 PRK09435 membrane ATPase/prote 95.7 0.013 2.9E-07 62.1 5.3 36 252-287 57-92 (332)
229 cd01393 recA_like RecA is a b 95.7 0.015 3.2E-07 58.5 5.4 39 251-289 19-63 (226)
230 COG1703 ArgK Putative periplas 95.7 0.011 2.3E-07 60.6 4.3 36 251-286 51-86 (323)
231 PF13238 AAA_18: AAA domain; P 95.7 0.0084 1.8E-07 54.1 3.2 22 254-275 1-22 (129)
232 COG1204 Superfamily II helicas 95.7 0.024 5.2E-07 66.8 7.8 72 234-306 31-106 (766)
233 TIGR02525 plasmid_TraJ plasmid 95.7 0.019 4.1E-07 62.0 6.4 47 235-285 137-185 (372)
234 PRK00080 ruvB Holliday junctio 95.7 0.015 3.2E-07 62.2 5.5 24 252-275 52-75 (328)
235 cd03114 ArgK-like The function 95.7 0.015 3.3E-07 54.4 4.9 34 254-287 2-35 (148)
236 PRK10751 molybdopterin-guanine 95.7 0.015 3.2E-07 55.8 4.9 39 251-289 6-44 (173)
237 PRK11331 5-methylcytosine-spec 95.7 0.024 5.1E-07 62.1 7.0 65 235-300 179-246 (459)
238 TIGR01389 recQ ATP-dependent D 95.7 0.047 1E-06 63.3 10.0 73 233-310 12-84 (591)
239 PRK00889 adenylylsulfate kinas 95.7 0.018 3.9E-07 55.4 5.6 35 251-285 4-38 (175)
240 COG1618 Predicted nucleotide k 95.6 0.013 2.9E-07 54.4 4.2 29 254-282 8-36 (179)
241 PRK14088 dnaA chromosomal repl 95.6 0.03 6.5E-07 62.3 7.7 35 253-287 132-168 (440)
242 PRK03992 proteasome-activating 95.6 0.016 3.5E-07 63.4 5.4 23 253-275 167-189 (389)
243 TIGR00362 DnaA chromosomal rep 95.6 0.029 6.3E-07 61.8 7.5 35 253-287 138-174 (405)
244 PRK04195 replication factor C 95.6 0.024 5.3E-07 63.9 6.9 51 235-288 18-73 (482)
245 cd03116 MobB Molybdenum is an 95.6 0.028 6.1E-07 53.3 6.2 60 253-312 3-67 (159)
246 PF04665 Pox_A32: Poxvirus A32 95.5 0.016 3.4E-07 58.5 4.6 34 254-287 16-49 (241)
247 KOG1533 Predicted GTPase [Gene 95.5 0.012 2.6E-07 57.8 3.5 32 254-285 5-36 (290)
248 TIGR03817 DECH_helic helicase/ 95.5 0.054 1.2E-06 64.2 9.7 71 231-303 33-105 (742)
249 TIGR01967 DEAH_box_HrpA ATP-de 95.5 0.026 5.7E-07 69.4 7.1 62 239-301 71-133 (1283)
250 smart00763 AAA_PrkA PrkA AAA d 95.4 0.016 3.5E-07 61.7 4.5 27 251-277 78-104 (361)
251 TIGR00150 HI0065_YjeE ATPase, 95.4 0.027 5.8E-07 51.5 5.4 36 250-288 21-56 (133)
252 PRK05541 adenylylsulfate kinas 95.4 0.025 5.4E-07 54.5 5.6 35 251-285 7-41 (176)
253 KOG0738 AAA+-type ATPase [Post 95.4 0.0054 1.2E-07 64.5 1.0 40 254-301 248-287 (491)
254 PRK14493 putative bifunctional 95.4 0.02 4.3E-07 59.3 5.1 36 253-289 3-38 (274)
255 PRK14489 putative bifunctional 95.4 0.041 8.8E-07 59.7 7.8 63 252-314 206-273 (366)
256 TIGR01360 aden_kin_iso1 adenyl 95.4 0.015 3.3E-07 56.5 4.0 25 251-275 3-27 (188)
257 PRK13342 recombination factor 95.4 0.025 5.5E-07 62.5 6.1 41 252-295 37-77 (413)
258 TIGR01242 26Sp45 26S proteasom 95.4 0.016 3.5E-07 62.8 4.6 23 253-275 158-180 (364)
259 PRK13764 ATPase; Provisional 95.4 0.026 5.7E-07 64.3 6.3 34 251-284 257-290 (602)
260 cd01125 repA Hexameric Replica 95.3 0.03 6.4E-07 57.0 6.0 50 252-302 2-63 (239)
261 COG1419 FlhF Flagellar GTP-bin 95.3 0.035 7.6E-07 59.6 6.6 52 235-286 182-240 (407)
262 COG1222 RPT1 ATP-dependent 26S 95.3 0.011 2.3E-07 61.9 2.7 21 254-274 188-208 (406)
263 TIGR01359 UMP_CMP_kin_fam UMP- 95.3 0.012 2.7E-07 56.9 3.1 23 253-275 1-23 (183)
264 COG1102 Cmk Cytidylate kinase 95.3 0.014 3.1E-07 54.3 3.2 22 254-275 3-24 (179)
265 PRK09694 helicase Cas3; Provis 95.3 0.048 1E-06 65.2 8.5 66 234-301 286-353 (878)
266 PTZ00361 26 proteosome regulat 95.3 0.023 5.1E-07 62.6 5.5 23 253-275 219-241 (438)
267 PF03029 ATP_bind_1: Conserved 95.3 0.012 2.7E-07 59.6 3.1 30 256-285 1-30 (238)
268 PRK00440 rfc replication facto 95.3 0.025 5.5E-07 59.9 5.7 44 236-279 22-66 (319)
269 PF00910 RNA_helicase: RNA hel 95.3 0.017 3.7E-07 50.8 3.5 23 255-277 2-24 (107)
270 PHA02244 ATPase-like protein 95.3 0.027 5.8E-07 60.1 5.5 33 241-274 110-142 (383)
271 PRK06696 uridine kinase; Valid 95.2 0.037 8E-07 55.6 6.3 36 251-286 22-57 (223)
272 TIGR03574 selen_PSTK L-seryl-t 95.2 0.022 4.8E-07 58.3 4.8 33 253-285 1-33 (249)
273 cd00561 CobA_CobO_BtuR ATP:cor 95.2 0.066 1.4E-06 50.5 7.5 61 252-314 3-67 (159)
274 PF13555 AAA_29: P-loop contai 95.2 0.022 4.8E-07 44.5 3.6 26 252-277 24-49 (62)
275 PTZ00112 origin recognition co 95.2 0.024 5.1E-07 66.1 5.3 42 236-277 760-807 (1164)
276 PRK06762 hypothetical protein; 95.2 0.034 7.3E-07 53.0 5.7 40 252-299 3-42 (166)
277 PRK05800 cobU adenosylcobinami 95.2 0.024 5.3E-07 54.4 4.6 47 253-302 3-49 (170)
278 PRK14962 DNA polymerase III su 95.2 0.025 5.5E-07 63.2 5.4 37 240-276 23-61 (472)
279 cd02028 UMPK_like Uridine mono 95.2 0.026 5.6E-07 54.7 4.8 34 253-286 1-34 (179)
280 PRK07667 uridine kinase; Provi 95.2 0.028 6.1E-07 55.1 5.2 38 252-289 18-55 (193)
281 PF08433 KTI12: Chromatin asso 95.2 0.026 5.5E-07 58.4 5.0 35 252-286 2-36 (270)
282 COG0378 HypB Ni2+-binding GTPa 95.2 0.021 4.4E-07 55.0 3.9 52 253-309 15-70 (202)
283 PTZ00454 26S protease regulato 95.2 0.026 5.6E-07 61.8 5.2 22 253-274 181-202 (398)
284 cd02034 CooC The accessory pro 95.2 0.033 7.1E-07 49.8 5.0 45 254-301 2-46 (116)
285 TIGR00041 DTMP_kinase thymidyl 95.1 0.031 6.8E-07 54.7 5.4 35 252-286 4-38 (195)
286 PRK08074 bifunctional ATP-depe 95.1 0.052 1.1E-06 66.1 8.2 64 234-298 257-324 (928)
287 PRK04301 radA DNA repair and r 95.1 0.036 7.8E-07 58.9 6.1 52 251-302 102-160 (317)
288 TIGR03600 phage_DnaB phage rep 95.1 0.037 8E-07 61.4 6.4 54 246-301 190-244 (421)
289 cd02027 APSK Adenosine 5'-phos 95.1 0.03 6.6E-07 52.4 4.8 33 253-285 1-33 (149)
290 PF05127 Helicase_RecD: Helica 95.1 0.0057 1.2E-07 58.7 -0.2 46 255-300 1-47 (177)
291 PRK08118 topology modulation p 95.1 0.018 4E-07 55.1 3.3 22 254-275 4-25 (167)
292 COG1643 HrpA HrpA-like helicas 95.1 0.055 1.2E-06 63.9 7.8 62 239-301 54-116 (845)
293 PRK12727 flagellar biosynthesi 95.0 0.051 1.1E-06 60.7 7.1 36 251-286 350-387 (559)
294 COG1110 Reverse gyrase [DNA re 95.0 0.071 1.5E-06 62.7 8.3 67 234-302 82-148 (1187)
295 TIGR01407 dinG_rel DnaQ family 95.0 0.062 1.3E-06 65.0 8.4 63 234-298 245-311 (850)
296 KOG0733 Nuclear AAA ATPase (VC 95.0 0.014 3E-07 64.8 2.5 22 254-275 226-247 (802)
297 PRK12608 transcription termina 95.0 0.04 8.7E-07 59.0 5.8 49 253-301 135-187 (380)
298 PRK06620 hypothetical protein; 95.0 0.018 4E-07 57.4 3.1 19 252-270 45-63 (214)
299 COG3854 SpoIIIAA ncharacterize 95.0 0.033 7.1E-07 54.9 4.6 36 254-289 140-180 (308)
300 cd03112 CobW_like The function 95.0 0.043 9.3E-07 52.0 5.5 56 252-311 1-58 (158)
301 PF00485 PRK: Phosphoribulokin 94.9 0.038 8.1E-07 54.3 5.2 29 253-281 1-29 (194)
302 PRK13900 type IV secretion sys 94.9 0.039 8.5E-07 58.8 5.7 45 239-285 149-193 (332)
303 COG1936 Predicted nucleotide k 94.9 0.02 4.3E-07 54.1 2.9 19 253-271 2-20 (180)
304 TIGR03689 pup_AAA proteasome A 94.9 0.017 3.8E-07 64.7 3.0 25 253-277 218-242 (512)
305 PRK08233 hypothetical protein; 94.9 0.019 4.2E-07 55.3 3.0 24 252-275 4-27 (182)
306 PF05707 Zot: Zonular occluden 94.9 0.023 5E-07 55.8 3.5 32 253-284 2-34 (193)
307 cd02021 GntK Gluconate kinase 94.9 0.019 4.1E-07 53.7 2.8 22 253-274 1-22 (150)
308 cd01123 Rad51_DMC1_radA Rad51_ 94.8 0.028 6E-07 56.8 4.2 39 251-289 19-63 (235)
309 PRK14527 adenylate kinase; Pro 94.8 0.027 5.8E-07 55.2 3.9 25 251-275 6-30 (191)
310 PF03215 Rad17: Rad17 cell cyc 94.8 0.033 7.2E-07 62.8 5.1 24 252-275 46-69 (519)
311 cd02025 PanK Pantothenate kina 94.8 0.034 7.4E-07 55.8 4.6 34 254-287 2-37 (220)
312 PF07726 AAA_3: ATPase family 94.8 0.013 2.8E-07 52.8 1.4 22 254-275 2-23 (131)
313 PRK14964 DNA polymerase III su 94.8 0.074 1.6E-06 59.5 7.6 61 240-300 22-106 (491)
314 PRK00131 aroK shikimate kinase 94.8 0.03 6.4E-07 53.5 4.0 24 252-275 5-28 (175)
315 PRK10463 hydrogenase nickel in 94.8 0.11 2.3E-06 53.9 8.3 74 236-311 88-162 (290)
316 PRK05986 cob(I)alamin adenolsy 94.8 0.083 1.8E-06 51.3 7.0 60 251-312 22-85 (191)
317 cd01672 TMPK Thymidine monopho 94.8 0.045 9.7E-07 53.4 5.4 34 253-286 2-35 (200)
318 TIGR02236 recomb_radA DNA repa 94.7 0.052 1.1E-06 57.5 6.0 51 251-301 95-152 (310)
319 PRK06645 DNA polymerase III su 94.7 0.043 9.2E-07 61.8 5.5 25 252-276 44-68 (507)
320 PRK08506 replicative DNA helic 94.7 0.057 1.2E-06 60.6 6.5 54 246-301 188-241 (472)
321 COG1223 Predicted ATPase (AAA+ 94.7 0.021 4.5E-07 57.1 2.6 21 253-273 153-173 (368)
322 TIGR00708 cobA cob(I)alamin ad 94.7 0.057 1.2E-06 51.6 5.5 59 251-312 5-67 (173)
323 PRK13341 recombination factor 94.7 0.063 1.4E-06 63.1 7.0 24 252-275 53-76 (725)
324 PRK06995 flhF flagellar biosyn 94.7 0.043 9.4E-07 61.0 5.3 36 251-286 256-293 (484)
325 PRK06547 hypothetical protein; 94.6 0.046 1E-06 52.5 4.9 24 251-274 15-38 (172)
326 PRK11747 dinG ATP-dependent DN 94.6 0.099 2.1E-06 61.6 8.6 63 236-298 27-97 (697)
327 cd02117 NifH_like This family 94.6 0.05 1.1E-06 54.2 5.3 31 255-285 4-34 (212)
328 COG2255 RuvB Holliday junction 94.6 0.052 1.1E-06 55.2 5.3 24 252-276 53-76 (332)
329 COG1763 MobB Molybdopterin-gua 94.6 0.033 7.2E-07 52.6 3.7 40 252-291 3-42 (161)
330 TIGR00665 DnaB replicative DNA 94.6 0.061 1.3E-06 59.9 6.5 55 246-302 191-246 (434)
331 COG0714 MoxR-like ATPases [Gen 94.6 0.048 1E-06 58.3 5.5 59 236-296 29-87 (329)
332 PLN00020 ribulose bisphosphate 94.6 0.026 5.7E-07 59.9 3.3 32 252-286 149-180 (413)
333 PF01583 APS_kinase: Adenylyls 94.6 0.06 1.3E-06 50.6 5.3 34 253-286 4-37 (156)
334 PRK14531 adenylate kinase; Pro 94.6 0.029 6.4E-07 54.5 3.4 22 253-274 4-25 (183)
335 PRK05480 uridine/cytidine kina 94.6 0.043 9.4E-07 54.5 4.7 34 251-286 6-39 (209)
336 PF13521 AAA_28: AAA domain; P 94.6 0.023 4.9E-07 54.1 2.5 21 254-274 2-22 (163)
337 COG1474 CDC6 Cdc6-related prot 94.5 0.097 2.1E-06 56.6 7.6 48 254-301 45-95 (366)
338 KOG0952 DNA/RNA helicase MER3/ 94.5 0.089 1.9E-06 61.9 7.6 68 233-301 109-186 (1230)
339 PRK03839 putative kinase; Prov 94.5 0.032 7E-07 54.0 3.6 22 254-275 3-24 (180)
340 PRK09519 recA DNA recombinatio 94.5 0.061 1.3E-06 63.0 6.3 48 251-298 60-107 (790)
341 PRK14961 DNA polymerase III su 94.5 0.05 1.1E-06 59.0 5.4 24 253-276 40-63 (363)
342 cd02023 UMPK Uridine monophosp 94.5 0.043 9.4E-07 53.9 4.4 32 254-287 2-33 (198)
343 COG0470 HolB ATPase involved i 94.5 0.072 1.6E-06 56.5 6.5 26 253-278 26-51 (325)
344 KOG0354 DEAD-box like helicase 94.5 0.1 2.2E-06 60.1 7.8 67 234-303 62-130 (746)
345 PRK07261 topology modulation p 94.5 0.031 6.7E-07 53.7 3.3 21 254-274 3-23 (171)
346 TIGR02322 phosphon_PhnN phosph 94.5 0.04 8.7E-07 53.2 4.1 24 252-275 2-25 (179)
347 PRK14956 DNA polymerase III su 94.5 0.047 1E-06 60.5 5.0 35 242-276 29-65 (484)
348 PF02399 Herpes_ori_bp: Origin 94.5 0.064 1.4E-06 62.2 6.2 54 251-304 49-103 (824)
349 KOG3347 Predicted nucleotide k 94.4 0.034 7.5E-07 51.0 3.2 21 252-272 8-28 (176)
350 cd00227 CPT Chloramphenicol (C 94.4 0.04 8.6E-07 53.1 3.9 24 252-275 3-26 (175)
351 PF00931 NB-ARC: NB-ARC domain 94.4 0.071 1.5E-06 55.5 6.1 39 239-277 4-45 (287)
352 PRK14530 adenylate kinase; Pro 94.4 0.037 8.1E-07 55.3 3.8 24 252-275 4-27 (215)
353 PRK14532 adenylate kinase; Pro 94.4 0.03 6.5E-07 54.6 3.0 21 254-274 3-23 (188)
354 PRK14087 dnaA chromosomal repl 94.4 0.15 3.2E-06 56.9 8.9 35 253-287 143-179 (450)
355 PRK04040 adenylate kinase; Pro 94.4 0.035 7.6E-07 54.2 3.5 23 253-275 4-26 (188)
356 PLN02200 adenylate kinase fami 94.4 0.036 7.7E-07 56.2 3.5 24 252-275 44-67 (234)
357 PRK14957 DNA polymerase III su 94.3 0.061 1.3E-06 61.0 5.7 35 242-276 27-63 (546)
358 TIGR03117 cas_csf4 CRISPR-asso 94.3 0.13 2.9E-06 59.2 8.5 59 241-300 7-67 (636)
359 cd00550 ArsA_ATPase Oxyanion-t 94.3 0.052 1.1E-06 55.7 4.8 35 253-287 2-36 (254)
360 PRK14723 flhF flagellar biosyn 94.3 0.083 1.8E-06 61.8 6.8 55 252-306 186-245 (767)
361 COG0606 Predicted ATPase with 94.3 0.037 8E-07 60.3 3.7 34 238-272 186-219 (490)
362 KOG0731 AAA+-type ATPase conta 94.3 0.029 6.3E-07 64.8 3.0 35 236-273 332-366 (774)
363 PRK13531 regulatory ATPase Rav 94.3 0.056 1.2E-06 59.8 5.1 26 252-277 40-65 (498)
364 PRK06761 hypothetical protein; 94.3 0.044 9.4E-07 56.8 4.1 33 252-284 4-36 (282)
365 PF00176 SNF2_N: SNF2 family N 94.3 0.073 1.6E-06 55.6 5.9 73 238-311 1-93 (299)
366 PF12775 AAA_7: P-loop contain 94.3 0.037 8E-07 57.4 3.5 57 244-301 27-83 (272)
367 cd01428 ADK Adenylate kinase ( 94.3 0.035 7.5E-07 54.2 3.2 21 254-274 2-22 (194)
368 TIGR01313 therm_gnt_kin carboh 94.3 0.031 6.7E-07 53.0 2.8 21 255-275 2-22 (163)
369 TIGR02397 dnaX_nterm DNA polym 94.2 0.065 1.4E-06 57.8 5.5 42 236-277 19-62 (355)
370 cd02040 NifH NifH gene encodes 94.2 0.06 1.3E-06 55.7 4.9 32 253-285 4-35 (270)
371 COG1224 TIP49 DNA helicase TIP 94.2 0.038 8.3E-07 57.7 3.3 24 252-275 66-89 (450)
372 KOG0987 DNA helicase PIF1/RRM3 94.2 0.066 1.4E-06 61.1 5.6 61 233-294 116-180 (540)
373 PRK02496 adk adenylate kinase; 94.2 0.04 8.8E-07 53.5 3.4 22 254-275 4-25 (184)
374 COG1200 RecG RecG-like helicas 94.2 0.094 2E-06 59.5 6.6 68 234-301 262-333 (677)
375 PF00406 ADK: Adenylate kinase 94.1 0.034 7.5E-07 52.1 2.8 20 256-275 1-20 (151)
376 PF10412 TrwB_AAD_bind: Type I 94.1 0.074 1.6E-06 58.2 5.7 47 253-303 17-63 (386)
377 TIGR02238 recomb_DMC1 meiotic 94.1 0.089 1.9E-06 55.6 6.1 53 251-303 96-155 (313)
378 cd02020 CMPK Cytidine monophos 94.1 0.041 9E-07 50.9 3.3 22 254-275 2-23 (147)
379 TIGR01241 FtsH_fam ATP-depende 94.1 0.033 7.2E-07 63.0 3.1 32 254-288 91-122 (495)
380 PRK14528 adenylate kinase; Pro 94.1 0.042 9.1E-07 53.6 3.4 23 253-275 3-25 (186)
381 KOG2108 3'-5' DNA helicase [Re 94.1 0.015 3.2E-07 66.9 0.3 65 233-301 12-80 (853)
382 PHA02624 large T antigen; Prov 94.1 0.093 2E-06 59.3 6.4 36 251-288 431-466 (647)
383 CHL00195 ycf46 Ycf46; Provisio 94.1 0.038 8.1E-07 62.0 3.4 31 253-286 261-291 (489)
384 COG1199 DinG Rad3-related DNA 94.1 0.13 2.9E-06 60.4 8.1 67 235-302 16-86 (654)
385 PRK13851 type IV secretion sys 94.1 0.067 1.5E-06 57.2 5.1 51 236-288 148-198 (344)
386 KOG0951 RNA helicase BRR2, DEA 94.0 0.16 3.4E-06 60.9 8.1 88 219-309 296-398 (1674)
387 PRK14086 dnaA chromosomal repl 94.0 0.1 2.2E-06 59.5 6.5 35 253-287 316-352 (617)
388 PHA02542 41 41 helicase; Provi 94.0 0.072 1.6E-06 59.6 5.2 50 251-301 190-239 (473)
389 COG3911 Predicted ATPase [Gene 93.9 0.05 1.1E-06 49.9 3.2 22 252-273 10-31 (183)
390 PF01656 CbiA: CobQ/CobB/MinD/ 93.9 0.088 1.9E-06 51.2 5.3 35 253-287 1-35 (195)
391 PRK00279 adk adenylate kinase; 93.9 0.046 1E-06 54.6 3.4 21 254-274 3-23 (215)
392 COG4098 comFA Superfamily II D 93.9 0.15 3.2E-06 53.1 6.9 69 234-302 97-167 (441)
393 PRK05896 DNA polymerase III su 93.9 0.084 1.8E-06 60.2 5.7 37 240-276 25-63 (605)
394 cd02037 MRP-like MRP (Multiple 93.9 0.08 1.7E-06 50.6 4.9 33 253-285 2-34 (169)
395 TIGR00764 lon_rel lon-related 93.9 0.087 1.9E-06 60.9 6.0 58 241-299 28-86 (608)
396 PRK11131 ATP-dependent RNA hel 93.9 0.12 2.6E-06 63.7 7.3 60 240-301 79-140 (1294)
397 PRK14955 DNA polymerase III su 93.9 0.077 1.7E-06 58.3 5.3 38 240-277 25-64 (397)
398 PRK15453 phosphoribulokinase; 93.9 0.087 1.9E-06 54.2 5.2 37 250-286 4-41 (290)
399 PRK06731 flhF flagellar biosyn 93.8 0.16 3.5E-06 52.4 7.1 56 251-306 75-133 (270)
400 PRK05439 pantothenate kinase; 93.8 0.081 1.7E-06 55.6 5.0 34 253-286 88-123 (311)
401 cd02035 ArsA ArsA ATPase funct 93.8 0.075 1.6E-06 53.2 4.6 34 254-287 2-35 (217)
402 PLN03137 ATP-dependent DNA hel 93.8 0.25 5.4E-06 59.8 9.6 71 232-307 458-528 (1195)
403 TIGR01351 adk adenylate kinase 93.8 0.047 1E-06 54.3 3.1 21 254-274 2-22 (210)
404 PF06068 TIP49: TIP49 C-termin 93.8 0.041 8.8E-07 58.3 2.7 25 251-275 50-74 (398)
405 PF06414 Zeta_toxin: Zeta toxi 93.8 0.065 1.4E-06 52.8 4.1 33 252-285 16-48 (199)
406 TIGR00073 hypB hydrogenase acc 93.8 0.084 1.8E-06 52.4 4.8 55 252-309 23-78 (207)
407 PRK08154 anaerobic benzoate ca 93.7 0.092 2E-06 55.6 5.4 44 232-275 105-157 (309)
408 PF02374 ArsA_ATPase: Anion-tr 93.7 0.085 1.9E-06 55.6 5.1 43 253-295 3-47 (305)
409 COG0556 UvrB Helicase subunit 93.7 0.14 3.1E-06 56.2 6.7 61 239-302 17-80 (663)
410 PRK10865 protein disaggregatio 93.7 0.12 2.6E-06 62.3 7.0 36 253-288 600-635 (857)
411 PRK05595 replicative DNA helic 93.7 0.12 2.5E-06 57.7 6.4 54 246-301 197-251 (444)
412 PRK13407 bchI magnesium chelat 93.7 0.084 1.8E-06 56.2 4.9 24 252-275 30-53 (334)
413 PRK13973 thymidylate kinase; P 93.7 0.15 3.2E-06 50.9 6.5 45 252-296 4-49 (213)
414 PRK12323 DNA polymerase III su 93.7 0.15 3.2E-06 58.4 7.1 37 240-276 25-63 (700)
415 TIGR00455 apsK adenylylsulfate 93.7 0.1 2.2E-06 50.6 5.2 37 250-286 17-53 (184)
416 TIGR02016 BchX chlorophyllide 93.7 0.09 1.9E-06 55.3 5.1 33 253-286 3-35 (296)
417 COG0563 Adk Adenylate kinase a 93.7 0.057 1.2E-06 52.2 3.3 21 254-274 3-23 (178)
418 PRK08760 replicative DNA helic 93.7 0.12 2.6E-06 58.0 6.4 55 246-302 225-280 (476)
419 PRK13947 shikimate kinase; Pro 93.7 0.057 1.2E-06 51.6 3.3 22 254-275 4-25 (171)
420 PRK00698 tmk thymidylate kinas 93.7 0.098 2.1E-06 51.5 5.1 34 252-285 4-37 (205)
421 PRK05748 replicative DNA helic 93.7 0.14 3E-06 57.2 6.9 54 246-301 199-253 (448)
422 PTZ00301 uridine kinase; Provi 93.7 0.062 1.3E-06 53.4 3.6 26 252-277 4-29 (210)
423 PRK09165 replicative DNA helic 93.6 0.13 2.9E-06 58.0 6.7 55 246-302 213-282 (497)
424 COG0513 SrmB Superfamily II DN 93.6 0.27 5.9E-06 55.8 9.1 70 231-302 48-122 (513)
425 KOG0651 26S proteasome regulat 93.5 0.055 1.2E-06 55.6 3.0 22 253-274 168-189 (388)
426 PF12774 AAA_6: Hydrolytic ATP 93.5 0.19 4E-06 50.8 6.9 60 240-303 22-85 (231)
427 TIGR01618 phage_P_loop phage n 93.5 0.083 1.8E-06 52.7 4.2 20 252-271 13-32 (220)
428 PRK14963 DNA polymerase III su 93.5 0.056 1.2E-06 61.0 3.4 25 253-277 38-62 (504)
429 PRK14960 DNA polymerase III su 93.5 0.1 2.2E-06 59.7 5.5 37 240-276 24-62 (702)
430 PRK01184 hypothetical protein; 93.5 0.059 1.3E-06 52.3 3.2 16 253-268 3-18 (184)
431 TIGR03575 selen_PSTK_euk L-ser 93.5 0.09 2E-06 56.0 4.7 36 253-288 1-37 (340)
432 PRK07246 bifunctional ATP-depe 93.4 0.21 4.5E-06 60.0 8.2 62 234-298 245-310 (820)
433 PLN03187 meiotic recombination 93.4 0.15 3.3E-06 54.5 6.3 54 251-304 126-186 (344)
434 COG0541 Ffh Signal recognition 93.4 0.24 5.3E-06 53.5 7.7 58 252-309 101-161 (451)
435 PF13479 AAA_24: AAA domain 93.4 0.06 1.3E-06 53.7 3.1 19 253-271 5-23 (213)
436 PRK13234 nifH nitrogenase redu 93.4 0.11 2.3E-06 54.7 5.1 32 253-285 7-38 (295)
437 KOG0742 AAA+-type ATPase [Post 93.3 0.053 1.2E-06 57.5 2.6 21 254-274 387-407 (630)
438 cd00464 SK Shikimate kinase (S 93.3 0.073 1.6E-06 49.7 3.4 22 254-275 2-23 (154)
439 PF01580 FtsK_SpoIIIE: FtsK/Sp 93.3 0.095 2.1E-06 51.8 4.4 38 252-289 39-80 (205)
440 PRK14949 DNA polymerase III su 93.3 0.086 1.9E-06 62.3 4.5 24 253-276 40-63 (944)
441 COG5192 BMS1 GTP-binding prote 93.3 0.11 2.4E-06 57.0 4.9 24 254-277 72-95 (1077)
442 PHA03311 helicase-primase subu 93.3 0.36 7.8E-06 55.4 9.2 44 252-300 72-115 (828)
443 PRK09087 hypothetical protein; 93.3 0.12 2.5E-06 52.2 5.0 23 251-273 44-66 (226)
444 KOG0735 AAA+-type ATPase [Post 93.3 0.06 1.3E-06 60.9 3.1 57 254-310 704-767 (952)
445 PRK13235 nifH nitrogenase redu 93.3 0.11 2.3E-06 54.1 4.9 32 253-285 4-35 (274)
446 CHL00176 ftsH cell division pr 93.3 0.073 1.6E-06 61.7 3.9 33 253-288 218-250 (638)
447 cd02036 MinD Bacterial cell di 93.3 0.13 2.8E-06 49.3 5.2 33 253-285 2-34 (179)
448 TIGR00678 holB DNA polymerase 93.2 0.11 2.3E-06 50.7 4.6 27 252-278 15-41 (188)
449 TIGR00602 rad24 checkpoint pro 93.2 0.12 2.7E-06 59.5 5.6 41 235-275 88-134 (637)
450 PRK14958 DNA polymerase III su 93.2 0.12 2.7E-06 58.4 5.5 37 240-276 25-63 (509)
451 PTZ00088 adenylate kinase 1; P 93.2 0.075 1.6E-06 53.6 3.4 21 254-274 9-29 (229)
452 PRK03846 adenylylsulfate kinas 93.2 0.13 2.9E-06 50.6 5.1 48 235-285 11-58 (198)
453 PF01637 Arch_ATPase: Archaeal 93.1 0.086 1.9E-06 52.7 3.8 39 241-279 9-48 (234)
454 PF03796 DnaB_C: DnaB-like hel 93.1 0.25 5.4E-06 50.8 7.3 50 251-301 19-69 (259)
455 PRK14970 DNA polymerase III su 93.1 0.15 3.2E-06 55.5 5.8 42 236-277 22-65 (367)
456 KOG0727 26S proteasome regulat 93.1 0.064 1.4E-06 53.3 2.6 21 254-274 192-212 (408)
457 PHA02530 pseT polynucleotide k 93.0 0.069 1.5E-06 56.2 3.1 23 253-275 4-26 (300)
458 KOG1970 Checkpoint RAD17-RFC c 93.0 0.076 1.7E-06 58.5 3.4 24 252-275 111-134 (634)
459 COG1855 ATPase (PilT family) [ 93.0 0.1 2.3E-06 56.1 4.3 43 234-280 250-292 (604)
460 PRK15455 PrkA family serine pr 93.0 0.13 2.9E-06 57.8 5.3 30 247-276 99-128 (644)
461 PRK13695 putative NTPase; Prov 93.0 0.12 2.6E-06 49.6 4.5 29 254-282 3-31 (174)
462 PRK14969 DNA polymerase III su 93.0 0.13 2.8E-06 58.5 5.4 38 239-276 24-63 (527)
463 COG1201 Lhr Lhr-like helicases 93.0 0.34 7.4E-06 57.0 8.8 78 232-311 20-110 (814)
464 PRK00625 shikimate kinase; Pro 92.9 0.089 1.9E-06 50.6 3.4 22 254-275 3-24 (173)
465 PTZ00202 tuzin; Provisional 92.9 0.22 4.8E-06 54.2 6.6 59 238-301 269-331 (550)
466 PRK07940 DNA polymerase III su 92.9 0.13 2.9E-06 56.1 5.1 25 253-277 38-62 (394)
467 PHA02774 E1; Provisional 92.9 0.12 2.5E-06 58.2 4.7 30 252-283 435-464 (613)
468 COG4962 CpaF Flp pilus assembl 92.9 0.14 3E-06 53.8 4.9 54 233-288 156-209 (355)
469 TIGR02621 cas3_GSU0051 CRISPR- 92.9 0.2 4.4E-06 59.2 6.8 67 235-302 16-85 (844)
470 TIGR01287 nifH nitrogenase iro 92.9 0.15 3.2E-06 53.0 5.3 31 255-285 4-34 (275)
471 PRK13949 shikimate kinase; Pro 92.9 0.085 1.8E-06 50.6 3.1 22 254-275 4-25 (169)
472 PF14532 Sigma54_activ_2: Sigm 92.8 0.12 2.6E-06 47.6 4.0 32 243-276 14-45 (138)
473 PRK14952 DNA polymerase III su 92.8 0.15 3.2E-06 58.4 5.5 24 253-276 37-60 (584)
474 PRK10865 protein disaggregatio 92.8 0.32 6.9E-06 58.7 8.5 36 252-287 200-242 (857)
475 PHA00350 putative assembly pro 92.8 0.21 4.5E-06 54.2 6.2 58 253-311 3-63 (399)
476 PF00158 Sigma54_activat: Sigm 92.7 0.21 4.5E-06 47.8 5.6 48 252-299 23-70 (168)
477 PRK12339 2-phosphoglycerate ki 92.7 0.093 2E-06 51.6 3.3 24 252-275 4-27 (197)
478 PRK13765 ATP-dependent proteas 92.7 0.18 3.8E-06 58.4 6.0 57 242-299 42-99 (637)
479 PRK14526 adenylate kinase; Pro 92.7 0.096 2.1E-06 52.1 3.3 21 254-274 3-23 (211)
480 cd00820 PEPCK_HprK Phosphoenol 92.6 0.18 3.9E-06 44.2 4.5 32 251-288 15-46 (107)
481 KOG0736 Peroxisome assembly fa 92.6 0.096 2.1E-06 59.9 3.5 65 254-318 708-779 (953)
482 KOG0741 AAA+-type ATPase [Post 92.6 0.084 1.8E-06 57.9 2.9 28 254-281 259-286 (744)
483 TIGR02788 VirB11 P-type DNA tr 92.6 0.16 3.4E-06 53.8 5.1 45 239-285 133-177 (308)
484 COG0464 SpoVK ATPases of the A 92.6 0.075 1.6E-06 60.2 2.8 21 253-273 278-298 (494)
485 cd02024 NRK1 Nicotinamide ribo 92.6 0.088 1.9E-06 51.3 2.9 22 254-275 2-23 (187)
486 PRK06217 hypothetical protein; 92.6 0.092 2E-06 51.0 3.1 22 254-275 4-25 (183)
487 PF10236 DAP3: Mitochondrial r 92.6 0.14 3E-06 54.2 4.6 36 252-288 24-59 (309)
488 TIGR03263 guanyl_kin guanylate 92.6 0.097 2.1E-06 50.5 3.2 22 253-274 3-24 (180)
489 PHA00547 hypothetical protein 92.6 0.2 4.4E-06 50.2 5.3 29 251-279 75-103 (337)
490 PRK14965 DNA polymerase III su 92.6 0.29 6.2E-06 56.4 7.4 39 238-276 23-63 (576)
491 cd01127 TrwB Bacterial conjuga 92.6 0.17 3.6E-06 55.9 5.4 43 253-295 44-86 (410)
492 TIGR00235 udk uridine kinase. 92.5 0.11 2.5E-06 51.4 3.6 24 252-275 7-30 (207)
493 PRK05563 DNA polymerase III su 92.5 0.27 5.9E-06 56.4 7.0 25 252-276 39-63 (559)
494 TIGR01281 DPOR_bchL light-inde 92.5 0.17 3.6E-06 52.3 5.0 32 253-285 3-34 (268)
495 PF01745 IPT: Isopentenyl tran 92.4 0.13 2.8E-06 50.5 3.6 29 253-284 3-31 (233)
496 PRK13185 chlL protochlorophyll 92.4 0.17 3.8E-06 52.3 5.0 32 253-285 5-36 (270)
497 PRK10078 ribose 1,5-bisphospho 92.4 0.11 2.4E-06 50.6 3.3 22 252-273 3-24 (186)
498 PRK14737 gmk guanylate kinase; 92.4 0.1 2.2E-06 50.8 3.1 23 252-274 5-27 (186)
499 PF07088 GvpD: GvpD gas vesicl 92.4 0.11 2.4E-06 55.1 3.5 47 251-299 10-56 (484)
500 COG4581 Superfamily II RNA hel 92.4 0.35 7.6E-06 58.1 8.0 66 234-301 119-184 (1041)
No 1
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=4.3e-117 Score=938.13 Aligned_cols=625 Identities=45% Similarity=0.633 Sum_probs=539.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcchHHHhhcCCCcccccccccceeEeeeeeecCCeEEEEEE
Q 038763 14 DEFTQRMSELLRIERDAELEFTQEELNAVPTPDENSDSSKPIEFLVSHGRAPQELCDTICNLFVVSTSTGLGGMHLVLFR 93 (690)
Q Consensus 14 ~~~~~~~~~l~~~e~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~~g~~g~~~~~~~ 93 (690)
++|++++.+||++||++|++.++.++.+.+ ++.|+++|. |++||.+.+.++|++|+.++.|.
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~-----------ie~l~~~g~-------~i~nl~~v~~~tGl~g~~li~f~ 64 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVP-----------IEALQRKGL-------AILNLWLVSVRTGLGGKSLIVFS 64 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCC-----------HHHHHhccc-------eeeeEEEEEEeecccceEEEEec
Confidence 689999999999999999999999999887 889999987 59999999999999999999998
Q ss_pred ecCCCCCCCCCCCCCCEEEEEecCCCCCCCCcceeEEEEEEcCCceEEEEEEecCCCCCccccccCceeEEeEEeeccch
Q 038763 94 VEGNHRLPPTTLSPGDMVCVRVCDSRGACATSCIQGFVHNLGEDGCTISVALESRHGDPTFSKLFGKSVRIDRIQGLADT 173 (690)
Q Consensus 94 ~~~~~~~~~~~~~~Gd~V~i~~~~~~~~~~~~~~~g~V~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (690)
... +.+|++.|.+||+|.|+ .+........|.+|+|+++.. ..|++++++..+.|... ..+ ++.+++|.
T Consensus 65 ~~~-~~lp~~~~~~gd~v~lr-~~~~~~~~~~~~~GvV~~~~~--~~i~~a~ee~~d~~~~~----~~l---~l~kl~n~ 133 (649)
T KOG1803|consen 65 KNR-EVLPSNSFGPGDVVWLR-TDKLNNKSKPCTEGVVYRVAE--DSIDVAFEEEVDKPLTL----SSL---RLLKLENK 133 (649)
T ss_pred cCc-cccCcCCCCCCcEEEEE-cccccccCcccccceeEeecc--chhhHhHHhhhcccchh----hHH---HHHHhhhh
Confidence 755 78999999999999998 444444444588999999987 48999998765444322 122 45688999
Q ss_pred hhHHHHHHHHHHHHhccccCCCCchhHHHhhhCCCccchhhhccccccchhhhhcCCCCCCCCHHHHHHHHHHhcCCCCe
Q 038763 174 LTYERNCEALMLLQKNGLHKRNPSIAAVVTLFGDKEDVTWLEENDLADWSEVKLDGIMGKTFDDSQKKAIALGLNKKRPL 253 (690)
Q Consensus 174 ~t~~r~~~al~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~~Q~~Av~~al~~~~~~ 253 (690)
+||+||..++..++...... +...++.+++++.+++.+.+.. ......+...||+||++||.++++.+ ++
T Consensus 134 vty~R~~~~~i~l~~~~~~~--~~~~vv~~l~~~~~~~~~~~~~-------~~~~~~~~~~ln~SQk~Av~~~~~~k-~l 203 (649)
T KOG1803|consen 134 VTYRRMKDTMICLSKFSNPG--PSSDVVETLFGDRKPIPSPNIE-------IKKITFFNKNLNSSQKAAVSFAINNK-DL 203 (649)
T ss_pred hhheecHHHHhhHhhhcCcc--chhhhHHHHhccccCCCCchhh-------hcccccCCccccHHHHHHHHHHhccC-Cc
Confidence 99999999999998754332 6677899999998876654311 00012334569999999999999875 79
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCCCcccCchhccccHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGNPARISPAVASKSLGEIVKSKLA 333 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~~~r~~~~~~~~~l~~~~~~~l~ 333 (690)
.+||||||||||+|++++|.|+++++++||||||||.|||||++||...+..++|+|+|+|+.+.+..++++.+..+...
T Consensus 204 ~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~~~~sld~~~~t~d~ 283 (649)
T KOG1803|consen 204 LIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESVADHSLDLLSNTKDN 283 (649)
T ss_pred eEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhhhhhHHHHHHhcCch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998876543
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEEEcccccchHHHhcCCCcccc
Q 038763 334 SFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVLATNTGAADPLIRRLDTFDLV 413 (690)
Q Consensus 334 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~~T~~~a~~~~l~~~~~fD~v 413 (690)
.......++..++......+.+++..++.++..++.+++++++++.+.+.+++.+++||++|+.++...++.. ..||+|
T Consensus 284 ~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~-~~fD~v 362 (649)
T KOG1803|consen 284 SQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRK-RTFDLV 362 (649)
T ss_pred hhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcc-cCCCEE
Confidence 3332222222233334455567788899999999999999999999999999999999999999999987777 489988
Q ss_pred -------------------cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhh
Q 038763 414 -------------------GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWA 474 (690)
Q Consensus 414 -------------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~ 474 (690)
++++||+|||+||||+|.|.++...|+..|+|||+.+.+++....+|++|||||..||.|+
T Consensus 363 IIDEaaQamE~~cWipvlk~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~ws 442 (649)
T KOG1803|consen 363 IIDEAAQAMEPQCWIPVLKGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWS 442 (649)
T ss_pred EEehhhhhccchhhhHHhcCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCc
Confidence 7899999999999999999999999999999999999999998999999999999999999
Q ss_pred hhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHH
Q 038763 475 SKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSL 554 (690)
Q Consensus 475 s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L 554 (690)
|..||+|+|+++.+++++.|.|+|.+.+.|....|++|+||++.+..-..+++++ -+|++|+.||++|..+++.|
T Consensus 443 n~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~-----~~S~~N~gEa~Iv~~Hv~~L 517 (649)
T KOG1803|consen 443 NEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEE-----LGSKYNEGEAKIVMEHVKRL 517 (649)
T ss_pred HhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhh-----ccccCCHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999997554322222222 25999999999999999999
Q ss_pred HHCCCCCCcEEEEcCcHHHHHHHHHHhhcCCCCCCeEEecccCccCccccEEEEEeeecCCCCcccccCCCCceeeeecc
Q 038763 555 ICAGVSPSAIAVQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITR 634 (690)
Q Consensus 555 ~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTR 634 (690)
+..|+++.||||||||++|+.+||.. ......+++|+|||+|||+|+|+||||+||||+.+++|||.|.||||||+||
T Consensus 518 ~~~gV~p~dIaVIsPY~aQv~llR~~--~~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTR 595 (649)
T KOG1803|consen 518 LEAGVQPSDIAVISPYNAQVSLLREE--DEEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITR 595 (649)
T ss_pred HHcCCChhHeEEeccchHHHHHHhhc--ccccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEe
Confidence 99999999999999999999999932 2344567999999999999999999999999999999999999999999999
Q ss_pred ccccEEEEecCcccc-cChHHHHHHHHHHHcCcEEecCCCCCcCCCCCCCCCCCC
Q 038763 635 ACKHVAVVCDSSTIC-HNTFLARLLRHIRYFGRVKHAEPGSFGGSGLGMDPMLPS 688 (690)
Q Consensus 635 Ak~~LiivG~~~tl~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 688 (690)
||++++||||..|++ .+.++++|++|+.+++.+..++- +.++.+++|.++.
T Consensus 596 aRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~~---~~~~~~~~~~~~~ 647 (649)
T KOG1803|consen 596 ARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPSI---LEYFNDAEPAAYP 647 (649)
T ss_pred ccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccccc---hhhhhcccccccc
Confidence 999999999999999 89999999999999999975543 4555666665554
No 2
>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=6.6e-94 Score=815.26 Aligned_cols=578 Identities=36% Similarity=0.501 Sum_probs=456.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCCCCcchHHHhhcCCCcccccccccceeEeeeeeecCCeEEEEEEecCCCCCCCCCC
Q 038763 26 IERDAELEFTQEELNAVPTPDENSDSSKPIEFLVSHGRAPQELCDTICNLFVVSTSTGLGGMHLVLFRVEGNHRLPPTTL 105 (690)
Q Consensus 26 ~e~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~~g~~g~~~~~~~~~~~~~~~~~~~ 105 (690)
+||++|+++++++++++| +++++++ |+||++|.+. ..+|++|+++++|... ..+++.|
T Consensus 1 ~e~~~e~~~~~~~~~~~s-----------~~~~~~~-------g~~~~~l~~~-~~~~~~g~~~~~f~~~---~~~~~~~ 58 (637)
T TIGR00376 1 LEREAEISAMMNEIRRLS-----------LKQRERR-------GRAILNLQGK-IRGGLLGFLLVRFGRR---KAIATEI 58 (637)
T ss_pred CchHHHHHHHHHHHHhcC-----------HHHHHhc-------CceEeceEEE-EEeCCCCeEEEEEecC---CCCCCcC
Confidence 599999999999999998 3455555 5689999999 8899999999999843 3446899
Q ss_pred CCCCEEEEEecCCCCCCCCcceeEEEEEEcCCceEEEEEEecCCCCCccccccCceeEEeEEeeccchhhHHHHHHHHHH
Q 038763 106 SPGDMVCVRVCDSRGACATSCIQGFVHNLGEDGCTISVALESRHGDPTFSKLFGKSVRIDRIQGLADTLTYERNCEALML 185 (690)
Q Consensus 106 ~~Gd~V~i~~~~~~~~~~~~~~~g~V~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~r~~~al~~ 185 (690)
.+||+|+|+..+ +.....+|+|++++. +.|+|+++.. .|.|. ...++ +++++|++||+||..||..
T Consensus 59 ~~GD~v~i~~~~----~~~~~~~g~V~~v~~--~~i~v~~~~~--~~~~~---~~~~~---i~~~~~~~t~~rm~~aL~~ 124 (637)
T TIGR00376 59 SVGDIVLVSRGN----PLQSDLTGVVTRVGK--RFITVALEES--VPQWS---LKRVR---IDLYANDVTFKRMKEALRA 124 (637)
T ss_pred CCCCEEEEecCC----CCCCCcEEEEEEEcC--cEEEEEECCC--CCccc---CceEE---EEEecCccHHHHHHHHHHH
Confidence 999999997432 223467999999977 6999999863 34332 12354 5568999999999999999
Q ss_pred HHhccccCCCCchhHHHhhhCCCccchhhhccccccchhhhhcCCCCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChh
Q 038763 186 LQKNGLHKRNPSIAAVVTLFGDKEDVTWLEENDLADWSEVKLDGIMGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKT 265 (690)
Q Consensus 186 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT 265 (690)
+.... ..++++|||..++....... .+ ....+.||++|+.||..++.+ .++++|+||||||||
T Consensus 125 l~~~~-------~~l~~~llg~~~p~~~~~~~--------~~-~~~~~~ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT 187 (637)
T TIGR00376 125 LTENH-------SRLLEFILGREAPSKASEIH--------DF-QFFDPNLNESQKEAVSFALSS-KDLFLIHGPPGTGKT 187 (637)
T ss_pred HHhch-------hhHHHHHhCCCCCCcccccc--------cc-cccCCCCCHHHHHHHHHHhcC-CCeEEEEcCCCCCHH
Confidence 87642 14678899986643211111 01 112256999999999999975 368999999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCCCcccCchhccccHHHHHHHH-----HHHHHHHHH
Q 038763 266 GLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGNPARISPAVASKSLGEIVKSK-----LASFVAEFE 340 (690)
Q Consensus 266 ~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~~~r~~~~~~~~~l~~~~~~~-----l~~~~~~~~ 340 (690)
+|+++++.++++.|.+||+|||||.|||+|+++|.+.+++++|+|++.|+.+.+..++++..+..+ +.++.+++.
T Consensus 188 ~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~ 267 (637)
T TIGR00376 188 RTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLLKSNKQHSLDYLIENHPKYQIVADIREKID 267 (637)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcchhHHhccHHHHHhcChhHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999877632 222222222
Q ss_pred HHHHHHHH------HHHHHhcchh-HH----------------------HHHHHHHHHHHHHHHHHHHHHHHHHhhcCcE
Q 038763 341 RKKSDLRK------DLRQCLKDDS-LA----------------------AGIRQLLKQLGKTLKKKEKETVKEVLSSAQV 391 (690)
Q Consensus 341 ~~~~~~~~------~l~~~~~~~~-~~----------------------~~~~~~~~~l~~~~~~~~~~~~~~il~~a~V 391 (690)
.......+ ..+...++.. ++ ....+.++.+.+.+.+.+.++..+++.+++|
T Consensus 268 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v 347 (637)
T TIGR00376 268 ELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDV 347 (637)
T ss_pred HHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCE
Confidence 11111000 0000000000 00 0112233444555566677788999999998
Q ss_pred EEEcccccchHHHhcCCCcccc-------------------cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhC
Q 038763 392 VLATNTGAADPLIRRLDTFDLV-------------------GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLH 452 (690)
Q Consensus 392 v~~T~~~a~~~~l~~~~~fD~v-------------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~ 452 (690)
+++|+ ++..+.. ..||+| ++++||||||+||||+|.+.. ..+++.|||+||...+
T Consensus 348 ~~st~---~~~~l~~-~~Fd~vIIDEAsQ~~ep~~lipl~~~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~ 421 (637)
T TIGR00376 348 VQSTN---SSAGLKG-WEFDVAVIDEASQAMEPSCLIPLLKARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEY 421 (637)
T ss_pred EEecc---CcHhhcc-CCCCEEEEECccccchHHHHHHHhhCCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhC
Confidence 87774 4455655 489988 789999999999999998865 3579999999999877
Q ss_pred CCccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCC-----CCCCCeEEEeCCCCCCCCCCCcc
Q 038763 453 EGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTW-----ITQCPLLLLDTRLPYGSLSLGCE 527 (690)
Q Consensus 453 ~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~-----~~~~p~~~~dt~~~~~~~~~~~~ 527 (690)
++. ..+|++||||||+|++|+|..||+|+|++++++..+.+.++|.....+ ....|++|+||.+... .
T Consensus 422 ~~~-~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~------~ 494 (637)
T TIGR00376 422 PER-SRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCEL------F 494 (637)
T ss_pred CCc-eeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccc------c
Confidence 765 689999999999999999999999999999988888776666543332 3457999999985321 1
Q ss_pred cccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHHHHHHHhhcCCCCCCeEEecccCccCccccEEE
Q 038763 528 EHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQGREADAVI 607 (690)
Q Consensus 528 e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~dvVI 607 (690)
+. ....+.|++|..||..|+.+++.|++.|+++.+|||||||++|+.+|++.|... ...++|+|||+|||+|+|+||
T Consensus 495 e~-~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~--~~~i~v~TVd~fQG~E~DvIi 571 (637)
T TIGR00376 495 EL-KEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHR--HIDIEVSSVDGFQGREKEVII 571 (637)
T ss_pred cc-ccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhh--CCCeEEccccccCCccccEEE
Confidence 11 122356999999999999999999999999999999999999999999999653 246999999999999999999
Q ss_pred EEeeecCCCCcccccCCCCceeeeeccccccEEEEecCcccccChHHHHHHHHHHHcCcEEecCC
Q 038763 608 ISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSSTICHNTFLARLLRHIRYFGRVKHAEP 672 (690)
Q Consensus 608 lS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~~~~~~~l~~~~~~~~~~~~~~~ 672 (690)
+|+||+|..+.+||+.|.|||||||||||++||||||..+|+++++|++|++|++++|+++.+..
T Consensus 572 ~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 572 ISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHGEVREAFK 636 (637)
T ss_pred EEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccChHHHHHHHHHHHCCCEEcCCC
Confidence 99999999899999999999999999999999999999999999999999999999999988654
No 3
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=1.6e-88 Score=718.09 Aligned_cols=589 Identities=29% Similarity=0.394 Sum_probs=437.6
Q ss_pred hHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcchHHHhhcCCCcccccccccceeEeeeee
Q 038763 3 LERVKTIQSRLDEFTQRMSELLRIERDAELEFTQEELNAVPTPDENSDSSKPIEFLVSHGRAPQELCDTICNLFVVSTST 82 (690)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~l~~~e~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~~ 82 (690)
+.||...|++.++|.+.|..|+++|-+++....++ .+ ++.+ . ..+..
T Consensus 229 ~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes----~~----------------------q~~~--t-----vRW~~ 275 (935)
T KOG1802|consen 229 PPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKES----QT----------------------QENG--T-----VRWDI 275 (935)
T ss_pred CCcccccccchHHHhhhcchhhhhhhhhhhhhhhh----cc----------------------cccc--e-----EEeee
Confidence 56899999999999999999999999999844432 11 1111 2 23447
Q ss_pred ecCCeEEEEEEecCCCCCCCCCCCCCCEEEEEecCCCCCCCCcceeEEEEEEcCC-ceEEEEEEecCCCCCccccccCce
Q 038763 83 GLGGMHLVLFRVEGNHRLPPTTLSPGDMVCVRVCDSRGACATSCIQGFVHNLGED-GCTISVALESRHGDPTFSKLFGKS 161 (690)
Q Consensus 83 g~~g~~~~~~~~~~~~~~~~~~~~~Gd~V~i~~~~~~~~~~~~~~~g~V~~~~~~-~~~i~v~~~~~~~~~~~~~~~~~~ 161 (690)
||..+.+..|.++.. --.-++..||-..+..+. +......-.|.|.++... +..+.+.++...+ |... ....
T Consensus 276 gLnkk~~a~f~~~k~--~~e~kl~~GdE~~L~y~~--~~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~-~p~e--~~~~ 348 (935)
T KOG1802|consen 276 GLNKKRLAYFTLPKL--DSELKLAIGDEIRLTYSG--GLVLPWNGIGSVLKIPDNNGDEVKLELEFSQD-PPIE--VTHG 348 (935)
T ss_pred ccccceEEEEecCCC--cchhccccCCeeEEEecC--CcCCcccccceEEecCCCCcceeEEEeecCCC-CCcc--cccc
Confidence 899999988876542 112357789999886533 222223345888888652 1133333333222 2211 1223
Q ss_pred eEEeEEeeccchhhHHHHHHHHHHHHhccccCCCCchhHHHhhhCCCccchhhhccccccchhhhhcCCCCCCCCHHHHH
Q 038763 162 VRIDRIQGLADTLTYERNCEALMLLQKNGLHKRNPSIAAVVTLFGDKEDVTWLEENDLADWSEVKLDGIMGKTFDDSQKK 241 (690)
Q Consensus 162 ~~~~~~~~~~~~~t~~r~~~al~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LN~~Q~~ 241 (690)
+.+| ..++.++|+||..||..|.... +.-+..+...++|+....... ...++ ..+....+++||.||..
T Consensus 349 Ftvd---~vwk~ts~drm~~alk~la~D~---~~vs~y~y~klLgh~~~~~~~-k~~LP----~~~s~~~lpkLN~SQ~~ 417 (935)
T KOG1802|consen 349 FTVD---FVWKSTSFDRMQLALKLLAVDE---KKVSGYLYHKLLGHPVEDSSL-KKLLP----RRFSVPNLPKLNASQSN 417 (935)
T ss_pred eEEE---EEEcCccHHHHHHHHHHhhhcc---ccchhhhhhHHhcCcchhhhh-cccCc----hhhcCCCchhhchHHHH
Confidence 4433 4589999999999999986543 122223555677774322111 11111 13344566789999999
Q ss_pred HHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC-CeEEEEcCChHHHHHHHHHHHhcCCceeecCCCcccC--ch
Q 038763 242 AIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG-ERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGNPARIS--PA 318 (690)
Q Consensus 242 Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g-~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~~~r~~--~~ 318 (690)
||+++|+ ++++|||||||||||.|.+++|.++++.+ .+||||||||.|||+|++++.+.|+++||+-...|.. ..
T Consensus 418 AV~~VL~--rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~aksRE~~~S~ 495 (935)
T KOG1802|consen 418 AVKHVLQ--RPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVVRLCAKSREDIESD 495 (935)
T ss_pred HHHHHHc--CCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEeeeehhhhhhccCC
Confidence 9999997 47999999999999999999999999875 5999999999999999999999999999998877653 23
Q ss_pred hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEEEcccc
Q 038763 319 VASKSLGEIVKSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVLATNTG 398 (690)
Q Consensus 319 ~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~~T~~~ 398 (690)
+.-.+|+.++...-. .++.+.. .++. +..++.. .-.+.+.+..+....+++..|+||||||.+
T Consensus 496 vs~L~lh~~~~~~~~---pELq~l~-klkd------e~gelS~-------sD~~k~~~lk~~~e~ell~~AdVIccTcv~ 558 (935)
T KOG1802|consen 496 VSFLSLHEQLRNMDK---PELQKLL-KLKD------EGGELSS-------SDEKKYRKLKRAAEKELLNQADVICCTCVG 558 (935)
T ss_pred ccHHHHHHHHhccCc---HHHHHHH-hhhh------hcccccc-------hhhHHHHHHHHHHHHHHHhhcCEEEEeccc
Confidence 333344444331110 1111100 0000 0001100 001122233345667899999999999999
Q ss_pred cchHHHhcCCCcccc--------------------cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCcccc
Q 038763 399 AADPLIRRLDTFDLV--------------------GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLAT 458 (690)
Q Consensus 399 a~~~~l~~~~~fD~v--------------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~ 458 (690)
|++..+... .|..| ++++||||||+||.|+|+...+..+|+..||||||+.. +...+
T Consensus 559 Agd~rl~~~-kfr~VLiDEaTQatEpe~LiPlvlG~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~l--g~~P~ 635 (935)
T KOG1802|consen 559 AGDRRLSKF-KFRTVLIDEATQATEPECLIPLVLGAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISL--GIKPI 635 (935)
T ss_pred ccchhhccc-cccEEEEecccccCCcchhhhhhhcceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhc--cCCce
Confidence 999988764 66655 89999999999999999999999999999999999876 55668
Q ss_pred ccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCC-CCCCCeEEEeCCCCCCCCCCCcccccccCCCCC
Q 038763 459 KLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTW-ITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGS 537 (690)
Q Consensus 459 ~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~-~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S 537 (690)
+|.+||||||.|++|||+.||+|.|+++.....+... .+.-.| ..++|+.|+...+ .|+.+ ..+.|
T Consensus 636 ~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~---g~~~pwp~p~~pl~fy~~~g---------~eeis-asGtS 702 (935)
T KOG1802|consen 636 RLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPL---GVDFPWPQPDKPLFFYVCYG---------QEEIS-ASGTS 702 (935)
T ss_pred EEEEeeeeChhhhhcchhhhccchhhcCcchhhhccC---CCCCCCCCCCCccceEEecc---------ceeee-ccccc
Confidence 9999999999999999999999999998776665432 233333 3578999987653 22333 34569
Q ss_pred ccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHHHHHHHhhcCC-----CCCCeEEecccCccCccccEEEEEeee
Q 038763 538 FYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQHLRERLDDLP-----EAAGVEVATIDSFQGREADAVIISMVR 612 (690)
Q Consensus 538 ~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~-----~~~~v~V~TVd~fQG~E~dvVIlS~vr 612 (690)
+.|..||..+.++++.|++.|+.++.|||||||.+|..+|-+.|.... ....|+|.|||+|||+|||+||+||||
T Consensus 703 f~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVR 782 (935)
T KOG1802|consen 703 FLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVR 782 (935)
T ss_pred eecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEee
Confidence 999999999999999999999999999999999999999999886532 134689999999999999999999999
Q ss_pred cCCCCcccccCCCCceeeeeccccccEEEEecCcccccChHHHHHHHHHHHcCcEEecCCCCCcC
Q 038763 613 SNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSSTICHNTFLARLLRHIRYFGRVKHAEPGSFGG 677 (690)
Q Consensus 613 sn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 677 (690)
+|....|||+.|+||||||+||||++|+||||+..|++++.|.+++.|+++.+++..-+..+|-.
T Consensus 783 sn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~~LW~~li~h~~eke~l~eg~ln~l~~ 847 (935)
T KOG1802|consen 783 SNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKHPLWGHLITHYKEKEVLVEGPLNNLKP 847 (935)
T ss_pred cccccccccccCchhhhhhhhhcccceEEecCHHHhhhchHHHHHHHHhhcccceeecchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999998755555544
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=1.9e-74 Score=636.28 Aligned_cols=566 Identities=27% Similarity=0.345 Sum_probs=395.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcchHHHhhcCCCcccccccccceeEee-eee-ecCCeEEE
Q 038763 13 LDEFTQRMSELLRIERDAELEFTQEELNAVPTPDENSDSSKPIEFLVSHGRAPQELCDTICNLFVVS-TST-GLGGMHLV 90 (690)
Q Consensus 13 ~~~~~~~~~~l~~~e~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~-~~~-g~~g~~~~ 90 (690)
-.+|...+..++.+|-+.|.+.+...-...= .+++. ++++.|+++.+|.+.. ... --+|.++.
T Consensus 480 ~~~y~~~w~~~l~le~~~~~~~~~~~~~~~~--------~k~~~-------e~~~~g~~l~~L~~~~~~e~~~~~~~~~~ 544 (1100)
T KOG1805|consen 480 HLEYLAGWTLLLGLESKNEHNRLLSQNLDFW--------LKGII-------EEEREGRCLSRLSVVSPEEHEETEGVYIY 544 (1100)
T ss_pred HHHHHHHHHHhccchhhhhhhhhhcccccee--------eccHH-------HHhhcCcceeceeeccceeeEeecceeee
Confidence 3467888888888888776655443111110 22233 3344567899999876 222 23455555
Q ss_pred EEEecCCCCCCCCCCCCCCEEEEEecCCCCCCCCcceeEEEEEEcCCceEEEEEEecCCCCCccccccCce-eEEeEEee
Q 038763 91 LFRVEGNHRLPPTTLSPGDMVCVRVCDSRGACATSCIQGFVHNLGEDGCTISVALESRHGDPTFSKLFGKS-VRIDRIQG 169 (690)
Q Consensus 91 ~~~~~~~~~~~~~~~~~Gd~V~i~~~~~~~~~~~~~~~g~V~~~~~~~~~i~v~~~~~~~~~~~~~~~~~~-~~~~~~~~ 169 (690)
.|....+...+-+.|..||.|.|+... +. .-....+.|..+. +.. ++.. .+.+....+... +++|.-+
T Consensus 545 ~~~~~~~~~~~~s~~~~gd~v~iS~e~--~~-~i~~~~~~~~~~~----~~~--l~~~-~~~~~~s~~~~el~ridK~d- 613 (1100)
T KOG1805|consen 545 AFDCFLRAGNSVSLFHAGDRVIISSEE--GH-GIGLAMIKVVLIN----RLR--LDRS-TPKDEQSVLEEELFRIDKED- 613 (1100)
T ss_pred hhhhhhccCCcccccccCceEEEecCc--cc-eeEeeeeeeecch----hhh--cccc-CCcchhhccccceeeccHHh-
Confidence 565432223335679999999995211 11 0011111221111 111 1110 111112222222 4544322
Q ss_pred ccchhhHHHHHHHHHHHHhccccCCCCchhHHHhhhCCCccchhhhcc-ccccchhhhhcCCCCCCCCHHHHHHHHHHhc
Q 038763 170 LADTLTYERNCEALMLLQKNGLHKRNPSIAAVVTLFGDKEDVTWLEEN-DLADWSEVKLDGIMGKTFDDSQKKAIALGLN 248 (690)
Q Consensus 170 ~~~~~t~~r~~~al~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~LN~~Q~~Av~~al~ 248 (690)
-..+..-+.-.|..+-..... ...++.+..+..++...... .... +.+....+..||..|++|+..+|.
T Consensus 614 --~~ss~s~~r~nL~~l~~~~~~-----~~~lRdlivd~~pP~f~~~~~~~~~---p~~~~~~~~~LN~dQr~A~~k~L~ 683 (1100)
T KOG1805|consen 614 --IMSSASTKRGNLMSLLLNDEG-----GKILRDLIVDLKPPKFVDALSKVLI---PKIKKIILLRLNNDQRQALLKALA 683 (1100)
T ss_pred --hhhhhhhhhhhHHHHhcCCcc-----chhHHHHhhhcCCchhhcccccccC---chhhHHHHhhcCHHHHHHHHHHHh
Confidence 222223334445444322211 11222233332222221110 0000 011111344799999999999999
Q ss_pred CCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCCCcccCchhccccHHHHH
Q 038763 249 KKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGNPARISPAVASKSLGEIV 328 (690)
Q Consensus 249 ~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~~~r~~~~~~~~~l~~~~ 328 (690)
.. ++++|.|.|||||||||+.+|+.|+..|++||++++||.|||||+-||...++.++|+|.+.++++.+.++++..-.
T Consensus 684 ae-dy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~~i~~lRLG~~~kih~~v~e~~~~~~~ 762 (1100)
T KOG1805|consen 684 AE-DYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKGFGIYILRLGSEEKIHPDVEEFTLTNET 762 (1100)
T ss_pred cc-chheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHHHHHHHhccCcceeecCCccccchHHHHHhccccc
Confidence 75 78999999999999999999999999999999999999999999999999999999999999998887666541100
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEEEcccccchHHHhcCC
Q 038763 329 KSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVLATNTGAADPLIRRLD 408 (690)
Q Consensus 329 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~~T~~~a~~~~l~~~~ 408 (690)
. ..........++...||.|||.|..++++.. +
T Consensus 763 s----------------------------------------------~ks~~~l~~~~~~~~IVa~TClgi~~plf~~-R 795 (1100)
T KOG1805|consen 763 S----------------------------------------------EKSYADLKKFLDQTSIVACTCLGINHPLFVN-R 795 (1100)
T ss_pred c----------------------------------------------hhhHHHHHHHhCCCcEEEEEccCCCchhhhc-c
Confidence 0 0011223445678999999999999998877 4
Q ss_pred Ccccc-------------------cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchh
Q 038763 409 TFDLV-------------------GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDA 469 (690)
Q Consensus 409 ~fD~v-------------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~ 469 (690)
.||++ ++|+||||||.||||.|+|.+|...|++.|||+||.+.||.. +..|+.||||+.+
T Consensus 796 ~FD~cIiDEASQI~lP~~LgPL~~s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpea-V~~Lt~QYRMn~~ 874 (1100)
T KOG1805|consen 796 QFDYCIIDEASQILLPLCLGPLSFSNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPEA-VSSLTLQYRMNRE 874 (1100)
T ss_pred ccCEEEEccccccccchhhhhhhhcceEEEecccccCCccccchhhhhcCcchHHHHHHhhhCchH-HHhHHHHHhhcch
Confidence 89998 899999999999999999999999999999999999988876 4789999999999
Q ss_pred HHHhhhhccCCCcccCCcc-cccccccCCCC---------CCCCC-----CCCCCeEEEeCCCCCCCCCCCcccccccCC
Q 038763 470 IASWASKEMYGGSLISSST-VASHLLVDTPF---------VKPTW-----ITQCPLLLLDTRLPYGSLSLGCEEHLDLAG 534 (690)
Q Consensus 470 I~~f~s~~fY~g~L~~~~~-v~~~~l~~~~~---------~~~~~-----~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~ 534 (690)
||.++|.+||+|+|+++.. +......+.+. ....| .+..+++|+.+.... +.++ .. .
T Consensus 875 I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~-----~ie~-~~--e 946 (1100)
T KOG1805|consen 875 IMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCS-----TIES-QG--E 946 (1100)
T ss_pred HHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCccc-----chhh-hc--c
Confidence 9999999999999999754 33211111110 01223 345677886665321 1122 11 2
Q ss_pred CCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHHHHHHHhhcCCCCCCeEEecccCccCccccEEEEEeeecC
Q 038763 535 TGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQGREADAVIISMVRSN 614 (690)
Q Consensus 535 ~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrsn 614 (690)
.+-..|..||.++.+++..++..|+++++|||||||++|+.+|++.+.... +||.|||.|||||||+||+|+||+|
T Consensus 947 ~~~i~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~~----lEinTVD~yQGRDKd~IivSfvrsn 1022 (1100)
T KOG1805|consen 947 KGGITNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSAV----LEINTVDRYQGRDKDCIIVSFVRSN 1022 (1100)
T ss_pred ccCcCchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhccccc----eeeeehhhhcCCCCCEEEEEEEecC
Confidence 234569999999999999999999999999999999999999999998743 9999999999999999999999999
Q ss_pred CCCccc-ccCCCCceeeeeccccccEEEEecCcccccChHHHHHHHHHHHcCcEEecCCCCC
Q 038763 615 TLGAVG-FLGDSRRMNVAITRACKHVAVVCDSSTICHNTFLARLLRHIRYFGRVKHAEPGSF 675 (690)
Q Consensus 615 ~~~~~g-fl~d~rRlNVAlTRAk~~LiivG~~~tl~~~~~~~~l~~~~~~~~~~~~~~~~~~ 675 (690)
.....| .|+|+||+||||||||.+||+||+..||...|.++.|++++.++.++........
T Consensus 1023 ~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~~l~~~l~~~~ 1084 (1100)
T KOG1805|consen 1023 KKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRIELLTLLMRIL 1084 (1100)
T ss_pred CcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhhhHHHHHHHHH
Confidence 987777 8899999999999999999999999999999999999999988887765544433
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=4.6e-52 Score=446.92 Aligned_cols=276 Identities=28% Similarity=0.366 Sum_probs=225.0
Q ss_pred HHHHhhcCcEEEEcccccchH--HHhcCCC----c----ccc-----------cceeeecCCCCCCCccccchh-hhhcC
Q 038763 382 VKEVLSSAQVVLATNTGAADP--LIRRLDT----F----DLV-----------GKRCILAGDQCQLAPVILSRK-ALEGG 439 (690)
Q Consensus 382 ~~~il~~a~Vv~~T~~~a~~~--~l~~~~~----f----D~v-----------~~~~VLvGD~~QLpP~v~s~~-a~~~g 439 (690)
...+++.++||.+|++|++.. .+...+. | ++. ..++||+|||+||.|..-... ....+
T Consensus 692 da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fn 771 (1025)
T KOG1807|consen 692 DAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFN 771 (1025)
T ss_pred HHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcc
Confidence 445889999999999999864 2332211 1 110 689999999999999864332 34468
Q ss_pred CCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCC
Q 038763 440 IGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPY 519 (690)
Q Consensus 440 l~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~ 519 (690)
|..||||||... +.+...|+.||||||.|.++....||++ |.+++++.. +|.+.+ -...+.|+.|..+
T Consensus 772 L~iSlFERLVe~--glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~-----yedI~g---ms~nlfFv~hnsp- 839 (1025)
T KOG1807|consen 772 LSISLFERLVEA--GLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKE-----YEDIRG---MSKNLFFVQHNSP- 839 (1025)
T ss_pred hhHHHHHHHHHc--CCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhcc-----cccccc---ccceeeEEecCCc-
Confidence 999999999876 7788999999999999999999999996 566666553 222221 2356778777643
Q ss_pred CCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHHHHHHHhhcCCCCCCeEEecccCcc
Q 038763 520 GSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQ 599 (690)
Q Consensus 520 ~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQ 599 (690)
++..+ ..|+.|..||.+++++++.|+++++.++||.|+|+|++|..+|++.+.+.- ...|.|.|||+||
T Consensus 840 -------ee~~d---e~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~~-~stv~VatVDsfQ 908 (1025)
T KOG1807|consen 840 -------EECMD---EMSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQNY-RSTVQVATVDSFQ 908 (1025)
T ss_pred -------ccCcc---hhhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHHh-cCcceEEEecccc
Confidence 22222 268999999999999999999999999999999999999999999998743 3469999999999
Q ss_pred CccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEEecCccccc-ChHHHHHHHHHHHcCcEEecCCCCCcCC
Q 038763 600 GREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSSTICH-NTFLARLLRHIRYFGRVKHAEPGSFGGS 678 (690)
Q Consensus 600 G~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 678 (690)
|.|.|||++|+||||..|.+|||.-.+|++||+||||++|+||||...+.. .|.|.+.++-+++++.|-..-|.--..+
T Consensus 909 GeEndIVLlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~lpl~c~~h 988 (1025)
T KOG1807|consen 909 GEENDIVLLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEALPLICSTH 988 (1025)
T ss_pred CccccEEEEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccccccccceeec
Confidence 999999999999999999999999999999999999999999999999987 7899999999999998876655544444
Q ss_pred CC
Q 038763 679 GL 680 (690)
Q Consensus 679 ~~ 680 (690)
++
T Consensus 989 ~~ 990 (1025)
T KOG1807|consen 989 KD 990 (1025)
T ss_pred CC
Confidence 43
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.2e-47 Score=448.20 Aligned_cols=421 Identities=35% Similarity=0.517 Sum_probs=325.9
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEe-CCCCCChhH--HHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHhc--CCce
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQ-GPPGTGKTG--LLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSDV--GLNI 306 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~-GPPGTGKT~--tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~~--~~~~ 306 (690)
..++..|..++...... .+..+++ ||||||||. ++.+.+.+.... +.+++.|+++|.++++++.++... ....
T Consensus 273 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (767)
T COG1112 273 KELDNEQKLAVKRLLSL-NDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVEL 351 (767)
T ss_pred hhccchhHHHHHHHhcc-cceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccce
Confidence 45899999999888776 4566666 999999999 888888887776 789999999999999999999885 3578
Q ss_pred eecCCCcccCchhccccHHHHHHHHHH---------HHHHHHHHHH-------HHHHHHH-----HHHhc-c--------
Q 038763 307 VRVGNPARISPAVASKSLGEIVKSKLA---------SFVAEFERKK-------SDLRKDL-----RQCLK-D-------- 356 (690)
Q Consensus 307 vRiG~~~r~~~~~~~~~l~~~~~~~l~---------~~~~~~~~~~-------~~~~~~l-----~~~~~-~-------- 356 (690)
+|++++.+....+...++......... ....++.... ..+.... ..... .
T Consensus 352 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 431 (767)
T COG1112 352 LRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILP 431 (767)
T ss_pred EEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhH
Confidence 999999988777776666644432100 0000100000 0000000 00000 0
Q ss_pred h-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEEEcccccchHHHhcCCCcccc------------------
Q 038763 357 D-----SLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVLATNTGAADPLIRRLDTFDLV------------------ 413 (690)
Q Consensus 357 ~-----~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~~T~~~a~~~~l~~~~~fD~v------------------ 413 (690)
. ..............+..+.........+...++++++|++.++...+... .||++
T Consensus 432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~-~fd~viiDEAsQ~~~~~~~~~l~ 510 (767)
T COG1112 432 ALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKY-EFDYVIIDEASQATEPSALIALS 510 (767)
T ss_pred HHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhccc-ccCEEEEcchhcccchhHHHhHh
Confidence 0 00000111122222333444456667777888899999999998877765 78888
Q ss_pred -cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccc
Q 038763 414 -GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASH 492 (690)
Q Consensus 414 -~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~ 492 (690)
++++|++|||+||||++.+......++..++|+++...++ ....+|+.||||||.|+.|+|..||+|++..+......
T Consensus 511 ~~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~-~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~ 589 (767)
T COG1112 511 RAKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGP-EVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAF 589 (767)
T ss_pred hcCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCC-chheeeeeecccChhhhhCchhhccCCccccCcchhhh
Confidence 7999999999999999987655667899999999998766 45689999999999999999999999999999876654
Q ss_pred cccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHH
Q 038763 493 LLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVA 572 (690)
Q Consensus 493 ~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~ 572 (690)
......... .....|+.|+|+.+. .+ .....++.|..||..+..++..++..++.+.+|||||||++
T Consensus 590 ~~~~~~~~~--~~~~~~~~~~~~~~~--------~~---~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~ 656 (767)
T COG1112 590 TLLDGEIPE--VVISNPLEFYDTLGA--------EE---FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRA 656 (767)
T ss_pred hhhcccccc--ccccCceEEEEecCc--------cc---ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHH
Confidence 332221111 113578999998742 11 23456899999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCeEEecccCccCccccEEEEEeeecCCC-CcccccCCCCceeeeeccccccEEEEecCcccccC
Q 038763 573 QVQHLRERLDDLPEAAGVEVATIDSFQGREADAVIISMVRSNTL-GAVGFLGDSRRMNVAITRACKHVAVVCDSSTICHN 651 (690)
Q Consensus 573 Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrsn~~-~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~~ 651 (690)
|+.++++.+.... .+++|+|||+|||+|+|+||+|+||||.. +.+||+.|.||||||+||||++|||||+..++..+
T Consensus 657 q~~~i~~~~~~~~--~~v~v~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~ 734 (767)
T COG1112 657 QVSLIRRLLNEAG--KGVEVGTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESD 734 (767)
T ss_pred HHHHHHHHHHhcC--CceEEeeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhc
Confidence 9999999997643 57999999999999999999999999998 79999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHcCcEEecC
Q 038763 652 TFLARLLRHIRYFGRVKHAE 671 (690)
Q Consensus 652 ~~~~~l~~~~~~~~~~~~~~ 671 (690)
+.|.+++.+++..+.+....
T Consensus 735 ~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 735 PLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred hhHHHHHHHHHhcCcEeecc
Confidence 99999999999999998877
No 7
>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=1.1e-38 Score=316.10 Aligned_cols=194 Identities=36% Similarity=0.537 Sum_probs=136.2
Q ss_pred CCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCC
Q 038763 440 IGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPY 519 (690)
Q Consensus 440 l~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~ 519 (690)
++.|||+|+.... ..+.++|++||||||+|++|+|..||+|+|.+.+++...... ..........|++|+|+.+.
T Consensus 1 ~~~Slferl~~~~-~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~---~~~~~~~~~~~~~~i~v~~~- 75 (200)
T PF13087_consen 1 LDRSLFERLIKNG-SVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAP---LLKLLPSPQNPIVFIDVSGS- 75 (200)
T ss_dssp TTS-HHHHHHHCT-----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T--------SSTTSSEEEEE-----
T ss_pred CCccHHHHHHHcC-CCCceecccccCCCHHHHHHHHHHHhchhcccCccccccccc---ccccccCCCCceEEEecccc-
Confidence 5689999998753 367799999999999999999999999999998865543322 11122234578999999742
Q ss_pred CCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCC---CcEEEEcCcHHHHHHHHHHhhcCCCCC---CeEEe
Q 038763 520 GSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSP---SAIAVQSPYVAQVQHLRERLDDLPEAA---GVEVA 593 (690)
Q Consensus 520 ~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~---~~IgIItpY~~Qv~~l~~~L~~~~~~~---~v~V~ 593 (690)
. ........|++|..||+.|+++++.|+..+... .+|||||||++|+.+|++.|.+..... .++|+
T Consensus 76 -------~-~~~~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~ 147 (200)
T PF13087_consen 76 -------E-SSSESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVS 147 (200)
T ss_dssp -------E-EEETTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEE
T ss_pred -------c-ccccccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEe
Confidence 1 112222269999999999999999999987765 899999999999999999998743221 29999
Q ss_pred cccCccCccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEEecCc
Q 038763 594 TIDSFQGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSS 646 (690)
Q Consensus 594 TVd~fQG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~ 646 (690)
|||+|||+|+|+||+|+|+++....+||+.+.+|+|||+||||++||||||.+
T Consensus 148 Tvd~~QG~E~diVi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 148 TVDSFQGQEADIVIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp EHHHHTT--EEEEEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred cHHHhccccceEEEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 99999999999999999999987889999999999999999999999999863
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=8.6e-36 Score=347.09 Aligned_cols=271 Identities=32% Similarity=0.373 Sum_probs=218.7
Q ss_pred hcCcEEEEcccccchHH-HhcCCCcccc---------------------cceeeecCCCCCCCccccchhhhhcCCCccH
Q 038763 387 SSAQVVLATNTGAADPL-IRRLDTFDLV---------------------GKRCILAGDQCQLAPVILSRKALEGGIGVSL 444 (690)
Q Consensus 387 ~~a~Vv~~T~~~a~~~~-l~~~~~fD~v---------------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SL 444 (690)
+++.+|++|+.+.+..+ +.....||.+ .++++++||+.|||++|.|..+...++..|+
T Consensus 513 ~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~sl 592 (827)
T KOG1801|consen 513 EEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSL 592 (827)
T ss_pred ccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhH
Confidence 37899999998877632 2222345544 5899999999999999999999899999999
Q ss_pred HHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCC
Q 038763 445 LERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSL 524 (690)
Q Consensus 445 feRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~ 524 (690)
|+|+.-. +....+|++||||||+|..|||..||+|+|...+.+........+.. .....|+.|+|+..
T Consensus 593 f~rl~l~--~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~---~~~~~~y~f~~v~~------- 660 (827)
T KOG1801|consen 593 FERLELA--GHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHS---GETFGPYPFFNVHY------- 660 (827)
T ss_pred HHHHHHc--cCccceecceeecCCccccCccccccccccccCcccchhhccccCcC---CCccCceEEEEecc-------
Confidence 9999654 44556999999999999999999999999988877663322111111 11235788888762
Q ss_pred CcccccccCCCCCccCHHHHHHHHHHHHHHHHC----CCCCCcEEEEcCcHHHHHHHHHHhhcCCC-----CCCeEEecc
Q 038763 525 GCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICA----GVSPSAIAVQSPYVAQVQHLRERLDDLPE-----AAGVEVATI 595 (690)
Q Consensus 525 ~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~----g~~~~~IgIItpY~~Qv~~l~~~L~~~~~-----~~~v~V~TV 595 (690)
+.++. .++.|..|..|+..+..++..+.+. +..+..+|||+||+.|+..+++....... ...+.+.||
T Consensus 661 g~e~~---~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tv 737 (827)
T KOG1801|consen 661 GKERA---GGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTV 737 (827)
T ss_pred ccccc---CCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEec
Confidence 22222 2236899999999999999988852 33477999999999999999998865321 136999999
Q ss_pred cCccCccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEEecCcccccChH-HHHHHHHHHHcCcEEecCC
Q 038763 596 DSFQGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSSTICHNTF-LARLLRHIRYFGRVKHAEP 672 (690)
Q Consensus 596 d~fQG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~~~~-~~~l~~~~~~~~~~~~~~~ 672 (690)
|+|||.|+|+||+|+||++..+.+||+.+.||+|||+||||+.++++||..+|..... |..++.-.+..|+......
T Consensus 738 D~fqg~e~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~ 815 (827)
T KOG1801|consen 738 DSFQGGERDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAA 815 (827)
T ss_pred ccccCCCCceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccc
Confidence 9999999999999999999999999999999999999999999999999999987665 9999999999999876554
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.3e-36 Score=338.47 Aligned_cols=352 Identities=28% Similarity=0.329 Sum_probs=255.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhcCCceee-cCCCcccCchhccccHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDVGLNIVR-VGNPARISPAVASKSLGEIV 328 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~~~~~vR-iG~~~r~~~~~~~~~l~~~~ 328 (690)
...+++||||||||.++++.+.++.- ....+++|+++|+|.|....|+.. +.-+-+ .|.+.+.... +. ...
T Consensus 327 ~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~-p~~~~~~~~~~~~~~~~----~~-~~~ 400 (775)
T KOG1804|consen 327 EPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHY-PLTFSTARGEDVRAKSS----TA-WYN 400 (775)
T ss_pred cccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccccccccccc-cccccccccccccccch----hH-Hhh
Confidence 45899999999999999887777643 567999999999999999999833 111111 1111111000 00 000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEEEcccccchHHHhc--
Q 038763 329 KSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVLATNTGAADPLIRR-- 406 (690)
Q Consensus 329 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~~T~~~a~~~~l~~-- 406 (690)
... ..... .+.+ ... .+....++++||+.++.-.-..
T Consensus 401 ~~~--------------v~~~~------------------------~~~e--~~~-~~~~~~i~i~t~~sag~~~~~g~~ 439 (775)
T KOG1804|consen 401 NAE--------------VSEVV------------------------EKVE--ELR-KVWPYRWGITTCTSAGCVTSYGFQ 439 (775)
T ss_pred hHH--------------HHHHH------------------------HHHH--HHh-hccceEEEEeeccceeeeeccccc
Confidence 000 00000 0000 000 2345778889988776321111
Q ss_pred CCCc-----ccc-----------------cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHh----------CCC
Q 038763 407 LDTF-----DLV-----------------GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATL----------HEG 454 (690)
Q Consensus 407 ~~~f-----D~v-----------------~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~----------~~~ 454 (690)
.++| |.. ..++||.|||+||+|++.|..+...|++.|||+|+.+. |..
T Consensus 440 v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~ 519 (775)
T KOG1804|consen 440 VGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNA 519 (775)
T ss_pred ccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCccc
Confidence 1122 221 34799999999999999999999999999999999753 344
Q ss_pred ccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCC
Q 038763 455 VLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAG 534 (690)
Q Consensus 455 ~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~ 534 (690)
...+.|..+||+||.|+..+|+.||+|.|............ ..|.. .++|.-+. |+.+. ...
T Consensus 520 l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~------~~w~~--liif~g~~--------G~~~r--~~~ 581 (775)
T KOG1804|consen 520 LCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGL------ELWSG--LILFYGAP--------GFTER--AGN 581 (775)
T ss_pred ccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHH------Hhccc--ceeccccc--------ccccc--ccC
Confidence 56789999999999999999999999999886543322111 12321 25555443 22222 223
Q ss_pred CCCccCHHHHHHHHHHHHHHHHCC-CCCCcEEEEcCcHHHHHHHHHHhhcCCCCCCeEEecccCccCccccEEEEEeeec
Q 038763 535 TGSFYNEGEAEIVVHHVFSLICAG-VSPSAIAVQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQGREADAVIISMVRS 613 (690)
Q Consensus 535 ~~S~~N~~Ea~~v~~~v~~L~~~g-~~~~~IgIItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs 613 (690)
+.|++|+.||..|..+++.+.... ..+.||||||||++|++.|+..+... +..++.|++|..|||+|+.|||+|+|||
T Consensus 582 s~S~~n~~Ea~~V~~~~k~l~~~~~~~~~DIgvitpy~aq~~~i~~~l~~~-~~~~~~vgsVe~fqGqE~~viiiStVrS 660 (775)
T KOG1804|consen 582 SPSWLNLEEAAVVVRMTKALPLGEVAQPQDIGVITPYTAQVSEIRKALRRL-GVPGVKVGSVEEFQGQEPWVILGSTVRS 660 (775)
T ss_pred ChhhccHHHHHHHHHHHhccCCCCccccccceeeCcHHHHHHHHHHHhccc-CCCCCcccceeeeccccceeeEeecccc
Confidence 569999999999988888877533 45569999999999999999999874 4678999999999999999999999999
Q ss_pred CCCC------cccccCCCCceeeeeccccccEEEEecCcccccChHHHHHHHHHHHcCcEEe
Q 038763 614 NTLG------AVGFLGDSRRMNVAITRACKHVAVVCDSSTICHNTFLARLLRHIRYFGRVKH 669 (690)
Q Consensus 614 n~~~------~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~~~~~~~l~~~~~~~~~~~~ 669 (690)
.... ..+|+.+++|+|||+|||+..++++|+...+...+.|+.++.++.++|.+..
T Consensus 661 ~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~ 722 (775)
T KOG1804|consen 661 FALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPG 722 (775)
T ss_pred cCCCcccccccceeecCcccceeeccCccccccccCCcccccCCCChhhheeeeecCCcccC
Confidence 8631 2349999999999999999999999999999999999999999999998865
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=99.96 E-value=4.6e-29 Score=252.74 Aligned_cols=197 Identities=34% Similarity=0.557 Sum_probs=112.9
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHH--------HHcCCeEEEEcCChHHHHHHHHHHHh----
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARA--------VQQGERVLVTAPTNAAVDNMVEKLSD---- 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l--------~~~g~rVLv~a~SN~AvD~l~erL~~---- 301 (690)
.||++|++||..++... .+++|+||||||||+|++.++..+ ...+.+||+||+||.|||+++++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~-~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~ 79 (236)
T PF13086_consen 1 KLNESQREAIQSALSSN-GITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDE 79 (236)
T ss_dssp ---HHHHHHHHHHCTSS-E-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC----
T ss_pred CCCHHHHHHHHHHHcCC-CCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhccc
Confidence 38999999999999864 369999999999999999999999 45678999999999999999999998
Q ss_pred ----cCCceeecCCCc-ccCchhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHH
Q 038763 302 ----VGLNIVRVGNPA-RISPAVASKSLGEIVKSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKK 376 (690)
Q Consensus 302 ----~~~~~vRiG~~~-r~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~ 376 (690)
....++|+|++. ...+.+..++++..+..........+......+...+..... ......+........+.++.
T Consensus 80 ~~~~~~~~~ir~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 158 (236)
T PF13086_consen 80 DGKVYKPKIIRLGSEEEKIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSEL-KEEKKKLKKSIKRLRKELEK 158 (236)
T ss_dssp ----TT--EEE---GGTTS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHH-HHHHCCSSCHHHHHHHHHHH
T ss_pred cccccccchhhhcccccccccccccccccccccccccccchhhhHHHHHHHHhhhhhhh-hhhhhhcchhcccccccccc
Confidence 356899999998 667777777776655443321111111111111111000000 00000001111222233334
Q ss_pred HHHHHHHHHhhcCcEEEEcccccchHHHhcCC-Ccccc--------------------cceeeecCCCCCCCccccc
Q 038763 377 KEKETVKEVLSSAQVVLATNTGAADPLIRRLD-TFDLV--------------------GKRCILAGDQCQLAPVILS 432 (690)
Q Consensus 377 ~~~~~~~~il~~a~Vv~~T~~~a~~~~l~~~~-~fD~v--------------------~~~~VLvGD~~QLpP~v~s 432 (690)
........++..++||+||+.++....+.... .||+| ++++||+|||+||||++.|
T Consensus 159 ~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 159 IREELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp HHHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S-
T ss_pred cccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCC
Confidence 44455578899999999999998666555443 78877 4999999999999999976
No 11
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.95 E-value=3.9e-28 Score=269.11 Aligned_cols=406 Identities=25% Similarity=0.317 Sum_probs=267.3
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhcCCc---eeec
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDVGLN---IVRV 309 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~~~~---~vRi 309 (690)
.|+.|.+||..... .+++.+.||||||||.+++.+|.-+-. +..+-|++++||.|...+-+++.+..++ ++|+
T Consensus 739 ft~~qveai~sg~q--pgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d~rhLlrl 816 (1320)
T KOG1806|consen 739 FTPTQVEAILSGMQ--PGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVDERHLLRL 816 (1320)
T ss_pred cCHHHHHHHHhcCC--CCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccchhhHHHh
Confidence 68999999998775 358999999999999999999988776 5689999999999999999999875432 4566
Q ss_pred CCCcccCchhccc------------------------------------------cHHHHHHHHHHHHHHHHHHHHHHHH
Q 038763 310 GNPARISPAVASK------------------------------------------SLGEIVKSKLASFVAEFERKKSDLR 347 (690)
Q Consensus 310 G~~~r~~~~~~~~------------------------------------------~l~~~~~~~l~~~~~~~~~~~~~~~ 347 (690)
||..........+ .....+.+.++++.....+......
T Consensus 817 g~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~~~~~ 896 (1320)
T KOG1806|consen 817 GHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGCDKDS 896 (1320)
T ss_pred cccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCCCchh
Confidence 6532111111000 0111111122222222110000000
Q ss_pred HH-HHHH------hcc--------------hhHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhhcCcEEEEccc
Q 038763 348 KD-LRQC------LKD--------------DSLAAGIRQLLKQLGKTLKK---------KEKETVKEVLSSAQVVLATNT 397 (690)
Q Consensus 348 ~~-l~~~------~~~--------------~~~~~~~~~~~~~l~~~~~~---------~~~~~~~~il~~a~Vv~~T~~ 397 (690)
.. .... +.+ .+.+.+.+..++.....+.+ .+.....-+.+.+.+|.+||+
T Consensus 897 ~~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtct 976 (1320)
T KOG1806|consen 897 VDIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCT 976 (1320)
T ss_pred hhhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccC
Confidence 00 0000 000 01122222222222222211 122233335578999999999
Q ss_pred ccchHH---HhcCCCcccc----------------------------cceeeecCCCCCCCccccch-hhhhcCCCccHH
Q 038763 398 GAADPL---IRRLDTFDLV----------------------------GKRCILAGDQCQLAPVILSR-KALEGGIGVSLL 445 (690)
Q Consensus 398 ~a~~~~---l~~~~~fD~v----------------------------~~~~VLvGD~~QLpP~v~s~-~a~~~gl~~SLf 445 (690)
.++... +...-.||-. -++++++|||.|+||++... .......+.|||
T Consensus 977 haalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf 1056 (1320)
T KOG1806|consen 977 HAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLF 1056 (1320)
T ss_pred ChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhh
Confidence 887432 2211133322 47999999999999999654 344456778999
Q ss_pred HHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCC
Q 038763 446 ERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLG 525 (690)
Q Consensus 446 eRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~ 525 (690)
.|+... +++.+.|+.|+|--+.|+.+.+..+-.-..-.+.+...+. . ..+-....++.|++...-. |
T Consensus 1057 ~r~vRl--~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f----~--~aNagf~~~~qlinv~Df~-----g 1123 (1320)
T KOG1806|consen 1057 TRLVRL--GVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRF----Q--YANAGFAYEFQFINVPDFK-----G 1123 (1320)
T ss_pred hcceec--ccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhh----h--ccccCceeeEEEecchhhc-----c
Confidence 999655 7888999999999999999987654321222222211110 0 0111234678888876422 2
Q ss_pred cccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHHHHHHHhhcCCC-----CCCeEEecccCccC
Q 038763 526 CEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQHLRERLDDLPE-----AAGVEVATIDSFQG 600 (690)
Q Consensus 526 ~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~~l~~~L~~~~~-----~~~v~V~TVd~fQG 600 (690)
..|... ...-+.|..||+.++....++.--|++.+.|.|.|.|++|+.++++.+..... ...-.|.|||.|||
T Consensus 1124 ~gEt~p--~p~fyQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qg 1201 (1320)
T KOG1806|consen 1124 SGETEP--SPGFYQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQG 1201 (1320)
T ss_pred ccccCC--CcccccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccc
Confidence 222211 22357799999999999999988999999999999999999999999876422 23468999999999
Q ss_pred ccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEEecCccccc----ChHHHHHHHH
Q 038763 601 READAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVCDSSTICH----NTFLARLLRH 660 (690)
Q Consensus 601 ~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG~~~tl~~----~~~~~~l~~~ 660 (690)
+..|.||+|+||+.. +|.+.|.||+.||++||+.+++|.|......+ -|.|+.+-++
T Consensus 1202 qqndfiIlslv~tr~---~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~ 1262 (1320)
T KOG1806|consen 1202 QQNDFIILSLVRTRE---VGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKR 1262 (1320)
T ss_pred cccceEEeeehhhhh---hhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhC
Confidence 999999999999875 89999999999999999999999998875543 4677666554
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.94 E-value=5.1e-26 Score=260.51 Aligned_cols=196 Identities=20% Similarity=0.186 Sum_probs=125.9
Q ss_pred ceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccc
Q 038763 415 KRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLL 494 (690)
Q Consensus 415 ~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l 494 (690)
.++++|||+.| .| +...|.+.+++..+...++....+.|+++||+++.|.+++|..+-.+.-.....+
T Consensus 460 ~~l~~VGD~~Q---sI----Y~frGa~~~~~~~f~~~f~~~~~~~L~~nYRs~~~I~~~An~~i~~n~~~~~k~l----- 527 (684)
T PRK11054 460 TTLFAVGDDWQ---AI----YRFSGADLSLTTAFHERFGEGDRCHLDTTYRFNSRIGEVANRFIQQNPHQLKKPL----- 527 (684)
T ss_pred CeEEEEECCCc---cc----cccCCCChHHHHHHHhhcCCCeEEEeCCCCCCCHHHHHHHHHHHHhCccccCCcc-----
Confidence 57999999999 33 2345777788888776666555678999999999999999987633210000000
Q ss_pred cCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHH
Q 038763 495 VDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQV 574 (690)
Q Consensus 495 ~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv 574 (690)
.....+..|.+.+- ...+.+.++..+..+.. +..+|+||++|+.+.
T Consensus 528 ------~s~~~g~~p~v~~~-------------------------~~~~~~~il~~l~~~~~---~~~~I~IL~R~~~~~ 573 (684)
T PRK11054 528 ------NSLTKGDKKAVTLL-------------------------PEDQLEALLDKLSGYAK---PDERILLLARYHHLR 573 (684)
T ss_pred ------cccCCCCCceEEEe-------------------------CCHHHHHHHHHHHHhhc---CCCcEEEEEechhhH
Confidence 00001112222210 01245556666655543 357999999999887
Q ss_pred HHHHHHhh-cCCCCCCeEEecccCccCccccEEEEEeeecCCCC-------------------cccccCCCCceeeeecc
Q 038763 575 QHLRERLD-DLPEAAGVEVATIDSFQGREADAVIISMVRSNTLG-------------------AVGFLGDSRRMNVAITR 634 (690)
Q Consensus 575 ~~l~~~L~-~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrsn~~~-------------------~~gfl~d~rRlNVAlTR 634 (690)
..+-+.+. ..+ ..+|.+.|+|+.+|+|+|.|||..+.+...+ ....-.++|.+|||+||
T Consensus 574 ~~~l~~~~~~~~-~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~~~~~~~~~~~eERRLlYVAlTR 652 (684)
T PRK11054 574 PALLDKAATRWP-KLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEALLPPPEDFPDAEERRLLYVALTR 652 (684)
T ss_pred HHHHHHHHhhcc-cCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcccccccccccHHHHHHHHHHhhh
Confidence 54444333 233 2479999999999999999999776543210 00112347778999999
Q ss_pred ccccEEEEecCcccccChHHHHHHH
Q 038763 635 ACKHVAVVCDSSTICHNTFLARLLR 659 (690)
Q Consensus 635 Ak~~LiivG~~~tl~~~~~~~~l~~ 659 (690)
||+.|+|+.+.. ..++|...+.+
T Consensus 653 Ar~~l~i~~~~~--~~S~fv~el~~ 675 (684)
T PRK11054 653 AKHRVWLLFNKG--NPSPFVEELKN 675 (684)
T ss_pred hhcEEEEEEcCC--CCCHHHHHHhh
Confidence 999999998744 23555555543
No 13
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.93 E-value=1.3e-24 Score=253.98 Aligned_cols=126 Identities=21% Similarity=0.146 Sum_probs=86.1
Q ss_pred cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCccccccc
Q 038763 414 GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHL 493 (690)
Q Consensus 414 ~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~ 493 (690)
..++++|||++| ..+...|.+...|.++...+++...+.|..|||+++.|++++|..+-++.-......
T Consensus 240 ~~~l~vVGD~dQ-------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k~~---- 308 (721)
T PRK11773 240 TGKVMIVGDDDQ-------SIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKEL---- 308 (721)
T ss_pred CCeEEEEecCcc-------cccccCCCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCccc----
Confidence 468999999999 333456778888888877787776789999999999999999998855421111000
Q ss_pred ccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHH
Q 038763 494 LVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQ 573 (690)
Q Consensus 494 l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Q 573 (690)
. .....+.++.++- ......||..|++.|..++..|++++||+|+++.+.|
T Consensus 309 -----~--~~~~~g~~v~~~~----------------------~~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~ 359 (721)
T PRK11773 309 -----W--TDGGDGEPISLYC----------------------AFNELDEARFVVERIKTWQDNGGALSDCAILYRSNAQ 359 (721)
T ss_pred -----c--cCCCCCCeeEEEe----------------------CCCHHHHHHHHHHHHHHHHHcCCCcccEEEEEecchh
Confidence 0 0000011222211 1113579999999999999989999999999977766
Q ss_pred HHHHHH
Q 038763 574 VQHLRE 579 (690)
Q Consensus 574 v~~l~~ 579 (690)
...+.+
T Consensus 360 ~~~le~ 365 (721)
T PRK11773 360 SRVLEE 365 (721)
T ss_pred HHHHHH
Confidence 554433
No 14
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.93 E-value=1.7e-24 Score=253.35 Aligned_cols=126 Identities=20% Similarity=0.139 Sum_probs=85.7
Q ss_pred cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCccccccc
Q 038763 414 GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHL 493 (690)
Q Consensus 414 ~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~ 493 (690)
+.++++|||++| . .+...|.+...|.++.+.+++...+.|.+|||+++.|.+++|..+-++.-.....
T Consensus 235 ~~~l~vVGD~~Q---s----IY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~~----- 302 (715)
T TIGR01075 235 TGNVMIVGDDDQ---S----IYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGKN----- 302 (715)
T ss_pred CCeEEEEeCCcc---c----ccccCCCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhcccccccc-----
Confidence 468999999999 3 3345577788888887777776678999999999999999999886542111100
Q ss_pred ccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHH
Q 038763 494 LVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQ 573 (690)
Q Consensus 494 l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Q 573 (690)
.. ..-..+.++.++.. .....||+.|++.+..++..|.+++||+|+++.+.|
T Consensus 303 ----~~--~~~~~g~~i~~~~~----------------------~~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~ 354 (715)
T TIGR01075 303 ----LW--TDGEVGEPISLYSA----------------------FNELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQ 354 (715)
T ss_pred ----cc--CCCCCCCceEEEeC----------------------CCHHHHHHHHHHHHHHHHHcCCCccCEEEEEecCch
Confidence 00 00000112222211 113468999999999999889899999999887776
Q ss_pred HHHHHH
Q 038763 574 VQHLRE 579 (690)
Q Consensus 574 v~~l~~ 579 (690)
...+..
T Consensus 355 ~~~le~ 360 (715)
T TIGR01075 355 SRVLEE 360 (715)
T ss_pred HHHHHH
Confidence 654443
No 15
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.93 E-value=7.6e-24 Score=248.47 Aligned_cols=124 Identities=15% Similarity=0.047 Sum_probs=83.9
Q ss_pred cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCccccccc
Q 038763 414 GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHL 493 (690)
Q Consensus 414 ~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~ 493 (690)
.+++++|||++| .| +...|.+...|.++.+.+++...+.|.+|||+++.|++++|..+-++.-......
T Consensus 236 ~~~l~vVGD~~Q---sI----Y~fRgA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~~l---- 304 (726)
T TIGR01073 236 FRNLCVVGDADQ---SI----YGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNL---- 304 (726)
T ss_pred CCEEEEEeCCCc---cc----cccCCCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhccccccccc----
Confidence 468999999999 33 3455777778878877777766789999999999999999998765421111000
Q ss_pred ccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCC-CCCCcEEEEcCcHH
Q 038763 494 LVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAG-VSPSAIAVQSPYVA 572 (690)
Q Consensus 494 l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g-~~~~~IgIItpY~~ 572 (690)
...-..+.++.++.. ..-..||+.|+..+..++..| ++++||+||++.+.
T Consensus 305 -------~~~~~~g~~v~~~~~----------------------~~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~ 355 (726)
T TIGR01073 305 -------WTENSSGDKITYYEA----------------------DTERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNA 355 (726)
T ss_pred -------ccCCCCCcceEEEeC----------------------CCHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCch
Confidence 000001122333211 113478999999999998876 68899999998877
Q ss_pred HHHHH
Q 038763 573 QVQHL 577 (690)
Q Consensus 573 Qv~~l 577 (690)
|...+
T Consensus 356 ~~~~l 360 (726)
T TIGR01073 356 QSRVF 360 (726)
T ss_pred hHHHH
Confidence 65543
No 16
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.92 E-value=2.7e-23 Score=240.21 Aligned_cols=65 Identities=22% Similarity=0.375 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc-C---CeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ-G---ERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g---~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.||++|++||... .+ ..+|.|+||||||+|+++.|.+++.. | .+||++|+||.|+++|.+|+...
T Consensus 2 ~Ln~~Q~~av~~~---~g-~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 2 RLNPGQQQAVEFV---TG-PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CCCHHHHHHHhCC---CC-CEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHH
Confidence 4999999999853 23 45777888999999999999999963 3 68999999999999999999763
No 17
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.88 E-value=1.6e-21 Score=227.43 Aligned_cols=64 Identities=23% Similarity=0.365 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc-C---CeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ-G---ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g---~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.||+.|++||... . +..+|.|+||||||+|++..|..++.. | .+||++|+||.|+.++.+|+.+
T Consensus 1 ~Ln~~Q~~av~~~---~-~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 1 KLNPQQQEAVEYV---T-GPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred CCCHHHHHHHhCC---C-CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHH
Confidence 3899999999753 2 346888999999999999999999963 3 6899999999999999999976
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=99.86 E-value=5.4e-21 Score=221.66 Aligned_cols=65 Identities=34% Similarity=0.495 Sum_probs=57.5
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL 299 (690)
..||+.|++|+..++.+ ++++|.|+|||||||++..++..+...+ .+|++||||+.|++.|.+.+
T Consensus 322 ~~l~~~Q~~Ai~~~~~~--~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~ 388 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQH--KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVT 388 (720)
T ss_pred CCCCHHHHHHHHHHHhC--CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhc
Confidence 46999999999998763 5999999999999999999988887777 79999999999999876653
No 19
>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=1.7e-20 Score=211.62 Aligned_cols=63 Identities=37% Similarity=0.542 Sum_probs=56.4
Q ss_pred HHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC-----CeEEEEcCChHHHHHHHHHHHh
Q 038763 237 DSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG-----ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 237 ~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g-----~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+.|+.|+..++.+ .+++|.||||||||||++.++..+.+.+ .+|++||||+.|+..|.+.+..
T Consensus 148 ~~Qk~A~~~al~~--~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 148 NWQKVAVALALKS--NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred HHHHHHHHHHhhC--CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 6899999999974 5999999999999999999998887632 4799999999999999998865
No 20
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.85 E-value=1.8e-20 Score=211.71 Aligned_cols=65 Identities=35% Similarity=0.485 Sum_probs=57.4
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc----CCeEEEEcCChHHHHHHHHHHHh
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ----GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~----g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..+.|+.|+..++.. ++++|.||||||||||+..++..+.+. +.+|++||||+.|+..|.+.+..
T Consensus 153 ~~d~Qk~Av~~a~~~--~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~ 221 (615)
T PRK10875 153 EVDWQKVAAAVALTR--RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK 221 (615)
T ss_pred CCHHHHHHHHHHhcC--CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence 458999999999874 599999999999999999999988763 25899999999999999998864
No 21
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=99.82 E-value=2.4e-19 Score=208.62 Aligned_cols=65 Identities=22% Similarity=0.288 Sum_probs=58.4
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
..||+.|++|+..++.+ ..+++|+|||||||||++..++..+...|.+|++||||+.|+..|.+.
T Consensus 351 ~~Ls~~Q~~Av~~i~~s-~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~ 415 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGS-GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAE 415 (744)
T ss_pred CCCCHHHHHHHHHHhcC-CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhc
Confidence 35999999999998875 469999999999999999998888888899999999999999998753
No 22
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.79 E-value=2.5e-18 Score=200.44 Aligned_cols=129 Identities=22% Similarity=0.145 Sum_probs=92.7
Q ss_pred ceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCcccccccc
Q 038763 415 KRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLL 494 (690)
Q Consensus 415 ~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l 494 (690)
..+.+|||+.| .| ....|.....|..+...++......|..|||+.+.|...+|..+-++.-........
T Consensus 241 ~~l~~VGD~dQ---sI----Y~frGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~k~l~~--- 310 (655)
T COG0210 241 ANLFVVGDDDQ---SI----YGFRGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQAKTLRT--- 310 (655)
T ss_pred CCEEEEcCCcc---cc----ceeCCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCCCccee---
Confidence 57889999999 33 346788999999998888877789999999999999999998876322111111000
Q ss_pred cCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCC-CCCCcEEEEcCcHHH
Q 038763 495 VDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAG-VSPSAIAVQSPYVAQ 573 (690)
Q Consensus 495 ~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g-~~~~~IgIItpY~~Q 573 (690)
. . ......+.++ .......||..+...+..+...| ...+||+|+...+.|
T Consensus 311 -~-~-----~~~~~~~~~~----------------------~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~ 361 (655)
T COG0210 311 -E-V-----EGSGEKVVLL----------------------LANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQ 361 (655)
T ss_pred -c-c-----CCCCCCceEE----------------------eCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcc
Confidence 0 0 0011111111 12346789999999999999888 889999999999999
Q ss_pred HHHHHHHhh
Q 038763 574 VQHLRERLD 582 (690)
Q Consensus 574 v~~l~~~L~ 582 (690)
...+...|.
T Consensus 362 s~~~e~~l~ 370 (655)
T COG0210 362 SRLIEEALR 370 (655)
T ss_pred hHHHHHHHH
Confidence 887776654
No 23
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.79 E-value=1.8e-18 Score=209.62 Aligned_cols=144 Identities=17% Similarity=0.067 Sum_probs=85.7
Q ss_pred eeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccC-----Ccccc
Q 038763 416 RCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLIS-----SSTVA 490 (690)
Q Consensus 416 ~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~-----~~~v~ 490 (690)
.+++||||+| ..+...|.+...|.++....+ ..+.|.+|||+++.|.++.|..|-...-.. ...+.
T Consensus 327 ~L~~VGDpKQ-------SIY~FRGAD~~~~~~~~~~~~--~~~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~ 397 (1087)
T TIGR00609 327 SLFLIGDPKQ-------AIYSFRGADIFTYLQAKSKAD--ARYTLGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVL 397 (1087)
T ss_pred eEEEEECCcc-------ccccCCCCCHHHHHHHHHhcC--cEEECCCCCCCcHHHHHHHHHHHhccccccccCCCCCccc
Confidence 7999999999 344566778888877765444 357999999999999999999985421100 00010
Q ss_pred cccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHC-------------
Q 038763 491 SHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICA------------- 557 (690)
Q Consensus 491 ~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~------------- 557 (690)
.......+..........++.++.... +.. ...-+-..+|+.++..+..++..
T Consensus 398 a~~~~~~~~~~~~~~~~~~i~~~~~~~----------~~~----~~~~~~~~~a~~~a~~I~~ll~~~~~~~~~~~~~~~ 463 (1087)
T TIGR00609 398 AHQKNSKGSFVINGQEQPPIHFFTTEV----------ESE----GVDDYRQTIAQKCAREIALWLASAALGLANFIATFG 463 (1087)
T ss_pred chhhcCCCccccCCCCCCCeEEeecCC----------ccc----ccchHHHHHHHHHHHHHHHHHHhccccccccccccC
Confidence 000000000000001123444443221 000 00112235677777777777643
Q ss_pred --CCCCCcEEEEcCcHHHHHHHHHHhh
Q 038763 558 --GVSPSAIAVQSPYVAQVQHLRERLD 582 (690)
Q Consensus 558 --g~~~~~IgIItpY~~Qv~~l~~~L~ 582 (690)
+++++||+|+++.+.|...+++.|.
T Consensus 464 ~r~v~~~DIAVLvRs~~~a~~i~~aL~ 490 (1087)
T TIGR00609 464 GRPLRAGDIAVLVRGRKEANQIRKALK 490 (1087)
T ss_pred cCCCCcccEEEEEeCCchHHHHHHHHH
Confidence 4678999999999999998888775
No 24
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.77 E-value=5.7e-18 Score=198.82 Aligned_cols=168 Identities=20% Similarity=0.292 Sum_probs=108.3
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCCCc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGNPA 313 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~~~ 313 (690)
.||++|++||..++... ++++|+|+|||||||++..++..+-..|.+|++||||+.|+.+|-+.. |+ .
T Consensus 346 ~Ls~eQr~Av~~il~s~-~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~t---Gi-------~- 413 (988)
T PRK13889 346 VLSGEQADALAHVTDGR-DLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGS---GI-------A- 413 (988)
T ss_pred CCCHHHHHHHHHHhcCC-CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhcc---Cc-------c-
Confidence 59999999999998753 689999999999999987776666667999999999999998886421 11 1
Q ss_pred ccCchhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcEEE
Q 038763 314 RISPAVASKSLGEIVKSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSAQVVL 393 (690)
Q Consensus 314 r~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a~Vv~ 393 (690)
..+++.+.. .+ . . -...+...+|++
T Consensus 414 -------a~TI~sll~-------------------~~----~--------------------~-----~~~~l~~~~vlI 438 (988)
T PRK13889 414 -------SRTIASLEH-------------------GW----G--------------------Q-----GRDLLTSRDVLV 438 (988)
T ss_pred -------hhhHHHHHh-------------------hh----c--------------------c-----cccccccCcEEE
Confidence 111111100 00 0 0 001233456666
Q ss_pred Ecccccc-hHHHhcCCCcccc---cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchh
Q 038763 394 ATNTGAA-DPLIRRLDTFDLV---GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDA 469 (690)
Q Consensus 394 ~T~~~a~-~~~l~~~~~fD~v---~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~ 469 (690)
..-.+.. ...+.. .+..+ +.++|||||+.||||+- .+ ..|.-+.... +...|+..||....
T Consensus 439 VDEASMv~~~~m~~--LL~~a~~~garvVLVGD~~QLpsV~---------aG-~~f~~L~~~~---~~a~LteI~RQ~~~ 503 (988)
T PRK13889 439 IDEAGMVGTRQLER--VLSHAADAGAKVVLVGDPQQLQAIE---------AG-AAFRSIHERH---GGAEIGEVRRQRED 503 (988)
T ss_pred EECcccCCHHHHHH--HHHhhhhCCCEEEEECCHHHcCCCC---------CC-chHHHHHHhc---CeEEeceeecCCCH
Confidence 6544333 222221 11111 67999999999999992 22 4565554433 34789999999766
Q ss_pred HHHhhhhccCCCcc
Q 038763 470 IASWASKEMYGGSL 483 (690)
Q Consensus 470 I~~f~s~~fY~g~L 483 (690)
...-.+..+..|+.
T Consensus 504 ~~r~aa~~i~~G~~ 517 (988)
T PRK13889 504 WQRDATRDLATGRT 517 (988)
T ss_pred HHHHHHHHHHcCCc
Confidence 55555555666653
No 25
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.77 E-value=1.4e-17 Score=196.23 Aligned_cols=64 Identities=25% Similarity=0.295 Sum_probs=57.5
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
.||++|++||..+... +.+.+|+|+|||||||++..++..+-..|.+|+.+|||+.|+..|-+.
T Consensus 381 ~Ls~eQ~~Av~~i~~~-~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~ 444 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGP-ARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKE 444 (1102)
T ss_pred CCCHHHHHHHHHHhcc-CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHh
Confidence 5999999999987653 579999999999999999999888888899999999999999988653
No 26
>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=99.77 E-value=2e-17 Score=202.71 Aligned_cols=63 Identities=33% Similarity=0.539 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC---CeEEEEcCChHHHHHHHHHHHh
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG---ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g---~rVLv~a~SN~AvD~l~erL~~ 301 (690)
++++|++||.. . +.-.+|.+++|||||+|+++.+..++..| .+||++|+||.|+.+|.+|+.+
T Consensus 2 ~t~~Q~~ai~~---~-~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 2 WTDEQWQAIYT---R-GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred CCHHHHHHHhC---C-CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHH
Confidence 78999999983 2 23468899999999999999999888755 4699999999999999999876
No 27
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.73 E-value=1.4e-16 Score=190.51 Aligned_cols=127 Identities=16% Similarity=0.116 Sum_probs=85.1
Q ss_pred eeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCCCcccCCccccccccc
Q 038763 416 RCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVASHLLV 495 (690)
Q Consensus 416 ~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~~~l~ 495 (690)
.+++|||++| ..+...|.+..+|.++...++. ....|.+|||+++.|++|.|..|-... ......
T Consensus 366 ~lf~VGD~kQ-------SIY~FRGA~~~~f~~~~~~~~~-~~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~~~~------ 430 (910)
T PRK13909 366 SFFYVGDVKQ-------SIYRFRGGKKELFDKVSKDFKQ-KVDNLDTNYRSAPLIVDFVNEVFKKKY-KNYKTQ------ 430 (910)
T ss_pred eEEEEcCchh-------hhhhhcCCChHHHHHHHHHhhh-hhcccccCCCCChHHHHHHHHHHHHHH-Hhhhhh------
Confidence 5899999999 4455668888899998776554 457899999999999999999884311 000000
Q ss_pred CCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHHHH
Q 038763 496 DTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQVQ 575 (690)
Q Consensus 496 ~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Qv~ 575 (690)
.+. ... ..+ .+.+.. . +.....+++.++..+..++..|++++||+||++.+.|..
T Consensus 431 -~~~-~~~-~~g-~v~i~~-~--------------------~~~~~~~a~~ia~~I~~l~~~g~~~~dIaILvR~~~~~~ 485 (910)
T PRK13909 431 -YAE-QHK-SGG-YVEVVE-V--------------------ADESEELLEQLLQEIQFLLEKGIDPDDIAILCWTNDDAL 485 (910)
T ss_pred -hcc-ccc-CCC-cEEEEE-C--------------------CCccHHHHHHHHHHHHHHHHcCCCcCCEEEEEecCccHH
Confidence 000 000 001 111110 0 001235688899999999999999999999999998877
Q ss_pred HHHHHhh
Q 038763 576 HLRERLD 582 (690)
Q Consensus 576 ~l~~~L~ 582 (690)
.+.+.|.
T Consensus 486 ~l~~~L~ 492 (910)
T PRK13909 486 EIKEFLQ 492 (910)
T ss_pred HHHHHHH
Confidence 6665543
No 28
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.72 E-value=2.5e-16 Score=191.43 Aligned_cols=152 Identities=14% Similarity=0.057 Sum_probs=93.2
Q ss_pred ceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccCCchhHHHhhhhccCC------CcccCCcc
Q 038763 415 KRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYRMNDAIASWASKEMYG------GSLISSST 488 (690)
Q Consensus 415 ~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYRm~~~I~~f~s~~fY~------g~L~~~~~ 488 (690)
..++||||+|| ..+...|.+..+|..............|.+|||+.+.++++.|..|-. +.....+-
T Consensus 410 ~~lF~VGD~KQ-------SIY~FRgAD~~~f~~a~~~~~~~~~~~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~ 482 (1139)
T COG1074 410 RTLFLVGDPKQ-------SIYRFRGADIFTFLEAASSEKAFARITLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPV 482 (1139)
T ss_pred CceEEecCchH-------HhhhhcCCChHHHHHHhhccccCceeecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchh
Confidence 48999999999 566777999999998866322345689999999999999999998853 22222221
Q ss_pred cccccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHH--------CCCC
Q 038763 489 VASHLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLIC--------AGVS 560 (690)
Q Consensus 489 v~~~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~--------~g~~ 560 (690)
.....-...+.....|.... ..+++... +..+..+.. ........||..|...+..+.. ..++
T Consensus 483 ~~~~~~~~~~~~~~~~~~~~-~~~~~~e~-------~~~~~~~~~-~~~~~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~ 553 (1139)
T COG1074 483 AELGARNGSPGSVNGEPLPA-LKFWEEED-------DWTAPENEE-DEREIADLEARQIAAWLRELIEGEAVLDGERPIR 553 (1139)
T ss_pred hhhhcccCCCCCCCcccchh-hhhhcCcc-------cccCCCCch-hHHHHHHHHHHHHHHHHHHHhhCCccccCCCCCC
Confidence 11100001222222221111 11111100 000000000 0023456788888888888885 3588
Q ss_pred CCcEEEEcCcHHHHHHHHHHhh
Q 038763 561 PSAIAVQSPYVAQVQHLRERLD 582 (690)
Q Consensus 561 ~~~IgIItpY~~Qv~~l~~~L~ 582 (690)
++||+|+++-+.+...|+++|+
T Consensus 554 ~~DIaILVR~~~ea~~i~~aL~ 575 (1139)
T COG1074 554 AGDIAVLVRSRNEAAAIERALK 575 (1139)
T ss_pred hhheEEEeecchhHHHHHHHHH
Confidence 8999999999999999988876
No 29
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.67 E-value=1.5e-16 Score=156.53 Aligned_cols=66 Identities=38% Similarity=0.557 Sum_probs=58.0
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
.||++|++|+..++.+...+.+|+||||||||+++..++..+...|.+|++|||||.|+++|.+++
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhh
Confidence 389999999999988766799999999999999999999888889999999999999999998885
No 30
>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=99.66 E-value=2.1e-14 Score=176.35 Aligned_cols=49 Identities=27% Similarity=0.414 Sum_probs=43.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcC---CeEEEEcCChHHHHHHHHHHHh
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQG---ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g---~rVLv~a~SN~AvD~l~erL~~ 301 (690)
-++|.+++|||||++++..+..++..| .+||++|+||.|+.+|.+|+.+
T Consensus 12 ~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 12 SAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 367999999999999999999888654 6899999999999999999865
No 31
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.65 E-value=1.4e-14 Score=176.38 Aligned_cols=50 Identities=28% Similarity=0.394 Sum_probs=42.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH-cC-----------CeEEEEcCChHHHHHHHHHHHh
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ-QG-----------ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~-~g-----------~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+..||-...|||||.||+.+...|+- .| .+|||+|+||+|+.+|.+|+.+
T Consensus 18 G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr~ 79 (1181)
T PRK10876 18 GERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIRS 79 (1181)
T ss_pred CCEEEEeCCCCcHHHHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHHH
Confidence 46899999999999999999887664 22 3899999999999999888854
No 32
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.64 E-value=6.5e-15 Score=158.23 Aligned_cols=179 Identities=21% Similarity=0.200 Sum_probs=121.8
Q ss_pred cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhC--CCccccccccccCCchhHHHhhhhccCCCcccCCccccc
Q 038763 414 GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLH--EGVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVAS 491 (690)
Q Consensus 414 ~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~--~~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~ 491 (690)
+..+-.+||-.| .+.- .+ -..+.++|....+ +++..+-|..+||++.+|++|++.++-+ .-..+
T Consensus 554 ~as~tivgd~gq---~i~~-~~----~e~~~~e~~~~~fed~~~e~v~l~~syrSt~eI~efan~~l~d-~~~~~----- 619 (747)
T COG3973 554 RASMTIVGDYGQ---VIYD-EA----QELSPMERMDVFFEDPSFEYVGLIASYRSTAEIDEFANSLLPD-RFRIH----- 619 (747)
T ss_pred hccceEeccCCc---eehh-hh----cccCHHHHHHHHHhCCCchhhhhhhhhcChHHHHHHHHHhccC-CCccc-----
Confidence 567788888888 2211 11 1246677776654 3355678999999999999999987652 11111
Q ss_pred ccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcH
Q 038763 492 HLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAGVSPSAIAVQSPYV 571 (690)
Q Consensus 492 ~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~ 571 (690)
|.. .....|.+. .+..|..=++.+-+++..|-+.| .+.|||||+..
T Consensus 620 ------p~~---rsge~p~~i-----------------------~~~~ne~l~qr~~~ii~~mkk~~--~etiaVi~kt~ 665 (747)
T COG3973 620 ------PLT---RSGEKPAVI-----------------------MSVANEELVQRNPDIIPRMKKRG--SETIAVICKTD 665 (747)
T ss_pred ------hhh---cCCCCceee-----------------------eccchHHHHHhhHHHHHHHHhcC--CCceEEECCcH
Confidence 110 011122221 13446666777777777777665 35899999999
Q ss_pred HHHHHHHHHhhcCC-----------CCCCeEEecccCccCccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEE
Q 038763 572 AQVQHLRERLDDLP-----------EAAGVEVATIDSFQGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVA 640 (690)
Q Consensus 572 ~Qv~~l~~~L~~~~-----------~~~~v~V~TVd~fQG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~Li 640 (690)
.|+..+...|++.. ...+..|.-|+-.+|.|+|.||+--.. +.. .--.|.|-||||+|||-+.|+
T Consensus 666 ~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e---~te~~~r~LYva~TRAlh~l~ 741 (747)
T COG3973 666 HDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVE---ETEQDLRDLYVAVTRALHSLY 741 (747)
T ss_pred HHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhc---ccccchhhHHHHHHHHHHHHH
Confidence 99999999987632 234678999999999999998885442 221 112468899999999999999
Q ss_pred EEec
Q 038763 641 VVCD 644 (690)
Q Consensus 641 ivG~ 644 (690)
|+|-
T Consensus 742 if~~ 745 (747)
T COG3973 742 IFGE 745 (747)
T ss_pred Hhhc
Confidence 9874
No 33
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.62 E-value=1.7e-14 Score=174.74 Aligned_cols=167 Identities=19% Similarity=0.310 Sum_probs=105.6
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHH---H-cCCeEEEEcCChHHHHHHHHHHHhcCCceeec
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAV---Q-QGERVLVTAPTNAAVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~---~-~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRi 309 (690)
.||+.|++||..+|.+.+.+++|+|+|||||||++..++..+. + .+.+|+.+|||+.|+..|.+. |+.
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~----Gi~---- 906 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA----GVD---- 906 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh----Cch----
Confidence 6999999999999987678999999999999999877655432 2 467899999999999998541 221
Q ss_pred CCCcccCchhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 038763 310 GNPARISPAVASKSLGEIVKSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSSA 389 (690)
Q Consensus 310 G~~~r~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~a 389 (690)
..+++.++... .. ... . . ..-....
T Consensus 907 -----------A~TIasfL~~~--------------------------~~-----------~~~--~--~---~~~~~~~ 931 (1623)
T PRK14712 907 -----------AQTLASFLHDT--------------------------QL-----------QQR--S--G---ETPDFSN 931 (1623)
T ss_pred -----------HhhHHHHhccc--------------------------cc-----------hhh--c--c---cCCCCCC
Confidence 11111111000 00 000 0 0 0001123
Q ss_pred cEEEEcccc-cchHHHhcCCCcccc---cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCccccccccccC
Q 038763 390 QVVLATNTG-AADPLIRRLDTFDLV---GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQYR 465 (690)
Q Consensus 390 ~Vv~~T~~~-a~~~~l~~~~~fD~v---~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qYR 465 (690)
++++..-.+ .+...+.. .+..+ +.|+|||||+.||||+- .+ +.|+-+.. ..+.++..|++.+|
T Consensus 932 ~llIVDEASMV~~~~m~~--ll~~~~~~garvVLVGD~~QL~sV~---------aG-~~F~~lq~-~~~~~ta~L~eI~R 998 (1623)
T PRK14712 932 TLFLLDESSMVGNTDMAR--AYALIAAGGGRAVASGDTDQLQAIA---------PG-QPFRLQQT-RSAADVVIMKEIVR 998 (1623)
T ss_pred cEEEEEccccccHHHHHH--HHHhhhhCCCEEEEEcchhhcCCCC---------CC-HHHHHHHH-cCCCCeEEeCeeec
Confidence 555555333 33322211 11122 47999999999999993 22 46777764 34567789999999
Q ss_pred CchhHHHhhhh
Q 038763 466 MNDAIASWASK 476 (690)
Q Consensus 466 m~~~I~~f~s~ 476 (690)
-.+++......
T Consensus 999 Q~~elr~AV~~ 1009 (1623)
T PRK14712 999 QTPELREAVYS 1009 (1623)
T ss_pred CCHHHHHHHHH
Confidence 99887765543
No 34
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.61 E-value=2.1e-14 Score=176.44 Aligned_cols=173 Identities=18% Similarity=0.286 Sum_probs=109.5
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH----cCCeEEEEcCChHHHHHHHHHHHhcCCceee
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ----QGERVLVTAPTNAAVDNMVEKLSDVGLNIVR 308 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~----~g~rVLv~a~SN~AvD~l~erL~~~~~~~vR 308 (690)
..||+.|++||..++.+.+.+++|+|+|||||||++..++..+-. .+.+|+.||||+.|+..|.+ .|+.
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~--- 1038 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 1038 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcc---
Confidence 359999999999999876679999999999999998887766532 35689999999999998754 2321
Q ss_pred cCCCcccCchhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 038763 309 VGNPARISPAVASKSLGEIVKSKLASFVAEFERKKSDLRKDLRQCLKDDSLAAGIRQLLKQLGKTLKKKEKETVKEVLSS 388 (690)
Q Consensus 309 iG~~~r~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~il~~ 388 (690)
..+++.++... . .. . . .. ......
T Consensus 1039 ------------A~TI~s~L~~~--------~-----------~~-~--------------------~-~~---~~~~~~ 1062 (1747)
T PRK13709 1039 ------------AQTLASFLHDT--------Q-----------LQ-Q--------------------R-SG---ETPDFS 1062 (1747)
T ss_pred ------------hhhHHHHhccc--------c-----------cc-c--------------------c-cc---cCCCCC
Confidence 11222111000 0 00 0 0 00 000112
Q ss_pred CcEEEEcccccc-hHHHhcCCCcccc---cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCCCcccccccccc
Q 038763 389 AQVVLATNTGAA-DPLIRRLDTFDLV---GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHEGVLATKLTTQY 464 (690)
Q Consensus 389 a~Vv~~T~~~a~-~~~l~~~~~fD~v---~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~~~~~~~L~~qY 464 (690)
.++++..-.+.. ...+.. .|..+ ..|+|||||+.||||+- .+ ..|.-+.. +.++++..|+..|
T Consensus 1063 ~~llIVDEaSMv~~~~m~~--Ll~~~~~~garvVLVGD~~QL~sV~---------aG-~~f~~l~~-~~~i~~~~L~eI~ 1129 (1747)
T PRK13709 1063 NTLFLLDESSMVGNTDMAR--AYALIAAGGGRAVSSGDTDQLQAIA---------PG-QPFRLMQT-RSAADVAIMKEIV 1129 (1747)
T ss_pred CcEEEEEccccccHHHHHH--HHHhhhcCCCEEEEecchHhcCCCC---------CC-hHHHHHHH-hCCCCeEEeCeEE
Confidence 356665544433 222221 22222 46999999999999992 22 56776754 3467778999999
Q ss_pred CCchhHHHhhhhccCCCc
Q 038763 465 RMNDAIASWASKEMYGGS 482 (690)
Q Consensus 465 Rm~~~I~~f~s~~fY~g~ 482 (690)
|-.+. +.-+...+..|.
T Consensus 1130 RQ~~~-lr~Av~~~~~g~ 1146 (1747)
T PRK13709 1130 RQTPE-LREAVYSLINRD 1146 (1747)
T ss_pred cCcHH-HHHHHHHHHccC
Confidence 99984 444455566654
No 35
>PF13245 AAA_19: Part of AAA domain
Probab=99.49 E-value=6.7e-14 Score=114.96 Aligned_cols=58 Identities=50% Similarity=0.774 Sum_probs=52.6
Q ss_pred HHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc----CCeEEEEcCChHHHHHHHHHH
Q 038763 241 KAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ----GERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 241 ~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~----g~rVLv~a~SN~AvD~l~erL 299 (690)
+||..++. +.++++|+||||||||+|+++++..++.. +++||+++|||.|+|+|.+++
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 36777777 45789999999999999999999999976 889999999999999999999
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=99.45 E-value=8.3e-13 Score=166.93 Aligned_cols=65 Identities=31% Similarity=0.437 Sum_probs=54.4
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHH---HHH-HcCCeEEEEcCChHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIA---RAV-QQGERVLVTAPTNAAVDNMVE 297 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~---~l~-~~g~rVLv~a~SN~AvD~l~e 297 (690)
..||+.|++|+..++.+.+.+++|+|+|||||||++..++. ++. ..|.+|+.+|||+.|+.+|.+
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~ 1086 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS 1086 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh
Confidence 35999999999999987667999999999999999955433 333 367899999999999999853
No 37
>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=99.39 E-value=4.9e-13 Score=135.67 Aligned_cols=49 Identities=22% Similarity=0.335 Sum_probs=38.9
Q ss_pred EEecccCccCccccEEEEEeeecCCCCccccc-CCCCceeeeeccccccEEEE
Q 038763 591 EVATIDSFQGREADAVIISMVRSNTLGAVGFL-GDSRRMNVAITRACKHVAVV 642 (690)
Q Consensus 591 ~V~TVd~fQG~E~dvVIlS~vrsn~~~~~gfl-~d~rRlNVAlTRAk~~Liiv 642 (690)
.+.|++++||.|+|.|++-...... .... .+.++++||+||||+.|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~~---~~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDTD---NELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCcc---cccccCCcccEEEEccccccEEEEE
Confidence 6999999999999999885543322 1223 36999999999999999986
No 38
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.12 E-value=9.4e-11 Score=137.72 Aligned_cols=64 Identities=28% Similarity=0.370 Sum_probs=56.7
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
..++++|..|+..++.. +..++.||||||||+++...+..+..-+..+++++++..|+-.+.+.
T Consensus 318 ~~~~~~q~~a~~vl~~d--e~smlt~~~~~~~~~~~~~~~~l~~~~~~~~l~aa~tG~a~~~l~e~ 381 (696)
T COG0507 318 LRLSLEQKEALDVLVVD--EVSMLTGGPGTGKTTAIKAIARLIKEGDGDQLLAAPTGKAAKRLNES 381 (696)
T ss_pred CCcCcccHHHHHHHhcC--CeeEEeccCCcchHHHHHHHHHHHHhcCCcEEeechhhHHHHHHHHh
Confidence 35899999999998864 58999999999999999999988888777899999999998887765
No 39
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.07 E-value=1.6e-10 Score=124.91 Aligned_cols=62 Identities=35% Similarity=0.563 Sum_probs=53.7
Q ss_pred CCCHHHHHHHHHHh----cCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHH
Q 038763 234 TFDDSQKKAIALGL----NKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNM 295 (690)
Q Consensus 234 ~LN~~Q~~Av~~al----~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l 295 (690)
.||++|++++..++ ........|.||+|||||+++.+++..+-..++.|++||+|..|+-++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 38999999987662 223456799999999999999999999888889999999999999998
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=99.04 E-value=3.1e-09 Score=114.54 Aligned_cols=49 Identities=27% Similarity=0.459 Sum_probs=44.7
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH--HHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA--VQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l--~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+.+|+|.||||||.++..++..+ ...+.+++++++++.-++.+.+.+..
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhh
Confidence 78999999999999999999999 77888999999999988888888765
No 41
>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=99.01 E-value=4.7e-10 Score=120.41 Aligned_cols=58 Identities=26% Similarity=0.333 Sum_probs=43.6
Q ss_pred CCeEEecccCccCccccEEEEEeeecCCCCc-------ccccCCCCceeeeeccccccEEEEecC
Q 038763 588 AGVEVATIDSFQGREADAVIISMVRSNTLGA-------VGFLGDSRRMNVAITRACKHVAVVCDS 645 (690)
Q Consensus 588 ~~v~V~TVd~fQG~E~dvVIlS~vrsn~~~~-------~gfl~d~rRlNVAlTRAk~~LiivG~~ 645 (690)
++|.|.|+|+.+|.|+|+||+..+..+.... -.+-.+.|.+||||||||+.|+|++..
T Consensus 286 ~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 286 DGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp GSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred cCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 3588999999999999999998876553221 123345777899999999999999853
No 42
>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=98.96 E-value=9.7e-10 Score=116.36 Aligned_cols=63 Identities=37% Similarity=0.501 Sum_probs=54.4
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC----CeEEEEcCChHHHHHHHHHHHh
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG----ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g----~rVLv~a~SN~AvD~l~erL~~ 301 (690)
||++|+++|.. . .+..+|.|+||||||+|+++.+..++..+ .+||++|+||.|+++|.+|+..
T Consensus 1 l~~eQ~~~i~~-~---~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 1 LTDEQRRIIRS-T---EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp S-HHHHHHHHS-----SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-C---CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHH
Confidence 79999999996 2 24689999999999999999999998855 6999999999999999999976
No 43
>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=98.93 E-value=3.9e-09 Score=134.19 Aligned_cols=66 Identities=21% Similarity=0.378 Sum_probs=61.2
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
.||+.|++||..++.+...+.+|+|+|||||||++..++..+-..|.+|.+||||+.|+..|.+..
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~~ 494 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKI 494 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHh
Confidence 599999999999998767899999999999999999999888889999999999999999988754
No 44
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.45 E-value=1.6e-06 Score=92.27 Aligned_cols=101 Identities=18% Similarity=0.102 Sum_probs=74.7
Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCcEEEEcCcHHH----HHHHHHHhhcC-----------------CCCCCeEEecccCc
Q 038763 540 NEGEAEIVVHHVFSLICAGVSPSAIAVQSPYVAQ----VQHLRERLDDL-----------------PEAAGVEVATIDSF 598 (690)
Q Consensus 540 N~~Ea~~v~~~v~~L~~~g~~~~~IgIItpY~~Q----v~~l~~~L~~~-----------------~~~~~v~V~TVd~f 598 (690)
-+.|+..++..+++..+.++.++||.||.+-... ...|.+.|... .....|.+.+|...
T Consensus 453 ~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvtis~IyrA 532 (660)
T COG3972 453 GPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVTISRIYRA 532 (660)
T ss_pred cchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEEeeeehhc
Confidence 4678999988888877889999999999875442 22333333221 01126899999999
Q ss_pred cCccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEEe
Q 038763 599 QGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVVC 643 (690)
Q Consensus 599 QG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~LiivG 643 (690)
+|.|+.+|+.-.+-.-. .|.-+.++-+..||||.|.-+-|+|
T Consensus 533 KGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~g 574 (660)
T COG3972 533 KGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVG 574 (660)
T ss_pred cCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhc
Confidence 99999999987665433 4545555689999999999988888
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=98.45 E-value=3.9e-07 Score=89.31 Aligned_cols=55 Identities=36% Similarity=0.551 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCCh
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTN 289 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN 289 (690)
..+|+.|+.++...+. .+++++.||+|||||+++++...+++..| .+|+++-|.-
T Consensus 3 ~p~~~~Q~~~~~al~~--~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v 59 (205)
T PF02562_consen 3 KPKNEEQKFALDALLN--NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPV 59 (205)
T ss_dssp ---SHHHHHHHHHHHH---SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S-
T ss_pred cCCCHHHHHHHHHHHh--CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCC
Confidence 3589999999998884 46999999999999999999998888876 4787776653
No 46
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.29 E-value=2.9e-06 Score=82.55 Aligned_cols=69 Identities=30% Similarity=0.381 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHhc
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
..+++.|.+++...+... ...+|.||+|||||+++...+...+..+ .++|+++|++.++.++..++...
T Consensus 7 ~~~~~~Q~~~~~~~~~~~-~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL-RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCHHHHHHHHHHHcCC-CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 458999999999988652 4689999999999999988888887765 89999999999999999888764
No 47
>PRK10536 hypothetical protein; Provisional
Probab=98.27 E-value=4.8e-06 Score=83.92 Aligned_cols=62 Identities=21% Similarity=0.225 Sum_probs=44.9
Q ss_pred CCCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHH
Q 038763 230 IMGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDN 294 (690)
Q Consensus 230 ~~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~ 294 (690)
......|..|..++..... .+++++.||+|||||+++..+....+..+ .+|+++ .++..+++
T Consensus 55 ~~i~p~n~~Q~~~l~al~~--~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~-RP~v~~ge 118 (262)
T PRK10536 55 SPILARNEAQAHYLKAIES--KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVT-RPVLQADE 118 (262)
T ss_pred ccccCCCHHHHHHHHHHhc--CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEe-CCCCCchh
Confidence 3445799999999986654 36999999999999999999888766433 345554 44443333
No 48
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.26 E-value=1.6e-07 Score=82.36 Aligned_cols=50 Identities=34% Similarity=0.224 Sum_probs=39.4
Q ss_pred CeEEecccCccCccccEEEEEeeecCCCCcccccCCCCceeeeeccccccEEEE
Q 038763 589 GVEVATIDSFQGREADAVIISMVRSNTLGAVGFLGDSRRMNVAITRACKHVAVV 642 (690)
Q Consensus 589 ~v~V~TVd~fQG~E~dvVIlS~vrsn~~~~~gfl~d~rRlNVAlTRAk~~Liiv 642 (690)
.+.+.|+|++||.|+|.||+....... .-....|.+|||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~----~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN----FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS----GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc----CCchhhccEEeeHhHhhhhhCCC
Confidence 689999999999999999998876551 11234677999999999999987
No 49
>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=98.23 E-value=2e-05 Score=97.81 Aligned_cols=45 Identities=16% Similarity=0.139 Sum_probs=39.9
Q ss_pred CHHHHHHHHHHHHHHHHC-CCCCCcEEEEcCc-HHHHHHHHHHhhcC
Q 038763 540 NEGEAEIVVHHVFSLICA-GVSPSAIAVQSPY-VAQVQHLRERLDDL 584 (690)
Q Consensus 540 N~~Ea~~v~~~v~~L~~~-g~~~~~IgIItpY-~~Qv~~l~~~L~~~ 584 (690)
-..|++.|+..|..++.. |+.++||+|+++. +.+...|...|.++
T Consensus 314 ~~~Eae~va~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 314 RRAEVEGVARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred HHHHHHHHHHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 347999999999999876 8999999999999 89999999988763
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=98.10 E-value=5.9e-06 Score=79.89 Aligned_cols=65 Identities=25% Similarity=0.437 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHHhcC-----CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNK-----KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~-----~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+|.+.|.+|+..++.. .....+|++|+|||||.+++.++..+.. ++++++|+..-++.+.+.+..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHH
Confidence 4889999999988741 1357999999999999999999999887 999999999999999988844
No 51
>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=97.98 E-value=3.4e-05 Score=73.60 Aligned_cols=65 Identities=29% Similarity=0.401 Sum_probs=54.8
Q ss_pred CHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCC--eEEEEcCChHHHHHHHHHHHhc
Q 038763 236 DDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGE--RVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~--rVLv~a~SN~AvD~l~erL~~~ 302 (690)
++.|.+++..++.. .-++|.||+|+|||+...-.+.+.+..++ ++++++|+...+++..+++...
T Consensus 1 t~~Q~~~~~~i~~~--~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAIISG--KNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHHTT--SEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcC--CCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccc
Confidence 47899999998853 34899999999999998877777666544 9999999999999999998775
No 52
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=97.97 E-value=1.6e-05 Score=72.47 Aligned_cols=49 Identities=31% Similarity=0.516 Sum_probs=44.2
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+|.||||||||+++...+.++.. ...++++++|++..+++..+.+...
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 689999999999999999999887 4579999999999999999888764
No 53
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=97.86 E-value=0.0018 Score=72.77 Aligned_cols=68 Identities=21% Similarity=0.265 Sum_probs=53.0
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc---CCeEEEEcCChHHHHHHHHHHHh
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ---GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~---g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+..+++-|.+|+..++... + .++++|.|||||.+..-.+.+.+.. +.++|+++||...++++.+.+..
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~-d-vi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~ 94 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGK-D-VIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRR 94 (460)
T ss_pred CCCCCHHHHHHHHHHhcCC-C-EEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 4569999999999998754 3 7999999999998644444444432 34799999999999998887765
No 54
>PRK08181 transposase; Validated
Probab=97.78 E-value=8.5e-05 Score=76.51 Aligned_cols=64 Identities=36% Similarity=0.467 Sum_probs=49.3
Q ss_pred CCCCCHHHHHHHHHH--hcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHH
Q 038763 232 GKTFDDSQKKAIALG--LNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~a--l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
...++..|..++..+ ......-.+++||||||||+.+..+..++++.|.+|+++.. ..+++.|.
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~-----~~L~~~l~ 150 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT-----TDLVQKLQ 150 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH-----HHHHHHHH
Confidence 356899999998654 22233458999999999999999999999999999988863 44555553
No 55
>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=97.74 E-value=5.9e-05 Score=68.96 Aligned_cols=53 Identities=38% Similarity=0.571 Sum_probs=44.9
Q ss_pred CCeEEEeCCCCCChhH-HHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 251 RPLLIIQGPPGTGKTG-LLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~-tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
..+.+|.=.||+|||+ ++.+++++.++++.|+||++||...++++.+.|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcCC
Confidence 4588999999999999 7999999999999999999999999999999997643
No 56
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.67 E-value=0.00013 Score=74.11 Aligned_cols=61 Identities=25% Similarity=0.393 Sum_probs=45.4
Q ss_pred CCHHHHHHHHHHhc------CCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHH
Q 038763 235 FDDSQKKAIALGLN------KKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 235 LN~~Q~~Av~~al~------~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
.++.|+.|+..+.. ......+++||||||||+++..++.++.+.|.+|++++ +..+..++.
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-----VADIMSAMK 143 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-----HHHHHHHHH
Confidence 35678777765432 11135799999999999999999999999999999885 344555554
No 57
>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=97.66 E-value=0.00015 Score=66.72 Aligned_cols=61 Identities=26% Similarity=0.387 Sum_probs=45.1
Q ss_pred CHHHHHHHHHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHH
Q 038763 236 DDSQKKAIALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMV 296 (690)
Q Consensus 236 N~~Q~~Av~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~ 296 (690)
++.+..++...+.. .....+|+||||||||+++.+++..+...+.+++.+..+..+.....
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~ 64 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVV 64 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHH
Confidence 34556666665543 24578999999999999999999988877888888877665554433
No 58
>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=97.65 E-value=7.5e-05 Score=72.75 Aligned_cols=51 Identities=24% Similarity=0.472 Sum_probs=43.4
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
++|.||||||||+++..++...++.|.++++.+.. ...+++.+++...|++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e-~~~~~~~~~~~~~g~~ 52 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLE-ESPEELIENAESLGWD 52 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECC-CCHHHHHHHHHHcCCC
Confidence 68999999999999999999999999999999875 4577778887766554
No 59
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.64 E-value=0.00015 Score=84.76 Aligned_cols=75 Identities=24% Similarity=0.359 Sum_probs=63.6
Q ss_pred CCCCHHHHHHHHHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc-CCcee
Q 038763 233 KTFDDSQKKAIALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV-GLNIV 307 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~-~~~~v 307 (690)
..|++.|++|+...+.. .....+++||+|||||.+...++...+..|.++|+++|+..-++++.+++.+. +..+.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~ 219 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVA 219 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEE
Confidence 35999999999988763 12358999999999999999899888888999999999999999999999763 44433
No 60
>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=97.57 E-value=0.00034 Score=69.07 Aligned_cols=68 Identities=26% Similarity=0.299 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHHc----CCeEEEEcCChHHHHHHHHHHHhc
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQQ----GERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~~----g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
..+++.|++|+...+... -.+|.+|+|+|||.+ +..++..+... +.++++++|+...+.++.+.+...
T Consensus 20 ~~~~~~Q~~~~~~~~~~~--~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 20 EKPTPIQARAIPPLLSGR--DVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCCHHHHHHHHHHhcCC--cEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 458999999999988743 479999999999987 45555555543 468999999999999988877654
No 61
>PHA02558 uvsW UvsW helicase; Provisional
Probab=97.52 E-value=0.00027 Score=80.00 Aligned_cols=68 Identities=22% Similarity=0.272 Sum_probs=58.8
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCC-eEEEEcCChHHHHHHHHHHHhcC
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGE-RVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~-rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
.|.+.|.+|+..++... -.+++.|.|+|||.+++.++..++..++ ++|+++||...++++.+++.+.+
T Consensus 114 ~~r~~Q~~av~~~l~~~--~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNN--RRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred CCCHHHHHHHHHHHhcC--ceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 58999999999998754 3688999999999998888777676665 99999999999999999998753
No 62
>PRK06851 hypothetical protein; Provisional
Probab=97.48 E-value=0.0012 Score=70.73 Aligned_cols=48 Identities=29% Similarity=0.541 Sum_probs=42.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCe--EEEEcCChHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGER--VLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~r--VLv~a~SN~AvD~l~er 298 (690)
..+++|.|||||||||++..++..+.+.|.. .+.|+..|.++|.++-.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgviip 79 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVIIP 79 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEec
Confidence 3589999999999999999999999988865 77999999999987643
No 63
>PRK12377 putative replication protein; Provisional
Probab=97.45 E-value=0.00025 Score=72.13 Aligned_cols=52 Identities=29% Similarity=0.429 Sum_probs=39.1
Q ss_pred CHHHHHHHHHHh------cCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 236 DDSQKKAIALGL------NKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 236 N~~Q~~Av~~al------~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
++.|+.|+..+. .......+++||||||||+++.+++..+.+.|.+|++++.
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEH
Confidence 466766664332 1122457999999999999999999999999988877654
No 64
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.45 E-value=0.00013 Score=74.16 Aligned_cols=34 Identities=29% Similarity=0.359 Sum_probs=27.5
Q ss_pred HHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 244 ALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 244 ~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
..++.. ..|..|.+||||||||+|+..+.+++.-
T Consensus 49 ~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 49 KNALLRRILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred HHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 334433 4578999999999999999999998865
No 65
>PRK06526 transposase; Provisional
Probab=97.42 E-value=0.00031 Score=71.91 Aligned_cols=62 Identities=29% Similarity=0.463 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHH--hcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALG--LNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 233 ~~LN~~Q~~Av~~a--l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
..+|..|...+... +. ...-.++.||||||||+++..+...++..|.+|++.+. ..+++.+.
T Consensus 79 ~~~~~~~~~~l~~~~fi~-~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~-----~~l~~~l~ 142 (254)
T PRK06526 79 RSLKRDTIAHLGTLDFVT-GKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA-----AQWVARLA 142 (254)
T ss_pred CCcchHHHHHHhcCchhh-cCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH-----HHHHHHHH
Confidence 45788776654321 12 23457999999999999999999999999999877543 34555553
No 66
>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=97.42 E-value=0.00026 Score=71.44 Aligned_cols=54 Identities=28% Similarity=0.638 Sum_probs=43.5
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
+.+++|.||||||||+.+...+...+++ |.++++++..... +.+.+.+...|++
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~s~g~d 73 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMKSFGWD 73 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHHTTTS-
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHHHcCCc
Confidence 4689999999999999999999998888 9999999975544 8888888877654
No 67
>PTZ00424 helicase 45; Provisional
Probab=97.40 E-value=0.00055 Score=75.33 Aligned_cols=69 Identities=20% Similarity=0.191 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH---cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ---QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~---~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
+..+++.|.+|+..++... + .++++|+|||||.+..-.+.+.+. .+.++|+++|+...+.++.+.+...
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~-d-~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGY-D-TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCCHHHHHHHHHHhCCC-C-EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 3469999999999998764 3 689999999999876655555554 3568999999999998887776654
No 68
>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=97.39 E-value=0.00029 Score=68.24 Aligned_cols=45 Identities=38% Similarity=0.652 Sum_probs=36.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.-.+++||||||||++++.++..++..|.+|+++.. .+++++|..
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~-----~~L~~~l~~ 92 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA-----SDLLDELKQ 92 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH-----HHHHHHHHC
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec-----Cceeccccc
Confidence 457999999999999999999999999999998874 467777754
No 69
>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=97.35 E-value=0.00015 Score=65.98 Aligned_cols=43 Identities=26% Similarity=0.458 Sum_probs=34.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDN 294 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~ 294 (690)
...+|.||||||||+++..++..+...+..+++++.+......
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~ 45 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEV 45 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccC
Confidence 4789999999999999999998887766567777777654433
No 70
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.35 E-value=0.00048 Score=80.17 Aligned_cols=69 Identities=25% Similarity=0.368 Sum_probs=58.0
Q ss_pred CCCHHHHHHHHHHhcC---CCC-eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNK---KRP-LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~---~~~-~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.|++.|++|+..++.. +.+ -.+++||.|||||.+....+...+..|.++++++||..-+.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHH
Confidence 5999999999887753 111 26999999999999988777788888999999999999999998887653
No 71
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.32 E-value=0.0006 Score=79.96 Aligned_cols=69 Identities=25% Similarity=0.323 Sum_probs=58.8
Q ss_pred CCCHHHHHHHHHHhcCC---C-CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKK---R-PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~---~-~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
+|++.|++|+..++..- . --.+++||.|||||.+....+.+.+..|.++|+++||...+.++.+.+.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHH
Confidence 59999999998876531 0 136999999999999988888888888999999999999999998888763
No 72
>PRK05973 replicative DNA helicase; Provisional
Probab=97.31 E-value=0.00048 Score=69.39 Aligned_cols=59 Identities=22% Similarity=0.342 Sum_probs=48.8
Q ss_pred HHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 245 LGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 245 ~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+. ++.+++|.|+||+|||+...+++...++.|.++++.+.--. .+.+.+|+...|++
T Consensus 59 GGl~-~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~g~d 117 (237)
T PRK05973 59 SQLK-PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRALGAD 117 (237)
T ss_pred CCCC-CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHcCCC
Confidence 3444 35799999999999999999999999889999999887655 58889998887654
No 73
>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=97.29 E-value=0.00047 Score=71.16 Aligned_cols=55 Identities=16% Similarity=0.317 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.+.+.|.+++..++.....+.+|.||+|||||||+..++..+...+.+|+.+-..
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp 117 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDP 117 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCC
Confidence 3788899999888876667999999999999999999988876656677666443
No 74
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.27 E-value=0.00077 Score=68.41 Aligned_cols=58 Identities=21% Similarity=0.199 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 232 GKTFDDSQKKAIALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
...-|.....++...... ..+..+|+|||||||||++..+..++...|.+++.+....
T Consensus 25 ~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 25 YPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred ccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 334677777777665432 2357899999999999999999988888888998887643
No 75
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.27 E-value=0.00058 Score=69.97 Aligned_cols=62 Identities=29% Similarity=0.397 Sum_probs=44.3
Q ss_pred CCHHHHHHHHHHhc-----CCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 235 FDDSQKKAIALGLN-----KKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 235 LN~~Q~~Av~~al~-----~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
-+..+++|+..+.. ....-.++.||||||||++++++...+++.|.+|++++.+ +++.+|..
T Consensus 84 ~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~-----el~~~Lk~ 150 (254)
T COG1484 84 QPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP-----DLLSKLKA 150 (254)
T ss_pred CcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH-----HHHHHHHH
Confidence 34456666554421 0223479999999999999999999999889999988754 45555543
No 76
>PRK14974 cell division protein FtsY; Provisional
Probab=97.25 E-value=0.00075 Score=71.72 Aligned_cols=57 Identities=23% Similarity=0.450 Sum_probs=43.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC-C--hHHHHHHHHHHHhcCCceee
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP-T--NAAVDNMVEKLSDVGLNIVR 308 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~-S--N~AvD~l~erL~~~~~~~vR 308 (690)
.+.++.||||+|||||++.++..+...|.+|++++. + ..|++.+.......+++++.
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~ 200 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIK 200 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceec
Confidence 478999999999999999999998888888866543 3 56677776655555665543
No 77
>PRK02362 ski2-like helicase; Provisional
Probab=97.25 E-value=0.001 Score=78.94 Aligned_cols=77 Identities=21% Similarity=0.289 Sum_probs=61.2
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc---CCceee
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV---GLNIVR 308 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~---~~~~vR 308 (690)
+.+|++.|.+|+...+..+ .-.+|+.|.|+|||.+..-.+.+.+..+.++++++|+..-+++..+++.+. |+++..
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g-~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~ 99 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDG-KNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERFEELGVRVGI 99 (737)
T ss_pred CCcCCHHHHHHHHHHHhCC-CcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEE
Confidence 4569999999998755543 347999999999999876666666667889999999999999999888765 555443
Q ss_pred c
Q 038763 309 V 309 (690)
Q Consensus 309 i 309 (690)
+
T Consensus 100 ~ 100 (737)
T PRK02362 100 S 100 (737)
T ss_pred E
Confidence 3
No 78
>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=97.25 E-value=0.00092 Score=69.25 Aligned_cols=59 Identities=24% Similarity=0.475 Sum_probs=43.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc-C--ChHHHHHHHHHHHhcCCceeecC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA-P--TNAAVDNMVEKLSDVGLNIVRVG 310 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a-~--SN~AvD~l~erL~~~~~~~vRiG 310 (690)
.+.++.||||+|||||++.++..+.+.|.+|++++ . ...|.+++.......++.++..+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~ 134 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQK 134 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCC
Confidence 46677799999999999999999988888887665 3 33456666555555566665444
No 79
>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=97.25 E-value=0.00074 Score=66.42 Aligned_cols=57 Identities=26% Similarity=0.430 Sum_probs=41.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE-cCCh--HHHHHHHHHHHhcCCceeec
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT-APTN--AAVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~-a~SN--~AvD~l~erL~~~~~~~vRi 309 (690)
+.++.||+|+|||||++.+.+++...+++|.++ +.+. .|+++|..--...++++...
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~ 62 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVA 62 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEES
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchh
Confidence 678899999999999999999999888887654 4444 56777655444456665543
No 80
>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=97.25 E-value=0.0005 Score=69.88 Aligned_cols=54 Identities=22% Similarity=0.409 Sum_probs=45.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+++|.||||||||+.+..++...++.|.++++++.. ...+.+.+++...+.+
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e-e~~~~i~~~~~~~g~~ 74 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE-EHPVQVRRNMAQFGWD 74 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee-CCHHHHHHHHHHhCCC
Confidence 46899999999999999999998888899999999965 5677788888776654
No 81
>PRK06851 hypothetical protein; Provisional
Probab=97.23 E-value=0.0024 Score=68.42 Aligned_cols=46 Identities=30% Similarity=0.480 Sum_probs=36.9
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEE--EcCChHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLV--TAPTNAAVDNMV 296 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv--~a~SN~AvD~l~ 296 (690)
....+|.|||||||||++..++..+.++|.+|.+ |+.-+..+|.++
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD~vi 261 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLDMVI 261 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcceEE
Confidence 3579999999999999999999999999987765 455555555543
No 82
>PRK08116 hypothetical protein; Validated
Probab=97.21 E-value=0.0013 Score=68.05 Aligned_cols=34 Identities=32% Similarity=0.420 Sum_probs=30.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
-.+++||||||||+++..++..+.+.+.+|+++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 4799999999999999999999998888888776
No 83
>PRK09183 transposase/IS protein; Provisional
Probab=97.18 E-value=0.00073 Score=69.58 Aligned_cols=55 Identities=24% Similarity=0.339 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHH--hcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 231 MGKTFDDSQKKAIALG--LNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~a--l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+...+|..|...+... +. .....+|.||||||||+++..+...+...|.+|+++.
T Consensus 81 ~~~~~~~~~i~~L~~~~~i~-~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 81 FATGAPQKQLQSLRSLSFIE-RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred cCCCCCHHHHHHHhcCCchh-cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 3346888887777532 23 2356889999999999999999888888999998775
No 84
>PRK06893 DNA replication initiation factor; Validated
Probab=97.17 E-value=0.001 Score=67.33 Aligned_cols=38 Identities=21% Similarity=0.364 Sum_probs=33.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.+..+++||||||||+++..+...+.+.+.++.++..+
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 46779999999999999999999999888888777654
No 85
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=97.17 E-value=0.00083 Score=67.89 Aligned_cols=53 Identities=21% Similarity=0.357 Sum_probs=43.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGL 304 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~ 304 (690)
..+.+|.||||||||+++..++..++++|.+++.++... ..+++++.+...|.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~-~~~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQL-TTTEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHhCC
Confidence 468999999999999999999999989999999888555 44666666665544
No 86
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00027 Score=72.17 Aligned_cols=26 Identities=42% Similarity=0.828 Sum_probs=22.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+.+.++|||||||||++..++++.|-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 35899999999999999888887764
No 87
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=97.11 E-value=0.0013 Score=66.29 Aligned_cols=56 Identities=14% Similarity=0.178 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHhc--CCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 233 KTFDDSQKKAIALGLN--KKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~--~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
..-|.....++..... ...+..+|+||||||||+++..+..++...+.++.++..+
T Consensus 22 ~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~ 79 (227)
T PRK08903 22 AGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA 79 (227)
T ss_pred cCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence 3456666666665533 2235689999999999999999999988888777766654
No 88
>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=97.11 E-value=0.001 Score=66.96 Aligned_cols=55 Identities=16% Similarity=0.373 Sum_probs=47.6
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCce
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNI 306 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~ 306 (690)
..+++|.||||+|||+.+..++...++.|.++++++... ..+.+.+++...+.++
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~~~~~ 70 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSKGWDL 70 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHcCCCh
Confidence 458999999999999999999999888999999998866 6789999988876543
No 89
>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=97.09 E-value=0.001 Score=68.55 Aligned_cols=48 Identities=19% Similarity=0.321 Sum_probs=38.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
..+++|.||||||||+....++.+.++.|.++++++.-.. .+.+.+++
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee~-~~~~~~~l 83 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVESP-ANFVYTSL 83 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-chHHHHHH
Confidence 4689999999999999999999998889999999987643 34444433
No 90
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=97.09 E-value=0.002 Score=71.69 Aligned_cols=68 Identities=21% Similarity=0.274 Sum_probs=52.5
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHH-HHH------cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIAR-AVQ------QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~-l~~------~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
...+++-|.+|+..++... + .++++|+|||||.+..-.+.+ +.. .+.++|+++||...+.++.+.+..
T Consensus 21 ~~~p~~iQ~~ai~~~~~g~-d-~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDGR-D-VLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred CCCCCHHHHHHHHHHhCCC-C-EEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 3458899999999999754 3 799999999999875443333 332 135899999999999998877665
No 91
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.08 E-value=0.00023 Score=81.89 Aligned_cols=229 Identities=26% Similarity=0.245 Sum_probs=143.5
Q ss_pred cceeeecCCCCCCCccccchhhhhcCCCccHHHHHHHhCC--CccccccccccCCchhHHHhhhhccCCCcccCCccccc
Q 038763 414 GKRCILAGDQCQLAPVILSRKALEGGIGVSLLERAATLHE--GVLATKLTTQYRMNDAIASWASKEMYGGSLISSSTVAS 491 (690)
Q Consensus 414 ~~~~VLvGD~~QLpP~v~s~~a~~~gl~~SLfeRl~~~~~--~~~~~~L~~qYRm~~~I~~f~s~~fY~g~L~~~~~v~~ 491 (690)
+.+++|+||+.||-|.+.+....+..+. .+..++...|. +-+-+-.+.|||++-.|..|.+..||..... ++.+.
T Consensus 292 ~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~--p~~a~ 368 (775)
T KOG1804|consen 292 GTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCA--PSNAS 368 (775)
T ss_pred Cceeeecccccccccchhhhhhhhhhhh-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhccc--ccccc
Confidence 7899999999999999887665544444 33334332221 1234678999999999999999999975332 22222
Q ss_pred ccccCCCCCCCCCCCCCCeEEEeCCCCCCCCCCCcccccccCCCCCccCHHHHHHHHHHHHHHHHCC------CCCCcEE
Q 038763 492 HLLVDTPFVKPTWITQCPLLLLDTRLPYGSLSLGCEEHLDLAGTGSFYNEGEAEIVVHHVFSLICAG------VSPSAIA 565 (690)
Q Consensus 492 ~~l~~~~~~~~~~~~~~p~~~~dt~~~~~~~~~~~~e~~~~~~~~S~~N~~Ea~~v~~~v~~L~~~g------~~~~~Ig 565 (690)
..+.... -..|..|.++.+. ..........+|..|+..++.-++.+.+.. ..-..+|
T Consensus 369 ~k~~~~r-------l~~p~~~~~~~~~----------~~~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag 431 (775)
T KOG1804|consen 369 GKQPAHR-------LHYPLTFSTARGE----------DVRAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAG 431 (775)
T ss_pred ccccccc-------ccccccccccccc----------cccccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeecccee
Confidence 1111110 1245666655431 111122345678888888888888777432 1335799
Q ss_pred EEcCcHHHHHHHHHHhhcCCCCCCeEEecccCccCccc---cEEEEEeeec--------CCCCcccccCCCCceeeeecc
Q 038763 566 VQSPYVAQVQHLRERLDDLPEAAGVEVATIDSFQGREA---DAVIISMVRS--------NTLGAVGFLGDSRRMNVAITR 634 (690)
Q Consensus 566 IItpY~~Qv~~l~~~L~~~~~~~~v~V~TVd~fQG~E~---dvVIlS~vrs--------n~~~~~gfl~d~rRlNVAlTR 634 (690)
++++|..|+..++..|.+.. ++.+.-.--.+|.-. ..|++|+... ....+.|+ +...+|-|+||
T Consensus 432 ~~~~~g~~v~~f~hil~DeA---g~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl--~rsLler~l~r 506 (775)
T KOG1804|consen 432 CVTSYGFQVGHFRHILVDEA---GVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGL--DRSLLERALTR 506 (775)
T ss_pred eeecccccccceeeeeeccc---ccccCcccccccccccceeEEEEccCcccccccccchhhhhhcc--cHHHHHHHHHH
Confidence 99999999999999885422 232222222333322 2566665432 11222332 47788999999
Q ss_pred ccccEEEEecCcccccC----hHHHHHHHHHHHcCcE
Q 038763 635 ACKHVAVVCDSSTICHN----TFLARLLRHIRYFGRV 667 (690)
Q Consensus 635 Ak~~LiivG~~~tl~~~----~~~~~l~~~~~~~~~~ 667 (690)
|-...-.+|+...+..- .+|.++.-.+-.+..+
T Consensus 507 ~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~ 543 (775)
T KOG1804|consen 507 AQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLY 543 (775)
T ss_pred HhhccccCCCcccccchhhHHHHhhhhHhhhcccccc
Confidence 99999999999988764 4677666666555543
No 92
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=97.06 E-value=0.0013 Score=66.80 Aligned_cols=54 Identities=28% Similarity=0.546 Sum_probs=46.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+++|.||||||||+.+..++...++.|.++++++..+. .+.+++++...+++
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~-~~~~~~~~~~~g~~ 78 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT-SKSYLKQMESVKID 78 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC-HHHHHHHHHHCCCC
Confidence 4689999999999999999999988889999999999765 46788888777654
No 93
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=97.06 E-value=0.0017 Score=77.89 Aligned_cols=68 Identities=26% Similarity=0.248 Sum_probs=57.4
Q ss_pred CCCHHHHHHHHHHhcC---CC-CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNK---KR-PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~---~~-~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
++++.|.+||..++.. .. --.+|+||.|||||.+....+...+..|.++++++||..-+.+..+.+.+
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHH
Confidence 5899999999988763 10 12699999999999998887777778899999999999999999888775
No 94
>PRK04328 hypothetical protein; Provisional
Probab=97.05 E-value=0.0011 Score=67.91 Aligned_cols=54 Identities=24% Similarity=0.452 Sum_probs=44.9
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
+.+++|.||||||||+....++...++.|.++++++.....- .+.+.+...|.+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~-~i~~~~~~~g~d 76 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPV-QVRRNMRQFGWD 76 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHH-HHHHHHHHcCCC
Confidence 468999999999999999999999889999999999766444 477777776653
No 95
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.04 E-value=0.0024 Score=67.91 Aligned_cols=36 Identities=31% Similarity=0.408 Sum_probs=32.6
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
...+++||||||||+++..++..++..|.+|+.++.
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~ 219 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA 219 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence 458999999999999999999999999999988774
No 96
>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=97.02 E-value=0.0016 Score=77.36 Aligned_cols=62 Identities=21% Similarity=0.423 Sum_probs=50.0
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..|..++.. ++.++|+|||||||||.+.-.+......+.+|+|+.|+..|+.++.+++.+
T Consensus 6 ~~~~i~~~l~~-~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAA-HPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHc-CCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHH
Confidence 35556666764 467899999999999988776665545567999999999999999999964
No 97
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.01 E-value=0.0018 Score=68.48 Aligned_cols=57 Identities=26% Similarity=0.420 Sum_probs=42.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc-CCh--HHHHHHHHHHHhcCCceee
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA-PTN--AAVDNMVEKLSDVGLNIVR 308 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a-~SN--~AvD~l~erL~~~~~~~vR 308 (690)
.+.++.||||+|||||++.++..+...|.+|++.+ .+. .|++++.......++.++.
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~ 174 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIA 174 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEE
Confidence 57888999999999999999999988888888664 332 3556665444444555543
No 98
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.01 E-value=0.00062 Score=61.96 Aligned_cols=51 Identities=25% Similarity=0.593 Sum_probs=35.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-----CCe-EEEEcCChHHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-----GER-VLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-----g~r-VLv~a~SN~AvD~l~erL~~ 301 (690)
..+.+|+||||+|||+++..++..+... ..+ +.+.+++......+...+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 3578999999999999999999998763 334 44555555556677766654
No 99
>PRK00254 ski2-like helicase; Provisional
Probab=97.00 E-value=0.0021 Score=76.17 Aligned_cols=69 Identities=17% Similarity=0.311 Sum_probs=55.7
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHH-HHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLL-KEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl-~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..+||+.|.+|+...+..+. -.++++|.|||||.+. ..++..+...+.++++++|+..-+++..+++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~-nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGK-NLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCC-cEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 45699999999986444333 4799999999999987 445556666788999999999999999988865
No 100
>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=97.00 E-value=0.0011 Score=62.51 Aligned_cols=40 Identities=23% Similarity=0.455 Sum_probs=35.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD 293 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD 293 (690)
++|.||||||||+++..++.++...+.+|++........+
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 6899999999999999999999888899998887665444
No 101
>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=96.99 E-value=0.001 Score=74.62 Aligned_cols=52 Identities=17% Similarity=0.333 Sum_probs=43.0
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
.+++.|.+.+..++....++.+|.||+|||||||+..++..+...+.+|+.+
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTi 276 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTV 276 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEE
Confidence 4899999999988887778999999999999999998887776555555543
No 102
>PRK01172 ski2-like helicase; Provisional
Probab=96.98 E-value=0.002 Score=75.80 Aligned_cols=66 Identities=23% Similarity=0.223 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+|++.|.+|+...+.. .-.+|.+|.|||||....-.+...+..+.++++++|+..-+++..+.+.+
T Consensus 22 ~l~~~Q~~ai~~l~~~--~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 22 ELYDHQRMAIEQLRKG--ENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCHHHHHHHHHHhcC--CcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHH
Confidence 4999999999987654 34799999999999987666666666788999999999999998887764
No 103
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.98 E-value=0.0017 Score=72.19 Aligned_cols=65 Identities=28% Similarity=0.331 Sum_probs=55.5
Q ss_pred CCCHHHHHHHHHHhcC---CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNK---KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~---~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.|.+.|.+|+...... . .-.+|.-|+|+|||.+.++++..+... +||++|+...+++..+++...
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~-~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTE-RRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCcHHHHHHHHHHHhhcccC-CceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHh
Confidence 5999999999987762 2 357889999999999999999887544 999999999999998887664
No 104
>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=96.98 E-value=0.00051 Score=62.42 Aligned_cols=32 Identities=31% Similarity=0.603 Sum_probs=24.6
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.+|+||||||||+++..++..+ +..++-+..+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~ 32 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGS 32 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETT
T ss_pred CEEECcCCCCeeHHHHHHHhhc---cccccccccc
Confidence 4899999999999998888886 4555544443
No 105
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.98 E-value=0.0039 Score=65.16 Aligned_cols=57 Identities=28% Similarity=0.379 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHH-HHHHHHHc--CCeEEEEcCC
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKE-IIARAVQQ--GERVLVTAPT 288 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~-~i~~l~~~--g~rVLv~a~S 288 (690)
+...|.+|+-|+...+..+-++.-+-|+.|||||-++.+ .+.|-..+ -++|+|+-|+
T Consensus 226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~ 285 (436)
T COG1875 226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPT 285 (436)
T ss_pred cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCC
Confidence 456999999999999887778899999999999987543 34444443 3688887765
No 106
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.97 E-value=0.0016 Score=63.03 Aligned_cols=46 Identities=26% Similarity=0.459 Sum_probs=28.9
Q ss_pred HHHHHHHHHh----cCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEE
Q 038763 238 SQKKAIALGL----NKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVL 283 (690)
Q Consensus 238 ~Q~~Av~~al----~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVL 283 (690)
+|.+.+...+ ....+..+|+||||||||+++.++...+...+.-++
T Consensus 7 ~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~ 56 (185)
T PF13191_consen 7 EEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVI 56 (185)
T ss_dssp HHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EE
T ss_pred HHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEE
Confidence 4555666555 122467999999999999999999998888754343
No 107
>PRK10436 hypothetical protein; Provisional
Probab=96.97 E-value=0.0012 Score=73.16 Aligned_cols=51 Identities=20% Similarity=0.301 Sum_probs=42.6
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEE
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLV 284 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv 284 (690)
.+.+.|.+.+..++..+.++.+|.||.|+|||||+..++..+...+.+|+-
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~T 251 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICS 251 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEE
Confidence 488899999998887677899999999999999999988887665555543
No 108
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.96 E-value=0.002 Score=74.53 Aligned_cols=69 Identities=26% Similarity=0.431 Sum_probs=62.0
Q ss_pred CCCCHHHHHHHHHHhcC--CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 233 KTFDDSQKKAIALGLNK--KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~--~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..||+.|..|+..+..+ ....+|++|.+|+|||-+-.++|...+++|+.+|++.|--.-...+.+|+..
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHH
Confidence 46999999999988765 2356899999999999999999999999999999999999889999999876
No 109
>PRK04296 thymidine kinase; Provisional
Probab=96.95 E-value=0.0011 Score=65.04 Aligned_cols=36 Identities=31% Similarity=0.357 Sum_probs=32.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
.+.+|.||||+||||.+..++..+...|.+|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 378999999999999999999999999999998854
No 110
>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=96.92 E-value=0.0012 Score=63.43 Aligned_cols=34 Identities=26% Similarity=0.492 Sum_probs=30.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+.++.||||+|||+++..++..+.+.|.+|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 5789999999999999999999998888887654
No 111
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.92 E-value=0.0018 Score=77.01 Aligned_cols=62 Identities=18% Similarity=0.381 Sum_probs=47.0
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..|..++.++ ...+|+|||||||||.+.-.+......+.+|+|+.|+..|+.++.+++.+
T Consensus 9 ~~~~i~~~l~~~-~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 9 VLPELLTALKTA-PQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHhC-CCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHH
Confidence 345566666543 56899999999999988654443322335899999999999999999864
No 112
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.86 E-value=0.0037 Score=72.49 Aligned_cols=68 Identities=22% Similarity=0.287 Sum_probs=52.4
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH---cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ---QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~---~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+.++++.|.+|+...+... + .++++|.|||||.+..-.+.+.+. .+.++||++||...+.++.+.+..
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~-d-vl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~ 96 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGR-D-VLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTD 96 (629)
T ss_pred CCCCCHHHHHHHHHHHcCC-C-EEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 3468999999999988753 3 799999999999875433333332 345899999999999998777655
No 113
>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=96.86 E-value=0.0019 Score=65.13 Aligned_cols=54 Identities=19% Similarity=0.457 Sum_probs=42.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+.+|.||||||||+++..++...+++|.++++.+. ....+.+.++....+++
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~-e~~~~~i~~~~~~~g~~ 73 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT-EESRESIIRQAAQFGMD 73 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc-cCCHHHHHHHHHHhCCC
Confidence 4689999999999999999988888888888888876 33456777776555543
No 114
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=96.85 E-value=0.0041 Score=69.64 Aligned_cols=70 Identities=23% Similarity=0.263 Sum_probs=53.5
Q ss_pred CCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHH-HHHHc--------CCeEEEEcCChHHHHHHHHHHHh
Q 038763 231 MGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIA-RAVQQ--------GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~-~l~~~--------g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..+++-|.+|+..++... + .++++|.|||||.+..-.+. .+... +.++|+++||...+.++.+.+..
T Consensus 20 g~~~pt~iQ~~ai~~il~g~-d-vlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 20 GYREPTPIQQQAIPAVLEGR-D-LMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCCCCHHHHHHHHHHhCCC-C-EEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 34569999999999998754 4 79999999999987544333 33321 13799999999999999888776
Q ss_pred c
Q 038763 302 V 302 (690)
Q Consensus 302 ~ 302 (690)
.
T Consensus 98 ~ 98 (456)
T PRK10590 98 Y 98 (456)
T ss_pred H
Confidence 3
No 115
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.85 E-value=0.0019 Score=70.72 Aligned_cols=48 Identities=23% Similarity=0.339 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCe
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGER 281 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~r 281 (690)
.+++.|.+.+..++..+.++.|+.||-|||||||+-.++..+.....+
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~n 288 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTPERN 288 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCce
Confidence 379999999999999889999999999999999999999998876655
No 116
>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=96.85 E-value=0.003 Score=63.46 Aligned_cols=57 Identities=23% Similarity=0.255 Sum_probs=40.6
Q ss_pred CCHHHHHHHHHHh-cCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHH
Q 038763 235 FDDSQKKAIALGL-NKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAA 291 (690)
Q Consensus 235 LN~~Q~~Av~~al-~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~A 291 (690)
-|.+-.++++..+ .......+|.||||||||+++..+..++...+.+++.+..++..
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~ 78 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELA 78 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHH
Confidence 3444455555432 22345789999999999999999999988888788777655543
No 117
>PRK10867 signal recognition particle protein; Provisional
Probab=96.85 E-value=0.0029 Score=69.52 Aligned_cols=58 Identities=17% Similarity=0.328 Sum_probs=41.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEE-EcCChH--HHHHHHHHHHhcCCceeec
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLV-TAPTNA--AVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv-~a~SN~--AvD~l~erL~~~~~~~vRi 309 (690)
.+.++.||||+|||||++.++..+... |.+|++ ++.+.. |++.+.......+++++..
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~ 162 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPS 162 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEec
Confidence 468899999999999999999999888 888764 444443 4455544334446665543
No 118
>PRK09401 reverse gyrase; Reviewed
Probab=96.85 E-value=0.003 Score=77.75 Aligned_cols=67 Identities=24% Similarity=0.244 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
++++.|+.++..++... + +++.+|.|||||+++.-++..+...|.++|+++||..-+.++.+++...
T Consensus 80 ~pt~iQ~~~i~~il~g~-d-v~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGE-S-FAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCcHHHHHHHHHHHCCC-c-EEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHH
Confidence 58999999999998753 3 6888999999998766556666667899999999999999999998875
No 119
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.84 E-value=0.0041 Score=68.96 Aligned_cols=69 Identities=22% Similarity=0.177 Sum_probs=52.2
Q ss_pred CCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHH-HHHHHHH---------cCCeEEEEcCChHHHHHHHHHHH
Q 038763 231 MGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKE-IIARAVQ---------QGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~-~i~~l~~---------~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
.+..+++-|.+|+..++... + .++++|.|||||.+..- ++..+.. .+.++||++||...+.++.+.+.
T Consensus 27 g~~~pt~iQ~~aip~il~g~-d-vi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~ 104 (423)
T PRK04837 27 GFHNCTPIQALALPLTLAGR-D-VAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAE 104 (423)
T ss_pred CCCCCCHHHHHHHHHHhCCC-c-EEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHH
Confidence 34568999999999998764 4 68999999999987533 3333332 23589999999999999876654
Q ss_pred h
Q 038763 301 D 301 (690)
Q Consensus 301 ~ 301 (690)
.
T Consensus 105 ~ 105 (423)
T PRK04837 105 P 105 (423)
T ss_pred H
Confidence 4
No 120
>PTZ00110 helicase; Provisional
Probab=96.83 E-value=0.0045 Score=70.85 Aligned_cols=72 Identities=22% Similarity=0.212 Sum_probs=54.6
Q ss_pred CCCCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHH-HHHHHHHHH-------cCCeEEEEcCChHHHHHHHHHHH
Q 038763 229 GIMGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLL-KEIIARAVQ-------QGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 229 ~~~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl-~~~i~~l~~-------~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
...+..+++-|.+|+..++... + .++++|.|||||.+- .-++..+.. .+..+||++||...+.++.+.+.
T Consensus 147 ~~g~~~pt~iQ~~aip~~l~G~-d-vI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~ 224 (545)
T PTZ00110 147 NAGFTEPTPIQVQGWPIALSGR-D-MIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCN 224 (545)
T ss_pred HCCCCCCCHHHHHHHHHHhcCC-C-EEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHH
Confidence 3445679999999999999753 4 578899999999863 333333332 24679999999999999888877
Q ss_pred hc
Q 038763 301 DV 302 (690)
Q Consensus 301 ~~ 302 (690)
..
T Consensus 225 ~~ 226 (545)
T PTZ00110 225 KF 226 (545)
T ss_pred HH
Confidence 64
No 121
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.82 E-value=0.0034 Score=77.11 Aligned_cols=67 Identities=24% Similarity=0.259 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHHhcC-----CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNK-----KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~-----~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+++.|.+|+..++.. ..+ .+++||.|||||.++...+...+..|.++||++||..-+.++.+.+.+
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d-~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMD-RLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCC-EEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHH
Confidence 6999999999988763 112 699999999999998777777778899999999999999988887765
No 122
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=96.82 E-value=0.0036 Score=77.17 Aligned_cols=67 Identities=25% Similarity=0.246 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+.+-|+.++..++... + .++++|+|||||+++.-++..+...|.++|+++||..-+.++.+.+...
T Consensus 78 ~p~~iQ~~~i~~il~G~-d-~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGD-S-FAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCC-e-EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHH
Confidence 58899999999988754 3 6789999999998776666666667899999999999999998888764
No 123
>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=96.81 E-value=0.0035 Score=68.46 Aligned_cols=56 Identities=18% Similarity=0.261 Sum_probs=40.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE-cCCh--HHHHHHHHHHHhcCCcee
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT-APTN--AAVDNMVEKLSDVGLNIV 307 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~-a~SN--~AvD~l~erL~~~~~~~v 307 (690)
.+.++.||||+|||||++.++..+.+.|.+|+++ +.+. .|++++..--...++++.
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~ 159 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFY 159 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEE
Confidence 4789999999999999999999988888887655 4443 466665333333345444
No 124
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.79 E-value=0.0026 Score=67.21 Aligned_cols=51 Identities=25% Similarity=0.487 Sum_probs=41.2
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEc
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTA 286 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a 286 (690)
+++.|.+.+..++... ...+|.||+||||||++..++..+.. .+.+|+++=
T Consensus 129 ~~~~~~~~L~~~v~~~-~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiE 181 (323)
T PRK13833 129 MTEAQASVIRSAIDSR-LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILE 181 (323)
T ss_pred CCHHHHHHHHHHHHcC-CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEec
Confidence 7889999998888865 45799999999999999998888764 356766543
No 125
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.79 E-value=0.0034 Score=69.14 Aligned_cols=55 Identities=24% Similarity=0.349 Sum_probs=38.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC-Ch--HHHHHHHHHHHhcCCce
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP-TN--AAVDNMVEKLSDVGLNI 306 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~-SN--~AvD~l~erL~~~~~~~ 306 (690)
.+.++.||||+|||||++.++..+.+.|.+|++++. +. .|.+.+..-....++.+
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~ 153 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPF 153 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcE
Confidence 478899999999999999999999888888876543 32 34444443333334443
No 126
>PRK06921 hypothetical protein; Provisional
Probab=96.78 E-value=0.0039 Score=64.40 Aligned_cols=36 Identities=31% Similarity=0.442 Sum_probs=32.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~ 287 (690)
...+++||||||||+++..++..+++. |.+|+.++.
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 458999999999999999999999987 888888775
No 127
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=96.78 E-value=0.003 Score=65.66 Aligned_cols=58 Identities=24% Similarity=0.342 Sum_probs=47.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc---CChHHHHHHHHHHHhcCCceeec
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA---PTNAAVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a---~SN~AvD~l~erL~~~~~~~vRi 309 (690)
.+.++.|..||||||||..+.+++.+.|++|++.| +--.|+++|-.--.+.|++++.-
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~ 200 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISG 200 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEcc
Confidence 47899999999999999999999999999988774 33456777766656667887763
No 128
>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=96.77 E-value=0.0022 Score=72.30 Aligned_cols=54 Identities=22% Similarity=0.417 Sum_probs=46.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+++|.||||||||+++...+...+++|.+++++++ ....+++..+....|++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~-eEs~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKERAILFAY-EESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe-eCCHHHHHHHHHHcCCC
Confidence 4689999999999999999999999999999999985 45577788888776654
No 129
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.75 E-value=0.0029 Score=67.80 Aligned_cols=56 Identities=18% Similarity=0.366 Sum_probs=42.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC-Ch--HHHHHHHHHHHhcCCcee
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP-TN--AAVDNMVEKLSDVGLNIV 307 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~-SN--~AvD~l~erL~~~~~~~v 307 (690)
...++.||+|+|||||++.+...+...|.+|++++. +. .|++.+..-....++.++
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~ 300 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI 300 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEE
Confidence 467899999999999999999999888888875544 44 377776654444455543
No 130
>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=96.75 E-value=0.0029 Score=62.91 Aligned_cols=47 Identities=26% Similarity=0.474 Sum_probs=37.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVE 297 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~e 297 (690)
+.++.|.||||||||+++..++......|.+++..+..+...+.+.+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~ 58 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQ 58 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHH
Confidence 46899999999999999999999988888888887775423344443
No 131
>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=96.72 E-value=0.0023 Score=72.03 Aligned_cols=54 Identities=15% Similarity=0.277 Sum_probs=45.5
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
...++|.||||||||+...+.+..-+.+ |.++|.++.- ...+++.+.....|++
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G~~ 75 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFGWD 75 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcCCC
Confidence 4689999999999999999998887666 8999999986 6668888888877654
No 132
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.71 E-value=0.0022 Score=66.24 Aligned_cols=52 Identities=29% Similarity=0.573 Sum_probs=42.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
+.+++|.|+||||||+.+.+.+...++.|.+++.++....+.+ +.+.+..+|
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~-l~~~~~~~g 74 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEE-LLENARSFG 74 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHH-HHHHHHHcC
Confidence 4689999999999999999999999999999999998766544 444444343
No 133
>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=96.68 E-value=0.0026 Score=72.87 Aligned_cols=50 Identities=22% Similarity=0.365 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEE
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVL 283 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVL 283 (690)
.+.+.|.+.+..++....++.+|.||+|||||||+..++..+...+.+|+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~ 348 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIS 348 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEE
Confidence 48899999999888766789999999999999999888887754444443
No 134
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.68 E-value=0.006 Score=70.11 Aligned_cols=69 Identities=20% Similarity=0.209 Sum_probs=54.2
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHH-HHHHHHHc---------CCeEEEEcCChHHHHHHHHHHHh
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKE-IIARAVQQ---------GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~-~i~~l~~~---------g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+..+++-|.++|..++... + .++++|.|||||.+..- ++..+... +.++|+++||...+.++.+.+..
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~-D-vi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~ 106 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGG-D-VAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVK 106 (572)
T ss_pred CCCCCHHHHHHHHHHhCCC-C-EEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 4568999999999999764 4 68999999999987544 34444331 35899999999999999888766
Q ss_pred c
Q 038763 302 V 302 (690)
Q Consensus 302 ~ 302 (690)
.
T Consensus 107 l 107 (572)
T PRK04537 107 F 107 (572)
T ss_pred H
Confidence 4
No 135
>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=96.67 E-value=0.0053 Score=67.44 Aligned_cols=59 Identities=24% Similarity=0.405 Sum_probs=40.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH-HcCCeEE-EEcCChH--HHHHHHHHHHhcCCceeecC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV-QQGERVL-VTAPTNA--AVDNMVEKLSDVGLNIVRVG 310 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~-~~g~rVL-v~a~SN~--AvD~l~erL~~~~~~~vRiG 310 (690)
.+.++.||||+|||||++.++..+. +.|.+|+ |++.+.. |.+.+...-...++++...+
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~ 162 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALG 162 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecC
Confidence 3789999999999999999999986 4777776 4455443 34554443344466655443
No 136
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=96.65 E-value=0.0036 Score=61.22 Aligned_cols=50 Identities=30% Similarity=0.494 Sum_probs=38.5
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH----------cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ----------QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~----------~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..+++|.||||+|||+++..++..+.. .+.+||++..-+. ...+.+|+..
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 469999999999999999999999886 4568999988777 5566777765
No 137
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.65 E-value=0.0028 Score=62.10 Aligned_cols=51 Identities=33% Similarity=0.519 Sum_probs=33.8
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCCh-HHHHHHHHHHH
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTN-AAVDNMVEKLS 300 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN-~AvD~l~erL~ 300 (690)
+-|-.+|.|||||||||.+..+++.|+... .-||=+-.|+ .-+|.+..++.
T Consensus 47 nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK 100 (333)
T KOG0991|consen 47 NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIK 100 (333)
T ss_pred CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHH
Confidence 346789999999999999999999988632 2344333332 33444444443
No 138
>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=96.65 E-value=0.0025 Score=63.87 Aligned_cols=37 Identities=30% Similarity=0.538 Sum_probs=33.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
..+++|.||||||||+++.+++......|.++++.+.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 4689999999999999999999999888989988753
No 139
>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=96.64 E-value=0.0036 Score=64.96 Aligned_cols=50 Identities=28% Similarity=0.374 Sum_probs=42.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..+++|.||||+|||+++..++..++.. |.+|++.+.-. ..+.+..++..
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHH
Confidence 4699999999999999999999998877 99999998765 45667777754
No 140
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.64 E-value=0.0057 Score=65.81 Aligned_cols=56 Identities=21% Similarity=0.366 Sum_probs=38.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-C-CeEEEEcCCh---HHHHHHHHHHHhcCCce
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-G-ERVLVTAPTN---AAVDNMVEKLSDVGLNI 306 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g-~rVLv~a~SN---~AvD~l~erL~~~~~~~ 306 (690)
..+.++.||+|+|||||++.++..++.. | .+|.+++.-. .|++++..--...++.+
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~ 197 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPV 197 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCce
Confidence 4689999999999999999999987653 5 5776665333 35555543333334443
No 141
>PHA00729 NTP-binding motif containing protein
Probab=96.64 E-value=0.006 Score=60.77 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=21.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
..+|.|||||||||++..+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 479999999999999999888764
No 142
>PRK08727 hypothetical protein; Validated
Probab=96.64 E-value=0.0038 Score=63.25 Aligned_cols=36 Identities=36% Similarity=0.434 Sum_probs=32.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
...+|+||||||||+++..+..++.+.|.++.+++.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 468999999999999999999999989988888764
No 143
>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=96.63 E-value=0.0042 Score=65.31 Aligned_cols=54 Identities=20% Similarity=0.409 Sum_probs=43.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEEcCC
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVTAPT 288 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~a~S 288 (690)
.+++.|.+.+..++... ...+|.||+||||||++..++..+... +.+|+++-.+
T Consensus 116 ~~~~~~~~~L~~~v~~~-~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~ 171 (299)
T TIGR02782 116 IMTAAQRDVLREAVLAR-KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDT 171 (299)
T ss_pred CCCHHHHHHHHHHHHcC-CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCc
Confidence 37888888888888754 567999999999999999988877653 5787776544
No 144
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.63 E-value=0.0033 Score=64.09 Aligned_cols=35 Identities=26% Similarity=0.463 Sum_probs=29.2
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCC
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGE 280 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~ 280 (690)
.+..+.++.||.||-|||||||++.+|.++-+...
T Consensus 120 ~~~~~~GLILVTGpTGSGKSTTlAamId~iN~~~~ 154 (353)
T COG2805 120 LAESPRGLILVTGPTGSGKSTTLAAMIDYINKHKA 154 (353)
T ss_pred HHhCCCceEEEeCCCCCcHHHHHHHHHHHHhccCC
Confidence 33446789999999999999999999999876543
No 145
>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=96.63 E-value=0.0053 Score=71.26 Aligned_cols=66 Identities=18% Similarity=0.163 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHhcCCC-CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKR-PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~-~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.|=+.|.+|+...+.... .-.+|.-|+|+|||.+.+.++..+ ++++||++||...|++..+.+.+.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 588999999998875331 246889999999999998877654 578999999999999999888774
No 146
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.62 E-value=0.0037 Score=66.18 Aligned_cols=54 Identities=30% Similarity=0.471 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCCh
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTN 289 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN 289 (690)
+++.|.+.+..++... ...+|.||+||||||++.+++..+.. ...+|+++-.+.
T Consensus 133 ~~~~~~~~L~~~v~~~-~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~ 188 (319)
T PRK13894 133 MTAAQREAIIAAVRAH-RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTG 188 (319)
T ss_pred CCHHHHHHHHHHHHcC-CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCC
Confidence 7888999998888754 57899999999999999999887653 456777655543
No 147
>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=96.61 E-value=0.0041 Score=60.19 Aligned_cols=58 Identities=36% Similarity=0.605 Sum_probs=39.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC--ChHHHHHHHHHHHhcCCceeecCCC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP--TNAAVDNMVEKLSDVGLNIVRVGNP 312 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~--SN~AvD~l~erL~~~~~~~vRiG~~ 312 (690)
|+++|.|..||||||++.+++. ....+.++.|+.. ....+|. +.+.+.+..++.+.+.
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~--~~l~~~~~~v~~l~~g 60 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDA--ELLQEDGVPVVELNNG 60 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHH--HHHHTTT-EEEEECTT
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccch--hhhcccceEEEEecCC
Confidence 6899999999999999999998 5667888877753 3333443 3344556667766553
No 148
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.60 E-value=0.0056 Score=75.04 Aligned_cols=70 Identities=19% Similarity=0.203 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHHh---cCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHhcC
Q 038763 234 TFDDSQKKAIALGL---NKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 234 ~LN~~Q~~Av~~al---~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
.|-+.|.+||..+. .....-.+|+.|.|||||.|++.++..+++.+ ++||++++++.-+++..+.+...+
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 58899999997654 22223478889999999999999999988743 799999999999999998887653
No 149
>PRK05642 DNA replication initiation factor; Validated
Probab=96.60 E-value=0.0058 Score=61.98 Aligned_cols=36 Identities=28% Similarity=0.425 Sum_probs=31.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
+..+|+||+|||||+.+..+..++...+.++++++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 457899999999999999888888888888887764
No 150
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.59 E-value=0.0055 Score=63.92 Aligned_cols=37 Identities=32% Similarity=0.577 Sum_probs=30.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc-C-CeEEEEcCC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ-G-ERVLVTAPT 288 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~-g-~rVLv~a~S 288 (690)
.+.+|.||+|+|||||++.++..+... | .+|.+++.-
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D 233 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTD 233 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECC
Confidence 478899999999999999999998875 4 787766543
No 151
>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=96.58 E-value=0.0043 Score=63.14 Aligned_cols=49 Identities=24% Similarity=0.390 Sum_probs=41.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~ 300 (690)
..+++|.||||||||+++..++.+++.. |.+|++++.-..+- ++.+|+.
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHH
Confidence 4699999999999999999999999887 99999999876544 5555553
No 152
>PLN03025 replication factor C subunit; Provisional
Probab=96.53 E-value=0.0035 Score=66.75 Aligned_cols=44 Identities=25% Similarity=0.450 Sum_probs=31.4
Q ss_pred CHHHHHHHHHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 236 DDSQKKAIALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 236 N~~Q~~Av~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
|+...+.++..+.. +.+..+++||||||||+++..++..+...+
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccc
Confidence 44445555554443 235689999999999999999988886543
No 153
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=96.52 E-value=0.01 Score=67.55 Aligned_cols=70 Identities=23% Similarity=0.272 Sum_probs=52.5
Q ss_pred CCCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHH---------cCCeEEEEcCChHHHHHHHHHH
Q 038763 230 IMGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQ---------QGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 230 ~~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~---------~g~rVLv~a~SN~AvD~l~erL 299 (690)
..+..+++-|.+|+..++... + .++.+|.|||||.. +.-++..+.. .+.++|+++||..-+.++.+.+
T Consensus 139 ~g~~~ptpiQ~~aip~il~g~-d-viv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~ 216 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAALSGR-S-LLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQA 216 (518)
T ss_pred cCCCCCCHHHHHHHHHHhcCC-C-EEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHH
Confidence 345679999999999999753 3 69999999999975 3334444332 3468999999999988876665
Q ss_pred Hh
Q 038763 300 SD 301 (690)
Q Consensus 300 ~~ 301 (690)
..
T Consensus 217 ~~ 218 (518)
T PLN00206 217 KV 218 (518)
T ss_pred HH
Confidence 44
No 154
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.52 E-value=0.0029 Score=66.68 Aligned_cols=35 Identities=26% Similarity=0.258 Sum_probs=31.6
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
-.+++||||||||+++.+++..++..|.++.++..
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 47899999999999999999999999998887754
No 155
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.52 E-value=0.0034 Score=63.16 Aligned_cols=38 Identities=29% Similarity=0.583 Sum_probs=33.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
..+++|.||||||||+++.+++...++.|.++++++.-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 46899999999999999999999998888888877665
No 156
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.50 E-value=0.0044 Score=66.35 Aligned_cols=43 Identities=26% Similarity=0.566 Sum_probs=32.3
Q ss_pred CHHHHHHHHHHhcCCC-CeEEEeCCCCCChhHHHHHHHHHHHHc
Q 038763 236 DDSQKKAIALGLNKKR-PLLIIQGPPGTGKTGLLKEIIARAVQQ 278 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~-~~~lI~GPPGTGKT~tl~~~i~~l~~~ 278 (690)
++...+.+..++..+. +..+++||||||||+++..+...+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 4555666666665432 368999999999999999998887654
No 157
>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=96.50 E-value=0.0022 Score=57.51 Aligned_cols=23 Identities=52% Similarity=0.985 Sum_probs=20.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+.+|.|||||||||++..+...+
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 36899999999999998887766
No 158
>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=96.49 E-value=0.0052 Score=64.77 Aligned_cols=43 Identities=28% Similarity=0.328 Sum_probs=36.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD 293 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD 293 (690)
..+++|.||||||||+++.+++....+.|.++++...-+..-.
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 97 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHH
Confidence 4689999999999999999999999999999988866554433
No 159
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.48 E-value=0.0052 Score=70.44 Aligned_cols=69 Identities=32% Similarity=0.301 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHH---hcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALG---LNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~a---l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+-..|..||... ....++=+||.=.+|||||.|+..+|..|.+.+ +|||.+|..|+-+++-.....++
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHh
Confidence 4677899998754 333344478888889999999999999999976 79999999999999998777653
No 160
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.46 E-value=0.0078 Score=64.33 Aligned_cols=56 Identities=21% Similarity=0.302 Sum_probs=42.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEE-EEcCCh--HHHHHHHHHHHhcCCce
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVL-VTAPTN--AAVDNMVEKLSDVGLNI 306 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVL-v~a~SN--~AvD~l~erL~~~~~~~ 306 (690)
..+.++.||.|+|||||++.+...+...|.+|. +++.+- .|++++...-...++.+
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv 264 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVEL 264 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCE
Confidence 458899999999999999999999888888886 445444 45777666554445443
No 161
>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=96.44 E-value=0.006 Score=63.07 Aligned_cols=42 Identities=31% Similarity=0.612 Sum_probs=29.7
Q ss_pred CCHHHHHHHHH---HhcCCCCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 235 FDDSQKKAIAL---GLNKKRPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 235 LN~~Q~~Av~~---al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
..+.+++|+.. .+....++.+|.||||+||||++..+...+.
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 34455555543 3444445899999999999999988876654
No 162
>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=96.43 E-value=0.0094 Score=64.48 Aligned_cols=61 Identities=20% Similarity=0.279 Sum_probs=48.5
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
|.+|++.+...+.+..+|.+|+|+|||....-.+. ..+.+.++++|+++.++...+++.+.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~~~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---HGENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---HcCCCEEEEeChHHHHHHHHHHHHHH
Confidence 88999988876656789999999999986533222 34568899999999999988888763
No 163
>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=96.42 E-value=0.0053 Score=59.89 Aligned_cols=50 Identities=32% Similarity=0.496 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
.+++.|.+.+..++.. ....+|.||+|+||||++..++..+ ....+++..
T Consensus 9 ~~~~~~~~~l~~~v~~-g~~i~I~G~tGSGKTTll~aL~~~i-~~~~~~i~i 58 (186)
T cd01130 9 TFSPLQAAYLWLAVEA-RKNILISGGTGSGKTTLLNALLAFI-PPDERIITI 58 (186)
T ss_pred CCCHHHHHHHHHHHhC-CCEEEEECCCCCCHHHHHHHHHhhc-CCCCCEEEE
Confidence 3889999999999886 4789999999999999997766543 444455543
No 164
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.41 E-value=0.011 Score=61.91 Aligned_cols=65 Identities=22% Similarity=0.256 Sum_probs=46.8
Q ss_pred CHHHHH---HHHHHhcCCCCeEEEeCCCCCChhHHHH-HHHHHHHHcCC-----eEEEEcCChHHHHHHHHHHHh
Q 038763 236 DDSQKK---AIALGLNKKRPLLIIQGPPGTGKTGLLK-EIIARAVQQGE-----RVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 236 N~~Q~~---Av~~al~~~~~~~lI~GPPGTGKT~tl~-~~i~~l~~~g~-----rVLv~a~SN~AvD~l~erL~~ 301 (690)
-+.|.+ +|..++.. +...+|.+|.|||||..+. .++..+...+. +|++++.|+.-.+..+..+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~-~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDR-GKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHc-CCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 677887 44456664 4678999999999997654 44455555444 899999999887777666654
No 165
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.41 E-value=0.011 Score=61.91 Aligned_cols=65 Identities=22% Similarity=0.256 Sum_probs=46.8
Q ss_pred CHHHHH---HHHHHhcCCCCeEEEeCCCCCChhHHHH-HHHHHHHHcCC-----eEEEEcCChHHHHHHHHHHHh
Q 038763 236 DDSQKK---AIALGLNKKRPLLIIQGPPGTGKTGLLK-EIIARAVQQGE-----RVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 236 N~~Q~~---Av~~al~~~~~~~lI~GPPGTGKT~tl~-~~i~~l~~~g~-----rVLv~a~SN~AvD~l~erL~~ 301 (690)
-+.|.+ +|..++.. +...+|.+|.|||||..+. .++..+...+. +|++++.|+.-.+..+..+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~-~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDR-GKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHc-CCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 677887 44456664 4678999999999997654 44455555444 899999999887777666654
No 166
>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=96.41 E-value=0.012 Score=66.12 Aligned_cols=74 Identities=19% Similarity=0.234 Sum_probs=57.5
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCC
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGN 311 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~ 311 (690)
..+.+.|.+||..++... + .++..|.|||||.+- .+-.+. .+...||++|+..-+.+..++|...++...-++.
T Consensus 10 ~~~r~~Q~~ai~~~l~g~-d-vlv~apTGsGKTl~y--~lp~l~-~~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~ 83 (470)
T TIGR00614 10 SSFRPVQLEVINAVLLGR-D-CFVVMPTGGGKSLCY--QLPALC-SDGITLVISPLISLMEDQVLQLKASGIPATFLNS 83 (470)
T ss_pred CCCCHHHHHHHHHHHcCC-C-EEEEcCCCCcHhHHH--HHHHHH-cCCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 458999999999999864 4 688999999999642 232233 4568999999999998889999888776655543
No 167
>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=96.40 E-value=0.0029 Score=65.33 Aligned_cols=28 Identities=29% Similarity=0.383 Sum_probs=22.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
...+++||||||||+++..+...+...+
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 3478999999999999988887775533
No 168
>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=96.39 E-value=0.011 Score=59.38 Aligned_cols=52 Identities=29% Similarity=0.365 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHhcCCC---CeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEc
Q 038763 235 FDDSQKKAIALGLNKKR---PLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTA 286 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~---~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a 286 (690)
-|..=..|+......+. ....|+||+|+|||+++.++...+.+ ++.+|+.+.
T Consensus 15 ~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 15 SNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp TTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred cHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 45544555554433322 25789999999999999999888876 467887765
No 169
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.38 E-value=0.0096 Score=65.33 Aligned_cols=28 Identities=36% Similarity=0.599 Sum_probs=24.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
+..+|+||||||||+++..++..+...+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 4679999999999999999999887654
No 170
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.37 E-value=0.013 Score=65.99 Aligned_cols=70 Identities=24% Similarity=0.269 Sum_probs=53.8
Q ss_pred CCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHH-HHHHHHHHHc---------CCeEEEEcCChHHHHHHHHHHH
Q 038763 231 MGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLL-KEIIARAVQQ---------GERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl-~~~i~~l~~~---------g~rVLv~a~SN~AvD~l~erL~ 300 (690)
.+..+++-|.+|+..++... + .++.+|.|||||..- .-++..+... +.++|+++||...+.++.+.+.
T Consensus 106 g~~~~~~iQ~~ai~~~~~G~-d-vi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~ 183 (475)
T PRK01297 106 GFPYCTPIQAQVLGYTLAGH-D-AIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAA 183 (475)
T ss_pred CCCCCCHHHHHHHHHHhCCC-C-EEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 34569999999999988753 4 588999999999753 3344445442 3589999999999999888776
Q ss_pred hc
Q 038763 301 DV 302 (690)
Q Consensus 301 ~~ 302 (690)
..
T Consensus 184 ~l 185 (475)
T PRK01297 184 AL 185 (475)
T ss_pred Hh
Confidence 53
No 171
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.37 E-value=0.0078 Score=66.35 Aligned_cols=46 Identities=28% Similarity=0.417 Sum_probs=33.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH--HcCCeEEEE-cCChH--HHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV--QQGERVLVT-APTNA--AVDNMVE 297 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~--~~g~rVLv~-a~SN~--AvD~l~e 297 (690)
.+.++.||+|+|||||++.++..+. ..|.+|.++ +.+.. |++.+..
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~ 272 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKT 272 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHH
Confidence 4788899999999999999998887 456777655 44432 4444443
No 172
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=96.36 E-value=0.006 Score=69.32 Aligned_cols=54 Identities=26% Similarity=0.475 Sum_probs=46.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+++|.||||||||+++..++...++.|.++++++.... .+.+.+++...|++
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~~~g~~ 326 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNARSWGID 326 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHHHcCCC
Confidence 4689999999999999999999999999999999988765 77788888776654
No 173
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=96.34 E-value=0.0045 Score=57.10 Aligned_cols=40 Identities=33% Similarity=0.739 Sum_probs=26.6
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEE-EEcCChHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVL-VTAPTNAAVDNMV 296 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVL-v~a~SN~AvD~l~ 296 (690)
.++.||||||||+++..+...+ +.++. +..++..-.+.+.
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~i~~~~~~~~~dl~ 42 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL---GRPVIRINCSSDTTEEDLI 42 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH---TCEEEEEE-TTTSTHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh---hcceEEEEeccccccccce
Confidence 5899999999999998888777 54443 3333333333433
No 174
>PF13173 AAA_14: AAA domain
Probab=96.34 E-value=0.0071 Score=55.08 Aligned_cols=43 Identities=30% Similarity=0.503 Sum_probs=35.5
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDN 294 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~ 294 (690)
+.+.+|.||.|+||||++..++..+. .+.+++.+.........
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~ 44 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRR 44 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHH
Confidence 36899999999999999999998888 66788888777665543
No 175
>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=96.32 E-value=0.0052 Score=60.63 Aligned_cols=36 Identities=25% Similarity=0.504 Sum_probs=28.6
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~ 287 (690)
++.+|.||+|+||||++..++..+... +.+|+....
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~ 38 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIED 38 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcC
Confidence 578999999999999999888887654 446665544
No 176
>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=96.31 E-value=0.005 Score=66.77 Aligned_cols=42 Identities=29% Similarity=0.404 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHhc----C-CCCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 236 DDSQKKAIALGLN----K-KRPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 236 N~~Q~~Av~~al~----~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
-+.|.+.+...+. . ..+..+|+||||||||+++..++.++..
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3445555544442 1 2246899999999999999999888754
No 177
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.31 E-value=0.0052 Score=69.40 Aligned_cols=48 Identities=27% Similarity=0.467 Sum_probs=44.4
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 255 IIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
|++||.|+|||.+...++...+..|+++|+++|+..-+.++.+++.+.
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 589999999999999999999999999999999999999999999763
No 178
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=96.30 E-value=0.0099 Score=69.60 Aligned_cols=69 Identities=13% Similarity=0.110 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHHhcC--------CCCeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 235 FDDSQKKAIALGLNK--------KRPLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 235 LN~~Q~~Av~~al~~--------~~~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
.-..|..||..++.. ...-.+|+-|.|||||.|++.++..+.. .+.+||++++...-++++.+.+...+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 567899999876432 1235789999999999999999998875 35699999999999999999988764
No 179
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=96.28 E-value=0.0061 Score=60.34 Aligned_cols=24 Identities=46% Similarity=0.782 Sum_probs=17.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+..+.+||||+||||++ .+|++-.
T Consensus 51 ~h~lf~GPPG~GKTTLA-~IIA~e~ 74 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLA-RIIANEL 74 (233)
T ss_dssp -EEEEESSTTSSHHHHH-HHHHHHC
T ss_pred ceEEEECCCccchhHHH-HHHHhcc
Confidence 46899999999998754 4544433
No 180
>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=96.28 E-value=0.0067 Score=51.46 Aligned_cols=33 Identities=33% Similarity=0.617 Sum_probs=30.5
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
.++.|.+|+|||+++..++..+.+.|.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999999999998887
No 181
>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=96.27 E-value=0.0097 Score=70.34 Aligned_cols=66 Identities=24% Similarity=0.364 Sum_probs=51.1
Q ss_pred CCHHHHHHHHH---HhcCCCCeEEEeCCCCCChhH-HHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHh
Q 038763 235 FDDSQKKAIAL---GLNKKRPLLIIQGPPGTGKTG-LLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 235 LN~~Q~~Av~~---al~~~~~~~lI~GPPGTGKT~-tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.=+.|++.+.. ++.. ....++.+|.|||||- ++...+.+..+.+ .+|..|+.||+-...+++-|.+
T Consensus 11 ~y~~Q~~~m~~v~~~l~~-~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDR-GDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCHHHHHHHHHHHHHhcc-CCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 45688877654 5664 4678999999999995 5566666655555 7999999999998888887766
No 182
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=96.26 E-value=0.0056 Score=56.76 Aligned_cols=38 Identities=34% Similarity=0.633 Sum_probs=30.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
|+..|.||.||||||++..+|..+.++|.+|.+.-+++
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 46889999999999999999999999999988776553
No 183
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.25 E-value=0.0081 Score=66.78 Aligned_cols=53 Identities=28% Similarity=0.525 Sum_probs=43.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGL 304 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~ 304 (690)
..+++|.||||+|||+++..++..+.+.+.++|.++... ..+.+..|....+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHHHHcCC
Confidence 458999999999999999999999888889999988654 45667776655544
No 184
>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=96.25 E-value=0.0083 Score=63.31 Aligned_cols=42 Identities=31% Similarity=0.356 Sum_probs=36.2
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAV 292 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~Av 292 (690)
..++.|.||||||||+++..++....+.|.+++++..-+..-
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~ 96 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALD 96 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHH
Confidence 458999999999999999999999988998999888755433
No 185
>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=96.25 E-value=0.006 Score=64.13 Aligned_cols=41 Identities=39% Similarity=0.602 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
++++-..+|..++..+. ..+|.||||||||+++..++..+-
T Consensus 49 f~~~~~~~vl~~l~~~~-~ilL~G~pGtGKTtla~~lA~~l~ 89 (327)
T TIGR01650 49 FDKATTKAICAGFAYDR-RVMVQGYHGTGKSTHIEQIAARLN 89 (327)
T ss_pred CCHHHHHHHHHHHhcCC-cEEEEeCCCChHHHHHHHHHHHHC
Confidence 78888889988887654 579999999999999888887763
No 186
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0024 Score=68.73 Aligned_cols=22 Identities=32% Similarity=0.747 Sum_probs=19.9
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.|+.||||||||+.|++++..|
T Consensus 238 YLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ceeeCCCCCCHHHHHHHHHhhc
Confidence 6999999999999999988765
No 187
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.23 E-value=0.006 Score=63.52 Aligned_cols=47 Identities=34% Similarity=0.557 Sum_probs=31.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVE 297 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~e 297 (690)
-|-.++|||||||||+++.-++..--...-+.+-++.||.-+..+..
T Consensus 162 ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ 208 (554)
T KOG2028|consen 162 IPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRD 208 (554)
T ss_pred CCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHH
Confidence 46689999999999997655554433333456666667666555443
No 188
>PF05729 NACHT: NACHT domain
Probab=96.21 E-value=0.0048 Score=58.28 Aligned_cols=27 Identities=33% Similarity=0.703 Sum_probs=24.5
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
+.+|+|+||+|||+++..++..+...+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 679999999999999999999988754
No 189
>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=96.21 E-value=0.0096 Score=64.43 Aligned_cols=53 Identities=26% Similarity=0.549 Sum_probs=42.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGL 304 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~ 304 (690)
..+++|.||||+|||+++..++..+.+.+.+||+++... ..+++..|....++
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE-s~~qi~~Ra~rlg~ 134 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE-SPEQIKLRADRLGI 134 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc-CHHHHHHHHHHcCC
Confidence 468999999999999999999999988888999887654 35667766655443
No 190
>PRK14701 reverse gyrase; Provisional
Probab=96.20 E-value=0.013 Score=74.33 Aligned_cols=67 Identities=27% Similarity=0.288 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
++.+-|+.++..++... + +++++|.|||||.+..-+...+...|.++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~-d-~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGK-S-FSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCC-C-EEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHH
Confidence 48999999999999864 4 6889999999999654444444457889999999999999999988763
No 191
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=96.18 E-value=0.02 Score=57.42 Aligned_cols=56 Identities=21% Similarity=0.446 Sum_probs=42.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh-HHHHHHHHHHHhcCCcee
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN-AAVDNMVEKLSDVGLNIV 307 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN-~AvD~l~erL~~~~~~~v 307 (690)
.-+|++|+.|||||+++.+++......|-|++=+.... .....|++.|.....++|
T Consensus 53 nnvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~~~~~kFI 109 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLRDRPYKFI 109 (249)
T ss_pred cceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHhcCCCCEE
Confidence 35799999999999999999999999998877766655 345666666665444433
No 192
>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=96.15 E-value=0.0044 Score=64.71 Aligned_cols=27 Identities=30% Similarity=0.433 Sum_probs=23.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
..+++||||||||+++..+...+...|
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 479999999999999988888877654
No 193
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.15 E-value=0.0049 Score=59.44 Aligned_cols=34 Identities=41% Similarity=0.601 Sum_probs=28.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
++.++.|+||+||||...++++.|-+.+.++...
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l 35 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHL 35 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhcccc
Confidence 5789999999999999999999988877665543
No 194
>PRK13767 ATP-dependent helicase; Provisional
Probab=96.13 E-value=0.016 Score=70.05 Aligned_cols=66 Identities=29% Similarity=0.328 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHH-HHHHHHH--------cCCeEEEEcCChHHHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKE-IIARAVQ--------QGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~-~i~~l~~--------~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
..|++-|.+|+..++... -.+|++|.|||||....- ++..+.. .+.++|+++|+..-+.++..+|.
T Consensus 31 ~~~tpiQ~~Ai~~il~g~--nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGK--NVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCCHHHHHHHHHHHcCC--CEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 459999999999987653 479999999999997543 3444443 13469999999999988776654
No 195
>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=96.13 E-value=0.0036 Score=57.89 Aligned_cols=39 Identities=38% Similarity=0.753 Sum_probs=26.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+.++.|||||||||++..+...+ + ..++ ..|.+..++..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~---~--~~~i-----~~D~~~~~~~~ 39 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRL---G--AVVI-----SQDEIRRRLAG 39 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHS---T--EEEE-----EHHHHHHHHCC
T ss_pred CEEEECCCCCCHHHHHHHHHHHC---C--CEEE-----eHHHHHHHHcc
Confidence 47899999999999977765443 2 2222 24667766644
No 196
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=96.12 E-value=0.0074 Score=62.90 Aligned_cols=54 Identities=26% Similarity=0.252 Sum_probs=47.3
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcC
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAP 287 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~ 287 (690)
....++.|+..++++..+ ++..=.||.|||||.+.+....+++..+ ++|+++=|
T Consensus 126 I~~kt~~Q~~y~eai~~~--di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEH--DIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhc--CeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 345899999999988764 5889999999999999999999988877 59999888
No 197
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.10 E-value=0.014 Score=63.38 Aligned_cols=54 Identities=20% Similarity=0.383 Sum_probs=37.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH----cCCeEEEE-cCC--hHHHHHHHHHHHh-cCCce
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ----QGERVLVT-APT--NAAVDNMVEKLSD-VGLNI 306 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~----~g~rVLv~-a~S--N~AvD~l~erL~~-~~~~~ 306 (690)
.+.++.||+|+|||||++.++..+.. .|.+|.+. +.+ ..|++. +..+.+ .++++
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQ-L~~~a~~lgvpv 236 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQ-IQTYGDIMGIPV 236 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHH-HHHHhhcCCcce
Confidence 47899999999999999999988764 46677644 444 455555 444433 45543
No 198
>PRK13768 GTPase; Provisional
Probab=96.09 E-value=0.0072 Score=62.03 Aligned_cols=34 Identities=29% Similarity=0.454 Sum_probs=31.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+.+|.||||+||||++..+...+...|.+|+++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 6789999999999999999999988999998874
No 199
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=96.07 E-value=0.0096 Score=67.70 Aligned_cols=54 Identities=15% Similarity=0.356 Sum_probs=45.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHhcCCc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSDVGLN 305 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~~~~~ 305 (690)
..+.+|.|+||||||+.+..++...+.+ |.++|.++... ..+.+.+++...|++
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~g~d 85 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASFGWD 85 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHcCCC
Confidence 4689999999999999999999888877 99999987765 567788888777654
No 200
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.07 E-value=0.0078 Score=65.32 Aligned_cols=36 Identities=25% Similarity=0.510 Sum_probs=29.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH-HHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA-VQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l-~~~g~rVLv~a~ 287 (690)
.+.++.||+|+|||||++.++..+ ...|.+|++++.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 468899999999999999999876 567888866653
No 201
>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=96.07 E-value=0.0091 Score=47.97 Aligned_cols=30 Identities=30% Similarity=0.557 Sum_probs=23.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
..|.|+||+||||++..+...+ .+.++-++
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 4688999999999998888887 44444444
No 202
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.06 E-value=0.021 Score=63.93 Aligned_cols=37 Identities=30% Similarity=0.378 Sum_probs=30.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEEcCC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVTAPT 288 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~a~S 288 (690)
+..+|+||||||||+++..+...+.+. +.+|+.+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~ 187 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE 187 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 347999999999999999999888876 6677766543
No 203
>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=96.04 E-value=0.015 Score=60.10 Aligned_cols=33 Identities=30% Similarity=0.536 Sum_probs=23.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeE-EEEcCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERV-LVTAPT 288 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rV-Lv~a~S 288 (690)
..++.||||||||+++..+...+ |.++ .+++.+
T Consensus 23 ~vLL~G~~GtGKT~lA~~la~~l---g~~~~~i~~~~ 56 (262)
T TIGR02640 23 PVHLRGPAGTGKTTLAMHVARKR---DRPVMLINGDA 56 (262)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHh---CCCEEEEeCCc
Confidence 46889999999999988776533 5444 344443
No 204
>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=96.04 E-value=0.011 Score=64.03 Aligned_cols=49 Identities=27% Similarity=0.535 Sum_probs=41.9
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+|.+|.|+|||.+....+...+. .+.++++++|+...++++.+++.+.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 689999999999987776666553 4579999999999999999999874
No 205
>PHA02653 RNA helicase NPH-II; Provisional
Probab=96.03 E-value=0.019 Score=66.80 Aligned_cols=62 Identities=18% Similarity=0.258 Sum_probs=46.0
Q ss_pred HHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHH----------H--HH---cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 238 SQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIAR----------A--VQ---QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 238 ~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~----------l--~~---~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
-|.+++..++.. ...+++|+.|||||+.+-..+.. + +. .+.+|+|++|+..+|..+.+++.+
T Consensus 168 iQ~qil~~i~~g--kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 168 VQLKIFEAWISR--KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHHhC--CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHH
Confidence 577777777654 35799999999999976544322 1 11 245899999999999998888865
No 206
>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=96.02 E-value=0.0075 Score=56.96 Aligned_cols=36 Identities=31% Similarity=0.491 Sum_probs=32.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
..|.||+||||||++..++..+..+|.+|.+.-+..
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~ 37 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHDH 37 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence 568899999999999999999988899999887653
No 207
>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=96.00 E-value=0.015 Score=58.73 Aligned_cols=35 Identities=40% Similarity=0.717 Sum_probs=28.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
.+.=|.||||.||+|++-+++..+.++|++|-|+|
T Consensus 30 ~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 30 HVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp EEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred eEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 45678999999999999999999999999876665
No 208
>PRK09354 recA recombinase A; Provisional
Probab=96.00 E-value=0.013 Score=62.40 Aligned_cols=43 Identities=28% Similarity=0.320 Sum_probs=36.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD 293 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD 293 (690)
..++.|.||||||||+++.+++....+.|.+++.+..-+..-.
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~ 102 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP 102 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHH
Confidence 4589999999999999999999999999989888877654443
No 209
>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=95.99 E-value=0.013 Score=65.18 Aligned_cols=52 Identities=23% Similarity=0.463 Sum_probs=42.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
..+++|.|+||+||||++..++..+.+.|.+||.++.-. ..+.+..|....+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE-s~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE-SLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC-CHHHHHHHHHHcC
Confidence 468999999999999999999999988888998887654 3566776665544
No 210
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=95.97 E-value=0.013 Score=52.53 Aligned_cols=26 Identities=31% Similarity=0.382 Sum_probs=22.6
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
.-.|||||||||.+.--++..+...|
T Consensus 56 lSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 56 LSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred EEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 45899999999999888888888776
No 211
>CHL00181 cbbX CbbX; Provisional
Probab=95.97 E-value=0.0069 Score=63.30 Aligned_cols=27 Identities=30% Similarity=0.469 Sum_probs=22.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
..+++||||||||+++..+...+...|
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~g 87 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKLG 87 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 478999999999999998888876543
No 212
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.95 E-value=0.011 Score=62.77 Aligned_cols=41 Identities=32% Similarity=0.511 Sum_probs=24.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNM 295 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l 295 (690)
+-.+.+|||||||||++.-+ .+.. +..+.-+..+...+.++
T Consensus 49 ~SmIl~GPPG~GKTTlA~li-A~~~--~~~f~~~sAv~~gvkdl 89 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLI-AGTT--NAAFEALSAVTSGVKDL 89 (436)
T ss_pred ceeEEECCCCCCHHHHHHHH-HHhh--CCceEEeccccccHHHH
Confidence 35799999999999865443 3322 33444444444444443
No 213
>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=95.95 E-value=0.01 Score=62.65 Aligned_cols=36 Identities=33% Similarity=0.464 Sum_probs=32.2
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
..+..|.||||+||||++..++..+...|.+|.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 357889999999999999999999999999998765
No 214
>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=95.94 E-value=0.0074 Score=57.76 Aligned_cols=27 Identities=48% Similarity=0.879 Sum_probs=22.4
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGE 280 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~ 280 (690)
.+|.|+||+||||++..++..+...|.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~ 28 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGL 28 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCG
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCC
Confidence 589999999999999999988876543
No 215
>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=95.93 E-value=0.011 Score=63.66 Aligned_cols=38 Identities=24% Similarity=0.517 Sum_probs=29.9
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcC
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAP 287 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~ 287 (690)
..++.+|.||+|+|||||+..++..+... +.+|+..-.
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEd 159 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIED 159 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcC
Confidence 45799999999999999999988877643 456666544
No 216
>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=95.92 E-value=0.0096 Score=58.37 Aligned_cols=36 Identities=33% Similarity=0.602 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHH
Q 038763 237 DSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 237 ~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~ 273 (690)
+.-++|+.-|.... .-.++.||||||||+++..+-.
T Consensus 9 e~aKrAL~iAAaG~-h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 9 EEAKRALEIAAAGG-HHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp HHHHHHHHHHHHCC---EEEES-CCCTHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC-CCeEEECCCCCCHHHHHHHHHH
Confidence 44577777666654 4579999999999997765543
No 217
>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=95.90 E-value=0.01 Score=56.88 Aligned_cols=47 Identities=23% Similarity=0.410 Sum_probs=37.7
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
+++|.||||||||+.+..++.. .+.+++.++.....-+++.+|+..+
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H 47 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARH 47 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHH
Confidence 3689999999999998888655 6678888887776667788887653
No 218
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=95.90 E-value=0.011 Score=62.44 Aligned_cols=24 Identities=42% Similarity=0.652 Sum_probs=20.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+..+++||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 357999999999999988776654
No 219
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.88 E-value=0.021 Score=60.55 Aligned_cols=52 Identities=27% Similarity=0.429 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 235 FDDSQKKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
.++...+.+...+.... .+.+++||||||||+++..+..++ +..++.+.++.
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~ 78 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSD 78 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCc
Confidence 56666666665554322 356669999999999988776654 44555555443
No 220
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.83 E-value=0.022 Score=71.24 Aligned_cols=66 Identities=20% Similarity=0.297 Sum_probs=58.8
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCC-CChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPG-TGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPG-TGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
..++..|..|+..++.+...+.+|.|.-| ||||+++.+++..+-..|.+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHHhc
Confidence 34889999999999987767888888877 9999999999988888999999999999999998764
No 221
>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=95.82 E-value=0.01 Score=61.53 Aligned_cols=53 Identities=23% Similarity=0.446 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
+.+...+.+..+... ....+|.||+||||||++..++..+-....+|+++-.+
T Consensus 112 ~~~~~~~~l~~~v~~-~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~ 164 (270)
T PF00437_consen 112 IPEEIAEFLRSAVRG-RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDP 164 (270)
T ss_dssp CHHHHHHHHHHCHHT-TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESS
T ss_pred hHHHHHHHHhhcccc-ceEEEEECCCccccchHHHHHhhhccccccceEEeccc
Confidence 334455556555443 46899999999999999998887665554777776643
No 222
>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=95.81 E-value=0.013 Score=63.11 Aligned_cols=28 Identities=32% Similarity=0.610 Sum_probs=25.0
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
.+++.+|.||.|||||||+..++..+..
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 4689999999999999999999888764
No 223
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=95.80 E-value=0.02 Score=57.45 Aligned_cols=60 Identities=23% Similarity=0.344 Sum_probs=45.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH---HHHHHHHhcCCceeecCCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD---NMVEKLSDVGLNIVRVGNP 312 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD---~l~erL~~~~~~~vRiG~~ 312 (690)
+.-|.|++|+||||++..++..|..+|.+|.++-+++.-.| .=..|+.+.|...+-+..+
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~~~~ 65 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHHEFDKPDTDTYRFKKAGAEVVVVSTD 65 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEecccCCCCCCchHHHHHHcCCcEEEEecC
Confidence 56789999999999999999999999999999977665443 2244566666665555443
No 224
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=95.80 E-value=0.033 Score=64.66 Aligned_cols=70 Identities=23% Similarity=0.309 Sum_probs=54.3
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCcee
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIV 307 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~v 307 (690)
..+.+.|.+|+..++... + .++.+|.|+|||.+- .+-.+.. +..+||++|+.+-+....+.+...|+...
T Consensus 24 ~~~r~~Q~~ai~~il~g~-d-vlv~apTGsGKTl~y--~lpal~~-~g~tlVisPl~sL~~dqv~~l~~~gi~~~ 93 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGR-D-CLVVMPTGGGKSLCY--QIPALVL-DGLTLVVSPLISLMKDQVDQLLANGVAAA 93 (607)
T ss_pred CCCCHHHHHHHHHHHcCC-C-EEEEcCCCchHHHHH--HHHHHHc-CCCEEEEecHHHHHHHHHHHHHHcCCcEE
Confidence 458899999999988753 4 688899999999643 3333333 45799999999999988999988776544
No 225
>PRK13766 Hef nuclease; Provisional
Probab=95.78 E-value=0.035 Score=66.56 Aligned_cols=66 Identities=29% Similarity=0.382 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
+.-+.|+.++..++..+ ++|..|.|+|||.+...++..++. .+.++|+++||...+++..+.+...
T Consensus 15 ~~r~yQ~~~~~~~l~~n---~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 15 EARLYQQLLAATALKKN---TLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred CccHHHHHHHHHHhcCC---eEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 45678999999998753 699999999999987776666554 5789999999999998888887763
No 226
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.78 E-value=0.021 Score=63.37 Aligned_cols=35 Identities=26% Similarity=0.524 Sum_probs=31.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
..+|+||||+|||+++..+...+...+.+|+.+..
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 46899999999999999999998888889988764
No 227
>PF12846 AAA_10: AAA-like domain
Probab=95.76 E-value=0.028 Score=58.74 Aligned_cols=55 Identities=27% Similarity=0.561 Sum_probs=43.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVG 310 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG 310 (690)
+.++|.|++|+|||+++..++.+++..|..|++.=+...-.+ +++. .+..++.++
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~-~~~~---~~~~~i~~~ 56 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP-LARA---LGGQYIDID 56 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH-HHHh---cCceEEEee
Confidence 468999999999999999999999999999999977755554 3322 455666444
No 228
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=95.75 E-value=0.013 Score=62.11 Aligned_cols=36 Identities=31% Similarity=0.483 Sum_probs=32.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
.+.-|.||||+||||++..++..+...|.+|.|++-
T Consensus 57 ~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 57 LRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 468899999999999999999999988988887764
No 229
>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=95.74 E-value=0.015 Score=58.52 Aligned_cols=39 Identities=26% Similarity=0.308 Sum_probs=32.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcC------CeEEEEcCCh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQG------ERVLVTAPTN 289 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g------~rVLv~a~SN 289 (690)
..++.|.||||+|||+++..++......+ .+++..+..+
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 46999999999999999999988887766 6777766544
No 230
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.73 E-value=0.011 Score=60.59 Aligned_cols=36 Identities=33% Similarity=0.526 Sum_probs=32.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
..+.=|.|+||.||+|++-+++..+...|.||-|+|
T Consensus 51 a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 51 AHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred CcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 347789999999999999999999999999877765
No 231
>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=95.72 E-value=0.0084 Score=54.07 Aligned_cols=22 Identities=45% Similarity=0.717 Sum_probs=19.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.|+|||||||++.++...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 3789999999999999998887
No 232
>COG1204 Superfamily II helicase [General function prediction only]
Probab=95.72 E-value=0.024 Score=66.84 Aligned_cols=72 Identities=25% Similarity=0.443 Sum_probs=59.1
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHH---hcCCce
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLS---DVGLNI 306 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~---~~~~~~ 306 (690)
+|++.|+.||...+-.+ .-.||..|-|+|||-++--+|...+.. +.+++.++|+++-+.+..+++. ..|+++
T Consensus 31 el~~~qq~av~~~~~~~-~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV 106 (766)
T COG1204 31 ELFNPQQEAVEKGLLSD-ENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRV 106 (766)
T ss_pred HhhHHHHHHhhccccCC-CcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEE
Confidence 68999999999877663 457999999999999876666665554 6899999999999999999988 456553
No 233
>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=95.71 E-value=0.019 Score=62.04 Aligned_cols=47 Identities=17% Similarity=0.275 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEE
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVT 285 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~ 285 (690)
|.+...+.+. . ..++.+|.||+|||||||+..++..+... +.+|+.+
T Consensus 137 l~~~~~~~l~---~-~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 137 IEPDLFNSLL---P-AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCHHHHHHHH---h-cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 5555444332 3 35689999999999999999999888753 3466554
No 234
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.70 E-value=0.015 Score=62.22 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=20.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+..+|+||||||||+++..+...+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999998777665
No 235
>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=95.69 E-value=0.015 Score=54.44 Aligned_cols=34 Identities=38% Similarity=0.598 Sum_probs=30.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
..+.|++|+||||++..+...+...|.+++++..
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~ 35 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAI 35 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEe
Confidence 4677999999999999999999999999988763
No 236
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=95.69 E-value=0.015 Score=55.75 Aligned_cols=39 Identities=41% Similarity=0.490 Sum_probs=33.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
.++..|.||+||||||++..++..+..+|.+|-++-+++
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcC
Confidence 358899999999999999999999988888887776654
No 237
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.68 E-value=0.024 Score=62.14 Aligned_cols=65 Identities=23% Similarity=0.384 Sum_probs=42.4
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeE-EEEcCChHHHHHHHHHHH
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERV-LVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rV-Lv~a~SN~AvD~l~erL~ 300 (690)
..+...+.+..++... ...++.||||||||+++..+...+.... .++ .|+.+.+.+...+++.+.
T Consensus 179 i~e~~le~l~~~L~~~-~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~r 246 (459)
T PRK11331 179 IPETTIETILKRLTIK-KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYR 246 (459)
T ss_pred CCHHHHHHHHHHHhcC-CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccC
Confidence 4566666777777654 4678899999999999877766654321 234 455555666656555443
No 238
>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=95.67 E-value=0.047 Score=63.31 Aligned_cols=73 Identities=18% Similarity=0.322 Sum_probs=56.9
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecC
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVG 310 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG 310 (690)
.++++-|.+||..++... + +++..|.|+|||.+.. +-.++ .+..++|++|+.+-+..-+++|...|+.+..++
T Consensus 12 ~~fr~~Q~~~i~~il~g~-d-vlv~~PTG~GKTl~y~--lpal~-~~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~ 84 (591)
T TIGR01389 12 DDFRPGQEEIISHVLDGR-D-VLVVMPTGGGKSLCYQ--VPALL-LKGLTVVISPLISLMKDQVDQLRAAGVAAAYLN 84 (591)
T ss_pred CCCCHHHHHHHHHHHcCC-C-EEEEcCCCccHhHHHH--HHHHH-cCCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEe
Confidence 458999999999999764 4 6888999999998642 33333 455789999999998888889988877665554
No 239
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.67 E-value=0.018 Score=55.42 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=29.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
..+.+|.|+||+||||++..+...+...|.++.+.
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 35789999999999999999999887777777665
No 240
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.64 E-value=0.013 Score=54.42 Aligned_cols=29 Identities=38% Similarity=0.686 Sum_probs=25.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeE
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERV 282 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rV 282 (690)
..|.||||.||||.+..++..|-..|-+|
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 58999999999999999988888776554
No 241
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.60 E-value=0.03 Score=62.26 Aligned_cols=35 Identities=40% Similarity=0.438 Sum_probs=29.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~a~ 287 (690)
..+|+||||||||+++..+...+.+. +.+|+.++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 47999999999999999888888764 568887764
No 242
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=95.59 E-value=0.016 Score=63.40 Aligned_cols=23 Identities=43% Similarity=0.704 Sum_probs=19.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
-.+++||||||||+++..+...+
T Consensus 167 gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHHh
Confidence 37999999999999887776653
No 243
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=95.58 E-value=0.029 Score=61.83 Aligned_cols=35 Identities=31% Similarity=0.427 Sum_probs=29.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~a~ 287 (690)
..+|+||||||||+++..+...+.+. +.+|+.+..
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 47899999999999999988888775 567877753
No 244
>PRK04195 replication factor C large subunit; Provisional
Probab=95.57 E-value=0.024 Score=63.88 Aligned_cols=51 Identities=24% Similarity=0.407 Sum_probs=33.4
Q ss_pred CCHHHHHHHHHHhcC-----CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 235 FDDSQKKAIALGLNK-----KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 235 LN~~Q~~Av~~al~~-----~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.|+.+.+.+...+.. .....+|+||||||||+++..++..+ +..++.+..|
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~~~~ielnas 73 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---GWEVIELNAS 73 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEccc
Confidence 455555555544321 13578999999999999988887765 4455555443
No 245
>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=95.55 E-value=0.028 Score=53.27 Aligned_cols=60 Identities=28% Similarity=0.392 Sum_probs=42.6
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH-----HHHHHHHhcCCceeecCCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD-----NMVEKLSDVGLNIVRVGNP 312 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD-----~l~erL~~~~~~~vRiG~~ 312 (690)
+..|.|++||||||++..++..+-..|.+|-++-+.+.-.+ .-..++.+.|...+-+..+
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~~~~~d~~g~Ds~~~~~aGa~~v~~~~~ 67 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDHHDFDIDTPGKDSYRHREAGAEEVLVSSP 67 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecCCcccccCccchHHHHHHcCCCEEEEecC
Confidence 67899999999999999999999888888877765544332 2234455566655554443
No 246
>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=95.52 E-value=0.016 Score=58.46 Aligned_cols=34 Identities=26% Similarity=0.565 Sum_probs=30.2
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
.+|.||+|||||+++..++..+...-..|.++++
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 6799999999999999999888777778888877
No 247
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=95.49 E-value=0.012 Score=57.81 Aligned_cols=32 Identities=28% Similarity=0.480 Sum_probs=26.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
-+|.||||+||||-...+-.-+-+.|.++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEE
Confidence 47889999999999988887777788777665
No 248
>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=95.48 E-value=0.054 Score=64.21 Aligned_cols=71 Identities=14% Similarity=0.172 Sum_probs=55.6
Q ss_pred CCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHH-HHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 231 MGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLK-EIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~-~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
.+..+++.|.+|+..++... + .++..|.|||||..-. -++..+.. .+.++|+++||..-+.+..+++.+.+
T Consensus 33 g~~~p~~~Q~~ai~~il~G~-n-vvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 33 GIHRPWQHQARAAELAHAGR-H-VVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred CCCcCCHHHHHHHHHHHCCC-C-EEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 34569999999999998754 3 7899999999998643 33444433 45699999999999999999988753
No 249
>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=95.47 E-value=0.026 Score=69.42 Aligned_cols=62 Identities=23% Similarity=0.371 Sum_probs=47.6
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..|..++.. +.+++|+|+|||||||.+-.++...-. ...+|+++-|-..|+-.+.+|+.+
T Consensus 71 ~~~~Il~~l~~-~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~ 133 (1283)
T TIGR01967 71 KREDIAEAIAE-NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAE 133 (1283)
T ss_pred HHHHHHHHHHh-CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHH
Confidence 35667777765 469999999999999987655544321 124788899999999999999976
No 250
>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=95.44 E-value=0.016 Score=61.70 Aligned_cols=27 Identities=26% Similarity=0.508 Sum_probs=22.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
..+.++.|||||||||++..+...+-.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 468899999999999988877776643
No 251
>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=95.44 E-value=0.027 Score=51.49 Aligned_cols=36 Identities=31% Similarity=0.505 Sum_probs=27.7
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.+.+.++.|+.|+||||++..++..+ |..--|.+||
T Consensus 21 ~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPT 56 (133)
T TIGR00150 21 FGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPT 56 (133)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCC
Confidence 34689999999999999998888876 2222377776
No 252
>PRK05541 adenylylsulfate kinase; Provisional
Probab=95.43 E-value=0.025 Score=54.54 Aligned_cols=35 Identities=26% Similarity=0.339 Sum_probs=28.6
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
..+.++.||||+||||++..+...+...+..+.++
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 35789999999999999988888887666665555
No 253
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.43 E-value=0.0054 Score=64.48 Aligned_cols=40 Identities=35% Similarity=0.546 Sum_probs=28.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.|.+||||||||.++.++.-. .| +++=|.....|..+...
T Consensus 248 vLm~GPPGTGKTlLAKAvATE---c~-----tTFFNVSsstltSKwRG 287 (491)
T KOG0738|consen 248 VLMVGPPGTGKTLLAKAVATE---CG-----TTFFNVSSSTLTSKWRG 287 (491)
T ss_pred eeeeCCCCCcHHHHHHHHHHh---hc-----CeEEEechhhhhhhhcc
Confidence 689999999999877655443 23 56666666667666543
No 254
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=95.43 E-value=0.02 Score=59.32 Aligned_cols=36 Identities=33% Similarity=0.464 Sum_probs=32.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
+..|.|++||||||++..++..|.++| +|.++=+..
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~ 38 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMD 38 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcC
Confidence 578899999999999999999999999 888876654
No 255
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=95.43 E-value=0.041 Score=59.73 Aligned_cols=63 Identities=33% Similarity=0.493 Sum_probs=50.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHH-----HHHHHHHhcCCceeecCCCcc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVD-----NMVEKLSDVGLNIVRVGNPAR 314 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD-----~l~erL~~~~~~~vRiG~~~r 314 (690)
++.-|.|+|||||||++..++..+.++|.+|.++-+++...| .=..|+.+.|...+-+-.+.+
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~~~~ 273 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVCPER 273 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEcCCe
Confidence 588999999999999999999999999999999998887653 135677777776666555443
No 256
>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=95.40 E-value=0.015 Score=56.46 Aligned_cols=25 Identities=28% Similarity=0.554 Sum_probs=21.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.++.+|.|||||||||++..+...+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4689999999999999988887654
No 257
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.39 E-value=0.025 Score=62.45 Aligned_cols=41 Identities=29% Similarity=0.501 Sum_probs=26.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNM 295 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l 295 (690)
+..+++|||||||||++..+...+ +.+...+..+...++.+
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~~~i 77 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGVKDL 77 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccHHHH
Confidence 457899999999999887776543 33444444444444443
No 258
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=95.38 E-value=0.016 Score=62.84 Aligned_cols=23 Identities=43% Similarity=0.704 Sum_probs=19.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
-.+++||||||||+++..+...+
T Consensus 158 gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhC
Confidence 37999999999999888776654
No 259
>PRK13764 ATPase; Provisional
Probab=95.38 E-value=0.026 Score=64.34 Aligned_cols=34 Identities=24% Similarity=0.407 Sum_probs=27.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEE
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLV 284 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv 284 (690)
....+|.|||||||||++..++..+...+..|+.
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 3458999999999999999999888766654433
No 260
>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=95.34 E-value=0.03 Score=56.98 Aligned_cols=50 Identities=20% Similarity=0.329 Sum_probs=36.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH------------cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ------------QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~------------~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+.+|.||||||||+++..++..+.. .+.+||+.+-=+. .+.+.+|+...
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 37899999999999999998876542 3457888875443 35677777653
No 261
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=95.33 E-value=0.035 Score=59.58 Aligned_cols=52 Identities=25% Similarity=0.489 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHhcCC-----CCeEEEeCCCCCChhHHHHHHHHHHH--HcCCeEEEEc
Q 038763 235 FDDSQKKAIALGLNKK-----RPLLIIQGPPGTGKTGLLKEIIARAV--QQGERVLVTA 286 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~-----~~~~lI~GPPGTGKT~tl~~~i~~l~--~~g~rVLv~a 286 (690)
.-.++...+..++..+ ..+..+.||-|-|||||++.+++... ...++|-+++
T Consensus 182 ~~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT 240 (407)
T COG1419 182 YFSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT 240 (407)
T ss_pred hHHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence 4455555555555444 57899999999999999999999988 4556776665
No 262
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.33 E-value=0.011 Score=61.89 Aligned_cols=21 Identities=48% Similarity=0.857 Sum_probs=17.1
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.|++||||||||-++.+.+.+
T Consensus 188 VLLYGPPGTGKTLLAkAVA~~ 208 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVANQ 208 (406)
T ss_pred eEeeCCCCCcHHHHHHHHHhc
Confidence 588999999999877666554
No 263
>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=95.33 E-value=0.012 Score=56.92 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=18.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+.+|.|||||||||....+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 36899999999999888776644
No 264
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=95.32 E-value=0.014 Score=54.29 Aligned_cols=22 Identities=36% Similarity=0.696 Sum_probs=18.1
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
..|.|||||||||+...+...+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 5789999999999887776553
No 265
>PRK09694 helicase Cas3; Provisional
Probab=95.32 E-value=0.048 Score=65.19 Aligned_cols=66 Identities=30% Similarity=0.423 Sum_probs=54.9
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..++-|..+..... ..++++|.+|.|+|||..+...+..+...+ .+|+++.||...++.+.+|+.+
T Consensus 286 ~p~p~Q~~~~~~~~--~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 286 QPRQLQTLVDALPL--QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CChHHHHHHHhhcc--CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 47888997754332 346899999999999999888888777654 6999999999999999999875
No 266
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=95.32 E-value=0.023 Score=62.63 Aligned_cols=23 Identities=48% Similarity=0.729 Sum_probs=19.5
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
-.+++||||||||+++..+...+
T Consensus 219 gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 47899999999999988777654
No 267
>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=95.31 E-value=0.012 Score=59.60 Aligned_cols=30 Identities=30% Similarity=0.537 Sum_probs=22.7
Q ss_pred EeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 256 IQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 256 I~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
|.||||+||||.+..+...+...|.++.++
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 579999999999998888887777666554
No 268
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.31 E-value=0.025 Score=59.92 Aligned_cols=44 Identities=25% Similarity=0.407 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHhcCC-CCeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 236 DDSQKKAIALGLNKK-RPLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 236 N~~Q~~Av~~al~~~-~~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
.+.+.+.+...+... .+..+++||||||||+++..+...+...+
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 344566666655432 24579999999999999999888876544
No 269
>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=95.29 E-value=0.017 Score=50.85 Aligned_cols=23 Identities=43% Similarity=0.746 Sum_probs=20.6
Q ss_pred EEeCCCCCChhHHHHHHHHHHHH
Q 038763 255 IIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
.|.||||+|||+++..++..+.+
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 58999999999999998888875
No 270
>PHA02244 ATPase-like protein
Probab=95.26 E-value=0.027 Score=60.11 Aligned_cols=33 Identities=27% Similarity=0.474 Sum_probs=24.1
Q ss_pred HHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHH
Q 038763 241 KAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 241 ~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
..+..++..+.+ .+|.||||||||+++..+...
T Consensus 110 ~ri~r~l~~~~P-VLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIP-VFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCC-EEEECCCCCCHHHHHHHHHHH
Confidence 344455555444 588999999999998877765
No 271
>PRK06696 uridine kinase; Validated
Probab=95.25 E-value=0.037 Score=55.65 Aligned_cols=36 Identities=22% Similarity=0.350 Sum_probs=29.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
..+..|.|||||||||++..++..+-..|..+++++
T Consensus 22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 357899999999999999888888876676666544
No 272
>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=95.24 E-value=0.022 Score=58.29 Aligned_cols=33 Identities=30% Similarity=0.604 Sum_probs=27.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+.++.|+|||||||.+..+...+-..+.++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 368999999999999999998887777666555
No 273
>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=95.24 E-value=0.066 Score=50.54 Aligned_cols=61 Identities=26% Similarity=0.248 Sum_probs=48.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC----ChHHHHHHHHHHHhcCCceeecCCCcc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP----TNAAVDNMVEKLSDVGLNIVRVGNPAR 314 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~----SN~AvD~l~erL~~~~~~~vRiG~~~r 314 (690)
++..|.++||+||||.+..+....+..|.+|+++=+ ....=.++++++. ++.+.|.|....
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~--~v~~~~~g~~~~ 67 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLP--NIEIHRMGRGFF 67 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCC--CcEEEECCCCCc
Confidence 578889999999999999999999999999999432 2334556677773 688899887543
No 274
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=95.23 E-value=0.022 Score=44.49 Aligned_cols=26 Identities=35% Similarity=0.566 Sum_probs=21.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
++++|.||.|+||||++-++...+..
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 48999999999999988777665543
No 275
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.23 E-value=0.024 Score=66.15 Aligned_cols=42 Identities=29% Similarity=0.390 Sum_probs=28.9
Q ss_pred CHHHHHHHHHHh----cCCC--CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 236 DDSQKKAIALGL----NKKR--PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 236 N~~Q~~Av~~al----~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
=+.|.+.|..+| .... .+..|.||||||||.|+..++.++..
T Consensus 760 REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 345665555443 2222 24569999999999999999888754
No 276
>PRK06762 hypothetical protein; Provisional
Probab=95.22 E-value=0.034 Score=52.97 Aligned_cols=40 Identities=33% Similarity=0.583 Sum_probs=28.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
.+.+|.|+|||||||.+..+...+ +..+.++. .|.+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~-----~D~~r~~l 42 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS-----QDVVRRDM 42 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh---CCCeEEec-----HHHHHHHh
Confidence 378999999999999888777666 33444443 36666544
No 277
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=95.21 E-value=0.024 Score=54.36 Aligned_cols=47 Identities=23% Similarity=0.449 Sum_probs=35.6
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
..+|.||||||||+.+..++..+ +.+++.++.....-+++.+|+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHH
Confidence 57999999999999987776542 556777776666667788888654
No 278
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.21 E-value=0.025 Score=63.17 Aligned_cols=37 Identities=35% Similarity=0.444 Sum_probs=25.8
Q ss_pred HHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 240 KKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 240 ~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+.+..++..+. ...+++|||||||||++..++..+.
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 444555554332 2369999999999999888877664
No 279
>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=95.19 E-value=0.026 Score=54.70 Aligned_cols=34 Identities=29% Similarity=0.462 Sum_probs=27.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+..|.|+|||||||++..++..+-..|.++.++.
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~ 34 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVIS 34 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEe
Confidence 3578999999999999888888776676666554
No 280
>PRK07667 uridine kinase; Provisional
Probab=95.19 E-value=0.028 Score=55.13 Aligned_cols=38 Identities=21% Similarity=0.247 Sum_probs=30.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN 289 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN 289 (690)
-+..|.|+|||||||++..+...+-..|.++.+...-+
T Consensus 18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 18 FILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 47889999999999999888888877777766665443
No 281
>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=95.19 E-value=0.026 Score=58.38 Aligned_cols=35 Identities=34% Similarity=0.576 Sum_probs=25.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
|+.+|.|.||+||||.+.++...+-..+.+|.++.
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 58899999999999999888888888888887776
No 282
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=95.18 E-value=0.021 Score=55.03 Aligned_cols=52 Identities=29% Similarity=0.503 Sum_probs=36.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc---CChHHHHHHHHHHHh-cCCceeec
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA---PTNAAVDNMVEKLSD-VGLNIVRV 309 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a---~SN~AvD~l~erL~~-~~~~~vRi 309 (690)
..-|-||||+|||+++-.++..+..+ .++.|++ +|+.-++ +|.+ .+.+++-+
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~----~l~~~~g~~i~~v 70 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDAD----RLRKLPGEPIIGV 70 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHH----HHHhCCCCeeEEe
Confidence 46788999999999999999999877 6777765 3443333 4444 55554433
No 283
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=95.17 E-value=0.026 Score=61.76 Aligned_cols=22 Identities=45% Similarity=0.744 Sum_probs=18.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
-.+++||||||||+++..++..
T Consensus 181 gvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999988776654
No 284
>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=95.16 E-value=0.033 Score=49.80 Aligned_cols=45 Identities=29% Similarity=0.436 Sum_probs=35.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.++.|.||+|||++...+...+.+.|.+|++.-.-. +.+.+++..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~---~~~~~~~~~ 46 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP---DDLPERLSV 46 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc---hhhHHHHhh
Confidence 578999999999999999999888888887554332 566666544
No 285
>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=95.14 E-value=0.031 Score=54.68 Aligned_cols=35 Identities=29% Similarity=0.372 Sum_probs=29.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
-+.+|.|+||+||||.+..+...+-..|.+++++.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 37899999999999999998888877787776554
No 286
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.13 E-value=0.052 Score=66.13 Aligned_cols=64 Identities=22% Similarity=0.239 Sum_probs=50.8
Q ss_pred CCCHHHHH---HHHHHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 234 TFDDSQKK---AIALGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 234 ~LN~~Q~~---Av~~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
+.-+.|.+ +|..++..+ ...+|.+|+|||||.- ++-.+..+...+++|+|+|+|..--++|+.+
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~-~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDS-EHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcC-CCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 46678888 777888764 6789999999999974 3444555556789999999999999998775
No 287
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=95.11 E-value=0.036 Score=58.93 Aligned_cols=52 Identities=10% Similarity=0.166 Sum_probs=36.2
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc------CCeEEEEcCCh-HHHHHHHHHHHhc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ------GERVLVTAPTN-AAVDNMVEKLSDV 302 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~------g~rVLv~a~SN-~AvD~l~erL~~~ 302 (690)
..++.|.||||||||+++..++.....+ +.+++.+..-+ --.+.+.+.....
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~~ 160 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEAL 160 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHHc
Confidence 4689999999999999999998876543 23666655443 2455555555443
No 288
>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=95.11 E-value=0.037 Score=61.36 Aligned_cols=54 Identities=30% Similarity=0.444 Sum_probs=43.7
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHH-HcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAV-QQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~-~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+. ++.+++|.|+||+|||+++..++..+. ..|.+|++++.= ...+++..|+..
T Consensus 190 G~~-~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 190 GLV-KGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CCC-CCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 344 357999999999999999999998876 678999999744 567778888765
No 289
>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=95.08 E-value=0.03 Score=52.44 Aligned_cols=33 Identities=24% Similarity=0.510 Sum_probs=26.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+.+|.|+|||||||++..+...+...+.++++.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 368899999999999999888887777655443
No 290
>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=95.07 E-value=0.0057 Score=58.68 Aligned_cols=46 Identities=33% Similarity=0.515 Sum_probs=32.2
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHcCC-eEEEEcCChHHHHHHHHHHH
Q 038763 255 IIQGPPGTGKTGLLKEIIARAVQQGE-RVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l~~~g~-rVLv~a~SN~AvD~l~erL~ 300 (690)
+|.|+.|.|||+++--++.+++..+. +|+||||+-.++..+.+.+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHH
Confidence 58899999999999999998888775 99999999999999987664
No 291
>PRK08118 topology modulation protein; Reviewed
Probab=95.07 E-value=0.018 Score=55.05 Aligned_cols=22 Identities=27% Similarity=0.582 Sum_probs=17.7
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999999776666553
No 292
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.05 E-value=0.055 Score=63.93 Aligned_cols=62 Identities=21% Similarity=0.378 Sum_probs=50.8
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..|..++.. +.+.+|.||||+||||-+-..+...-- .+.+|.++=|-..|+-++.+|+.+
T Consensus 54 ~~~~i~~ai~~-~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAe 116 (845)
T COG1643 54 VRDEILKAIEQ-NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAE 116 (845)
T ss_pred HHHHHHHHHHh-CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHH
Confidence 35556666765 579999999999999998887776653 346899999999999999999987
No 293
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.05 E-value=0.051 Score=60.70 Aligned_cols=36 Identities=25% Similarity=0.440 Sum_probs=29.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc--CCeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ--GERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~--g~rVLv~a 286 (690)
..+..|.||+|+|||||+..++..+... +.+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4688899999999999999999888765 46776554
No 294
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=95.03 E-value=0.071 Score=62.66 Aligned_cols=67 Identities=24% Similarity=0.261 Sum_probs=57.4
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
++=.-|+--.+..+... -+-|.+|+|+||||+...+...+..+|+|++++-||..-|.+..+||.+.
T Consensus 82 ~~ws~QR~WakR~~rg~--SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~ 148 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGK--SFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKF 148 (1187)
T ss_pred CchHHHHHHHHHHHcCC--ceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHH
Confidence 35567888777777643 35677999999999999999999999999999999999999999999875
No 295
>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=95.02 E-value=0.062 Score=64.98 Aligned_cols=63 Identities=24% Similarity=0.302 Sum_probs=47.3
Q ss_pred CCCHHHHH---HHHHHhcCCCCeEEEeCCCCCChhHHH-HHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 234 TFDDSQKK---AIALGLNKKRPLLIIQGPPGTGKTGLL-KEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 234 ~LN~~Q~~---Av~~al~~~~~~~lI~GPPGTGKT~tl-~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
+..+.|.+ +|..++... ...+|.+|+|||||..- .-++..+. .+++|+|+++|..-.+++..+
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~~-~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTHS-EKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred ccCHHHHHHHHHHHHHhccC-CcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHH
Confidence 46789997 566677654 56799999999999753 33333333 788999999999988888664
No 296
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=95.01 E-value=0.014 Score=64.81 Aligned_cols=22 Identities=41% Similarity=0.844 Sum_probs=18.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.|+|||||+|||.++-++..++
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 5999999999999887777654
No 297
>PRK12608 transcription termination factor Rho; Provisional
Probab=94.96 E-value=0.04 Score=58.98 Aligned_cols=49 Identities=29% Similarity=0.365 Sum_probs=39.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCC----eEEEEcCChHHHHHHHHHHHh
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGE----RVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~----rVLv~a~SN~AvD~l~erL~~ 301 (690)
-.+|.||||||||+++..++..+..... -++++.....-++++.+.+..
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 3699999999999999999888877532 355677777778888887754
No 298
>PRK06620 hypothetical protein; Validated
Probab=94.96 E-value=0.018 Score=57.45 Aligned_cols=19 Identities=47% Similarity=0.618 Sum_probs=16.5
Q ss_pred CeEEEeCCCCCChhHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKE 270 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~ 270 (690)
+..+|+|||||||||++..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999998875
No 299
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=94.96 E-value=0.033 Score=54.85 Aligned_cols=36 Identities=31% Similarity=0.466 Sum_probs=29.1
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH-----cCCeEEEEcCCh
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ-----QGERVLVTAPTN 289 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~-----~g~rVLv~a~SN 289 (690)
++|.||||+||||.+..+.+.+.. .++||.++--+|
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 799999999999999998887754 357777776554
No 300
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=94.95 E-value=0.043 Score=51.98 Aligned_cols=56 Identities=29% Similarity=0.560 Sum_probs=36.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC--hHHHHHHHHHHHhcCCceeecCC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT--NAAVDNMVEKLSDVGLNIVRVGN 311 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S--N~AvD~l~erL~~~~~~~vRiG~ 311 (690)
|+++|.|++|+||||++..++... .+.++.+.... ...+|. ..+...+..++.+++
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~~~G~~~~d~--~~~~~~~~~v~~l~~ 58 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTEQ--HGRKIAVIENEFGEVGIDN--QLVVDTDEEIIEMNN 58 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhcc--cCCcEEEEecCCCccchhH--HHHhCCCceEEEeCC
Confidence 578999999999999999888763 46666555433 445554 223333444555543
No 301
>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=94.94 E-value=0.038 Score=54.27 Aligned_cols=29 Identities=34% Similarity=0.543 Sum_probs=24.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCe
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGER 281 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~r 281 (690)
+.-|.||||+||||++..+...+-+.+..
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 35789999999999999988888766644
No 302
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.93 E-value=0.039 Score=58.84 Aligned_cols=45 Identities=24% Similarity=0.305 Sum_probs=32.1
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
..+.+..++... ...+|.||+||||||++..++..+ ..+.+|+++
T Consensus 149 ~~~~L~~~v~~~-~nili~G~tgSGKTTll~aL~~~i-p~~~ri~ti 193 (332)
T PRK13900 149 IKEFLEHAVISK-KNIIISGGTSTGKTTFTNAALREI-PAIERLITV 193 (332)
T ss_pred HHHHHHHHHHcC-CcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEEe
Confidence 345555555543 468999999999999998877654 445677664
No 303
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=94.91 E-value=0.02 Score=54.06 Aligned_cols=19 Identities=47% Similarity=0.800 Sum_probs=15.4
Q ss_pred eEEEeCCCCCChhHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEI 271 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~ 271 (690)
..+|.|.|||||||+.-.+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 4789999999999975433
No 304
>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=94.91 E-value=0.017 Score=64.66 Aligned_cols=25 Identities=36% Similarity=0.604 Sum_probs=20.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
-.+++||||||||+++..+...+..
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~~ 242 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLAQ 242 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhcc
Confidence 3799999999999988888777643
No 305
>PRK08233 hypothetical protein; Provisional
Probab=94.89 E-value=0.019 Score=55.34 Aligned_cols=24 Identities=25% Similarity=0.434 Sum_probs=20.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
-+..|.|||||||||++..+...+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 367889999999999987777665
No 306
>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=94.88 E-value=0.023 Score=55.78 Aligned_cols=32 Identities=31% Similarity=0.565 Sum_probs=21.9
Q ss_pred eEEEeCCCCCChhHHHHHH-HHHHHHcCCeEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEI-IARAVQQGERVLV 284 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~-i~~l~~~g~rVLv 284 (690)
+.+|.|.||+|||..++.. |...++.|.+|..
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 5799999999999999888 8887887765554
No 307
>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=94.88 E-value=0.019 Score=53.66 Aligned_cols=22 Identities=27% Similarity=0.631 Sum_probs=18.6
Q ss_pred eEEEeCCCCCChhHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
+.+|.||||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3688999999999998887665
No 308
>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=94.84 E-value=0.028 Score=56.85 Aligned_cols=39 Identities=18% Similarity=0.226 Sum_probs=30.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc------CCeEEEEcCCh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ------GERVLVTAPTN 289 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~------g~rVLv~a~SN 289 (690)
..++.|.||||||||+++..++.....+ +.+++..+..+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 4689999999999999999998775544 25666665544
No 309
>PRK14527 adenylate kinase; Provisional
Probab=94.84 E-value=0.027 Score=55.16 Aligned_cols=25 Identities=28% Similarity=0.575 Sum_probs=20.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4689999999999999887776554
No 310
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=94.83 E-value=0.033 Score=62.78 Aligned_cols=24 Identities=33% Similarity=0.639 Sum_probs=20.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+.|+.||||+|||||+..+...+
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 589999999999999997777665
No 311
>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=94.81 E-value=0.034 Score=55.76 Aligned_cols=34 Identities=18% Similarity=0.183 Sum_probs=24.3
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAP 287 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~ 287 (690)
.-|.||+|+||||++..+...+.. .+.+|.+++-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 457899999999998777766543 3456665443
No 312
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=94.81 E-value=0.013 Score=52.81 Aligned_cols=22 Identities=36% Similarity=0.687 Sum_probs=15.6
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.|+||+|||+++..+.+.+
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 6899999999999988776653
No 313
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.78 E-value=0.074 Score=59.47 Aligned_cols=61 Identities=18% Similarity=0.267 Sum_probs=38.0
Q ss_pred HHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHHH-------------------cC--Ce-EEEEcCChHHHHHH
Q 038763 240 KKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAVQ-------------------QG--ER-VLVTAPTNAAVDNM 295 (690)
Q Consensus 240 ~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~~-------------------~g--~r-VLv~a~SN~AvD~l 295 (690)
.+.+..++..++ ...|++|||||||||++..+++.+.- .+ .. +-+-+.||..+|.+
T Consensus 22 v~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddI 101 (491)
T PRK14964 22 VRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDI 101 (491)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHH
Confidence 334444444321 25899999999999988777765521 11 12 34456678888887
Q ss_pred HHHHH
Q 038763 296 VEKLS 300 (690)
Q Consensus 296 ~erL~ 300 (690)
.+-+.
T Consensus 102 R~Iie 106 (491)
T PRK14964 102 KVILE 106 (491)
T ss_pred HHHHH
Confidence 66543
No 314
>PRK00131 aroK shikimate kinase; Reviewed
Probab=94.78 E-value=0.03 Score=53.54 Aligned_cols=24 Identities=25% Similarity=0.454 Sum_probs=21.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
...+|.|||||||||+..++...+
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHh
Confidence 468999999999999988887775
No 315
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=94.78 E-value=0.11 Score=53.95 Aligned_cols=74 Identities=22% Similarity=0.313 Sum_probs=45.5
Q ss_pred CHHHHHHHHHHhcC-CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCceeecCC
Q 038763 236 DDSQKKAIALGLNK-KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIVRVGN 311 (690)
Q Consensus 236 N~~Q~~Av~~al~~-~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~vRiG~ 311 (690)
|+..-+..+.-+.. ...+.-|.|+||+||||++..++..+... .++.|+.---... +=.+++...|.+++-+.+
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t~-~Da~rI~~~g~pvvqi~t 162 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS-VPCAVIEGDQQTV-NDAARIRATGTPAIQVNT 162 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC-CCEEEECCCcCcH-HHHHHHHhcCCcEEEecC
Confidence 44444444444432 23467789999999999999999887654 3555553222222 125567777777766643
No 316
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=94.78 E-value=0.083 Score=51.26 Aligned_cols=60 Identities=27% Similarity=0.343 Sum_probs=47.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh----HHHHHHHHHHHhcCCceeecCCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN----AAVDNMVEKLSDVGLNIVRVGNP 312 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN----~AvD~l~erL~~~~~~~vRiG~~ 312 (690)
.+..+|.|++|+||||.+..++..++..|.+|+++=+-. ..=.++++++. ++.+.+.|..
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~--~v~~~~~g~~ 85 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGG--GVEFHVMGTG 85 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCC--CcEEEECCCC
Confidence 468899999999999999999999999999999986533 23345555542 6788888865
No 317
>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=94.78 E-value=0.045 Score=53.44 Aligned_cols=34 Identities=29% Similarity=0.546 Sum_probs=29.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+.+|.||+|+||||.+..+...+-..|.++.++.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~ 35 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTR 35 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5688999999999999999888887888876664
No 318
>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=94.73 E-value=0.052 Score=57.52 Aligned_cols=51 Identities=14% Similarity=0.249 Sum_probs=34.4
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH------cCCeEEEEcCCh-HHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ------QGERVLVTAPTN-AAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~------~g~rVLv~a~SN-~AvD~l~erL~~ 301 (690)
..++.|.||||||||+++..++..... .+.+++.+..-+ --.+.+.+.+..
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~~ 152 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEA 152 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHHH
Confidence 468999999999999999998777643 123666665444 234555544443
No 319
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.72 E-value=0.043 Score=61.76 Aligned_cols=25 Identities=24% Similarity=0.232 Sum_probs=21.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+..+++|||||||||++..+++.+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999988887764
No 320
>PRK08506 replicative DNA helicase; Provisional
Probab=94.71 E-value=0.057 Score=60.60 Aligned_cols=54 Identities=26% Similarity=0.412 Sum_probs=45.5
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+. ++.+++|-|+||.|||+++..++..++..|.+|++.+.= ...++++.|+..
T Consensus 188 G~~-~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rlla 241 (472)
T PRK08506 188 GFN-KGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRMLS 241 (472)
T ss_pred CCC-CCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHHHH
Confidence 344 357999999999999999999999998889999988664 678888888865
No 321
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=94.70 E-value=0.021 Score=57.09 Aligned_cols=21 Identities=43% Similarity=0.748 Sum_probs=17.4
Q ss_pred eEEEeCCCCCChhHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~ 273 (690)
-.|.+||||||||+++.++..
T Consensus 153 nVLFyGppGTGKTm~Akalan 173 (368)
T COG1223 153 NVLFYGPPGTGKTMMAKALAN 173 (368)
T ss_pred eeEEECCCCccHHHHHHHHhc
Confidence 368999999999998776654
No 322
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=94.69 E-value=0.057 Score=51.61 Aligned_cols=59 Identities=24% Similarity=0.317 Sum_probs=44.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChH----HHHHHHHHHHhcCCceeecCCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNA----AVDNMVEKLSDVGLNIVRVGNP 312 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~----AvD~l~erL~~~~~~~vRiG~~ 312 (690)
.++..|.+++|+||||.+..++..++..|.+|+++=+-.. .=.++++++ ++.+.+.|..
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~---~~~~~~~g~g 67 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPH---GVEFQVMGTG 67 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhc---CcEEEECCCC
Confidence 4688999999999999999999999999999998844322 223445554 5677777653
No 323
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.68 E-value=0.063 Score=63.05 Aligned_cols=24 Identities=46% Similarity=0.721 Sum_probs=19.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+..+++|||||||||++..+....
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 467999999999999887766543
No 324
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.66 E-value=0.043 Score=61.05 Aligned_cols=36 Identities=31% Similarity=0.542 Sum_probs=28.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH-cC-CeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ-QG-ERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g-~rVLv~a 286 (690)
..+.++.||.|+|||||++.+...+.. .| .+|.+++
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 358899999999999999999988854 44 4776544
No 325
>PRK06547 hypothetical protein; Provisional
Probab=94.64 E-value=0.046 Score=52.54 Aligned_cols=24 Identities=38% Similarity=0.558 Sum_probs=19.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
..+.+|.|||||||||+...+...
T Consensus 15 ~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 15 MITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH
Confidence 356788899999999998777665
No 326
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=94.63 E-value=0.099 Score=61.63 Aligned_cols=63 Identities=25% Similarity=0.340 Sum_probs=48.9
Q ss_pred CHHHHH---HHHHHhcCC----CCeEEEeCCCCCChhHH-HHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 236 DDSQKK---AIALGLNKK----RPLLIIQGPPGTGKTGL-LKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 236 N~~Q~~---Av~~al~~~----~~~~lI~GPPGTGKT~t-l~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
=++|.+ +|..++... ....+|.+|.|||||.- ++-.|....+.+++|+|.|.|..--++|+.+
T Consensus 27 R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 27 RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 346666 777788752 35789999999999973 4445566667899999999999888888765
No 327
>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=94.63 E-value=0.05 Score=54.22 Aligned_cols=31 Identities=29% Similarity=0.430 Sum_probs=28.5
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 255 IIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
.|.|-.|+||||+.+.++..+.+.|+|||++
T Consensus 4 av~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 4 AIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 4449999999999999999999999999988
No 328
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=94.63 E-value=0.052 Score=55.18 Aligned_cols=24 Identities=46% Similarity=0.780 Sum_probs=18.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+..++.||||.||||++ .+|+.-+
T Consensus 53 DHvLl~GPPGlGKTTLA-~IIA~Em 76 (332)
T COG2255 53 DHVLLFGPPGLGKTTLA-HIIANEL 76 (332)
T ss_pred CeEEeeCCCCCcHHHHH-HHHHHHh
Confidence 56899999999999854 4555444
No 329
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=94.62 E-value=0.033 Score=52.57 Aligned_cols=40 Identities=25% Similarity=0.383 Sum_probs=36.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAA 291 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~A 291 (690)
++.=|.|+-||||||++..+|..+.++|.+|.++-+++..
T Consensus 3 ~Il~ivG~k~SGKTTLie~lv~~L~~~G~rVa~iKH~hh~ 42 (161)
T COG1763 3 KILGIVGYKNSGKTTLIEKLVRKLKARGYRVATVKHAHHD 42 (161)
T ss_pred cEEEEEecCCCChhhHHHHHHHHHHhCCcEEEEEEecCCC
Confidence 4678899999999999999999999999999999998765
No 330
>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=94.62 E-value=0.061 Score=59.89 Aligned_cols=55 Identities=22% Similarity=0.367 Sum_probs=43.1
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+. ++.+++|.|+||+|||+++..++..+.. .|.+|++.+.-. ..+++.+|+...
T Consensus 191 G~~-~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm-~~~~i~~R~~~~ 246 (434)
T TIGR00665 191 GLQ-PSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEM-SAEQLAMRMLSS 246 (434)
T ss_pred CCC-CCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcC-CHHHHHHHHHHH
Confidence 344 3579999999999999999999988775 688999997765 455667777653
No 331
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.62 E-value=0.048 Score=58.33 Aligned_cols=59 Identities=22% Similarity=0.250 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHH
Q 038763 236 DDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMV 296 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~ 296 (690)
.++...++..++... ...++.||||||||+++..+...+- ..-..+-|++.-.+.|-+-
T Consensus 29 ~~~~~~~~l~a~~~~-~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d~~G 87 (329)
T COG0714 29 DEEVIELALLALLAG-GHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSDLLG 87 (329)
T ss_pred cHHHHHHHHHHHHcC-CCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHHhcC
Confidence 344455555555554 4579999999999998877776665 3344555555555555543
No 332
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=94.61 E-value=0.026 Score=59.92 Aligned_cols=32 Identities=25% Similarity=0.299 Sum_probs=23.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
-..+|+||||||||..+..+...+ |...+++.
T Consensus 149 lgllL~GPPGcGKTllAraiA~el---g~~~i~vs 180 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCELVFKKM---GIEPIVMS 180 (413)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEE
Confidence 357999999999999877666654 44444443
No 333
>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=94.60 E-value=0.06 Score=50.64 Aligned_cols=34 Identities=26% Similarity=0.488 Sum_probs=29.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
+..|.|.|||||||++.++...|...|.++.++-
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD 37 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLD 37 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence 5789999999999999999999999998877765
No 334
>PRK14531 adenylate kinase; Provisional
Probab=94.58 E-value=0.029 Score=54.48 Aligned_cols=22 Identities=36% Similarity=0.626 Sum_probs=18.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
-.+|.|||||||||....+...
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3688999999999987666554
No 335
>PRK05480 uridine/cytidine kinase; Provisional
Probab=94.57 E-value=0.043 Score=54.47 Aligned_cols=34 Identities=26% Similarity=0.361 Sum_probs=24.9
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
..+..|.||+||||||++..+...+ .+..+.++.
T Consensus 6 ~~iI~I~G~sGsGKTTl~~~l~~~l--~~~~~~~i~ 39 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTVASTIYEEL--GDESIAVIP 39 (209)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh--CCCceEEEe
Confidence 4578999999999999887777665 334444443
No 336
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.57 E-value=0.023 Score=54.05 Aligned_cols=21 Identities=48% Similarity=0.852 Sum_probs=16.4
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.|+|||||||++..+..+
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 478999999999999888766
No 337
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.097 Score=56.58 Aligned_cols=48 Identities=25% Similarity=0.378 Sum_probs=36.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcC--C-eEEEEcCChHHHHHHHHHHHh
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQG--E-RVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g--~-rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+|.||||||||.|+..+..++...- . -+=|=|..+..-..+..++..
T Consensus 45 ~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 45 IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred EEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 89999999999999999999987742 2 344556666666777777665
No 338
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=94.55 E-value=0.089 Score=61.90 Aligned_cols=68 Identities=26% Similarity=0.456 Sum_probs=56.9
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH----------cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ----------QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~----------~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..||.-|..+...|..++ .-.||++|-|+|||-++.-.|.++++ .+-||..+||+.+-|-+++++..+
T Consensus 109 ~~fN~iQS~vFp~aY~Sn-eNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKSN-ENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHhhhhhhcCC-CCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 359999999999998875 55899999999999987666666666 245999999999999888887654
No 339
>PRK03839 putative kinase; Provisional
Probab=94.53 E-value=0.032 Score=53.96 Aligned_cols=22 Identities=36% Similarity=0.632 Sum_probs=18.1
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.||||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6788999999999877766654
No 340
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=94.52 E-value=0.061 Score=63.05 Aligned_cols=48 Identities=23% Similarity=0.286 Sum_probs=39.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
..+++|.||||||||+++..++......|.+++.+..-+..-...+++
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~ 107 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKK 107 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHH
Confidence 468999999999999999999998888899998888766555443333
No 341
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.52 E-value=0.05 Score=59.00 Aligned_cols=24 Identities=21% Similarity=0.376 Sum_probs=20.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
..+++|||||||||++-.++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 358999999999999988887765
No 342
>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=94.49 E-value=0.043 Score=53.94 Aligned_cols=32 Identities=31% Similarity=0.529 Sum_probs=23.8
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
..|.||+|+||||++..+...+ .+.++.++..
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~ 33 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQ 33 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEe
Confidence 5789999999999997776665 4445555543
No 343
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=94.49 E-value=0.072 Score=56.54 Aligned_cols=26 Identities=31% Similarity=0.538 Sum_probs=23.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQ 278 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~ 278 (690)
..|++||||||||+++.++...+...
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 38999999999999999999988753
No 344
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=94.48 E-value=0.1 Score=60.07 Aligned_cols=67 Identities=25% Similarity=0.320 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
.|=+.|.+.++.||.++ ++|.-|-|+|||.+++.++...++ ++.+|+++||+..-|..-...+...+
T Consensus 62 ~lR~YQ~eivq~ALgkN---tii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~ 130 (746)
T KOG0354|consen 62 ELRNYQEELVQPALGKN---TIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYL 130 (746)
T ss_pred cccHHHHHHhHHhhcCC---eEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhcc
Confidence 48899999999999544 899999999999999999988887 45799999999988887766665543
No 345
>PRK07261 topology modulation protein; Provisional
Probab=94.48 E-value=0.031 Score=53.73 Aligned_cols=21 Identities=29% Similarity=0.547 Sum_probs=17.6
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.||||+||||++..+...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 589999999999998876543
No 346
>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=94.47 E-value=0.04 Score=53.16 Aligned_cols=24 Identities=42% Similarity=0.636 Sum_probs=20.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 368999999999999998776654
No 347
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.47 E-value=0.047 Score=60.47 Aligned_cols=35 Identities=29% Similarity=0.427 Sum_probs=25.3
Q ss_pred HHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 242 AIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 242 Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+..++..+. ...+++|||||||||++..+++.+.
T Consensus 29 ~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 29 ALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence 3444444432 2369999999999999988887764
No 348
>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=94.46 E-value=0.064 Score=62.21 Aligned_cols=54 Identities=30% Similarity=0.522 Sum_probs=48.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHH-HcCCeEEEEcCChHHHHHHHHHHHhcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAV-QQGERVLVTAPTNAAVDNMVEKLSDVGL 304 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~-~~g~rVLv~a~SN~AvD~l~erL~~~~~ 304 (690)
.++.+|..|=|||||+-+..-+...+ .++.+||++++-.+-+.++..|+...++
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 47999999999999999988888876 4688999999999999999999987654
No 349
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=94.45 E-value=0.034 Score=50.97 Aligned_cols=21 Identities=38% Similarity=0.846 Sum_probs=17.6
Q ss_pred CeEEEeCCCCCChhHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEII 272 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i 272 (690)
|-.||.|-|||||||+...+.
T Consensus 8 PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCEEEeCCCCCCchhHHHHHH
Confidence 457999999999999876554
No 350
>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=94.42 E-value=0.04 Score=53.09 Aligned_cols=24 Identities=17% Similarity=0.465 Sum_probs=20.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+.++.||||+||||++.++...+
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhh
Confidence 478999999999999988887664
No 351
>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=94.41 E-value=0.071 Score=55.54 Aligned_cols=39 Identities=21% Similarity=0.200 Sum_probs=28.9
Q ss_pred HHHHHHHHhcC---CCCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 239 QKKAIALGLNK---KRPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 239 Q~~Av~~al~~---~~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
..+.|...|.. +..+..|+|+||+|||+++.+++.....
T Consensus 4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~ 45 (287)
T PF00931_consen 4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRI 45 (287)
T ss_dssp HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHH
T ss_pred HHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccc
Confidence 44555555443 4568999999999999999998877443
No 352
>PRK14530 adenylate kinase; Provisional
Probab=94.40 E-value=0.037 Score=55.25 Aligned_cols=24 Identities=25% Similarity=0.541 Sum_probs=19.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+..+|.|||||||||.+..+...+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 457889999999999888776654
No 353
>PRK14532 adenylate kinase; Provisional
Probab=94.40 E-value=0.03 Score=54.57 Aligned_cols=21 Identities=38% Similarity=0.727 Sum_probs=17.5
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.|||||||||....+...
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987777644
No 354
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=94.40 E-value=0.15 Score=56.88 Aligned_cols=35 Identities=31% Similarity=0.300 Sum_probs=27.7
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~ 287 (690)
..+|+||||||||+++..+...+.+ ++.+|+.++.
T Consensus 143 pl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 143 PLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred ceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4689999999999999888777664 4678876654
No 355
>PRK04040 adenylate kinase; Provisional
Probab=94.40 E-value=0.035 Score=54.23 Aligned_cols=23 Identities=30% Similarity=0.743 Sum_probs=20.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+.+|.|+|||||||++..+...+
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 67899999999999988877766
No 356
>PLN02200 adenylate kinase family protein
Probab=94.36 E-value=0.036 Score=56.18 Aligned_cols=24 Identities=25% Similarity=0.451 Sum_probs=19.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+.+|.|||||||||....+...+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 367999999999999888776543
No 357
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.34 E-value=0.061 Score=60.96 Aligned_cols=35 Identities=20% Similarity=0.310 Sum_probs=25.5
Q ss_pred HHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 242 AIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 242 Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+..++.... ...|++||||||||+++..+++.+.
T Consensus 27 ~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 27 SLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3445554322 2478999999999999988888765
No 358
>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=94.34 E-value=0.13 Score=59.16 Aligned_cols=59 Identities=15% Similarity=0.280 Sum_probs=43.9
Q ss_pred HHHHHHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHH
Q 038763 241 KAIALGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 241 ~Av~~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
++|..++.. ....+|.+|.|||||.. ++..+..+.. .+.+|+|+++|..-.+++.+.+.
T Consensus 7 ~~i~~al~~-~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 7 LNCLTSLRQ-KRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHHhc-CCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 345566665 46889999999999965 3444444443 57899999999999999887554
No 359
>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=94.33 E-value=0.052 Score=55.75 Aligned_cols=35 Identities=29% Similarity=0.514 Sum_probs=32.0
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
+.++.|.||+||||+.+.+...+.+.|++||++..
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~ 36 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeC
Confidence 67889999999999999999999999999998754
No 360
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.32 E-value=0.083 Score=61.75 Aligned_cols=55 Identities=24% Similarity=0.416 Sum_probs=38.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH-HcC-CeEEEE-cCChH--HHHHHHHHHHhcCCce
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV-QQG-ERVLVT-APTNA--AVDNMVEKLSDVGLNI 306 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~-~~g-~rVLv~-a~SN~--AvD~l~erL~~~~~~~ 306 (690)
.++.+.||.|+|||||++.+...+. ..| ++|.++ +.+-. |++++..--...++.+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv 245 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPV 245 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCc
Confidence 5889999999999999999998875 455 577554 44443 6666654444445443
No 361
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.037 Score=60.29 Aligned_cols=34 Identities=35% Similarity=0.605 Sum_probs=23.7
Q ss_pred HHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHH
Q 038763 238 SQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEII 272 (690)
Q Consensus 238 ~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i 272 (690)
.=++|+.-|....+. .++.||||||||+++..+-
T Consensus 186 ~AKrAleiAAAGgHn-Ll~~GpPGtGKTmla~Rl~ 219 (490)
T COG0606 186 QAKRALEIAAAGGHN-LLLVGPPGTGKTMLASRLP 219 (490)
T ss_pred HHHHHHHHHHhcCCc-EEEecCCCCchHHhhhhhc
Confidence 446666655554433 6889999999999876553
No 362
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.029 Score=64.78 Aligned_cols=35 Identities=34% Similarity=0.596 Sum_probs=24.3
Q ss_pred CHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHH
Q 038763 236 DDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~ 273 (690)
||.|.+..-.-+ +.+ +|+.||||||||-++.+++-
T Consensus 332 NP~~Y~~lGAKi--PkG-vLL~GPPGTGKTLLAKAiAG 366 (774)
T KOG0731|consen 332 NPEQYQELGAKI--PKG-VLLVGPPGTGKTLLAKAIAG 366 (774)
T ss_pred CHHHHHHcCCcC--cCc-eEEECCCCCcHHHHHHHHhc
Confidence 666666654322 234 68999999999988766553
No 363
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.31 E-value=0.056 Score=59.82 Aligned_cols=26 Identities=19% Similarity=0.378 Sum_probs=21.2
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
...+|.||||||||+++..+...+..
T Consensus 40 ~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 40 ESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred CCEEEECCCChhHHHHHHHHHHHhcc
Confidence 46799999999999988777766543
No 364
>PRK06761 hypothetical protein; Provisional
Probab=94.31 E-value=0.044 Score=56.80 Aligned_cols=33 Identities=36% Similarity=0.469 Sum_probs=27.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEE
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLV 284 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv 284 (690)
.+.+|.||||+||||++..+...+...|-.+-+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~ 36 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL 36 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence 478999999999999999999888766655544
No 365
>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=94.29 E-value=0.073 Score=55.62 Aligned_cols=73 Identities=16% Similarity=0.202 Sum_probs=44.3
Q ss_pred HHHHHHHHHhcC-----------CCCeEEEeCCCCCChhHHHHHHHHHHHHcCC-----eEEEEcCChHHHHHHHHHHHh
Q 038763 238 SQKKAIALGLNK-----------KRPLLIIQGPPGTGKTGLLKEIIARAVQQGE-----RVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 238 ~Q~~Av~~al~~-----------~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~-----rVLv~a~SN~AvD~l~erL~~ 301 (690)
.|++||.+.+.. ...=.++.=.+|+|||.+++.++..+...+. ++||++|+ ..+.+-...+.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 378888776432 1123566667799999999999998876432 59999999 555666655655
Q ss_pred c----CCceeecCC
Q 038763 302 V----GLNIVRVGN 311 (690)
Q Consensus 302 ~----~~~~vRiG~ 311 (690)
. ..+++.+..
T Consensus 80 ~~~~~~~~v~~~~~ 93 (299)
T PF00176_consen 80 WFDPDSLRVIIYDG 93 (299)
T ss_dssp HSGT-TS-EEEESS
T ss_pred cccccccccccccc
Confidence 3 234554443
No 366
>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=94.29 E-value=0.037 Score=57.39 Aligned_cols=57 Identities=23% Similarity=0.380 Sum_probs=32.1
Q ss_pred HHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 244 ALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 244 ~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
...+..+ ...++.||||||||.++...+..+-....-+..+.+|-..--+.++++.+
T Consensus 27 ~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie 83 (272)
T PF12775_consen 27 DLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIE 83 (272)
T ss_dssp HHHHHCT-EEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCC
T ss_pred HHHHHcC-CcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHh
Confidence 3444544 45799999999999999887765432221233333333222233445444
No 367
>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=94.27 E-value=0.035 Score=54.23 Aligned_cols=21 Identities=29% Similarity=0.752 Sum_probs=17.4
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988766654
No 368
>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=94.26 E-value=0.031 Score=53.04 Aligned_cols=21 Identities=24% Similarity=0.551 Sum_probs=17.7
Q ss_pred EEeCCCCCChhHHHHHHHHHH
Q 038763 255 IIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l 275 (690)
+|.|||||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 678999999998887777665
No 369
>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=94.23 E-value=0.065 Score=57.83 Aligned_cols=42 Identities=19% Similarity=0.332 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 236 DDSQKKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
++...+.+..++.... ...+++||||+|||+++..++..+..
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4555556655554322 35799999999999998888877753
No 370
>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=94.19 E-value=0.06 Score=55.66 Aligned_cols=32 Identities=25% Similarity=0.496 Sum_probs=29.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
++++ |-.|+||||+.+.+...|.+.|+|||++
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 5566 8999999999999999999999999987
No 371
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=94.19 E-value=0.038 Score=57.71 Aligned_cols=24 Identities=46% Similarity=0.679 Sum_probs=20.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.-.||.||||||||-+++.+.+.|
T Consensus 66 rgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 66 RGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHh
Confidence 457999999999999988877765
No 372
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=94.17 E-value=0.066 Score=61.06 Aligned_cols=61 Identities=33% Similarity=0.302 Sum_probs=49.4
Q ss_pred CCCCHHHHHHHH----HHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHH
Q 038763 233 KTFDDSQKKAIA----LGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDN 294 (690)
Q Consensus 233 ~~LN~~Q~~Av~----~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~ 294 (690)
..||++|+.... .+.+...+++. .|++|||||+...+++..+...|+.++.+|.|..|.--
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~g~~~~~v~~s~ia~~~ 180 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSRGKIVLNVASSGIAALL 180 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcCCceEEEeeecchhhhh
Confidence 459999997665 34444455666 89999999999999999999999999999999877543
No 373
>PRK02496 adk adenylate kinase; Provisional
Probab=94.16 E-value=0.04 Score=53.46 Aligned_cols=22 Identities=36% Similarity=0.591 Sum_probs=18.3
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6889999999999887776554
No 374
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=94.16 E-value=0.094 Score=59.51 Aligned_cols=68 Identities=26% Similarity=0.355 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHhc---CCCC-eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLN---KKRP-LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~---~~~~-~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+|+..|++++.-+.. ++.+ .-||||--|||||-+++-.+...+..|.++.++|||..-+.+-.+.+.+
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~ 333 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRK 333 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHH
Confidence 599999999987653 2211 2599999999999999999999999999999999999988777776655
No 375
>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=94.15 E-value=0.034 Score=52.07 Aligned_cols=20 Identities=45% Similarity=0.747 Sum_probs=16.8
Q ss_pred EeCCCCCChhHHHHHHHHHH
Q 038763 256 IQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 256 I~GPPGTGKT~tl~~~i~~l 275 (690)
|.||||+||||....+...+
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 67999999999887777654
No 376
>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=94.15 E-value=0.074 Score=58.16 Aligned_cols=47 Identities=23% Similarity=0.545 Sum_probs=35.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVG 303 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~ 303 (690)
-++|.|.||||||+++..++.++.++|.+.+|.-++..- .+++-..+
T Consensus 17 ~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~----~~~f~~~~ 63 (386)
T PF10412_consen 17 HILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEF----TERFYRPG 63 (386)
T ss_dssp -EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHH----HHHH--TT
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchH----HHHhcCCC
Confidence 479999999999999999999999999999999988644 44444444
No 377
>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=94.14 E-value=0.089 Score=55.63 Aligned_cols=53 Identities=17% Similarity=0.142 Sum_probs=36.0
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH------cCCeEEEEcCChH-HHHHHHHHHHhcC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ------QGERVLVTAPTNA-AVDNMVEKLSDVG 303 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~------~g~rVLv~a~SN~-AvD~l~erL~~~~ 303 (690)
..++.|.||||||||+++..++..... .+.+++.+..-+. -.+.|.+.....+
T Consensus 96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~g 155 (313)
T TIGR02238 96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFG 155 (313)
T ss_pred CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHcC
Confidence 468999999999999998777654321 2457887765543 3566655554443
No 378
>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=94.13 E-value=0.041 Score=50.88 Aligned_cols=22 Identities=32% Similarity=0.664 Sum_probs=18.9
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.|||||||||++..+...+
T Consensus 2 I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999999988877664
No 379
>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=94.13 E-value=0.033 Score=63.03 Aligned_cols=32 Identities=38% Similarity=0.642 Sum_probs=23.5
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.+++||||||||+++..++..+ +.+++.+..+
T Consensus 91 iLL~GppGtGKT~la~alA~~~---~~~~~~i~~~ 122 (495)
T TIGR01241 91 VLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGS 122 (495)
T ss_pred EEEECCCCCCHHHHHHHHHHHc---CCCeeeccHH
Confidence 7999999999999988776543 4455555433
No 380
>PRK14528 adenylate kinase; Provisional
Probab=94.13 E-value=0.042 Score=53.58 Aligned_cols=23 Identities=39% Similarity=0.628 Sum_probs=18.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
..+|.||||+||||++..+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999876665443
No 381
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=94.12 E-value=0.015 Score=66.95 Aligned_cols=65 Identities=29% Similarity=0.402 Sum_probs=53.5
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC----CeEEEEcCChHHHHHHHHHHHh
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG----ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g----~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.-||.+|+.+...-+. ..-+|.| ||||||.++.+.+.+++... .-|++.|.+|.|+|.+.+++..
T Consensus 12 ~~l~~~q~~~~~~~~~---~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 12 SLLNKSQRFSALSPLR---RKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhhhcCCCc---ccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHH
Confidence 3488899888775332 3468889 69999999999999998743 4799999999999999999876
No 382
>PHA02624 large T antigen; Provisional
Probab=94.12 E-value=0.093 Score=59.27 Aligned_cols=36 Identities=28% Similarity=0.532 Sum_probs=26.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
....++.||||||||+.+..++..+ .|.-+=|.+|+
T Consensus 431 k~~il~~GPpnTGKTtf~~sLl~~L--~G~vlsVNsPt 466 (647)
T PHA02624 431 RRYWLFKGPVNSGKTTLAAALLDLC--GGKSLNVNCPP 466 (647)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHc--CCeEEEeeCCc
Confidence 3589999999999999999988876 34333344444
No 383
>CHL00195 ycf46 Ycf46; Provisional
Probab=94.11 E-value=0.038 Score=61.97 Aligned_cols=31 Identities=29% Similarity=0.224 Sum_probs=22.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
-.|++||||||||.++..+...+ +..++.+.
T Consensus 261 GILL~GPpGTGKTllAkaiA~e~---~~~~~~l~ 291 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIANDW---QLPLLRLD 291 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHHh---CCCEEEEE
Confidence 36899999999999887776553 34444443
No 384
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=94.09 E-value=0.13 Score=60.42 Aligned_cols=67 Identities=27% Similarity=0.367 Sum_probs=52.5
Q ss_pred CCHHHHHHHH---HHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 235 FDDSQKKAIA---LGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 235 LN~~Q~~Av~---~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.-+.|+..+. .++.. ....+|.+|.|||||.- ++..+......+++|++++.|+..-+.++++....
T Consensus 16 ~r~~Q~~~~~~v~~a~~~-~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 16 PRPEQREMAEAVAEALKG-GEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCHHHHHHHHHHHHHHcC-CCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 5567776654 45654 35699999999999985 55566666677899999999999999999987653
No 385
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.08 E-value=0.067 Score=57.21 Aligned_cols=51 Identities=24% Similarity=0.398 Sum_probs=34.8
Q ss_pred CHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 236 DDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 236 N~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
++...+.+..+... ....+|.||+||||||++..++..+ ..+.+|+.+=.+
T Consensus 148 ~~~~~~~l~~~v~~-~~nilI~G~tGSGKTTll~aLl~~i-~~~~rivtiEd~ 198 (344)
T PRK13851 148 NGDLEAFLHACVVG-RLTMLLCGPTGSGKTTMSKTLISAI-PPQERLITIEDT 198 (344)
T ss_pred cHHHHHHHHHHHHc-CCeEEEECCCCccHHHHHHHHHccc-CCCCCEEEECCC
Confidence 34444555555554 4568999999999999998877654 345676664443
No 386
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=93.99 E-value=0.16 Score=60.94 Aligned_cols=88 Identities=23% Similarity=0.442 Sum_probs=65.4
Q ss_pred cccchhhhhcCCCCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC-----------CeEEEEcC
Q 038763 219 LADWSEVKLDGIMGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG-----------ERVLVTAP 287 (690)
Q Consensus 219 ~~~~~~~~~~~~~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g-----------~rVLv~a~ 287 (690)
++.|....|... ..||..|-.....|+..+ .-.+++||.|.|||-+++--|.+-+..+ -+|...||
T Consensus 296 lP~Wnq~aF~g~--~sLNrIQS~v~daAl~~~-EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAP 372 (1674)
T KOG0951|consen 296 LPKWNQPAFFGK--QSLNRIQSKVYDAALRGD-ENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAP 372 (1674)
T ss_pred Ccchhhhhcccc--hhhhHHHHHHHHHHhcCc-CcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEee
Confidence 455665554322 349999999999999875 5689999999999998877666666532 38999999
Q ss_pred ChHHHHHHHH----HHHhcCCceeec
Q 038763 288 TNAAVDNMVE----KLSDVGLNIVRV 309 (690)
Q Consensus 288 SN~AvD~l~e----rL~~~~~~~vRi 309 (690)
...-|++++. ||..+|+.+...
T Consensus 373 mKaLvqE~VgsfSkRla~~GI~V~El 398 (1674)
T KOG0951|consen 373 MKALVQEMVGSFSKRLAPLGITVLEL 398 (1674)
T ss_pred HHHHHHHHHHHHHhhccccCcEEEEe
Confidence 9999988876 555567665443
No 387
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=93.96 E-value=0.1 Score=59.48 Aligned_cols=35 Identities=40% Similarity=0.455 Sum_probs=29.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a~ 287 (690)
..+|+|++|||||+++..+...+.+ .+.+|+.+..
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 4799999999999999999988876 4778887765
No 388
>PHA02542 41 41 helicase; Provisional
Probab=93.96 E-value=0.072 Score=59.57 Aligned_cols=50 Identities=22% Similarity=0.248 Sum_probs=41.8
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+.+.+|.|+||.|||+++..++..+++.|++||+.+.- ...+.+..|+..
T Consensus 190 G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLE-M~~~ql~~Rl~a 239 (473)
T PHA02542 190 KTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISME-MAEEVIAKRIDA 239 (473)
T ss_pred CcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEecc-CCHHHHHHHHHH
Confidence 46999999999999999999999988889999998764 344677777754
No 389
>COG3911 Predicted ATPase [General function prediction only]
Probab=93.95 E-value=0.05 Score=49.85 Aligned_cols=22 Identities=41% Similarity=0.697 Sum_probs=18.6
Q ss_pred CeEEEeCCCCCChhHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~ 273 (690)
.++++.|.||.||||+++++..
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa~ 31 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALAR 31 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHHH
Confidence 4799999999999998876653
No 390
>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=93.95 E-value=0.088 Score=51.21 Aligned_cols=35 Identities=23% Similarity=0.460 Sum_probs=30.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
+++..+-.|+||||+.+.+...+...|.+||+.-.
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~ 35 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGKKVLLIDL 35 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhcccccccccccccc
Confidence 46788889999999999999999999999988754
No 391
>PRK00279 adk adenylate kinase; Reviewed
Probab=93.93 E-value=0.046 Score=54.57 Aligned_cols=21 Identities=48% Similarity=0.765 Sum_probs=17.0
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.||||+||||+...+...
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999987665544
No 392
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=93.93 E-value=0.15 Score=53.07 Aligned_cols=69 Identities=25% Similarity=0.331 Sum_probs=58.4
Q ss_pred CCCHHHHHHHHHHhcC--CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 234 TFDDSQKKAIALGLNK--KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~--~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.|++.|+.|-...+.. +..-.+||+--|+|||-.+-..|.+.+.+|.+|.+.+|--.-+-++..||.+.
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~a 167 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQA 167 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHh
Confidence 4999999987654421 12347999999999999999999999999999999999988888888888763
No 393
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=93.93 E-value=0.084 Score=60.15 Aligned_cols=37 Identities=27% Similarity=0.365 Sum_probs=26.2
Q ss_pred HHHHHHHhcCC--CCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 240 KKAIALGLNKK--RPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 240 ~~Av~~al~~~--~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+.+..++..+ ....|++||||||||+++..+++.+.
T Consensus 25 v~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 25 KKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 34444444332 12478999999999999988888775
No 394
>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=93.92 E-value=0.08 Score=50.63 Aligned_cols=33 Identities=18% Similarity=0.340 Sum_probs=30.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++..+-+|+||||+.+.+...+.+.|.+||++
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 467788999999999999999999999999886
No 395
>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=93.91 E-value=0.087 Score=60.91 Aligned_cols=58 Identities=21% Similarity=0.285 Sum_probs=38.3
Q ss_pred HHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC-CeEEEEcCChHHHHHHHHHH
Q 038763 241 KAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG-ERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 241 ~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g-~rVLv~a~SN~AvD~l~erL 299 (690)
+++..++... ...++.||||||||+++..+...+-... ..++++..++...+.++..+
T Consensus 28 ~~l~~a~~~~-~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v 86 (608)
T TIGR00764 28 EIIKKAAKQK-RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEV 86 (608)
T ss_pred HHHHHHHHcC-CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHH
Confidence 3455555544 4788999999999999888776654333 56666666655555554444
No 396
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.89 E-value=0.12 Score=63.73 Aligned_cols=60 Identities=23% Similarity=0.394 Sum_probs=44.7
Q ss_pred HHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC--CeEEEEcCChHHHHHHHHHHHh
Q 038763 240 KKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG--ERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 240 ~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g--~rVLv~a~SN~AvD~l~erL~~ 301 (690)
++.|..++.. +.+++|.|++||||||.+-.++..+- .| .+|.++-|-..|+-++.+|+.+
T Consensus 79 r~~Il~ai~~-~~VviI~GeTGSGKTTqlPq~lle~g-~g~~g~I~~TQPRRlAArsLA~RVA~ 140 (1294)
T PRK11131 79 KQDILEAIRD-HQVVIVAGETGSGKTTQLPKICLELG-RGVKGLIGHTQPRRLAARTVANRIAE 140 (1294)
T ss_pred HHHHHHHHHh-CCeEEEECCCCCCHHHHHHHHHHHcC-CCCCCceeeCCCcHHHHHHHHHHHHH
Confidence 4556666664 47999999999999997665544331 22 3677888999999999999865
No 397
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.89 E-value=0.077 Score=58.26 Aligned_cols=38 Identities=24% Similarity=0.222 Sum_probs=26.1
Q ss_pred HHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 240 KKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 240 ~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
.+.+..++..++ ...+++||||+||||++..+++.+.-
T Consensus 25 ~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 25 TRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred HHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 334444554321 23789999999999998888777653
No 398
>PRK15453 phosphoribulokinase; Provisional
Probab=93.88 E-value=0.087 Score=54.25 Aligned_cols=37 Identities=19% Similarity=0.384 Sum_probs=26.4
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCe-EEEEc
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQQGER-VLVTA 286 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~r-VLv~a 286 (690)
+.++..|.|+||+||||+...+...+-..+.+ ++++.
T Consensus 4 k~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~ 41 (290)
T PRK15453 4 KHPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVEG 41 (290)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEec
Confidence 45789999999999999987776555444433 34444
No 399
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.84 E-value=0.16 Score=52.44 Aligned_cols=56 Identities=18% Similarity=0.335 Sum_probs=41.1
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC-Ch--HHHHHHHHHHHhcCCce
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP-TN--AAVDNMVEKLSDVGLNI 306 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~-SN--~AvD~l~erL~~~~~~~ 306 (690)
.+..++.||+|+||||++..+...+...+.++.+++. +. .+++++.......++.+
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~ 133 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEV 133 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceE
Confidence 3688999999999999999998888777777776554 33 36676665544444443
No 400
>PRK05439 pantothenate kinase; Provisional
Probab=93.83 E-value=0.081 Score=55.64 Aligned_cols=34 Identities=18% Similarity=0.238 Sum_probs=25.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH--cCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ--QGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~--~g~rVLv~a 286 (690)
+..|.||||+||||++..+...+-. .+.+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 5779999999999998777665543 345676665
No 401
>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=93.82 E-value=0.075 Score=53.17 Aligned_cols=34 Identities=26% Similarity=0.538 Sum_probs=30.5
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAP 287 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~ 287 (690)
.++.|.||+|||++.+.+...+.+.|.++|++..
T Consensus 2 ~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 2 IFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred EEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 5789999999999999999999999999887753
No 402
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=93.82 E-value=0.25 Score=59.84 Aligned_cols=71 Identities=15% Similarity=0.259 Sum_probs=53.1
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhcCCcee
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDVGLNIV 307 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~~~~~v 307 (690)
...|.+.|++||..++... + +++.-|.|+|||-.- .+-.+. .+..+||++|+-+.+..-+.+|...++...
T Consensus 458 ~~sFRp~Q~eaI~aiL~Gr-D-VLVimPTGSGKSLcY--QLPAL~-~~GiTLVISPLiSLmqDQV~~L~~~GI~Aa 528 (1195)
T PLN03137 458 NHSFRPNQREIINATMSGY-D-VFVLMPTGGGKSLTY--QLPALI-CPGITLVISPLVSLIQDQIMNLLQANIPAA 528 (1195)
T ss_pred CCCCCHHHHHHHHHHHcCC-C-EEEEcCCCccHHHHH--HHHHHH-cCCcEEEEeCHHHHHHHHHHHHHhCCCeEE
Confidence 3569999999999999764 4 688999999999642 222233 355899999999988766777776665443
No 403
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=93.80 E-value=0.047 Score=54.28 Aligned_cols=21 Identities=43% Similarity=0.833 Sum_probs=17.1
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.|||||||||....+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478999999999987766543
No 404
>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=93.80 E-value=0.041 Score=58.34 Aligned_cols=25 Identities=44% Similarity=0.712 Sum_probs=19.6
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+...|+.||||||||.++..+.+.|
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eL 74 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKEL 74 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHh
Confidence 3578999999999999988877665
No 405
>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=93.79 E-value=0.065 Score=52.84 Aligned_cols=33 Identities=33% Similarity=0.660 Sum_probs=21.6
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
-+.++.||||+|||+++..++..+- .+.-|.+-
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~~-~~~~v~i~ 48 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEFG-GGGIVVID 48 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT--TT-SEEE-
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhcc-CCCeEEEe
Confidence 3678889999999999888777654 33334443
No 406
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=93.75 E-value=0.084 Score=52.38 Aligned_cols=55 Identities=24% Similarity=0.422 Sum_probs=34.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh-HHHHHHHHHHHhcCCceeec
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN-AAVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN-~AvD~l~erL~~~~~~~vRi 309 (690)
+...+.|++|+||||++..++.++. .+.++.+...-- ..+|. +++.+.+..++-+
T Consensus 23 ~~i~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~~~~~~~~D~--~~~~~~~~~~~~l 78 (207)
T TIGR00073 23 VVLNFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIEGDVITKFDA--ERLRKYGAPAIQI 78 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHh-cCCeEEEEECCCCCcccH--HHHHHcCCcEEEE
Confidence 4667999999999999999998764 345666655221 12443 2344445554444
No 407
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=93.75 E-value=0.092 Score=55.57 Aligned_cols=44 Identities=23% Similarity=0.265 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHhc---------CCCCeEEEeCCCCCChhHHHHHHHHHH
Q 038763 232 GKTFDDSQKKAIALGLN---------KKRPLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~---------~~~~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+..|+++|++++...+. ++....++.|+||+||||+...+...+
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 45799999999876542 134578999999999999887776554
No 408
>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=93.74 E-value=0.085 Score=55.64 Aligned_cols=43 Identities=26% Similarity=0.507 Sum_probs=34.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc--CChHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA--PTNAAVDNM 295 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a--~SN~AvD~l 295 (690)
+.++.|.-|+||||+.+.+...+.++|+|+|+++ |.+...|-+
T Consensus 3 ~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~L~d~l 47 (305)
T PF02374_consen 3 ILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHSLSDVL 47 (305)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTHHHHHH
T ss_pred EEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCccHHHHh
Confidence 6789999999999999999999999999999984 444444443
No 409
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.73 E-value=0.14 Score=56.19 Aligned_cols=61 Identities=23% Similarity=0.286 Sum_probs=48.5
Q ss_pred HHHHHHHH---hcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 239 QKKAIALG---LNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 239 Q~~Av~~a---l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
|-+||... +.+....-.+.|--|||||.|++.+|... +++-||+||+..-+-+|..-+.++
T Consensus 17 QP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~---~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 17 QPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV---QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred cHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh---CCCeEEEecchhHHHHHHHHHHHh
Confidence 55666543 33333467888999999999999998874 678999999999999999988874
No 410
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.73 E-value=0.12 Score=62.26 Aligned_cols=36 Identities=22% Similarity=0.381 Sum_probs=27.5
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
..++.||||||||+++..+...+...+..++.+..+
T Consensus 600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~s 635 (857)
T PRK10865 600 SFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMS 635 (857)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhH
Confidence 579999999999999988887777665555544433
No 411
>PRK05595 replicative DNA helicase; Provisional
Probab=93.72 E-value=0.12 Score=57.74 Aligned_cols=54 Identities=24% Similarity=0.387 Sum_probs=43.4
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHH-HcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAV-QQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~-~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+. ++.+.+|-|+||.|||+++..++..+. +.|.+|++.+. ....++++.|+..
T Consensus 197 G~~-~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSl-Ems~~~l~~R~~a 251 (444)
T PRK05595 197 GFQ-KGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSL-EMSKEQLAYKLLC 251 (444)
T ss_pred CCC-CCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEec-CCCHHHHHHHHHH
Confidence 344 357999999999999999999998754 67899999876 4467788888765
No 412
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=93.70 E-value=0.084 Score=56.25 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=19.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+-.|+.||||||||+++..+...+
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 468999999999999876665554
No 413
>PRK13973 thymidylate kinase; Provisional
Probab=93.69 E-value=0.15 Score=50.92 Aligned_cols=45 Identities=24% Similarity=0.419 Sum_probs=34.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc-CChHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA-PTNAAVDNMV 296 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a-~SN~AvD~l~ 296 (690)
-+.+|-|++|+||||.+..+...+-..|.++..+. |+.....+++
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~~g~~i 49 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAI 49 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCchHHHH
Confidence 47899999999999999888888888888887773 4443333333
No 414
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.69 E-value=0.15 Score=58.37 Aligned_cols=37 Identities=24% Similarity=0.389 Sum_probs=26.5
Q ss_pred HHHHHHHhcCCC--CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 240 KKAIALGLNKKR--PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 240 ~~Av~~al~~~~--~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+.+..++..++ ...|++|||||||||++..+.+.+.
T Consensus 25 v~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLn 63 (700)
T PRK12323 25 VRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLN 63 (700)
T ss_pred HHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 334444554322 3469999999999999988888775
No 415
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=93.69 E-value=0.1 Score=50.62 Aligned_cols=37 Identities=22% Similarity=0.413 Sum_probs=29.3
Q ss_pred CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 250 KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 250 ~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
...+.+|.|+||+||||++..+...+...|..+++..
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~ 53 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLD 53 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 3468999999999999999888888776665555543
No 416
>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=93.69 E-value=0.09 Score=55.29 Aligned_cols=33 Identities=27% Similarity=0.386 Sum_probs=29.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA 286 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a 286 (690)
++++ |-+|+|||||.+.+...+.+.|+|||++=
T Consensus 3 Iav~-gKGGvGKTT~a~nLA~~La~~g~rVLlID 35 (296)
T TIGR02016 3 IAIY-GKGGSGKSFTTTNLSHMMAEMGKRVLQLG 35 (296)
T ss_pred EEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 4455 99999999999999999999999998873
No 417
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=93.68 E-value=0.057 Score=52.21 Aligned_cols=21 Identities=43% Similarity=0.931 Sum_probs=18.1
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|-||||+||||.+..+...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 588999999999988777765
No 418
>PRK08760 replicative DNA helicase; Provisional
Probab=93.67 E-value=0.12 Score=57.95 Aligned_cols=55 Identities=24% Similarity=0.304 Sum_probs=43.3
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+. ++.+++|.|+||.|||+++..++..+.. .|.+|++.+.=.. .+++..|+...
T Consensus 225 G~~-~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs-~~ql~~Rl~a~ 280 (476)
T PRK08760 225 GLQ-PTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLISS 280 (476)
T ss_pred CCC-CCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCC-HHHHHHHHHHh
Confidence 344 3579999999999999999999988764 5889998876544 46778887653
No 419
>PRK13947 shikimate kinase; Provisional
Probab=93.67 E-value=0.057 Score=51.62 Aligned_cols=22 Identities=32% Similarity=0.455 Sum_probs=18.4
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.|||||||||+...+...+
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 5889999999999887776654
No 420
>PRK00698 tmk thymidylate kinase; Validated
Probab=93.66 E-value=0.098 Score=51.50 Aligned_cols=34 Identities=29% Similarity=0.424 Sum_probs=28.3
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
.+.+|.||+|+||||.+..+...+-..|..+.++
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~ 37 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKELLEQQGRDVVFT 37 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEe
Confidence 4789999999999999998888877777666655
No 421
>PRK05748 replicative DNA helicase; Provisional
Probab=93.66 E-value=0.14 Score=57.24 Aligned_cols=54 Identities=20% Similarity=0.355 Sum_probs=42.3
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH-cCCeEEEEcCChHHHHHHHHHHHh
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ-QGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~-~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+. ++.+.+|-|+||+|||+++..++..... .|.+|++.+.-. ..+++..|+..
T Consensus 199 G~~-~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-s~~~l~~R~l~ 253 (448)
T PRK05748 199 GLQ-PNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEM-GAESLVMRMLC 253 (448)
T ss_pred CCC-CCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCC-CHHHHHHHHHH
Confidence 344 3579999999999999999999988764 588999987654 45577777753
No 422
>PTZ00301 uridine kinase; Provisional
Probab=93.66 E-value=0.062 Score=53.41 Aligned_cols=26 Identities=27% Similarity=0.555 Sum_probs=22.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
.+.-|.|||||||||++..++.++..
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHh
Confidence 47889999999999999888877754
No 423
>PRK09165 replicative DNA helicase; Provisional
Probab=93.64 E-value=0.13 Score=58.05 Aligned_cols=55 Identities=25% Similarity=0.404 Sum_probs=42.4
Q ss_pred HhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHc---------------CCeEEEEcCChHHHHHHHHHHHhc
Q 038763 246 GLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQ---------------GERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 246 al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~---------------g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.+. ++.+.+|.|+||+|||+++..++...... |.+||+.+.= ...+++..|+...
T Consensus 213 G~~-~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlE-Ms~~ql~~R~la~ 282 (497)
T PRK09165 213 GLH-PSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLE-MSAEQLATRILSE 282 (497)
T ss_pred CCC-CCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCc-CCHHHHHHHHHHH
Confidence 344 35789999999999999999988877643 6789988664 4457888887653
No 424
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=93.57 E-value=0.27 Score=55.85 Aligned_cols=70 Identities=26% Similarity=0.296 Sum_probs=53.3
Q ss_pred CCCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHH-HHHHHHHHHH--cCC-e-EEEEcCChHHHHHHHHHHHhc
Q 038763 231 MGKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGL-LKEIIARAVQ--QGE-R-VLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 231 ~~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~t-l~~~i~~l~~--~g~-r-VLv~a~SN~AvD~l~erL~~~ 302 (690)
.+...++-|..||-.+|... + .+++.+.|||||.. +.-++..+.. ... . .||.+||...+.++.+-+...
T Consensus 48 gf~~pt~IQ~~~IP~~l~g~-D-vi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 48 GFEEPTPIQLAAIPLILAGR-D-VLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCCCCCHHHHHHHHHHhCCC-C-EEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 34568999999999999863 4 68999999999763 4555666442 222 2 899999999999998887664
No 425
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.055 Score=55.59 Aligned_cols=22 Identities=50% Similarity=0.792 Sum_probs=17.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
..+|+||||||||...-.+..+
T Consensus 168 g~ll~GppGtGKTlla~~Vaa~ 189 (388)
T KOG0651|consen 168 GLLLYGPPGTGKTLLARAVAAT 189 (388)
T ss_pred eeEEeCCCCCchhHHHHHHHHh
Confidence 5899999999999866544443
No 426
>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=93.52 E-value=0.19 Score=50.77 Aligned_cols=60 Identities=23% Similarity=0.351 Sum_probs=39.5
Q ss_pred HHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCCh----HHHHHHHHHHHhcC
Q 038763 240 KKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTN----AAVDNMVEKLSDVG 303 (690)
Q Consensus 240 ~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN----~AvD~l~erL~~~~ 303 (690)
..++..|+... -...+.||+|||||.|+..+.+.+ |+.+++.-.++ .++.+++..+...|
T Consensus 22 ~~~l~~al~~~-~~~~~~GpagtGKtetik~La~~l---G~~~~vfnc~~~~~~~~l~ril~G~~~~G 85 (231)
T PF12774_consen 22 FLTLTQALSLN-LGGALSGPAGTGKTETIKDLARAL---GRFVVVFNCSEQMDYQSLSRILKGLAQSG 85 (231)
T ss_dssp HHHHHHHHCTT-TEEEEESSTTSSHHHHHHHHHHCT---T--EEEEETTSSS-HHHHHHHHHHHHHHT
T ss_pred HHHHHHHhccC-CCCCCcCCCCCCchhHHHHHHHHh---CCeEEEecccccccHHHHHHHHHHHhhcC
Confidence 44556667653 456889999999999988877654 66666654443 45666666666654
No 427
>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=93.51 E-value=0.083 Score=52.75 Aligned_cols=20 Identities=45% Similarity=0.786 Sum_probs=17.4
Q ss_pred CeEEEeCCCCCChhHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEI 271 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~ 271 (690)
...+|.|+|||||||++..+
T Consensus 13 ~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 13 NMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred cEEEEECCCCCCHHHHHHhc
Confidence 46899999999999987665
No 428
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.51 E-value=0.056 Score=60.98 Aligned_cols=25 Identities=28% Similarity=0.384 Sum_probs=21.1
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
..|++|||||||||++..+++.+..
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3499999999999999888877753
No 429
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.51 E-value=0.1 Score=59.74 Aligned_cols=37 Identities=19% Similarity=0.337 Sum_probs=26.2
Q ss_pred HHHHHHHhcCC--CCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 240 KKAIALGLNKK--RPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 240 ~~Av~~al~~~--~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+++..++..+ ....|++|||||||||++..+++.+.
T Consensus 24 v~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 24 SRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 34444555433 23569999999999999988887763
No 430
>PRK01184 hypothetical protein; Provisional
Probab=93.51 E-value=0.059 Score=52.30 Aligned_cols=16 Identities=31% Similarity=0.634 Sum_probs=14.0
Q ss_pred eEEEeCCCCCChhHHH
Q 038763 253 LLIIQGPPGTGKTGLL 268 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl 268 (690)
+.+|.|||||||||+.
T Consensus 3 ~i~l~G~~GsGKsT~a 18 (184)
T PRK01184 3 IIGVVGMPGSGKGEFS 18 (184)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5789999999999953
No 431
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=93.46 E-value=0.09 Score=55.98 Aligned_cols=36 Identities=28% Similarity=0.393 Sum_probs=30.5
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHH-HcCCeEEEEcCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAV-QQGERVLVTAPT 288 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~-~~g~rVLv~a~S 288 (690)
+.++.|+||+||||++..+...+. ..|.+|.+.+.-
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~D 37 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYD 37 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccc
Confidence 357899999999999999988886 578899888754
No 432
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.44 E-value=0.21 Score=59.95 Aligned_cols=62 Identities=19% Similarity=0.327 Sum_probs=47.8
Q ss_pred CCCHHHHH---HHHHHhcCCCCeEEEeCCCCCChhHHH-HHHHHHHHHcCCeEEEEcCChHHHHHHHHH
Q 038763 234 TFDDSQKK---AIALGLNKKRPLLIIQGPPGTGKTGLL-KEIIARAVQQGERVLVTAPTNAAVDNMVEK 298 (690)
Q Consensus 234 ~LN~~Q~~---Av~~al~~~~~~~lI~GPPGTGKT~tl-~~~i~~l~~~g~rVLv~a~SN~AvD~l~er 298 (690)
+.-+.|.+ +|..++... ...+|++|+|||||..- .-++.. ..+.+|+|.|+|..-.+++..+
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~-~~~~~eA~tGtGKT~ayllp~l~~--~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDG-PASFIEAQTGIGKTYGYLLPLLAQ--SDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCC-CcEEEECCCCCcHHHHHHHHHHHh--cCCCcEEEEeCcHHHHHHHHHH
Confidence 47789998 888888864 67899999999999852 222221 1578999999999999998643
No 433
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=93.44 E-value=0.15 Score=54.50 Aligned_cols=54 Identities=19% Similarity=0.188 Sum_probs=35.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHH----c--CCeEEEEcCChH-HHHHHHHHHHhcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQ----Q--GERVLVTAPTNA-AVDNMVEKLSDVGL 304 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~----~--g~rVLv~a~SN~-AvD~l~erL~~~~~ 304 (690)
+.++.|.||||||||++...++..... . +.+++.+..-+. -.+.|.+.....++
T Consensus 126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~g~ 186 (344)
T PLN03187 126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERFGM 186 (344)
T ss_pred CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHcCC
Confidence 468999999999999998777654432 1 257777665442 45555555544443
No 434
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=93.39 E-value=0.24 Score=53.48 Aligned_cols=58 Identities=22% Similarity=0.413 Sum_probs=44.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEc-C--ChHHHHHHHHHHHhcCCceeec
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTA-P--TNAAVDNMVEKLSDVGLNIVRV 309 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a-~--SN~AvD~l~erL~~~~~~~vRi 309 (690)
.+.+..|-=|+|||||+..++.++.+.|.++|++| . --.|+|+|..--.+.++++.-.
T Consensus 101 ~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~ 161 (451)
T COG0541 101 TVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS 161 (451)
T ss_pred eEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecC
Confidence 35778899999999999999999999998887654 3 3467788665555556666544
No 435
>PF13479 AAA_24: AAA domain
Probab=93.38 E-value=0.06 Score=53.70 Aligned_cols=19 Identities=47% Similarity=0.917 Sum_probs=16.9
Q ss_pred eEEEeCCCCCChhHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEI 271 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~ 271 (690)
-.+|.||||+|||+++..+
T Consensus 5 ~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL 23 (213)
T ss_pred EEEEECCCCCCHHHHHHhC
Confidence 3799999999999988777
No 436
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=93.37 E-value=0.11 Score=54.72 Aligned_cols=32 Identities=25% Similarity=0.517 Sum_probs=29.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++. |-.|.|||||.+.+...+.+.|+|||++
T Consensus 7 iai~-~KGGvGKTt~~~nLa~~la~~g~kVLli 38 (295)
T PRK13234 7 IAFY-GKGGIGKSTTSQNTLAALVEMGQKILIV 38 (295)
T ss_pred EEEE-CCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence 4555 9999999999999999999999999998
No 437
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.33 E-value=0.053 Score=57.50 Aligned_cols=21 Identities=43% Similarity=0.852 Sum_probs=18.6
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+..||||||||..+.++.+.
T Consensus 387 ilfyGPPGTGKTm~ArelAr~ 407 (630)
T KOG0742|consen 387 ILFYGPPGTGKTMFARELARH 407 (630)
T ss_pred eeeeCCCCCCchHHHHHHHhh
Confidence 689999999999999888764
No 438
>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=93.32 E-value=0.073 Score=49.73 Aligned_cols=22 Identities=23% Similarity=0.366 Sum_probs=18.7
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.||||+||||++..+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 4789999999999988887665
No 439
>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=93.31 E-value=0.095 Score=51.81 Aligned_cols=38 Identities=26% Similarity=0.583 Sum_probs=28.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH----cCCeEEEEcCCh
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ----QGERVLVTAPTN 289 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~----~g~rVLv~a~SN 289 (690)
+..+|.|+||+|||+++..++.+++. ..-++-++-+..
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~ 80 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKG 80 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTS
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCc
Confidence 35899999999999999999999988 345666666654
No 440
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.31 E-value=0.086 Score=62.26 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=20.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
..|++|||||||||++..+++.+.
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcc
Confidence 458999999999999988887775
No 441
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=93.30 E-value=0.11 Score=57.02 Aligned_cols=24 Identities=38% Similarity=0.869 Sum_probs=21.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
+.|.|||||||||++..+++.+.+
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHH
Confidence 448999999999999999988765
No 442
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=93.28 E-value=0.36 Score=55.39 Aligned_cols=44 Identities=27% Similarity=0.484 Sum_probs=39.7
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLS 300 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~ 300 (690)
...+|.|-.||||||.|..+...+ +.+++++|..|+.|+-.+|.
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l-----~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL-----DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc-----CEEEEcchHHHHHhhhcccc
Confidence 468999999999999998887776 78899999999999988887
No 443
>PRK09087 hypothetical protein; Validated
Probab=93.28 E-value=0.12 Score=52.15 Aligned_cols=23 Identities=35% Similarity=0.639 Sum_probs=18.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~ 273 (690)
.+..+|+||+|+||||++-.+..
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~ 66 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWRE 66 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 45689999999999998875443
No 444
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.28 E-value=0.06 Score=60.94 Aligned_cols=57 Identities=25% Similarity=0.433 Sum_probs=40.3
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH-----cCCeEE--EEcCChHHHHHHHHHHHhcCCceeecC
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ-----QGERVL--VTAPTNAAVDNMVEKLSDVGLNIVRVG 310 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~-----~g~rVL--v~a~SN~AvD~l~erL~~~~~~~vRiG 310 (690)
.|++||||||||.++.+++...-- +|..+| .+..|..+|.++.+|-.....-++-+.
T Consensus 704 iLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFD 767 (952)
T KOG0735|consen 704 ILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFD 767 (952)
T ss_pred eEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEec
Confidence 589999999999988877765321 233333 467799999999999877554444433
No 445
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=93.28 E-value=0.11 Score=54.06 Aligned_cols=32 Identities=28% Similarity=0.500 Sum_probs=29.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++. |--|+|||||.+.+...|.+.|+|||++
T Consensus 4 iav~-~KGGVGKTT~~~nLA~~La~~G~rVLlI 35 (274)
T PRK13235 4 VAIY-GKGGIGKSTTTQNTVAGLAEMGKKVMVV 35 (274)
T ss_pred EEEe-CCCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 4556 8899999999999999999999999998
No 446
>CHL00176 ftsH cell division protein; Validated
Probab=93.27 E-value=0.073 Score=61.69 Aligned_cols=33 Identities=36% Similarity=0.513 Sum_probs=24.2
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
-.+++||||||||+++..+...+ +.+++.++.+
T Consensus 218 gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s 250 (638)
T CHL00176 218 GVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGS 250 (638)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHH
Confidence 37999999999999988876543 4555555443
No 447
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=93.26 E-value=0.13 Score=49.26 Aligned_cols=33 Identities=24% Similarity=0.392 Sum_probs=30.3
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++..+-+|.||||+.+.+...+.+.|.+||++
T Consensus 2 i~v~~~kgG~GKtt~a~~la~~l~~~g~~vllv 34 (179)
T cd02036 2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLI 34 (179)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 467788999999999999999999999999988
No 448
>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=93.24 E-value=0.11 Score=50.68 Aligned_cols=27 Identities=22% Similarity=0.353 Sum_probs=23.4
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHc
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQ 278 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~ 278 (690)
...|++||||+|||+++..++..+...
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 468999999999999999998888753
No 449
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.19 E-value=0.12 Score=59.50 Aligned_cols=41 Identities=22% Similarity=0.419 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHhcC------CCCeEEEeCCCCCChhHHHHHHHHHH
Q 038763 235 FDDSQKKAIALGLNK------KRPLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 235 LN~~Q~~Av~~al~~------~~~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.++.+.+.|...+.. ...+.+|.|||||||||++..+...+
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 455555555544431 23468999999999999987766544
No 450
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.18 E-value=0.12 Score=58.35 Aligned_cols=37 Identities=19% Similarity=0.329 Sum_probs=26.1
Q ss_pred HHHHHHHhcCC--CCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 240 KKAIALGLNKK--RPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 240 ~~Av~~al~~~--~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+++..++..+ ....|++||||||||+++..+++.+.
T Consensus 25 ~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (509)
T PRK14958 25 VRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN 63 (509)
T ss_pred HHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc
Confidence 34455555432 12469999999999999888887764
No 451
>PTZ00088 adenylate kinase 1; Provisional
Probab=93.17 E-value=0.075 Score=53.57 Aligned_cols=21 Identities=24% Similarity=0.594 Sum_probs=17.2
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.||||+||||....+...
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 788999999999987766544
No 452
>PRK03846 adenylylsulfate kinase; Provisional
Probab=93.17 E-value=0.13 Score=50.56 Aligned_cols=48 Identities=17% Similarity=0.282 Sum_probs=33.6
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
....++++.. ..+..+..|.|+||+||||++..+...+...|..+++.
T Consensus 11 v~~~~~~~~~---~~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 11 VTKAQREQLH---GHKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred CCHHHHHHhc---CCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 4555555422 22345889999999999998888888777777655544
No 453
>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=93.11 E-value=0.086 Score=52.66 Aligned_cols=39 Identities=33% Similarity=0.558 Sum_probs=27.0
Q ss_pred HHHHHHhcCC-CCeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 241 KAIALGLNKK-RPLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 241 ~Av~~al~~~-~~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
+.+...+... ....+|.||.|+|||+++.+++..+-..+
T Consensus 9 ~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~ 48 (234)
T PF01637_consen 9 EKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG 48 (234)
T ss_dssp HHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E
T ss_pred HHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC
Confidence 3344444432 46899999999999999998888774433
No 454
>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=93.11 E-value=0.25 Score=50.84 Aligned_cols=50 Identities=26% Similarity=0.352 Sum_probs=40.3
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHc-CCeEEEEcCChHHHHHHHHHHHh
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQ-GERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~-g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
..+++|-|+||.|||+++..++..+... |.+|++.+.=.. .+++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHH
Confidence 4699999999999999999999999987 589999987543 4456666654
No 455
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.08 E-value=0.15 Score=55.46 Aligned_cols=42 Identities=19% Similarity=0.325 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHhcCC--CCeEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 236 DDSQKKAIALGLNKK--RPLLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 236 N~~Q~~Av~~al~~~--~~~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
++...+.+...+..+ .+..+++||||+|||+++-.++..+..
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344455565555432 236889999999999988888766654
No 456
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=93.06 E-value=0.064 Score=53.31 Aligned_cols=21 Identities=48% Similarity=0.857 Sum_probs=17.1
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.++.||||||||.++.+.+.+
T Consensus 192 vllygppg~gktml~kava~~ 212 (408)
T KOG0727|consen 192 VLLYGPPGTGKTMLAKAVANH 212 (408)
T ss_pred eEEeCCCCCcHHHHHHHHhhc
Confidence 588999999999987665544
No 457
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=93.05 E-value=0.069 Score=56.21 Aligned_cols=23 Identities=30% Similarity=0.673 Sum_probs=19.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
+.++.|||||||||++..+...+
T Consensus 4 liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHC
Confidence 67889999999999988877664
No 458
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=93.04 E-value=0.076 Score=58.55 Aligned_cols=24 Identities=29% Similarity=0.612 Sum_probs=20.9
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+.+|.||+|+|||||+..+...+
T Consensus 111 ~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 111 RILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred eEEEEeCCCCCCchhHHHHHHHhh
Confidence 599999999999999998776654
No 459
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=93.02 E-value=0.1 Score=56.11 Aligned_cols=43 Identities=23% Similarity=0.441 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCC
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGE 280 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~ 280 (690)
.|++.=++-+..- ..+ .||.||||.||||.+.+++..+..+|+
T Consensus 250 ~L~dkl~eRL~er---aeG-ILIAG~PGaGKsTFaqAlAefy~~~Gk 292 (604)
T COG1855 250 GLSDKLKERLEER---AEG-ILIAGAPGAGKSTFAQALAEFYASQGK 292 (604)
T ss_pred CCCHHHHHHHHhh---hcc-eEEecCCCCChhHHHHHHHHHHHhcCc
Confidence 4787766666532 223 699999999999999999988888885
No 460
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=93.00 E-value=0.13 Score=57.77 Aligned_cols=30 Identities=30% Similarity=0.557 Sum_probs=23.1
Q ss_pred hcCCCCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 247 LNKKRPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 247 l~~~~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+.....+.++.||||+|||+++-.+...+-
T Consensus 99 l~~~~~IL~LvGPpG~GKSsLa~~la~~le 128 (644)
T PRK15455 99 LEEKKQILYLLGPVGGGKSSLAERLKSLME 128 (644)
T ss_pred cCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence 445568999999999999998766655443
No 461
>PRK13695 putative NTPase; Provisional
Probab=92.99 E-value=0.12 Score=49.62 Aligned_cols=29 Identities=41% Similarity=0.670 Sum_probs=24.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCeE
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGERV 282 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~rV 282 (690)
.+|.|+||+||||++..++..+...|.++
T Consensus 3 i~ltG~~G~GKTTll~~i~~~l~~~G~~~ 31 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAELLKEEGYKV 31 (174)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeE
Confidence 57899999999999998887776666654
No 462
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.99 E-value=0.13 Score=58.49 Aligned_cols=38 Identities=24% Similarity=0.364 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCCC-C-eEEEeCCCCCChhHHHHHHHHHHH
Q 038763 239 QKKAIALGLNKKR-P-LLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 239 Q~~Av~~al~~~~-~-~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
-.+++..++..+. + ..|++|||||||||++..+++.+.
T Consensus 24 v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 24 VVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred HHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3444555554321 2 358999999999998888877763
No 463
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=92.99 E-value=0.34 Score=57.05 Aligned_cols=78 Identities=24% Similarity=0.379 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHH-HHHHHHHHcC-------CeEEEEcCChHHHHHHHHHHHh--
Q 038763 232 GKTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLK-EIIARAVQQG-------ERVLVTAPTNAAVDNMVEKLSD-- 301 (690)
Q Consensus 232 ~~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~-~~i~~l~~~g-------~rVLv~a~SN~AvD~l~erL~~-- 301 (690)
..++++.|+.|+..+.... -+||..|-|||||-++. -++..+++.+ -.+|.++|=.+-...+..+|..
T Consensus 20 ~~~~t~~Q~~a~~~i~~G~--nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~ 97 (814)
T COG1201 20 FTSLTPPQRYAIPEIHSGE--NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPL 97 (814)
T ss_pred cCCCCHHHHHHHHHHhCCC--ceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHH
Confidence 3569999999999998643 58999999999998753 4455555552 3689999998888888888865
Q ss_pred --cCCce-eecCC
Q 038763 302 --VGLNI-VRVGN 311 (690)
Q Consensus 302 --~~~~~-vRiG~ 311 (690)
.|+++ +|-|.
T Consensus 98 ~~~G~~v~vRhGD 110 (814)
T COG1201 98 RELGIEVAVRHGD 110 (814)
T ss_pred HHcCCccceecCC
Confidence 35443 55554
No 464
>PRK00625 shikimate kinase; Provisional
Probab=92.93 E-value=0.089 Score=50.61 Aligned_cols=22 Identities=27% Similarity=0.391 Sum_probs=18.4
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.++.|+||+||||+...+...+
T Consensus 3 I~LiG~pGsGKTT~~k~La~~l 24 (173)
T PRK00625 3 IFLCGLPTVGKTSFGKALAKFL 24 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5788999999999887776654
No 465
>PTZ00202 tuzin; Provisional
Probab=92.93 E-value=0.22 Score=54.18 Aligned_cols=59 Identities=12% Similarity=0.247 Sum_probs=38.0
Q ss_pred HHHHHHHHHhcC----CCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 238 SQKKAIALGLNK----KRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 238 ~Q~~Av~~al~~----~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
.+..++..+|.. ...+.+|.||+|+|||+++..++..+- .+.++.... ..++++..+..
T Consensus 269 aEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr-g~eElLr~LL~ 331 (550)
T PTZ00202 269 AEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR-GTEDTLRSVVK 331 (550)
T ss_pred HHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC-CHHHHHHHHHH
Confidence 445566666642 124889999999999999888885542 334444444 45666666654
No 466
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=92.92 E-value=0.13 Score=56.10 Aligned_cols=25 Identities=24% Similarity=0.488 Sum_probs=21.5
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQ 277 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~ 277 (690)
..|++||||+|||+++..++..+.-
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c 62 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQC 62 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCC
Confidence 4789999999999999888877654
No 467
>PHA02774 E1; Provisional
Probab=92.92 E-value=0.12 Score=58.25 Aligned_cols=30 Identities=33% Similarity=0.543 Sum_probs=24.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEE
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVL 283 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVL 283 (690)
...+|+||||||||+....++..+ .|+.+.
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L--~G~vi~ 464 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFL--KGKVIS 464 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh--CCCEEE
Confidence 478999999999999999999886 354444
No 468
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=92.91 E-value=0.14 Score=53.83 Aligned_cols=54 Identities=26% Similarity=0.309 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 233 KTFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 233 ~~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
..+++.|-+.+..+.... --.||.|+-||||||++-++....- ...||+.|=.|
T Consensus 156 gt~~~~~a~~L~~av~~r-~NILisGGTGSGKTTlLNal~~~i~-~~eRvItiEDt 209 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIR-CNILISGGTGSGKTTLLNALSGFID-SDERVITIEDT 209 (355)
T ss_pred CCcCHHHHHHHHHHHhhc-eeEEEeCCCCCCHHHHHHHHHhcCC-CcccEEEEeeh
Confidence 459999999999888754 3479999999999999987766544 44589888765
No 469
>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=92.90 E-value=0.2 Score=59.20 Aligned_cols=67 Identities=16% Similarity=0.143 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHH---cCCeEEEEcCChHHHHHHHHHHHhc
Q 038763 235 FDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQ---QGERVLVTAPTNAAVDNMVEKLSDV 302 (690)
Q Consensus 235 LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~---~g~rVLv~a~SN~AvD~l~erL~~~ 302 (690)
.++-|.+++..++... ...+++.|.|||||.+++..+..+.. ...++++|+|+..-|+++.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~-~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQ-PPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCC-CcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 7889999999998753 35688999999999865422221211 1246667889999999998887664
No 470
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=92.90 E-value=0.15 Score=52.98 Aligned_cols=31 Identities=29% Similarity=0.499 Sum_probs=28.7
Q ss_pred EEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 255 IIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 255 lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
.|.|-.|+||||+.+.+...|.+.|++||++
T Consensus 4 a~~gKGGVGKTT~a~nLA~~La~~G~~Vlli 34 (275)
T TIGR01287 4 AIYGKGGIGKSTTTQNIAAALAEMGKKVMIV 34 (275)
T ss_pred EEeCCCcCcHHHHHHHHHHHHHHCCCeEEEE
Confidence 4569999999999999999999999999997
No 471
>PRK13949 shikimate kinase; Provisional
Probab=92.88 E-value=0.085 Score=50.58 Aligned_cols=22 Identities=32% Similarity=0.425 Sum_probs=18.3
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.||||+||||+...+...+
T Consensus 4 I~liG~~GsGKstl~~~La~~l 25 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALAREL 25 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 5788999999999988766654
No 472
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=92.85 E-value=0.12 Score=47.64 Aligned_cols=32 Identities=28% Similarity=0.394 Sum_probs=19.9
Q ss_pred HHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 243 IALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 243 v~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
+..+...+. ..+|+|+|||||++++ ..++..-
T Consensus 14 l~~~a~~~~-pvli~GE~GtGK~~~A-~~lh~~~ 45 (138)
T PF14532_consen 14 LERLAKSSS-PVLITGEPGTGKSLLA-RALHRYS 45 (138)
T ss_dssp HHHHHCSSS--EEEECCTTSSHHHHH-HCCHHTT
T ss_pred HHHHhCCCC-cEEEEcCCCCCHHHHH-HHHHhhc
Confidence 333334443 4699999999999954 4444433
No 473
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.81 E-value=0.15 Score=58.42 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
.+|++|||||||||++..+++.+.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999988887765
No 474
>PRK10865 protein disaggregation chaperone; Provisional
Probab=92.77 E-value=0.32 Score=58.73 Aligned_cols=36 Identities=31% Similarity=0.576 Sum_probs=27.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHH-------cCCeEEEEcC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQ-------QGERVLVTAP 287 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~-------~g~rVLv~a~ 287 (690)
+..++.||||||||+++..++..++. .+.+++.+..
T Consensus 200 ~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l 242 (857)
T PRK10865 200 NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM 242 (857)
T ss_pred CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEeh
Confidence 45789999999999999888887764 3567766533
No 475
>PHA00350 putative assembly protein
Probab=92.76 E-value=0.21 Score=54.22 Aligned_cols=58 Identities=19% Similarity=0.307 Sum_probs=36.8
Q ss_pred eEEEeCCCCCChhHHHHH-HHHHHHHcCCeEEEEcCChHHHHHHHHHHHh--cCCceeecCC
Q 038763 253 LLIIQGPPGTGKTGLLKE-IIARAVQQGERVLVTAPTNAAVDNMVEKLSD--VGLNIVRVGN 311 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~-~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~--~~~~~vRiG~ 311 (690)
+.+|+|+||||||..++. .|...++.|.+ +++--...-.+.+.+++.+ ..-.++|+.+
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~GR~-V~TNI~Gl~le~i~~~~~~~p~~~~li~i~~ 63 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDGRK-VITNIPGLNLDVFEKVFGEFPSTARLIRIVD 63 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCCCE-EEECCCCCCHHHHHhhcccCcccceeEEecc
Confidence 689999999999998887 57778888854 4543222334455444433 1224555543
No 476
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=92.74 E-value=0.21 Score=47.81 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=27.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
...+|+|++||||+.++..+=..-...+.+.+.+-.+...-+.+-..|
T Consensus 23 ~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~L 70 (168)
T PF00158_consen 23 LPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESEL 70 (168)
T ss_dssp S-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHH
T ss_pred CCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhh
Confidence 347999999999998754443322223445555555454445554444
No 477
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=92.74 E-value=0.093 Score=51.60 Aligned_cols=24 Identities=33% Similarity=0.493 Sum_probs=20.6
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
-+.+|.|+||+||||++..+...+
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~~~ 27 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIARHR 27 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhc
Confidence 378999999999999988887763
No 478
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=92.71 E-value=0.18 Score=58.39 Aligned_cols=57 Identities=19% Similarity=0.340 Sum_probs=35.0
Q ss_pred HHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcC-CeEEEEcCChHHHHHHHHHH
Q 038763 242 AIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQG-ERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 242 Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g-~rVLv~a~SN~AvD~l~erL 299 (690)
++..++... ...++.||||||||+++..+...+-... ..+++...+......++..+
T Consensus 42 ~L~~~~~~~-~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~~~~~~~~~~v 99 (637)
T PRK13765 42 VIKKAAKQR-RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPEDPNNPKIRTV 99 (637)
T ss_pred HHHHHHHhC-CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCCcchHHHHHHH
Confidence 445555543 5799999999999999888766543222 45555444443444444443
No 479
>PRK14526 adenylate kinase; Provisional
Probab=92.69 E-value=0.096 Score=52.12 Aligned_cols=21 Identities=38% Similarity=0.749 Sum_probs=16.6
Q ss_pred EEEeCCCCCChhHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~ 274 (690)
.+|.||||+||||.+..+...
T Consensus 3 i~l~G~pGsGKsT~a~~La~~ 23 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILSNE 23 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987655433
No 480
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=92.64 E-value=0.18 Score=44.20 Aligned_cols=32 Identities=28% Similarity=0.424 Sum_probs=24.5
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
..+.+|.||.|+||||++..+. .| .+.++...
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~-----~G-~i~~~g~d 46 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI-----KR-KHRLVGDD 46 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh-----CC-eEEEeeEe
Confidence 3588999999999999988765 33 56666643
No 481
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=92.64 E-value=0.096 Score=59.91 Aligned_cols=65 Identities=23% Similarity=0.452 Sum_probs=0.0
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHH-----cCCeEE--EEcCChHHHHHHHHHHHhcCCceeecCCCcccCch
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQ-----QGERVL--VTAPTNAAVDNMVEKLSDVGLNIVRVGNPARISPA 318 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~-----~g~rVL--v~a~SN~AvD~l~erL~~~~~~~vRiG~~~r~~~~ 318 (690)
.|..||||||||-++.+++-.+-- +|...| .+..|..-|.++.+|-.....-++-+.....+.|.
T Consensus 708 ILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~ 779 (953)
T KOG0736|consen 708 ILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPN 779 (953)
T ss_pred eEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCcc
No 482
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.63 E-value=0.084 Score=57.86 Aligned_cols=28 Identities=32% Similarity=0.574 Sum_probs=20.7
Q ss_pred EEEeCCCCCChhHHHHHHHHHHHHcCCe
Q 038763 254 LIIQGPPGTGKTGLLKEIIARAVQQGER 281 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l~~~g~r 281 (690)
.|+.||||||||-.+..+=..|-.+..+
T Consensus 259 iLLyGPPGTGKTLiARqIGkMLNArePK 286 (744)
T KOG0741|consen 259 ILLYGPPGTGKTLIARQIGKMLNAREPK 286 (744)
T ss_pred EEEECCCCCChhHHHHHHHHHhcCCCCc
Confidence 5889999999998777666666554433
No 483
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=92.63 E-value=0.16 Score=53.80 Aligned_cols=45 Identities=31% Similarity=0.561 Sum_probs=32.1
Q ss_pred HHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 239 QKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 239 Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+.+.+..++.. ....+|.||+|+||||++..++..+ ....+++++
T Consensus 133 ~~~~l~~~v~~-~~~ili~G~tGsGKTTll~al~~~~-~~~~~iv~i 177 (308)
T TIGR02788 133 IKEFLRLAIAS-RKNIIISGGTGSGKTTFLKSLVDEI-PKDERIITI 177 (308)
T ss_pred HHHHHHHHhhC-CCEEEEECCCCCCHHHHHHHHHccC-CccccEEEE
Confidence 45556666665 4678999999999999998777554 344565544
No 484
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=92.62 E-value=0.075 Score=60.23 Aligned_cols=21 Identities=48% Similarity=0.749 Sum_probs=18.9
Q ss_pred eEEEeCCCCCChhHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~ 273 (690)
..|++||||||||.++.++..
T Consensus 278 giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 278 GVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred eeEEECCCCCCHHHHHHHHHh
Confidence 589999999999999888776
No 485
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=92.62 E-value=0.088 Score=51.27 Aligned_cols=22 Identities=32% Similarity=0.295 Sum_probs=18.7
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
..|.|+|||||||++..+...+
T Consensus 2 i~i~G~sgsGKTtla~~l~~~~ 23 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQRIL 23 (187)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 5789999999999988777764
No 486
>PRK06217 hypothetical protein; Validated
Probab=92.61 E-value=0.092 Score=50.97 Aligned_cols=22 Identities=32% Similarity=0.498 Sum_probs=18.9
Q ss_pred EEEeCCCCCChhHHHHHHHHHH
Q 038763 254 LIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 254 ~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+|.|+|||||||+...+...+
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 6899999999999988777654
No 487
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=92.61 E-value=0.14 Score=54.21 Aligned_cols=36 Identities=25% Similarity=0.509 Sum_probs=28.8
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCC
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPT 288 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~S 288 (690)
.-.+|.|++|||||+++++++.....+| =|++--|+
T Consensus 24 ~r~vL~G~~GsGKS~~L~q~~~~A~~~~-wiVl~vp~ 59 (309)
T PF10236_consen 24 NRYVLTGERGSGKSVLLAQAVHYARENG-WIVLYVPS 59 (309)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCC-EEEEEcCC
Confidence 4589999999999999999999888775 34444444
No 488
>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=92.58 E-value=0.097 Score=50.46 Aligned_cols=22 Identities=41% Similarity=0.916 Sum_probs=18.7
Q ss_pred eEEEeCCCCCChhHHHHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
+.+|.||+|+||||++..++..
T Consensus 3 ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 3 LIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHcc
Confidence 6899999999999987776664
No 489
>PHA00547 hypothetical protein
Probab=92.58 E-value=0.2 Score=50.20 Aligned_cols=29 Identities=38% Similarity=0.403 Sum_probs=24.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcC
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQG 279 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g 279 (690)
+|+++|+||=|||||..+.-++.+.-+++
T Consensus 75 spis~i~G~LGsGKTlLMT~LA~~~K~K~ 103 (337)
T PHA00547 75 NPLSVIIGKLGTGKTLLLTYLSQTMKLLT 103 (337)
T ss_pred CCceEEeccCCCchhHHHHHHHHHHHhhh
Confidence 58999999999999999888887776544
No 490
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.56 E-value=0.29 Score=56.42 Aligned_cols=39 Identities=13% Similarity=0.250 Sum_probs=27.4
Q ss_pred HHHHHHHHHhcCC--CCeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 238 SQKKAIALGLNKK--RPLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 238 ~Q~~Av~~al~~~--~~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
...+.+..++..+ ...+|++||||||||+++..++..+.
T Consensus 23 ~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 23 HVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 3344555555432 13469999999999999988887765
No 491
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=92.56 E-value=0.17 Score=55.88 Aligned_cols=43 Identities=30% Similarity=0.567 Sum_probs=37.8
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHH
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNM 295 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l 295 (690)
..+|.|++|||||+++..++.++...+.+++|+-+.......+
T Consensus 44 h~~i~g~tGsGKt~~i~~l~~~~~~~~~~~vi~D~kg~~~~~~ 86 (410)
T cd01127 44 HTMIIGTTGTGKTTQIRELLASIRARGDRAIIYDPNGGFVSKF 86 (410)
T ss_pred cEEEEcCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCcchhHhh
Confidence 5799999999999999999999999999999999998765443
No 492
>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=92.49 E-value=0.11 Score=51.40 Aligned_cols=24 Identities=29% Similarity=0.477 Sum_probs=19.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARA 275 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l 275 (690)
.+..|.||+|+||||++..+...+
T Consensus 7 ~vi~I~G~sGsGKSTl~~~l~~~l 30 (207)
T TIGR00235 7 IIIGIGGGSGSGKTTVARKIYEQL 30 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 477899999999998776665543
No 493
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.47 E-value=0.27 Score=56.37 Aligned_cols=25 Identities=32% Similarity=0.428 Sum_probs=21.0
Q ss_pred CeEEEeCCCCCChhHHHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIARAV 276 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~l~ 276 (690)
...|++||||||||+++..+++.+.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3578899999999999888877764
No 494
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=92.46 E-value=0.17 Score=52.34 Aligned_cols=32 Identities=28% Similarity=0.412 Sum_probs=28.4
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++. |=-|.|||||.+.+...+.+.|+|||++
T Consensus 3 i~~~-gKGGVGKTT~~~nLA~~La~~g~rVLli 34 (268)
T TIGR01281 3 LAVY-GKGGIGKSTTSSNLSVAFAKLGKRVLQI 34 (268)
T ss_pred EEEE-cCCcCcHHHHHHHHHHHHHhCCCeEEEE
Confidence 3444 8889999999999999999999999987
No 495
>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=92.42 E-value=0.13 Score=50.49 Aligned_cols=29 Identities=38% Similarity=0.690 Sum_probs=21.9
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLV 284 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv 284 (690)
+.+|.||+|||||.+.+++.++. |..|++
T Consensus 3 v~~i~GpT~tGKt~~ai~lA~~~---g~pvI~ 31 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAIALAQKT---GAPVIS 31 (233)
T ss_dssp EEEEE-STTSSHHHHHHHHHHHH-----EEEE
T ss_pred EEEEECCCCCChhHHHHHHHHHh---CCCEEE
Confidence 78999999999999999888775 444444
No 496
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=92.42 E-value=0.17 Score=52.28 Aligned_cols=32 Identities=28% Similarity=0.415 Sum_probs=28.7
Q ss_pred eEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEE
Q 038763 253 LLIIQGPPGTGKTGLLKEIIARAVQQGERVLVT 285 (690)
Q Consensus 253 ~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~ 285 (690)
+++. |--|+|||||.+.+...+.+.|+|||++
T Consensus 5 Iav~-~KGGVGKTT~~~nLA~~la~~G~kVLli 36 (270)
T PRK13185 5 LAVY-GKGGIGKSTTSSNLSAAFAKLGKKVLQI 36 (270)
T ss_pred EEEE-CCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 3444 8999999999999999999999999988
No 497
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=92.42 E-value=0.11 Score=50.55 Aligned_cols=22 Identities=36% Similarity=0.711 Sum_probs=18.5
Q ss_pred CeEEEeCCCCCChhHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIA 273 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~ 273 (690)
.+.+|.||+|+||||++..+..
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 3688999999999998877744
No 498
>PRK14737 gmk guanylate kinase; Provisional
Probab=92.41 E-value=0.1 Score=50.82 Aligned_cols=23 Identities=26% Similarity=0.599 Sum_probs=20.1
Q ss_pred CeEEEeCCCCCChhHHHHHHHHH
Q 038763 252 PLLIIQGPPGTGKTGLLKEIIAR 274 (690)
Q Consensus 252 ~~~lI~GPPGTGKT~tl~~~i~~ 274 (690)
-+.+|.||+|+|||+++..++..
T Consensus 5 ~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 5 KLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred eEEEEECCCCCCHHHHHHHHHhc
Confidence 47899999999999998888765
No 499
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=92.40 E-value=0.11 Score=55.13 Aligned_cols=47 Identities=28% Similarity=0.483 Sum_probs=33.7
Q ss_pred CCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHH
Q 038763 251 RPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKL 299 (690)
Q Consensus 251 ~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL 299 (690)
....||.|-||||||+...+++..+...+.-+.+.+. ..-|.+.+..
T Consensus 10 G~TLLIKG~PGTGKTtfaLelL~~l~~~~~v~YISTR--Vd~d~vy~~y 56 (484)
T PF07088_consen 10 GQTLLIKGEPGTGKTTFALELLNSLKDHGNVMYISTR--VDQDTVYEMY 56 (484)
T ss_pred CcEEEEecCCCCCceeeehhhHHHHhccCCeEEEEec--cCHHHHHHhh
Confidence 3468999999999999999999888776644444444 4445555443
No 500
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=92.40 E-value=0.35 Score=58.07 Aligned_cols=66 Identities=29% Similarity=0.383 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHHhcCCCCeEEEeCCCCCChhHHHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHHh
Q 038763 234 TFDDSQKKAIALGLNKKRPLLIIQGPPGTGKTGLLKEIIARAVQQGERVLVTAPTNAAVDNMVEKLSD 301 (690)
Q Consensus 234 ~LN~~Q~~Av~~al~~~~~~~lI~GPPGTGKT~tl~~~i~~l~~~g~rVLv~a~SN~AvD~l~erL~~ 301 (690)
+|++-|++|+...-. . .-.++..|-|+|||.+.-.+|.+.+..|+++..++|..+-..+....|.+
T Consensus 119 ~LD~fQ~~a~~~Ler-~-esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 119 ELDPFQQEAIAILER-G-ESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred CcCHHHHHHHHHHhC-C-CcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHHH
Confidence 599999999975443 3 45799999999999999999999999999999999988888777666544
Done!