Query 041971
Match_columns 1044
No_of_seqs 368 out of 2789
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 12:37:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041971.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041971hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 1.6E-75 3.5E-80 655.4 29.4 435 18-638 401-841 (935)
2 KOG1803 DNA helicase [Replicat 100.0 9.9E-71 2.1E-75 620.4 30.4 442 22-637 180-632 (649)
3 TIGR00376 DNA helicase, putati 100.0 3.6E-65 7.9E-70 617.7 38.0 469 25-639 155-636 (637)
4 KOG1807 Helicases [Replication 100.0 2.3E-56 5E-61 508.2 30.9 330 333-685 688-1019(1025)
5 KOG1805 DNA replication helica 100.0 2.3E-57 4.9E-62 531.0 22.9 386 25-634 667-1076(1100)
6 KOG1801 tRNA-splicing endonucl 100.0 7.7E-53 1.7E-57 521.1 20.7 580 22-643 221-819 (827)
7 COG1112 Superfamily I DNA and 100.0 2.2E-40 4.8E-45 419.4 33.5 291 336-638 461-754 (767)
8 PF13087 AAA_12: AAA domain; P 100.0 4.2E-36 9E-41 317.3 6.1 196 416-611 1-199 (200)
9 KOG1804 RNA helicase [RNA proc 100.0 2.2E-34 4.9E-39 342.9 11.5 285 342-639 418-725 (775)
10 KOG1806 DEAD box containing he 100.0 9.3E-32 2E-36 315.0 12.2 311 304-625 930-1260(1320)
11 PF13086 AAA_11: AAA domain; P 100.0 8.8E-30 1.9E-34 274.8 16.2 104 27-145 1-112 (236)
12 PRK11054 helD DNA helicase IV; 99.9 5.9E-27 1.3E-31 285.6 23.6 210 364-611 430-663 (684)
13 TIGR01447 recD exodeoxyribonuc 99.9 1.6E-23 3.4E-28 251.6 21.5 64 30-100 148-216 (586)
14 PRK11773 uvrD DNA-dependent he 99.9 2.9E-22 6.3E-27 249.8 28.9 68 26-102 8-79 (721)
15 PRK10875 recD exonuclease V su 99.9 5.8E-23 1.3E-27 246.8 21.7 67 27-100 152-222 (615)
16 TIGR01075 uvrD DNA helicase II 99.9 2.2E-22 4.8E-27 251.0 26.0 68 26-102 3-74 (715)
17 TIGR01073 pcrA ATP-dependent D 99.9 2.6E-22 5.7E-27 251.0 25.8 68 26-102 3-74 (726)
18 TIGR01448 recD_rel helicase, p 99.9 1.1E-22 2.3E-27 251.2 19.4 63 24-93 320-384 (720)
19 PRK10919 ATP-dependent DNA hel 99.9 5.5E-22 1.2E-26 244.4 24.7 67 27-102 2-72 (672)
20 TIGR02768 TraA_Ti Ti-type conj 99.9 1.5E-20 3.3E-25 232.9 21.0 65 24-94 349-413 (744)
21 TIGR01074 rep ATP-dependent DN 99.8 6.5E-20 1.4E-24 228.2 21.1 67 27-102 1-71 (664)
22 TIGR02785 addA_Gpos recombinat 99.8 2.4E-19 5.3E-24 233.8 26.6 68 27-103 1-71 (1232)
23 PRK13889 conjugal transfer rel 99.8 7.4E-19 1.6E-23 219.4 20.9 65 24-94 343-407 (988)
24 PRK13826 Dtr system oriT relax 99.8 1E-18 2.3E-23 218.7 20.7 64 25-94 379-442 (1102)
25 TIGR00609 recB exodeoxyribonuc 99.8 7.8E-18 1.7E-22 217.4 27.8 174 363-546 295-491 (1087)
26 PRK13909 putative recombinatio 99.8 5E-18 1.1E-22 216.2 22.6 156 363-546 327-493 (910)
27 COG1074 RecB ATP-dependent exo 99.8 1.3E-17 2.9E-22 215.6 26.0 176 363-546 377-576 (1139)
28 COG0210 UvrD Superfamily I DNA 99.8 1.5E-17 3.2E-22 206.9 21.1 156 363-545 212-370 (655)
29 PRK10876 recB exonuclease V su 99.8 4.7E-17 1E-21 210.6 26.2 174 363-546 376-573 (1181)
30 PF13604 AAA_30: AAA domain; P 99.7 9.3E-18 2E-22 176.3 11.4 66 27-97 1-66 (196)
31 TIGR02784 addA_alphas double-s 99.7 1.9E-15 4.1E-20 197.8 33.9 54 50-103 11-67 (1141)
32 TIGR02760 TraI_TIGR conjugativ 99.6 8.5E-14 1.8E-18 187.0 30.1 67 25-96 427-493 (1960)
33 COG3973 Superfamily I DNA and 99.6 9.8E-15 2.1E-19 166.5 17.8 207 363-610 527-745 (747)
34 PRK13709 conjugal transfer nic 99.6 1.7E-14 3.8E-19 188.2 19.7 66 24-94 964-1033(1747)
35 PRK14712 conjugal transfer nic 99.6 1.6E-14 3.5E-19 185.9 18.8 66 24-94 832-901 (1623)
36 PF00580 UvrD-helicase: UvrD/R 99.5 1.1E-13 2.4E-18 156.3 15.5 67 28-103 1-71 (315)
37 PF01443 Viral_helicase1: Vira 99.5 5.6E-14 1.2E-18 152.1 10.7 170 364-608 62-233 (234)
38 TIGR02760 TraI_TIGR conjugativ 99.4 4.4E-13 9.6E-18 180.2 15.3 66 24-94 1016-1085(1960)
39 PF13245 AAA_19: Part of AAA d 99.3 4.5E-12 9.7E-17 111.5 7.5 58 34-97 1-62 (76)
40 COG0507 RecD ATP-dependent exo 99.3 5.4E-12 1.2E-16 158.0 10.4 68 19-93 311-378 (696)
41 PF09848 DUF2075: Uncharacteri 99.2 4.2E-11 9.1E-16 137.8 10.8 49 50-98 2-52 (352)
42 PF05970 PIF1: PIF1-like helic 99.1 1.9E-10 4.1E-15 132.7 8.1 66 27-93 1-66 (364)
43 PRK10536 hypothetical protein; 98.6 3.7E-07 8.1E-12 98.1 12.7 59 23-88 55-114 (262)
44 PF02562 PhoH: PhoH-like prote 98.5 2.6E-07 5.7E-12 96.8 9.5 55 26-87 3-59 (205)
45 PF13361 UvrD_C: UvrD-like hel 98.5 7.4E-08 1.6E-12 110.2 4.6 57 555-611 287-350 (351)
46 COG3972 Superfamily I DNA and 98.4 1.7E-06 3.7E-11 97.8 11.7 70 26-103 161-232 (660)
47 TIGR02773 addB_Gpos ATP-depend 98.2 0.0001 2.2E-09 97.9 24.5 157 365-547 197-360 (1158)
48 KOG1804 RNA helicase [RNA proc 98.1 9E-07 2E-11 107.8 1.9 281 344-638 243-547 (775)
49 PF13538 UvrD_C_2: UvrD-like h 98.0 1E-06 2.2E-11 82.6 0.4 50 555-608 55-104 (104)
50 smart00487 DEXDc DEAD-like hel 98.0 2E-05 4.3E-10 81.7 9.8 73 24-102 5-79 (201)
51 PF04851 ResIII: Type III rest 98.0 1.4E-05 3E-10 82.6 8.2 72 26-100 2-73 (184)
52 PRK05580 primosome assembly pr 97.9 0.00013 2.8E-09 91.0 16.3 75 22-100 139-213 (679)
53 PF00270 DEAD: DEAD/DEAH box h 97.8 9.2E-05 2E-09 75.5 9.5 67 29-102 1-69 (169)
54 cd00046 DEXDc DEAD-like helica 97.7 7.6E-05 1.7E-09 72.6 7.5 51 51-101 2-54 (144)
55 PRK11192 ATP-dependent RNA hel 97.7 0.00035 7.6E-09 83.1 13.2 70 25-101 21-97 (434)
56 KOG0989 Replication factor C, 97.6 8.2E-05 1.8E-09 80.6 5.9 112 16-129 26-141 (346)
57 PRK08181 transposase; Validate 97.5 0.00045 9.7E-09 76.2 9.7 63 19-84 79-141 (269)
58 PRK10917 ATP-dependent DNA hel 97.5 0.00028 6.1E-09 88.3 9.2 89 14-103 248-336 (681)
59 TIGR00643 recG ATP-dependent D 97.4 0.00035 7.7E-09 86.7 8.8 84 18-102 226-309 (630)
60 PRK07952 DNA replication prote 97.4 0.00044 9.6E-09 75.1 8.3 65 29-98 78-143 (244)
61 PF00580 UvrD-helicase: UvrD/R 97.3 0.00026 5.7E-09 79.8 6.2 67 874-971 1-68 (315)
62 PHA02558 uvsW UvsW helicase; P 97.3 0.00066 1.4E-08 82.1 9.5 68 26-100 113-181 (501)
63 PRK12377 putative replication 97.3 0.00036 7.9E-09 75.9 6.6 62 29-91 80-142 (248)
64 cd00268 DEADc DEAD-box helicas 97.3 0.00094 2E-08 70.5 9.2 69 26-101 20-93 (203)
65 KOG2108 3'-5' DNA helicase [Re 97.3 0.00042 9.1E-09 84.2 7.0 71 25-104 11-85 (853)
66 cd00009 AAA The AAA+ (ATPases 97.3 0.00092 2E-08 65.5 8.3 60 30-93 4-63 (151)
67 PRK06526 transposase; Provisio 97.2 0.00071 1.5E-08 74.1 7.5 61 20-84 73-133 (254)
68 PF07652 Flavi_DEAD: Flaviviru 97.2 0.00052 1.1E-08 67.3 5.6 50 49-98 4-54 (148)
69 cd01124 KaiC KaiC is a circadi 97.2 0.00056 1.2E-08 71.2 6.0 48 51-99 1-48 (187)
70 KOG0991 Replication factor C, 97.1 0.001 2.2E-08 69.4 6.9 79 46-130 45-126 (333)
71 TIGR00580 mfd transcription-re 97.1 0.001 2.2E-08 85.1 8.6 89 13-102 437-525 (926)
72 PRK08116 hypothetical protein; 97.1 0.0018 3.9E-08 71.7 9.4 57 28-84 89-149 (268)
73 PRK10689 transcription-repair 97.1 0.0012 2.6E-08 86.3 9.1 89 12-101 585-673 (1147)
74 COG1484 DnaC DNA replication p 97.0 0.0011 2.3E-08 72.8 6.6 54 30-84 86-140 (254)
75 PF01695 IstB_IS21: IstB-like 97.0 0.00092 2E-08 69.3 5.7 38 47-84 45-82 (178)
76 PTZ00424 helicase 45; Provisio 96.9 0.0024 5.1E-08 75.1 9.1 69 25-100 48-119 (401)
77 PRK09183 transposase/IS protei 96.9 0.0021 4.5E-08 70.8 7.1 61 20-84 77-137 (259)
78 smart00382 AAA ATPases associa 96.8 0.00086 1.9E-08 65.1 3.6 42 49-90 2-43 (148)
79 PRK08084 DNA replication initi 96.8 0.0025 5.5E-08 69.2 7.4 40 48-87 44-83 (235)
80 PRK06893 DNA replication initi 96.8 0.0014 3E-08 70.9 5.4 39 48-86 38-76 (229)
81 KOG2028 ATPase related to the 96.8 0.0016 3.5E-08 71.9 5.7 67 32-102 149-215 (554)
82 COG1061 SSL2 DNA or RNA helica 96.8 0.0034 7.3E-08 74.6 8.9 74 22-101 31-104 (442)
83 TIGR01054 rgy reverse gyrase. 96.8 0.0029 6.2E-08 83.1 8.6 77 19-102 70-146 (1171)
84 PRK14974 cell division protein 96.8 0.0045 9.7E-08 70.4 9.1 45 49-93 140-187 (336)
85 TIGR01970 DEAH_box_HrpB ATP-de 96.8 0.0036 7.8E-08 79.3 9.0 66 31-102 5-70 (819)
86 PF06745 KaiC: KaiC; InterPro 96.7 0.0021 4.5E-08 69.4 5.8 51 48-99 18-69 (226)
87 TIGR03878 thermo_KaiC_2 KaiC d 96.7 0.0027 5.9E-08 70.0 6.6 51 48-99 35-85 (259)
88 PRK11776 ATP-dependent RNA hel 96.7 0.0051 1.1E-07 73.8 9.4 71 25-102 24-97 (460)
89 PRK08727 hypothetical protein; 96.7 0.009 1.9E-07 64.8 10.4 37 49-85 41-77 (233)
90 PRK11664 ATP-dependent RNA hel 96.7 0.0036 7.8E-08 79.4 8.3 67 31-103 8-74 (812)
91 PF13191 AAA_16: AAA ATPase do 96.7 0.0025 5.4E-08 65.9 5.8 51 30-81 6-56 (185)
92 PRK09401 reverse gyrase; Revie 96.6 0.0039 8.4E-08 81.8 8.3 78 19-103 72-149 (1176)
93 PRK01172 ski2-like helicase; P 96.6 0.0053 1.2E-07 77.2 9.3 71 23-100 18-88 (674)
94 PRK06851 hypothetical protein; 96.6 0.0017 3.6E-08 74.4 4.3 46 49-94 30-77 (367)
95 PRK05973 replicative DNA helic 96.6 0.0033 7.2E-08 67.8 6.2 53 47-100 62-114 (237)
96 cd01129 PulE-GspE PulE/GspE Th 96.6 0.0036 7.8E-08 69.1 6.6 54 25-83 61-114 (264)
97 TIGR03877 thermo_KaiC_1 KaiC d 96.6 0.0032 6.9E-08 68.5 6.0 52 47-99 19-70 (237)
98 PF00004 AAA: ATPase family as 96.6 0.004 8.6E-08 60.5 6.0 48 52-102 1-51 (132)
99 COG1875 NYN ribonuclease and A 96.6 0.0069 1.5E-07 67.5 8.3 39 365-403 352-391 (436)
100 PRK08533 flagellar accessory p 96.5 0.0042 9.1E-08 67.2 6.4 50 48-98 23-72 (230)
101 PF13401 AAA_22: AAA domain; P 96.5 0.0024 5.3E-08 62.1 4.0 54 49-102 4-63 (131)
102 COG2256 MGS1 ATPase related to 96.5 0.0047 1E-07 69.8 6.6 49 49-100 48-96 (436)
103 PRK08903 DnaA regulatory inact 96.5 0.0053 1.1E-07 66.2 7.0 55 29-86 25-79 (227)
104 TIGR00064 ftsY signal recognit 96.5 0.0062 1.3E-07 67.5 7.5 38 48-85 71-108 (272)
105 PF00448 SRP54: SRP54-type pro 96.5 0.0049 1.1E-07 64.9 6.4 45 49-93 1-48 (196)
106 PF13481 AAA_25: AAA domain; P 96.5 0.0059 1.3E-07 63.9 7.1 53 48-101 31-93 (193)
107 PRK04296 thymidine kinase; Pro 96.5 0.0034 7.4E-08 65.8 5.1 35 50-84 3-37 (190)
108 PRK06835 DNA replication prote 96.5 0.0033 7.1E-08 71.4 5.2 36 50-85 184-219 (329)
109 TIGR02928 orc1/cdc6 family rep 96.4 0.0039 8.4E-08 72.3 5.9 50 25-74 16-65 (365)
110 PRK11448 hsdR type I restricti 96.4 0.0097 2.1E-07 77.8 9.9 73 26-100 412-486 (1123)
111 TIGR01074 rep ATP-dependent DN 96.4 0.0089 1.9E-07 75.1 9.3 68 873-971 1-69 (664)
112 cd01120 RecA-like_NTPases RecA 96.4 0.0047 1E-07 62.1 5.5 41 51-91 1-41 (165)
113 TIGR00604 rad3 DNA repair heli 96.4 0.013 2.8E-07 74.0 10.5 103 28-137 11-116 (705)
114 cd03115 SRP The signal recogni 96.4 0.0043 9.3E-08 63.9 5.1 34 51-84 2-35 (173)
115 PRK08939 primosomal protein Dn 96.4 0.0072 1.6E-07 68.1 7.2 37 49-85 156-192 (306)
116 PLN03025 replication factor C 96.3 0.0032 7E-08 71.7 4.4 28 50-77 35-62 (319)
117 PRK05642 DNA replication initi 96.3 0.0047 1E-07 67.0 5.4 37 49-85 45-81 (234)
118 PRK06921 hypothetical protein; 96.3 0.0042 9.1E-08 68.6 5.0 37 49-85 117-154 (266)
119 PRK13833 conjugal transfer pro 96.3 0.008 1.7E-07 67.9 7.3 52 25-82 126-179 (323)
120 PRK10436 hypothetical protein; 96.3 0.0063 1.4E-07 72.2 6.8 53 25-82 199-251 (462)
121 PRK02362 ski2-like helicase; P 96.3 0.011 2.4E-07 75.1 9.4 70 25-100 21-90 (737)
122 PF05673 DUF815: Protein of un 96.3 0.0077 1.7E-07 64.6 6.7 58 30-87 33-90 (249)
123 PRK11634 ATP-dependent RNA hel 96.3 0.012 2.5E-07 73.0 9.3 71 25-102 26-99 (629)
124 TIGR02533 type_II_gspE general 96.3 0.0056 1.2E-07 73.3 6.2 53 25-82 223-275 (486)
125 PRK00254 ski2-like helicase; P 96.2 0.013 2.8E-07 74.2 9.5 69 25-99 21-90 (720)
126 cd01122 GP4d_helicase GP4d_hel 96.2 0.0081 1.8E-07 66.6 6.7 53 47-100 28-81 (271)
127 TIGR03880 KaiC_arch_3 KaiC dom 96.2 0.0084 1.8E-07 64.5 6.4 51 48-99 15-65 (224)
128 smart00489 DEXDc3 DEAD-like he 96.2 0.019 4.1E-07 64.3 9.4 73 25-100 6-84 (289)
129 smart00488 DEXDc2 DEAD-like he 96.2 0.019 4.1E-07 64.3 9.4 73 25-100 6-84 (289)
130 PRK09361 radB DNA repair and r 96.2 0.0063 1.4E-07 65.5 5.4 40 47-86 21-60 (225)
131 PRK04837 ATP-dependent RNA hel 96.2 0.016 3.4E-07 68.8 9.2 70 25-101 28-107 (423)
132 PRK06067 flagellar accessory p 96.2 0.0081 1.8E-07 65.2 6.2 51 47-98 23-73 (234)
133 PHA02544 44 clamp loader, smal 96.2 0.015 3.2E-07 66.1 8.6 104 12-129 7-112 (316)
134 PRK00411 cdc6 cell division co 96.2 0.012 2.6E-07 69.0 8.1 49 29-77 35-83 (394)
135 COG0467 RAD55 RecA-superfamily 96.2 0.0061 1.3E-07 67.3 5.3 43 48-90 22-64 (260)
136 PRK10590 ATP-dependent RNA hel 96.2 0.016 3.5E-07 69.4 9.2 71 24-101 20-99 (456)
137 KOG0744 AAA+-type ATPase [Post 96.1 0.0035 7.5E-08 68.5 3.0 27 48-74 176-202 (423)
138 COG1198 PriA Primosomal protei 96.1 0.019 4.1E-07 71.1 9.6 76 24-102 195-270 (730)
139 TIGR03420 DnaA_homol_Hda DnaA 96.1 0.011 2.4E-07 63.5 6.9 42 48-89 37-78 (226)
140 TIGR00603 rad25 DNA repair hel 96.1 0.021 4.5E-07 70.9 9.9 71 23-100 251-321 (732)
141 PRK10416 signal recognition pa 96.1 0.0069 1.5E-07 68.6 5.4 37 48-84 113-149 (318)
142 PRK04328 hypothetical protein; 96.1 0.0092 2E-07 65.4 6.2 51 48-99 22-72 (249)
143 COG2804 PulE Type II secretory 96.1 0.01 2.2E-07 69.5 6.8 53 25-82 239-291 (500)
144 TIGR01650 PD_CobS cobaltochela 96.1 0.0096 2.1E-07 66.9 6.4 45 23-73 44-88 (327)
145 COG4096 HsdR Type I site-speci 96.1 0.014 3E-07 71.4 8.0 77 24-102 162-240 (875)
146 PRK12899 secA preprotein trans 96.1 0.067 1.5E-06 67.2 14.1 70 24-100 89-158 (970)
147 PRK13894 conjugal transfer ATP 96.1 0.012 2.6E-07 66.6 7.1 55 26-86 131-187 (319)
148 cd01394 radB RadB. The archaea 96.0 0.0077 1.7E-07 64.5 5.2 38 47-84 17-54 (218)
149 PF05496 RuvB_N: Holliday junc 96.0 0.0038 8.3E-08 66.0 2.7 24 49-72 50-73 (233)
150 TIGR02237 recomb_radB DNA repa 96.0 0.0081 1.8E-07 63.9 5.3 40 48-87 11-50 (209)
151 PRK14701 reverse gyrase; Provi 96.0 0.017 3.7E-07 77.9 9.2 72 24-102 76-147 (1638)
152 PRK10867 signal recognition pa 96.0 0.0075 1.6E-07 70.8 5.3 38 48-85 99-137 (433)
153 TIGR02782 TrbB_P P-type conjug 96.0 0.015 3.2E-07 65.5 7.4 53 26-84 115-169 (299)
154 PRK00771 signal recognition pa 96.0 0.0081 1.7E-07 70.7 5.4 60 26-85 62-131 (437)
155 COG1111 MPH1 ERCC4-like helica 96.0 0.055 1.2E-06 62.9 11.8 67 27-101 15-82 (542)
156 TIGR01425 SRP54_euk signal rec 96.0 0.0087 1.9E-07 69.9 5.5 38 48-85 99-136 (429)
157 PF07728 AAA_5: AAA domain (dy 96.0 0.0083 1.8E-07 59.2 4.7 28 52-82 2-29 (139)
158 PRK00440 rfc replication facto 96.0 0.017 3.6E-07 65.5 7.8 62 13-78 4-67 (319)
159 TIGR02881 spore_V_K stage V sp 95.9 0.0069 1.5E-07 66.9 4.4 29 49-77 42-70 (261)
160 COG1110 Reverse gyrase [DNA re 95.9 0.017 3.8E-07 71.7 8.0 78 19-103 74-151 (1187)
161 TIGR02655 circ_KaiC circadian 95.9 0.0092 2E-07 71.9 5.7 52 47-99 261-312 (484)
162 PF03215 Rad17: Rad17 cell cyc 95.9 0.0086 1.9E-07 72.0 5.4 62 12-73 5-69 (519)
163 COG2805 PilT Tfp pilus assembl 95.9 0.0087 1.9E-07 65.2 4.8 38 45-82 121-159 (353)
164 TIGR02640 gas_vesic_GvpN gas v 95.9 0.017 3.6E-07 63.9 7.3 51 28-84 3-53 (262)
165 PF00308 Bac_DnaA: Bacterial d 95.9 0.028 6.1E-07 60.3 8.7 35 50-84 35-71 (219)
166 PF03308 ArgK: ArgK protein; 95.9 0.018 3.8E-07 62.2 6.9 38 47-84 27-64 (266)
167 cd00984 DnaB_C DnaB helicase C 95.9 0.016 3.4E-07 63.1 6.7 50 48-98 12-62 (242)
168 TIGR02538 type_IV_pilB type IV 95.9 0.014 3E-07 71.6 6.8 54 24-82 296-349 (564)
169 TIGR03881 KaiC_arch_4 KaiC dom 95.9 0.014 2.9E-07 63.1 6.1 49 47-96 18-66 (229)
170 PRK06645 DNA polymerase III su 95.8 0.0081 1.8E-07 72.0 4.7 65 10-75 5-69 (507)
171 PRK14962 DNA polymerase III su 95.8 0.0095 2.1E-07 71.1 5.3 29 47-75 34-62 (472)
172 PRK14088 dnaA chromosomal repl 95.8 0.015 3.1E-07 69.2 6.8 57 29-85 110-168 (440)
173 COG0552 FtsY Signal recognitio 95.8 0.011 2.3E-07 65.9 5.1 39 47-85 137-175 (340)
174 PRK04195 replication factor C 95.8 0.038 8.3E-07 66.6 10.2 56 27-85 17-72 (482)
175 TIGR00348 hsdR type I site-spe 95.8 0.024 5.1E-07 71.0 8.7 73 28-100 239-316 (667)
176 TIGR00362 DnaA chromosomal rep 95.8 0.016 3.4E-07 68.4 6.8 56 30-85 116-174 (405)
177 TIGR01073 pcrA ATP-dependent D 95.8 0.014 3E-07 74.2 6.6 35 873-907 4-39 (726)
178 TIGR03015 pepcterm_ATPase puta 95.8 0.018 3.9E-07 63.7 6.7 47 26-74 22-68 (269)
179 PRK04537 ATP-dependent RNA hel 95.7 0.03 6.4E-07 68.9 9.0 71 24-101 28-108 (572)
180 PRK14086 dnaA chromosomal repl 95.7 0.31 6.7E-06 59.4 17.2 36 50-85 315-352 (617)
181 TIGR01075 uvrD DNA helicase II 95.7 0.027 5.9E-07 71.3 8.8 69 873-972 4-73 (715)
182 TIGR03499 FlhF flagellar biosy 95.7 0.018 3.9E-07 64.3 6.4 40 48-87 193-234 (282)
183 TIGR02012 tigrfam_recA protein 95.7 0.019 4.1E-07 64.8 6.5 41 47-87 53-93 (321)
184 TIGR03158 cas3_cyano CRISPR-as 95.7 0.034 7.4E-07 64.3 8.8 63 32-102 2-64 (357)
185 PHA02653 RNA helicase NPH-II; 95.7 0.025 5.4E-07 70.2 8.1 64 31-101 168-246 (675)
186 PF13173 AAA_14: AAA domain 95.7 0.025 5.3E-07 55.2 6.5 46 48-94 1-46 (128)
187 cd01131 PilT Pilus retraction 95.7 0.013 2.8E-07 61.9 4.9 35 50-84 2-37 (198)
188 PRK00149 dnaA chromosomal repl 95.6 0.022 4.8E-07 68.1 7.3 56 30-85 128-186 (450)
189 PF06309 Torsin: Torsin; Inte 95.6 0.045 9.7E-07 52.8 7.8 73 32-104 30-116 (127)
190 PRK13767 ATP-dependent helicas 95.6 0.034 7.3E-07 71.8 9.3 71 25-102 30-109 (876)
191 PHA00729 NTP-binding motif con 95.6 0.014 3E-07 62.3 4.8 25 50-74 18-42 (226)
192 PF13207 AAA_17: AAA domain; P 95.6 0.011 2.3E-07 56.8 3.7 23 51-73 1-23 (121)
193 KOG0743 AAA+-type ATPase [Post 95.6 0.0063 1.4E-07 69.9 2.3 70 26-98 203-281 (457)
194 PRK14956 DNA polymerase III su 95.6 0.021 4.6E-07 67.4 6.6 62 13-75 5-66 (484)
195 TIGR00959 ffh signal recogniti 95.6 0.015 3.3E-07 68.3 5.4 38 49-86 99-137 (428)
196 PRK14961 DNA polymerase III su 95.6 0.015 3.3E-07 67.4 5.3 44 31-74 20-63 (363)
197 PRK13768 GTPase; Provisional 95.5 0.015 3.2E-07 63.9 5.0 35 50-84 3-37 (253)
198 PRK11889 flhF flagellar biosyn 95.5 0.022 4.7E-07 65.4 6.3 47 48-94 240-289 (436)
199 PRK14722 flhF flagellar biosyn 95.5 0.019 4.1E-07 66.1 5.9 39 47-85 135-175 (374)
200 PRK12422 chromosomal replicati 95.5 0.021 4.7E-07 67.7 6.6 36 50-85 142-177 (445)
201 PRK12402 replication factor C 95.5 0.019 4.1E-07 65.7 6.0 58 15-76 4-63 (337)
202 TIGR02880 cbbX_cfxQ probable R 95.5 0.012 2.7E-07 65.7 4.2 28 51-78 60-87 (284)
203 CHL00181 cbbX CbbX; Provisiona 95.5 0.014 3E-07 65.3 4.5 35 50-84 60-98 (287)
204 cd01983 Fer4_NifH The Fer4_Nif 95.5 0.02 4.4E-07 51.9 4.9 33 52-84 2-34 (99)
205 TIGR01587 cas3_core CRISPR-ass 95.5 0.027 5.8E-07 65.2 7.0 50 52-101 2-53 (358)
206 PRK11823 DNA repair protein Ra 95.5 0.022 4.7E-07 67.7 6.3 50 47-97 78-127 (446)
207 cd00544 CobU Adenosylcobinamid 95.4 0.02 4.4E-07 58.8 5.2 50 51-103 1-50 (169)
208 PRK13342 recombination factor 95.4 0.028 6.1E-07 66.4 7.2 47 48-97 35-81 (413)
209 cd01130 VirB11-like_ATPase Typ 95.4 0.024 5.3E-07 59.1 6.0 52 25-83 7-58 (186)
210 PRK14964 DNA polymerase III su 95.4 0.064 1.4E-06 64.0 10.1 29 46-74 32-60 (491)
211 PTZ00112 origin recognition co 95.4 0.021 4.7E-07 70.6 6.1 48 27-74 758-806 (1164)
212 PRK01297 ATP-dependent RNA hel 95.4 0.046 1E-06 65.9 9.1 70 25-101 107-186 (475)
213 PRK06851 hypothetical protein; 95.4 0.018 4E-07 66.0 5.3 43 49-91 214-258 (367)
214 cd00983 recA RecA is a bacter 95.4 0.027 5.9E-07 63.6 6.4 41 48-88 54-94 (325)
215 TIGR02655 circ_KaiC circadian 95.4 0.021 4.5E-07 68.9 5.9 51 48-99 20-71 (484)
216 TIGR00595 priA primosomal prot 95.3 0.022 4.8E-07 68.8 6.0 49 53-101 1-49 (505)
217 COG1703 ArgK Putative periplas 95.3 0.039 8.4E-07 60.4 7.1 39 46-84 48-86 (323)
218 KOG0651 26S proteasome regulat 95.3 0.012 2.6E-07 64.2 3.3 35 47-84 164-198 (388)
219 TIGR00150 HI0065_YjeE ATPase, 95.3 0.035 7.6E-07 54.4 6.2 53 29-86 4-56 (133)
220 PRK09694 helicase Cas3; Provis 95.3 0.046 1E-06 69.6 8.8 72 25-103 284-357 (878)
221 cd01121 Sms Sms (bacterial rad 95.3 0.028 6E-07 65.1 6.3 50 47-97 80-129 (372)
222 COG1474 CDC6 Cdc6-related prot 95.3 0.026 5.7E-07 65.1 6.1 75 26-100 19-96 (366)
223 cd02019 NK Nucleoside/nucleoti 95.3 0.026 5.6E-07 48.7 4.6 31 52-84 2-32 (69)
224 PF02492 cobW: CobW/HypB/UreG, 95.3 0.022 4.8E-07 59.0 5.0 35 50-85 1-35 (178)
225 COG4098 comFA Superfamily II D 95.2 0.047 1E-06 60.3 7.4 75 25-102 95-169 (441)
226 PRK12724 flagellar biosynthesi 95.2 0.023 4.9E-07 66.0 5.2 39 49-87 223-262 (432)
227 PLN00206 DEAD-box ATP-dependen 95.2 0.053 1.1E-06 66.1 8.7 69 25-100 141-219 (518)
228 PF03266 NTPase_1: NTPase; In 95.2 0.019 4.1E-07 58.9 4.1 29 52-80 2-30 (168)
229 TIGR00750 lao LAO/AO transport 95.2 0.025 5.3E-07 63.9 5.4 38 47-84 32-69 (300)
230 PRK12323 DNA polymerase III su 95.2 0.069 1.5E-06 65.0 9.3 44 32-75 21-64 (700)
231 PRK05703 flhF flagellar biosyn 95.2 0.032 7E-07 65.8 6.5 37 49-85 221-259 (424)
232 PRK00889 adenylylsulfate kinas 95.2 0.03 6.4E-07 57.8 5.5 38 47-84 2-39 (175)
233 PRK12726 flagellar biosynthesi 95.2 0.026 5.7E-07 64.5 5.4 39 47-85 204-242 (407)
234 PRK05896 DNA polymerase III su 95.2 0.017 3.6E-07 70.1 4.0 62 14-76 4-65 (605)
235 PRK06696 uridine kinase; Valid 95.1 0.04 8.6E-07 59.3 6.6 39 46-84 19-57 (223)
236 TIGR00635 ruvB Holliday juncti 95.1 0.026 5.6E-07 63.8 5.4 25 49-73 30-54 (305)
237 PRK11773 uvrD DNA-dependent he 95.1 0.032 7E-07 70.7 6.8 69 873-972 9-78 (721)
238 PRK07667 uridine kinase; Provi 95.1 0.044 9.6E-07 57.6 6.8 42 47-88 15-56 (193)
239 PF00437 T2SE: Type II/IV secr 95.1 0.025 5.5E-07 62.7 5.2 36 49-84 127-162 (270)
240 PF13671 AAA_33: AAA domain; P 95.1 0.015 3.2E-07 57.5 3.0 23 51-73 1-23 (143)
241 TIGR02397 dnaX_nterm DNA polym 95.1 0.019 4.1E-07 66.3 4.3 60 15-75 3-62 (355)
242 PRK10919 ATP-dependent DNA hel 95.1 0.035 7.6E-07 69.6 6.9 68 873-971 2-70 (672)
243 PRK14963 DNA polymerase III su 95.1 0.027 6E-07 67.8 5.7 45 31-75 18-62 (504)
244 PF05729 NACHT: NACHT domain 95.1 0.021 4.5E-07 57.6 4.0 27 51-77 2-28 (166)
245 PRK00080 ruvB Holliday junctio 95.1 0.03 6.6E-07 64.0 5.7 46 28-73 29-75 (328)
246 PRK14957 DNA polymerase III su 95.1 0.025 5.5E-07 68.4 5.2 60 15-75 5-64 (546)
247 smart00763 AAA_PrkA PrkA AAA d 95.0 0.028 6E-07 64.0 5.1 51 25-75 53-104 (361)
248 PRK06620 hypothetical protein; 95.0 0.028 6.1E-07 60.1 4.8 43 28-70 20-65 (214)
249 PF03205 MobB: Molybdopterin g 95.0 0.034 7.5E-07 55.2 5.1 39 50-88 1-39 (140)
250 COG1618 Predicted nucleotide k 95.0 0.025 5.4E-07 56.4 4.0 29 52-80 8-36 (179)
251 PF07726 AAA_3: ATPase family 95.0 0.013 2.8E-07 56.6 2.0 22 52-73 2-23 (131)
252 PRK05541 adenylylsulfate kinas 95.0 0.039 8.4E-07 56.9 5.7 37 47-83 5-41 (176)
253 PRK09435 membrane ATPase/prote 94.9 0.032 6.9E-07 63.4 5.3 39 47-85 54-92 (332)
254 TIGR00614 recQ_fam ATP-depende 94.9 0.063 1.4E-06 64.6 8.2 63 26-98 10-72 (470)
255 TIGR01967 DEAH_box_HrpA ATP-de 94.9 0.055 1.2E-06 71.0 7.9 67 31-103 70-137 (1283)
256 PRK12723 flagellar biosynthesi 94.9 0.047 1E-06 63.4 6.6 38 48-85 173-214 (388)
257 cd03114 ArgK-like The function 94.9 0.034 7.3E-07 55.8 4.8 35 52-86 2-36 (148)
258 PF13245 AAA_19: Part of AAA d 94.9 0.097 2.1E-06 46.1 7.1 52 886-968 10-62 (76)
259 PRK14087 dnaA chromosomal repl 94.9 0.075 1.6E-06 63.3 8.5 56 30-85 121-179 (450)
260 PRK09302 circadian clock prote 94.9 0.04 8.7E-07 66.9 6.4 51 47-98 271-321 (509)
261 PRK09354 recA recombinase A; P 94.9 0.047 1E-06 62.2 6.4 41 48-88 59-99 (349)
262 PTZ00110 helicase; Provisional 94.9 0.083 1.8E-06 64.7 9.1 70 25-101 150-227 (545)
263 TIGR00176 mobB molybdopterin-g 94.8 0.035 7.6E-07 56.2 4.8 35 52-86 2-36 (155)
264 TIGR01420 pilT_fam pilus retra 94.8 0.029 6.2E-07 64.5 4.5 36 48-83 121-157 (343)
265 TIGR00416 sms DNA repair prote 94.7 0.047 1E-06 65.0 6.3 50 47-97 92-141 (454)
266 PRK05800 cobU adenosylcobinami 94.7 0.037 7.9E-07 56.9 4.7 50 51-103 3-52 (170)
267 PF00910 RNA_helicase: RNA hel 94.7 0.026 5.7E-07 53.2 3.4 23 53-75 2-24 (107)
268 smart00487 DEXDc DEAD-like hel 94.7 0.096 2.1E-06 53.9 7.9 70 870-972 5-78 (201)
269 KOG1533 Predicted GTPase [Gene 94.6 0.025 5.4E-07 59.4 3.1 38 52-89 5-44 (290)
270 COG1702 PhoH Phosphate starvat 94.6 0.038 8.2E-07 61.7 4.7 58 24-91 125-184 (348)
271 PF13238 AAA_18: AAA domain; P 94.6 0.028 6E-07 54.2 3.3 21 53-73 2-22 (129)
272 TIGR02525 plasmid_TraJ plasmid 94.6 0.064 1.4E-06 62.0 6.7 35 49-83 149-185 (372)
273 PRK14951 DNA polymerase III su 94.6 0.026 5.7E-07 69.1 3.7 62 13-75 3-64 (618)
274 PRK13341 recombination factor 94.6 0.065 1.4E-06 67.2 7.2 25 49-73 52-76 (725)
275 cd01125 repA Hexameric Replica 94.6 0.066 1.4E-06 58.3 6.5 52 50-102 2-65 (239)
276 COG4088 Predicted nucleotide k 94.6 0.031 6.6E-07 57.8 3.5 35 50-84 2-36 (261)
277 PRK14958 DNA polymerase III su 94.5 0.066 1.4E-06 64.6 7.0 61 14-75 4-64 (509)
278 PRK07764 DNA polymerase III su 94.5 1.3 2.9E-05 56.4 18.8 30 46-75 34-63 (824)
279 cd01393 recA_like RecA is a b 94.5 0.046 1E-06 58.8 5.2 41 47-87 17-63 (226)
280 COG0593 DnaA ATPase involved i 94.5 0.92 2E-05 52.8 15.8 40 48-87 112-153 (408)
281 PF03029 ATP_bind_1: Conserved 94.5 0.03 6.5E-07 60.8 3.6 30 54-83 1-30 (238)
282 PRK13531 regulatory ATPase Rav 94.5 0.039 8.4E-07 65.1 4.7 41 32-75 25-65 (498)
283 PRK01172 ski2-like helicase; P 94.5 0.11 2.3E-06 65.6 9.0 67 871-972 20-89 (674)
284 PF13555 AAA_29: P-loop contai 94.5 0.04 8.7E-07 46.3 3.5 28 50-77 24-51 (62)
285 PRK14955 DNA polymerase III su 94.5 0.045 9.8E-07 64.3 5.2 44 32-75 21-64 (397)
286 TIGR01407 dinG_rel DnaQ family 94.5 0.12 2.7E-06 66.7 9.6 76 24-102 242-317 (850)
287 PRK14970 DNA polymerase III su 94.4 0.029 6.4E-07 65.1 3.6 60 15-75 6-65 (367)
288 KOG0354 DEAD-box like helicase 94.4 0.11 2.3E-06 63.9 8.2 80 13-100 48-129 (746)
289 PRK07133 DNA polymerase III su 94.4 0.17 3.7E-06 62.8 10.0 61 14-75 6-66 (725)
290 PRK03992 proteasome-activating 94.4 0.055 1.2E-06 63.3 5.6 44 30-73 137-189 (389)
291 PRK11057 ATP-dependent DNA hel 94.3 0.1 2.2E-06 64.8 8.1 64 26-99 24-87 (607)
292 PHA02244 ATPase-like protein 94.3 0.049 1.1E-06 62.1 4.9 32 49-83 119-150 (383)
293 PLN00020 ribulose bisphosphate 94.3 0.034 7.4E-07 63.0 3.5 35 47-84 146-180 (413)
294 PRK11331 5-methylcytosine-spec 94.3 0.058 1.3E-06 63.1 5.5 41 28-74 179-219 (459)
295 PRK11054 helD DNA helicase IV; 94.3 0.078 1.7E-06 66.2 7.0 69 871-970 194-263 (684)
296 PRK09302 circadian clock prote 94.3 0.066 1.4E-06 65.1 6.3 52 47-99 29-81 (509)
297 PRK14960 DNA polymerase III su 94.2 0.051 1.1E-06 66.2 5.1 44 32-75 20-63 (702)
298 PRK07003 DNA polymerase III su 94.2 0.2 4.3E-06 62.0 10.0 44 32-75 21-64 (830)
299 PF01078 Mg_chelatase: Magnesi 94.2 0.046 9.9E-07 57.5 4.0 37 30-72 9-45 (206)
300 PRK13766 Hef nuclease; Provisi 94.2 0.16 3.4E-06 65.3 9.8 70 24-101 12-82 (773)
301 PRK13764 ATPase; Provisional 94.2 0.052 1.1E-06 66.1 5.0 34 49-82 257-290 (602)
302 PRK14953 DNA polymerase III su 94.2 0.045 9.7E-07 65.7 4.4 60 14-74 4-63 (486)
303 TIGR00643 recG ATP-dependent D 94.2 0.087 1.9E-06 65.7 7.1 68 869-971 231-307 (630)
304 PLN02200 adenylate kinase fami 94.1 0.052 1.1E-06 58.9 4.4 49 23-73 4-67 (234)
305 PF05127 Helicase_RecD: Helica 94.1 0.014 3.1E-07 59.9 0.1 48 53-100 1-49 (177)
306 COG1643 HrpA HrpA-like helicas 94.1 0.17 3.7E-06 63.9 9.4 67 31-103 53-120 (845)
307 TIGR03817 DECH_helic helicase/ 94.1 0.15 3.2E-06 64.7 9.1 69 25-100 34-104 (742)
308 cd02028 UMPK_like Uridine mono 94.1 0.064 1.4E-06 55.6 4.9 34 51-84 1-34 (179)
309 PF00270 DEAD: DEAD/DEAH box h 94.1 0.16 3.4E-06 51.5 7.7 66 875-973 1-69 (169)
310 PRK14949 DNA polymerase III su 94.1 0.052 1.1E-06 68.2 4.7 45 31-75 20-64 (944)
311 PRK06762 hypothetical protein; 94.0 0.09 1.9E-06 53.6 5.8 33 49-84 2-34 (166)
312 COG1200 RecG RecG-like helicas 94.0 0.1 2.2E-06 63.2 6.8 86 17-103 252-337 (677)
313 cd02034 CooC The accessory pro 94.0 0.081 1.8E-06 50.7 5.0 36 52-87 2-37 (116)
314 TIGR01242 26Sp45 26S proteasom 94.0 0.04 8.6E-07 64.0 3.4 44 30-73 128-180 (364)
315 PRK14965 DNA polymerase III su 93.9 0.22 4.8E-06 61.2 9.9 44 32-75 21-64 (576)
316 PRK09200 preprotein translocas 93.9 0.54 1.2E-05 59.3 13.3 67 27-102 78-144 (790)
317 PRK10751 molybdopterin-guanine 93.9 0.081 1.8E-06 54.3 5.1 40 49-88 6-45 (173)
318 TIGR01360 aden_kin_iso1 adenyl 93.9 0.047 1E-06 56.7 3.5 24 50-73 4-27 (188)
319 PF12846 AAA_10: AAA-like doma 93.9 0.071 1.5E-06 59.6 5.2 42 50-91 2-43 (304)
320 TIGR03574 selen_PSTK L-seryl-t 93.9 0.068 1.5E-06 58.6 4.9 34 51-84 1-34 (249)
321 TIGR01359 UMP_CMP_kin_fam UMP- 93.9 0.042 9.1E-07 57.0 3.1 23 51-73 1-23 (183)
322 PF13521 AAA_28: AAA domain; P 93.9 0.053 1.1E-06 55.2 3.7 21 52-72 2-22 (163)
323 TIGR02524 dot_icm_DotB Dot/Icm 93.9 0.06 1.3E-06 62.0 4.5 28 48-75 133-160 (358)
324 COG1102 Cmk Cytidylate kinase 93.9 0.045 9.8E-07 54.6 3.0 22 52-73 3-24 (179)
325 COG0714 MoxR-like ATPases [Gen 93.9 0.079 1.7E-06 60.6 5.5 58 29-93 29-86 (329)
326 PRK10917 ATP-dependent DNA hel 93.8 0.12 2.6E-06 65.0 7.5 69 869-972 257-334 (681)
327 PRK14969 DNA polymerase III su 93.8 0.067 1.5E-06 65.0 5.1 45 31-75 20-64 (527)
328 PRK08233 hypothetical protein; 93.8 0.046 9.9E-07 56.5 3.1 24 50-73 4-27 (182)
329 COG1223 Predicted ATPase (AAA+ 93.8 0.047 1E-06 58.2 3.1 41 31-71 125-173 (368)
330 COG5192 BMS1 GTP-binding prote 93.7 0.072 1.6E-06 61.8 4.8 26 50-75 70-95 (1077)
331 PRK07246 bifunctional ATP-depe 93.7 0.67 1.4E-05 59.5 14.0 70 25-102 243-316 (820)
332 cd02027 APSK Adenosine 5'-phos 93.7 0.088 1.9E-06 52.9 4.9 33 51-83 1-33 (149)
333 PRK13900 type IV secretion sys 93.7 0.1 2.2E-06 59.6 5.9 33 49-82 160-192 (332)
334 PRK05298 excinuclease ABC subu 93.7 0.21 4.6E-06 62.4 9.2 78 20-102 5-82 (652)
335 KOG2108 3'-5' DNA helicase [Re 93.7 0.062 1.3E-06 66.0 4.3 55 555-609 674-741 (853)
336 PRK12608 transcription termina 93.7 0.082 1.8E-06 60.5 5.1 49 50-98 134-186 (380)
337 cd00561 CobA_CobO_BtuR ATP:cor 93.6 0.11 2.4E-06 52.5 5.4 36 50-85 3-38 (159)
338 TIGR00041 DTMP_kinase thymidyl 93.6 0.093 2E-06 55.0 5.1 35 50-84 4-38 (195)
339 PRK10865 protein disaggregatio 93.6 0.13 2.7E-06 66.3 7.2 35 50-84 599-633 (857)
340 cd00550 ArsA_ATPase Oxyanion-t 93.6 0.081 1.8E-06 58.2 4.8 36 51-86 2-37 (254)
341 TIGR03689 pup_AAA proteasome A 93.6 0.052 1.1E-06 65.1 3.4 27 48-74 215-241 (512)
342 PRK13851 type IV secretion sys 93.6 0.11 2.3E-06 59.5 5.9 35 49-84 162-196 (344)
343 TIGR00963 secA preprotein tran 93.5 0.45 9.8E-06 59.1 11.5 49 53-101 73-121 (745)
344 PRK14952 DNA polymerase III su 93.5 0.08 1.7E-06 64.7 5.0 45 31-75 17-61 (584)
345 TIGR03600 phage_DnaB phage rep 93.5 0.13 2.8E-06 60.9 6.8 53 47-100 192-245 (421)
346 PF13604 AAA_30: AAA domain; P 93.5 0.06 1.3E-06 56.8 3.4 61 873-968 1-66 (196)
347 COG1204 Superfamily II helicas 93.5 0.15 3.3E-06 64.3 7.5 67 26-98 30-97 (766)
348 PF00931 NB-ARC: NB-ARC domain 93.5 0.15 3.3E-06 56.8 6.9 70 30-101 2-74 (287)
349 cd01123 Rad51_DMC1_radA Rad51_ 93.5 0.075 1.6E-06 57.5 4.2 41 47-87 17-63 (235)
350 TIGR00708 cobA cob(I)alamin ad 93.4 0.12 2.6E-06 53.0 5.3 37 49-85 5-41 (173)
351 PF04665 Pox_A32: Poxvirus A32 93.4 0.08 1.7E-06 57.2 4.3 35 51-85 15-49 (241)
352 COG0378 HypB Ni2+-binding GTPa 93.4 0.076 1.7E-06 54.8 3.9 34 51-85 15-48 (202)
353 PRK14712 conjugal transfer nic 93.4 0.2 4.4E-06 67.1 8.7 67 25-96 279-346 (1623)
354 cd02025 PanK Pantothenate kina 93.4 0.093 2E-06 56.4 4.7 36 52-87 2-39 (220)
355 PTZ00454 26S protease regulato 93.4 0.06 1.3E-06 63.0 3.5 25 48-72 178-202 (398)
356 cd00046 DEXDc DEAD-like helica 93.4 0.2 4.2E-06 48.2 6.7 54 887-973 2-55 (144)
357 PRK00131 aroK shikimate kinase 93.4 0.075 1.6E-06 54.3 3.9 25 49-73 4-28 (175)
358 PTZ00361 26 proteosome regulat 93.4 0.065 1.4E-06 63.3 3.8 26 48-73 216-241 (438)
359 TIGR03117 cas_csf4 CRISPR-asso 93.3 0.27 5.9E-06 60.5 9.1 67 32-101 2-70 (636)
360 COG1936 Predicted nucleotide k 93.3 0.058 1.3E-06 54.6 2.8 20 51-70 2-21 (180)
361 PF06068 TIP49: TIP49 C-termin 93.3 0.11 2.3E-06 59.0 5.1 43 31-73 31-74 (398)
362 PF13086 AAA_11: AAA domain; P 93.3 0.062 1.3E-06 57.5 3.3 33 873-905 1-37 (236)
363 KOG0952 DNA/RNA helicase MER3/ 93.3 0.17 3.6E-06 63.4 7.1 71 26-102 109-189 (1230)
364 cd02023 UMPK Uridine monophosp 93.3 0.096 2.1E-06 55.1 4.5 33 51-85 1-33 (198)
365 PRK03846 adenylylsulfate kinas 93.2 0.13 2.8E-06 54.2 5.5 49 27-83 10-58 (198)
366 PRK13104 secA preprotein trans 93.2 0.49 1.1E-05 59.8 11.2 49 52-100 98-146 (896)
367 PRK05480 uridine/cytidine kina 93.2 0.11 2.5E-06 55.1 5.1 35 48-84 5-39 (209)
368 COG3911 Predicted ATPase [Gene 93.2 0.073 1.6E-06 52.2 3.1 34 49-86 9-42 (183)
369 PRK04040 adenylate kinase; Pro 93.2 0.075 1.6E-06 55.6 3.5 24 50-73 3-26 (188)
370 COG1222 RPT1 ATP-dependent 26S 93.2 0.066 1.4E-06 59.9 3.2 26 47-72 183-208 (406)
371 COG1199 DinG Rad3-related DNA 93.2 0.28 6.1E-06 61.6 9.3 74 24-100 12-86 (654)
372 PHA02624 large T antigen; Prov 93.2 0.1 2.3E-06 62.7 5.0 39 47-87 429-467 (647)
373 cd02021 GntK Gluconate kinase 93.2 0.064 1.4E-06 53.7 2.9 22 51-72 1-22 (150)
374 TIGR02621 cas3_GSU0051 CRISPR- 93.1 0.12 2.6E-06 65.1 5.8 78 20-103 8-88 (844)
375 cd02035 ArsA ArsA ATPase funct 93.1 0.11 2.3E-06 55.7 4.8 35 51-85 1-35 (217)
376 TIGR00665 DnaB replicative DNA 93.1 0.16 3.4E-06 60.5 6.7 53 47-100 193-246 (434)
377 TIGR02688 conserved hypothetic 93.1 0.13 2.7E-06 59.7 5.5 30 48-77 208-238 (449)
378 TIGR00390 hslU ATP-dependent p 93.1 0.12 2.5E-06 60.0 5.2 25 49-73 47-71 (441)
379 PRK14493 putative bifunctional 93.1 0.12 2.5E-06 57.4 5.1 35 50-85 2-36 (274)
380 PRK08074 bifunctional ATP-depe 93.1 0.26 5.7E-06 64.1 9.0 67 25-97 255-325 (928)
381 PRK05986 cob(I)alamin adenolsy 93.1 0.14 3.1E-06 53.2 5.3 37 49-85 22-58 (191)
382 PRK11131 ATP-dependent RNA hel 93.1 0.23 4.9E-06 65.3 8.3 66 31-103 77-144 (1294)
383 PRK13407 bchI magnesium chelat 93.1 0.1 2.3E-06 59.4 4.7 40 32-73 13-53 (334)
384 PTZ00202 tuzin; Provisional 93.0 0.27 5.8E-06 57.1 7.8 74 22-101 260-333 (550)
385 PRK14527 adenylate kinase; Pro 93.0 0.086 1.9E-06 55.2 3.8 26 48-73 5-30 (191)
386 PF01583 APS_kinase: Adenylyls 93.0 0.15 3.2E-06 51.5 5.2 34 50-83 3-36 (156)
387 TIGR00455 apsK adenylylsulfate 93.0 0.16 3.5E-06 52.8 5.7 38 47-84 16-53 (184)
388 PRK14954 DNA polymerase III su 93.0 0.11 2.4E-06 63.9 5.2 44 32-75 21-64 (620)
389 CHL00176 ftsH cell division pr 93.0 0.13 2.9E-06 63.6 5.8 35 49-86 216-250 (638)
390 KOG0328 Predicted ATP-dependen 93.0 0.22 4.7E-06 53.7 6.5 67 27-100 49-118 (400)
391 cd00268 DEADc DEAD-box helicas 93.0 0.7 1.5E-05 48.5 10.7 70 874-973 22-94 (203)
392 PRK08118 topology modulation p 93.0 0.079 1.7E-06 54.3 3.3 22 52-73 4-25 (167)
393 PRK05439 pantothenate kinase; 93.0 0.22 4.8E-06 56.0 7.0 39 47-85 84-124 (311)
394 PRK06305 DNA polymerase III su 93.0 0.12 2.6E-06 61.6 5.2 46 31-76 21-66 (451)
395 PF05707 Zot: Zonular occluden 92.9 0.09 1.9E-06 55.3 3.7 32 51-82 2-34 (193)
396 cd01672 TMPK Thymidine monopho 92.9 0.13 2.9E-06 53.6 5.1 34 51-84 2-35 (200)
397 PRK09519 recA DNA recombinatio 92.9 0.16 3.4E-06 63.7 6.2 48 47-94 58-105 (790)
398 TIGR02639 ClpA ATP-dependent C 92.9 0.26 5.6E-06 62.6 8.4 71 32-103 187-269 (731)
399 KOG3347 Predicted nucleotide k 92.9 0.08 1.7E-06 52.1 2.9 24 49-72 7-30 (176)
400 PRK06647 DNA polymerase III su 92.9 0.11 2.4E-06 63.4 5.0 44 32-75 21-64 (563)
401 TIGR00580 mfd transcription-re 92.9 0.22 4.8E-06 64.2 7.8 68 869-971 447-523 (926)
402 PRK07994 DNA polymerase III su 92.9 0.12 2.6E-06 63.7 5.1 44 32-75 21-64 (647)
403 KOG0741 AAA+-type ATPase [Post 92.9 0.088 1.9E-06 61.3 3.7 40 40-80 248-287 (744)
404 PRK04301 radA DNA repair and r 92.8 0.16 3.5E-06 57.8 5.9 38 48-85 101-144 (317)
405 PRK12727 flagellar biosynthesi 92.8 0.19 4.2E-06 59.9 6.6 37 48-84 349-387 (559)
406 TIGR01389 recQ ATP-dependent D 92.8 0.29 6.3E-06 60.7 8.6 64 26-99 12-75 (591)
407 PF13476 AAA_23: AAA domain; P 92.8 0.094 2E-06 54.7 3.7 27 49-75 19-45 (202)
408 COG0470 HolB ATPase involved i 92.8 0.16 3.6E-06 57.5 6.0 29 49-77 24-52 (325)
409 PRK06995 flhF flagellar biosyn 92.8 0.14 2.9E-06 61.1 5.3 38 48-85 255-294 (484)
410 PRK11776 ATP-dependent RNA hel 92.8 0.29 6.3E-06 58.8 8.3 68 874-973 27-97 (460)
411 cd03116 MobB Molybdenum is an 92.8 0.16 3.4E-06 51.7 5.1 39 50-88 2-40 (159)
412 PRK09111 DNA polymerase III su 92.8 0.12 2.6E-06 63.5 4.9 63 13-76 11-73 (598)
413 PRK06547 hypothetical protein; 92.7 0.1 2.2E-06 53.8 3.7 27 46-72 12-38 (172)
414 COG1855 ATPase (PilT family) [ 92.7 0.17 3.8E-06 58.0 5.7 48 22-78 245-292 (604)
415 PRK09087 hypothetical protein; 92.7 0.093 2E-06 56.6 3.6 25 48-72 43-67 (226)
416 COG0556 UvrB Helicase subunit 92.7 0.21 4.6E-06 58.4 6.5 77 22-103 7-83 (663)
417 PRK03839 putative kinase; Prov 92.7 0.095 2.1E-06 54.3 3.5 22 52-73 3-24 (180)
418 TIGR00764 lon_rel lon-related 92.7 0.16 3.5E-06 62.7 6.0 63 32-97 23-86 (608)
419 TIGR00554 panK_bact pantothena 92.6 0.26 5.5E-06 55.1 6.9 39 47-85 60-100 (290)
420 TIGR02322 phosphon_PhnN phosph 92.6 0.11 2.5E-06 53.6 3.9 24 50-73 2-25 (179)
421 TIGR02236 recomb_radA DNA repa 92.6 0.13 2.8E-06 58.4 4.7 38 48-85 94-137 (310)
422 COG4889 Predicted helicase [Ge 92.6 0.33 7.1E-06 59.6 8.0 68 21-93 155-222 (1518)
423 COG2255 RuvB Holliday junction 92.6 0.21 4.6E-06 54.4 5.9 41 31-73 36-76 (332)
424 PF13207 AAA_17: AAA domain; P 92.6 0.073 1.6E-06 51.0 2.3 15 888-902 2-16 (121)
425 PF02374 ArsA_ATPase: Anion-tr 92.6 0.16 3.4E-06 57.4 5.3 37 50-86 2-38 (305)
426 PRK10689 transcription-repair 92.5 0.26 5.5E-06 65.1 7.8 68 868-970 595-671 (1147)
427 cd00227 CPT Chloramphenicol (C 92.5 0.11 2.5E-06 53.5 3.8 25 49-73 2-26 (175)
428 PHA02542 41 41 helicase; Provi 92.5 0.16 3.4E-06 60.8 5.4 52 47-99 188-239 (473)
429 PRK08058 DNA polymerase III su 92.5 0.47 1E-05 54.3 9.1 45 32-76 11-55 (329)
430 PRK05342 clpX ATP-dependent pr 92.5 0.16 3.6E-06 59.6 5.5 24 50-73 109-132 (412)
431 PRK14494 putative molybdopteri 92.5 0.15 3.2E-06 54.9 4.6 39 50-88 2-40 (229)
432 PF00485 PRK: Phosphoribulokin 92.5 0.15 3.2E-06 53.6 4.6 29 51-79 1-29 (194)
433 PF08433 KTI12: Chromatin asso 92.5 0.16 3.5E-06 56.2 5.0 35 50-84 2-36 (270)
434 PRK08691 DNA polymerase III su 92.5 0.15 3.2E-06 62.9 5.1 44 32-75 21-64 (709)
435 cd02117 NifH_like This family 92.4 0.18 3.8E-06 53.8 5.2 31 53-83 4-34 (212)
436 PRK14948 DNA polymerase III su 92.4 0.15 3.3E-06 63.0 5.3 45 31-75 20-64 (620)
437 PRK05563 DNA polymerase III su 92.4 0.25 5.4E-06 60.6 7.1 44 32-75 21-64 (559)
438 COG1201 Lhr Lhr-like helicases 92.4 0.24 5.2E-06 62.2 7.0 78 19-103 14-99 (814)
439 PRK08506 replicative DNA helic 92.4 0.23 4.9E-06 59.7 6.6 53 47-100 190-242 (472)
440 PF02399 Herpes_ori_bp: Origin 92.4 0.21 4.5E-06 61.9 6.3 55 46-100 46-101 (824)
441 PRK11192 ATP-dependent RNA hel 92.4 0.4 8.6E-06 57.1 8.7 73 873-973 23-98 (434)
442 PRK08154 anaerobic benzoate ca 92.4 0.21 4.4E-06 56.7 5.9 53 26-81 106-162 (309)
443 PTZ00424 helicase 45; Provisio 92.4 0.38 8.2E-06 56.5 8.4 83 851-972 35-120 (401)
444 PRK07940 DNA polymerase III su 92.4 0.16 3.4E-06 59.4 5.0 29 48-76 35-63 (394)
445 PRK08451 DNA polymerase III su 92.4 0.15 3.3E-06 61.4 5.1 44 32-75 19-62 (535)
446 PRK14530 adenylate kinase; Pro 92.3 0.12 2.5E-06 55.4 3.7 24 50-73 4-27 (215)
447 TIGR00678 holB DNA polymerase 92.3 0.17 3.8E-06 52.7 4.9 30 47-76 12-41 (188)
448 cd02037 MRP-like MRP (Multiple 92.3 0.17 3.6E-06 51.9 4.7 33 51-83 2-34 (169)
449 TIGR01241 FtsH_fam ATP-depende 92.3 0.1 2.2E-06 63.3 3.5 35 49-86 88-122 (495)
450 PRK05748 replicative DNA helic 92.3 0.21 4.5E-06 59.7 6.1 53 47-100 201-254 (448)
451 PRK04837 ATP-dependent RNA hel 92.3 0.27 5.8E-06 58.4 7.0 92 851-974 15-109 (423)
452 PRK14531 adenylate kinase; Pro 92.3 0.11 2.4E-06 54.0 3.3 23 51-73 4-26 (183)
453 TIGR03575 selen_PSTK_euk L-ser 92.2 0.15 3.4E-06 58.0 4.6 36 51-86 1-37 (340)
454 smart00382 AAA ATPases associa 92.2 0.088 1.9E-06 50.7 2.3 19 885-903 2-20 (148)
455 TIGR01313 therm_gnt_kin carboh 92.2 0.097 2.1E-06 53.2 2.7 21 53-73 2-22 (163)
456 PHA02774 E1; Provisional 92.2 0.15 3.2E-06 61.3 4.5 25 49-73 434-458 (613)
457 TIGR01618 phage_P_loop phage n 92.1 0.093 2E-06 56.1 2.6 21 49-69 12-32 (220)
458 PF00406 ADK: Adenylate kinase 92.1 0.11 2.4E-06 52.1 3.0 20 54-73 1-20 (151)
459 PTZ00301 uridine kinase; Provi 92.1 0.13 2.7E-06 54.9 3.6 26 50-75 4-29 (210)
460 TIGR03346 chaperone_ClpB ATP-d 92.1 0.18 3.9E-06 65.1 5.6 57 31-87 569-633 (852)
461 PRK07261 topology modulation p 92.1 0.12 2.5E-06 53.3 3.2 22 52-73 3-24 (171)
462 CHL00195 ycf46 Ycf46; Provisio 92.1 0.13 2.7E-06 61.8 3.9 33 49-84 259-291 (489)
463 PRK14959 DNA polymerase III su 92.1 0.11 2.4E-06 63.4 3.5 61 14-75 4-64 (624)
464 cd02020 CMPK Cytidine monophos 92.1 0.12 2.6E-06 51.1 3.3 23 51-73 1-23 (147)
465 cd01428 ADK Adenylate kinase ( 92.1 0.11 2.4E-06 54.2 3.1 21 52-72 2-22 (194)
466 PRK14950 DNA polymerase III su 92.0 0.17 3.6E-06 62.6 5.0 43 32-74 21-63 (585)
467 PRK00698 tmk thymidylate kinas 92.0 0.21 4.6E-06 52.6 5.2 35 49-83 3-37 (205)
468 PRK13765 ATP-dependent proteas 92.0 0.19 4.1E-06 62.0 5.4 59 31-92 35-94 (637)
469 PRK11034 clpA ATP-dependent Cl 92.0 0.23 5E-06 62.7 6.2 50 32-84 463-520 (758)
470 PRK06761 hypothetical protein; 92.0 0.14 3.1E-06 56.7 3.9 33 50-82 4-36 (282)
471 TIGR00602 rad24 checkpoint pro 91.9 0.23 5E-06 61.2 5.9 60 14-73 72-134 (637)
472 COG0464 SpoVK ATPases of the A 91.9 0.19 4.1E-06 60.9 5.3 44 28-71 250-298 (494)
473 COG1224 TIP49 DNA helicase TIP 91.9 0.13 2.8E-06 57.5 3.3 26 48-73 64-89 (450)
474 PF06414 Zeta_toxin: Zeta toxi 91.9 0.15 3.3E-06 53.7 3.9 27 48-74 14-40 (199)
475 PRK02496 adk adenylate kinase; 91.8 0.13 2.9E-06 53.4 3.3 22 52-73 4-25 (184)
476 PRK14532 adenylate kinase; Pro 91.8 0.12 2.6E-06 53.9 3.0 22 52-73 3-24 (188)
477 PRK09112 DNA polymerase III su 91.8 0.21 4.4E-06 57.6 5.0 46 31-76 27-72 (351)
478 PRK15453 phosphoribulokinase; 91.8 0.23 5E-06 54.8 5.1 37 48-84 4-40 (290)
479 PF01656 CbiA: CobQ/CobB/MinD/ 91.8 0.24 5.2E-06 51.5 5.2 35 51-85 1-35 (195)
480 TIGR00382 clpX endopeptidase C 91.7 0.22 4.8E-06 58.3 5.3 24 50-73 117-140 (413)
481 PRK14528 adenylate kinase; Pro 91.7 0.14 3.1E-06 53.4 3.3 23 51-73 3-25 (186)
482 KOG0738 AAA+-type ATPase [Post 91.7 0.12 2.6E-06 58.2 2.9 39 51-97 247-285 (491)
483 TIGR03345 VI_ClpV1 type VI sec 91.7 0.26 5.7E-06 63.3 6.4 54 31-84 570-631 (852)
484 TIGR00631 uvrb excinuclease AB 91.6 0.52 1.1E-05 58.8 8.7 76 22-102 4-79 (655)
485 COG3854 SpoIIIAA ncharacterize 91.6 0.22 4.7E-06 52.6 4.5 37 51-87 139-180 (308)
486 PRK13973 thymidylate kinase; P 91.6 0.37 8.1E-06 51.4 6.6 38 50-87 4-42 (213)
487 PF04665 Pox_A32: Poxvirus A32 91.6 0.12 2.6E-06 55.9 2.7 30 882-911 10-39 (241)
488 PHA03333 putative ATPase subun 91.6 0.74 1.6E-05 56.3 9.6 77 20-103 165-242 (752)
489 PHA03311 helicase-primase subu 91.6 0.2 4.2E-06 61.1 4.6 45 49-98 71-115 (828)
490 PRK07471 DNA polymerase III su 91.6 0.27 5.8E-06 57.0 5.7 47 31-77 23-69 (365)
491 PRK08760 replicative DNA helic 91.5 0.3 6.6E-06 58.6 6.3 54 46-100 226-280 (476)
492 PF13177 DNA_pol3_delta2: DNA 91.5 0.27 5.9E-06 50.1 5.1 46 32-77 2-47 (162)
493 CHL00095 clpC Clp protease ATP 91.5 0.43 9.3E-06 61.4 8.1 71 32-103 184-266 (821)
494 TIGR03346 chaperone_ClpB ATP-d 91.5 0.32 6.9E-06 62.8 6.9 52 32-84 178-236 (852)
495 PF13555 AAA_29: P-loop contai 91.5 0.12 2.7E-06 43.4 2.1 16 887-902 25-40 (62)
496 PLN00206 DEAD-box ATP-dependen 91.5 0.72 1.6E-05 56.2 9.7 91 851-973 128-221 (518)
497 TIGR00073 hypB hydrogenase acc 91.5 0.25 5.5E-06 52.5 5.0 37 47-84 20-56 (207)
498 cd02040 NifH NifH gene encodes 91.4 0.23 4.9E-06 55.0 4.8 33 50-83 3-35 (270)
499 PRK09165 replicative DNA helic 91.4 0.33 7.1E-06 58.7 6.5 53 47-100 215-282 (497)
500 PRK11747 dinG ATP-dependent DN 91.3 0.54 1.2E-05 59.3 8.5 78 25-103 23-104 (697)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=1.6e-75 Score=655.39 Aligned_cols=435 Identities=32% Similarity=0.449 Sum_probs=351.1
Q ss_pred cccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-CcEEEEcCCHHHHHHHHHH
Q 041971 18 ETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-FRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 18 ~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-~rILv~A~TN~AVd~v~~r 96 (1044)
..+..+....||.||..||.++++. +++|||||||||||.|.++++..|++.. .+||+|||+|.|||+++++
T Consensus 401 ~~~s~~~lpkLN~SQ~~AV~~VL~r-------plsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeK 473 (935)
T KOG1802|consen 401 RRFSVPNLPKLNASQSNAVKHVLQR-------PLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEK 473 (935)
T ss_pred hhhcCCCchhhchHHHHHHHHHHcC-------CceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHH
Confidence 3555667789999999999999997 9999999999999999999999999874 5999999999999999999
Q ss_pred HHHHHHHhhhhccccCCCCCCCcEEEecCCccccccchhhHHhHHHHHhhhhhccCCcccchhhHHhhHHHhhhhhhhch
Q 041971 97 VVKLVKESVERDCRDALFFPLGDILLLGNNERLKVDSGVEEIYLDYRVKRLADCFAPLTGWSHCFASMVDFLDNCVSLYH 176 (1044)
Q Consensus 97 L~~~~~~~~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~~~l~~r~~~l~~~~~~~~~w~~~l~s~i~~L~~~~~~y~ 176 (1044)
|.+.. .+|+|+-.+.|-.+..+...+.++..+.+... ..|+
T Consensus 474 Ih~tg----------------LKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~---------pELq-------------- 514 (935)
T KOG1802|consen 474 IHKTG----------------LKVVRLCAKSREDIESDVSFLSLHEQLRNMDK---------PELQ-------------- 514 (935)
T ss_pred HHhcC----------------ceEeeeehhhhhhccCCccHHHHHHHHhccCc---------HHHH--------------
Confidence 98652 26899888776544444444444443332111 0000
Q ss_pred hhhhhhhhhhhcccccchhhhhhcccccccccccchhhHHHHHHHHHHhhhhhhHHHhhhcccCCCcccccccHHHHHHH
Q 041971 177 TYIDNESMKQSEDINGDIIKEKECGKEADVSDVEIKPFLEFVRDRFKCIAAPLRSCIFNFCTRIPKCYIGKDNFHVMATL 256 (1044)
Q Consensus 177 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~l~~~lp~s~~~~~~~~~~~~l 256 (1044)
+.
T Consensus 515 --------~l---------------------------------------------------------------------- 516 (935)
T KOG1802|consen 515 --------KL---------------------------------------------------------------------- 516 (935)
T ss_pred --------HH----------------------------------------------------------------------
Confidence 00
Q ss_pred HHHHHHHHHhhhhcccchHHHHHHhccccccccchhhhhHHHHHHHhHhhHHHHHHHHHHHhhhcCCChhhhhHHHHHHH
Q 041971 257 ISLLDSFETLLFEDNLVSEELEELLSHSVDEGLSKSIVGIKYLLHKRRSECHFVLRKLQSSFNELNLPSAVEKDLLEDLL 336 (1044)
Q Consensus 257 ~~~l~~~~~ll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~l~~~~~~l~~~~~~~~~~~~~li 336 (1044)
.+...+ ... +.......-..+....
T Consensus 517 ------------------------~klkde-~ge------------------------------lS~sD~~k~~~lk~~~ 541 (935)
T KOG1802|consen 517 ------------------------LKLKDE-GGE------------------------------LSSSDEKKYRKLKRAA 541 (935)
T ss_pred ------------------------Hhhhhh-ccc------------------------------ccchhhHHHHHHHHHH
Confidence 000000 000 0000000000011114
Q ss_pred HHHhcccCcEEEEcCccchhhccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccc
Q 041971 337 KSFCLKRASLFLSTASSSYMLHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACF 416 (1044)
Q Consensus 337 ~~~~l~~a~vI~~T~ss~~~l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~ 416 (1044)
+..++..|+||+|||.+++...... ..|..|+||||.|++||++++|+.+ +++++||||||+||+|++..+.+..+||
T Consensus 542 e~ell~~AdVIccTcv~Agd~rl~~-~kfr~VLiDEaTQatEpe~LiPlvl-G~kq~VlVGDh~QLgpvi~~kK~a~Agl 619 (935)
T KOG1802|consen 542 EKELLNQADVICCTCVGAGDRRLSK-FKFRTVLIDEATQATEPECLIPLVL-GAKQLVLVGDHKQLGPVIMCKKAATAGL 619 (935)
T ss_pred HHHHHhhcCEEEEecccccchhhcc-ccccEEEEecccccCCcchhhhhhh-cceeEEEeccccccCceeeeHHHHHhHH
Confidence 5567889999999999887643332 5799999999999999999999998 8999999999999999999999999999
Q ss_pred cCcHHHHHHhcCCCccccccccccCccccccccccccCCcccccccccccchhhhccCCCC-CCCceEeecCCCcccc--
Q 041971 417 GRSLFERLSYLGYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPM-YGPYSFINVFGGREEF-- 493 (1044)
Q Consensus 417 ~~Slferl~~~~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~-~~~~~fi~v~~g~e~~-- 493 (1044)
.+||||||+..|..+++|.+||||||.|++||+..||+|.|.++.....+.......+.|. ..|+.|... .|.|+.
T Consensus 620 ~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~-~g~eeisa 698 (935)
T KOG1802|consen 620 SQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVC-YGQEEISA 698 (935)
T ss_pred HHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEe-ccceeeec
Confidence 9999999999999999999999999999999999999999999988887766655555443 336666666 777777
Q ss_pred cccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCC--CcEEEcccCCCCCCcccE
Q 041971 494 IEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAG--FAVKVMSIDGFQGGEEDL 571 (1044)
Q Consensus 494 ~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~--~~v~V~TVd~~QG~E~Di 571 (1044)
.|+|+.|..||..+.+++..|++.+. .+..|||||||.+|+..|-+.++........ ..|+|.|||.|||+|+|+
T Consensus 699 sGtSf~Nr~Ea~~~ekii~~l~~~gv---~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdf 775 (935)
T KOG1802|consen 699 SGTSFLNRTEAANCEKIITKLLKSGV---KPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDF 775 (935)
T ss_pred cccceecHHHHHHHHHHHHHHHHcCC---CHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccce
Confidence 88999999999999999999999875 5678999999999999999988653222211 258999999999999999
Q ss_pred EEEeecccCCCCcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecC
Q 041971 572 IIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNAD 638 (1044)
Q Consensus 572 VIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~ 638 (1044)
||+||||++...++||++|+||+||||||||++|+||||+..|.++ +.|.++|.|+++++|++..+
T Consensus 776 IIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~-~LW~~li~h~~eke~l~eg~ 841 (935)
T KOG1802|consen 776 IILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKH-PLWGHLITHYKEKEVLVEGP 841 (935)
T ss_pred EEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhhc-hHHHHHHHHhhcccceeecc
Confidence 9999999999889999999999999999999999999999999995 99999999999999998754
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=9.9e-71 Score=620.44 Aligned_cols=442 Identities=29% Similarity=0.423 Sum_probs=337.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
...+..||+||+.||..+++. ..+.+|+||||||||+|++.+|..++++|.+||||||||.||||+.+|+...-
T Consensus 180 ~~~~~~ln~SQk~Av~~~~~~------k~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~~~ 253 (649)
T KOG1803|consen 180 TFFNKNLNSSQKAAVSFAINN------KDLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTHLK 253 (649)
T ss_pred ccCCccccHHHHHHHHHHhcc------CCceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhcccc
Confidence 345778999999999998875 49999999999999999999999999999999999999999999999997221
Q ss_pred HHhhhhccccCCCCCCCcEEEecCCccccccchhhHHhHHHHHhhhhhccCCcccchhhHHhhHHHhhhhhhhchhhhhh
Q 041971 102 KESVERDCRDALFFPLGDILLLGNNERLKVDSGVEEIYLDYRVKRLADCFAPLTGWSHCFASMVDFLDNCVSLYHTYIDN 181 (1044)
Q Consensus 102 ~~~~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~~~l~~r~~~l~~~~~~~~~w~~~l~s~i~~L~~~~~~y~~~l~~ 181 (1044)
..++|+|++.|+- +...+.+++.....-.+...
T Consensus 254 ----------------~~l~R~g~paRl~--~~~~~~sld~~~~t~d~~~~----------------------------- 286 (649)
T KOG1803|consen 254 ----------------LNLVRVGHPARLL--ESVADHSLDLLSNTKDNSQN----------------------------- 286 (649)
T ss_pred ----------------cchhhcCchhhhh--hhhhhhHHHHHHhcCchhhh-----------------------------
Confidence 2689999998752 33333333322221000000
Q ss_pred hhhhhhcccccchhhhhhcccccccccccchhhHHHHHHHHHHhhhhhhHHHhhhcccCCCcccccccHHHHHHHHHHHH
Q 041971 182 ESMKQSEDINGDIIKEKECGKEADVSDVEIKPFLEFVRDRFKCIAAPLRSCIFNFCTRIPKCYIGKDNFHVMATLISLLD 261 (1044)
Q Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~l~~~lp~s~~~~~~~~~~~~l~~~l~ 261 (1044)
++ ..
T Consensus 287 ------------------------------------~~----~~------------------------------------ 290 (649)
T KOG1803|consen 287 ------------------------------------AK----DI------------------------------------ 290 (649)
T ss_pred ------------------------------------hh----hh------------------------------------
Confidence 00 00
Q ss_pred HHHHhhhhcccchHHHHHHhccccccccchhhhhHHHHHHHhHhhHHHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHhc
Q 041971 262 SFETLLFEDNLVSEELEELLSHSVDEGLSKSIVGIKYLLHKRRSECHFVLRKLQSSFNELNLPSAVEKDLLEDLLKSFCL 341 (1044)
Q Consensus 262 ~~~~ll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~l~~~~~~l~~~~~~~~~~~~~li~~~~l 341 (1044)
.+.+...+...... .....+...+..++.++..+++.+ ...-..++
T Consensus 291 ------------sk~~d~~~~~~~~t-----------k~~~~~~~~~~~i~~lrkdl~kre-----------~~~v~eii 336 (649)
T KOG1803|consen 291 ------------SKDIDILFQKNTKT-----------KNDKLRKGIRKEIKLLRKDLRKRE-----------RKTVKEII 336 (649)
T ss_pred ------------HHHHHHHhhhhhcc-----------cchHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHhh
Confidence 00000000000000 001123333444444443332211 11334568
Q ss_pred ccCcEEEEcCccchhhccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccccCcHH
Q 041971 342 KRASLFLSTASSSYMLHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACFGRSLF 421 (1044)
Q Consensus 342 ~~a~vI~~T~ss~~~l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slf 421 (1044)
.+++|+|+|..++.... .....||+||||||+|+.||++++|+.- .+++||+|||+||||++.+..+...|++.|+|
T Consensus 337 ~n~~VVfaTl~ga~~~~-~~~~~fD~vIIDEaaQamE~~cWipvlk--~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~ 413 (649)
T KOG1803|consen 337 SNSRVVFATLGGALDRL-LRKRTFDLVIIDEAAQAMEPQCWIPVLK--GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLL 413 (649)
T ss_pred cccceEEEeccchhhhh-hcccCCCEEEEehhhhhccchhhhHHhc--CCceEEeCCcccCCcccccchhhhccchhhHH
Confidence 89999999988776522 2235699999999999999999999974 48999999999999999999999999999999
Q ss_pred HHHHhc--CCCccccccccccCccccccccccccCCcccccccccccchhhhcc---CCCCCCCceEeecCCCcccc---
Q 041971 422 ERLSYL--GYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFL---HGPMYGPYSFINVFGGREEF--- 493 (1044)
Q Consensus 422 erl~~~--~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~---~~~~~~~~~fi~v~~g~e~~--- 493 (1044)
+|+... +.-..+|++|||||..|+.|+|..||+|++..+..+..+....... ..+.+.|+.|+|+.+.....
T Consensus 414 erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~ 493 (649)
T KOG1803|consen 414 ERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRG 493 (649)
T ss_pred HHHHHHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhcc
Confidence 999875 4557899999999999999999999999999998888765432111 12246799999995422111
Q ss_pred ---cccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCccc
Q 041971 494 ---IEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEED 570 (1044)
Q Consensus 494 ---~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~D 570 (1044)
...|++|..||+.|+..+..|+..+. ++.+|||||||++|+.++++... .+..+++|+|||+|||+|+|
T Consensus 494 e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV---~p~dIaVIsPY~aQv~llR~~~~-----~~~~~veV~TVD~fQGrEkd 565 (649)
T KOG1803|consen 494 EEEELGSKYNEGEAKIVMEHVKRLLEAGV---QPSDIAVISPYNAQVSLLREEDE-----EDFRDVEVGTVDGFQGREKD 565 (649)
T ss_pred chhhccccCCHHHHHHHHHHHHHHHHcCC---ChhHeEEeccchHHHHHHhhccc-----ccCccceeecccccccceee
Confidence 33589999999999999999999875 67799999999999999993222 23446999999999999999
Q ss_pred EEEEeecccCCCCcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeec
Q 041971 571 LIIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNA 637 (1044)
Q Consensus 571 iVIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~ 637 (1044)
+||||+||+|+.+.+||+.+.||+|||+||||+++.||||..++..++....+++.+..+.+-++..
T Consensus 566 vVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p 632 (649)
T KOG1803|consen 566 VVIFSLVRSNDKGEVGFLGETRRLNVAITRARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGP 632 (649)
T ss_pred EEEEEEEeecCcccccccCCcceeeEEEEeccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccc
Confidence 9999999999999999999999999999999999999999999986668999999999998877643
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=3.6e-65 Score=617.67 Aligned_cols=469 Identities=30% Similarity=0.376 Sum_probs=330.6
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHHHh
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVKES 104 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~~~ 104 (1044)
...||++|++||..++.. .++.+|+||||||||+|++.++..++..|.+||+|||||.|||++++||.+..
T Consensus 155 ~~~ln~~Q~~Av~~~l~~------~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~~--- 225 (637)
T TIGR00376 155 DPNLNESQKEAVSFALSS------KDLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALCD--- 225 (637)
T ss_pred CCCCCHHHHHHHHHHhcC------CCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHhCC---
Confidence 368999999999998864 48999999999999999999999999999999999999999999999997531
Q ss_pred hhhccccCCCCCCCcEEEecCCccccccchhhHHhHHHHHhhhhhccCCcccchhhHHhhHHHhhhhhhhchhhhhhhhh
Q 041971 105 VERDCRDALFFPLGDILLLGNNERLKVDSGVEEIYLDYRVKRLADCFAPLTGWSHCFASMVDFLDNCVSLYHTYIDNESM 184 (1044)
Q Consensus 105 ~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~~~l~~r~~~l~~~~~~~~~w~~~l~s~i~~L~~~~~~y~~~l~~~~~ 184 (1044)
.+++|+|+..++ .+.+..+++++.+++.-.. .....++..+..+..........+
T Consensus 226 -------------~~vvRlg~~~r~--~~~~~~~sl~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~--------- 280 (637)
T TIGR00376 226 -------------QKIVRLGHPARL--LKSNKQHSLDYLIENHPKY-QIVADIREKIDELIEERNKKLKPS--------- 280 (637)
T ss_pred -------------CcEEEeCCchhc--chhHHhccHHHHHhcChhH-HHHHHHHHHHHHHHHHHHhhccch---------
Confidence 269999999874 4677777777766531100 000000000000000000000000
Q ss_pred hhhcccccchhhhhhcccccccccccchhhHHHHHHHHHHhhhhhhHHHhhhcccCCCcccccccHHHHHHHHHHHHHHH
Q 041971 185 KQSEDINGDIIKEKECGKEADVSDVEIKPFLEFVRDRFKCIAAPLRSCIFNFCTRIPKCYIGKDNFHVMATLISLLDSFE 264 (1044)
Q Consensus 185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~l~~~lp~s~~~~~~~~~~~~l~~~l~~~~ 264 (1044)
.. .....+-...+++.+. +. ....+....+..|..+
T Consensus 281 ---------~~------------~~~~~~~~~~l~~~~~-------~~--------~~~~i~~~~~~~~~~~-------- 316 (637)
T TIGR00376 281 ---------PQ------------KRRGLSDIKILRKALK-------KR--------EARGIESLKIASMAEW-------- 316 (637)
T ss_pred ---------Hh------------HhhccchHHHHHHHHh-------hh--------hhcccchhhhHHHHHH--------
Confidence 00 0000000000000000 00 0000000000000000
Q ss_pred HhhhhcccchHHHHHHhccccccccchhhhhHHHHHHHhHhhHHHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHhcccC
Q 041971 265 TLLFEDNLVSEELEELLSHSVDEGLSKSIVGIKYLLHKRRSECHFVLRKLQSSFNELNLPSAVEKDLLEDLLKSFCLKRA 344 (1044)
Q Consensus 265 ~ll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~l~~~~~~l~~~~~~~~~~~~~li~~~~l~~a 344 (1044)
..+...++.+...+. ..+..+...++..|
T Consensus 317 ----------------------------------------~~~~~~~~~~~~~~~-----------~~~~~~~~~il~~a 345 (637)
T TIGR00376 317 ----------------------------------------IETNKSIDRLLKLLP-----------EIEERIENEILAES 345 (637)
T ss_pred ----------------------------------------HHhhhhhHHHHHHHH-----------HHHHHHHHHHHhhC
Confidence 000000111100000 01122556688999
Q ss_pred cEEEEcCccchhhccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccccCcHHHHH
Q 041971 345 SLFLSTASSSYMLHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACFGRSLFERL 424 (1044)
Q Consensus 345 ~vI~~T~ss~~~l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl 424 (1044)
+++++|+.+. .+....||+||||||+|++||++++|+.. ++++||||||+||||++.+.. ..+++.|+|+||
T Consensus 346 ~v~~st~~~~----~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~--~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL 417 (637)
T TIGR00376 346 DVVQSTNSSA----GLKGWEFDVAVIDEASQAMEPSCLIPLLK--ARKLILAGDHKQLPPTILSHD--AEELELTLFERL 417 (637)
T ss_pred CEEEeccCcH----hhccCCCCEEEEECccccchHHHHHHHhh--CCeEEEecChhhcCCcccccc--ccccchhHHHHH
Confidence 9988886542 23446899999999999999999999974 479999999999999998754 457899999999
Q ss_pred Hhc-CCCccccccccccCccccccccccccCCcccccccccccchhhhccC--------CCCCCCceEeecCCCcc----
Q 041971 425 SYL-GYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLH--------GPMYGPYSFINVFGGRE---- 491 (1044)
Q Consensus 425 ~~~-~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~--------~~~~~~~~fi~v~~g~e---- 491 (1044)
... +...++|++||||||+|++|+|..||+|+|.+++.+..+.....+.. .....|+.|+|+.+...
T Consensus 418 ~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~ 497 (637)
T TIGR00376 418 IKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELK 497 (637)
T ss_pred HHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccccccc
Confidence 975 34478999999999999999999999999998876654422110000 01134899999954332
Q ss_pred cccccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCcccE
Q 041971 492 EFIEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEEDL 571 (1044)
Q Consensus 492 ~~~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~Di 571 (1044)
...++|+.|..||..|.+++..|++.+. +..+|||||||++|+.+|++.|... ..++.|.|||+|||+|+|+
T Consensus 498 ~~~~~S~~N~~EA~~V~~~v~~l~~~g~---~~~~IgVItPY~aQv~~L~~~l~~~-----~~~i~v~TVd~fQG~E~Dv 569 (637)
T TIGR00376 498 EADSTSKYNPGEAELVSEIIQALVKMGV---PANDIGVITPYDAQVDLLRQLLEHR-----HIDIEVSSVDGFQGREKEV 569 (637)
T ss_pred cCCCCCcCCHHHHHHHHHHHHHHHhcCC---CcceEEEEcccHHHHHHHHHHHHhh-----CCCeEEccccccCCccccE
Confidence 2356799999999999999999998654 5679999999999999999999653 2359999999999999999
Q ss_pred EEEeecccCCCCcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecCC
Q 041971 572 IIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNADD 639 (1044)
Q Consensus 572 VIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~~ 639 (1044)
||+|+||++..+.+||+.|++|+|||+||||++||||||..+|.++ +.|++|+++++++||+..++.
T Consensus 570 Ii~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~-~~~~~li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 570 IIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNH-KFYKRLIEWCKQHGEVREAFK 636 (637)
T ss_pred EEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccC-hHHHHHHHHHHHCCCEEcCCC
Confidence 9999999998888999999999999999999999999999999865 899999999999999977653
No 4
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=2.3e-56 Score=508.19 Aligned_cols=330 Identities=26% Similarity=0.367 Sum_probs=273.0
Q ss_pred HHHHHHHhcccCcEEEEcCccchhhcc-ccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccc-cc
Q 041971 333 EDLLKSFCLKRASLFLSTASSSYMLHS-VAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVES-KV 410 (1044)
Q Consensus 333 ~~li~~~~l~~a~vI~~T~ss~~~l~~-~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~-~~ 410 (1044)
+.....++++.|+||++|+.+++++.. +..-.+.+|||+||+.+.|+..+.++ .+.+.|+||||||+||+|.... ..
T Consensus 688 rn~~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal-~p~~EhviLIGDHKQLrP~~~vy~L 766 (1025)
T KOG1807|consen 688 RNVFDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAAL-TPHTEHVILIGDHKQLRPFSGVYKL 766 (1025)
T ss_pred HHHHHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhh-cccceeEEEecchhhcCCCcchhhH
Confidence 344678899999999999999887665 23345789999999999999955444 5677999999999999998653 56
Q ss_pred cccccccCcHHHHHHhcCCCccccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCc
Q 041971 411 SNEACFGRSLFERLSYLGYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGR 490 (1044)
Q Consensus 411 ~~~~~~~~Slferl~~~~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~ 490 (1044)
+..+++..|+||||+..|.|-.+|+.||||+|.|+++....||+ .|.+.+++.... ..+| |.....|+.+....
T Consensus 767 ~q~fnL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYd-dl~d~esvk~ye----dI~g-ms~nlfFv~hnspe 840 (1025)
T KOG1807|consen 767 PQIFNLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYD-DLLDSESVKEYE----DIRG-MSKNLFFVQHNSPE 840 (1025)
T ss_pred hHhcchhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhh-hhhcchhhcccc----cccc-ccceeeEEecCCcc
Confidence 67789999999999999999999999999999999999999996 466777766421 1233 24466677774555
Q ss_pred ccccccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCccc
Q 041971 491 EEFIEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEED 570 (1044)
Q Consensus 491 e~~~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~D 570 (1044)
+..++.|+.|..||.+++++++.|+++.. .+.+|.|+|+|.+|...|++.+.+.+.. .|.|.|||+|||.|+|
T Consensus 841 e~~de~S~~NlhEa~mlv~l~kyli~q~y---~psdIviLttY~gQk~ci~rllp~~~~s----tv~VatVDsfQGeEnd 913 (1025)
T KOG1807|consen 841 ECMDEMSIGNLHEAGMLVKLTKYLIQQQY---KPSDIVILTTYNGQKECIKRLLPQNYRS----TVQVATVDSFQGEEND 913 (1025)
T ss_pred cCcchhhhhhHHHHHHHHHHHHHHHhcCC---CccceEEEeechhHHHHHHHHhHHHhcC----cceEEEeccccCcccc
Confidence 66688999999999999999999999764 5679999999999999999999886553 4999999999999999
Q ss_pred EEEEeecccCCCCcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecCCChhHHHHHHHH
Q 041971 571 LIIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNADDDKDLGKAILAV 650 (1044)
Q Consensus 571 iVIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~~~~~~~~~~~~~ 650 (1044)
||++|+||+|.+|.+||+.-++|+|||+||||++|+||||...+..+.+.|+++++-.++.+.+-.+-...
T Consensus 914 IVLlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~lpl~--------- 984 (1025)
T KOG1807|consen 914 IVLLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEALPLI--------- 984 (1025)
T ss_pred EEEEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccccccccc---------
Confidence 99999999999999999999999999999999999999999999998899999999998876542221111
Q ss_pred HHhhHHhhhccCCCCcccccccceeecchhhhhhh
Q 041971 651 KKELDELDELLNPESRLFRSQRWKVNFSENFLKSF 685 (1044)
Q Consensus 651 ~~e~~~~~~~~~~~~~~~~~~~w~v~~s~~~~ks~ 685 (1044)
-.-........++.+..-++|+..+.-.|+|++-|
T Consensus 985 c~~h~~~~t~v~k~~~fqk~peggc~~pce~~~~c 1019 (1025)
T KOG1807|consen 985 CSTHKDGTTYVNKSKQFQKNPEGGCVDPCELLDVC 1019 (1025)
T ss_pred eeecCCceEEEchHHhhccCCCCCccchhHHhhhh
Confidence 01112234556677778899999999999988877
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.3e-57 Score=530.97 Aligned_cols=386 Identities=31% Similarity=0.420 Sum_probs=309.5
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHHHh
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVKES 104 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~~~ 104 (1044)
...||.-|+.|+..++.+ .+-.||.|-|||||||||+.+|..|+..|++||++|+||.||||++-||....-
T Consensus 667 ~~~LN~dQr~A~~k~L~a------edy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~~i-- 738 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAA------EDYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKGFGI-- 738 (1100)
T ss_pred HhhcCHHHHHHHHHHHhc------cchheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHHHHHHHhccCc--
Confidence 348999999999999997 588999999999999999999999999999999999999999999999985421
Q ss_pred hhhccccCCCCCCCcEEEecCCccccccchhhHHhHHHHHhhhhhccCCcccchhhHHhhHHHhhhhhhhchhhhhhhhh
Q 041971 105 VERDCRDALFFPLGDILLLGNNERLKVDSGVEEIYLDYRVKRLADCFAPLTGWSHCFASMVDFLDNCVSLYHTYIDNESM 184 (1044)
Q Consensus 105 ~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~~~l~~r~~~l~~~~~~~~~w~~~l~s~i~~L~~~~~~y~~~l~~~~~ 184 (1044)
.++|+|....+ +++++++.+.. +
T Consensus 739 --------------~~lRLG~~~ki--h~~v~e~~~~~--------------------------------~--------- 761 (1100)
T KOG1805|consen 739 --------------YILRLGSEEKI--HPDVEEFTLTN--------------------------------E--------- 761 (1100)
T ss_pred --------------ceeecCCcccc--chHHHHHhccc--------------------------------c---------
Confidence 38999998753 34443322200 0
Q ss_pred hhhcccccchhhhhhcccccccccccchhhHHHHHHHHHHhhhhhhHHHhhhcccCCCcccccccHHHHHHHHHHHHHHH
Q 041971 185 KQSEDINGDIIKEKECGKEADVSDVEIKPFLEFVRDRFKCIAAPLRSCIFNFCTRIPKCYIGKDNFHVMATLISLLDSFE 264 (1044)
Q Consensus 185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~l~~~lp~s~~~~~~~~~~~~l~~~l~~~~ 264 (1044)
. . +
T Consensus 762 ---------------------------------------------------------~------s---~----------- 764 (1100)
T KOG1805|consen 762 ---------------------------------------------------------T------S---E----------- 764 (1100)
T ss_pred ---------------------------------------------------------c------c---h-----------
Confidence 0 0 0
Q ss_pred HhhhhcccchHHHHHHhccccccccchhhhhHHHHHHHhHhhHHHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHhcccC
Q 041971 265 TLLFEDNLVSEELEELLSHSVDEGLSKSIVGIKYLLHKRRSECHFVLRKLQSSFNELNLPSAVEKDLLEDLLKSFCLKRA 344 (1044)
Q Consensus 265 ~ll~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~l~~~~~~l~~~~~~~~~~~~~li~~~~l~~a 344 (1044)
+.+ .+ + ...+...
T Consensus 765 -----------------------------------------------ks~------------------~~-l-~~~~~~~ 777 (1100)
T KOG1805|consen 765 -----------------------------------------------KSY------------------AD-L-KKFLDQT 777 (1100)
T ss_pred -----------------------------------------------hhH------------------HH-H-HHHhCCC
Confidence 000 00 0 0124566
Q ss_pred cEEEEcCccchhhccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccccCcHHHHH
Q 041971 345 SLFLSTASSSYMLHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACFGRSLFERL 424 (1044)
Q Consensus 345 ~vI~~T~ss~~~l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl 424 (1044)
.||+|||-+-..... ....||++|||||+|+..|-++.||.+. +++||||||.||||.|.+..++..|++.|||+||
T Consensus 778 ~IVa~TClgi~~plf-~~R~FD~cIiDEASQI~lP~~LgPL~~s--~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL 854 (1100)
T KOG1805|consen 778 SIVACTCLGINHPLF-VNRQFDYCIIDEASQILLPLCLGPLSFS--NKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRL 854 (1100)
T ss_pred cEEEEEccCCCchhh-hccccCEEEEccccccccchhhhhhhhc--ceEEEecccccCCccccchhhhhcCcchHHHHHH
Confidence 899999987653322 2346999999999999999999999864 9999999999999999999999999999999999
Q ss_pred Hhc-CCCccccccccccCccccccccccccCCcccccccccccch----------------h---hhccCCCCCCCceEe
Q 041971 425 SYL-GYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSY----------------E---KRFLHGPMYGPYSFI 484 (1044)
Q Consensus 425 ~~~-~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~----------------~---~~~~~~~~~~~~~fi 484 (1044)
... .-....|+.||||..+|+.++|.+||+|+|..+........ . ...+-.| ..++.|+
T Consensus 855 ~e~hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p-~~~v~f~ 933 (1100)
T KOG1805|consen 855 SEKHPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEP-TRDVCFV 933 (1100)
T ss_pred hhhCchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcC-CccceEE
Confidence 873 34567899999999999999999999999998765333100 0 1112234 4466776
Q ss_pred ecCC--Ccccc-cccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEccc
Q 041971 485 NVFG--GREEF-IEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSI 561 (1044)
Q Consensus 485 ~v~~--g~e~~-~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TV 561 (1044)
++.. +-++. ..+.-.|..||..|++++..++..|. +..+|||||||++|+.+|+..+... .++|.||
T Consensus 934 ~~D~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv---~~~dIGIis~YraQv~Li~~~l~~~-------~lEinTV 1003 (1100)
T KOG1805|consen 934 NTDTCSTIESQGEKGGITNHGEAKLISELVEDFVKSGV---KPSDIGIISPYRAQVELIRKILSSA-------VLEINTV 1003 (1100)
T ss_pred ecCcccchhhhccccCcCchhHHHHHHHHHHHHHHcCC---CHHHeeeeehHHHHHHHHHhhcccc-------ceeeeeh
Confidence 6643 22222 44556699999999999999999886 5679999999999999999999763 3899999
Q ss_pred CCCCCCcccEEEEeecccCCCCccc-ccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCce
Q 041971 562 DGFQGGEEDLIIISTVRSNNGGSIG-FLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCF 634 (1044)
Q Consensus 562 d~~QG~E~DiVIls~vrs~~~~~~g-fl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~ 634 (1044)
|+|||+++|+||+|+||++.....| .+.|.+|+|||+||||..||+||+..+|... +.+++|+++...+..+
T Consensus 1004 D~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~-~~~~~l~~~l~~~~~l 1076 (1100)
T KOG1805|consen 1004 DRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESY-PPFRQLLKLLENRIEL 1076 (1100)
T ss_pred hhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccC-chHHHHHhhhhhhhhH
Confidence 9999999999999999999876665 7889999999999999999999999999876 7899999988766544
No 6
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=7.7e-53 Score=521.06 Aligned_cols=580 Identities=32% Similarity=0.443 Sum_probs=449.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCC--cHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGT--GKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGT--GKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
......|+.+|..++..++....|.|...+.+||||||| |||.|...+...+....+++++|+++|.++..+..|+.+
T Consensus 221 ~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~r~~~ 300 (827)
T KOG1801|consen 221 VIRFTKLSRDQEPLIRGVLSQRNCEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGLDCQMLVCSLSNSNILLLTSRLYK 300 (827)
T ss_pred hhhhcccchhhHHHHhhccCccccccccceeeeeCCCCccccceeccchHHHHHHhcccceeEeeccccchhhhHHHHHh
Confidence 567889999999999999999999999999999999999 999999999999999999999999999999999999988
Q ss_pred HHH-HhhhhccccCCCCCCCcEEEecCCccccccc----hhhHHhHHHHHhhhhhccCCcccchhhHHhhHHHhhhhhhh
Q 041971 100 LVK-ESVERDCRDALFFPLGDILLLGNNERLKVDS----GVEEIYLDYRVKRLADCFAPLTGWSHCFASMVDFLDNCVSL 174 (1044)
Q Consensus 100 ~~~-~~~~~~g~~~~~~~~~~ivr~G~~~~~~i~~----~l~~~~l~~r~~~l~~~~~~~~~w~~~l~s~i~~L~~~~~~ 174 (1044)
... .+. ....+++++++..++..+|.... .+...+...+...+..++.+..+|...+.+++.++++...+
T Consensus 301 ~~~~~s~-----e~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 375 (827)
T KOG1801|consen 301 QTARFSS-----EKIVYGFGEIVLVENRTQLGIRLNKLISLPNSFGTIPTGSLSELSPPTGGIGSRLFSGEELLENNVPQ 375 (827)
T ss_pred ccccCCc-----hhhhhcccchhhhhhhHhhhhhhhhhcccccccccccccccchhhccccchhhhhHHHHHhhcCcHHH
Confidence 776 322 23467788888888888876533 23334445667788899999999999999999999999988
Q ss_pred chhhhhhhhhhhhcccccchhhhhhcccccccccccchhhHHHHHHHHHHhhhhhhHHHhhhcccCCCcccccccHHHHH
Q 041971 175 YHTYIDNESMKQSEDINGDIIKEKECGKEADVSDVEIKPFLEFVRDRFKCIAAPLRSCIFNFCTRIPKCYIGKDNFHVMA 254 (1044)
Q Consensus 175 y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~l~~~lp~s~~~~~~~~~~~ 254 (1044)
+..+.....+..... ...........+.++..+.+.............++.|+|+..+...+...+.
T Consensus 376 ~~~~~~~~~~~~~s~-------------~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~v~~ 442 (827)
T KOG1801|consen 376 SEKIVLMCLRMGFSL-------------IQLPVDNGRFLSREFAEENLRKLKPLPSIACIDLITHLPTLGLYDTNQVVRI 442 (827)
T ss_pred HHHHHHHHHhhchhh-------------hccchhhccccchhhHHhhhhhcccchhhhhhcchhcCccceEecCCeeEEe
Confidence 876655432222111 1111223344555566666655544456667778899999877665422221
Q ss_pred HHHHHHHHHHH--hhhhcccchHHHHHH-hccccccccchhhhhHHHHHHHhHhhHHHHHHHHHHHhhhcCCChhhhhHH
Q 041971 255 TLISLLDSFET--LLFEDNLVSEELEEL-LSHSVDEGLSKSIVGIKYLLHKRRSECHFVLRKLQSSFNELNLPSAVEKDL 331 (1044)
Q Consensus 255 ~l~~~l~~~~~--ll~~~~~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~l~~~~~~l~~~~~~~~~~ 331 (1044)
..-+.+..... .+.....-.+...+. +.... ....+...+....+ ....+.......
T Consensus 443 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----------------i~~~~~~~l~~~~~---~~~i~~~~~~~~ 502 (827)
T KOG1801|consen 443 GGGSVLNSGAIETVLEGDKIRKDKNKAIIERFNG-----------------LPKNIPKALSIKDD---IFKIPSQLERPE 502 (827)
T ss_pred cCCccceeceeeeeehhhhhhhHHhhhhhhcccc-----------------ccccchhhhccccc---hhhhhhhccchh
Confidence 11111000000 000000000000000 00000 00011111111000 011111111111
Q ss_pred HHHHHHHHhcc----cCcEEEEcCccchh-hccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccc
Q 041971 332 LEDLLKSFCLK----RASLFLSTASSSYM-LHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMV 406 (1044)
Q Consensus 332 ~~~li~~~~l~----~a~vI~~T~ss~~~-l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v 406 (1044)
...+++. .+.+|+||+++++. +......+++.++||||+|..|+..++||.+.+..|.+++||+.|||++|
T Consensus 503 ----~~~~~~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V 578 (827)
T KOG1801|consen 503 ----VRILDLGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATV 578 (827)
T ss_pred ----hhcchhhhccccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhh
Confidence 4445555 99999999998776 44445668999999999999999999999998889999999999999999
Q ss_pred cccccccccccCcHHHHHHhcCCCccccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeec
Q 041971 407 ESKVSNEACFGRSLFERLSYLGYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINV 486 (1044)
Q Consensus 407 ~~~~~~~~~~~~Slferl~~~~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v 486 (1044)
.+..+..+++.+|+|+|+...+.+.++|++||||||+|+.|+|..||++.|.+.+.+....+...++.++++++|.|+++
T Consensus 579 ~s~~~~~~k~~~slf~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v 658 (827)
T KOG1801|consen 579 HSSPAGCFKYMTSLFERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNV 658 (827)
T ss_pred ccchhccccchhhHHHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEe
Confidence 99999999999999999999999999999999999999999999999999999999998888888899999999999999
Q ss_pred CCCcccc-cccccccHHHHHHHHHHHHHHHHhhhcccC-CccEEEEcccHHHHHHHHHHhccccccCCC--CcEEEcccC
Q 041971 487 FGGREEF-IEHSCRNMVEVSVVMKILLNLYKAWIDSKE-KLSIGIVSPYSAQVVAIQEKLGSKYVNSAG--FAVKVMSID 562 (1044)
Q Consensus 487 ~~g~e~~-~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~-~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~--~~v~V~TVd 562 (1044)
..|.+.. .+.|..|.+|+.++..++..+++...+... +..||||+||+.|+..+++.++..+..... ..+.|.|||
T Consensus 659 ~~g~e~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD 738 (827)
T KOG1801|consen 659 HYGKERAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVD 738 (827)
T ss_pred cccccccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecc
Confidence 8898888 558999999999999999999988776555 779999999999999999999887764433 479999999
Q ss_pred CCCCCcccEEEEeecccCCCCcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecCCChh
Q 041971 563 GFQGGEEDLIIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNADDDKD 642 (1044)
Q Consensus 563 ~~QG~E~DiVIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~~~~~ 642 (1044)
+|||.|.||+|+|+||++..+++||+.+.+|+|||+||||.++|++||..+|...+..|..++.+++.++|++++..+..
T Consensus 739 ~fqg~e~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~~~~ 818 (827)
T KOG1801|consen 739 SFQGGERDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAADVN 818 (827)
T ss_pred cccCCCCceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhcccccccccccccc
Confidence 99999999999999999999999999999999999999999999999999999998899999999999999999876554
Q ss_pred H
Q 041971 643 L 643 (1044)
Q Consensus 643 ~ 643 (1044)
.
T Consensus 819 ~ 819 (827)
T KOG1801|consen 819 D 819 (827)
T ss_pred h
Confidence 3
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.2e-40 Score=419.44 Aligned_cols=291 Identities=35% Similarity=0.493 Sum_probs=242.2
Q ss_pred HHHHhcccCcEEEEcCccchhhccccCCCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCcccccccccccc
Q 041971 336 LKSFCLKRASLFLSTASSSYMLHSVAMEPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEAC 415 (1044)
Q Consensus 336 i~~~~l~~a~vI~~T~ss~~~l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~ 415 (1044)
....+...+++++||++.+..... ....||++|||||+|++++.+++|+.. ++++|++|||+||||++.+......+
T Consensus 461 ~~~~i~~~~~~~~~~~~~a~~~~~-~~~~fd~viiDEAsQ~~~~~~~~~l~~--~~~~il~GD~kQL~p~~~~~~~~~~~ 537 (767)
T COG1112 461 AVTKILEAADVVLSTLSIAGFSIL-KKYEFDYVIIDEASQATEPSALIALSR--AKKVILVGDHKQLPPTVFFKESSPEG 537 (767)
T ss_pred HHHHHHHhcCeEEEeccchhHHHh-cccccCEEEEcchhcccchhHHHhHhh--cCeEEEecCCccCCCeecchhhcccc
Confidence 334455556688888776543222 222699999999999999999999975 79999999999999999765456678
Q ss_pred ccCcHHHHHHhcCC-CccccccccccCccccccccccccCCcccccccccccchhhhccCCC-CCCCceEeecCCCcccc
Q 041971 416 FGRSLFERLSYLGY-SKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGP-MYGPYSFINVFGGREEF 493 (1044)
Q Consensus 416 ~~~Slferl~~~~~-~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~-~~~~~~fi~v~~g~e~~ 493 (1044)
+..|+|+++...+. ...+|+.||||||.|+.|+|..||++++..++............+.. ...|+.++++....+..
T Consensus 538 ~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (767)
T COG1112 538 LSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEEFF 617 (767)
T ss_pred hhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCccccc
Confidence 89999999998775 78999999999999999999999999999877655433211111111 14578889985544435
Q ss_pred cccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCcccEEE
Q 041971 494 IEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEEDLII 573 (1044)
Q Consensus 494 ~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~DiVI 573 (1044)
.+.+..|..||..+..++..+++.+. ...+|||||||++|+..|++.+.... .++.|+|||+|||+|+|+||
T Consensus 618 ~~~~~~n~~e~~~~~~~~~~~~~~~~---~~~~igvis~y~~q~~~i~~~~~~~~-----~~v~v~tvd~fQG~EkdvIi 689 (767)
T COG1112 618 ESKSKLNELEAEIVKVIVDELLKDGL---EENDIGVISPYRAQVSLIRRLLNEAG-----KGVEVGTVDGFQGREKDVII 689 (767)
T ss_pred CccceecHHHHHHHHHHHHHHHHcCC---cHHHcceecccHHHHHHHHHHHHhcC-----CceEEeeccccCCccCcEEE
Confidence 88899999999999999999998865 34459999999999999999997653 36999999999999999999
Q ss_pred EeecccCCC-CcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecC
Q 041971 574 ISTVRSNNG-GSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNAD 638 (1044)
Q Consensus 574 ls~vrs~~~-~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~ 638 (1044)
+|+||++.. +.+||+.++||+|||+||||++|||||+..++..+ +.|..++.+++..+++....
T Consensus 690 ~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~-~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 690 LSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESD-PLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhc-hhHHHHHHHHHhcCcEeecc
Confidence 999999988 79999999999999999999999999999999876 99999999999999986654
No 8
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=100.00 E-value=4.2e-36 Score=317.27 Aligned_cols=196 Identities=39% Similarity=0.583 Sum_probs=139.5
Q ss_pred ccCcHHHHHHhcC-CCccccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCccccc
Q 041971 416 FGRSLFERLSYLG-YSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFI 494 (1044)
Q Consensus 416 ~~~Slferl~~~~-~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~ 494 (1044)
++.|||+|+...+ .+.++|++||||||+|++|+|..||+|.|.+.+..................++.|+++.+......
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~ 80 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSE 80 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEET
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccccccccc
Confidence 4689999999998 999999999999999999999999999999888766554431111122356899999955444443
Q ss_pred c--cccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCcccEE
Q 041971 495 E--HSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEEDLI 572 (1044)
Q Consensus 495 ~--~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~DiV 572 (1044)
. +|+.|..||.+|++++..|+..+.....+.+|||||||++|+.+|++.|.+.........+.|+|||+|||+|+|+|
T Consensus 81 ~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~E~diV 160 (200)
T PF13087_consen 81 SSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQEADIV 160 (200)
T ss_dssp TC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT--EEEE
T ss_pred ccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccccceEE
Confidence 3 89999999999999999999886643235699999999999999999998754432222399999999999999999
Q ss_pred EEeecccCCCCcccccCCCccceecccccceeEEEEeec
Q 041971 573 IISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWILGNA 611 (1044)
Q Consensus 573 Ils~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIvG~~ 611 (1044)
|+|+|+++.....||+.+++|+|||+||||.++|||||+
T Consensus 161 i~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~ 199 (200)
T PF13087_consen 161 IVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNP 199 (200)
T ss_dssp EEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H
T ss_pred EEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecC
Confidence 999999987778999999999999999999999999996
No 9
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.2e-34 Score=342.88 Aligned_cols=285 Identities=28% Similarity=0.286 Sum_probs=231.6
Q ss_pred ccCcEEEEcCccchhhcc--ccCCCCCEEEEEcCCCCCchhhhhhccccC-ccEEEEEcCCCCCCccccccccccccccC
Q 041971 342 KRASLFLSTASSSYMLHS--VAMEPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSNEACFGR 418 (1044)
Q Consensus 342 ~~a~vI~~T~ss~~~l~~--~~~~~fd~vIIDEAsq~~e~~~lipl~l~~-~~~~ILVGD~~QL~P~v~~~~~~~~~~~~ 418 (1044)
...+++++|+++++.+.. .....|.++++|||++.+|++.++|+.... ..++||.|||+||+|++.+..+...|++.
T Consensus 418 ~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~r 497 (775)
T KOG1804|consen 418 WPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDR 497 (775)
T ss_pred cceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccH
Confidence 345788999988776655 345678999999999999999999996433 35999999999999999999999999999
Q ss_pred cHHHHHHhc------------CCCccccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeec
Q 041971 419 SLFERLSYL------------GYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINV 486 (1044)
Q Consensus 419 Slferl~~~------------~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v 486 (1044)
|||+|+... ....+.|-.+||+||.|....|+.||.+.|............. .. ...+.|+-+
T Consensus 498 sLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~---~w--~~liif~g~ 572 (775)
T KOG1804|consen 498 SLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLE---LW--SGLILFYGA 572 (775)
T ss_pred HHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHH---hc--ccceecccc
Confidence 999999864 2335679999999999999999999999998654433321111 11 223556555
Q ss_pred CCCcccc--cccccccHHHHHHHHHHHHHHHHhhhcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCC
Q 041971 487 FGGREEF--IEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGF 564 (1044)
Q Consensus 487 ~~g~e~~--~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~ 564 (1044)
.|..++ .+.|+.|..||..|..+++.+...... ...||||||||++|+..|+..+... +..++.|++|+.|
T Consensus 573 -~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~--~~~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe~f 645 (775)
T KOG1804|consen 573 -PGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVA--QPQDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVEEF 645 (775)
T ss_pred -ccccccccCChhhccHHHHHHHHHHHhccCCCCcc--ccccceeeCcHHHHHHHHHHHhccc----CCCCCcccceeee
Confidence 566565 556999999999998888888765442 3349999999999999999999764 3446999999999
Q ss_pred CCCcccEEEEeecccCCC------CcccccCCCccceecccccceeEEEEeechhhcccchHHHHHHHHHhhCCceeecC
Q 041971 565 QGGEEDLIIISTVRSNNG------GSIGFLSNSKRVNVALTRARHCLWILGNARTLTRKKSVWEALVHDANARQCFFNAD 638 (1044)
Q Consensus 565 QG~E~DiVIls~vrs~~~------~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~~~~w~~li~~~~~~~~~~~~~ 638 (1044)
||+|+.+||+|+||+... ...+|+.+++|+|||+|||+.-++++|++..+.. +..|..++..+..+|.+...+
T Consensus 646 qGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~-~~~~~~~l~~~~~n~~y~~c~ 724 (775)
T KOG1804|consen 646 QGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGG-DPPWGLLLLLRVENGRYPGCD 724 (775)
T ss_pred ccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccC-CCChhhheeeeecCCcccCCC
Confidence 999999999999999754 1223899999999999999999999999998876 599999999999888876665
Q ss_pred C
Q 041971 639 D 639 (1044)
Q Consensus 639 ~ 639 (1044)
.
T Consensus 725 ~ 725 (775)
T KOG1804|consen 725 F 725 (775)
T ss_pred C
Confidence 3
No 10
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.97 E-value=9.3e-32 Score=315.01 Aligned_cols=311 Identities=25% Similarity=0.318 Sum_probs=228.7
Q ss_pred HhhHHHHHHHHHHHhhhcCCChhhhhHHHHHHHHHHhcccCcEEEEcCccchh-hccc--cCCCCCEEEEEcCCCCCchh
Q 041971 304 RSECHFVLRKLQSSFNELNLPSAVEKDLLEDLLKSFCLKRASLFLSTASSSYM-LHSV--AMEPLNFLVIDEAAQLKESE 380 (1044)
Q Consensus 304 r~~~~~~l~~l~~~~~~l~~~~~~~~~~~~~li~~~~l~~a~vI~~T~ss~~~-l~~~--~~~~fd~vIIDEAsq~~e~~ 380 (1044)
...|+..+...-+.+.+.+.-... ....+.......+.|.||.||+..++. .... ....+|-+++.|++|+.|.+
T Consensus 930 a~~cf~hl~~ifqqLee~rafell--r~~~dr~~Yll~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~e 1007 (1320)
T KOG1806|consen 930 ATGCFRHLEYIFQQLEEFRAFELL--RSGEDRELYLLVKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIE 1007 (1320)
T ss_pred hhhhHHHHHHHHHHHHhccccccc--ccchhHhhccCcccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccc
Confidence 345666665555555444311110 111222344456899999999887542 2221 12358999999999999999
Q ss_pred hhhhccccC-------ccEEEEEcCCCCCCccccccc-cccccccCcHHHHHHhcCCCccccccccccCccccccccccc
Q 041971 381 STIPLQLSG-------IKHAVLFGDECQLPAMVESKV-SNEACFGRSLFERLSYLGYSKHLLSIQYRMHPSISCFPNSYF 452 (1044)
Q Consensus 381 ~lipl~l~~-------~~~~ILVGD~~QL~P~v~~~~-~~~~~~~~Slferl~~~~~~~~~L~~qyR~~p~I~~~~n~~f 452 (1044)
..+|+.+.+ .+++|++||+.|+||++.+.. ......++|+|.|+...+.|.+.|+.|+|..++|+.+.+..+
T Consensus 1008 tfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~r~vRl~ip~i~lnaqgrar~sI~~Ly~wry 1087 (1320)
T KOG1806|consen 1008 TFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFTRLVRLGVPIIDLNAQGRARASIASLYNWRY 1087 (1320)
T ss_pred cccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhhcceecccceecchhhhhHHHHHHHHHHhhh
Confidence 999997543 369999999999999996543 344457789999999999999999999999999999998554
Q ss_pred cCCcccccccccccchhhhccCCCCCCCceEeecCC--Cc--ccccccccccHHHHHHHHHHHHHHHHhhhcccCCccEE
Q 041971 453 YENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFG--GR--EEFIEHSCRNMVEVSVVMKILLNLYKAWIDSKEKLSIG 528 (1044)
Q Consensus 453 Y~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~--g~--e~~~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~~~~~Ig 528 (1044)
..+.+.+.+..-......-.|- ..++.|+++++ |. .+.....+.|..||++++.+...+..-|. +...|.
T Consensus 1088 --~lLg~l~~v~~lp~f~~aNagf-~~~~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgy---pa~Kis 1161 (1320)
T KOG1806|consen 1088 --PLLGNLPHVSPLPRFQYANAGF-AYEFQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGY---PANKIS 1161 (1320)
T ss_pred --cccccCcCCccchhhhccccCc-eeeEEEecchhhccccccCCCcccccCCchhhhHHHHHHHHHHhCC---chhHee
Confidence 2344554444322222222222 34788999975 33 33366778899999999999888877664 455899
Q ss_pred EEcccHHHHHHHHHHhccccccC--CCCcEEEcccCCCCCCcccEEEEeecccCCCCcccccCCCccceecccccceeEE
Q 041971 529 IVSPYSAQVVAIQEKLGSKYVNS--AGFAVKVMSIDGFQGGEEDLIIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLW 606 (1044)
Q Consensus 529 VItpy~~Q~~~i~~~L~~~~~~~--~~~~v~V~TVd~~QG~E~DiVIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~li 606 (1044)
|+|.|++|+.+|++.+..+.... .+..-.|.|||.|||+..|+||+|+|++. .+|.+.|.+|+.||+||||.+++
T Consensus 1162 ilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~tr---~~gh~rdvrrlvva~srarlgly 1238 (1320)
T KOG1806|consen 1162 ILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVRTR---EVGHLRDVRRLVVAMSRARLGLY 1238 (1320)
T ss_pred EEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEEeeehhhh---hhhhhccHHHHHHHHHHhhccch
Confidence 99999999999999998765543 45568899999999999999999999987 46789999999999999999999
Q ss_pred EEeechhhccc---chHHHHHH
Q 041971 607 ILGNARTLTRK---KSVWEALV 625 (1044)
Q Consensus 607 IvG~~~~l~~~---~~~w~~li 625 (1044)
|.+....+.+. .+.|+.|-
T Consensus 1239 v~~r~~lf~~c~eLtp~~~~l~ 1260 (1320)
T KOG1806|consen 1239 VLCRRSLFRSCRELTPAFNELE 1260 (1320)
T ss_pred hHHHHHHHHHHHhccHHHHHHh
Confidence 99987766432 24454443
No 11
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.96 E-value=8.8e-30 Score=274.76 Aligned_cols=104 Identities=34% Similarity=0.513 Sum_probs=68.3
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHH--------HhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVIL--------LQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L--------l~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
+||++|++||..+++. +.+++||||||||||+|++.++..+ ...+.+||+||+||.|||++++++.
T Consensus 1 ~ln~~Q~~Ai~~~~~~------~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~ 74 (236)
T PF13086_consen 1 KLNESQREAIQSALSS------NGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLK 74 (236)
T ss_dssp ---HHHHHHHHHHCTS------SE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcC------CCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHH
Confidence 5899999999999986 2369999999999999999999999 4568899999999999999999999
Q ss_pred HHHHHhhhhccccCCCCCCCcEEEecCCccccccchhhHHhHHHHHh
Q 041971 99 KLVKESVERDCRDALFFPLGDILLLGNNERLKVDSGVEEIYLDYRVK 145 (1044)
Q Consensus 99 ~~~~~~~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~~~l~~r~~ 145 (1044)
+..... .......++|+|+.. ...++++..+.++..+.
T Consensus 75 ~~~~~~--------~~~~~~~~ir~~~~~-~~~~~~~~~~~~~~~~~ 112 (236)
T PF13086_consen 75 KLLDED--------GKVYKPKIIRLGSEE-EKIHEDLQKFSLESKLE 112 (236)
T ss_dssp C----------------TT--EEE---GG-TTS--TTGGGBHHHHHH
T ss_pred hhcccc--------ccccccchhhhcccc-ccccccccccccccccc
Confidence 822211 122334789999887 22345555555444443
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.95 E-value=5.9e-27 Score=285.63 Aligned_cols=210 Identities=20% Similarity=0.291 Sum_probs=131.5
Q ss_pred CCCEEEEEcCCCCCchhhhhhcccc---CccEEEEEcCCCCCCccccccccccccccCcHHHHHHhc-C-CCcccccccc
Q 041971 364 PLNFLVIDEAAQLKESESTIPLQLS---GIKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYL-G-YSKHLLSIQY 438 (1044)
Q Consensus 364 ~fd~vIIDEAsq~~e~~~lipl~l~---~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~-~-~~~~~L~~qy 438 (1044)
+|++|+|||+++++..+.-+.-.+. ...++++|||+.|-- ....|-+..++..+... + ...+.|+.+|
T Consensus 430 ~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsI-------Y~frGa~~~~~~~f~~~f~~~~~~~L~~nY 502 (684)
T PRK11054 430 PWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAI-------YRFSGADLSLTTAFHERFGEGDRCHLDTTY 502 (684)
T ss_pred cccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCccc-------cccCCCChHHHHHHHhhcCCCeEEEeCCCC
Confidence 6999999999999988754433331 236899999999941 12233334455444332 2 2357899999
Q ss_pred ccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHHHHHHHhh
Q 041971 439 RMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKAW 518 (1044)
Q Consensus 439 R~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv~~l~~~~ 518 (1044)
|+++.|.+++|..+=.+.-.-...... ...++ .|.+.+.- ..+.+.++..+..+..
T Consensus 503 Rs~~~I~~~An~~i~~n~~~~~k~l~s------~~~g~--~p~v~~~~--------------~~~~~~il~~l~~~~~-- 558 (684)
T PRK11054 503 RFNSRIGEVANRFIQQNPHQLKKPLNS------LTKGD--KKAVTLLP--------------EDQLEALLDKLSGYAK-- 558 (684)
T ss_pred CCCHHHHHHHHHHHHhCccccCCcccc------cCCCC--CceEEEeC--------------CHHHHHHHHHHHHhhc--
Confidence 999999999996542211000000000 01111 12222111 1244444444444332
Q ss_pred hcccCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCcccEEEEeecccCCCC---------------
Q 041971 519 IDSKEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEEDLIIISTVRSNNGG--------------- 583 (1044)
Q Consensus 519 ~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~DiVIls~vrs~~~~--------------- 583 (1044)
+..+|+||++|+.+...+.+.+...++. .+|.++|+|.++|.|+|+||+..+..+..|
T Consensus 559 ----~~~~I~IL~R~~~~~~~~l~~~~~~~~~---~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~~ 631 (684)
T PRK11054 559 ----PDERILLLARYHHLRPALLDKAATRWPK---LQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEALL 631 (684)
T ss_pred ----CCCcEEEEEechhhHHHHHHHHHhhccc---CCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhccc
Confidence 3469999999999887666666554432 369999999999999999999877543210
Q ss_pred --cccc--cCCCccceecccccceeEEEEeec
Q 041971 584 --SIGF--LSNSKRVNVALTRARHCLWILGNA 611 (1044)
Q Consensus 584 --~~gf--l~~~~RlNVAlTRAk~~liIvG~~ 611 (1044)
.-.| -.+++.++||+||||+.++|+.+.
T Consensus 632 ~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 632 PPPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred ccccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 0011 224778999999999999999874
No 13
>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=99.91 E-value=1.6e-23 Score=251.56 Aligned_cols=64 Identities=39% Similarity=0.505 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-----CcEEEEcCCHHHHHHHHHHHHHH
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-----FRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-----~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+.|+.|+..++.. ++++|+||||||||||+..++..+.... .+|+++|||+.|+..|.+.+...
T Consensus 148 ~~Qk~A~~~al~~-------~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~ 216 (586)
T TIGR01447 148 NWQKVAVALALKS-------NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKA 216 (586)
T ss_pred HHHHHHHHHHhhC-------CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhh
Confidence 7899999999986 9999999999999999999999887642 58999999999999888877643
No 14
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.90 E-value=2.9e-22 Score=249.75 Aligned_cols=68 Identities=29% Similarity=0.407 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-C---CcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-K---FRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~---~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
..||++|++||... .+..+|.||||||||+|++..+++|+.. | .+||++|+||.|+.+|.+|+.+++
T Consensus 8 ~~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 8 DSLNDKQREAVAAP---------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred HhcCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence 36999999999633 4789999999999999999999999974 3 589999999999999999999875
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 79 ~ 79 (721)
T PRK11773 79 G 79 (721)
T ss_pred c
Confidence 4
No 15
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.90 E-value=5.8e-23 Score=246.79 Aligned_cols=67 Identities=37% Similarity=0.454 Sum_probs=58.7
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC----CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM----KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~----~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
...+.|+.|+..++.. ++++|+||||||||||+..++..+... +.+|+++|||+.|+..|.+++...
T Consensus 152 ~~~d~Qk~Av~~a~~~-------~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~ 222 (615)
T PRK10875 152 DEVDWQKVAAAVALTR-------RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKA 222 (615)
T ss_pred CCCHHHHHHHHHHhcC-------CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhh
Confidence 3458999999999986 999999999999999999999988764 258999999999999988887644
No 16
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.90 E-value=2.2e-22 Score=251.03 Aligned_cols=68 Identities=29% Similarity=0.375 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-C---CcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-K---FRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~---~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
..||++|++||.. ..+..+|.|+||||||+|++..++.|+.. | .+||++|+||.|+++|.+|+.+++
T Consensus 3 ~~Ln~~Q~~av~~---------~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 3 DGLNDKQREAVAA---------PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred cccCHHHHHHHcC---------CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence 3699999999963 34789999999999999999999999975 3 489999999999999999999876
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 74 ~ 74 (715)
T TIGR01075 74 G 74 (715)
T ss_pred c
Confidence 4
No 17
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.90 E-value=2.6e-22 Score=251.03 Aligned_cols=68 Identities=34% Similarity=0.408 Sum_probs=59.9
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC----CcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK----FRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~----~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
..||++|++||... .+..+|.|+||||||+|++..++.|+..+ .+||++|+||.|+.+|.+|+.+++
T Consensus 3 ~~Ln~~Q~~av~~~---------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~ 73 (726)
T TIGR01073 3 AHLNPEQREAVKTT---------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLL 73 (726)
T ss_pred cccCHHHHHHHhCC---------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHh
Confidence 36999999999632 47899999999999999999999999753 589999999999999999998775
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 74 ~ 74 (726)
T TIGR01073 74 G 74 (726)
T ss_pred c
Confidence 4
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=99.89 E-value=1.1e-22 Score=251.19 Aligned_cols=63 Identities=27% Similarity=0.440 Sum_probs=57.2
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v 93 (1044)
....||+.|++|+..+... ++.+|+|||||||||++.+++..+...+ .+|++||||+.|++.|
T Consensus 320 ~~~~l~~~Q~~Ai~~~~~~-------~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 320 LRKGLSEEQKQALDTAIQH-------KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred cCCCCCHHHHHHHHHHHhC-------CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHH
Confidence 4578999999999999765 8999999999999999999999888887 8999999999999854
No 19
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.89 E-value=5.5e-22 Score=244.39 Aligned_cols=67 Identities=28% Similarity=0.295 Sum_probs=59.1
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-C---CcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-K---FRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~---~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.||++|++||... .+..+|.||||||||+|++..++.|+.. | .+||++|+||.|+++|.+|+.+.+.
T Consensus 2 ~Ln~~Q~~av~~~---------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEFV---------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 5999999999642 4778999999999999999999999964 3 4899999999999999999997753
No 20
>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=99.85 E-value=1.5e-20 Score=232.93 Aligned_cols=65 Identities=20% Similarity=0.225 Sum_probs=57.9
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
..+.||+.|++||..++.. +++.+|+|||||||||++.+++..+...|.+|++||||+.|+..+.
T Consensus 349 ~~~~Ls~~Q~~Av~~i~~s------~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 349 QHYRLSEEQYEAVRHVTGS------GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred ccCCCCHHHHHHHHHHhcC------CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHH
Confidence 3578999999999998763 3799999999999999999998888888999999999999997654
No 21
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.84 E-value=6.5e-20 Score=228.16 Aligned_cols=67 Identities=30% Similarity=0.322 Sum_probs=58.8
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-C---CcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-K---FRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~---~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.||+.|++||... .+..+|.|+||||||+|++..+..|+.. | .+||++|+||.|+.+|.+||.+.+.
T Consensus 1 ~Ln~~Q~~av~~~---------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 1 KLNPQQQEAVEYV---------TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCCHHHHHHHhCC---------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 4899999999643 3779999999999999999999999964 3 5899999999999999999987754
No 22
>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=99.83 E-value=2.4e-19 Score=233.80 Aligned_cols=68 Identities=26% Similarity=0.346 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC---cEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF---RTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~---rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
.+++.|++||.. .+...+|.|++|||||+|++..+..++..|. +||++|+||.|+.+|.+||.+.+.+
T Consensus 1 ~~t~~Q~~ai~~---------~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~ 71 (1232)
T TIGR02785 1 QWTDEQWQAIYT---------RGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQK 71 (1232)
T ss_pred CCCHHHHHHHhC---------CCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHH
Confidence 478999999972 1356899999999999999998888877654 5999999999999999999988764
No 23
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.80 E-value=7.4e-19 Score=219.38 Aligned_cols=65 Identities=17% Similarity=0.196 Sum_probs=56.9
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
..+.||+.|++||..+++. .++.+|+|+|||||||++..++..+-..|.+|+.||||+.|+..+.
T Consensus 343 ~g~~Ls~eQr~Av~~il~s------~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~ 407 (988)
T PRK13889 343 RGLVLSGEQADALAHVTDG------RDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLE 407 (988)
T ss_pred cCCCCCHHHHHHHHHHhcC------CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHh
Confidence 3568999999999998874 3699999999999999988887777778999999999999997653
No 24
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.80 E-value=1e-18 Score=218.71 Aligned_cols=64 Identities=22% Similarity=0.223 Sum_probs=57.4
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
.+.||+.|++||..+... +.+.+|+|+|||||||++..++..+-..|.+|+.+|||+.|+..|.
T Consensus 379 ~~~Ls~eQ~~Av~~i~~~------~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 379 HARLSDEQKTAIEHVAGP------ARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCCCCHHHHHHHHHHhcc------CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHH
Confidence 578999999999987542 5899999999999999999999888889999999999999997653
No 25
>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=7.8e-18 Score=217.43 Aligned_cols=174 Identities=14% Similarity=0.041 Sum_probs=100.5
Q ss_pred CCCCEEEEEcCCCCCchhhhhhcccc-Ccc--EEEEEcCCCCCCccccccccccccccCcHHHHHHhcCCCccccccccc
Q 041971 363 EPLNFLVIDEAAQLKESESTIPLQLS-GIK--HAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYLGYSKHLLSIQYR 439 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~lipl~l~-~~~--~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~~~~~~~L~~qyR 439 (1044)
..|++|+|||+++.+..+.-+.-.+. +.. .+++||||+|- +-...|-+...|.++.......+.|.+|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQS-------IY~FRGAD~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQA-------IYSFRGADIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccc-------cccCCCCCHHHHHHHHHhcCcEEECCCCCC
Confidence 47999999999999988755443332 222 79999999993 222333344455554432224678999999
Q ss_pred cCccccccccccccCCcccc---c--ccccccch---hhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHH
Q 041971 440 MHPSISCFPNSYFYENKIRD---S--STVRKRSY---EKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKIL 511 (1044)
Q Consensus 440 ~~p~I~~~~n~~fY~~~L~~---~--~~~~~~~~---~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv 511 (1044)
++|.|.+++|..|-...-.. . ..+..... ......++...++.+........ +....-..+|+.+++-+
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~---~~~~~~~~~a~~~a~~I 444 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE---GVDDYRQTIAQKCAREI 444 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc---ccchHHHHHHHHHHHHH
Confidence 99999999998884321100 0 00100000 00011222233455544421110 10111234556666666
Q ss_pred HHHHHhhh------------cccCCccEEEEcccHHHHHHHHHHhcc
Q 041971 512 LNLYKAWI------------DSKEKLSIGIVSPYSAQVVAIQEKLGS 546 (1044)
Q Consensus 512 ~~l~~~~~------------~~~~~~~IgVItpy~~Q~~~i~~~L~~ 546 (1044)
..++..+. .....++|+||++.+.|...|+++|.+
T Consensus 445 ~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~ 491 (1087)
T TIGR00609 445 ALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKK 491 (1087)
T ss_pred HHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHH
Confidence 66664421 123467999999999999999988864
No 26
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.78 E-value=5e-18 Score=216.22 Aligned_cols=156 Identities=21% Similarity=0.194 Sum_probs=96.6
Q ss_pred CCCCEEEEEcCCCCCchhhhh--hcc---ccC-----ccEEEEEcCCCCCCccccccccccccccCcHHHHHHhc-CCCc
Q 041971 363 EPLNFLVIDEAAQLKESESTI--PLQ---LSG-----IKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYL-GYSK 431 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~li--pl~---l~~-----~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~-~~~~ 431 (1044)
..|++|+|||+++.+..+.-+ +|. +.+ ...+++|||++|- +....|-+..+|.++... +...
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS-------IY~FRGA~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS-------IYRFRGGKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh-------hhhhcCCChHHHHHHHHHhhhhh
Confidence 469999999999999886433 332 111 3579999999993 222333345678776542 2245
Q ss_pred cccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHH
Q 041971 432 HLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKIL 511 (1044)
Q Consensus 432 ~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv 511 (1044)
..|..|||++|.|.+++|..|-.. ....+... .......+.+.+... . .....+++.+++.+
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~~~-------~~~~~~~g~v~i~~~-~---------~~~~~~a~~ia~~I 461 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKK-YKNYKTQY-------AEQHKSGGYVEVVEV-A---------DESEELLEQLLQEI 461 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHH-HHhhhhhh-------cccccCCCcEEEEEC-C---------CccHHHHHHHHHHH
Confidence 789999999999999999887431 11100000 000000112222211 1 01234577788888
Q ss_pred HHHHHhhhcccCCccEEEEcccHHHHHHHHHHhcc
Q 041971 512 LNLYKAWIDSKEKLSIGIVSPYSAQVVAIQEKLGS 546 (1044)
Q Consensus 512 ~~l~~~~~~~~~~~~IgVItpy~~Q~~~i~~~L~~ 546 (1044)
..+++.+. ..++|+||++.+.|...+.+.|.+
T Consensus 462 ~~l~~~g~---~~~dIaILvR~~~~~~~l~~~L~~ 493 (910)
T PRK13909 462 QFLLEKGI---DPDDIAILCWTNDDALEIKEFLQE 493 (910)
T ss_pred HHHHHcCC---CcCCEEEEEecCccHHHHHHHHHh
Confidence 88877643 467999999999888888776654
No 27
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.78 E-value=1.3e-17 Score=215.59 Aligned_cols=176 Identities=16% Similarity=0.086 Sum_probs=107.3
Q ss_pred CCCCEEEEEcCCCCCchhhhhhcccc-C----ccEEEEEcCCCCCCccccccccccccccCcHHHHHHh--cCCCccccc
Q 041971 363 EPLNFLVIDEAAQLKESESTIPLQLS-G----IKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSY--LGYSKHLLS 435 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~lipl~l~-~----~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~--~~~~~~~L~ 435 (1044)
..|++|+|||+++.+..+.-|.-.+. . ...++|||||+|- +-...|-+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQS-------IY~FRgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQS-------IYRFRGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHH-------hhhhcCCChHHHHHHhhccccCceeecc
Confidence 46999999999999988754432221 1 2489999999993 34445567778887777 456778999
Q ss_pred cccccCccccccccccccCCc------ccccccccccchh--hhccCCCCCCCc-eEeecCC-Ccccc--cccccccHHH
Q 041971 436 IQYRMHPSISCFPNSYFYENK------IRDSSTVRKRSYE--KRFLHGPMYGPY-SFINVFG-GREEF--IEHSCRNMVE 503 (1044)
Q Consensus 436 ~qyR~~p~I~~~~n~~fY~~~------L~~~~~~~~~~~~--~~~~~~~~~~~~-~fi~v~~-g~e~~--~~~s~~N~~E 503 (1044)
+|||+.|.+.+++|..|-... +...+ +...... ......+...+. .+...+. +..+. .........+
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 528 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDP-VAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADLE 528 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCch-hhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchhHHHHHHHH
Confidence 999999999999999885321 11111 1100000 000000001111 1111100 00000 0113345667
Q ss_pred HHHHHHHHHHHHHhhh-----cccCCccEEEEcccHHHHHHHHHHhcc
Q 041971 504 VSVVMKILLNLYKAWI-----DSKEKLSIGIVSPYSAQVVAIQEKLGS 546 (1044)
Q Consensus 504 a~~v~~lv~~l~~~~~-----~~~~~~~IgVItpy~~Q~~~i~~~L~~ 546 (1044)
|..|...+..+..... .....+||+|++..++++..|+++|++
T Consensus 529 a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~ 576 (1139)
T COG1074 529 ARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKK 576 (1139)
T ss_pred HHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHh
Confidence 7777777777765331 235677999999999999999999875
No 28
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.76 E-value=1.5e-17 Score=206.88 Aligned_cols=156 Identities=18% Similarity=0.149 Sum_probs=95.5
Q ss_pred CCCCEEEEEcCCCCCchhhhhhccccC-ccEEEEEcCCCCCCccccccccccccccCcHHHHHHhc--CCCccccccccc
Q 041971 363 EPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYL--GYSKHLLSIQYR 439 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~lipl~l~~-~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~--~~~~~~L~~qyR 439 (1044)
.+|++|+|||+++....+..+.-.+.+ ...+++|||+.|- +-...|-....+.++... ..+.+.|..+||
T Consensus 212 ~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQs-------IY~frGA~~~ni~~f~~df~~~~~i~Le~NyR 284 (655)
T COG0210 212 ARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQS-------IYGFRGADPENILDFEKDFPAAKVIKLEQNYR 284 (655)
T ss_pred hhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCccc-------cceeCCCChHHHHHHHhhCCCCcEEEecCCCC
Confidence 579999999999999876544333323 4688899999993 122333334444444432 145789999999
Q ss_pred cCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHHHHHHHhhh
Q 041971 440 MHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKAWI 519 (1044)
Q Consensus 440 ~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv~~l~~~~~ 519 (1044)
+.+.|...+|...=.+.-........ .. .++ ...+.++. ......||..+...+..+...+.
T Consensus 285 St~~Il~~An~~i~~n~~r~~k~l~~-----~~-~~~-~~~~~~~~-----------~~~~~~ea~~i~~~I~~l~~~~~ 346 (655)
T COG0210 285 STPNILAAANKVIANNKKRQAKTLRT-----EV-EGS-GEKVVLLL-----------ANDEEDEARWIASEIDALIEIGK 346 (655)
T ss_pred CcHHHHHHHHHHHhcCCccCCCccee-----cc-CCC-CCCceEEe-----------CCChHHHHHHHHHHHHHHHHcCC
Confidence 99999999997654222111111000 00 011 11222222 23346789999998888877653
Q ss_pred cccCCccEEEEcccHHHHHHHHHHhc
Q 041971 520 DSKEKLSIGIVSPYSAQVVAIQEKLG 545 (1044)
Q Consensus 520 ~~~~~~~IgVItpy~~Q~~~i~~~L~ 545 (1044)
....+|+|+...+.|...+...|.
T Consensus 347 --~~~~d~aiL~R~n~~s~~~e~~l~ 370 (655)
T COG0210 347 --VNYSDIAILYRTNAQSRLIEEALR 370 (655)
T ss_pred --CChhhEEEEEecCcchHHHHHHHH
Confidence 345577887777777777666654
No 29
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.76 E-value=4.7e-17 Score=210.57 Aligned_cols=174 Identities=13% Similarity=0.083 Sum_probs=98.8
Q ss_pred CCCCEEEEEcCCCCCchhhhhhccccC---ccEEEEEcCCCCCCccccccccccccccCcHHHHHHhcCCCccccccccc
Q 041971 363 EPLNFLVIDEAAQLKESESTIPLQLSG---IKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYLGYSKHLLSIQYR 439 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~lipl~l~~---~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~~~~~~~L~~qyR 439 (1044)
.+|++|+|||+++.+..+.-+...+.. ...+++||||+|- +....|-+...|-.........+.|..|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQs-------IY~FRGAd~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQA-------IYAFRGADIFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccc-------cccCCCCCchHHHHHHhccCCeeECCCCcC
Confidence 479999999999999887554433322 3579999999993 111222222222222222234578999999
Q ss_pred cCccccccccccccCCccc---c-cc--cccc--cchhhhc-cCCCCCCCceEeecCCCcccccccccccHHHHHHHHHH
Q 041971 440 MHPSISCFPNSYFYENKIR---D-SS--TVRK--RSYEKRF-LHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKI 510 (1044)
Q Consensus 440 ~~p~I~~~~n~~fY~~~L~---~-~~--~~~~--~~~~~~~-~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~l 510 (1044)
++|.|.+++|..|-...-. . .+ .+.. ....... ..+....+..+... .+... ........||..|+.-
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~--~~~~~~~~eA~~iA~~ 525 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGEGV--GVGDYQQTMAQQCAAQ 525 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCCcc--CcchHHHHHHHHHHHH
Confidence 9999999999888543210 0 00 0000 0000000 00000112222222 11111 1112335678888888
Q ss_pred HHHHHHhhh------------cccCCccEEEEcccHHHHHHHHHHhcc
Q 041971 511 LLNLYKAWI------------DSKEKLSIGIVSPYSAQVVAIQEKLGS 546 (1044)
Q Consensus 511 v~~l~~~~~------------~~~~~~~IgVItpy~~Q~~~i~~~L~~ 546 (1044)
|..++..+. .....++|+|+++.+.|...|+++|.+
T Consensus 526 I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~ 573 (1181)
T PRK10876 526 IRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTL 573 (1181)
T ss_pred HHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHh
Confidence 888776531 123457999999999999999988854
No 30
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.73 E-value=9.3e-18 Score=176.30 Aligned_cols=66 Identities=36% Similarity=0.456 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
+||+.|++|+..++.. ...+.+|+||||||||+++..++..+...|.+|+++||||.|++++.+++
T Consensus 1 ~L~~~Q~~a~~~~l~~-----~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 1 TLNEEQREAVRAILTS-----GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp -S-HHHHHHHHHHHHC-----TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhc-----CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhh
Confidence 5899999999999874 34699999999999999999999999999999999999999999877763
No 31
>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=99.73 E-value=1.9e-15 Score=197.79 Aligned_cols=54 Identities=28% Similarity=0.302 Sum_probs=47.5
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCC---CcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMK---FRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~---~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
.-.+|.+++|||||++++..+..++..| .+||++++||.|+.+|.+||.+.+.+
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L~~ 67 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRLGE 67 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHHHH
Confidence 3467999999999999998888888654 58999999999999999999988864
No 32
>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=99.62 E-value=8.5e-14 Score=187.02 Aligned_cols=67 Identities=22% Similarity=0.312 Sum_probs=60.6
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~r 96 (1044)
.+.||+.|++||..++.. .+.+.+|+||||||||+++..++..+-..|.+|.++|||+.|+..+.+.
T Consensus 427 ~~~Ls~~Q~~Av~~il~s-----~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 427 EFALSPSNKDAVSTLFTS-----TKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred cCCCCHHHHHHHHHHHhC-----CCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHH
Confidence 568999999999999874 4689999999999999999999999888999999999999999876654
No 33
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.61 E-value=9.8e-15 Score=166.49 Aligned_cols=207 Identities=23% Similarity=0.219 Sum_probs=137.5
Q ss_pred CCCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccccCcHHHHHHhc----CCCcccccccc
Q 041971 363 EPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYL----GYSKHLLSIQY 438 (1044)
Q Consensus 363 ~~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~----~~~~~~L~~qy 438 (1044)
..+.++|||||+..+..++..--.+..+..+-.|||..|-- -..+ -..+.++|+... .+..+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i-------~~~~-~e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVI-------YDEA-QELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCcee-------hhhh-cccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 35789999999999877754433455678999999999931 1111 124556666543 35678899999
Q ss_pred ccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHHHHHHHhh
Q 041971 439 RMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKAW 518 (1044)
Q Consensus 439 R~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv~~l~~~~ 518 (1044)
|+..+|.+|+|...-+ .....+- ...+ ..|.+. .+..|..=++.+.+++..|-+.+
T Consensus 599 rSt~eI~efan~~l~d-----~~~~~p~-----~rsg--e~p~~i------------~~~~ne~l~qr~~~ii~~mkk~~ 654 (747)
T COG3973 599 RSTAEIDEFANSLLPD-----RFRIHPL-----TRSG--EKPAVI------------MSVANEELVQRNPDIIPRMKKRG 654 (747)
T ss_pred cChHHHHHHHHHhccC-----CCccchh-----hcCC--CCceee------------eccchHHHHHhhHHHHHHHHhcC
Confidence 9999999999965531 1111100 0011 112221 22335544555566666665543
Q ss_pred hcccCCccEEEEcccHHHHHHHHHHhccccc--------cCCCCcEEEcccCCCCCCcccEEEEeecccCCCCcccccCC
Q 041971 519 IDSKEKLSIGIVSPYSAQVVAIQEKLGSKYV--------NSAGFAVKVMSIDGFQGGEEDLIIISTVRSNNGGSIGFLSN 590 (1044)
Q Consensus 519 ~~~~~~~~IgVItpy~~Q~~~i~~~L~~~~~--------~~~~~~v~V~TVd~~QG~E~DiVIls~vrs~~~~~~gfl~~ 590 (1044)
.+.|||||+..+|...+.+.|+.+-. ..-..+..|.-|+-.+|.|+|.||+.-...-. .--.+
T Consensus 655 -----~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s~~e----~te~~ 725 (747)
T COG3973 655 -----SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPSIVE----ETEQD 725 (747)
T ss_pred -----CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecchhhc----ccccc
Confidence 45899999999999999999975311 11122578999999999999999986553111 11346
Q ss_pred CccceecccccceeEEEEee
Q 041971 591 SKRVNVALTRARHCLWILGN 610 (1044)
Q Consensus 591 ~~RlNVAlTRAk~~liIvG~ 610 (1044)
.+-++||+|||-+.++|+|-
T Consensus 726 ~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 726 LRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 78899999999999999874
No 34
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.59 E-value=1.7e-14 Score=188.23 Aligned_cols=66 Identities=23% Similarity=0.278 Sum_probs=55.7
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh----CCCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ----MKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~----~~~rILv~A~TN~AVd~v~ 94 (1044)
....||+.|++||..++.. .+.+.+|+|+|||||||++..++..+.. .+.+|+.+|||+.|+.+|.
T Consensus 964 ~~~~Lt~~Q~~Av~~il~s-----~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709 964 LMEGLTSGQRAATRMILES-----TDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred hcCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence 3568999999999999974 3579999999999999999888877643 3568999999999998654
No 35
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.59 E-value=1.6e-14 Score=185.94 Aligned_cols=66 Identities=23% Similarity=0.278 Sum_probs=55.2
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh----CCCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ----MKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~----~~~rILv~A~TN~AVd~v~ 94 (1044)
....||+.|++||..++.. .+.+.+|+|+|||||||++..++..+.. .+.+|+.+|||+.|+..|.
T Consensus 832 ~~~~Lt~~Qr~Av~~iLts-----~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~ 901 (1623)
T PRK14712 832 LMEKLTSGQRAATRMILET-----SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMR 901 (1623)
T ss_pred hhcccCHHHHHHHHHHHhC-----CCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHH
Confidence 3458999999999999974 4589999999999999998877666432 3678999999999998764
No 36
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=99.52 E-value=1.1e-13 Score=156.33 Aligned_cols=67 Identities=34% Similarity=0.365 Sum_probs=58.6
Q ss_pred CCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC----CcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK----FRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~----~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
||+.|+++|.. . .+..+|.|+||||||+|++..+..|+..+ .+||++|+||.|+.+|.+||...+..
T Consensus 1 l~~eQ~~~i~~-~--------~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS-T--------EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS----------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-C--------CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 79999999986 2 38999999999999999999999988865 58999999999999999999998765
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=99.50 E-value=5.6e-14 Score=152.11 Aligned_cols=170 Identities=23% Similarity=0.269 Sum_probs=98.3
Q ss_pred CCCEEEEEcCCCCCchhhhhhccccCccEEEEEcCCCCCCccccccccccccccCcHHHHHHhcCCCccccccccccCcc
Q 041971 364 PLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSNEACFGRSLFERLSYLGYSKHLLSIQYRMHPS 443 (1044)
Q Consensus 364 ~fd~vIIDEAsq~~e~~~lipl~l~~~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Slferl~~~~~~~~~L~~qyR~~p~ 443 (1044)
.++++|||||++++.......+...+++.++++|||.|.+............+.... .....+...||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISDI--------SHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccce--------eeeecceeEeecccc
Confidence 489999999999997665554445567899999999998765433211111111111 123356678999888
Q ss_pred cccccccccc-CCcccccccccccchhhhccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHHHHHHHhhhccc
Q 041971 444 ISCFPNSYFY-ENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKAWIDSK 522 (1044)
Q Consensus 444 I~~~~n~~fY-~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv~~l~~~~~~~~ 522 (1044)
+..+.+...+ ...... .....+.....+ .
T Consensus 134 ~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~--------------------------------~ 163 (234)
T PF01443_consen 134 RFDIISALVYTEDHVES------------------SVEFRVETDPSG--------------------------------V 163 (234)
T ss_pred cceeeecccccCCceee------------------cccccccccCcc--------------------------------c
Confidence 8888776511 110000 000000000000 0
Q ss_pred CCccEEEEcccHHHHHHHHHHhccccccCCCCcE-EEcccCCCCCCcccEEEEeecccCCCCcccccCCCccceeccccc
Q 041971 523 EKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAV-KVMSIDGFQGGEEDLIIISTVRSNNGGSIGFLSNSKRVNVALTRA 601 (1044)
Q Consensus 523 ~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v-~V~TVd~~QG~E~DiVIls~vrs~~~~~~gfl~~~~RlNVAlTRA 601 (1044)
+ ..+.+++...+. .+.+. . .+.|++++||.|+|.|++-....... .-+..++++++||+|||
T Consensus 164 ~-~~~~~~~~~~~~----~~~~~----------~~~~~T~~e~qG~tf~~V~l~~~~~~~~--~~~~~~~~~~~VALTR~ 226 (234)
T PF01443_consen 164 D-KVIVYLTFTQAE----KEQLG----------SDRVFTVHESQGLTFDNVTLVLLSDTDN--ELYSESRNHLYVALTRH 226 (234)
T ss_pred C-cccchhhHHHHH----HHHcC----------CCceechHHcceEEeCCEEEEECCCccc--ccccCCcccEEEEcccc
Confidence 0 112222222221 12211 2 58999999999999998876644321 11223699999999999
Q ss_pred ceeEEEE
Q 041971 602 RHCLWIL 608 (1044)
Q Consensus 602 k~~liIv 608 (1044)
|+.|+|+
T Consensus 227 ~~~l~i~ 233 (234)
T PF01443_consen 227 TKSLVIL 233 (234)
T ss_pred ccEEEEE
Confidence 9999986
No 38
>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=4.4e-13 Score=180.22 Aligned_cols=66 Identities=24% Similarity=0.283 Sum_probs=54.2
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHH----HHhCCCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVI----LLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~----Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
....||+.|++|+..++.. .+.+.+|+|+|||||||++.+++.. +-..|.+|+.+|||+.|+.+|.
T Consensus 1016 ~~~~Lt~~Q~~Ai~~il~~-----~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1016 LLERLTHGQKQAIHLIIST-----KDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred ccCCCCHHHHHHHHHHHhC-----CCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHH
Confidence 3568999999999999874 4579999999999999999544333 3346889999999999998764
No 39
>PF13245 AAA_19: Part of AAA domain
Probab=99.31 E-value=4.5e-12 Score=111.51 Aligned_cols=58 Identities=40% Similarity=0.562 Sum_probs=51.5
Q ss_pred HHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC----CCcEEEEcCCHHHHHHHHHHH
Q 041971 34 QAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM----KFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 34 ~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~----~~rILv~A~TN~AVd~v~~rL 97 (1044)
+||..++.. +++.+|+||||||||+|++.++..++.. +.+||++||||.|++++.+|+
T Consensus 1 ~av~~al~~------~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAG------SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhh------CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 366666652 4899999999999999999999999976 889999999999999999999
No 40
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.29 E-value=5.4e-12 Score=157.99 Aligned_cols=68 Identities=24% Similarity=0.323 Sum_probs=60.5
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
..+......++++|.+|+..++.. ++.+|.||||||||+++..++..+..-+..++++++|-.|+..+
T Consensus 311 ~~~~~~~~~~~~~q~~a~~vl~~d-------e~smlt~~~~~~~~~~~~~~~~l~~~~~~~~l~aa~tG~a~~~l 378 (696)
T COG0507 311 EVPAKVKLRLSLEQKEALDVLVVD-------EVSMLTGGPGTGKTTAIKAIARLIKEGDGDQLLAAPTGKAAKRL 378 (696)
T ss_pred hcccccCCCcCcccHHHHHHHhcC-------CeeEEeccCCcchHHHHHHHHHHHHhcCCcEEeechhhHHHHHH
Confidence 455566689999999999999986 99999999999999999999999888888899999999998643
No 41
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=99.21 E-value=4.2e-11 Score=137.75 Aligned_cols=49 Identities=24% Similarity=0.192 Sum_probs=40.8
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH--HhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL--LQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L--l~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
.+.+|.|+||||||.++..++..+ ...+.++++++++..-++.+.+.+.
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~ 52 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLA 52 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHh
Confidence 478999999999999999999999 6778888888888777765555554
No 42
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=99.07 E-value=1.9e-10 Score=132.72 Aligned_cols=66 Identities=23% Similarity=0.374 Sum_probs=58.6
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
.||+.|+.++..++..+. ...+....|.||+|||||+++.++...+...+..+++||+|..|+.++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~-~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIE-NEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHH-ccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 599999999999987753 356788899999999999999999999988899999999999999654
No 43
>PRK10536 hypothetical protein; Provisional
Probab=98.60 E-value=3.7e-07 Score=98.08 Aligned_cols=59 Identities=19% Similarity=0.155 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCCHH
Q 041971 23 SLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTNV 88 (1044)
Q Consensus 23 ~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~TN~ 88 (1044)
....++|..|..++....+. .+.++.||+|||||+++.++...++ ....+-++++..+.
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~-------~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v 114 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESK-------QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVL 114 (262)
T ss_pred ccccCCCHHHHHHHHHHhcC-------CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCC
Confidence 34568999999999866553 7999999999999999988888655 43344444444433
No 44
>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=98.54 E-value=2.6e-07 Score=96.76 Aligned_cols=55 Identities=24% Similarity=0.312 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC--cEEEEcCCH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF--RTLVCTPTN 87 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~--rILv~A~TN 87 (1044)
.++|+.|+.++.+.+.. ++..+.||+|||||.++.+....++..|. +|+++-|+-
T Consensus 3 ~p~~~~Q~~~~~al~~~-------~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v 59 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNN-------DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPV 59 (205)
T ss_dssp ---SHHHHHHHHHHHH--------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S-
T ss_pred cCCCHHHHHHHHHHHhC-------CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCC
Confidence 47899999999999965 99999999999999999888877777664 666665443
No 45
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=98.50 E-value=7.4e-08 Score=110.21 Aligned_cols=57 Identities=23% Similarity=0.294 Sum_probs=43.6
Q ss_pred cEEEcccCCCCCCcccEEEEeecccCCCCc-------ccccCCCccceecccccceeEEEEeec
Q 041971 555 AVKVMSIDGFQGGEEDLIIISTVRSNNGGS-------IGFLSNSKRVNVALTRARHCLWILGNA 611 (1044)
Q Consensus 555 ~v~V~TVd~~QG~E~DiVIls~vrs~~~~~-------~gfl~~~~RlNVAlTRAk~~liIvG~~ 611 (1044)
.|.|+|+|++.|.|+|+||+..+..+.... -.+-.+.|.++||+||||+.|+|++..
T Consensus 287 ~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 287 GVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp SEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred CcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 689999999999999999998875553111 123345778999999999999999864
No 46
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.40 E-value=1.7e-06 Score=97.80 Aligned_cols=70 Identities=19% Similarity=0.141 Sum_probs=57.4
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
..++.-|.+|+.... .|...|.|=.|+|||-+++..++.|... +.+|+++-+|..-.-.+..++.++...
T Consensus 161 anfD~~Q~kaa~~~~--------~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~ 232 (660)
T COG3972 161 ANFDTDQTKAAFQSG--------FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFM 232 (660)
T ss_pred hcccchhheeeeecC--------CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHH
Confidence 467777888775443 3677999999999999999988888765 459999999999999998888888754
No 47
>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=98.22 E-value=0.0001 Score=97.86 Aligned_cols=157 Identities=12% Similarity=0.025 Sum_probs=82.3
Q ss_pred CCEEEEEcCCCCCchhhhhhccc-cCccEEEEEcCCCCCCcccccc-ccccccccCcHHHHHHhcCCCccccccccccCc
Q 041971 365 LNFLVIDEAAQLKESESTIPLQL-SGIKHAVLFGDECQLPAMVESK-VSNEACFGRSLFERLSYLGYSKHLLSIQYRMHP 442 (1044)
Q Consensus 365 fd~vIIDEAsq~~e~~~lipl~l-~~~~~~ILVGD~~QL~P~v~~~-~~~~~~~~~Slferl~~~~~~~~~L~~qyR~~p 442 (1044)
..+|+|||+++.+..+.-+.-.+ ..++.+++|||..|-. ... ...-+.+....+.++.. ..+..+||..+
T Consensus 197 ~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~-----~~~~~~~~~~~ 268 (1158)
T TIGR02773 197 GAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKE-----LAKELGIEVEE 268 (1158)
T ss_pred CCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHH-----HHHHcCCCccc
Confidence 46999999999998875443322 2457899999999951 100 00011122223444332 23344555554
Q ss_pred ccccccccccc-CC-cccccccccccchhhh--ccCCCCCCCceEeecCCCcccccccccccHHHHHHHHHHHHHHHHhh
Q 041971 443 SISCFPNSYFY-EN-KIRDSSTVRKRSYEKR--FLHGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKAW 518 (1044)
Q Consensus 443 ~I~~~~n~~fY-~~-~L~~~~~~~~~~~~~~--~~~~~~~~~~~fi~v~~g~e~~~~~s~~N~~Ea~~v~~lv~~l~~~~ 518 (1044)
.|..-.+. |. .+ .+.. . ...+... ....+...++.++.. . .-..|+++|+..+..+++..
T Consensus 269 ~i~~~~~~-~~~~~~~l~~---L-ek~l~~~~~~~~~~~~~~I~i~~~-~----------~~~~Eae~va~~I~~l~~~~ 332 (1158)
T TIGR02773 269 PIFLNEYR-PNKKNKELAH---L-EKQFDARPFNAYIEEDGSISIFEA-N----------NRRAEVEGVARQILRLTRDK 332 (1158)
T ss_pred cccccccc-CCCCCHHHHH---H-HHHHhhCCCCCCCCCCCCeEEEEc-C----------CHHHHHHHHHHHHHHHHHcC
Confidence 44321111 10 00 0000 0 0000000 000010123333322 1 12469999999998888652
Q ss_pred hcccCCccEEEEccc-HHHHHHHHHHhccc
Q 041971 519 IDSKEKLSIGIVSPY-SAQVVAIQEKLGSK 547 (1044)
Q Consensus 519 ~~~~~~~~IgVItpy-~~Q~~~i~~~L~~~ 547 (1044)
....++|+|+++. +.+...|...|.+.
T Consensus 333 --g~~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 333 --QYRYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred --CCChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 2356799999999 89999999998763
No 48
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.12 E-value=9e-07 Score=107.76 Aligned_cols=281 Identities=21% Similarity=0.212 Sum_probs=182.9
Q ss_pred CcEEEEcCccchh--hccccCCCCCEEEEEcCCCCCchhhhhhccccC-ccEEEEEcCCCCCCccccccccccccccCcH
Q 041971 344 ASLFLSTASSSYM--LHSVAMEPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSNEACFGRSL 420 (1044)
Q Consensus 344 a~vI~~T~ss~~~--l~~~~~~~fd~vIIDEAsq~~e~~~lipl~l~~-~~~~ILVGD~~QL~P~v~~~~~~~~~~~~Sl 420 (1044)
.+|.+.|...+.. ......+.+.+++.|||.++.+++.+.|+.++. ..+++|.||+.|+-|.+.+....+..+. .+
T Consensus 243 Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~ 321 (775)
T KOG1804|consen 243 HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LL 321 (775)
T ss_pred cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hc
Confidence 5777777665442 223334568899999999999999999987654 4799999999999998876554433332 22
Q ss_pred HHHHH----hcCCCccccccccccCccccccccccccCCcccccccccccchhhhccCCCCCCCceEeecCCCcccc--c
Q 041971 421 FERLS----YLGYSKHLLSIQYRMHPSISCFPNSYFYENKIRDSSTVRKRSYEKRFLHGPMYGPYSFINVFGGREEF--I 494 (1044)
Q Consensus 421 ferl~----~~~~~~~~L~~qyR~~p~I~~~~n~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~fi~v~~g~e~~--~ 494 (1044)
..++. -.+-+.+-.+.+||++-.|..|....||... ..+....-.. .......+..|... .+.... .
T Consensus 322 ~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~--~~p~~a~~k~----~~~rl~~p~~~~~~-~~~~~~~~~ 394 (775)
T KOG1804|consen 322 LCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILV--CAPSNASGKQ----PAHRLHYPLTFSTA-RGEDVRAKS 394 (775)
T ss_pred ccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhc--cccccccccc----cccccccccccccc-ccccccccc
Confidence 22221 1245566789999999999999999999643 2222211110 11111334555554 222222 4
Q ss_pred ccccccHHHHHHHHHHHHHHHHhhhcc---cCCccEEEEcccHHHHHHHHHHhccccccCCCCcEEEcccCCCCCCccc-
Q 041971 495 EHSCRNMVEVSVVMKILLNLYKAWIDS---KEKLSIGIVSPYSAQVVAIQEKLGSKYVNSAGFAVKVMSIDGFQGGEED- 570 (1044)
Q Consensus 495 ~~s~~N~~Ea~~v~~lv~~l~~~~~~~---~~~~~IgVItpy~~Q~~~i~~~L~~~~~~~~~~~v~V~TVd~~QG~E~D- 570 (1044)
...++|..|+..++.-+..+.+.+... -...++|++++|..|+..++..|.+.. ++.+...--.+|..+.
T Consensus 395 ~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeA------g~stEpe~lv~i~~~~~ 468 (775)
T KOG1804|consen 395 STAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEA------GVSTEPELLVPGKQFRQ 468 (775)
T ss_pred hhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeeccc------ccccCcccccccccccc
Confidence 456678888888888888887655322 134579999999999999998884431 2233333334444443
Q ss_pred --EEEEeecccCCC------CcccccCCCccceecccccceeEEEEeechhhccc---chHHHHHHHHHhhCCceeecC
Q 041971 571 --LIIISTVRSNNG------GSIGFLSNSKRVNVALTRARHCLWILGNARTLTRK---KSVWEALVHDANARQCFFNAD 638 (1044)
Q Consensus 571 --iVIls~vrs~~~------~~~gfl~~~~RlNVAlTRAk~~liIvG~~~~l~~~---~~~w~~li~~~~~~~~~~~~~ 638 (1044)
.||+++....-+ ..-.+..+...+|.|+|||-...-.+|+.+.+..- ..+|.+.+..+-.+.-+|...
T Consensus 469 ~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~e 547 (775)
T KOG1804|consen 469 PFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGE 547 (775)
T ss_pred eeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccc
Confidence 566666543211 01112235888999999999999999999877533 468888888877776665543
No 49
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.05 E-value=1e-06 Score=82.62 Aligned_cols=50 Identities=32% Similarity=0.333 Sum_probs=39.9
Q ss_pred cEEEcccCCCCCCcccEEEEeecccCCCCcccccCCCccceecccccceeEEEE
Q 041971 555 AVKVMSIDGFQGGEEDLIIISTVRSNNGGSIGFLSNSKRVNVALTRARHCLWIL 608 (1044)
Q Consensus 555 ~v~V~TVd~~QG~E~DiVIls~vrs~~~~~~gfl~~~~RlNVAlTRAk~~liIv 608 (1044)
.+.+.|+|++||.|+|.||+....... .-....++++||+||||+.|+||
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 688999999999999999999886651 11335677999999999999997
No 50
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.03 E-value=2e-05 Score=81.73 Aligned_cols=73 Identities=25% Similarity=0.214 Sum_probs=62.1
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
....+++.|.+++..++.. ....+|.||+|||||+++...+..++..+ .++|+++||+.++.++..++....
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~------~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSG------LRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred CCCCCCHHHHHHHHHHHcC------CCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 3568999999999988763 16899999999999999888888877765 799999999999999999888665
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 79 ~ 79 (201)
T smart00487 79 P 79 (201)
T ss_pred c
Confidence 3
No 51
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.02 E-value=1.4e-05 Score=82.59 Aligned_cols=72 Identities=18% Similarity=0.292 Sum_probs=59.5
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
++|.+.|.+|+..++..+.-....+..+|+||+|||||.++..++..+.. ++++++|+..-+++..+.+...
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHHh
Confidence 46899999999999975432223588999999999999999999988887 9999999999999988888543
No 52
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.94 E-value=0.00013 Score=91.01 Aligned_cols=75 Identities=25% Similarity=0.188 Sum_probs=64.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
......|++.|++|+..+...+ .....++.||+|+|||.+...++...+..|.++|+++||..-+.++.+++.+.
T Consensus 139 ~~~~~~Lt~~Q~~ai~~i~~~~----~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 139 AFEPPTLNPEQAAAVEAIRAAA----GFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred ccCCCCCCHHHHHHHHHHHhcc----CCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 3456689999999999988732 23569999999999999988888888888999999999999999999988754
No 53
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=97.79 E-value=9.2e-05 Score=75.51 Aligned_cols=67 Identities=25% Similarity=0.277 Sum_probs=54.9
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC--cEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF--RTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~--rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
+|-|.+|+..+.+. .-.+|.||+|+|||......+...+..+. ++++++|+...++++.+++.+...
T Consensus 1 t~~Q~~~~~~i~~~-------~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~ 69 (169)
T PF00270_consen 1 TPLQQEAIEAIISG-------KNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFS 69 (169)
T ss_dssp -HHHHHHHHHHHTT-------SEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHHcC-------CCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccc
Confidence 57899999999864 55999999999999998765555444434 999999999999999999986643
No 54
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=97.73 E-value=7.6e-05 Score=72.56 Aligned_cols=51 Identities=29% Similarity=0.380 Sum_probs=45.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
..+|.||||||||+++...+..+.. .+.++++++|++..+.++.+++....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~ 54 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELF 54 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHh
Confidence 3689999999999999998888877 45799999999999999999887654
No 55
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=97.66 E-value=0.00035 Score=83.07 Aligned_cols=70 Identities=30% Similarity=0.254 Sum_probs=54.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh------CCCcEEEEcCCHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ------MKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~------~~~rILv~A~TN~AVd~v~~rL 97 (1044)
...+++-|.+|+..++.. .-.++.+|+|||||.... .++..++. .+.++|+++||...+.++.+.+
T Consensus 21 ~~~p~~iQ~~ai~~~~~g-------~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~ 93 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDG-------RDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQA 93 (434)
T ss_pred CCCCCHHHHHHHHHHhCC-------CCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHH
Confidence 456889999999999875 459999999999998754 33444432 1358999999999999998888
Q ss_pred HHHH
Q 041971 98 VKLV 101 (1044)
Q Consensus 98 ~~~~ 101 (1044)
..+.
T Consensus 94 ~~l~ 97 (434)
T PRK11192 94 RELA 97 (434)
T ss_pred HHHH
Confidence 7664
No 56
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.60 E-value=8.2e-05 Score=80.61 Aligned_cols=112 Identities=23% Similarity=0.329 Sum_probs=69.1
Q ss_pred cccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh---CCCcEE-EEcCCHHHHH
Q 041971 16 WNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ---MKFRTL-VCTPTNVAIK 91 (1044)
Q Consensus 16 ~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~---~~~rIL-v~A~TN~AVd 91 (1044)
|.+.+.+...-.+ ..|..+|....+++.. ...+..|..||||||||+|+.++...|.. .+++|| .||.--..+.
T Consensus 26 wteKYrPkt~de~-~gQe~vV~~L~~a~~~-~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis 103 (346)
T KOG0989|consen 26 WTEKYRPKTFDEL-AGQEHVVQVLKNALLR-RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS 103 (346)
T ss_pred hHHHhCCCcHHhh-cchHHHHHHHHHHHhh-cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc
Confidence 6666655554444 3788888777776554 56789999999999999999999999876 356776 4444333333
Q ss_pred HHHHHHHHHHHHhhhhccccCCCCCCCcEEEecCCccc
Q 041971 92 ELAARVVKLVKESVERDCRDALFFPLGDILLLGNNERL 129 (1044)
Q Consensus 92 ~v~~rL~~~~~~~~~~~g~~~~~~~~~~ivr~G~~~~~ 129 (1044)
.+-+++..+..-.....+....+++.-.|+-+..-+.|
T Consensus 104 vvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsm 141 (346)
T KOG0989|consen 104 VVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSM 141 (346)
T ss_pred chhhhhcCHHHHhhccccccCCCCCcceEEEEechhhh
Confidence 44444443322211111223345555566666666555
No 57
>PRK08181 transposase; Validated
Probab=97.47 E-value=0.00045 Score=76.15 Aligned_cols=63 Identities=22% Similarity=0.383 Sum_probs=49.1
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.|.-.....++..|..|+..+-.-. ......+++||||||||+++.++...++..|.+|+.++
T Consensus 79 ~fd~~~~~~~~~~~~~~L~~~~~~~---~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 79 SFDFEAVPMVSKAQVMAIAAGDSWL---AKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR 141 (269)
T ss_pred hCCccCCCCCCHHHHHHHHHHHHHH---hcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence 3444445678999999997763211 12355899999999999999999999999999998876
No 58
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.47 E-value=0.00028 Score=88.28 Aligned_cols=89 Identities=21% Similarity=0.327 Sum_probs=72.5
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
+.+...|....++.|++.|++|+..+...+... .+--.|++||.|||||.+....+...+..|.++|++|||..-+.++
T Consensus 248 ~~~~~~~~~~l~f~lt~~Q~~ai~~I~~d~~~~-~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~ 326 (681)
T PRK10917 248 GELLKKFLASLPFELTGAQKRVVAEILADLASP-KPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQH 326 (681)
T ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHhhhcc-CCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHH
Confidence 344455667788999999999999998864321 1235799999999999998777666777899999999999999999
Q ss_pred HHHHHHHHHH
Q 041971 94 AARVVKLVKE 103 (1044)
Q Consensus 94 ~~rL~~~~~~ 103 (1044)
.+++.+++..
T Consensus 327 ~~~l~~l~~~ 336 (681)
T PRK10917 327 YENLKKLLEP 336 (681)
T ss_pred HHHHHHHHhh
Confidence 9999987653
No 59
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.40 E-value=0.00035 Score=86.74 Aligned_cols=84 Identities=20% Similarity=0.349 Sum_probs=68.3
Q ss_pred cccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 18 ETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 18 ~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
..+....++.|++.|++|+..++..+.-. .+-..+|+||.|||||.+....+...+..|.++++++||..-+.++.+.+
T Consensus 226 ~~~~~~lpf~lt~~Q~~ai~~I~~~~~~~-~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~ 304 (630)
T TIGR00643 226 TKFLASLPFKLTRAQKRVVKEILQDLKSD-VPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HHHHHhCCCCCCHHHHHHHHHHHHHhccC-CCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHH
Confidence 34556778999999999999998864211 12246999999999999887666667778999999999999999999999
Q ss_pred HHHHH
Q 041971 98 VKLVK 102 (1044)
Q Consensus 98 ~~~~~ 102 (1044)
.+++.
T Consensus 305 ~~l~~ 309 (630)
T TIGR00643 305 RNLLA 309 (630)
T ss_pred HHHhc
Confidence 87764
No 60
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.39 E-value=0.00044 Score=75.07 Aligned_cols=65 Identities=18% Similarity=0.206 Sum_probs=48.1
Q ss_pred CHHHHHHHHHHHHhcccc-CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 29 NDSQAQAVLSCLRQMRCD-HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~-~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
++.|+.|+..+..-.... +.....+++||||||||+++.+++..+...|.++++++ +.++..++.
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-----VADIMSAMK 143 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-----HHHHHHHHH
Confidence 567888887776542211 11247899999999999999999999999999998885 344555554
No 61
>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=97.35 E-value=0.00026 Score=79.79 Aligned_cols=67 Identities=25% Similarity=0.334 Sum_probs=51.4
Q ss_pred cCHHHhhhhcC-CCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeEE
Q 041971 874 VTDEQLEMILS-PRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQL 952 (1044)
Q Consensus 874 lt~~e~~iI~~-~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~ 952 (1044)
||+||.++|.+ .++++|.|-.||||||+++.|+... +... ..+.-+.+
T Consensus 1 l~~eQ~~~i~~~~~~~lV~a~AGSGKT~~l~~ri~~l-----l~~~--------------------------~~~~~~Il 49 (315)
T PF00580_consen 1 LTDEQRRIIRSTEGPLLVNAGAGSGKTTTLLERIAYL-----LYEG--------------------------GVPPERIL 49 (315)
T ss_dssp S-HHHHHHHHS-SSEEEEEE-TTSSHHHHHHHHHHHH-----HHTS--------------------------SSTGGGEE
T ss_pred CCHHHHHHHhCCCCCEEEEeCCCCCchHHHHHHHHHh-----hccc--------------------------cCChHHhe
Confidence 78999999976 8899999999999999999987432 1110 01224589
Q ss_pred EEecCHHHHHHHHHHHHHH
Q 041971 953 FVTVSPKLCFAIKQHISQM 971 (1044)
Q Consensus 953 FvT~s~~L~~~v~~~~~~l 971 (1044)
.+|-+...|.++++.+...
T Consensus 50 ~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 50 VLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp EEESSHHHHHHHHHHHHHH
T ss_pred ecccCHHHHHHHHHHHHHh
Confidence 9999999999999988874
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=97.32 E-value=0.00066 Score=82.13 Aligned_cols=68 Identities=21% Similarity=0.207 Sum_probs=59.0
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC-cEEEEcCCHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF-RTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~-rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
..|.+-|.+||..++.. .-.++++|.|+|||.++..++..++..+. ++|+++||...+++..+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~~-------~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKN-------NRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHhc-------CceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 68999999999999875 45699999999999988777766666655 9999999999999999999865
No 63
>PRK12377 putative replication protein; Provisional
Probab=97.32 E-value=0.00036 Score=75.92 Aligned_cols=62 Identities=24% Similarity=0.163 Sum_probs=44.0
Q ss_pred CHHHHHHHHHHHHhcccc-CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHH
Q 041971 29 NDSQAQAVLSCLRQMRCD-HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIK 91 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~-~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd 91 (1044)
++.|+.|+..+..-..-. ......+++||||||||+++.+++..++..|..+++++. +..+.
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~-~~l~~ 142 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTV-PDVMS 142 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEH-HHHHH
Confidence 467877776554332111 123568999999999999999999999999988866653 34443
No 64
>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=97.28 E-value=0.00094 Score=70.49 Aligned_cols=69 Identities=23% Similarity=0.149 Sum_probs=55.9
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHH-HHHHHHHHhC----CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTV-SMLLVILLQM----KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti-~~ll~~Ll~~----~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
..+++-|++|+...++. .-.+|.+|+|+|||.+. ..++..+... +.++++++||..-+.++...+...
T Consensus 20 ~~~~~~Q~~~~~~~~~~-------~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 20 EKPTPIQARAIPPLLSG-------RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCCHHHHHHHHHHhcC-------CcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 35899999999988874 56899999999999884 4555666554 458999999999999888888765
Q ss_pred H
Q 041971 101 V 101 (1044)
Q Consensus 101 ~ 101 (1044)
.
T Consensus 93 ~ 93 (203)
T cd00268 93 G 93 (203)
T ss_pred h
Confidence 3
No 65
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.27 E-value=0.00042 Score=84.19 Aligned_cols=71 Identities=32% Similarity=0.430 Sum_probs=59.6
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC----cEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF----RTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~----rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
..-|+.+|+.++..-+. ..-+|+| ||+|||.++...+++++..+. .|++.+.||.|++.+.+++...
T Consensus 11 ~~~l~~~q~~~~~~~~~--------~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~i 81 (853)
T KOG2108|consen 11 YSLLNKSQRFSALSPLR--------RKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAI 81 (853)
T ss_pred hhhhhhhhhhhhcCCCc--------ccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHH
Confidence 45788899988876533 6788888 999999999999999987653 6999999999999999999988
Q ss_pred HHHh
Q 041971 101 VKES 104 (1044)
Q Consensus 101 ~~~~ 104 (1044)
++..
T Consensus 82 l~~~ 85 (853)
T KOG2108|consen 82 LRTS 85 (853)
T ss_pred hcCC
Confidence 7654
No 66
>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=97.26 E-value=0.00092 Score=65.52 Aligned_cols=60 Identities=22% Similarity=0.293 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
+.+..++...+.. ......+|+||||||||+++..++..+...+..++.+..+..+....
T Consensus 4 ~~~~~~i~~~~~~----~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~ 63 (151)
T cd00009 4 EEAIEALREALEL----PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLV 63 (151)
T ss_pred HHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhH
Confidence 3455555555432 34578999999999999999999988887788888887766555443
No 67
>PRK06526 transposase; Provisional
Probab=97.22 E-value=0.00071 Score=74.12 Aligned_cols=61 Identities=25% Similarity=0.230 Sum_probs=44.6
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 20 FGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 20 ~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
|.-.....++..|...+..+-- + ..+...+++||||||||+++.++...++..|.+|++.+
T Consensus 73 fd~~~~~~~~~~~~~~l~~~~f-i---~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t 133 (254)
T PRK06526 73 FDFDHQRSLKRDTIAHLGTLDF-V---TGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFAT 133 (254)
T ss_pred ccCccCCCcchHHHHHHhcCch-h---hcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhh
Confidence 3334455788877766543311 1 12456899999999999999999999999999987743
No 68
>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=97.21 E-value=0.00052 Score=67.31 Aligned_cols=50 Identities=24% Similarity=0.416 Sum_probs=42.5
Q ss_pred CceEEEEccCCCcHHH-HHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTK-TVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~-ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
..+++|.=.||+|||+ ++-.++...+.++.|+||++||...+++|.+-|.
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTT
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHh
Confidence 5789999999999999 6889999999999999999999999999988875
No 69
>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=97.17 E-value=0.00056 Score=71.17 Aligned_cols=48 Identities=29% Similarity=0.221 Sum_probs=39.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
+.+|.||||||||+++..++...++.|.++++++.. ...+++.+++..
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e-~~~~~~~~~~~~ 48 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLE-ESPEELIENAES 48 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECC-CCHHHHHHHHHH
Confidence 378999999999999999999999999999999864 445666666543
No 70
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.12 E-value=0.001 Score=69.38 Aligned_cols=79 Identities=24% Similarity=0.324 Sum_probs=58.9
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEE-EEcCCHHHHHHHHHHHHHHHHHhhhhccccCCCCCCCcEEE
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTL-VCTPTNVAIKELAARVVKLVKESVERDCRDALFFPLGDILL 122 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rIL-v~A~TN~AVd~v~~rL~~~~~~~~~~~g~~~~~~~~~~ivr 122 (1044)
.++-+-.+|.|||||||||.+..++..|+.. +..+| +-|.....+|.+..++..+...... .+-+..+|+-
T Consensus 45 ~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~kv~------lp~grhKIiI 118 (333)
T KOG0991|consen 45 EGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQKKVT------LPPGRHKIII 118 (333)
T ss_pred cCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHHhhcc------CCCCceeEEE
Confidence 3566889999999999999999999999874 33455 5566778899999999887765332 2223346787
Q ss_pred ecCCcccc
Q 041971 123 LGNNERLK 130 (1044)
Q Consensus 123 ~G~~~~~~ 130 (1044)
+...+.|.
T Consensus 119 LDEADSMT 126 (333)
T KOG0991|consen 119 LDEADSMT 126 (333)
T ss_pred eeccchhh
Confidence 77777764
No 71
>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=97.12 E-value=0.001 Score=85.06 Aligned_cols=89 Identities=17% Similarity=0.165 Sum_probs=70.0
Q ss_pred cCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHH
Q 041971 13 EGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKE 92 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~ 92 (1044)
++.|...|.....+.+++.|.+|+..+++.+.-.. +--.+|+||.|||||.+....+...+..|.++++++||..-+.+
T Consensus 437 ~~~~~~~~~~~~~f~~T~~Q~~aI~~I~~d~~~~~-~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q 515 (926)
T TIGR00580 437 DLEWQQEFEDSFPFEETPDQLKAIEEIKADMESPR-PMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQ 515 (926)
T ss_pred CHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhcccC-cCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHH
Confidence 34455555555678899999999999998654321 22369999999999998876666666788999999999999999
Q ss_pred HHHHHHHHHH
Q 041971 93 LAARVVKLVK 102 (1044)
Q Consensus 93 v~~rL~~~~~ 102 (1044)
..+.+.+.+.
T Consensus 516 ~~~~f~~~~~ 525 (926)
T TIGR00580 516 HFETFKERFA 525 (926)
T ss_pred HHHHHHHHhc
Confidence 9999887654
No 72
>PRK08116 hypothetical protein; Validated
Probab=97.11 E-value=0.0018 Score=71.66 Aligned_cols=57 Identities=18% Similarity=0.269 Sum_probs=42.8
Q ss_pred CCHHHHHHHHHHHHhcccc----CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 28 LNDSQAQAVLSCLRQMRCD----HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~----~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
-++.|..|+..+..-+.-. ..+...+++||||||||+++.+++..++..+.++++++
T Consensus 89 ~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 89 FDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred CChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 4678887776665332211 12335899999999999999999999998888887776
No 73
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.09 E-value=0.0012 Score=86.25 Aligned_cols=89 Identities=20% Similarity=0.168 Sum_probs=71.8
Q ss_pred CcCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHH
Q 041971 12 SEGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIK 91 (1044)
Q Consensus 12 ~~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd 91 (1044)
.+..|...|....++.+++.|.+|+..++..+.- ..+--.||+||.|||||.++...+...+..|.++|+++||..-+.
T Consensus 585 ~~~~~~~~~~~~~~~~~T~~Q~~aI~~il~d~~~-~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~ 663 (1147)
T PRK10689 585 HDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQ-PLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQ 663 (1147)
T ss_pred CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhhc-CCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHH
Confidence 3456666677778899999999999999986532 222347999999999999877666666678999999999999999
Q ss_pred HHHHHHHHHH
Q 041971 92 ELAARVVKLV 101 (1044)
Q Consensus 92 ~v~~rL~~~~ 101 (1044)
++.+.+.+.+
T Consensus 664 Q~~~~f~~~~ 673 (1147)
T PRK10689 664 QHYDNFRDRF 673 (1147)
T ss_pred HHHHHHHHhh
Confidence 9999887654
No 74
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.03 E-value=0.0011 Score=72.82 Aligned_cols=54 Identities=22% Similarity=0.284 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHhc-cccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 30 DSQAQAVLSCLRQM-RCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~-~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
..+++|+..+..-. .++ +..-.++.||||||||++++++...+++.|.+|++++
T Consensus 86 ~~~~~~l~~~~~~~~~~~-~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~ 140 (254)
T COG1484 86 GIDKKALEDLASLVEFFE-RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT 140 (254)
T ss_pred chhHHHHHHHHHHHHHhc-cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence 35666665554432 122 5677899999999999999999999998899998887
No 75
>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=97.02 E-value=0.00092 Score=69.29 Aligned_cols=38 Identities=26% Similarity=0.488 Sum_probs=31.1
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
....-.++.||||||||+++.+++..++..|..++.+.
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~ 82 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT 82 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence 34567999999999999999999999999999998886
No 76
>PTZ00424 helicase 45; Provisional
Probab=96.95 E-value=0.0024 Score=75.13 Aligned_cols=69 Identities=20% Similarity=0.224 Sum_probs=53.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh---CCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ---MKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~---~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
...+++-|.+|+..++.. .-.+|.+|+|||||.+....+...+. .+.++|+++||..-+.++.+.+..+
T Consensus 48 ~~~~~~~Q~~ai~~i~~~-------~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDG-------YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCCHHHHHHHHHHhCC-------CCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 346899999999999875 44789999999999876544444443 3568999999999888877666544
No 77
>PRK09183 transposase/IS protein; Provisional
Probab=96.86 E-value=0.0021 Score=70.83 Aligned_cols=61 Identities=18% Similarity=0.187 Sum_probs=45.0
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 20 FGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 20 ~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
|.-.....+|..|...+..+-- -......+|+||||||||+++.++...++..|.+|+++.
T Consensus 77 fd~~~~~~~~~~~i~~L~~~~~----i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 77 YDFTFATGAPQKQLQSLRSLSF----IERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred cccccCCCCCHHHHHHHhcCCc----hhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 3334456777777777654311 123467889999999999999999888888899998775
No 78
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.85 E-value=0.00086 Score=65.06 Aligned_cols=42 Identities=26% Similarity=0.282 Sum_probs=32.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAI 90 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AV 90 (1044)
....+|.||||||||+++..++..+...+..++.++.+....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~ 43 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILE 43 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccc
Confidence 367899999999999999999888877665666666655443
No 79
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.83 E-value=0.0025 Score=69.16 Aligned_cols=40 Identities=13% Similarity=0.152 Sum_probs=34.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
..+..+|+||||||||+++.++...+...|.+++.++...
T Consensus 44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 3467899999999999999999998888899988877644
No 80
>PRK06893 DNA replication initiation factor; Validated
Probab=96.83 E-value=0.0014 Score=70.90 Aligned_cols=39 Identities=15% Similarity=0.260 Sum_probs=33.6
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
.++..+++||||||||+++.++...+...+.++..+..+
T Consensus 38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 356789999999999999999999999988888776653
No 81
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.82 E-value=0.0016 Score=71.85 Aligned_cols=67 Identities=24% Similarity=0.393 Sum_probs=46.2
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
|.-.+.+.+..-.| +-.++|||||||||+++..++..--....+.+-++-||.-+.++..-+.+.-.
T Consensus 149 q~gllrs~ieq~~i----pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~ 215 (554)
T KOG2028|consen 149 QDGLLRSLIEQNRI----PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQN 215 (554)
T ss_pred cchHHHHHHHcCCC----CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHH
Confidence 44445555555344 66899999999999976655544333345788888899888888777665543
No 82
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.81 E-value=0.0034 Score=74.64 Aligned_cols=74 Identities=24% Similarity=0.283 Sum_probs=61.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
......|.+-|++|+.+......- .+-.+|.-|+|+|||.+.+.++..+-.. +|+++||...+++..+++.+..
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~~ 104 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKFL 104 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhccc---CCceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHhc
Confidence 455678999999999999884211 4788999999999999999888876544 9999999999999998887654
No 83
>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=96.77 E-value=0.0029 Score=83.12 Aligned_cols=77 Identities=22% Similarity=0.241 Sum_probs=64.8
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
.|.....+.+.+-|+.++..++.. .-.++.+|+|||||.++..++..+...+.++|+++||..-+.++.+++.
T Consensus 70 ~f~~~~g~~p~~iQ~~~i~~il~G-------~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~ 142 (1171)
T TIGR01054 70 FFKKAVGSEPWSIQKMWAKRVLRG-------DSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKIS 142 (1171)
T ss_pred HHHHhcCCCCcHHHHHHHHHHhCC-------CeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHH
Confidence 345556678999999999999875 5678999999999987666666666678899999999999999999998
Q ss_pred HHHH
Q 041971 99 KLVK 102 (1044)
Q Consensus 99 ~~~~ 102 (1044)
++..
T Consensus 143 ~l~~ 146 (1171)
T TIGR01054 143 SLAE 146 (1171)
T ss_pred HHHH
Confidence 8765
No 84
>PRK14974 cell division protein FtsY; Provisional
Probab=96.77 E-value=0.0045 Score=70.39 Aligned_cols=45 Identities=29% Similarity=0.404 Sum_probs=37.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC---HHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT---NVAIKEL 93 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T---N~AVd~v 93 (1044)
+.+.++.||||+|||||++.++..+...|.+|++++.. ..|++++
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL 187 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQL 187 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHH
Confidence 57899999999999999999999998888898776543 4555554
No 85
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=96.76 E-value=0.0036 Score=79.28 Aligned_cols=66 Identities=20% Similarity=0.306 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
+.+..+..++.. +...+|+||||||||+.+...+......+.+|+++.||..|+.++++|+.+...
T Consensus 5 ~~~~~i~~~l~~------~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~~ 70 (819)
T TIGR01970 5 AVLPALRDALAA------HPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQLG 70 (819)
T ss_pred HHHHHHHHHHHc------CCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 456667777764 689999999999999988765544444567999999999999999999976654
No 86
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.74 E-value=0.0021 Score=69.37 Aligned_cols=51 Identities=29% Similarity=0.370 Sum_probs=40.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcCCHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
.+++.+|.||||||||.+....+...+.. |.+++.+|....+ +++.+++..
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~s 69 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMKS 69 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHHT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHHH
Confidence 46899999999999999999999888888 9999999965555 666666653
No 87
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=96.71 E-value=0.0027 Score=69.98 Aligned_cols=51 Identities=18% Similarity=0.094 Sum_probs=41.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...+++|.||||||||++...++...+..|.+++.++.-. ..+.+.+++..
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee-~~~~~~~~l~~ 85 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES-PANFVYTSLKE 85 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC-CchHHHHHHHH
Confidence 4689999999999999999999998888899999998753 33555555543
No 88
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.70 E-value=0.0051 Score=73.80 Aligned_cols=71 Identities=24% Similarity=0.274 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhC--CCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQM--KFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~--~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
...++|-|.+|+..++.. .-.+++||.|||||.+.. .++..+... +.++|+++||..-+.++.+.+..+.
T Consensus 24 ~~~~t~iQ~~ai~~~l~g-------~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAG-------KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCCHHHHHHHHHHhcC-------CCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 356899999999998875 569999999999997644 333333222 3479999999999999998887664
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 97 ~ 97 (460)
T PRK11776 97 R 97 (460)
T ss_pred h
Confidence 3
No 89
>PRK08727 hypothetical protein; Validated
Probab=96.70 E-value=0.009 Score=64.80 Aligned_cols=37 Identities=24% Similarity=0.187 Sum_probs=32.8
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
....+|+||||||||+++.++...+...|.++..++.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 3569999999999999999999999999998887763
No 90
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.69 E-value=0.0036 Score=79.39 Aligned_cols=67 Identities=21% Similarity=0.353 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
+.+..+..++.. +...+|+||||||||+.+...+..-...+.+|+++.||..|+.++++++.+.+.+
T Consensus 8 ~~~~~i~~~l~~------~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l~~ 74 (812)
T PRK11664 8 AVLPELLTALKT------APQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQLGE 74 (812)
T ss_pred HHHHHHHHHHHh------CCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHhCc
Confidence 456667777764 4789999999999999886433322223458999999999999999999766543
No 91
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.69 E-value=0.0025 Score=65.94 Aligned_cols=51 Identities=20% Similarity=0.188 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEE
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTL 81 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rIL 81 (1044)
++|.+.+...+. +...+.+.+.+|.||||||||+++..++..+...+.-++
T Consensus 6 ~~e~~~l~~~l~-~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~ 56 (185)
T PF13191_consen 6 EEEIERLRDLLD-AAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVI 56 (185)
T ss_dssp HHHHHHHHHTTG-GTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EE
T ss_pred HHHHHHHHHHHH-HHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEE
Confidence 467777888876 455677899999999999999999998888887754343
No 92
>PRK09401 reverse gyrase; Reviewed
Probab=96.64 E-value=0.0039 Score=81.83 Aligned_cols=78 Identities=18% Similarity=0.175 Sum_probs=64.4
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
.|.....+.+++-|+.|+..++.. .-.++.+|.|||||.++..++..+...+.++|+++||..-+.++.+++.
T Consensus 72 ~f~~~~G~~pt~iQ~~~i~~il~g-------~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~ 144 (1176)
T PRK09401 72 FFKKKTGSKPWSLQRTWAKRLLLG-------ESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLE 144 (1176)
T ss_pred HHHHhcCCCCcHHHHHHHHHHHCC-------CcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHH
Confidence 344455678999999999999875 6678999999999987665555566678899999999999999999999
Q ss_pred HHHHH
Q 041971 99 KLVKE 103 (1044)
Q Consensus 99 ~~~~~ 103 (1044)
++...
T Consensus 145 ~l~~~ 149 (1176)
T PRK09401 145 KFGEK 149 (1176)
T ss_pred HHhhh
Confidence 88653
No 93
>PRK01172 ski2-like helicase; Provisional
Probab=96.64 E-value=0.0053 Score=77.21 Aligned_cols=71 Identities=15% Similarity=0.122 Sum_probs=58.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 23 SLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 23 ~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
...+.|++-|.+|+....+. ...+|.+|.|+|||.+....+...+..+.++++++|+..-+.+..+.+.++
T Consensus 18 ~~~~~l~~~Q~~ai~~l~~~-------~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 18 GNDFELYDHQRMAIEQLRKG-------ENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred hCCCCCCHHHHHHHHHHhcC-------CcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHHH
Confidence 34567999999999987553 679999999999999876555555566889999999999999988888753
No 94
>PRK06851 hypothetical protein; Provisional
Probab=96.62 E-value=0.0017 Score=74.35 Aligned_cols=46 Identities=24% Similarity=0.419 Sum_probs=41.0
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCc--EEEEcCCHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFR--TLVCTPTNVAIKELA 94 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~r--ILv~A~TN~AVd~v~ 94 (1044)
..+.+|.|||||||||++..++..+...|.. .+.|+..|.++|-|.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 4889999999999999999999999988876 689999999998543
No 95
>PRK05973 replicative DNA helicase; Provisional
Probab=96.61 E-value=0.0033 Score=67.84 Aligned_cols=53 Identities=21% Similarity=0.187 Sum_probs=44.1
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.+..+++|.|+||+|||++...++...+..|.++++.+.--. .+++.+|+...
T Consensus 62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~ 114 (237)
T PRK05973 62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRAL 114 (237)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHc
Confidence 456799999999999999999999988888999998886555 46777777643
No 96
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=96.60 E-value=0.0036 Score=69.11 Aligned_cols=54 Identities=24% Similarity=0.255 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
...+.+.|.+++..++.. ..++.+|.||+|+||||++.+++..+...+.+|+++
T Consensus 61 ~lg~~~~~~~~l~~~~~~-----~~GlilisG~tGSGKTT~l~all~~i~~~~~~iiti 114 (264)
T cd01129 61 KLGLKPENLEIFRKLLEK-----PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITV 114 (264)
T ss_pred HcCCCHHHHHHHHHHHhc-----CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEE
Confidence 345788999999888764 458999999999999999999888876555566654
No 97
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=96.59 E-value=0.0032 Score=68.51 Aligned_cols=52 Identities=21% Similarity=0.200 Sum_probs=43.4
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
....+.+|.||||||||+++..++...+..|.+++++|.. ...+++.+++..
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e-e~~~~i~~~~~~ 70 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE-EHPVQVRRNMAQ 70 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee-CCHHHHHHHHHH
Confidence 3468999999999999999999988888889999999954 566677777654
No 98
>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=96.57 E-value=0.004 Score=60.46 Aligned_cols=48 Identities=27% Similarity=0.434 Sum_probs=33.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHH---HHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVA---IKELAARVVKLVK 102 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~A---Vd~v~~rL~~~~~ 102 (1044)
.+|.||||||||+++..++..+ +..++-+...... +.+...++.+.+.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~~~~~~~~i~~~~~ 51 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSYAGDSEQKIRDFFK 51 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSSTTHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccccccccccccccccc
Confidence 3799999999999999888886 5666666655554 3344444444443
No 99
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=96.56 E-value=0.0069 Score=67.48 Aligned_cols=39 Identities=33% Similarity=0.391 Sum_probs=32.0
Q ss_pred CCEEEEEcCCCCCchhhhhhcccc-CccEEEEEcCCCCCC
Q 041971 365 LNFLVIDEAAQLKESESTIPLQLS-GIKHAVLFGDECQLP 403 (1044)
Q Consensus 365 fd~vIIDEAsq~~e~~~lipl~l~-~~~~~ILVGD~~QL~ 403 (1044)
=..||||||+-++..++...+... ...++|+.||+.|.-
T Consensus 352 ~~FiIIDEaQNLTpheikTiltR~G~GsKIVl~gd~aQiD 391 (436)
T COG1875 352 DSFIIIDEAQNLTPHELKTILTRAGEGSKIVLTGDPAQID 391 (436)
T ss_pred cceEEEehhhccCHHHHHHHHHhccCCCEEEEcCCHHHcC
Confidence 368999999999999877766533 347999999999973
No 100
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.53 E-value=0.0042 Score=67.18 Aligned_cols=50 Identities=20% Similarity=0.215 Sum_probs=40.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
...+.+|.||||||||+++..++..+++.|.+++.++... ..+++.+.+.
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~-~~~~~~~~~~ 72 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQL-TTTEFIKQMM 72 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHH
Confidence 3579999999999999999999998988999998888544 4455555553
No 101
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.50 E-value=0.0024 Score=62.12 Aligned_cols=54 Identities=26% Similarity=0.396 Sum_probs=36.8
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhC-----CCcE-EEEcCCHHHHHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQM-----KFRT-LVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-----~~rI-Lv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.++.+|.||||+|||+++..++..+... +.++ .+.++.......+...+...+.
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 5789999999999999999999988763 4444 4444444447777777776554
No 102
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.50 E-value=0.0047 Score=69.81 Aligned_cols=49 Identities=22% Similarity=0.426 Sum_probs=37.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
-+-++.||||||||||++..+.. ..+......+.+...|.++.+-+.+.
T Consensus 48 l~SmIl~GPPG~GKTTlA~liA~---~~~~~f~~~sAv~~gvkdlr~i~e~a 96 (436)
T COG2256 48 LHSMILWGPPGTGKTTLARLIAG---TTNAAFEALSAVTSGVKDLREIIEEA 96 (436)
T ss_pred CceeEEECCCCCCHHHHHHHHHH---hhCCceEEeccccccHHHHHHHHHHH
Confidence 36789999999999997665554 35777878888888887777666544
No 103
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.50 E-value=0.0053 Score=66.24 Aligned_cols=55 Identities=11% Similarity=0.129 Sum_probs=39.3
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
|.....++...... .......+|+||||||||+++.++...+...+..+.++...
T Consensus 25 ~~~~~~~l~~~~~~---~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~ 79 (227)
T PRK08903 25 NAELVARLRELAAG---PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA 79 (227)
T ss_pred cHHHHHHHHHHHhc---cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence 44444444443331 23457899999999999999999999888888877766643
No 104
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=96.48 E-value=0.0062 Score=67.52 Aligned_cols=38 Identities=29% Similarity=0.329 Sum_probs=32.7
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
.+.+.++.||||+|||||++.++..+...|.+|++++-
T Consensus 71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~ 108 (272)
T TIGR00064 71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAG 108 (272)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeC
Confidence 34677788999999999999999999888999987763
No 105
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=96.48 E-value=0.0049 Score=64.90 Aligned_cols=45 Identities=24% Similarity=0.331 Sum_probs=33.8
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC---HHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT---NVAIKEL 93 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T---N~AVd~v 93 (1044)
|.+.++-||+|.|||||++.+.+.+...+.+|.++|-. ..|++++
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL 48 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQL 48 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHH
T ss_pred CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHH
Confidence 35788999999999999999999999889888666542 2455543
No 106
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=96.48 E-value=0.0059 Score=63.88 Aligned_cols=53 Identities=30% Similarity=0.417 Sum_probs=41.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHh----------CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQ----------MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~----------~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
...+++|.||||+|||+++..++..++. .+.+||.++.-+. ..++.+|+....
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 3579999999999999999999999886 5679999988777 557778887664
No 107
>PRK04296 thymidine kinase; Provisional
Probab=96.47 E-value=0.0034 Score=65.81 Aligned_cols=35 Identities=17% Similarity=0.296 Sum_probs=32.2
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+.+|.||||+||||.+..++..+...|.++++..
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k 37 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK 37 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence 58999999999999999999999998999999873
No 108
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.45 E-value=0.0033 Score=71.43 Aligned_cols=36 Identities=28% Similarity=0.264 Sum_probs=33.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
...+++||||||||+++.+++..++..|.+|+.++.
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 679999999999999999999999999999987763
No 109
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=96.44 E-value=0.0039 Score=72.32 Aligned_cols=50 Identities=24% Similarity=0.343 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
...=-+.|.+.+...+....++..++..+|.||||||||+++..++..+.
T Consensus 16 ~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~ 65 (365)
T TIGR02928 16 RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE 65 (365)
T ss_pred CCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence 34556788989988887644455567899999999999999988877764
No 110
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.42 E-value=0.0097 Score=77.79 Aligned_cols=73 Identities=22% Similarity=0.148 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
..|-+-|.+||..+...+.- ...-.||+.|.|||||.|+..++..|++.+ .+||++++++.-+++..+.+...
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~--g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVE--GQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHh--ccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 56899999999888765421 224589999999999999999988888654 69999999999999988877643
No 111
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.40 E-value=0.0089 Score=75.14 Aligned_cols=68 Identities=21% Similarity=0.249 Sum_probs=51.8
Q ss_pred ccCHHHhhhhc-CCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeE
Q 041971 873 EVTDEQLEMIL-SPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQ 951 (1044)
Q Consensus 873 ~lt~~e~~iI~-~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q 951 (1044)
.|+++|+++|. ..++++|+|..||||||+++.|+-.. +...+ ...=+.
T Consensus 1 ~Ln~~Q~~av~~~~~~~~V~Ag~GSGKT~~L~~ri~~l-----l~~~~--------------------------~~p~~I 49 (664)
T TIGR01074 1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYL-----IQNCG--------------------------YKARNI 49 (664)
T ss_pred CCCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHHHH-----HHhcC--------------------------CCHHHe
Confidence 48999999995 47899999999999999999998432 11100 011356
Q ss_pred EEEecCHHHHHHHHHHHHHH
Q 041971 952 LFVTVSPKLCFAIKQHISQM 971 (1044)
Q Consensus 952 ~FvT~s~~L~~~v~~~~~~l 971 (1044)
+-||-+..-+.++++.+.++
T Consensus 50 L~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 50 AAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred EEEeccHHHHHHHHHHHHHH
Confidence 77899999999999988764
No 112
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.39 E-value=0.0047 Score=62.10 Aligned_cols=41 Identities=20% Similarity=0.288 Sum_probs=35.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIK 91 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd 91 (1044)
+.+|.||||||||+++..++..+...+.+|++.+.......
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 36899999999999999999999888999998887655443
No 113
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.38 E-value=0.013 Score=74.01 Aligned_cols=103 Identities=17% Similarity=0.184 Sum_probs=74.0
Q ss_pred CCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHH-HHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHHHHHh
Q 041971 28 LNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTK-TVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKLVKES 104 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~-ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~~~~~ 104 (1044)
.=|.|++.+..+...+. ..+..++.+|.|||||- ++...++++...+ .+|..||.|+.-+.++.+-|.+.....
T Consensus 11 ~y~~Q~~~m~~v~~~l~---~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~~~~ 87 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLD---RGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLMSYR 87 (705)
T ss_pred CCHHHHHHHHHHHHHhc---cCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhhhcc
Confidence 34799999998888754 35789999999999995 5566777766566 799999999999999999988753211
Q ss_pred hhhccccCCCCCCCcEEEecCCccccccchhhH
Q 041971 105 VERDCRDALFFPLGDILLLGNNERLKVDSGVEE 137 (1044)
Q Consensus 105 ~~~~g~~~~~~~~~~ivr~G~~~~~~i~~~l~~ 137 (1044)
....+. ......+.+|.++.+.+.+....
T Consensus 88 ~~~~~~----~~~i~~v~L~SR~~lCin~~v~~ 116 (705)
T TIGR00604 88 TPRIGE----ESPVSGLSLASRKNLCLHPEVSK 116 (705)
T ss_pred cccccc----CCceeEEEechHhhcccChHHHh
Confidence 000100 01135778899988887765543
No 114
>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=96.36 E-value=0.0043 Score=63.87 Aligned_cols=34 Identities=29% Similarity=0.407 Sum_probs=30.7
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.++.||||+|||+++..++..+...|.+|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 5789999999999999999999999999987766
No 115
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.36 E-value=0.0072 Score=68.11 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=32.7
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
..-.+++||||||||+++.+++..++..|..++++..
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 3468899999999999999999999999998877754
No 116
>PLN03025 replication factor C subunit; Provisional
Probab=96.35 E-value=0.0032 Score=71.66 Aligned_cols=28 Identities=39% Similarity=0.555 Sum_probs=24.3
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
+..+++||||||||+++.+++..+...+
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHhccc
Confidence 4578999999999999999999887654
No 117
>PRK05642 DNA replication initiation factor; Validated
Probab=96.33 E-value=0.0047 Score=66.99 Aligned_cols=37 Identities=14% Similarity=0.284 Sum_probs=32.2
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
....+|+||+|||||+++.++...+...+.+++.++.
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 3678999999999999999998888888889887774
No 118
>PRK06921 hypothetical protein; Provisional
Probab=96.33 E-value=0.0042 Score=68.64 Aligned_cols=37 Identities=22% Similarity=0.269 Sum_probs=32.8
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~ 85 (1044)
....+++||||||||+++.+++..++.. |..++.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 4678999999999999999999999988 888887774
No 119
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.33 E-value=0.008 Score=67.93 Aligned_cols=52 Identities=21% Similarity=0.322 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh--CCCcEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLV 82 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv 82 (1044)
...+++.|.+.+..++.. ....+|.||+|+||||++.+++..+.. .+.||++
T Consensus 126 ~g~~~~~~~~~L~~~v~~------~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 126 SKIMTEAQASVIRSAIDS------RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred cCCCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 446888999999988886 356899999999999999998888763 3456655
No 120
>PRK10436 hypothetical protein; Provisional
Probab=96.33 E-value=0.0063 Score=72.16 Aligned_cols=53 Identities=25% Similarity=0.298 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
...+.+.|.+.+..++.. ..++.+|.||.|+|||||+.+++..+...+.+|+.
T Consensus 199 ~LG~~~~~~~~l~~~~~~-----~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~T 251 (462)
T PRK10436 199 TLGMTPAQLAQFRQALQQ-----PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICS 251 (462)
T ss_pred HcCcCHHHHHHHHHHHHh-----cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEE
Confidence 356888999999988765 57999999999999999999988887655555544
No 121
>PRK02362 ski2-like helicase; Provisional
Probab=96.32 E-value=0.011 Score=75.12 Aligned_cols=70 Identities=20% Similarity=0.159 Sum_probs=57.5
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
...|+|-|.+|+...+.. +.-.+|.+|.|+|||.+....+...+..+.++++++||..-+.+..+++.++
T Consensus 21 ~~~l~p~Q~~ai~~~~~~------g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLD------GKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCcCCHHHHHHHHHHHhC------CCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHh
Confidence 357999999999875543 3678999999999999986555555557889999999999999999888753
No 122
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=96.31 E-value=0.0077 Score=64.56 Aligned_cols=58 Identities=26% Similarity=0.380 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
+.|++++..=....--+.+..-.|+||++|||||.+|-+++..+...|.|++=+....
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~ 90 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKED 90 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHH
Confidence 3566666554444333456677899999999999999999999999999987776544
No 123
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.31 E-value=0.012 Score=72.99 Aligned_cols=71 Identities=25% Similarity=0.211 Sum_probs=55.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHH-HHHHHHh--CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSM-LLVILLQ--MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~-ll~~Ll~--~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
...++|-|.+|+..++.. .-.++++|+|||||.+... ++..+.. .+.++|+++||..-+.++.+.+.++.
T Consensus 26 ~~~ptpiQ~~ai~~ll~g-------~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNG-------RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCCCHHHHHHHHHHHcC-------CCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 457899999999998875 5689999999999987543 3333332 24489999999999999999887764
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 99 ~ 99 (629)
T PRK11634 99 K 99 (629)
T ss_pred h
Confidence 3
No 124
>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=96.30 E-value=0.0056 Score=73.32 Aligned_cols=53 Identities=25% Similarity=0.268 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
...+++.|.+++..++.. ..++.+|.||+|+|||||+.+++..+...+.+|+.
T Consensus 223 ~Lg~~~~~~~~l~~~~~~-----~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiT 275 (486)
T TIGR02533 223 TLGMSPELLSRFERLIRR-----PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILT 275 (486)
T ss_pred HcCCCHHHHHHHHHHHhc-----CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEE
Confidence 456789999999988764 56899999999999999999888777555555554
No 125
>PRK00254 ski2-like helicase; Provisional
Probab=96.24 E-value=0.013 Score=74.24 Aligned_cols=69 Identities=19% Similarity=0.156 Sum_probs=57.1
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHH-HHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTV-SMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti-~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...|+|-|.+|+...+.. +.-.+|.+|.|+|||.+. ..++..+...+.++++++|+..-+.+..+++.+
T Consensus 21 ~~~l~~~Q~~ai~~~~~~------g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLE------GKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhC------CCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 457999999999875443 367899999999999987 456666666788999999999999999888865
No 126
>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=96.22 E-value=0.0081 Score=66.61 Aligned_cols=53 Identities=17% Similarity=0.201 Sum_probs=44.1
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+...+.+|.||||+|||+++..++..++.. |.+|++.+.-. ..++++.|+...
T Consensus 28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~~ 81 (271)
T cd01122 28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLGQ 81 (271)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHHH
Confidence 446799999999999999999999988877 99999998655 456777787654
No 127
>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=96.20 E-value=0.0084 Score=64.53 Aligned_cols=51 Identities=16% Similarity=0.145 Sum_probs=43.2
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...+.+|.||||+|||++...++...++.|.+++.++... ..+++.+++..
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHH
Confidence 4689999999999999999999998888899999988765 56777777653
No 128
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.18 E-value=0.019 Score=64.33 Aligned_cols=73 Identities=21% Similarity=0.203 Sum_probs=51.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhCCC-----cEEEEcCCHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQMKF-----RTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~~~-----rILv~A~TN~AVd~v~~rL~ 98 (1044)
++..-|.|.+-+..+...+. ..+..+|.+|.|||||..+. .++.++...+. +|++++.|+.-...+...+.
T Consensus 6 Py~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00489 6 PYEPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CCCCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 34458899996655555432 24789999999999997654 45556665555 89999999997776665554
Q ss_pred HH
Q 041971 99 KL 100 (1044)
Q Consensus 99 ~~ 100 (1044)
+.
T Consensus 83 ~~ 84 (289)
T smart00489 83 KL 84 (289)
T ss_pred hc
Confidence 33
No 129
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.18 E-value=0.019 Score=64.33 Aligned_cols=73 Identities=21% Similarity=0.203 Sum_probs=51.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhCCC-----cEEEEcCCHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQMKF-----RTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~~~-----rILv~A~TN~AVd~v~~rL~ 98 (1044)
++..-|.|.+-+..+...+. ..+..+|.+|.|||||..+. .++.++...+. +|++++.|+.-...+...+.
T Consensus 6 Py~~r~~Q~~~m~~v~~~~~---~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00488 6 PYEPYPIQYEFMEELKRVLD---RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CCCCCHHHHHHHHHHHHHHH---cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 34458899996655555432 24789999999999997654 45556665555 89999999997776665554
Q ss_pred HH
Q 041971 99 KL 100 (1044)
Q Consensus 99 ~~ 100 (1044)
+.
T Consensus 83 ~~ 84 (289)
T smart00488 83 KL 84 (289)
T ss_pred hc
Confidence 33
No 130
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.18 E-value=0.0063 Score=65.53 Aligned_cols=40 Identities=30% Similarity=0.461 Sum_probs=35.1
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
....+++|.||||||||+++..++...+..+.+++.++.-
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 3467999999999999999999999998888888887755
No 131
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.18 E-value=0.016 Score=68.79 Aligned_cols=70 Identities=24% Similarity=0.143 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh---------CCCcEEEEcCCHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ---------MKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~---------~~~rILv~A~TN~AVd~v~ 94 (1044)
...+++-|.+|+..+++. .-.++++|.|||||.+.. .++..++. .+.++|+++||...+.++.
T Consensus 28 ~~~pt~iQ~~aip~il~g-------~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~ 100 (423)
T PRK04837 28 FHNCTPIQALALPLTLAG-------RDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIH 100 (423)
T ss_pred CCCCCHHHHHHHHHHhCC-------CcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHH
Confidence 457899999999998875 568999999999998754 33334432 2357999999999999998
Q ss_pred HHHHHHH
Q 041971 95 ARVVKLV 101 (1044)
Q Consensus 95 ~rL~~~~ 101 (1044)
+.+..+.
T Consensus 101 ~~~~~l~ 107 (423)
T PRK04837 101 ADAEPLA 107 (423)
T ss_pred HHHHHHh
Confidence 8877654
No 132
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.18 E-value=0.0081 Score=65.16 Aligned_cols=51 Identities=24% Similarity=0.211 Sum_probs=42.2
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
....+.+|.||||||||+++..++...+..|.+++.++.-.. .+++.+++.
T Consensus 23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~-~~~~~~~~~ 73 (234)
T PRK06067 23 PFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT-SKSYLKQME 73 (234)
T ss_pred cCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC-HHHHHHHHH
Confidence 347899999999999999999999888889999999998654 456666654
No 133
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=96.17 E-value=0.015 Score=66.07 Aligned_cols=104 Identities=19% Similarity=0.328 Sum_probs=59.6
Q ss_pred CcCccccccCCCC--CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHH
Q 041971 12 SEGVWNETFGPSL--SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVA 89 (1044)
Q Consensus 12 ~~~~~~~~~~~~~--~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~A 89 (1044)
.+-.|.+++.+.. ....++...+.+...+.. ++.+.+.++.||||||||+++.++...+ +..++.+.++...
T Consensus 7 ~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~---~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~~~ 80 (316)
T PHA02544 7 NEFMWEQKYRPSTIDECILPAADKETFKSIVKK---GRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSDCR 80 (316)
T ss_pred CCCcceeccCCCcHHHhcCcHHHHHHHHHHHhc---CCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCccc
Confidence 3456777664432 234566666666666653 3445688889999999999988886654 4555555554422
Q ss_pred HHHHHHHHHHHHHHhhhhccccCCCCCCCcEEEecCCccc
Q 041971 90 IKELAARVVKLVKESVERDCRDALFFPLGDILLLGNNERL 129 (1044)
Q Consensus 90 Vd~v~~rL~~~~~~~~~~~g~~~~~~~~~~ivr~G~~~~~ 129 (1044)
++.+.+.+....... +..+..+++.+..-+.+
T Consensus 81 ~~~i~~~l~~~~~~~--------~~~~~~~vliiDe~d~l 112 (316)
T PHA02544 81 IDFVRNRLTRFASTV--------SLTGGGKVIIIDEFDRL 112 (316)
T ss_pred HHHHHHHHHHHHHhh--------cccCCCeEEEEECcccc
Confidence 444444444332211 11222456776665543
No 134
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.17 E-value=0.012 Score=69.02 Aligned_cols=49 Identities=33% Similarity=0.477 Sum_probs=37.5
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
-+.|.+.+...+...-.+..++..+|.||||||||+++..++..+...+
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 3667788888876532234456789999999999999999998887654
No 135
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.17 E-value=0.0061 Score=67.27 Aligned_cols=43 Identities=28% Similarity=0.302 Sum_probs=38.3
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAI 90 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AV 90 (1044)
...+.+|.||||||||.++...+...+..|.+++.+|..-.+.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~ 64 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPE 64 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHH
Confidence 4689999999999999999999999999999999998655544
No 136
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=96.15 E-value=0.016 Score=69.43 Aligned_cols=71 Identities=25% Similarity=0.257 Sum_probs=55.6
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHH-HHHHHHhC--------CCcEEEEcCCHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSM-LLVILLQM--------KFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~-ll~~Ll~~--------~~rILv~A~TN~AVd~v~ 94 (1044)
-...+++-|++|+..++.. .-.++.+|.|||||.+... ++..+... +.++|+++||...+.++.
T Consensus 20 g~~~pt~iQ~~ai~~il~g-------~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~ 92 (456)
T PRK10590 20 GYREPTPIQQQAIPAVLEG-------RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIG 92 (456)
T ss_pred CCCCCCHHHHHHHHHHhCC-------CCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHH
Confidence 3457899999999998875 4589999999999987543 44444332 237999999999999999
Q ss_pred HHHHHHH
Q 041971 95 ARVVKLV 101 (1044)
Q Consensus 95 ~rL~~~~ 101 (1044)
+.+.++.
T Consensus 93 ~~~~~~~ 99 (456)
T PRK10590 93 ENVRDYS 99 (456)
T ss_pred HHHHHHh
Confidence 9888664
No 137
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.13 E-value=0.0035 Score=68.53 Aligned_cols=27 Identities=41% Similarity=0.561 Sum_probs=22.7
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
.+.+.|+.||||||||++--+++..|-
T Consensus 176 ~NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 468899999999999998887776663
No 138
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.13 E-value=0.019 Score=71.08 Aligned_cols=76 Identities=25% Similarity=0.190 Sum_probs=66.7
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
....||+.|..|+..+.... +.....|+.|.+|+|||-+-..+++..+..|+.+|++.|--.-..++.+|+...+.
T Consensus 195 ~~~~Ln~~Q~~a~~~i~~~~---~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 195 EWLALNQEQQAAVEAILSSL---GGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred cccccCHHHHHHHHHHHHhc---ccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC
Confidence 45799999999999998863 34688999999999999999999999999999999999988888888888876554
No 139
>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=96.11 E-value=0.011 Score=63.48 Aligned_cols=42 Identities=14% Similarity=0.268 Sum_probs=34.3
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVA 89 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~A 89 (1044)
.++..+|.||||||||+++.++...+...+..++.+..++-.
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~ 78 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELA 78 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHH
Confidence 467899999999999999999998888777777776654443
No 140
>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=96.11 E-value=0.021 Score=70.88 Aligned_cols=71 Identities=15% Similarity=0.168 Sum_probs=57.8
Q ss_pred CCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 23 SLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 23 ~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.....|-+-|++|+...+.. +...-.+|.-|+|+|||.+..+++..+ +.++||++|+...|++-.+.+.+.
T Consensus 251 ~~~~~LRpYQ~eAl~~~~~~----gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 251 KPTTQIRPYQEKSLSKMFGN----GRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred ccCCCcCHHHHHHHHHHHhc----CCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 34578999999999988753 112457889999999999988776554 678999999999999999988865
No 141
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=96.10 E-value=0.0069 Score=68.59 Aligned_cols=37 Identities=27% Similarity=0.318 Sum_probs=33.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+.+.++.||||+|||||++.++..+...|.+|++++
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~ 149 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA 149 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence 4678899999999999999999999998888988765
No 142
>PRK04328 hypothetical protein; Provisional
Probab=96.10 E-value=0.0092 Score=65.41 Aligned_cols=51 Identities=22% Similarity=0.251 Sum_probs=41.2
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...+.+|.||||||||++...++..-++.|.++++++....+- .+.+++..
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~-~i~~~~~~ 72 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPV-QVRRNMRQ 72 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHH-HHHHHHHH
Confidence 4689999999999999999999998888999999998655433 45555543
No 143
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.10 E-value=0.01 Score=69.47 Aligned_cols=53 Identities=25% Similarity=0.285 Sum_probs=45.0
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
...+++.|...+...++. ++|+.||.||-|+|||||+-+++..+.....+|+.
T Consensus 239 ~Lg~~~~~~~~~~~~~~~-----p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~T 291 (500)
T COG2804 239 KLGMSPFQLARLLRLLNR-----PQGLILVTGPTGSGKTTTLYAALSELNTPERNIIT 291 (500)
T ss_pred HhCCCHHHHHHHHHHHhC-----CCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEE
Confidence 345688999999999875 78999999999999999999999998777666543
No 144
>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=96.09 E-value=0.0096 Score=66.93 Aligned_cols=45 Identities=16% Similarity=0.252 Sum_probs=38.6
Q ss_pred CCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 23 SLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 23 ~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
...+.++++-..+|..++.. ++..+|.||||||||+++..++..|
T Consensus 44 d~~y~f~~~~~~~vl~~l~~------~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 44 DPAYLFDKATTKAICAGFAY------DRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred CCCccCCHHHHHHHHHHHhc------CCcEEEEeCCCChHHHHHHHHHHHH
Confidence 44689999999999999875 4679999999999999998887776
No 145
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.09 E-value=0.014 Score=71.38 Aligned_cols=77 Identities=17% Similarity=0.162 Sum_probs=65.7
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
....+-.-|..||.....+.+-+++. .||.=.+|||||+|+.+++..|++.+ +|||.+|-.|.-+++....+..+.
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~r--aLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~ 239 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNR--ALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFL 239 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCce--EEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhC
Confidence 45677789999999998887665544 78888899999999999999999987 599999999999999888877654
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 240 P 240 (875)
T COG4096 240 P 240 (875)
T ss_pred C
Confidence 3
No 146
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.07 E-value=0.067 Score=67.24 Aligned_cols=70 Identities=14% Similarity=-0.033 Sum_probs=50.0
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.++.+.|.|..++-.++.. .=.+.+.+.|||||.+.+.-+..-+..+..++|++||..-+....+-+..+
T Consensus 89 ~p~~~tp~qvQ~I~~i~l~-------~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L 158 (970)
T PRK12899 89 QQWDMVPYDVQILGAIAMH-------KGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSV 158 (970)
T ss_pred CCCCCChHHHHHhhhhhcC-------CCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHH
Confidence 3446899999999777664 238999999999999876433322224567999999988777666655544
No 147
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.06 E-value=0.012 Score=66.62 Aligned_cols=55 Identities=22% Similarity=0.359 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcCC
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPT 86 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~T 86 (1044)
..+++.|.+.+..++.. ....+|.||||+||||++.+++..+.. ...|++++-.+
T Consensus 131 g~~~~~~~~~L~~~v~~------~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~ 187 (319)
T PRK13894 131 GIMTAAQREAIIAAVRA------HRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDT 187 (319)
T ss_pred CCCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCC
Confidence 44678888998888875 578999999999999999999887643 34577654433
No 148
>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=96.05 E-value=0.0077 Score=64.49 Aligned_cols=38 Identities=29% Similarity=0.434 Sum_probs=34.1
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
....+++|.||||||||+++..++..+...|.++++.+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 44689999999999999999999999988899988875
No 149
>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=96.05 E-value=0.0038 Score=66.01 Aligned_cols=24 Identities=33% Similarity=0.584 Sum_probs=17.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
-+-.+.|||||+||||++..+...
T Consensus 50 l~h~lf~GPPG~GKTTLA~IIA~e 73 (233)
T PF05496_consen 50 LDHMLFYGPPGLGKTTLARIIANE 73 (233)
T ss_dssp --EEEEESSTTSSHHHHHHHHHHH
T ss_pred cceEEEECCCccchhHHHHHHHhc
Confidence 356899999999998865544443
No 150
>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=96.04 E-value=0.0081 Score=63.86 Aligned_cols=40 Identities=30% Similarity=0.497 Sum_probs=35.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
...+++|.||||||||++...++...+..|.+++.++..+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 4689999999999999999999998888888888887754
No 151
>PRK14701 reverse gyrase; Provisional
Probab=96.02 E-value=0.017 Score=77.92 Aligned_cols=72 Identities=17% Similarity=0.197 Sum_probs=60.0
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
..+.+++-|+.++..++.. .-.++.+|.|||||.+...+...+...|.++|+++||..-+.++.+++..+..
T Consensus 76 ~G~~pt~iQ~~~i~~il~G-------~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~ 147 (1638)
T PRK14701 76 TGFEFWSIQKTWAKRILRG-------KSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCE 147 (1638)
T ss_pred hCCCCCHHHHHHHHHHHcC-------CCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHh
Confidence 4557999999999999986 56789999999999965544444455788999999999999999999988754
No 152
>PRK10867 signal recognition particle protein; Provisional
Probab=96.02 E-value=0.0075 Score=70.85 Aligned_cols=38 Identities=29% Similarity=0.379 Sum_probs=33.0
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~ 85 (1044)
.+.+.++.||||+|||||++.++..|... |.+|++++.
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~ 137 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA 137 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc
Confidence 36788999999999999999999999888 888876654
No 153
>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=96.01 E-value=0.015 Score=65.48 Aligned_cols=53 Identities=19% Similarity=0.259 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEc
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCT 84 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A 84 (1044)
..+++.|.+.+..++.. ....+|.||+|+||||++.+++..+-.. +.||+++-
T Consensus 115 g~~~~~~~~~L~~~v~~------~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 115 GIMTAAQRDVLREAVLA------RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCCCHHHHHHHHHHHHc------CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 34667788888888775 4678999999999999999998777653 56776654
No 154
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.99 E-value=0.0081 Score=70.72 Aligned_cols=60 Identities=18% Similarity=0.227 Sum_probs=43.0
Q ss_pred CCCCHHHH--HHHHHHHHhcccc--------CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 26 STLNDSQA--QAVLSCLRQMRCD--------HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 26 ~~Ln~sQ~--~AV~~~l~~~~~~--------~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
..+++.|. ++|...+..+-.. ..+.+.++.||||+|||||++.++..+...|.+|++++.
T Consensus 62 ~~~~~~~~~~~~v~~~L~~~l~~~~~~~~~~~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~ 131 (437)
T PRK00771 62 KGLTPREHVIKIVYEELVKLLGEETEPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA 131 (437)
T ss_pred ccCCcHHHHHHHHHHHHHHHhCCCccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC
Confidence 45666553 4444444332111 346788999999999999999999999888888887664
No 155
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=95.99 E-value=0.055 Score=62.87 Aligned_cols=67 Identities=22% Similarity=0.157 Sum_probs=53.6
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHH-HHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVI-LLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~-Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
.--.-|...+..++. ..+||-=|-|=|||.+++.++.. |...+.++|++|||.--|.+=++.+.+..
T Consensus 15 e~R~YQ~~i~a~al~--------~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 15 EPRLYQLNIAAKALF--------KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred cHHHHHHHHHHHHhh--------cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHh
Confidence 344578888888887 46999999999999999887775 44556689999999999988777776553
No 156
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.98 E-value=0.0087 Score=69.92 Aligned_cols=38 Identities=24% Similarity=0.364 Sum_probs=33.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
.+.+.++.||||+|||||++.++..+...|.+|++++-
T Consensus 99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~ 136 (429)
T TIGR01425 99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCA 136 (429)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcC
Confidence 35788999999999999999999999888999877664
No 157
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.96 E-value=0.0083 Score=59.24 Aligned_cols=28 Identities=39% Similarity=0.571 Sum_probs=22.8
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
.++.||||||||+++..++..+ +.++..
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~ 29 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL---GRPVIR 29 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH---TCEEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHh---hcceEE
Confidence 5899999999999998888887 554433
No 158
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.96 E-value=0.017 Score=65.55 Aligned_cols=62 Identities=26% Similarity=0.464 Sum_probs=39.0
Q ss_pred cCccccccCCCCCCCC--CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC
Q 041971 13 EGVWNETFGPSLSSTL--NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF 78 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~L--n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~ 78 (1044)
+-.|.+.+.+.....+ .+.+.+.+...+.. +..+..+++||||||||+++..++..+...+.
T Consensus 4 ~~~w~~kyrP~~~~~~~g~~~~~~~l~~~i~~----~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~ 67 (319)
T PRK00440 4 EEIWVEKYRPRTLDEIVGQEEIVERLKSYVKE----KNMPHLLFAGPPGTGKTTAALALARELYGEDW 67 (319)
T ss_pred cCccchhhCCCcHHHhcCcHHHHHHHHHHHhC----CCCCeEEEECCCCCCHHHHHHHHHHHHcCCcc
Confidence 3457765554333333 33444444444432 23344699999999999999999888876553
No 159
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=95.95 E-value=0.0069 Score=66.90 Aligned_cols=29 Identities=31% Similarity=0.467 Sum_probs=23.6
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
....++.||||||||+++..+...+...+
T Consensus 42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 35578999999999999988887776544
No 160
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=95.94 E-value=0.017 Score=71.69 Aligned_cols=78 Identities=19% Similarity=0.221 Sum_probs=68.6
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
.|.....+.+-..|+-.....+.. .-.-|.+|+|+||||+.+.+...+...|+|++++-||..-|.++.+||.
T Consensus 74 fF~k~~G~~~ws~QR~WakR~~rg-------~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~ 146 (1187)
T COG1110 74 FFKKATGFRPWSAQRVWAKRLVRG-------KSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLK 146 (1187)
T ss_pred HHHHhhCCCchHHHHHHHHHHHcC-------CceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHH
Confidence 444555667778899999988875 6678889999999999999999999999999999999999999999999
Q ss_pred HHHHH
Q 041971 99 KLVKE 103 (1044)
Q Consensus 99 ~~~~~ 103 (1044)
++...
T Consensus 147 ~~~e~ 151 (1187)
T COG1110 147 KFAED 151 (1187)
T ss_pred HHHhh
Confidence 98765
No 161
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.93 E-value=0.0092 Score=71.85 Aligned_cols=52 Identities=29% Similarity=0.253 Sum_probs=43.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...++++|.||||||||++....+...+++|.+++.++ .-...+++..|...
T Consensus 261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s-~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 261 FKDSIILATGATGTGKTLLVSKFLENACANKERAILFA-YEESRAQLLRNAYS 312 (484)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE-eeCCHHHHHHHHHH
Confidence 45789999999999999999999999999999999998 44555666666543
No 162
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=95.93 E-value=0.0086 Score=72.00 Aligned_cols=62 Identities=32% Similarity=0.485 Sum_probs=43.5
Q ss_pred CcCccccccCCCCCCCC--CHHHHHHHHHHHHhccccC-CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 12 SEGVWNETFGPSLSSTL--NDSQAQAVLSCLRQMRCDH-KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 12 ~~~~~~~~~~~~~~~~L--n~sQ~~AV~~~l~~~~~~~-~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+..|.+++.+.....| ++...+-|...+..+-.++ ...+.++.||||+|||+||..+...|
T Consensus 5 ~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 5 ESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence 46678887765554443 5666666777776532232 35799999999999999998877665
No 163
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.93 E-value=0.0087 Score=65.22 Aligned_cols=38 Identities=24% Similarity=0.436 Sum_probs=31.4
Q ss_pred ccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-CcEEE
Q 041971 45 CDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-FRTLV 82 (1044)
Q Consensus 45 ~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-~rILv 82 (1044)
|..+.|+.||.||-|+|||||+++++-++-+.. ..||.
T Consensus 121 ~~~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlT 159 (353)
T COG2805 121 AESPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILT 159 (353)
T ss_pred HhCCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEE
Confidence 456789999999999999999999999987654 34443
No 164
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.92 E-value=0.017 Score=63.91 Aligned_cols=51 Identities=20% Similarity=0.228 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 28 LNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+++.++.+..++..+. .+...++.||||||||+++.++...+ |.++..+.
T Consensus 3 ~t~~~~~l~~~~l~~l~---~g~~vLL~G~~GtGKT~lA~~la~~l---g~~~~~i~ 53 (262)
T TIGR02640 3 ETDAVKRVTSRALRYLK---SGYPVHLRGPAGTGKTTLAMHVARKR---DRPVMLIN 53 (262)
T ss_pred CCHHHHHHHHHHHHHHh---cCCeEEEEcCCCCCHHHHHHHHHHHh---CCCEEEEe
Confidence 35666666666655432 24677899999999999998877633 55554443
No 165
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=95.91 E-value=0.028 Score=60.33 Aligned_cols=35 Identities=20% Similarity=0.319 Sum_probs=28.9
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A 84 (1044)
....|+||+|+|||+++.++...+.+. +.+|+.+.
T Consensus 35 ~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 457999999999999999999998864 67887765
No 166
>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=95.88 E-value=0.018 Score=62.20 Aligned_cols=38 Identities=32% Similarity=0.424 Sum_probs=30.8
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+..+.-|+||||.||||++..++..+.+.|++|-|+|
T Consensus 27 g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 27 GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 35678889999999999999999999999999988776
No 167
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.86 E-value=0.016 Score=63.12 Aligned_cols=50 Identities=16% Similarity=0.125 Sum_probs=41.8
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcCCHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
...+.+|.||||||||+++..++..++.. |.+++..+.-..+- ++..|+.
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHH
Confidence 35699999999999999999999998887 99999999776554 5556664
No 168
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=95.85 E-value=0.014 Score=71.58 Aligned_cols=54 Identities=22% Similarity=0.281 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
....+.+.|.+.+..++.. ..++.+|.||+|+|||||+.+++..+...+.+|+.
T Consensus 296 ~~lg~~~~~~~~l~~~~~~-----~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~t 349 (564)
T TIGR02538 296 DKLGFEPDQKALFLEAIHK-----PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIST 349 (564)
T ss_pred HHcCCCHHHHHHHHHHHHh-----cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEE
Confidence 3456789999999888775 46999999999999999998888876444444443
No 169
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=95.85 E-value=0.014 Score=63.10 Aligned_cols=49 Identities=18% Similarity=0.155 Sum_probs=38.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~r 96 (1044)
....+.+|.||||||||+++..++...+..|.+++.++.-. ..+++.++
T Consensus 18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~-~~~~i~~~ 66 (229)
T TIGR03881 18 PRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE-SRESIIRQ 66 (229)
T ss_pred cCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC-CHHHHHHH
Confidence 34689999999999999999998887778888888877533 33455544
No 170
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.85 E-value=0.0081 Score=72.02 Aligned_cols=65 Identities=20% Similarity=0.131 Sum_probs=46.8
Q ss_pred ccCcCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 10 MQSEGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+.++-+|..+|.+.....+ -.|..++....+.+..++-+...|++||||||||+++..++..+..
T Consensus 5 ~~~y~~la~kyRP~~f~dl-iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 5 SNQYIPFARKYRPSNFAEL-QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred cccccchhhhhCCCCHHHh-cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4556677777755544444 3677777655544555566778999999999999999998888754
No 171
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.85 E-value=0.0095 Score=71.07 Aligned_cols=29 Identities=31% Similarity=0.361 Sum_probs=23.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.-+...+++||||||||+++..++..+..
T Consensus 34 ~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 34 SISHAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 33455799999999999999888887653
No 172
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.84 E-value=0.015 Score=69.19 Aligned_cols=57 Identities=19% Similarity=0.231 Sum_probs=40.4
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcC
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 85 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~ 85 (1044)
.++...|...+..-...+......+|+||||||||+++.++...+... +.+++.++.
T Consensus 110 g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 110 GPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 456666666665433222223458999999999999999999988775 467887764
No 173
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.83 E-value=0.011 Score=65.87 Aligned_cols=39 Identities=31% Similarity=0.330 Sum_probs=35.8
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
+.+.+.|+.|..||||||||+.+..+|...|.+|++.|-
T Consensus 137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~ 175 (340)
T COG0552 137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAG 175 (340)
T ss_pred CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEec
Confidence 458899999999999999999999999999999988764
No 174
>PRK04195 replication factor C large subunit; Provisional
Probab=95.79 E-value=0.038 Score=66.60 Aligned_cols=56 Identities=18% Similarity=0.277 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
-.++.+.+.+...+....-+..+...+|.||||||||+++.+++..+ +..++.+..
T Consensus 17 vg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~~~~ielna 72 (482)
T PRK04195 17 VGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---GWEVIELNA 72 (482)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEcc
Confidence 45677777777776653222336889999999999999998887765 555655543
No 175
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=95.79 E-value=0.024 Score=70.99 Aligned_cols=73 Identities=19% Similarity=0.185 Sum_probs=59.6
Q ss_pred CCHHHHHHHHHHHHhccccC---CCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQMRCDH---KATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~---~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.-..|..||..++..+.-.. ...-.+||-|.|||||.|++.++..|+.. +.+||+++++..-++++.+.+...
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 56789999999988754321 23578999999999999999998888753 468999999999999999887754
No 176
>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=95.79 E-value=0.016 Score=68.36 Aligned_cols=56 Identities=18% Similarity=0.169 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhccccC-CCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcC
Q 041971 30 DSQAQAVLSCLRQMRCDH-KATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 85 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~-~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~ 85 (1044)
++...|...+..-...+. .....+|+||||||||+++.++...+... +.+++.++.
T Consensus 116 ~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 116 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 456666665554333222 23467999999999999999999998876 667877753
No 177
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=95.77 E-value=0.014 Score=74.17 Aligned_cols=35 Identities=31% Similarity=0.500 Sum_probs=31.6
Q ss_pred ccCHHHhhhhc-CCCcEEEEecCCccHHHHHHHHHH
Q 041971 873 EVTDEQLEMIL-SPRSTFILGRSGTGKTTVLTRKLF 907 (1044)
Q Consensus 873 ~lt~~e~~iI~-~~~~~~viGRSGTGKTT~~l~rl~ 907 (1044)
.|+++|+++|. ..++++|+|..||||||+++.|+-
T Consensus 4 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~~l~~ria 39 (726)
T TIGR01073 4 HLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIA 39 (726)
T ss_pred ccCHHHHHHHhCCCCCEEEEeCCCCCHHHHHHHHHH
Confidence 48999999995 578999999999999999999973
No 178
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=95.75 E-value=0.018 Score=63.67 Aligned_cols=47 Identities=23% Similarity=0.199 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
+-.++.++.|+......+ ...+++.+|+||||+||||++..++..+.
T Consensus 22 ~~~~~~~~~~~~~l~~~~--~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 22 FYPSKGHKRAMAYLEYGL--SQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred hCCCHHHHHHHHHHHHHH--hcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 345666677776554322 12356899999999999999988876654
No 179
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.72 E-value=0.03 Score=68.90 Aligned_cols=71 Identities=23% Similarity=0.125 Sum_probs=56.3
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhC---------CCcEEEEcCCHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQM---------KFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~---------~~rILv~A~TN~AVd~v 93 (1044)
-...+++-|.+++-.++.. .-.++++|.|||||.+.. .++..++.. +.++|+++||..-+.++
T Consensus 28 g~~~ptpiQ~~~ip~~l~G-------~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi 100 (572)
T PRK04537 28 GFTRCTPIQALTLPVALPG-------GDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQI 100 (572)
T ss_pred CCCCCCHHHHHHHHHHhCC-------CCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHH
Confidence 3457899999999998875 568999999999998754 344444431 35899999999999999
Q ss_pred HHHHHHHH
Q 041971 94 AARVVKLV 101 (1044)
Q Consensus 94 ~~rL~~~~ 101 (1044)
.+.+.++.
T Consensus 101 ~~~~~~l~ 108 (572)
T PRK04537 101 HKDAVKFG 108 (572)
T ss_pred HHHHHHHh
Confidence 98887653
No 180
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=95.70 E-value=0.31 Score=59.44 Aligned_cols=36 Identities=19% Similarity=0.206 Sum_probs=30.3
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~ 85 (1044)
...+|+||+|||||+++.++...+.. .+.+|+.++.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 34799999999999999999999876 3778877765
No 181
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=95.70 E-value=0.027 Score=71.34 Aligned_cols=69 Identities=25% Similarity=0.393 Sum_probs=53.8
Q ss_pred ccCHHHhhhhcC-CCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeE
Q 041971 873 EVTDEQLEMILS-PRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQ 951 (1044)
Q Consensus 873 ~lt~~e~~iI~~-~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q 951 (1044)
.|+++|+++|.+ .++++|+|=.||||||+++.|+--. +...+ .+.-+.
T Consensus 4 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~~L~~Ria~L-----i~~~~--------------------------v~p~~I 52 (715)
T TIGR01075 4 GLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWL-----LSVEN--------------------------ASPHSI 52 (715)
T ss_pred ccCHHHHHHHcCCCCCEEEEecCCCCHHHHHHHHHHHH-----HHcCC--------------------------CCHHHe
Confidence 489999999954 5899999999999999999988322 11100 012468
Q ss_pred EEEecCHHHHHHHHHHHHHHH
Q 041971 952 LFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 952 ~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
+.||-+..-|.++++.+.++.
T Consensus 53 L~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 53 MAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred EeeeccHHHHHHHHHHHHHHh
Confidence 889999999999999988864
No 182
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.70 E-value=0.018 Score=64.29 Aligned_cols=40 Identities=23% Similarity=0.335 Sum_probs=33.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-C-CcEEEEcCCH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-K-FRTLVCTPTN 87 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~-~rILv~A~TN 87 (1044)
.+.+.+|.||+|+|||||++.++..+... | .+|.+++.-.
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~ 234 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT 234 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence 45689999999999999999999998876 4 7887766544
No 183
>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=95.69 E-value=0.019 Score=64.79 Aligned_cols=41 Identities=17% Similarity=0.189 Sum_probs=35.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
....+++|.||||||||+++..++....+.|.++++...-+
T Consensus 53 p~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~ 93 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH 93 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence 34579999999999999999999999999999988886554
No 184
>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=95.67 E-value=0.034 Score=64.33 Aligned_cols=63 Identities=24% Similarity=0.271 Sum_probs=50.1
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
|.+|+...... ++++.+|.+|+|+|||...... . +..+.+.++++|++..+++..+++.+...
T Consensus 2 Q~~~~~~~~~~-----~~~~~~i~apTGsGKT~~~~~~--~-l~~~~~~~~~~P~~aL~~~~~~~~~~~~~ 64 (357)
T TIGR03158 2 QVATFEALQSK-----DADIIFNTAPTGAGKTLAWLTP--L-LHGENDTIALYPTNALIEDQTEAIKEFVD 64 (357)
T ss_pred HHHHHHHHHcC-----CCCEEEEECCCCCCHHHHHHHH--H-HHcCCCEEEEeChHHHHHHHHHHHHHHHH
Confidence 88888888764 3467899999999999865322 2 24566889999999999999999988764
No 185
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.67 E-value=0.025 Score=70.17 Aligned_cols=64 Identities=19% Similarity=0.248 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHH---------HH---h---CCCcEEEEcCCHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVI---------LL---Q---MKFRTLVCTPTNVAIKELAA 95 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~---------Ll---~---~~~rILv~A~TN~AVd~v~~ 95 (1044)
.|++++...+. +...+++|+.|||||+.+-..+.+ .+ . .+.+|++++||..|+.++..
T Consensus 168 iQ~qil~~i~~-------gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~ 240 (675)
T PHA02653 168 VQLKIFEAWIS-------RKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSI 240 (675)
T ss_pred HHHHHHHHHHh-------CCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHH
Confidence 45555555554 388999999999999976543322 11 1 24589999999999999888
Q ss_pred HHHHHH
Q 041971 96 RVVKLV 101 (1044)
Q Consensus 96 rL~~~~ 101 (1044)
++.+.+
T Consensus 241 ~i~~~v 246 (675)
T PHA02653 241 TLLKSL 246 (675)
T ss_pred HHHHHh
Confidence 887654
No 186
>PF13173 AAA_14: AAA domain
Probab=95.67 E-value=0.025 Score=55.22 Aligned_cols=46 Identities=28% Similarity=0.281 Sum_probs=38.3
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
+..+.+|.||.|+||||++..++..+. .+.+++.+...........
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~ 46 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLA 46 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHh
Confidence 357899999999999999999998887 7778888888777775544
No 187
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=95.67 E-value=0.013 Score=61.86 Aligned_cols=35 Identities=23% Similarity=0.441 Sum_probs=27.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A 84 (1044)
|+.+|.||+|+||||++.+++..+... +.+|++.-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 789999999999999999888877654 34555543
No 188
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.63 E-value=0.022 Score=68.08 Aligned_cols=56 Identities=20% Similarity=0.204 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhcccc-CCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcC
Q 041971 30 DSQAQAVLSCLRQMRCD-HKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 85 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~-~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~ 85 (1044)
++.+.|+..+..-.... ......+|+||||||||+++.++...+... +.+++.++.
T Consensus 128 ~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 128 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 45555666665533322 223568999999999999999999998877 567776654
No 189
>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=95.63 E-value=0.045 Score=52.79 Aligned_cols=73 Identities=18% Similarity=0.236 Sum_probs=47.5
Q ss_pred HHHHHHHHHHhc----cc--cCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCc---EE--E---EcCCHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQM----RC--DHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFR---TL--V---CTPTNVAIKELAARV 97 (1044)
Q Consensus 32 Q~~AV~~~l~~~----~~--~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~r---IL--v---~A~TN~AVd~v~~rL 97 (1044)
|.-|+...+..+ .- +.++=+....||||||||++...++..|...|.+ |. + ==|.+.-|+.-.+.|
T Consensus 30 Qhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L 109 (127)
T PF06309_consen 30 QHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQL 109 (127)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHH
Confidence 555555554443 22 2334455578999999999999999999887642 21 1 124667777777777
Q ss_pred HHHHHHh
Q 041971 98 VKLVKES 104 (1044)
Q Consensus 98 ~~~~~~~ 104 (1044)
.+.+.+.
T Consensus 110 ~~~I~~~ 116 (127)
T PF06309_consen 110 KSWIRGN 116 (127)
T ss_pred HHHHHHH
Confidence 7666653
No 190
>PRK13767 ATP-dependent helicase; Provisional
Probab=95.62 E-value=0.034 Score=71.80 Aligned_cols=71 Identities=20% Similarity=0.203 Sum_probs=56.2
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh--------CCCcEEEEcCCHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ--------MKFRTLVCTPTNVAIKELAA 95 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~--------~~~rILv~A~TN~AVd~v~~ 95 (1044)
...|+|-|.+|+..+++. .-.+|.+|.|||||.... .++..+.. .+.++|+++||..-+.++.+
T Consensus 30 ~~~~tpiQ~~Ai~~il~g-------~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~ 102 (876)
T PRK13767 30 FGTFTPPQRYAIPLIHEG-------KNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHR 102 (876)
T ss_pred cCCCCHHHHHHHHHHHcC-------CCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHH
Confidence 457999999999988764 679999999999999764 44444543 23469999999999999999
Q ss_pred HHHHHHH
Q 041971 96 RVVKLVK 102 (1044)
Q Consensus 96 rL~~~~~ 102 (1044)
++.+.+.
T Consensus 103 ~L~~~l~ 109 (876)
T PRK13767 103 NLEEPLT 109 (876)
T ss_pred HHHHHHH
Confidence 8876543
No 191
>PHA00729 NTP-binding motif containing protein
Probab=95.61 E-value=0.014 Score=62.33 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=21.9
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
...+|.|||||||||++.+++..+.
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
Confidence 4689999999999999999888764
No 192
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=95.59 E-value=0.011 Score=56.77 Aligned_cols=23 Identities=39% Similarity=0.658 Sum_probs=20.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.+|.||||+||||++..+...+
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 193
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.58 E-value=0.0063 Score=69.85 Aligned_cols=70 Identities=17% Similarity=0.314 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHHhc-c--------ccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQM-R--------CDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~-~--------~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~r 96 (1044)
..+++.=.+-|..-+... . ....-.=.|+.||||||||+.|+|++..| +..|-.+.-|..--+.=+++
T Consensus 203 laMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L---~ydIydLeLt~v~~n~dLr~ 279 (457)
T KOG0743|consen 203 LAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL---NYDIYDLELTEVKLDSDLRH 279 (457)
T ss_pred cccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc---CCceEEeeeccccCcHHHHH
Confidence 345666555555544431 1 11223347899999999999999987765 44444333333333322555
Q ss_pred HH
Q 041971 97 VV 98 (1044)
Q Consensus 97 L~ 98 (1044)
|.
T Consensus 280 LL 281 (457)
T KOG0743|consen 280 LL 281 (457)
T ss_pred HH
Confidence 54
No 194
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.57 E-value=0.021 Score=67.40 Aligned_cols=62 Identities=19% Similarity=0.287 Sum_probs=39.9
Q ss_pred cCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 13 EGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.-+|..+|.+.....+ --|..++......+.-+.-+...|++||||||||+++..++..+..
T Consensus 5 ~~~L~~KyRP~~f~dv-VGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 5 HEVLSRKYRPQFFRDV-IHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred cchhHHHhCCCCHHHH-hChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 3455566554444444 2466666544333333333556799999999999999988888754
No 195
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=95.57 E-value=0.015 Score=68.27 Aligned_cols=38 Identities=29% Similarity=0.343 Sum_probs=32.2
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPT 86 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~T 86 (1044)
+.+.++.||||+|||||++.++..+. ..|.+|++++..
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D 137 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACD 137 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecc
Confidence 56899999999999999999999986 578888766653
No 196
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.55 E-value=0.015 Score=67.41 Aligned_cols=44 Identities=23% Similarity=0.215 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
-|..++....+....+.-+...++.||||||||+++..++..+.
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 57777665555444444456779999999999999988887765
No 197
>PRK13768 GTPase; Provisional
Probab=95.55 E-value=0.015 Score=63.88 Aligned_cols=35 Identities=23% Similarity=0.322 Sum_probs=32.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
-+.+|.||||+||||++..+...+...|.+++++.
T Consensus 3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 3 YIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 46899999999999999999999999999998875
No 198
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.55 E-value=0.022 Score=65.38 Aligned_cols=47 Identities=21% Similarity=0.254 Sum_probs=37.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC-CH--HHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP-TN--VAIKELA 94 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~-TN--~AVd~v~ 94 (1044)
.+.+.++-||+|+||||+++.+...+...|.+|++++. +. .|++++.
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHH
Confidence 34688999999999999999999999988988876665 33 2555433
No 199
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.54 E-value=0.019 Score=66.12 Aligned_cols=39 Identities=23% Similarity=0.324 Sum_probs=31.8
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC-C-CcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM-K-FRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~-~rILv~A~ 85 (1044)
...++.++.||+|+|||||++.++..++.. | .+|.+++.
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 446899999999999999999999887644 5 57766654
No 200
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.54 E-value=0.021 Score=67.69 Aligned_cols=36 Identities=22% Similarity=0.332 Sum_probs=32.3
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
...+|+||||+|||+++.++...+...+.+++.++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 467899999999999999999999888999988874
No 201
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.52 E-value=0.019 Score=65.69 Aligned_cols=58 Identities=28% Similarity=0.455 Sum_probs=36.0
Q ss_pred ccccccCCCCCC--CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 15 VWNETFGPSLSS--TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 15 ~~~~~~~~~~~~--~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
.|.+++.+..-. -=++...+.+..++.. + ..+..++.||||||||+++.+++..+...
T Consensus 4 ~w~~ky~P~~~~~~~g~~~~~~~L~~~~~~---~-~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 4 LWTEKYRPALLEDILGQDEVVERLSRAVDS---P-NLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred chHHhhCCCcHHHhcCCHHHHHHHHHHHhC---C-CCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 466554333211 2244455555555443 2 22358999999999999999988877644
No 202
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=95.51 E-value=0.012 Score=65.68 Aligned_cols=28 Identities=32% Similarity=0.451 Sum_probs=23.8
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKF 78 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~ 78 (1044)
..+++||||||||+++.++...+...|.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~ 87 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLGY 87 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 5889999999999999888888876653
No 203
>CHL00181 cbbX CbbX; Provisional
Probab=95.48 E-value=0.014 Score=65.27 Aligned_cols=35 Identities=31% Similarity=0.424 Sum_probs=26.9
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCC----cEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKF----RTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~----rILv~A 84 (1044)
...++.||||||||+++.++...+...|. .++.++
T Consensus 60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~ 98 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVT 98 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEec
Confidence 34788999999999999999888776543 355555
No 204
>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=95.47 E-value=0.02 Score=51.91 Aligned_cols=33 Identities=27% Similarity=0.308 Sum_probs=30.9
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.++.|.+|+|||+++..++..|.+.|.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999999999999988
No 205
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=95.47 E-value=0.027 Score=65.17 Aligned_cols=50 Identities=24% Similarity=0.371 Sum_probs=41.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
.+|.||.|+|||.+....+...+. .+.++++++|+...+.++.+++.+..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHh
Confidence 689999999999987655554443 35799999999999999999998764
No 206
>PRK11823 DNA repair protein RadA; Provisional
Probab=95.46 E-value=0.022 Score=67.73 Aligned_cols=50 Identities=20% Similarity=0.279 Sum_probs=40.4
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
....+.+|.||||+|||+++..++..+...+.++|.++.-. ..+++..|.
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra 127 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRA 127 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHH
Confidence 44679999999999999999999999888899999888543 445555554
No 207
>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=95.45 E-value=0.02 Score=58.76 Aligned_cols=50 Identities=20% Similarity=0.202 Sum_probs=39.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
+.+|.||||+|||+.+..++.. .+.+++.+|.....=+++.+|+..+...
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~~~ 50 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHRKR 50 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHHHh
Confidence 4799999999999999887654 6778888877766667799998876543
No 208
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.45 E-value=0.028 Score=66.40 Aligned_cols=47 Identities=23% Similarity=0.475 Sum_probs=32.0
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
..+..+++||||||||+++..+...+ +.+...++.+...++.+.+.+
T Consensus 35 ~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~~~ir~ii 81 (413)
T PRK13342 35 RLSSMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGVKDLREVI 81 (413)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccHHHHHHHH
Confidence 34567889999999999988776543 455555555555555554433
No 209
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=95.44 E-value=0.024 Score=59.14 Aligned_cols=52 Identities=25% Similarity=0.289 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
.-.+++.|.+.+..++.. ....+|.||+|+||||++.+++..+ ....++++.
T Consensus 7 ~g~~~~~~~~~l~~~v~~------g~~i~I~G~tGSGKTTll~aL~~~i-~~~~~~i~i 58 (186)
T cd01130 7 QGTFSPLQAAYLWLAVEA------RKNILISGGTGSGKTTLLNALLAFI-PPDERIITI 58 (186)
T ss_pred cCCCCHHHHHHHHHHHhC------CCEEEEECCCCCCHHHHHHHHHhhc-CCCCCEEEE
Confidence 456889999999999886 5899999999999999998876554 445555543
No 210
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.43 E-value=0.064 Score=64.00 Aligned_cols=29 Identities=24% Similarity=0.370 Sum_probs=23.9
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
++-+...|++|||||||||++..+...|.
T Consensus 32 ~ri~ha~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 32 NKIPQSILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred CCCCceEEEECCCCccHHHHHHHHHHHHc
Confidence 44466899999999999999888877664
No 211
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.42 E-value=0.021 Score=70.59 Aligned_cols=48 Identities=29% Similarity=0.406 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHh-ccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQ-MRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~-~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
+=-+.|.+.|..++.. +.....+.+.+|.||||||||.|+..++..|.
T Consensus 758 PhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 758 PCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred CChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 4457888888888876 23333345567999999999999998887764
No 212
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.42 E-value=0.046 Score=65.87 Aligned_cols=70 Identities=26% Similarity=0.231 Sum_probs=54.6
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhC---------CCcEEEEcCCHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQM---------KFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~---------~~rILv~A~TN~AVd~v~ 94 (1044)
...+++-|.+|+..++.. .-.+|.+|.|||||.... .++..++.. +.++|+++||..-+.++.
T Consensus 107 ~~~~~~iQ~~ai~~~~~G-------~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~ 179 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAG-------HDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIA 179 (475)
T ss_pred CCCCCHHHHHHHHHHhCC-------CCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHH
Confidence 356899999999988874 457899999999997643 444445443 357999999999999998
Q ss_pred HHHHHHH
Q 041971 95 ARVVKLV 101 (1044)
Q Consensus 95 ~rL~~~~ 101 (1044)
+.+..+.
T Consensus 180 ~~~~~l~ 186 (475)
T PRK01297 180 KDAAALT 186 (475)
T ss_pred HHHHHhh
Confidence 8887664
No 213
>PRK06851 hypothetical protein; Provisional
Probab=95.42 E-value=0.018 Score=65.97 Aligned_cols=43 Identities=19% Similarity=0.266 Sum_probs=36.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEE--EEcCCHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTL--VCTPTNVAIK 91 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rIL--v~A~TN~AVd 91 (1044)
..+.+|.||||||||+++..++..+..+|.+|. -|+.-+..+|
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD 258 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLD 258 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcc
Confidence 578999999999999999999999999998764 4666665554
No 214
>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=95.39 E-value=0.027 Score=63.59 Aligned_cols=41 Identities=20% Similarity=0.226 Sum_probs=35.9
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
...++.|.||||||||+++..++....+.|.+++++..-+.
T Consensus 54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~ 94 (325)
T cd00983 54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHA 94 (325)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECcccc
Confidence 35799999999999999999999999999999998886443
No 215
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.39 E-value=0.021 Score=68.86 Aligned_cols=51 Identities=18% Similarity=0.093 Sum_probs=40.3
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcCCHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
...+.+|.||||||||++....+..-+.. |.++|.++.- ...+++.+...+
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~ 71 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARS 71 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHH
Confidence 46899999999999999999998876665 8999998875 455555555543
No 216
>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=95.35 E-value=0.022 Score=68.75 Aligned_cols=49 Identities=22% Similarity=0.306 Sum_probs=44.5
Q ss_pred EEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 53 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
|++||.|+|||.+...++..++..|.++|+++|+..-+.++.+++.+.+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f 49 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRF 49 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 5899999999999888888888899999999999999999999998653
No 217
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.34 E-value=0.039 Score=60.42 Aligned_cols=39 Identities=28% Similarity=0.280 Sum_probs=35.7
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.++..+.=|+|+||.||||++-.++..|...|+||-|+|
T Consensus 48 tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 48 TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 356778999999999999999999999999999998887
No 218
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=95.34 E-value=0.012 Score=64.16 Aligned_cols=35 Identities=31% Similarity=0.458 Sum_probs=25.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.+...+||||||||||....++.+. +|..-|.++
T Consensus 164 k~Pkg~ll~GppGtGKTlla~~Vaa~---mg~nfl~v~ 198 (388)
T KOG0651|consen 164 KPPKGLLLYGPPGTGKTLLARAVAAT---MGVNFLKVV 198 (388)
T ss_pred CCCceeEEeCCCCCchhHHHHHHHHh---cCCceEEee
Confidence 56788999999999999877665544 465544443
No 219
>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=95.32 E-value=0.035 Score=54.42 Aligned_cols=53 Identities=26% Similarity=0.263 Sum_probs=38.1
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
|+.+-+++...+.. +-....+.++.|+.|+|||+++..++..| |..--|.|||
T Consensus 4 s~~~t~~l~~~l~~--~l~~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPT 56 (133)
T TIGR00150 4 DEKAMDKFGKAFAK--PLDFGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPT 56 (133)
T ss_pred CHHHHHHHHHHHHH--hCCCCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCC
Confidence 45566666666654 22346799999999999999999988876 3333477887
No 220
>PRK09694 helicase Cas3; Provisional
Probab=95.31 E-value=0.046 Score=69.63 Aligned_cols=72 Identities=17% Similarity=0.185 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.+..+|-|..+.... ..+++.+|.+|.|+|||..+...+..++..+ .+|+++.||...+++|.+|+.+...
T Consensus 284 ~~~p~p~Q~~~~~~~-------~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 284 GYQPRQLQTLVDALP-------LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCCChHHHHHHHhhc-------cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 456788899774322 1368999999999999999877777777665 5999999999999999999987665
Q ss_pred H
Q 041971 103 E 103 (1044)
Q Consensus 103 ~ 103 (1044)
.
T Consensus 357 ~ 357 (878)
T PRK09694 357 K 357 (878)
T ss_pred H
Confidence 4
No 221
>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=95.31 E-value=0.028 Score=65.10 Aligned_cols=50 Identities=20% Similarity=0.276 Sum_probs=40.2
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
....+.+|.||||+|||+++..++..+...+.++|.++... ..+++..|.
T Consensus 80 ~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE-s~~qi~~Ra 129 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE-SPEQIKLRA 129 (372)
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc-CHHHHHHHH
Confidence 44689999999999999999999999998889999887653 344555443
No 222
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.30 E-value=0.026 Score=65.14 Aligned_cols=75 Identities=17% Similarity=0.240 Sum_probs=55.9
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--C-cEEEEcCCHHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--F-RTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~-rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.+--++|...+..++...--++.+...+|.||||||||.++..++..+...- . -+-|=+..+.--.++..++...
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~ 96 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK 96 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence 6677899999999988866666677799999999999999999988887652 2 2445555555555566666544
No 223
>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=95.28 E-value=0.026 Score=48.71 Aligned_cols=31 Identities=26% Similarity=0.215 Sum_probs=24.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
..|.||||+|||+++..+...+ .+.++.+.+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i~ 32 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVLD 32 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEEe
Confidence 4688999999999998888887 445554443
No 224
>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=95.28 E-value=0.022 Score=59.01 Aligned_cols=35 Identities=29% Similarity=0.273 Sum_probs=28.8
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
|+.+|.|.+|+||||++..++. ....+.++.++..
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~n 35 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVN 35 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEEC
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEc
Confidence 5789999999999999999998 6677888877753
No 225
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=95.25 E-value=0.047 Score=60.34 Aligned_cols=75 Identities=21% Similarity=0.265 Sum_probs=66.8
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
..+|++-|+.|-...+..+ .+..-++||+--|+|||..+-..+...++.|.+|.++||.-.-+.++..||.....
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i---~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYI---KQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred ccccChhHHHHHHHHHHHH---HhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc
Confidence 3579999999998887764 34678999999999999999999999999999999999999999999999986654
No 226
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.23 E-value=0.023 Score=65.99 Aligned_cols=39 Identities=28% Similarity=0.445 Sum_probs=32.0
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH-HhCCCcEEEEcCCH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL-LQMKFRTLVCTPTN 87 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L-l~~~~rILv~A~TN 87 (1044)
+.+.+|.||+|+|||||++.++..+ ...|.+|++++.-.
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt 262 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDN 262 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccc
Confidence 4678899999999999999999765 67788887777533
No 227
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=95.22 E-value=0.053 Score=66.05 Aligned_cols=69 Identities=20% Similarity=0.158 Sum_probs=53.0
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHH-HHHHHHHHh---------CCCcEEEEcCCHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTV-SMLLVILLQ---------MKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti-~~ll~~Ll~---------~~~rILv~A~TN~AVd~v~ 94 (1044)
...++|-|.+|+..+++. .-.++.+|.|||||..- ..++..++. .+.++|+++||..-+.++.
T Consensus 141 ~~~ptpiQ~~aip~il~g-------~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~ 213 (518)
T PLN00206 141 YEFPTPIQMQAIPAALSG-------RSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVE 213 (518)
T ss_pred CCCCCHHHHHHHHHHhcC-------CCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHH
Confidence 357899999999999875 67899999999999763 334444332 3458999999999998877
Q ss_pred HHHHHH
Q 041971 95 ARVVKL 100 (1044)
Q Consensus 95 ~rL~~~ 100 (1044)
+.+..+
T Consensus 214 ~~~~~l 219 (518)
T PLN00206 214 DQAKVL 219 (518)
T ss_pred HHHHHH
Confidence 766544
No 228
>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=95.20 E-value=0.019 Score=58.91 Aligned_cols=29 Identities=31% Similarity=0.491 Sum_probs=23.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcE
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRT 80 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rI 80 (1044)
.+|+|+||+||||++..++..|-..+.++
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~v 30 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLPV 30 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGGE
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCcc
Confidence 47999999999999999998887766554
No 229
>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=95.19 E-value=0.025 Score=63.87 Aligned_cols=38 Identities=26% Similarity=0.282 Sum_probs=33.9
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
....+..|.||||+||||++..++..+...|.++.+++
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 45688889999999999999999999999999998766
No 230
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.19 E-value=0.069 Score=65.02 Aligned_cols=44 Identities=23% Similarity=0.189 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+..++-+...|++||||||||+++..+...|..
T Consensus 21 Qe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 21 QEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred cHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45544444444444556778899999999999999999888865
No 231
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.18 E-value=0.032 Score=65.77 Aligned_cols=37 Identities=27% Similarity=0.305 Sum_probs=30.4
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHH--hCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILL--QMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll--~~~~rILv~A~ 85 (1044)
..+.++.||+|+|||||++.++..+. ..|.+|.+++.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 46888999999999999999988886 45678866554
No 232
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.16 E-value=0.03 Score=57.77 Aligned_cols=38 Identities=21% Similarity=0.228 Sum_probs=32.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
|.+.+.+|.|+||+||||++..+...+...|..+.++.
T Consensus 2 ~~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id 39 (175)
T PRK00889 2 QRGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLD 39 (175)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEc
Confidence 55678999999999999999999998877777776663
No 233
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.16 E-value=0.026 Score=64.50 Aligned_cols=39 Identities=28% Similarity=0.226 Sum_probs=33.8
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
..+.+.+|.||.|+|||||++.+...+...|.+|.+++-
T Consensus 204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIta 242 (407)
T PRK12726 204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITT 242 (407)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 356889999999999999999999998888998876654
No 234
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=95.15 E-value=0.017 Score=70.09 Aligned_cols=62 Identities=13% Similarity=0.159 Sum_probs=40.9
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
-+|...|.+.....+- -|..++....+.+..++-+...|++||||||||+++..++..|...
T Consensus 4 ~~~~~KyRP~~F~dII-GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 4 ITFYRKYRPHNFKQII-GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred hhHHHHhCCCCHHHhc-CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4566655544433433 4555555444444344556678999999999999999998888643
No 235
>PRK06696 uridine kinase; Validated
Probab=95.15 E-value=0.04 Score=59.33 Aligned_cols=39 Identities=15% Similarity=0.022 Sum_probs=32.6
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
...+-+..|.||||+||||++..++..|-..|..+++++
T Consensus 19 ~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 19 LTRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred CCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 345679999999999999999999888877777777665
No 236
>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=95.14 E-value=0.026 Score=63.79 Aligned_cols=25 Identities=32% Similarity=0.614 Sum_probs=20.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
....+++||||||||+++.++...+
T Consensus 30 ~~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 30 LDHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 4568999999999999998876654
No 237
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=95.14 E-value=0.032 Score=70.67 Aligned_cols=69 Identities=25% Similarity=0.365 Sum_probs=51.9
Q ss_pred ccCHHHhhhhcC-CCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeE
Q 041971 873 EVTDEQLEMILS-PRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQ 951 (1044)
Q Consensus 873 ~lt~~e~~iI~~-~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q 951 (1044)
.|+++|+++|.+ .++++|+|=.||||||+++.|+--. +...+ .+.=+.
T Consensus 9 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~vl~~Ria~L-----i~~~~--------------------------v~p~~I 57 (721)
T PRK11773 9 SLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWL-----MQVEN--------------------------ASPYSI 57 (721)
T ss_pred hcCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHHHH-----HHcCC--------------------------CChhHe
Confidence 489999999965 6899999999999999999988421 11110 011357
Q ss_pred EEEecCHHHHHHHHHHHHHHH
Q 041971 952 LFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 952 ~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
+.||-+...|.++++.+.++.
T Consensus 58 L~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 58 MAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred EeeeccHHHHHHHHHHHHHHh
Confidence 788888888999888887764
No 238
>PRK07667 uridine kinase; Provisional
Probab=95.13 E-value=0.044 Score=57.57 Aligned_cols=42 Identities=21% Similarity=0.057 Sum_probs=34.7
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
...-+..|.||||+||||++..+...|-..|.++.+++.-+-
T Consensus 15 ~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~ 56 (193)
T PRK07667 15 ENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY 56 (193)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence 334688999999999999999999998888888877776553
No 239
>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=95.13 E-value=0.025 Score=62.68 Aligned_cols=36 Identities=31% Similarity=0.342 Sum_probs=29.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+..+|.||+|+||||++.+++..+-..+.+|+++-
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iE 162 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIE 162 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEE
T ss_pred ceEEEEECCCccccchHHHHHhhhccccccceEEec
Confidence 589999999999999999999877665557776654
No 240
>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=95.12 E-value=0.015 Score=57.54 Aligned_cols=23 Identities=35% Similarity=0.677 Sum_probs=19.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.++.||||+||||++..+...+
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRL 23 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHS
T ss_pred CEEEECCCCCCHHHHHHHHHHHC
Confidence 47899999999999988776543
No 241
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=95.11 E-value=0.019 Score=66.31 Aligned_cols=60 Identities=23% Similarity=0.274 Sum_probs=36.5
Q ss_pred ccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 15 VWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 15 ~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+|.+++++.....+ -.|..++......+.-++-+...|++||||||||+++..++..+..
T Consensus 3 ~~~~~~rp~~~~~i-ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 3 VLARKYRPQTFEDV-IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred cHHHHhCCCcHhhc-cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45554443333333 2344444443333333444567899999999999999888888764
No 242
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=95.10 E-value=0.035 Score=69.61 Aligned_cols=68 Identities=21% Similarity=0.230 Sum_probs=49.0
Q ss_pred ccCHHHhhhhcC-CCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeE
Q 041971 873 EVTDEQLEMILS-PRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQ 951 (1044)
Q Consensus 873 ~lt~~e~~iI~~-~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q 951 (1044)
+|+++|+++|.+ .++++|+|=.||||||+++.|+-.. +...+ .+.=+.
T Consensus 2 ~Ln~~Q~~av~~~~g~~lV~AgpGSGKT~vL~~Ria~L-----i~~~~--------------------------v~p~~I 50 (672)
T PRK10919 2 RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHL-----IRGCG--------------------------YQARHI 50 (672)
T ss_pred CCCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHHHH-----HHhcC--------------------------CCHHHe
Confidence 589999999965 7899999999999999999998332 11100 011246
Q ss_pred EEEecCHHHHHHHHHHHHHH
Q 041971 952 LFVTVSPKLCFAIKQHISQM 971 (1044)
Q Consensus 952 ~FvT~s~~L~~~v~~~~~~l 971 (1044)
+-+|-+..-|.++++.+.++
T Consensus 51 L~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 51 AAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred eeEechHHHHHHHHHHHHHH
Confidence 67777777777777766654
No 243
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.09 E-value=0.027 Score=67.76 Aligned_cols=45 Identities=24% Similarity=0.298 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-|..++......+.-+.-+...|++||||||||+++..++..+..
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence 466665554443333444556699999999999999888888764
No 244
>PF05729 NACHT: NACHT domain
Probab=95.06 E-value=0.021 Score=57.64 Aligned_cols=27 Identities=30% Similarity=0.454 Sum_probs=24.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
+.+|.|+||+|||+++..++..+...+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 679999999999999999998888765
No 245
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.06 E-value=0.03 Score=63.99 Aligned_cols=46 Identities=17% Similarity=0.333 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHhc-cccCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQM-RCDHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~-~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
-.+...+++...+... ..+...+..+|+||||||||+++..+...+
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 3445555555555431 112345678999999999999998776665
No 246
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.06 E-value=0.025 Score=68.35 Aligned_cols=60 Identities=20% Similarity=0.219 Sum_probs=40.3
Q ss_pred ccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 15 VWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 15 ~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+|+.+|.+.....+ -.|..++......+..+.-+...|++||||||||+++..++..|..
T Consensus 5 ~La~KyRP~~f~di-iGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 5 ALARKYRPQSFAEV-AGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred hHHHHHCcCcHHHh-cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 44455443322222 1567766665555555555677899999999999999998888764
No 247
>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=95.02 E-value=0.028 Score=64.03 Aligned_cols=51 Identities=20% Similarity=0.204 Sum_probs=34.6
Q ss_pred CCCCCHHHHHHHHHHHHhccc-cCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 25 SSTLNDSQAQAVLSCLRQMRC-DHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~-~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.+.+++...+.|...-..... .....+.++.||||||||+++.+++..|-.
T Consensus 53 ~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 53 FFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred ccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 445666666666544333221 234688999999999999998888777643
No 248
>PRK06620 hypothetical protein; Validated
Probab=94.99 E-value=0.028 Score=60.11 Aligned_cols=43 Identities=23% Similarity=0.120 Sum_probs=26.6
Q ss_pred CCHHHHHHHHHHHHhccccC-CC--ceEEEEccCCCcHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQMRCDH-KA--TIQLIWGPPGTGKTKTVSMLL 70 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~-~~--~i~LI~GPPGTGKT~ti~~ll 70 (1044)
-.++-..|+..+..-..-+. ++ +..+|+||||+|||+++.++.
T Consensus 20 vg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~ 65 (214)
T PRK06620 20 VSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQ 65 (214)
T ss_pred ecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHH
Confidence 34445556555544221121 12 458999999999999988643
No 249
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=94.99 E-value=0.034 Score=55.21 Aligned_cols=39 Identities=26% Similarity=0.376 Sum_probs=31.1
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
++..|.||.||||||++..++..|.++|.++.++-.++.
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEccC
Confidence 467899999999999999999999999999886655544
No 250
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=94.99 E-value=0.025 Score=56.36 Aligned_cols=29 Identities=31% Similarity=0.437 Sum_probs=25.8
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcE
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRT 80 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rI 80 (1044)
..|+||||.||||++..++..|...|.+|
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 57999999999999999999998888765
No 251
>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=94.98 E-value=0.013 Score=56.63 Aligned_cols=22 Identities=41% Similarity=0.510 Sum_probs=15.8
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.||+|+||+|||+++.++...+
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 5899999999999988776663
No 252
>PRK05541 adenylylsulfate kinase; Provisional
Probab=94.96 E-value=0.039 Score=56.94 Aligned_cols=37 Identities=22% Similarity=0.160 Sum_probs=30.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
+++.+.++.||||+||||++..+...|...+..+.++
T Consensus 5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4567899999999999999998888887666666555
No 253
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.94 E-value=0.032 Score=63.38 Aligned_cols=39 Identities=26% Similarity=0.263 Sum_probs=34.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
..+.+.-|.||||+||||++..++..+...|.+|.+++-
T Consensus 54 ~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 54 GNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred CCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 346688899999999999999999999988988887764
No 254
>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=94.94 E-value=0.063 Score=64.57 Aligned_cols=63 Identities=21% Similarity=0.180 Sum_probs=49.3
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
..+.|-|.+|+..++.. .-.+|.+|.|||||.+- ++-.+. .+..+|+++||..-+.+...++.
T Consensus 10 ~~~r~~Q~~ai~~~l~g-------~dvlv~apTGsGKTl~y--~lp~l~-~~~~~lVi~P~~~L~~dq~~~l~ 72 (470)
T TIGR00614 10 SSFRPVQLEVINAVLLG-------RDCFVVMPTGGGKSLCY--QLPALC-SDGITLVISPLISLMEDQVLQLK 72 (470)
T ss_pred CCCCHHHHHHHHHHHcC-------CCEEEEcCCCCcHhHHH--HHHHHH-cCCcEEEEecHHHHHHHHHHHHH
Confidence 46889999999999985 45899999999999642 233333 46689999999988877777765
No 255
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.90 E-value=0.055 Score=71.00 Aligned_cols=67 Identities=16% Similarity=0.249 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
+.++.+..++.. +.+.+|.||||+||||-+-.++...- ....+|+++-|-..|+..++.|+.+.+..
T Consensus 70 ~~~~~Il~~l~~------~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~ 137 (1283)
T TIGR01967 70 AKREDIAEAIAE------NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGT 137 (1283)
T ss_pred HHHHHHHHHHHh------CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCC
Confidence 345677777765 58999999999999998765554432 12347888999999999999999987643
No 256
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.89 E-value=0.047 Score=63.40 Aligned_cols=38 Identities=29% Similarity=0.400 Sum_probs=30.6
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHh----CCCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQ----MKFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~----~~~rILv~A~ 85 (1044)
.+.+.++.||+|+|||||++.++..+.. .|.+|.+++-
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~ 214 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITI 214 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEec
Confidence 3678999999999999999999888763 4677765554
No 257
>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=94.89 E-value=0.034 Score=55.85 Aligned_cols=35 Identities=29% Similarity=0.303 Sum_probs=30.9
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
..+.|++|+|||+++..+...+...|.+++++...
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D 36 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAID 36 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 46789999999999999999999999999887743
No 258
>PF13245 AAA_19: Part of AAA domain
Probab=94.88 E-value=0.097 Score=46.15 Aligned_cols=52 Identities=19% Similarity=0.269 Sum_probs=36.8
Q ss_pred Cc-EEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeEEEEecCHHHHHHH
Q 041971 886 RS-TFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQLFVTVSPKLCFAI 964 (1044)
Q Consensus 886 ~~-~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~FvT~s~~L~~~v 964 (1044)
.+ ++|.|..||||||+++-++-..-... . .. .-+.+++|.+...+.++
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~----~--------------------------~~-~~~vlv~a~t~~aa~~l 58 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAAR----A--------------------------DP-GKRVLVLAPTRAAADEL 58 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHh----c--------------------------CC-CCeEEEECCCHHHHHHH
Confidence 44 44599999999999887774432100 0 01 24689999999999999
Q ss_pred HHHH
Q 041971 965 KQHI 968 (1044)
Q Consensus 965 ~~~~ 968 (1044)
++.+
T Consensus 59 ~~rl 62 (76)
T PF13245_consen 59 RERL 62 (76)
T ss_pred HHHH
Confidence 7776
No 259
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=94.88 E-value=0.075 Score=63.30 Aligned_cols=56 Identities=16% Similarity=0.179 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhccccC-CCceEEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcC
Q 041971 30 DSQAQAVLSCLRQMRCDH-KATIQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTP 85 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~-~~~i~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~ 85 (1044)
++.+.|+..+..-..-++ .....+|+||||||||+++.++...+.. .+.+|+.++.
T Consensus 121 ~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 121 SSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 344445554443222111 2345789999999999999988887764 3677876664
No 260
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.87 E-value=0.04 Score=66.95 Aligned_cols=51 Identities=24% Similarity=0.213 Sum_probs=43.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
....+.+|.||||||||+++..++...+..|.++++++.... .+++.+++.
T Consensus 271 ~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~ 321 (509)
T PRK09302 271 FRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNAR 321 (509)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHH
Confidence 446899999999999999999999999999999999988664 556666554
No 261
>PRK09354 recA recombinase A; Provisional
Probab=94.86 E-value=0.047 Score=62.17 Aligned_cols=41 Identities=17% Similarity=0.202 Sum_probs=35.7
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
...++.|.||||||||++...++...+..|.+++.+..-+.
T Consensus 59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s 99 (349)
T PRK09354 59 RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA 99 (349)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccc
Confidence 35799999999999999999999999999998888876543
No 262
>PTZ00110 helicase; Provisional
Probab=94.86 E-value=0.083 Score=64.66 Aligned_cols=70 Identities=19% Similarity=0.071 Sum_probs=52.9
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh-------CCCcEEEEcCCHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ-------MKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~-------~~~rILv~A~TN~AVd~v~~r 96 (1044)
...+++-|..|+-.+++. .-.++.+|.|||||.+.. -++..+.. .+..+|+++||..-+.++.+.
T Consensus 150 ~~~pt~iQ~~aip~~l~G-------~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~ 222 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSG-------RDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQ 222 (545)
T ss_pred CCCCCHHHHHHHHHHhcC-------CCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHH
Confidence 456899999999999875 456889999999998632 23333332 145799999999999988887
Q ss_pred HHHHH
Q 041971 97 VVKLV 101 (1044)
Q Consensus 97 L~~~~ 101 (1044)
+.++.
T Consensus 223 ~~~~~ 227 (545)
T PTZ00110 223 CNKFG 227 (545)
T ss_pred HHHHh
Confidence 77653
No 263
>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=94.85 E-value=0.035 Score=56.18 Aligned_cols=35 Identities=26% Similarity=0.336 Sum_probs=31.3
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
..|.||+|+||||++..++..|...|.+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 56889999999999999999998889999887755
No 264
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=94.77 E-value=0.029 Score=64.55 Aligned_cols=36 Identities=19% Similarity=0.346 Sum_probs=28.6
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEE
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVC 83 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~ 83 (1044)
..++.+|.||+|+|||||+.+++..+... +.+|+++
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti 157 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI 157 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence 35899999999999999999988776543 4556554
No 265
>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=94.75 E-value=0.047 Score=65.00 Aligned_cols=50 Identities=20% Similarity=0.377 Sum_probs=40.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
....+.+|.|+||+|||+++..++..+...+.++|.++.-. ...++..|.
T Consensus 92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE-s~~qi~~ra 141 (454)
T TIGR00416 92 VPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE-SLQQIKMRA 141 (454)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC-CHHHHHHHH
Confidence 45689999999999999999999999988888998888643 344555443
No 266
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=94.75 E-value=0.037 Score=56.94 Aligned_cols=50 Identities=20% Similarity=0.242 Sum_probs=38.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
+.+|.||||||||+.+..++..+ +.+++.+|.....-+++.+|+..+...
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h~~~ 52 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHHRQR 52 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHHHhc
Confidence 58999999999999988776543 556666665556667888999877554
No 267
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=94.73 E-value=0.026 Score=53.22 Aligned_cols=23 Identities=43% Similarity=0.729 Sum_probs=19.9
Q ss_pred EEEccCCCcHHHHHHHHHHHHHh
Q 041971 53 LIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.|+||||+|||+++..++..++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 58999999999999888877764
No 268
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=94.69 E-value=0.096 Score=53.89 Aligned_cols=70 Identities=17% Similarity=0.092 Sum_probs=53.1
Q ss_pred CccccCHHHhhhhc---CC-CcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCC
Q 041971 870 LPFEVTDEQLEMIL---SP-RSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETE 945 (1044)
Q Consensus 870 ~pf~lt~~e~~iI~---~~-~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 945 (1044)
.++.+++.|.+++. .. .+++|.|..|||||++++.-++..-...
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~-------------------------------- 52 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRG-------------------------------- 52 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhccc--------------------------------
Confidence 45778999998883 44 7999999999999998887775531100
Q ss_pred CCceeEEEEecCHHHHHHHHHHHHHHH
Q 041971 946 RPILRQLFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 946 ~~~l~q~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
..-+.++++.+..++.++.+.+..+.
T Consensus 53 -~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 53 -KGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred -CCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 01468999999999999888777654
No 269
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=94.64 E-value=0.025 Score=59.44 Aligned_cols=38 Identities=29% Similarity=0.464 Sum_probs=30.3
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE--cCCHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC--TPTNVA 89 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~--A~TN~A 89 (1044)
.+|.||||+||||-...+-..+-..|.++.++ -|.|.+
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~ 44 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDN 44 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccC
Confidence 58999999999999998888888888876655 345544
No 270
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=94.63 E-value=0.038 Score=61.67 Aligned_cols=58 Identities=24% Similarity=0.180 Sum_probs=49.9
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC--cEEEEcCCHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF--RTLVCTPTNVAIK 91 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~--rILv~A~TN~AVd 91 (1044)
.-...++.|..-+.++..+ .+..=.||.|||||++.++....++..+. ||+++=| ||+
T Consensus 125 ~I~~kt~~Q~~y~eai~~~-------di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP---aVE 184 (348)
T COG1702 125 SIIPKTPGQNMYPEAIEEH-------DIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP---AVE 184 (348)
T ss_pred ceEecChhHHHHHHHHHhc-------CeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc---chh
Confidence 3567899999999999886 89999999999999999988888888774 8988888 664
No 271
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=94.58 E-value=0.028 Score=54.20 Aligned_cols=21 Identities=43% Similarity=0.453 Sum_probs=19.2
Q ss_pred EEEccCCCcHHHHHHHHHHHH
Q 041971 53 LIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+|.|+|||||||++..+...+
T Consensus 2 ~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 689999999999998888887
No 272
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.57 E-value=0.064 Score=61.96 Aligned_cols=35 Identities=20% Similarity=0.281 Sum_probs=28.7
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEE
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVC 83 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~ 83 (1044)
.++.+|.||+|+||||++.+++..+... +.+|+++
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 5899999999999999999999888753 3456553
No 273
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.57 E-value=0.026 Score=69.13 Aligned_cols=62 Identities=21% Similarity=0.170 Sum_probs=43.5
Q ss_pred cCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 13 EGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+-+|..+|.+.....+- -|..++....+.+..+.-+...|++||||||||+++..++..|..
T Consensus 3 y~vla~KyRP~~f~dvi-GQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 3 YLVLARKYRPRSFSEMV-GQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred hHHHHHHHCCCCHHHhc-CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44566666655555554 366666555544445555678899999999999999998888864
No 274
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.56 E-value=0.065 Score=67.17 Aligned_cols=25 Identities=28% Similarity=0.575 Sum_probs=20.4
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+..+++||||||||+++..+...+
T Consensus 52 ~~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 52 VGSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3567999999999999888777653
No 275
>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=94.56 E-value=0.066 Score=58.29 Aligned_cols=52 Identities=17% Similarity=0.292 Sum_probs=39.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHh------------CCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQ------------MKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~------------~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.+.+|.||||||||+++..++..+.. .+.+||+.+-=..+ +++.+|+.....
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i~~ 65 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAILQ 65 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHHHh
Confidence 57899999999999999988777652 35678888754433 578888887754
No 276
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=94.55 E-value=0.031 Score=57.80 Aligned_cols=35 Identities=29% Similarity=0.354 Sum_probs=29.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
++.+++|+||+||||....++..|-..+.++..++
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~ 36 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLE 36 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhccccc
Confidence 57899999999999999999999988887765443
No 277
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.54 E-value=0.066 Score=64.64 Aligned_cols=61 Identities=21% Similarity=0.164 Sum_probs=38.5
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-+|..+|.+.....+= -|..++....+.+.-++-+...|++||||||||+++..++..|..
T Consensus 4 ~~l~~kyRP~~f~div-Gq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 4 QVLARKWRPRCFQEVI-GQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred hhHHHHHCCCCHHHhc-CCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3445555443333332 355444444333333455667899999999999999988888864
No 278
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.54 E-value=1.3 Score=56.45 Aligned_cols=30 Identities=30% Similarity=0.340 Sum_probs=25.1
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+.-+...|+.||||||||+++..+...|..
T Consensus 34 ~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 34 GRINHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred CCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 344567899999999999999999888864
No 279
>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=94.54 E-value=0.046 Score=58.75 Aligned_cols=41 Identities=22% Similarity=0.173 Sum_probs=33.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCC------CcEEEEcCCH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMK------FRTLVCTPTN 87 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~------~rILv~A~TN 87 (1044)
....++.|.||||+|||+++..++...+..+ .+++..+.-+
T Consensus 17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 17 PTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred cCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 3468999999999999999999988877766 7777766544
No 280
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=94.51 E-value=0.92 Score=52.78 Aligned_cols=40 Identities=23% Similarity=0.194 Sum_probs=33.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCC--cEEEEcCCH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKF--RTLVCTPTN 87 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~--rILv~A~TN 87 (1044)
..++.+|+||.|.|||+++.++...+...+. +|+.++..+
T Consensus 112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~ 153 (408)
T COG0593 112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSED 153 (408)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHH
Confidence 3678999999999999999999999988766 777666533
No 281
>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=94.51 E-value=0.03 Score=60.84 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=23.8
Q ss_pred EEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 54 IWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 54 I~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
|.||||+||||.+.++..++...|.++.++
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 679999999999999999988777776655
No 282
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.49 E-value=0.039 Score=65.13 Aligned_cols=41 Identities=22% Similarity=0.386 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|.++|..++..+. ..+-.+|.||||||||+++.++...+..
T Consensus 25 re~vI~lll~aal---ag~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 25 RSHAIRLCLLAAL---SGESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred cHHHHHHHHHHHc---cCCCEEEECCCChhHHHHHHHHHHHhcc
Confidence 4455555544432 2488999999999999999888776544
No 283
>PRK01172 ski2-like helicase; Provisional
Probab=94.48 E-value=0.11 Score=65.64 Aligned_cols=67 Identities=16% Similarity=0.298 Sum_probs=53.0
Q ss_pred ccccCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCC
Q 041971 871 PFEVTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERP 947 (1044)
Q Consensus 871 pf~lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 947 (1044)
+|++++-|.++| ....+++|.+..|+|||+|+.+-++.. +. .
T Consensus 20 ~~~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~--l~----~----------------------------- 64 (674)
T PRK01172 20 DFELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYET--FL----A----------------------------- 64 (674)
T ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHH--HH----h-----------------------------
Confidence 688999999998 356799999999999999988766432 11 0
Q ss_pred ceeEEEEecCHHHHHHHHHHHHHHH
Q 041971 948 ILRQLFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 948 ~l~q~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
..+.|||+...-||.++-+.+.++.
T Consensus 65 ~~k~v~i~P~raLa~q~~~~~~~l~ 89 (674)
T PRK01172 65 GLKSIYIVPLRSLAMEKYEELSRLR 89 (674)
T ss_pred CCcEEEEechHHHHHHHHHHHHHHh
Confidence 0468999999999999988777653
No 284
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=94.48 E-value=0.04 Score=46.31 Aligned_cols=28 Identities=29% Similarity=0.547 Sum_probs=24.2
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
.+++|.||.|+||||++-++...|....
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~~~ 51 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYGNT 51 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 4899999999999999999888876544
No 285
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.46 E-value=0.045 Score=64.26 Aligned_cols=44 Identities=16% Similarity=0.150 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.++-+.-+...+++||||+|||+++..++..+..
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44444433333333344567889999999999999988888764
No 286
>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=94.45 E-value=0.12 Score=66.68 Aligned_cols=76 Identities=22% Similarity=0.230 Sum_probs=52.7
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
..+...+.|.+.+..+...+. .....+|.+|+|||||.....-+...+..+.+|+|+++|..-.+++..+-...+.
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~---~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~~~~~l~ 317 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLT---HSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEKDIPLLN 317 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhc---cCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHHHHHH
Confidence 346788999985544444331 2467889999999999764333223333688999999999999998876444444
No 287
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.44 E-value=0.029 Score=65.15 Aligned_cols=60 Identities=25% Similarity=0.337 Sum_probs=39.4
Q ss_pred ccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 15 VWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 15 ~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.|++++.+.....+- -|..++....+.+..++-++..+++||||+|||+++..++..+..
T Consensus 6 ~~~~k~rP~~~~~ii-g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 6 VSARKYRPQTFDDVV-GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred HHHHHHCCCcHHhcC-CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345555443333442 455555555554444556778999999999999999888777654
No 288
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=94.40 E-value=0.11 Score=63.86 Aligned_cols=80 Identities=18% Similarity=0.170 Sum_probs=67.7
Q ss_pred cCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcCCHHHH
Q 041971 13 EGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPTNVAI 90 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~TN~AV 90 (1044)
+..-...|..+....|-+-|.+.+..|| . ..++|+.|-|.|||.+++.++...++. +.+|++.|||.--|
T Consensus 48 ~~s~~~~~~~p~~~~lR~YQ~eivq~AL-g-------kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv 119 (746)
T KOG0354|consen 48 DESAAQRWIYPTNLELRNYQEELVQPAL-G-------KNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLV 119 (746)
T ss_pred ChhhhccccccCcccccHHHHHHhHHhh-c-------CCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHH
Confidence 4445568888899999999999999999 4 789999999999999999888888764 57999999999999
Q ss_pred HHHHHHHHHH
Q 041971 91 KELAARVVKL 100 (1044)
Q Consensus 91 d~v~~rL~~~ 100 (1044)
.+-..++...
T Consensus 120 ~QQ~a~~~~~ 129 (746)
T KOG0354|consen 120 NQQIACFSIY 129 (746)
T ss_pred HHHHHHHhhc
Confidence 8766555544
No 289
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=94.36 E-value=0.17 Score=62.81 Aligned_cols=61 Identities=20% Similarity=0.261 Sum_probs=38.5
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-+|...+++.....+- -|..++......+.-++-+...|+.||||||||+++..++..|..
T Consensus 6 ~~l~~KyRP~~f~dIi-GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 6 KALYRKYRPKTFDDIV-GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred hhHHHHhCCCCHHHhc-CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 3455544433333332 355555444333333455677899999999999999888888764
No 290
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=94.36 E-value=0.055 Score=63.33 Aligned_cols=44 Identities=25% Similarity=0.320 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhc--------cc-cCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 30 DSQAQAVLSCLRQM--------RC-DHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~--------~~-~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.|.+.+...+... .. -..+.-.|+.||||||||+++.++...+
T Consensus 137 ~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 137 EEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred HHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence 56766666655320 00 1234558999999999999988876653
No 291
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=94.32 E-value=0.1 Score=64.85 Aligned_cols=64 Identities=20% Similarity=0.253 Sum_probs=49.5
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
..+.|.|++|+..++.. .-.+|.+|.|+|||.+- .+-.++ .+..+|+++|+..-+.+...++..
T Consensus 24 ~~~r~~Q~~ai~~il~g-------~dvlv~apTGsGKTl~y--~lpal~-~~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSG-------RDCLVVMPTGGGKSLCY--QIPALV-LDGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCCHHHHHHHHHHHcC-------CCEEEEcCCCchHHHHH--HHHHHH-cCCCEEEEecHHHHHHHHHHHHHH
Confidence 46889999999999875 56789999999999643 333333 356799999999888877777653
No 292
>PHA02244 ATPase-like protein
Probab=94.31 E-value=0.049 Score=62.12 Aligned_cols=32 Identities=16% Similarity=0.225 Sum_probs=23.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
+...+|+||||||||+++.++...+ +.+...+
T Consensus 119 ~~PVLL~GppGtGKTtLA~aLA~~l---g~pfv~I 150 (383)
T PHA02244 119 NIPVFLKGGAGSGKNHIAEQIAEAL---DLDFYFM 150 (383)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHh---CCCEEEE
Confidence 4567889999999999998887763 4444444
No 293
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=94.30 E-value=0.034 Score=63.04 Aligned_cols=35 Identities=23% Similarity=0.440 Sum_probs=26.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
..+-+.+||||||||||.++.+++..+ |...+.++
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~el---g~~~i~vs 180 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKKM---GIEPIVMS 180 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEE
Confidence 457788999999999999888777664 55555444
No 294
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.29 E-value=0.058 Score=63.12 Aligned_cols=41 Identities=27% Similarity=0.450 Sum_probs=30.3
Q ss_pred CCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
..+...+.+..++.. .+..++.||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~------~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTI------KKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhc------CCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 345566666666654 47789999999999999877766654
No 295
>PRK11054 helD DNA helicase IV; Provisional
Probab=94.29 E-value=0.078 Score=66.25 Aligned_cols=69 Identities=17% Similarity=0.215 Sum_probs=49.3
Q ss_pred ccccCHHHhhhh-cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCce
Q 041971 871 PFEVTDEQLEMI-LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPIL 949 (1044)
Q Consensus 871 pf~lt~~e~~iI-~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 949 (1044)
.+.||++|++.| ...++++|+|=.||||||+++-|.--. +...+ ...-
T Consensus 194 ~~~L~~~Q~~av~~~~~~~lV~agaGSGKT~vl~~r~ayL-----l~~~~--------------------------~~~~ 242 (684)
T PRK11054 194 SSPLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWL-----LARGQ--------------------------AQPE 242 (684)
T ss_pred CCCCCHHHHHHHhCCCCCeEEEEeCCCCHHHHHHHHHHHH-----HHhCC--------------------------CCHH
Confidence 378999998877 456899999999999999999987221 11100 0113
Q ss_pred eEEEEecCHHHHHHHHHHHHH
Q 041971 950 RQLFVTVSPKLCFAIKQHISQ 970 (1044)
Q Consensus 950 ~q~FvT~s~~L~~~v~~~~~~ 970 (1044)
+.+.+|-+...|.++++.+..
T Consensus 243 ~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 243 QILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred HeEEEeccHHHHHHHHHHHHH
Confidence 567778888888888776654
No 296
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.26 E-value=0.066 Score=65.09 Aligned_cols=52 Identities=23% Similarity=0.215 Sum_probs=41.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC-CCcEEEEcCCHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
....+.+|.||||||||++...++...+.. |.++|.++... ..+++.+++..
T Consensus 29 p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~ 81 (509)
T PRK09302 29 PKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVAS 81 (509)
T ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHH
Confidence 346899999999999999999998887777 89999887654 45566666553
No 297
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.24 E-value=0.051 Score=66.20 Aligned_cols=44 Identities=20% Similarity=0.156 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+..+.-+...|+.||||||||+++..++..|..
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 45554444443444445678899999999999999888888753
No 298
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=94.22 E-value=0.2 Score=61.98 Aligned_cols=44 Identities=20% Similarity=0.173 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+.-+.-+...|+.||||||||+++..+...|..
T Consensus 21 Qe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 21 QEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 55555444333333444667899999999999999888888753
No 299
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=94.21 E-value=0.046 Score=57.48 Aligned_cols=37 Identities=30% Similarity=0.404 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHH
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
+.-+.|+.-+... ..-.++.||||||||+++..+-..
T Consensus 9 e~aKrAL~iAAaG------~h~lLl~GppGtGKTmlA~~l~~l 45 (206)
T PF01078_consen 9 EEAKRALEIAAAG------GHHLLLIGPPGTGKTMLARRLPSL 45 (206)
T ss_dssp HHHHHHHHHHHHC------C--EEEES-CCCTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHcC------CCCeEEECCCCCCHHHHHHHHHHh
Confidence 3445566555553 256899999999999977665544
No 300
>PRK13766 Hef nuclease; Provisional
Probab=94.20 E-value=0.16 Score=65.26 Aligned_cols=70 Identities=20% Similarity=0.202 Sum_probs=57.0
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
....+-+-|++++..++. .-.+|..|.|+|||.+...++..++. .+.++|+++||..-+.+..+.+.+..
T Consensus 12 ~~~~~r~yQ~~~~~~~l~--------~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 12 NTIEARLYQQLLAATALK--------KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred CcCCccHHHHHHHHHHhc--------CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 445677889999998876 35799999999999987766666553 46899999999999999888887654
No 301
>PRK13764 ATPase; Provisional
Probab=94.19 E-value=0.052 Score=66.15 Aligned_cols=34 Identities=29% Similarity=0.274 Sum_probs=27.4
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
....+|.||||+||||++.+++..+...+..|+.
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 4668999999999999999999888765554433
No 302
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.17 E-value=0.045 Score=65.71 Aligned_cols=60 Identities=20% Similarity=0.266 Sum_probs=39.6
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
-+|...|.+.....+- .|..++....+.+..++-+...|+.||||||||+++..+...+.
T Consensus 4 ~~~~~kyRP~~f~dii-Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 4 IPFARKYRPKFFKEVI-GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred hHHHHhhCCCcHHHcc-ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3566555444433333 66776665555554455567788999999999888877777664
No 303
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=94.15 E-value=0.087 Score=65.71 Aligned_cols=68 Identities=19% Similarity=0.301 Sum_probs=53.3
Q ss_pred cCccccCHHHhhhhc---------CCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcc
Q 041971 869 DLPFEVTDEQLEMIL---------SPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEE 939 (1044)
Q Consensus 869 ~~pf~lt~~e~~iI~---------~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 939 (1044)
.+||++|+-|+++|. .|-+.+|.|..|||||.++++-++..- . .
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~-----~-~--------------------- 283 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAI-----E-A--------------------- 283 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHH-----H-c---------------------
Confidence 469999999999882 234789999999999999987766531 0 0
Q ss_pred cCCCCCCCceeEEEEecCHHHHHHHHHHHHHH
Q 041971 940 GLGETERPILRQLFVTVSPKLCFAIKQHISQM 971 (1044)
Q Consensus 940 ~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l 971 (1044)
..+.+++.....||.|+.+.+.++
T Consensus 284 --------g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 284 --------GYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred --------CCcEEEECCHHHHHHHHHHHHHHH
Confidence 146899999999999998877775
No 304
>PLN02200 adenylate kinase family protein
Probab=94.11 E-value=0.052 Score=58.86 Aligned_cols=49 Identities=27% Similarity=0.338 Sum_probs=32.6
Q ss_pred CCCCCCCHHHHHHHHHHHHhccccC---------------CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 23 SLSSTLNDSQAQAVLSCLRQMRCDH---------------KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 23 ~~~~~Ln~sQ~~AV~~~l~~~~~~~---------------~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.+.+|--||-......... |.. .+-+.+|.|||||||||....+...+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 4 SSSKPLKLSQAASGLKIWES--FSTEIITLEERGSSSKEKTPFITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred ccCCcchHHHHhhhheeccc--ccccccccccccCCccCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 44556666776665544432 222 34578999999999999888776553
No 305
>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=94.11 E-value=0.014 Score=59.92 Aligned_cols=48 Identities=23% Similarity=0.287 Sum_probs=31.8
Q ss_pred EEEccCCCcHHHHHHHHHHHHHhCCC-cEEEEcCCHHHHHHHHHHHHHH
Q 041971 53 LIWGPPGTGKTKTVSMLLVILLQMKF-RTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~Ll~~~~-rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+|.|+.|.|||+++..+++.++..+. +|+||||+..++..+.+.+...
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~ 49 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKG 49 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC---
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhh
Confidence 58999999999999999988888875 9999999999998877766544
No 306
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.10 E-value=0.17 Score=63.88 Aligned_cols=67 Identities=24% Similarity=0.376 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHH-HhCCCcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVIL-LQMKFRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L-l~~~~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
..+..+..++.+ +.+.+|.||||+||||-+-..+... ...+..|.++=|-..|+-.+++|+.+.+.+
T Consensus 53 ~~~~~i~~ai~~------~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~ 120 (845)
T COG1643 53 AVRDEILKAIEQ------NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGE 120 (845)
T ss_pred HHHHHHHHHHHh------CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCC
Confidence 566777788876 7999999999999999887655544 345568999999999999999999988765
No 307
>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=94.09 E-value=0.15 Score=64.66 Aligned_cols=69 Identities=17% Similarity=0.094 Sum_probs=56.0
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
...|++-|.+|+..++.. .-.+|..|.|||||-.-. -++..+.. .+.++|+++||..-+.++..++.++
T Consensus 34 ~~~p~~~Q~~ai~~il~G-------~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAG-------RHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CCcCCHHHHHHHHHHHCC-------CCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 347999999999998875 569999999999998754 34444444 3568999999999999999998866
No 308
>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=94.08 E-value=0.064 Score=55.64 Aligned_cols=34 Identities=29% Similarity=0.294 Sum_probs=27.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+..|.|+||+||||++..+...+-..|.++.+++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~ 34 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVIS 34 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEe
Confidence 3579999999999999988888877777776654
No 309
>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=94.06 E-value=0.16 Score=51.52 Aligned_cols=66 Identities=23% Similarity=0.242 Sum_probs=48.1
Q ss_pred CHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeE
Q 041971 875 TDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQ 951 (1044)
Q Consensus 875 t~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q 951 (1044)
||.|++++ ....+.++.|..|+|||++.++-+++. +. . . ..-+.
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~--~~---~---------------------------~-~~~~~ 47 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNR--LQ---E---------------------------G-KDARV 47 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHH--HH---T---------------------------T-SSSEE
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhh--hc---c---------------------------C-CCceE
Confidence 56777766 356789999999999999988866542 11 0 0 11378
Q ss_pred EEEecCHHHHHHHHHHHHHHHh
Q 041971 952 LFVTVSPKLCFAIKQHISQMKS 973 (1044)
Q Consensus 952 ~FvT~s~~L~~~v~~~~~~l~~ 973 (1044)
+++....-|+.++.+.+..+-.
T Consensus 48 lii~P~~~l~~q~~~~~~~~~~ 69 (169)
T PF00270_consen 48 LIIVPTRALAEQQFERLRKFFS 69 (169)
T ss_dssp EEEESSHHHHHHHHHHHHHHTT
T ss_pred EEEeeccccccccccccccccc
Confidence 8999999999999877766543
No 310
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.06 E-value=0.052 Score=68.18 Aligned_cols=45 Identities=18% Similarity=0.155 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-|..++....+.+..+.-+...|++||||||||+++..++..|..
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC
Confidence 455555443333333445667799999999999999999888864
No 311
>PRK06762 hypothetical protein; Provisional
Probab=94.02 E-value=0.09 Score=53.61 Aligned_cols=33 Identities=33% Similarity=0.415 Sum_probs=25.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.+.+|.|+||+||||++..+...+ +..+.+++
T Consensus 2 ~~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~ 34 (166)
T PRK06762 2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS 34 (166)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEec
Confidence 3678999999999999988887776 33454444
No 312
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=94.01 E-value=0.1 Score=63.16 Aligned_cols=86 Identities=16% Similarity=0.281 Sum_probs=73.5
Q ss_pred ccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHH
Q 041971 17 NETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 17 ~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~r 96 (1044)
...|....+|.|+..|+.++.-+...+..+ .+=.-||||-=|+|||-+++..+...+..|..+.+.|||-.-+.+-.+.
T Consensus 252 ~~~~~~~LPF~LT~aQ~~vi~EI~~Dl~~~-~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~ 330 (677)
T COG1200 252 LAKFLAALPFKLTNAQKRVIKEILADLASP-VPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYES 330 (677)
T ss_pred HHHHHHhCCCCccHHHHHHHHHHHhhhcCc-hhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHH
Confidence 346667889999999999999998875332 2334689999999999999988888999999999999999999999999
Q ss_pred HHHHHHH
Q 041971 97 VVKLVKE 103 (1044)
Q Consensus 97 L~~~~~~ 103 (1044)
+.+.+..
T Consensus 331 ~~~~l~~ 337 (677)
T COG1200 331 LRKWLEP 337 (677)
T ss_pred HHHHhhh
Confidence 9888764
No 313
>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=93.99 E-value=0.081 Score=50.75 Aligned_cols=36 Identities=25% Similarity=0.229 Sum_probs=31.1
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
.+++|.||+|||++...+...+...+.+|+++---.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~ 37 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP 37 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc
Confidence 578999999999999999999988899988766444
No 314
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.98 E-value=0.04 Score=63.99 Aligned_cols=44 Identities=23% Similarity=0.325 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhc-cc--------cCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 30 DSQAQAVLSCLRQM-RC--------DHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~-~~--------~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.|.+.+..++... .- -..+.-.+++||||||||+++.++...+
T Consensus 128 ~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 128 EEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence 56777776665421 00 0123448999999999999998886654
No 315
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.94 E-value=0.22 Score=61.25 Aligned_cols=44 Identities=25% Similarity=0.222 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+..+.-+...|++||||||||+++..++..+..
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 21 QEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 44444333333333445677899999999999999998888764
No 316
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=93.93 E-value=0.54 Score=59.26 Aligned_cols=67 Identities=19% Similarity=0.063 Sum_probs=48.1
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLVK 102 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~~ 102 (1044)
.-.+.|..+...... + .+.....|+|||-+.+..+......|.+++|+|||..-+....+.+..+..
T Consensus 78 ~p~~vQl~~~~~l~~--------G-~Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 78 RPYDVQLIGALVLHE--------G-NIAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred CCchHHHHhHHHHcC--------C-ceeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHh
Confidence 334566666543322 3 399999999999987665555556799999999999888877777665543
No 317
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=93.92 E-value=0.081 Score=54.35 Aligned_cols=40 Identities=25% Similarity=0.192 Sum_probs=33.7
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
.++..|.||+|+||||++..++..|...|.+|-++-.+..
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~ 45 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH 45 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcCC
Confidence 4688999999999999999999999888888876665444
No 318
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=93.91 E-value=0.047 Score=56.71 Aligned_cols=24 Identities=29% Similarity=0.480 Sum_probs=21.3
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
++.+|.||||+||||++..+...+
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 789999999999999998887664
No 319
>PF12846 AAA_10: AAA-like domain
Probab=93.91 E-value=0.071 Score=59.58 Aligned_cols=42 Identities=29% Similarity=0.362 Sum_probs=36.9
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIK 91 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd 91 (1044)
+-++|.|++|+|||+++..++..++..|.++++.=+...-..
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH
Confidence 458999999999999999999999999999999977755444
No 320
>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=93.90 E-value=0.068 Score=58.55 Aligned_cols=34 Identities=21% Similarity=0.333 Sum_probs=28.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.++.|+||+||||++..+...+-..+.++.++.
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i~ 34 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIILG 34 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEc
Confidence 3689999999999999999988877777776663
No 321
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=93.90 E-value=0.042 Score=56.96 Aligned_cols=23 Identities=22% Similarity=0.538 Sum_probs=19.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.+|.|||||||||+...+...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 36899999999999988876654
No 322
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=93.86 E-value=0.053 Score=55.18 Aligned_cols=21 Identities=38% Similarity=0.479 Sum_probs=16.5
Q ss_pred EEEEccCCCcHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.+|.|||||||||++..+...
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 479999999999999888766
No 323
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=93.86 E-value=0.06 Score=62.04 Aligned_cols=28 Identities=25% Similarity=0.456 Sum_probs=25.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
..++.+|.||+|+|||||+.+++..+..
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 4699999999999999999998888764
No 324
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.85 E-value=0.045 Score=54.60 Aligned_cols=22 Identities=41% Similarity=0.463 Sum_probs=17.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..|.|||||||||+...+...+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 5689999999999877665553
No 325
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=93.85 E-value=0.079 Score=60.63 Aligned_cols=58 Identities=29% Similarity=0.407 Sum_probs=39.6
Q ss_pred CHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 29 NDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 29 n~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
.++...++..++.. .+..++.||||||||+++..+...+- .+...+-|++.-.+.|-+
T Consensus 29 ~~~~~~~~l~a~~~------~~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d~~ 86 (329)
T COG0714 29 DEEVIELALLALLA------GGHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSDLL 86 (329)
T ss_pred cHHHHHHHHHHHHc------CCCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHHhc
Confidence 44444454445544 48899999999999998888777765 555556666666665543
No 326
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=93.84 E-value=0.12 Score=65.00 Aligned_cols=69 Identities=20% Similarity=0.320 Sum_probs=55.2
Q ss_pred cCccccCHHHhhhhc---------CCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcc
Q 041971 869 DLPFEVTDEQLEMIL---------SPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEE 939 (1044)
Q Consensus 869 ~~pf~lt~~e~~iI~---------~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 939 (1044)
.+||++|+-|.++|. .|.+.++.|..|||||.++++=++..- . .
T Consensus 257 ~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~-----~-~--------------------- 309 (681)
T PRK10917 257 SLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAI-----E-A--------------------- 309 (681)
T ss_pred hCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHH-----H-c---------------------
Confidence 469999999999883 245899999999999999988776431 0 0
Q ss_pred cCCCCCCCceeEEEEecCHHHHHHHHHHHHHHH
Q 041971 940 GLGETERPILRQLFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 940 ~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
..+.+|++....||.|+.+.+.++-
T Consensus 310 --------g~q~lilaPT~~LA~Q~~~~l~~l~ 334 (681)
T PRK10917 310 --------GYQAALMAPTEILAEQHYENLKKLL 334 (681)
T ss_pred --------CCeEEEEeccHHHHHHHHHHHHHHH
Confidence 1568999999999999988887753
No 327
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.83 E-value=0.067 Score=64.97 Aligned_cols=45 Identities=22% Similarity=0.194 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-|..++....+.+..+.-+...|+.||||||||+++..++..|..
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455555444443444445567799999999999999888888754
No 328
>PRK08233 hypothetical protein; Provisional
Probab=93.79 E-value=0.046 Score=56.47 Aligned_cols=24 Identities=33% Similarity=0.253 Sum_probs=21.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+..|.||||+||||++..+...+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 678899999999999998887765
No 329
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=93.77 E-value=0.047 Score=58.24 Aligned_cols=41 Identities=34% Similarity=0.487 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHh---cc-----ccCCCceEEEEccCCCcHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQ---MR-----CDHKATIQLIWGPPGTGKTKTVSMLLV 71 (1044)
Q Consensus 31 sQ~~AV~~~l~~---~~-----~~~~~~i~LI~GPPGTGKT~ti~~ll~ 71 (1044)
-|.+|=..|--- ++ ..|.+...|..||||||||.++.++..
T Consensus 125 GqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalan 173 (368)
T COG1223 125 GQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALAN 173 (368)
T ss_pred chHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhc
Confidence 367766555211 11 236788999999999999998776643
No 330
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=93.74 E-value=0.072 Score=61.83 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=21.8
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-+..|-|||||||||+|..++..+-+
T Consensus 70 fIvavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 70 FIVAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred eEEEeecCCCCChhHHHHHHHHHHHH
Confidence 34448999999999999999988754
No 331
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.72 E-value=0.67 Score=59.46 Aligned_cols=70 Identities=21% Similarity=0.229 Sum_probs=52.3
Q ss_pred CCCCCHHHHH---HHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQ---AVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~---AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.+...+.|.+ +|..++.. ....+|++|+|||||..-..- .+.. .+.+++|.+||..-.+++..+-...
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~------~~~~~~eA~tGtGKT~ayllp--~l~~~~~~~vvI~t~T~~Lq~Ql~~~~i~~ 314 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHD------GPASFIEAQTGIGKTYGYLLP--LLAQSDQRQIIVSVPTKILQDQIMAEEVKA 314 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhC------CCcEEEECCCCCcHHHHHHHH--HHHhcCCCcEEEEeCcHHHHHHHHHHHHHH
Confidence 4678899999 77777764 577899999999999864322 2222 5789999999999999997554444
Q ss_pred HH
Q 041971 101 VK 102 (1044)
Q Consensus 101 ~~ 102 (1044)
+.
T Consensus 315 l~ 316 (820)
T PRK07246 315 IQ 316 (820)
T ss_pred HH
Confidence 43
No 332
>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=93.70 E-value=0.088 Score=52.87 Aligned_cols=33 Identities=24% Similarity=0.239 Sum_probs=27.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
+.+|.|+||+|||+++..+...+...+..+++.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 368899999999999999999888777665543
No 333
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.69 E-value=0.1 Score=59.61 Aligned_cols=33 Identities=24% Similarity=0.175 Sum_probs=26.5
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
....+|.||+|+||||++.+++..+ ..+.||++
T Consensus 160 ~~nili~G~tgSGKTTll~aL~~~i-p~~~ri~t 192 (332)
T PRK13900 160 KKNIIISGGTSTGKTTFTNAALREI-PAIERLIT 192 (332)
T ss_pred CCcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEE
Confidence 5789999999999999998877654 44567655
No 334
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.68 E-value=0.21 Score=62.42 Aligned_cols=78 Identities=19% Similarity=0.224 Sum_probs=62.4
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 20 FGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 20 ~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
|.....+.+++.|..++......+.-+ . .-.+|.|.+|+|||.+++.++.. .+.++|+++++...+.++.+.|..
T Consensus 5 ~~~~~~~~~~~~Q~~ai~~l~~~~~~~-~-~~~ll~Gl~gs~ka~lia~l~~~---~~r~vLIVt~~~~~A~~l~~dL~~ 79 (652)
T PRK05298 5 FKLVSPYKPAGDQPQAIEELVEGIEAG-E-KHQTLLGVTGSGKTFTMANVIAR---LQRPTLVLAHNKTLAAQLYSEFKE 79 (652)
T ss_pred cccccCCCCChHHHHHHHHHHHhhhcC-C-CcEEEEcCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHH
Confidence 556778999999999999887765221 1 13469999999999998875543 478999999999999999999987
Q ss_pred HHH
Q 041971 100 LVK 102 (1044)
Q Consensus 100 ~~~ 102 (1044)
++.
T Consensus 80 ~~~ 82 (652)
T PRK05298 80 FFP 82 (652)
T ss_pred hcC
Confidence 654
No 335
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=93.67 E-value=0.062 Score=66.04 Aligned_cols=55 Identities=24% Similarity=0.173 Sum_probs=41.5
Q ss_pred cEEEcccCCCCCCcccEEEEeecccCCCCccc------------ccC-CCccceecccccceeEEEEe
Q 041971 555 AVKVMSIDGFQGGEEDLIIISTVRSNNGGSIG------------FLS-NSKRVNVALTRARHCLWILG 609 (1044)
Q Consensus 555 ~v~V~TVd~~QG~E~DiVIls~vrs~~~~~~g------------fl~-~~~RlNVAlTRAk~~liIvG 609 (1044)
.+..+|+|...|.|+|+|-+...+....+..- +.. .++-++||+||||..+|..-
T Consensus 674 ~~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~k 741 (853)
T KOG2108|consen 674 NVILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMCK 741 (853)
T ss_pred hhhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhccccc
Confidence 37889999999999999999887655433222 112 35789999999999877653
No 336
>PRK12608 transcription termination factor Rho; Provisional
Probab=93.67 E-value=0.082 Score=60.53 Aligned_cols=49 Identities=18% Similarity=0.259 Sum_probs=37.9
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCC----CcEEEEcCCHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMK----FRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~----~rILv~A~TN~AVd~v~~rL~ 98 (1044)
.=.+|.||||||||+++..++..+.... .-++++.....-+.++.+.+.
T Consensus 134 QR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~ 186 (380)
T PRK12608 134 QRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVK 186 (380)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHh
Confidence 3459999999999999999988887653 245666777777777777765
No 337
>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=93.63 E-value=0.11 Score=52.55 Aligned_cols=36 Identities=22% Similarity=0.211 Sum_probs=32.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
++..|.+|||+|||+.+..+....+..|.+|+++=+
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQF 38 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQF 38 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEE
Confidence 788999999999999999999999999999998543
No 338
>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=93.60 E-value=0.093 Score=54.98 Aligned_cols=35 Identities=26% Similarity=0.370 Sum_probs=30.1
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
-+.+|.||||+||||.+..+...+-..|..++++.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 46899999999999999999988888888876554
No 339
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.59 E-value=0.13 Score=66.33 Aligned_cols=35 Identities=23% Similarity=0.294 Sum_probs=27.8
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+..++.||||||||+++.++...+...+...+.+-
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id 633 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFDSDDAMVRID 633 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEE
Confidence 57899999999999999888888776665554443
No 340
>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=93.58 E-value=0.081 Score=58.16 Aligned_cols=36 Identities=22% Similarity=0.245 Sum_probs=32.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
+.++.|.||+|||++.+++...+...|.+||+++-.
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~D 37 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTD 37 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeCC
Confidence 578999999999999999999999999999998743
No 341
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=93.58 E-value=0.052 Score=65.07 Aligned_cols=27 Identities=33% Similarity=0.508 Sum_probs=22.0
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
.+.-.|+.||||||||+++.++...+.
T Consensus 215 ~p~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 215 PPKGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred CCcceEEECCCCCcHHHHHHHHHHhhc
Confidence 345589999999999999888877663
No 342
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.56 E-value=0.11 Score=59.52 Aligned_cols=35 Identities=26% Similarity=0.409 Sum_probs=27.6
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
....+|.||+||||||++.+++..+ ..+.||+++=
T Consensus 162 ~~nilI~G~tGSGKTTll~aLl~~i-~~~~rivtiE 196 (344)
T PRK13851 162 RLTMLLCGPTGSGKTTMSKTLISAI-PPQERLITIE 196 (344)
T ss_pred CCeEEEECCCCccHHHHHHHHHccc-CCCCCEEEEC
Confidence 5889999999999999998887654 4456776543
No 343
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=93.55 E-value=0.45 Score=59.12 Aligned_cols=49 Identities=16% Similarity=0.034 Sum_probs=37.0
Q ss_pred EEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 53 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
+.+.+.|+|||-+.+..+......|.+++|+|||..-+....+-+..+.
T Consensus 73 Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~ 121 (745)
T TIGR00963 73 IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVY 121 (745)
T ss_pred eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHh
Confidence 8999999999987654433333458899999999988877776666553
No 344
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.51 E-value=0.08 Score=64.70 Aligned_cols=45 Identities=22% Similarity=0.235 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-|..++....+.+..+.-+...|+.||||||||+++..++..|..
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 355555544443333444667899999999999999988888763
No 345
>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=93.51 E-value=0.13 Score=60.94 Aligned_cols=53 Identities=17% Similarity=0.151 Sum_probs=43.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
++..+.+|-|+||+|||+++..++..+. ..|.+|++.+.=. ..++++.|+...
T Consensus 192 ~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~~ 245 (421)
T TIGR03600 192 VKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLAS 245 (421)
T ss_pred CCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHHH
Confidence 5578999999999999999999997776 6799999998554 566777787644
No 346
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=93.49 E-value=0.06 Score=56.76 Aligned_cols=61 Identities=25% Similarity=0.298 Sum_probs=37.4
Q ss_pred ccCHHHhhhhc----CCC-cEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCC
Q 041971 873 EVTDEQLEMIL----SPR-STFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERP 947 (1044)
Q Consensus 873 ~lt~~e~~iI~----~~~-~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 947 (1044)
.||++|++.+. .+. -++|.|..||||||++-. + .. .+. ..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~-~-~~--~~~--~~----------------------------- 45 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKA-L-AE--ALE--AA----------------------------- 45 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHH-H-HH--HHH--HT-----------------------------
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHH-H-HH--HHH--hC-----------------------------
Confidence 47899999873 333 466669999999996422 2 11 110 00
Q ss_pred ceeEEEEecCHHHHHHHHHHH
Q 041971 948 ILRQLFVTVSPKLCFAIKQHI 968 (1044)
Q Consensus 948 ~l~q~FvT~s~~L~~~v~~~~ 968 (1044)
..+.++++.+...+.++++..
T Consensus 46 g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 46 GKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp T--EEEEESSHHHHHHHHHHH
T ss_pred CCeEEEECCcHHHHHHHHHhh
Confidence 156788888888888887663
No 347
>COG1204 Superfamily II helicase [General function prediction only]
Probab=93.49 E-value=0.15 Score=64.30 Aligned_cols=67 Identities=25% Similarity=0.236 Sum_probs=58.3
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
..|.+.|+.||...+-. +...||..|-|+|||-++- +++..+.+.|.+++.++|++.-+.+..+++.
T Consensus 30 ~el~~~qq~av~~~~~~------~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~ 97 (766)
T COG1204 30 DELFNPQQEAVEKGLLS------DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS 97 (766)
T ss_pred HHhhHHHHHHhhccccC------CCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh
Confidence 38899999999888764 5789999999999999974 6666666668999999999999999999998
No 348
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=93.48 E-value=0.15 Score=56.78 Aligned_cols=70 Identities=17% Similarity=0.233 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-C--cEEEEcCCHHHHHHHHHHHHHHH
Q 041971 30 DSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-F--RTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 30 ~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-~--rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
++..+.|...+.... .+..+..|+|+||+|||+++..++......+ . .+-+....+.....+...+...+
T Consensus 2 e~~~~~l~~~L~~~~--~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l 74 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNS--NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQL 74 (287)
T ss_dssp HHHHHHHHHHHHTTT--TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhCCC--CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccc
Confidence 345566666666522 5679999999999999999988886644332 2 23333333333355555555444
No 349
>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=93.47 E-value=0.075 Score=57.50 Aligned_cols=41 Identities=22% Similarity=0.279 Sum_probs=30.8
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC------CCcEEEEcCCH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM------KFRTLVCTPTN 87 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~------~~rILv~A~TN 87 (1044)
....+..|.||||||||+++..++...+.. +.+++..+.-+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 346899999999999999999888765443 25666655443
No 350
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=93.44 E-value=0.12 Score=53.02 Aligned_cols=37 Identities=19% Similarity=0.086 Sum_probs=33.8
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
.++..|.+|+|+|||+.+..++..++..|.+|+++=+
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQF 41 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQF 41 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence 4889999999999999999999999999999988743
No 351
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=93.43 E-value=0.08 Score=57.21 Aligned_cols=35 Identities=31% Similarity=0.390 Sum_probs=29.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
-.+|-||+|||||+++..++..+...-..|.++++
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 46799999999999999999887666567777776
No 352
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=93.43 E-value=0.076 Score=54.80 Aligned_cols=34 Identities=32% Similarity=0.420 Sum_probs=28.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
..-|-||||+|||+++-.++..|... .++.|++.
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~ 48 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITG 48 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEec
Confidence 45677999999999999999999777 77777763
No 353
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=93.41 E-value=0.2 Score=67.06 Aligned_cols=67 Identities=13% Similarity=0.202 Sum_probs=57.9
Q ss_pred CCCCCHHHHHHHHHHHHhccccCCCceEEEEccCC-CcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHH
Q 041971 25 SSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPG-TGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 25 ~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPG-TGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~r 96 (1044)
+..++..|..|+..++.. .+.+.+|.|+-| ||||+++..++..+-..|.+|.++|||+.|+..+.+.
T Consensus 279 ~~~~~~~q~~Av~~il~d-----r~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 279 SVPRTAGYSDAVSVLAQD-----RPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred ccccchhHHHHHHHHhcC-----CCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHHhc
Confidence 456889999999999965 456777777777 9999999999999999999999999999999998765
No 354
>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=93.38 E-value=0.093 Score=56.39 Aligned_cols=36 Identities=22% Similarity=0.177 Sum_probs=27.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHh--CCCcEEEEcCCH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTN 87 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~--~~~rILv~A~TN 87 (1044)
.-|.||+|+||||++..++..+.. .+.+|.+++.-+
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~ 39 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDG 39 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCc
Confidence 568899999999999877776654 455677766543
No 355
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.38 E-value=0.06 Score=62.96 Aligned_cols=25 Identities=36% Similarity=0.545 Sum_probs=20.5
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.+.-.++.||||||||+++.+++..
T Consensus 178 ~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 178 PPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHh
Confidence 3566889999999999998777654
No 356
>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=93.38 E-value=0.2 Score=48.24 Aligned_cols=54 Identities=11% Similarity=0.167 Sum_probs=42.5
Q ss_pred cEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCceeEEEEecCHHHHHHHHH
Q 041971 887 STFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILRQLFVTVSPKLCFAIKQ 966 (1044)
Q Consensus 887 ~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~FvT~s~~L~~~v~~ 966 (1044)
+++|.|..|||||++++.-+...-.. ....+.++++.+..|+.++.+
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~---------------------------------~~~~~~lv~~p~~~l~~~~~~ 48 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS---------------------------------LKGGQVLVLAPTRELANQVAE 48 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc---------------------------------ccCCCEEEEcCcHHHHHHHHH
Confidence 68999999999999998887653211 012589999999999999988
Q ss_pred HHHHHHh
Q 041971 967 HISQMKS 973 (1044)
Q Consensus 967 ~~~~l~~ 973 (1044)
.+.....
T Consensus 49 ~~~~~~~ 55 (144)
T cd00046 49 RLKELFG 55 (144)
T ss_pred HHHHHhh
Confidence 8877654
No 357
>PRK00131 aroK shikimate kinase; Reviewed
Probab=93.37 E-value=0.075 Score=54.31 Aligned_cols=25 Identities=24% Similarity=0.256 Sum_probs=21.5
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+...+|.|||||||||++..+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 4678899999999999988887775
No 358
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.37 E-value=0.065 Score=63.26 Aligned_cols=26 Identities=31% Similarity=0.478 Sum_probs=21.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+.-.++.||||||||+++.++...+
T Consensus 216 ~p~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence 34567889999999999998887654
No 359
>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=93.34 E-value=0.27 Score=60.53 Aligned_cols=67 Identities=24% Similarity=0.365 Sum_probs=47.0
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
|.+-+..+...+ .+....+|.+|.|||||.... .++..+.. .+.+|+|++||..-.+++.+.+..+.
T Consensus 2 Q~~~~~~i~~al---~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 2 QALFYLNCLTSL---RQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HHHHHHHHHHHH---hcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 444444444432 135889999999999997543 33344443 58899999999999999998665543
No 360
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=93.33 E-value=0.058 Score=54.55 Aligned_cols=20 Identities=40% Similarity=0.637 Sum_probs=16.1
Q ss_pred eEEEEccCCCcHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLL 70 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll 70 (1044)
..+|+|.|||||||+...+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 46899999999999765443
No 361
>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=93.32 E-value=0.11 Score=59.02 Aligned_cols=43 Identities=28% Similarity=0.326 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhccccC-CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDH-KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~-~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..|+|.--.+.-..... .....|+.||||||||-++.++...|
T Consensus 31 ~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL 74 (398)
T PF06068_consen 31 KAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL 74 (398)
T ss_dssp HHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh
Confidence 45666555554433322 36889999999999999988887765
No 362
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=93.31 E-value=0.062 Score=57.46 Aligned_cols=33 Identities=42% Similarity=0.553 Sum_probs=22.4
Q ss_pred ccCHHHhhhhc---CCCc-EEEEecCCccHHHHHHHH
Q 041971 873 EVTDEQLEMIL---SPRS-TFILGRSGTGKTTVLTRK 905 (1044)
Q Consensus 873 ~lt~~e~~iI~---~~~~-~~viGRSGTGKTT~~l~r 905 (1044)
+|++.|.+.|. .... ++|-|..||||||++.-=
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~ 37 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASI 37 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHH
Confidence 47788888883 3444 999999999999876643
No 363
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=93.26 E-value=0.17 Score=63.40 Aligned_cols=71 Identities=18% Similarity=0.319 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh----------CCCcEEEEcCCHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ----------MKFRTLVCTPTNVAIKELAA 95 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~----------~~~rILv~A~TN~AVd~v~~ 95 (1044)
..||.-|-++.-.|... +...||.+|-|+|||-++.--+..+++ .+.+|..+||+..-+-++++
T Consensus 109 ~~fN~iQS~vFp~aY~S------neNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~ 182 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKS------NENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVD 182 (1230)
T ss_pred HHHHHHHHHhhhhhhcC------CCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHH
Confidence 46899999999888876 789999999999999998765666665 35699999999999999999
Q ss_pred HHHHHHH
Q 041971 96 RVVKLVK 102 (1044)
Q Consensus 96 rL~~~~~ 102 (1044)
...+.+.
T Consensus 183 ~~~kkl~ 189 (1230)
T KOG0952|consen 183 KFSKKLA 189 (1230)
T ss_pred HHhhhcc
Confidence 9887654
No 364
>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=93.25 E-value=0.096 Score=55.15 Aligned_cols=33 Identities=24% Similarity=0.299 Sum_probs=24.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
+..|.||||+||||++..+...+ .+.++.++..
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~ 33 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQ 33 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEe
Confidence 36799999999999998887766 4445555443
No 365
>PRK03846 adenylylsulfate kinase; Provisional
Probab=93.21 E-value=0.13 Score=54.21 Aligned_cols=49 Identities=20% Similarity=0.317 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
..+..++++.. ++++.+..|.|+||+||||++..+...|...|..++++
T Consensus 10 ~v~~~~~~~~~--------~~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 10 PVTKAQREQLH--------GHKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred CCCHHHHHHhc--------CCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 35556666421 24578899999999999999888888887777765555
No 366
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=93.20 E-value=0.49 Score=59.77 Aligned_cols=49 Identities=12% Similarity=0.024 Sum_probs=37.3
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.+...+.|+|||.+.+..+...+..|..++|+|||..-+....+-+..+
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l 146 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPI 146 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHH
Confidence 4578899999999876554444457889999999998887766666554
No 367
>PRK05480 uridine/cytidine kinase; Provisional
Probab=93.19 E-value=0.11 Score=55.08 Aligned_cols=35 Identities=31% Similarity=0.233 Sum_probs=25.9
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
++.+..|.||||+||||++..+...+ .+..+.+++
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l--~~~~~~~i~ 39 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL--GDESIAVIP 39 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh--CCCceEEEe
Confidence 46789999999999999988777765 333444443
No 368
>COG3911 Predicted ATPase [General function prediction only]
Probab=93.19 E-value=0.073 Score=52.20 Aligned_cols=34 Identities=26% Similarity=0.360 Sum_probs=24.5
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
..+.++.|+||.||||+++++ ...|.-+..-+.+
T Consensus 9 ~~~fIltGgpGaGKTtLL~aL----a~~Gfatvee~~r 42 (183)
T COG3911 9 HKRFILTGGPGAGKTTLLAAL----ARAGFATVEEAGR 42 (183)
T ss_pred ceEEEEeCCCCCcHHHHHHHH----HHcCceeeccchh
Confidence 368999999999999987654 4556655444433
No 369
>PRK04040 adenylate kinase; Provisional
Probab=93.18 E-value=0.075 Score=55.60 Aligned_cols=24 Identities=33% Similarity=0.537 Sum_probs=21.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+.+|.|+||+||||++..+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 578999999999999998887766
No 370
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.17 E-value=0.066 Score=59.88 Aligned_cols=26 Identities=35% Similarity=0.525 Sum_probs=20.0
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.++.=.|+.||||||||-++.+++..
T Consensus 183 ~PPKGVLLYGPPGTGKTLLAkAVA~~ 208 (406)
T COG1222 183 DPPKGVLLYGPPGTGKTLLAKAVANQ 208 (406)
T ss_pred CCCCceEeeCCCCCcHHHHHHHHHhc
Confidence 45566789999999999877666543
No 371
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=93.16 E-value=0.28 Score=61.64 Aligned_cols=74 Identities=18% Similarity=0.097 Sum_probs=59.0
Q ss_pred CCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHH-HHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 24 LSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTV-SMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 24 ~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti-~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
..+..-+.|++.+..+... -......+|.+|.|||||.-. +..+......+.+|++++.|+...+++.++....
T Consensus 12 ~~~~~r~~Q~~~~~~v~~a---~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 12 PGFEPRPEQREMAEAVAEA---LKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCCCCHHHHHHHHHHHHH---HcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 3566778999888766644 334567999999999999864 4556666667899999999999999999998765
No 372
>PHA02624 large T antigen; Provisional
Probab=93.16 E-value=0.1 Score=62.73 Aligned_cols=39 Identities=28% Similarity=0.261 Sum_probs=28.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
.+....+++||||||||+++++++..| .|.-+=|-+||.
T Consensus 429 PKk~~il~~GPpnTGKTtf~~sLl~~L--~G~vlsVNsPt~ 467 (647)
T PHA02624 429 PKRRYWLFKGPVNSGKTTLAAALLDLC--GGKSLNVNCPPD 467 (647)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHc--CCeEEEeeCCcc
Confidence 445689999999999999999998876 233333444553
No 373
>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=93.16 E-value=0.064 Score=53.65 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=18.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
+.+|.||||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999988877665
No 374
>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=93.15 E-value=0.12 Score=65.11 Aligned_cols=78 Identities=12% Similarity=0.062 Sum_probs=56.1
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC---CCcEEEEcCCHHHHHHHHHH
Q 041971 20 FGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM---KFRTLVCTPTNVAIKELAAR 96 (1044)
Q Consensus 20 ~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~---~~rILv~A~TN~AVd~v~~r 96 (1044)
|.....+..+|-|.+++..++.. ....+++.|.|||||.+++.-+..+... ..++++++||..-++++.+.
T Consensus 8 f~~~~G~~PtpiQ~~~i~~il~G------~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~ 81 (844)
T TIGR02621 8 YQGLHGYSPFPWQLSLAERFVAG------QPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEE 81 (844)
T ss_pred HHHHhCCCCCHHHHHHHHHHHcC------CCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHH
Confidence 33334556899999999998864 2368889999999998664222222111 23666788999999999999
Q ss_pred HHHHHHH
Q 041971 97 VVKLVKE 103 (1044)
Q Consensus 97 L~~~~~~ 103 (1044)
+.++...
T Consensus 82 ~~~~~k~ 88 (844)
T TIGR02621 82 AEKIGER 88 (844)
T ss_pred HHHHHHH
Confidence 9887653
No 375
>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=93.15 E-value=0.11 Score=55.74 Aligned_cols=35 Identities=23% Similarity=0.294 Sum_probs=31.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
+.++.|.||+|||++.+++...+...|.++|++..
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 36789999999999999999999999999988764
No 376
>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=93.14 E-value=0.16 Score=60.51 Aligned_cols=53 Identities=15% Similarity=0.087 Sum_probs=42.7
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+...+.+|-|+||+|||+++..++..++. .|.+|++.|.-..+ .++..|+...
T Consensus 193 ~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~-~~i~~R~~~~ 246 (434)
T TIGR00665 193 QPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSA-EQLAMRMLSS 246 (434)
T ss_pred CCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCH-HHHHHHHHHH
Confidence 45679999999999999999999888765 58899999876644 4577777644
No 377
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=93.13 E-value=0.13 Score=59.74 Aligned_cols=30 Identities=27% Similarity=0.256 Sum_probs=24.6
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHH-HHhCC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVI-LLQMK 77 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~-Ll~~~ 77 (1044)
.+...+..||||||||++..++... .+..|
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 4577889999999999999887666 56666
No 378
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=93.12 E-value=0.12 Score=60.02 Aligned_cols=25 Identities=32% Similarity=0.469 Sum_probs=21.2
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+.-.++.||||||||+++.++...+
T Consensus 47 p~~ILLiGppG~GKT~lAraLA~~l 71 (441)
T TIGR00390 47 PKNILMIGPTGVGKTEIARRLAKLA 71 (441)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999988877665
No 379
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=93.11 E-value=0.12 Score=57.40 Aligned_cols=35 Identities=29% Similarity=0.171 Sum_probs=30.2
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
.+..|.|++||||||++..++..|...| +|.++=.
T Consensus 2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKh 36 (274)
T PRK14493 2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKH 36 (274)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEE
Confidence 4678999999999999999999999999 7766543
No 380
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.09 E-value=0.26 Score=64.13 Aligned_cols=67 Identities=19% Similarity=0.147 Sum_probs=51.1
Q ss_pred CCCCCHHHHH---HHHHHHHhccccCCCceEEEEccCCCcHHHHH-HHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQ---AVLSCLRQMRCDHKATIQLIWGPPGTGKTKTV-SMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 25 ~~~Ln~sQ~~---AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti-~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
.+..-+.|.+ +|..++.. ....+|.+|+|||||.-- .-.+......+.+|+|+++|..--+++..+=
T Consensus 255 ~~e~R~~Q~~m~~~v~~~l~~------~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~kD 325 (928)
T PRK08074 255 KYEKREGQQEMMKEVYTALRD------SEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEKD 325 (928)
T ss_pred CCcCCHHHHHHHHHHHHHHhc------CCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHhh
Confidence 4677889999 66666654 477889999999999753 2223333457899999999999999998873
No 381
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=93.09 E-value=0.14 Score=53.24 Aligned_cols=37 Identities=11% Similarity=0.061 Sum_probs=34.3
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
.+...|.||+|+|||+.+..+....+..|.+|+++=+
T Consensus 22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQF 58 (191)
T PRK05986 22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQF 58 (191)
T ss_pred CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence 4899999999999999999999999999999998764
No 382
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.08 E-value=0.23 Score=65.31 Aligned_cols=66 Identities=20% Similarity=0.320 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC--CcEEEEcCCHHHHHHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTNVAIKELAARVVKLVKE 103 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~--~rILv~A~TN~AVd~v~~rL~~~~~~ 103 (1044)
+.++.|..++.. +.+.+|.|++||||||.+-.++..+ ..| ..|.++-|...|+-+++.|+.+.+..
T Consensus 77 ~~r~~Il~ai~~------~~VviI~GeTGSGKTTqlPq~lle~-g~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 77 QKKQDILEAIRD------HQVVIVAGETGSGKTTQLPKICLEL-GRGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHHHh------CCeEEEECCCCCCHHHHHHHHHHHc-CCCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 445566666654 5899999999999999776554443 222 36778889999999999999987764
No 383
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=93.06 E-value=0.1 Score=59.41 Aligned_cols=40 Identities=25% Similarity=0.339 Sum_probs=26.7
Q ss_pred HHHHHHHHHHh-ccccCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQ-MRCDHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 32 Q~~AV~~~l~~-~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
|.+++...+-. +.+. .+-.|+.||||||||+++.++...|
T Consensus 13 q~~~~~~l~~~~~~~~--~~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 13 QEEMKQAMVLTAIDPG--IGGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred HHHHHHHHHHHHhccC--CCcEEEEcCCCCCHHHHHHHHHHHC
Confidence 66666654432 1111 1349999999999999887776654
No 384
>PTZ00202 tuzin; Provisional
Probab=93.05 E-value=0.27 Score=57.07 Aligned_cols=74 Identities=16% Similarity=0.157 Sum_probs=50.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
....+.=-+.+..++..++..+...+ +.+.+|.||||+|||+++..++..+ +...+++-++ ..++++..+...+
T Consensus 260 ~~~~FVGReaEla~Lr~VL~~~d~~~-privvLtG~~G~GKTTLlR~~~~~l---~~~qL~vNpr--g~eElLr~LL~AL 333 (550)
T PTZ00202 260 VIRQFVSREAEESWVRQVLRRLDTAH-PRIVVFTGFRGCGKSSLCRSAVRKE---GMPAVFVDVR--GTEDTLRSVVKAL 333 (550)
T ss_pred CccCCCCcHHHHHHHHHHHhccCCCC-ceEEEEECCCCCCHHHHHHHHHhcC---CceEEEECCC--CHHHHHHHHHHHc
Confidence 34444555677888888887544443 3599999999999999998887543 3445555555 4567777776543
No 385
>PRK14527 adenylate kinase; Provisional
Probab=93.04 E-value=0.086 Score=55.22 Aligned_cols=26 Identities=35% Similarity=0.599 Sum_probs=21.9
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+.+.+|.||||+||||.+..+...+
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 46789999999999999888776554
No 386
>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=93.04 E-value=0.15 Score=51.48 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=29.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
-+..+.|.||+||||++.++...|...|.++.++
T Consensus 3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 5678899999999999999999999998887766
No 387
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=93.00 E-value=0.16 Score=52.78 Aligned_cols=38 Identities=24% Similarity=0.360 Sum_probs=30.9
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.+.+..|.|+||+||||++..+...+...|..+++..
T Consensus 16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~ 53 (184)
T TIGR00455 16 HRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLD 53 (184)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 34689999999999999999998888877776665554
No 388
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.99 E-value=0.11 Score=63.88 Aligned_cols=44 Identities=18% Similarity=0.187 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+.-++-+...|++||||||||+++..++..|..
T Consensus 21 Qe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 21 QEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 55555544444444455677899999999999999888888764
No 389
>CHL00176 ftsH cell division protein; Validated
Probab=92.99 E-value=0.13 Score=63.61 Aligned_cols=35 Identities=26% Similarity=0.304 Sum_probs=26.0
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
+.-.|+.||||||||+++.+++..+ +.+.+.++.+
T Consensus 216 p~gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s 250 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGS 250 (638)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHH
Confidence 4458999999999999998886643 5566555543
No 390
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=92.97 E-value=0.22 Score=53.71 Aligned_cols=67 Identities=22% Similarity=0.299 Sum_probs=50.7
Q ss_pred CCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC---CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 27 TLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM---KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 27 ~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~---~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+-+.-|+.||..++.. .-.+.|+-.|||||.+.+.-+..-+.. ...+|++|||+.-+-++.+-+..+
T Consensus 49 kPS~IQqrAi~~IlkG-------rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 49 KPSAIQQRAIPQILKG-------RDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred CchHHHhhhhhhhhcc-------cceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHh
Confidence 3356799999999986 678999999999999875433333332 357999999999888877766654
No 391
>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=92.97 E-value=0.7 Score=48.52 Aligned_cols=70 Identities=21% Similarity=0.281 Sum_probs=51.8
Q ss_pred cCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCcee
Q 041971 874 VTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILR 950 (1044)
Q Consensus 874 lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 950 (1044)
+++-|.+.+ ...+++++.+..|+|||.+.++-+... +.... .....+
T Consensus 22 ~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~--~~~~~----------------------------~~~~~~ 71 (203)
T cd00268 22 PTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEK--LDPSP----------------------------KKDGPQ 71 (203)
T ss_pred CCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHH--HHhhc----------------------------ccCCce
Confidence 677788777 457899999999999999976665432 11100 012378
Q ss_pred EEEEecCHHHHHHHHHHHHHHHh
Q 041971 951 QLFVTVSPKLCFAIKQHISQMKS 973 (1044)
Q Consensus 951 q~FvT~s~~L~~~v~~~~~~l~~ 973 (1044)
.++|+...-|+.++.+.+..+.+
T Consensus 72 viii~p~~~L~~q~~~~~~~~~~ 94 (203)
T cd00268 72 ALILAPTRELALQIAEVARKLGK 94 (203)
T ss_pred EEEEcCCHHHHHHHHHHHHHHhc
Confidence 99999999999999888887644
No 392
>PRK08118 topology modulation protein; Reviewed
Probab=92.96 E-value=0.079 Score=54.32 Aligned_cols=22 Identities=27% Similarity=0.365 Sum_probs=18.1
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+|.||||+||||++..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999777766654
No 393
>PRK05439 pantothenate kinase; Provisional
Probab=92.96 E-value=0.22 Score=56.04 Aligned_cols=39 Identities=23% Similarity=0.226 Sum_probs=28.7
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~ 85 (1044)
..+-+..|.||||+||||++..+...|-.. +.+|.+++.
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~ 124 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTT 124 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEec
Confidence 345578899999999999998777765442 456766663
No 394
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=92.95 E-value=0.12 Score=61.64 Aligned_cols=46 Identities=26% Similarity=0.236 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
-|..++....+.+.-+.-+...|++||||||||+++..++..+...
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 3556655444444444456778999999999999999998888643
No 395
>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=92.94 E-value=0.09 Score=55.26 Aligned_cols=32 Identities=28% Similarity=0.361 Sum_probs=21.5
Q ss_pred eEEEEccCCCcHHHHHHHH-HHHHHhCCCcEEE
Q 041971 51 IQLIWGPPGTGKTKTVSML-LVILLQMKFRTLV 82 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~l-l~~Ll~~~~rILv 82 (1044)
+.+|.|.||+|||..++.. +...++.|.+|..
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 6899999999999998877 7777777777654
No 396
>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=92.94 E-value=0.13 Score=53.58 Aligned_cols=34 Identities=21% Similarity=0.300 Sum_probs=29.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.+|.||+|+||||.+..+...|-..|.++.++.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~ 35 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTR 35 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 4688999999999999999999988888886664
No 397
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=92.91 E-value=0.16 Score=63.67 Aligned_cols=48 Identities=15% Similarity=0.130 Sum_probs=38.9
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELA 94 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~ 94 (1044)
....+++|.||||||||++...++......|.+++.+..-+..-.+.+
T Consensus 58 p~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A 105 (790)
T PRK09519 58 PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYA 105 (790)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHH
Confidence 447899999999999999999988888889999988886554443333
No 398
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=92.91 E-value=0.26 Score=62.61 Aligned_cols=71 Identities=15% Similarity=0.211 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-------CCcEEEEcCCHHH-----HHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-------KFRTLVCTPTNVA-----IKELAARVVK 99 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-------~~rILv~A~TN~A-----Vd~v~~rL~~ 99 (1044)
|.+-+...+..+.+.. ..-.++.||||||||+++-.++..+... +.+++.+..+.-- ..+.-+++.+
T Consensus 187 r~~ei~~~~~~L~~~~-~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~ 265 (731)
T TIGR02639 187 REDELERTIQVLCRRK-KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKA 265 (731)
T ss_pred cHHHHHHHHHHHhcCC-CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHH
Confidence 3333444443322333 3445889999999999999888888654 4456554432111 1234456665
Q ss_pred HHHH
Q 041971 100 LVKE 103 (1044)
Q Consensus 100 ~~~~ 103 (1044)
.+.+
T Consensus 266 i~~~ 269 (731)
T TIGR02639 266 VVSE 269 (731)
T ss_pred HHHH
Confidence 5543
No 399
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=92.90 E-value=0.08 Score=52.06 Aligned_cols=24 Identities=33% Similarity=0.408 Sum_probs=20.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.+..||.|-|||||||+...+...
T Consensus 7 ~PNILvtGTPG~GKstl~~~lae~ 30 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLAEK 30 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHHHH
Confidence 367899999999999998877643
No 400
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=92.90 E-value=0.11 Score=63.39 Aligned_cols=44 Identities=23% Similarity=0.252 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++......+.-++-+...|++||||||||+++..++..+..
T Consensus 21 qe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 21 QDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 55555544444444555678899999999999999999888864
No 401
>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=92.89 E-value=0.22 Score=64.19 Aligned_cols=68 Identities=25% Similarity=0.355 Sum_probs=53.3
Q ss_pred cCccccCHHHhhhhc---------CCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcc
Q 041971 869 DLPFEVTDEQLEMIL---------SPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEE 939 (1044)
Q Consensus 869 ~~pf~lt~~e~~iI~---------~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 939 (1044)
.|||++|+-|.+.|. .|.+.+|.|..|+|||.++++=++.. ...
T Consensus 447 ~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~a------l~~--------------------- 499 (926)
T TIGR00580 447 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKA------VLD--------------------- 499 (926)
T ss_pred hCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHH------HHh---------------------
Confidence 469999999999882 14689999999999999988766542 010
Q ss_pred cCCCCCCCceeEEEEecCHHHHHHHHHHHHHH
Q 041971 940 GLGETERPILRQLFVTVSPKLCFAIKQHISQM 971 (1044)
Q Consensus 940 ~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l 971 (1044)
..+.++++....||.|+-+.|.++
T Consensus 500 --------g~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 500 --------GKQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred --------CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 046889999999999998877764
No 402
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=92.88 E-value=0.12 Score=63.74 Aligned_cols=44 Identities=20% Similarity=0.175 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+.-+.-+...|++||||||||+++..++..|..
T Consensus 21 Qe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 21 QEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence 55555444433333444566899999999999999988888765
No 403
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.87 E-value=0.088 Score=61.33 Aligned_cols=40 Identities=33% Similarity=0.517 Sum_probs=27.8
Q ss_pred HHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcE
Q 041971 40 LRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRT 80 (1044)
Q Consensus 40 l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rI 80 (1044)
+..+.|.|--++ |+.||||||||-.+..+-..|-.+..+|
T Consensus 248 ie~lGi~HVKGi-LLyGPPGTGKTLiARqIGkMLNArePKI 287 (744)
T KOG0741|consen 248 IEQLGIKHVKGI-LLYGPPGTGKTLIARQIGKMLNAREPKI 287 (744)
T ss_pred HHHcCccceeeE-EEECCCCCChhHHHHHHHHHhcCCCCcc
Confidence 455688887775 6789999999987766655554443333
No 404
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=92.84 E-value=0.16 Score=57.77 Aligned_cols=38 Identities=21% Similarity=0.253 Sum_probs=29.8
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC------CCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM------KFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~------~~rILv~A~ 85 (1044)
...++.|.||||||||+++..++...+.. +.+++.++.
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~t 144 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDT 144 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeC
Confidence 46899999999999999999888776543 236666654
No 405
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.83 E-value=0.19 Score=59.95 Aligned_cols=37 Identities=24% Similarity=0.353 Sum_probs=30.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEc
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCT 84 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A 84 (1044)
..++..|.||+|+||||++..++..+... +.+|.+++
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 46888999999999999999999887765 46776655
No 406
>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=92.82 E-value=0.29 Score=60.71 Aligned_cols=64 Identities=22% Similarity=0.256 Sum_probs=50.1
Q ss_pred CCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 26 STLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
..+++-|.+|+..++.. .-.+|..|.|+|||.+.. +..++ .+..+++++|+..-+.+-..++..
T Consensus 12 ~~fr~~Q~~~i~~il~g-------~dvlv~~PTG~GKTl~y~--lpal~-~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 12 DDFRPGQEEIISHVLDG-------RDVLVVMPTGGGKSLCYQ--VPALL-LKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCCHHHHHHHHHHHcC-------CCEEEEcCCCccHhHHHH--HHHHH-cCCcEEEEcCCHHHHHHHHHHHHH
Confidence 46899999999999975 457999999999998753 33333 456789999999888777777653
No 407
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=92.81 E-value=0.094 Score=54.74 Aligned_cols=27 Identities=26% Similarity=0.536 Sum_probs=23.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
+++++|.||-|||||+++-++.+.|-.
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L~~ 45 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYALGG 45 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHS
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHcC
Confidence 599999999999999999888777754
No 408
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.80 E-value=0.16 Score=57.52 Aligned_cols=29 Identities=38% Similarity=0.555 Sum_probs=25.2
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
+...|+.||||||||+++-++...|...+
T Consensus 24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 44799999999999999999999988543
No 409
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.80 E-value=0.14 Score=61.08 Aligned_cols=38 Identities=24% Similarity=0.354 Sum_probs=30.2
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHH-hCC-CcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILL-QMK-FRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~-~rILv~A~ 85 (1044)
.+.+.++.||.|.|||||++.+...+. ..| .+|.+++.
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~ 294 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTT 294 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeC
Confidence 357999999999999999999998875 445 37765553
No 410
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=92.78 E-value=0.29 Score=58.76 Aligned_cols=68 Identities=22% Similarity=0.351 Sum_probs=52.0
Q ss_pred cCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCcee
Q 041971 874 VTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPILR 950 (1044)
Q Consensus 874 lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 950 (1044)
+|+-|.++| ....++++.+..|||||++.++-++.. + .. .....+
T Consensus 27 ~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~--l---~~---------------------------~~~~~~ 74 (460)
T PRK11776 27 MTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQK--L---DV---------------------------KRFRVQ 74 (460)
T ss_pred CCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHH--h---hh---------------------------ccCCce
Confidence 677777777 567799999999999999988777653 1 11 001256
Q ss_pred EEEEecCHHHHHHHHHHHHHHHh
Q 041971 951 QLFVTVSPKLCFAIKQHISQMKS 973 (1044)
Q Consensus 951 q~FvT~s~~L~~~v~~~~~~l~~ 973 (1044)
.++++...-||.+|.+.+..+..
T Consensus 75 ~lil~PtreLa~Q~~~~~~~~~~ 97 (460)
T PRK11776 75 ALVLCPTRELADQVAKEIRRLAR 97 (460)
T ss_pred EEEEeCCHHHHHHHHHHHHHHHh
Confidence 89999999999999988887754
No 411
>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=92.77 E-value=0.16 Score=51.66 Aligned_cols=39 Identities=23% Similarity=0.242 Sum_probs=32.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
.+..|.|++|+|||+++..++..|-..|.+|-++-+.+.
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~ 40 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDHH 40 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecCC
Confidence 467899999999999999999998888888766654433
No 412
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=92.77 E-value=0.12 Score=63.54 Aligned_cols=63 Identities=22% Similarity=0.199 Sum_probs=40.4
Q ss_pred cCccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 13 EGVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 13 ~~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
+.+|..++.+.....+- -|..++....+.+..+.-+...|++||||||||+++..++..|...
T Consensus 11 y~~la~KyRP~~f~dli-Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 11 YRVLARKYRPQTFDDLI-GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred chhHHhhhCCCCHHHhc-CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 34455555444333332 3555554444444445556789999999999999999998887643
No 413
>PRK06547 hypothetical protein; Provisional
Probab=92.75 E-value=0.1 Score=53.76 Aligned_cols=27 Identities=30% Similarity=0.281 Sum_probs=22.7
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHH
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.+...+.+|.||||+||||++..+...
T Consensus 12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 12 GGGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 356788889999999999999877765
No 414
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=92.73 E-value=0.17 Score=57.98 Aligned_cols=48 Identities=21% Similarity=0.151 Sum_probs=38.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCC
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKF 78 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~ 78 (1044)
....+.|++.=.+-+..-- .=.||-||||.||||.+++++..+...|+
T Consensus 245 ~ledY~L~dkl~eRL~era---------eGILIAG~PGaGKsTFaqAlAefy~~~Gk 292 (604)
T COG1855 245 SLEDYGLSDKLKERLEERA---------EGILIAGAPGAGKSTFAQALAEFYASQGK 292 (604)
T ss_pred chhhcCCCHHHHHHHHhhh---------cceEEecCCCCChhHHHHHHHHHHHhcCc
Confidence 3456788887777665543 33799999999999999999999998887
No 415
>PRK09087 hypothetical protein; Validated
Probab=92.73 E-value=0.093 Score=56.61 Aligned_cols=25 Identities=28% Similarity=0.444 Sum_probs=20.5
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.++..+|+||||+||||++.++...
T Consensus 43 ~~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 43 PSPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHh
Confidence 4567899999999999999865543
No 416
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=92.70 E-value=0.21 Score=58.37 Aligned_cols=77 Identities=18% Similarity=0.189 Sum_probs=61.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
....+.-.--|-+||......+.. ...-..+.|--|||||.|++.+|+. .+.+.||.|++..-+-++.+-+.++.
T Consensus 7 l~s~f~PaGDQP~AI~~Lv~gi~~--g~~~QtLLGvTGSGKTfT~AnVI~~---~~rPtLV~AhNKTLAaQLy~Efk~fF 81 (663)
T COG0556 7 LHSPFKPAGDQPEAIAELVEGIEN--GLKHQTLLGVTGSGKTFTMANVIAK---VQRPTLVLAHNKTLAAQLYSEFKEFF 81 (663)
T ss_pred eccCCCCCCCcHHHHHHHHHHHhc--CceeeEEeeeccCCchhHHHHHHHH---hCCCeEEEecchhHHHHHHHHHHHhC
Confidence 344555666799999988876533 3356778899999999999998775 57899999999999999999998876
Q ss_pred HH
Q 041971 102 KE 103 (1044)
Q Consensus 102 ~~ 103 (1044)
++
T Consensus 82 P~ 83 (663)
T COG0556 82 PE 83 (663)
T ss_pred cC
Confidence 54
No 417
>PRK03839 putative kinase; Provisional
Probab=92.69 E-value=0.095 Score=54.26 Aligned_cols=22 Identities=41% Similarity=0.537 Sum_probs=18.2
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+|.||||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6788999999999877766654
No 418
>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=92.67 E-value=0.16 Score=62.71 Aligned_cols=63 Identities=21% Similarity=0.178 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-CcEEEEcCCHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-FRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-~rILv~A~TN~AVd~v~~rL 97 (1044)
|.+|+......+.. ....+++||||||||+++.+++..+-... ..+++....+....++...+
T Consensus 23 ~~~a~~~l~~a~~~---~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v 86 (608)
T TIGR00764 23 QEEAVEIIKKAAKQ---KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEV 86 (608)
T ss_pred HHHHHHHHHHHHHc---CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHH
Confidence 55555444333221 35788999999999999998887664433 56666666544444444333
No 419
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=92.64 E-value=0.26 Score=55.10 Aligned_cols=39 Identities=23% Similarity=0.238 Sum_probs=26.7
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC--CCcEEEEcC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 85 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~--~~rILv~A~ 85 (1044)
..+-+.-|.||+|+||||++..+...+-.. +..|.+++.
T Consensus 60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~ 100 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITT 100 (290)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEec
Confidence 346788899999999999886555444322 345666554
No 420
>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=92.61 E-value=0.11 Score=53.55 Aligned_cols=24 Identities=25% Similarity=0.445 Sum_probs=20.5
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 468999999999999998776664
No 421
>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=92.60 E-value=0.13 Score=58.35 Aligned_cols=38 Identities=21% Similarity=0.285 Sum_probs=28.9
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHh------CCCcEEEEcC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQ------MKFRTLVCTP 85 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~------~~~rILv~A~ 85 (1044)
...+++|.||||||||+++..++..... .+.+++.++.
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~t 137 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDT 137 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEEC
Confidence 4689999999999999999988777643 1236666654
No 422
>COG4889 Predicted helicase [General function prediction only]
Probab=92.58 E-value=0.33 Score=59.60 Aligned_cols=68 Identities=21% Similarity=0.125 Sum_probs=52.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHH
Q 041971 21 GPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKEL 93 (1044)
Q Consensus 21 ~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v 93 (1044)
+......+-|.|+.|+..++...+-+. .=.||- .||||||.|...+..+|.. .+||.++|+=.-+-+-
T Consensus 155 ~l~~~kk~R~hQq~Aid~a~~~F~~n~--RGkLIM-AcGTGKTfTsLkisEala~--~~iL~LvPSIsLLsQT 222 (1518)
T COG4889 155 PLKKPKKPRPHQQTAIDAAKEGFSDND--RGKLIM-ACGTGKTFTSLKISEALAA--ARILFLVPSISLLSQT 222 (1518)
T ss_pred ccCCCCCCChhHHHHHHHHHhhccccc--CCcEEE-ecCCCccchHHHHHHHHhh--hheEeecchHHHHHHH
Confidence 355677899999999999998865532 223444 5799999999888888776 8999999997665543
No 423
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=92.58 E-value=0.21 Score=54.37 Aligned_cols=41 Identities=27% Similarity=0.447 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+|.+....+-.. -+..-+-.|+.||||.||||++.-+...|
T Consensus 36 ~~L~ifI~AAk~--r~e~lDHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 36 EQLQIFIKAAKK--RGEALDHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred HHHHHHHHHHHh--cCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence 344444444332 23345678999999999999766555554
No 424
>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=92.57 E-value=0.073 Score=50.95 Aligned_cols=15 Identities=40% Similarity=0.687 Sum_probs=13.7
Q ss_pred EEEEecCCccHHHHH
Q 041971 888 TFILGRSGTGKTTVL 902 (1044)
Q Consensus 888 ~~viGRSGTGKTT~~ 902 (1044)
++|.|.||+||||.+
T Consensus 2 I~I~G~~gsGKST~a 16 (121)
T PF13207_consen 2 IIISGPPGSGKSTLA 16 (121)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 689999999999976
No 425
>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=92.57 E-value=0.16 Score=57.42 Aligned_cols=37 Identities=30% Similarity=0.377 Sum_probs=32.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
.+.++.|.-|+||||+.+++...+...|.|+|++|-.
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~D 38 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTD 38 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESS
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecC
Confidence 4688999999999999999999999999999999753
No 426
>PRK10689 transcription-repair coupling factor; Provisional
Probab=92.53 E-value=0.26 Score=65.11 Aligned_cols=68 Identities=22% Similarity=0.252 Sum_probs=53.3
Q ss_pred CcCccccCHHHhhhhc---------CCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhc
Q 041971 868 LDLPFEVTDEQLEMIL---------SPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAE 938 (1044)
Q Consensus 868 ~~~pf~lt~~e~~iI~---------~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 938 (1044)
-.|||++|+-|.++|. .|.++++.|..|+|||.++++=++.. ...
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~------~~~-------------------- 648 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA------VEN-------------------- 648 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHH------HHc--------------------
Confidence 3679999999999983 24789999999999999876544432 110
Q ss_pred ccCCCCCCCceeEEEEecCHHHHHHHHHHHHH
Q 041971 939 EGLGETERPILRQLFVTVSPKLCFAIKQHISQ 970 (1044)
Q Consensus 939 ~~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~ 970 (1044)
..+.++++....||.|+.+.|.+
T Consensus 649 ---------g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 649 ---------HKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred ---------CCeEEEEeCcHHHHHHHHHHHHH
Confidence 15689999999999999887775
No 427
>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=92.53 E-value=0.11 Score=53.47 Aligned_cols=25 Identities=24% Similarity=0.392 Sum_probs=21.1
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..+.++.||||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 3689999999999999988876654
No 428
>PHA02542 41 41 helicase; Provisional
Probab=92.53 E-value=0.16 Score=60.82 Aligned_cols=52 Identities=17% Similarity=0.227 Sum_probs=42.5
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVK 99 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~ 99 (1044)
+...+.+|-|+||.|||+++..++..++..|.+||+.+.=-.. .+++.|+..
T Consensus 188 ~~G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM~~-~ql~~Rl~a 239 (473)
T PHA02542 188 ERKTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEMAE-EVIAKRIDA 239 (473)
T ss_pred CCCcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccCCH-HHHHHHHHH
Confidence 4567999999999999999999998888889999999854333 466777764
No 429
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=92.52 E-value=0.47 Score=54.29 Aligned_cols=45 Identities=24% Similarity=0.208 Sum_probs=34.1
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
|..++........-++-+...|++||||+|||+++..++..++..
T Consensus 11 q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 11 QPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred HHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 555555444444445667889999999999999999998888753
No 430
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=92.51 E-value=0.16 Score=59.55 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=20.5
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+..|+.||||||||+++.++...+
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~~l 132 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLARIL 132 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHh
Confidence 568999999999999988886554
No 431
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=92.48 E-value=0.15 Score=54.91 Aligned_cols=39 Identities=21% Similarity=0.204 Sum_probs=34.0
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNV 88 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~ 88 (1044)
.+.-|.|++|+||||++..++..|...|.+|.++-+++.
T Consensus 2 ~vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~ 40 (229)
T PRK14494 2 RAIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHH 40 (229)
T ss_pred eEEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEeccc
Confidence 356789999999999999999999999999999965544
No 432
>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=92.48 E-value=0.15 Score=53.64 Aligned_cols=29 Identities=38% Similarity=0.409 Sum_probs=24.7
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCc
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFR 79 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~r 79 (1044)
+..|.||||+||||++..+...|-..+..
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 45799999999999999998888777655
No 433
>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=92.46 E-value=0.16 Score=56.21 Aligned_cols=35 Identities=20% Similarity=0.284 Sum_probs=26.6
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
++.+|.|.||+|||+.+..+...+-..+..+.+++
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 67899999999999999999999888888888877
No 434
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=92.45 E-value=0.15 Score=62.86 Aligned_cols=44 Identities=23% Similarity=0.197 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++....+.+.-+.-+...|++||||||||+++..++..|..
T Consensus 21 Qe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC 64 (709)
T PRK08691 21 QEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNC 64 (709)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 44544433333333444567899999999999999988888754
No 435
>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=92.44 E-value=0.18 Score=53.85 Aligned_cols=31 Identities=32% Similarity=0.420 Sum_probs=28.5
Q ss_pred EEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 53 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
.|.|-.|.||||+.+.+...|.+.|+|||++
T Consensus 4 av~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 4 AIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 4459999999999999999999999999987
No 436
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.44 E-value=0.15 Score=62.97 Aligned_cols=45 Identities=27% Similarity=0.285 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.|..++......+.-+.-....|+.||||||||+++..++..|..
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence 455555544333333334567799999999999999999888865
No 437
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.43 E-value=0.25 Score=60.56 Aligned_cols=44 Identities=20% Similarity=0.253 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|...+....+.+.-++-+...|+.||||||||+++..++..+..
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 21 QEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44444433333333445677899999999999999888887763
No 438
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=92.42 E-value=0.24 Score=62.16 Aligned_cols=78 Identities=21% Similarity=0.254 Sum_probs=63.8
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHH-HHHHHHHhCC-------CcEEEEcCCHHHH
Q 041971 19 TFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVS-MLLVILLQMK-------FRTLVCTPTNVAI 90 (1044)
Q Consensus 19 ~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~-~ll~~Ll~~~-------~rILv~A~TN~AV 90 (1044)
.|-......+++-|+.|+..+.+. .-+||.+|-|+|||-++. .++..|++.+ -.+|.+||=..-.
T Consensus 14 ~~~~~~~~~~t~~Q~~a~~~i~~G-------~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn 86 (814)
T COG1201 14 EWFKRKFTSLTPPQRYAIPEIHSG-------ENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN 86 (814)
T ss_pred HHHHHhcCCCCHHHHHHHHHHhCC-------CceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHH
Confidence 344445779999999999999875 789999999999999874 5666677663 3689999999999
Q ss_pred HHHHHHHHHHHHH
Q 041971 91 KELAARVVKLVKE 103 (1044)
Q Consensus 91 d~v~~rL~~~~~~ 103 (1044)
.++..||......
T Consensus 87 ~Di~~rL~~~~~~ 99 (814)
T COG1201 87 NDIRRRLEEPLRE 99 (814)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999877653
No 439
>PRK08506 replicative DNA helicase; Provisional
Probab=92.41 E-value=0.23 Score=59.70 Aligned_cols=53 Identities=17% Similarity=0.210 Sum_probs=45.2
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
++..+.+|-|+||.|||+++..++..++..|.+|++.|.= -...+++.|+...
T Consensus 190 ~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rlla~ 242 (472)
T PRK08506 190 NKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRMLSA 242 (472)
T ss_pred CCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHHHHH
Confidence 5577999999999999999999999988889999998765 5667888888754
No 440
>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=92.41 E-value=0.21 Score=61.91 Aligned_cols=55 Identities=29% Similarity=0.297 Sum_probs=46.8
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+...++.+|.+|=|||||+.+..-+...+ ..+.+||++|..+.-+.++..|+...
T Consensus 46 ~~~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 46 PQKRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CCCCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 35579999999999999998877666655 55789999999999999999999744
No 441
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=92.39 E-value=0.4 Score=57.10 Aligned_cols=73 Identities=22% Similarity=0.205 Sum_probs=53.0
Q ss_pred ccCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCccccccccchhhcccCCCCCCCce
Q 041971 873 EVTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSVTLHCSQESEAEEGLGETERPIL 949 (1044)
Q Consensus 873 ~lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 949 (1044)
++|+-|.++| ....++++.+..|||||.|.++-+++.-.-+ .. ......
T Consensus 23 ~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~--~~--------------------------~~~~~~ 74 (434)
T PRK11192 23 RPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDF--PR--------------------------RKSGPP 74 (434)
T ss_pred CCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhc--cc--------------------------cCCCCc
Confidence 3577777777 4567999999999999999887776531100 00 011236
Q ss_pred eEEEEecCHHHHHHHHHHHHHHHh
Q 041971 950 RQLFVTVSPKLCFAIKQHISQMKS 973 (1044)
Q Consensus 950 ~q~FvT~s~~L~~~v~~~~~~l~~ 973 (1044)
+.++++...-||.++.+.+..+..
T Consensus 75 ~~lil~Pt~eLa~Q~~~~~~~l~~ 98 (434)
T PRK11192 75 RILILTPTRELAMQVADQARELAK 98 (434)
T ss_pred eEEEECCcHHHHHHHHHHHHHHHc
Confidence 899999999999999888887744
No 442
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=92.38 E-value=0.21 Score=56.68 Aligned_cols=53 Identities=21% Similarity=0.166 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHHHhccc----cCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEE
Q 041971 26 STLNDSQAQAVLSCLRQMRC----DHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTL 81 (1044)
Q Consensus 26 ~~Ln~sQ~~AV~~~l~~~~~----~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rIL 81 (1044)
..|+++|++++...+..+-. -++.....|.|+||+|||++...+...| |.+++
T Consensus 106 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L---g~~~i 162 (309)
T PRK08154 106 EQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL---GVPFV 162 (309)
T ss_pred hcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc---CCCEE
Confidence 47999999999988876322 2667889999999999999888776554 55544
No 443
>PTZ00424 helicase 45; Provisional
Probab=92.37 E-value=0.38 Score=56.51 Aligned_cols=83 Identities=19% Similarity=0.206 Sum_probs=58.5
Q ss_pred ccHHHHHHHhhhccCCcCcCccccCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCcc
Q 041971 851 LSSVVVSHLLSDRVGRELDLPFEVTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSV 927 (1044)
Q Consensus 851 ~s~~~~~~~l~~~~~~~~~~pf~lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~ 927 (1044)
++..++.++-.- .|. +.|+-|.+.| ....++++.++.|||||+|.++-++.. +..
T Consensus 35 l~~~~~~~l~~~------~~~-~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~-----~~~---------- 92 (401)
T PTZ00424 35 LNEDLLRGIYSY------GFE-KPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQL-----IDY---------- 92 (401)
T ss_pred CCHHHHHHHHHc------CCC-CCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHH-----hcC----------
Confidence 556666555332 222 4788888877 567799999999999999988776542 100
Q ss_pred ccccccchhhcccCCCCCCCceeEEEEecCHHHHHHHHHHHHHHH
Q 041971 928 TLHCSQESEAEEGLGETERPILRQLFVTVSPKLCFAIKQHISQMK 972 (1044)
Q Consensus 928 ~~~~~~~~~~~~~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l~ 972 (1044)
.....+.+|+.....||.++.+.+..+-
T Consensus 93 -----------------~~~~~~~lil~Pt~~L~~Q~~~~~~~~~ 120 (401)
T PTZ00424 93 -----------------DLNACQALILAPTRELAQQIQKVVLALG 120 (401)
T ss_pred -----------------CCCCceEEEECCCHHHHHHHHHHHHHHh
Confidence 0112578999999999999988777764
No 444
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=92.37 E-value=0.16 Score=59.42 Aligned_cols=29 Identities=24% Similarity=0.406 Sum_probs=24.1
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
-+...|++||||+|||+++..++..+...
T Consensus 35 l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 35 MTHAWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 35678999999999999999888876543
No 445
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=92.35 E-value=0.15 Score=61.42 Aligned_cols=44 Identities=20% Similarity=0.209 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
|..++......+..+.-+...|++||||||||+++..++..+..
T Consensus 19 qe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 19 QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 55444444333333445667799999999999999998888764
No 446
>PRK14530 adenylate kinase; Provisional
Probab=92.35 E-value=0.12 Score=55.38 Aligned_cols=24 Identities=33% Similarity=0.440 Sum_probs=20.1
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+..+|.||||+||||++..+...+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 467889999999999888776665
No 447
>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=92.33 E-value=0.17 Score=52.71 Aligned_cols=30 Identities=33% Similarity=0.305 Sum_probs=25.3
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
+-+...|+.||||+|||+++..++..+...
T Consensus 12 ~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 12 RLAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 345789999999999999999988887653
No 448
>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=92.32 E-value=0.17 Score=51.86 Aligned_cols=33 Identities=21% Similarity=0.381 Sum_probs=30.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
+.+..+-+|+||||+.+.+...+...|.+||++
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 467888999999999999999999999999885
No 449
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=92.31 E-value=0.1 Score=63.27 Aligned_cols=35 Identities=26% Similarity=0.278 Sum_probs=25.9
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCC
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 86 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~T 86 (1044)
+.-.|+.||||||||+++.+++.. .+.+++.++.+
T Consensus 88 ~~giLL~GppGtGKT~la~alA~~---~~~~~~~i~~~ 122 (495)
T TIGR01241 88 PKGVLLVGPPGTGKTLLAKAVAGE---AGVPFFSISGS 122 (495)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHH---cCCCeeeccHH
Confidence 344899999999999999888654 35566655543
No 450
>PRK05748 replicative DNA helicase; Provisional
Probab=92.29 E-value=0.21 Score=59.73 Aligned_cols=53 Identities=13% Similarity=0.097 Sum_probs=42.7
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+...+.+|-|+||+|||+++..++...+ ..|.+|++.|.-..+- +++.|+...
T Consensus 201 ~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~-~l~~R~l~~ 254 (448)
T PRK05748 201 QPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAE-SLVMRMLCA 254 (448)
T ss_pred CCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHH-HHHHHHHHH
Confidence 5568999999999999999999998876 4589999998655444 777787643
No 451
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.28 E-value=0.27 Score=58.37 Aligned_cols=92 Identities=21% Similarity=0.218 Sum_probs=60.7
Q ss_pred ccHHHHHHHhhhccCCcCcCccccCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCcc
Q 041971 851 LSSVVVSHLLSDRVGRELDLPFEVTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSV 927 (1044)
Q Consensus 851 ~s~~~~~~~l~~~~~~~~~~pf~lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~ 927 (1044)
|+..++..+-.- -.+ +.|+-|.++| ....++++.+..|||||.+.++-++..-... ...
T Consensus 15 l~~~l~~~l~~~----g~~---~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~--~~~--------- 76 (423)
T PRK04837 15 LHPQVVEALEKK----GFH---NCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSH--PAP--------- 76 (423)
T ss_pred CCHHHHHHHHHC----CCC---CCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhc--ccc---------
Confidence 566666655331 122 3467777776 5677999999999999999887665531100 000
Q ss_pred ccccccchhhcccCCCCCCCceeEEEEecCHHHHHHHHHHHHHHHhh
Q 041971 928 TLHCSQESEAEEGLGETERPILRQLFVTVSPKLCFAIKQHISQMKSS 974 (1044)
Q Consensus 928 ~~~~~~~~~~~~~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l~~~ 974 (1044)
........+.++++...-||.|+.+.+..+.+.
T Consensus 77 --------------~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~ 109 (423)
T PRK04837 77 --------------EDRKVNQPRALIMAPTRELAVQIHADAEPLAQA 109 (423)
T ss_pred --------------cccccCCceEEEECCcHHHHHHHHHHHHHHhcc
Confidence 001112378999999999999998888877543
No 452
>PRK14531 adenylate kinase; Provisional
Probab=92.25 E-value=0.11 Score=53.99 Aligned_cols=23 Identities=35% Similarity=0.544 Sum_probs=19.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
-.+|.||||+||||....+...+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47889999999999977776654
No 453
>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=92.23 E-value=0.15 Score=58.00 Aligned_cols=36 Identities=22% Similarity=0.290 Sum_probs=30.8
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHH-hCCCcEEEEcCC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPT 86 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll-~~~~rILv~A~T 86 (1044)
+.++.|+||+||||++..+...|. ..|.+|.+++.-
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~D 37 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYD 37 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccc
Confidence 367899999999999999998887 578999888743
No 454
>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=92.19 E-value=0.088 Score=50.71 Aligned_cols=19 Identities=37% Similarity=0.604 Sum_probs=16.6
Q ss_pred CCcEEEEecCCccHHHHHH
Q 041971 885 PRSTFILGRSGTGKTTVLT 903 (1044)
Q Consensus 885 ~~~~~viGRSGTGKTT~~l 903 (1044)
+..++|.|.+||||||.+.
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 4679999999999999773
No 455
>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=92.17 E-value=0.097 Score=53.19 Aligned_cols=21 Identities=33% Similarity=0.502 Sum_probs=17.3
Q ss_pred EEEccCCCcHHHHHHHHHHHH
Q 041971 53 LIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 53 LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+|.||||+||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 578999999998877776664
No 456
>PHA02774 E1; Provisional
Probab=92.17 E-value=0.15 Score=61.28 Aligned_cols=25 Identities=36% Similarity=0.623 Sum_probs=22.7
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..-.+|+||||||||++..+++..|
T Consensus 434 knciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 434 KNCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred ccEEEEECCCCCCHHHHHHHHHHHh
Confidence 3579999999999999999999887
No 457
>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=92.14 E-value=0.093 Score=56.11 Aligned_cols=21 Identities=52% Similarity=0.925 Sum_probs=18.4
Q ss_pred CceEEEEccCCCcHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSML 69 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~l 69 (1044)
+...+|.|+||||||+++..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc
Confidence 577999999999999987765
No 458
>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=92.13 E-value=0.11 Score=52.13 Aligned_cols=20 Identities=40% Similarity=0.654 Sum_probs=17.3
Q ss_pred EEccCCCcHHHHHHHHHHHH
Q 041971 54 IWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 54 I~GPPGTGKT~ti~~ll~~L 73 (1044)
|.||||+||||....+...+
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 67999999999988877765
No 459
>PTZ00301 uridine kinase; Provisional
Probab=92.12 E-value=0.13 Score=54.88 Aligned_cols=26 Identities=27% Similarity=0.402 Sum_probs=22.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
-+..|.||||+||||++..++..|..
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHh
Confidence 68899999999999999888877754
No 460
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=92.11 E-value=0.18 Score=65.10 Aligned_cols=57 Identities=23% Similarity=0.248 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhcccc--------CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCH
Q 041971 31 SQAQAVLSCLRQMRCD--------HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTN 87 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~--------~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN 87 (1044)
-|..||......+... .+.+..++.||||||||+++.++...+...+.+++.+-.+.
T Consensus 569 GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~ 633 (852)
T TIGR03346 569 GQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSE 633 (852)
T ss_pred CChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechh
Confidence 3555665555554321 12457899999999999999999988887777766655443
No 461
>PRK07261 topology modulation protein; Provisional
Probab=92.10 E-value=0.12 Score=53.28 Aligned_cols=22 Identities=27% Similarity=0.273 Sum_probs=18.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+|.||||+||||++..+...+
T Consensus 3 i~i~G~~GsGKSTla~~l~~~~ 24 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQHY 24 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 5799999999999998876553
No 462
>CHL00195 ycf46 Ycf46; Provisional
Probab=92.10 E-value=0.13 Score=61.79 Aligned_cols=33 Identities=24% Similarity=0.194 Sum_probs=24.0
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+.-.|+.||||||||.++.++...+ +..++.+.
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e~---~~~~~~l~ 291 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIANDW---QLPLLRLD 291 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHh---CCCEEEEE
Confidence 4557899999999999887776653 44555444
No 463
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.09 E-value=0.11 Score=63.43 Aligned_cols=61 Identities=18% Similarity=0.182 Sum_probs=36.7
Q ss_pred CccccccCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh
Q 041971 14 GVWNETFGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ 75 (1044)
Q Consensus 14 ~~~~~~~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~ 75 (1044)
.+|..++.+.....+- -|..++....+.+.-+.-....|++||||||||+++..++..|..
T Consensus 4 ~~la~KyRP~sf~dIi-GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 4 ASLTARYRPQTFAEVA-GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred chHHHHhCCCCHHHhc-CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 3455544433333331 344444333332322333577889999999999999988888864
No 464
>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=92.08 E-value=0.12 Score=51.10 Aligned_cols=23 Identities=39% Similarity=0.576 Sum_probs=19.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+..|.|||||||||++..+...+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35799999999999988777664
No 465
>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=92.06 E-value=0.11 Score=54.20 Aligned_cols=21 Identities=38% Similarity=0.643 Sum_probs=17.7
Q ss_pred EEEEccCCCcHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVI 72 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~ 72 (1044)
.+|.|||||||||++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988777655
No 466
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.04 E-value=0.17 Score=62.56 Aligned_cols=43 Identities=28% Similarity=0.304 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
|..++......+.-+.-+...|+.||||||||+++..++..|.
T Consensus 21 q~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 21 QEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred CHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4455444333332233455679999999999999998888875
No 467
>PRK00698 tmk thymidylate kinase; Validated
Probab=92.02 E-value=0.21 Score=52.55 Aligned_cols=35 Identities=23% Similarity=0.267 Sum_probs=29.7
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
+.+.+|.||+|+||||++..+...|-..|..+.++
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~ 37 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFT 37 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEe
Confidence 35789999999999999999988887777776665
No 468
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=92.02 E-value=0.19 Score=62.04 Aligned_cols=59 Identities=20% Similarity=0.246 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC-CcEEEEcCCHHHHHH
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK-FRTLVCTPTNVAIKE 92 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~-~rILv~A~TN~AVd~ 92 (1044)
.|.+|+........ +....+|.||||||||+++.++...+-... ..+++...+......
T Consensus 35 gq~~a~~~L~~~~~---~~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~~~~~~ 94 (637)
T PRK13765 35 GQEHAVEVIKKAAK---QRRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPEDPNNP 94 (637)
T ss_pred ChHHHHHHHHHHHH---hCCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCCcchHH
Confidence 46666654443322 235799999999999999988776653322 455554443333333
No 469
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=91.99 E-value=0.23 Score=62.70 Aligned_cols=50 Identities=24% Similarity=0.281 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhcccc--------CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 32 QAQAVLSCLRQMRCD--------HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~--------~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
|.+|+......+.+. .+.+..++.||||||||.++..+...+ +.+.+.+-
T Consensus 463 Q~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l---~~~~i~id 520 (758)
T PRK11034 463 QDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFD 520 (758)
T ss_pred cHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh---CCCcEEee
Confidence 566666555554432 223568999999999999998776665 45544443
No 470
>PRK06761 hypothetical protein; Provisional
Probab=91.98 E-value=0.14 Score=56.69 Aligned_cols=33 Identities=36% Similarity=0.425 Sum_probs=27.3
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEE
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 82 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv 82 (1044)
.+.+|.||||+||||++..+...|...+..+-+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~ 36 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL 36 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence 578999999999999999999888666655543
No 471
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.91 E-value=0.23 Score=61.21 Aligned_cols=60 Identities=27% Similarity=0.450 Sum_probs=39.7
Q ss_pred CccccccCCCCC--CCCCHHHHHHHHHHHHhcccc-CCCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 14 GVWNETFGPSLS--STLNDSQAQAVLSCLRQMRCD-HKATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 14 ~~~~~~~~~~~~--~~Ln~sQ~~AV~~~l~~~~~~-~~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..|.+++.+... ...++.+.+.|...+....-. ....+.+|.||||||||+++..+...+
T Consensus 72 ~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 72 EPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 458776654433 344566666777776653222 234579999999999999987776554
No 472
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=91.91 E-value=0.19 Score=60.90 Aligned_cols=44 Identities=25% Similarity=0.384 Sum_probs=31.4
Q ss_pred CCHHHHHHHHHHHHhcc-----ccCCCceEEEEccCCCcHHHHHHHHHH
Q 041971 28 LNDSQAQAVLSCLRQMR-----CDHKATIQLIWGPPGTGKTKTVSMLLV 71 (1044)
Q Consensus 28 Ln~sQ~~AV~~~l~~~~-----~~~~~~i~LI~GPPGTGKT~ti~~ll~ 71 (1044)
..+..++++...+.... .-..+.-.|+.||||||||.++.++..
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh
Confidence 34455666666665543 234566899999999999999888776
No 473
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=91.88 E-value=0.13 Score=57.51 Aligned_cols=26 Identities=42% Similarity=0.469 Sum_probs=22.4
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
...-.||-||||||||-++.++...|
T Consensus 64 aGrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 64 AGRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred cccEEEEECCCCCcHHHHHHHHHHHh
Confidence 35788999999999999988887776
No 474
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=91.87 E-value=0.15 Score=53.73 Aligned_cols=27 Identities=37% Similarity=0.522 Sum_probs=20.9
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHH
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILL 74 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll 74 (1044)
.+-+.+|-||||+|||+++..++..+.
T Consensus 14 ~P~~~i~aG~~GsGKSt~~~~~~~~~~ 40 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLARQLLEEFG 40 (199)
T ss_dssp S-EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred CCEEEEEeCCCCCCHHHHHHHhhhhcc
Confidence 467888889999999999988877765
No 475
>PRK02496 adk adenylate kinase; Provisional
Probab=91.82 E-value=0.13 Score=53.36 Aligned_cols=22 Identities=36% Similarity=0.647 Sum_probs=18.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999888776654
No 476
>PRK14532 adenylate kinase; Provisional
Probab=91.80 E-value=0.12 Score=53.88 Aligned_cols=22 Identities=27% Similarity=0.558 Sum_probs=18.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q 041971 52 QLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 52 ~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
.+|.||||+||||+...+...+
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~ 24 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEER 24 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 5789999999999887776543
No 477
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=91.78 E-value=0.21 Score=57.58 Aligned_cols=46 Identities=22% Similarity=0.181 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM 76 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~ 76 (1044)
.|.+|+........-+.-+...||.||+|+|||+++-.++..|+..
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 5666665555554445556789999999999999999998888753
No 478
>PRK15453 phosphoribulokinase; Provisional
Probab=91.78 E-value=0.23 Score=54.79 Aligned_cols=37 Identities=22% Similarity=0.271 Sum_probs=27.7
Q ss_pred CCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 48 KATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 48 ~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
.+.+..|.|+||+||||+..++...+-..+..+.+..
T Consensus 4 k~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~ 40 (290)
T PRK15453 4 KHPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVE 40 (290)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEe
Confidence 4689999999999999998888766654454444443
No 479
>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=91.77 E-value=0.24 Score=51.51 Aligned_cols=35 Identities=26% Similarity=0.264 Sum_probs=30.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcC
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 85 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~ 85 (1044)
++++.+-.|+|||++.+.+...|...|.+||++=.
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 46788999999999999999999999999988765
No 480
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=91.74 E-value=0.22 Score=58.31 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=20.5
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
+..|+.||||||||+++.++...+
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l 140 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARIL 140 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhc
Confidence 569999999999999998887554
No 481
>PRK14528 adenylate kinase; Provisional
Probab=91.69 E-value=0.14 Score=53.45 Aligned_cols=23 Identities=35% Similarity=0.592 Sum_probs=18.8
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVIL 73 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~L 73 (1044)
..+|.||||+||||+...+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999987765554
No 482
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.68 E-value=0.12 Score=58.24 Aligned_cols=39 Identities=33% Similarity=0.350 Sum_probs=25.7
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARV 97 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL 97 (1044)
-.|..||||||||-++-++.... | +++-|...-.++++-
T Consensus 247 gvLm~GPPGTGKTlLAKAvATEc---~-----tTFFNVSsstltSKw 285 (491)
T KOG0738|consen 247 GVLMVGPPGTGKTLLAKAVATEC---G-----TTFFNVSSSTLTSKW 285 (491)
T ss_pred eeeeeCCCCCcHHHHHHHHHHhh---c-----CeEEEechhhhhhhh
Confidence 36788999999999877765542 2 445555554454443
No 483
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=91.68 E-value=0.26 Score=63.29 Aligned_cols=54 Identities=24% Similarity=0.325 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhccc--------cCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 31 SQAQAVLSCLRQMRC--------DHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~--------~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
-|..||......+.+ .++-++.++.||||||||.++.++...|...+..+...-
T Consensus 570 GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~d 631 (852)
T TIGR03345 570 GQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITIN 631 (852)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEe
Confidence 355666666555422 123356899999999999999999888775555544443
No 484
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=91.65 E-value=0.52 Score=58.77 Aligned_cols=76 Identities=17% Similarity=0.171 Sum_probs=60.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHHH
Q 041971 22 PSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKLV 101 (1044)
Q Consensus 22 ~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~~ 101 (1044)
...++.-.-.|-.|+......+.-+ ....++.|.+|||||.|++.++.. .+.++||+|++...+.++.+-|..++
T Consensus 4 ~~~~~~~~~~Q~~ai~~l~~~~~~~--~~~~~l~Gvtgs~kt~~~a~~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~ 78 (655)
T TIGR00631 4 LHSPFQPAGDQPKAIAKLVEGLTDG--EKHQTLLGVTGSGKTFTMANVIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFF 78 (655)
T ss_pred eccCCCCChHHHHHHHHHHHhhhcC--CCcEEEECCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhC
Confidence 3456677889999999887765322 123469999999999999987654 47899999999999999999998765
Q ss_pred H
Q 041971 102 K 102 (1044)
Q Consensus 102 ~ 102 (1044)
.
T Consensus 79 p 79 (655)
T TIGR00631 79 P 79 (655)
T ss_pred C
Confidence 4
No 485
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=91.64 E-value=0.22 Score=52.61 Aligned_cols=37 Identities=24% Similarity=0.292 Sum_probs=26.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhC-----CCcEEEEcCCH
Q 041971 51 IQLIWGPPGTGKTKTVSMLLVILLQM-----KFRTLVCTPTN 87 (1044)
Q Consensus 51 i~LI~GPPGTGKT~ti~~ll~~Ll~~-----~~rILv~A~TN 87 (1044)
.+||-||||+||||.+..+...+..- +.+|-++--.|
T Consensus 139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 38999999999999998877766432 45666554433
No 486
>PRK13973 thymidylate kinase; Provisional
Probab=91.63 E-value=0.37 Score=51.44 Aligned_cols=38 Identities=24% Similarity=0.351 Sum_probs=32.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc-CCH
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT-PTN 87 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A-~TN 87 (1044)
.+.+|-|++|+||||.+..+...|-..|.++..+. |+.
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~ 42 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGG 42 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCC
Confidence 57889999999999999999999999999887764 554
No 487
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=91.62 E-value=0.12 Score=55.90 Aligned_cols=30 Identities=33% Similarity=0.607 Sum_probs=22.8
Q ss_pred hcCCCcEEEEecCCccHHHHHHHHHHHHHH
Q 041971 882 ILSPRSTFILGRSGTGKTTVLTRKLFQKEE 911 (1044)
Q Consensus 882 I~~~~~~~viGRSGTGKTT~~l~rl~~~~~ 911 (1044)
...|-++.|||+||+||||.++.-|.....
T Consensus 10 ~~~~fr~viIG~sGSGKT~li~~lL~~~~~ 39 (241)
T PF04665_consen 10 LKDPFRMVIIGKSGSGKTTLIKSLLYYLRH 39 (241)
T ss_pred cCCCceEEEECCCCCCHHHHHHHHHHhhcc
Confidence 345668899999999999988776654433
No 488
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=91.62 E-value=0.74 Score=56.28 Aligned_cols=77 Identities=17% Similarity=0.247 Sum_probs=64.7
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHH
Q 041971 20 FGPSLSSTLNDSQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 20 ~~~~~~~~Ln~sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
|.+..+.+-.-.+-+++...+.+ ..+++..|=|.|||+++..++..|+. .|.+|+++||.-..+.++.+++.
T Consensus 165 ~np~~~~~~~~~~id~~~~~fkq-------~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~ 237 (752)
T PHA03333 165 FNPEAPSPRTLREIDRIFDEYGK-------CYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVE 237 (752)
T ss_pred cCcCCCChhhHHHHHHHHHHHhh-------cceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHH
Confidence 44555556666788888888876 89999999999999999877777666 78999999999999999999999
Q ss_pred HHHHH
Q 041971 99 KLVKE 103 (1044)
Q Consensus 99 ~~~~~ 103 (1044)
+.+..
T Consensus 238 ~~le~ 242 (752)
T PHA03333 238 TVVHA 242 (752)
T ss_pred HHHHH
Confidence 88764
No 489
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=91.56 E-value=0.2 Score=61.13 Aligned_cols=45 Identities=29% Similarity=0.440 Sum_probs=40.4
Q ss_pred CceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHH
Q 041971 49 ATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTNVAIKELAARVV 98 (1044)
Q Consensus 49 ~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~ 98 (1044)
-.+.+|.|-.||||||.|..+...+ +.+++++|..|+-|+-.+|.
T Consensus 71 Fs~~~itG~AGsGKst~i~~l~~~l-----~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 71 FSVYLITGTAGAGKSTSIQTLNENL-----DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred eEEEEEecCCCCChHHHHHHHHHhc-----CEEEEcchHHHHHhhhcccc
Confidence 3678999999999999999998887 88899999999999987776
No 490
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=91.56 E-value=0.27 Score=56.98 Aligned_cols=47 Identities=28% Similarity=0.297 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 31 SQAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 31 sQ~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
-|.+|+....+.+.-+.-+...|+.||+|+||++++..++..|+..+
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 46666555555444455677899999999999999999999987543
No 491
>PRK08760 replicative DNA helicase; Provisional
Probab=91.53 E-value=0.3 Score=58.60 Aligned_cols=54 Identities=19% Similarity=0.126 Sum_probs=43.8
Q ss_pred cCCCceEEEEccCCCcHHHHHHHHHHHHHh-CCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 46 DHKATIQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 46 ~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.++..+.+|-|+||.|||+++..++..++. .|.+|++.|.=..+ ++++.|+...
T Consensus 226 ~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~-~ql~~Rl~a~ 280 (476)
T PRK08760 226 LQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSA-SQLAMRLISS 280 (476)
T ss_pred CCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCH-HHHHHHHHHh
Confidence 356789999999999999999999988764 58899999875555 4677787654
No 492
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=91.52 E-value=0.27 Score=50.09 Aligned_cols=46 Identities=20% Similarity=0.250 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhCC
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQMK 77 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~ 77 (1044)
|.+++.......+-+.-+...|+.||+|+||++++..++..++..+
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~ 47 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSN 47 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 4444444444444455577889999999999999999999887654
No 493
>CHL00095 clpC Clp protease ATP binding subunit
Probab=91.52 E-value=0.43 Score=61.42 Aligned_cols=71 Identities=15% Similarity=0.222 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHhC-------CCcEEEEcCCHHH-----HHHHHHHHHH
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQM-------KFRTLVCTPTNVA-----IKELAARVVK 99 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~-------~~rILv~A~TN~A-----Vd~v~~rL~~ 99 (1044)
..+.+...+.-+.+...+.+ ++.||||||||+++-.++..+... +.+++.+..++-- ..+..+|+.+
T Consensus 184 r~~ei~~~~~~L~r~~~~n~-lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~rl~~ 262 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNP-ILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKR 262 (821)
T ss_pred cHHHHHHHHHHHcccccCCe-EEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHHHH
Q ss_pred HHHH
Q 041971 100 LVKE 103 (1044)
Q Consensus 100 ~~~~ 103 (1044)
.+.+
T Consensus 263 i~~~ 266 (821)
T CHL00095 263 IFDE 266 (821)
T ss_pred HHHH
No 494
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=91.50 E-value=0.32 Score=62.85 Aligned_cols=52 Identities=19% Similarity=0.303 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhccccCCCceEEEEccCCCcHHHHHHHHHHHHHh-------CCCcEEEEc
Q 041971 32 QAQAVLSCLRQMRCDHKATIQLIWGPPGTGKTKTVSMLLVILLQ-------MKFRTLVCT 84 (1044)
Q Consensus 32 Q~~AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~-------~~~rILv~A 84 (1044)
|.+.|...+.-+ |.......+++||||||||+++..++..+.. .+.+++.+.
T Consensus 178 r~~ei~~~~~~l-~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~ 236 (852)
T TIGR03346 178 RDEEIRRTIQVL-SRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALD 236 (852)
T ss_pred cHHHHHHHHHHH-hcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEee
Confidence 444455555432 2333455678999999999999888888765 366777664
No 495
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=91.50 E-value=0.12 Score=43.44 Aligned_cols=16 Identities=50% Similarity=0.843 Sum_probs=14.7
Q ss_pred cEEEEecCCccHHHHH
Q 041971 887 STFILGRSGTGKTTVL 902 (1044)
Q Consensus 887 ~~~viGRSGTGKTT~~ 902 (1044)
.++|.|++|+||||.+
T Consensus 25 ~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLL 40 (62)
T ss_pred EEEEECCCCCCHHHHH
Confidence 6999999999999965
No 496
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=91.50 E-value=0.72 Score=56.22 Aligned_cols=91 Identities=19% Similarity=0.251 Sum_probs=61.5
Q ss_pred ccHHHHHHHhhhccCCcCcCccccCHHHhhhh---cCCCcEEEEecCCccHHHHHHHHHHHHHHHHHHHhhhhhccCCcc
Q 041971 851 LSSVVVSHLLSDRVGRELDLPFEVTDEQLEMI---LSPRSTFILGRSGTGKTTVLTRKLFQKEELHRMAMEEFYGVNNSV 927 (1044)
Q Consensus 851 ~s~~~~~~~l~~~~~~~~~~pf~lt~~e~~iI---~~~~~~~viGRSGTGKTT~~l~rl~~~~~~~~~~~~~~~~~~~~~ 927 (1044)
|+..++.++-.. .| -+.|+-|.+.| ...+++++....|||||.+.++-++..-. ..+...
T Consensus 128 l~~~l~~~L~~~------g~-~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~--~~~~~~-------- 190 (518)
T PLN00206 128 LPPKLLLNLETA------GY-EFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCC--TIRSGH-------- 190 (518)
T ss_pred CCHHHHHHHHHc------CC-CCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHH--hhcccc--------
Confidence 556666665432 11 25678888877 55679999999999999998887764311 111000
Q ss_pred ccccccchhhcccCCCCCCCceeEEEEecCHHHHHHHHHHHHHHHh
Q 041971 928 TLHCSQESEAEEGLGETERPILRQLFVTVSPKLCFAIKQHISQMKS 973 (1044)
Q Consensus 928 ~~~~~~~~~~~~~~~~~~~~~l~q~FvT~s~~L~~~v~~~~~~l~~ 973 (1044)
.......+.|+++...-||.||.+.+..+.+
T Consensus 191 ---------------~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~ 221 (518)
T PLN00206 191 ---------------PSEQRNPLAMVLTPTRELCVQVEDQAKVLGK 221 (518)
T ss_pred ---------------ccccCCceEEEEeCCHHHHHHHHHHHHHHhC
Confidence 0011237899999999999999888877644
No 497
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=91.46 E-value=0.25 Score=52.46 Aligned_cols=37 Identities=24% Similarity=0.327 Sum_probs=28.6
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEEc
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 84 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~A 84 (1044)
+..++..+.|++|+||||++..++..+. .+.++.+..
T Consensus 20 ~~~~~i~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~ 56 (207)
T TIGR00073 20 HGLVVLNFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIE 56 (207)
T ss_pred cCcEEEEEECCCCCCHHHHHHHHHHHHh-cCCeEEEEE
Confidence 4567777999999999999999888764 345665555
No 498
>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=91.42 E-value=0.23 Score=54.95 Aligned_cols=33 Identities=27% Similarity=0.429 Sum_probs=29.7
Q ss_pred ceEEEEccCCCcHHHHHHHHHHHHHhCCCcEEEE
Q 041971 50 TIQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 83 (1044)
Q Consensus 50 ~i~LI~GPPGTGKT~ti~~ll~~Ll~~~~rILv~ 83 (1044)
-++++ |-.|+||||+.+.+...|...|.+||++
T Consensus 3 ~iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 3 QIAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 35666 8999999999999999999999999987
No 499
>PRK09165 replicative DNA helicase; Provisional
Probab=91.41 E-value=0.33 Score=58.67 Aligned_cols=53 Identities=19% Similarity=0.200 Sum_probs=42.3
Q ss_pred CCCceEEEEccCCCcHHHHHHHHHHHHHhC---------------CCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 47 HKATIQLIWGPPGTGKTKTVSMLLVILLQM---------------KFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 47 ~~~~i~LI~GPPGTGKT~ti~~ll~~Ll~~---------------~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
+...+.+|-|+||+|||+++..++...... |.+||+.|.=..+ +++..|+...
T Consensus 215 ~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~-~ql~~R~la~ 282 (497)
T PRK09165 215 HPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSA-EQLATRILSE 282 (497)
T ss_pred CCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCH-HHHHHHHHHH
Confidence 567889999999999999998888777643 6789998865555 6788887654
No 500
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=91.32 E-value=0.54 Score=59.27 Aligned_cols=78 Identities=21% Similarity=0.144 Sum_probs=54.1
Q ss_pred CCCCCHHHHH---HHHHHHHhccccCCCceEEEEccCCCcHHHH-HHHHHHHHHhCCCcEEEEcCCHHHHHHHHHHHHHH
Q 041971 25 SSTLNDSQAQ---AVLSCLRQMRCDHKATIQLIWGPPGTGKTKT-VSMLLVILLQMKFRTLVCTPTNVAIKELAARVVKL 100 (1044)
Q Consensus 25 ~~~Ln~sQ~~---AV~~~l~~~~~~~~~~i~LI~GPPGTGKT~t-i~~ll~~Ll~~~~rILv~A~TN~AVd~v~~rL~~~ 100 (1044)
.+..-+.|.+ +|..+++... ...+...+|.+|.|||||.- +.-.+......+++|+|.|.|..--+++..+=.-.
T Consensus 23 ~~e~R~~Q~~M~~~V~~al~~~~-~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~kDlP~ 101 (697)
T PRK11747 23 GFIPRAGQRQMIAEVAKTLAGEY-LKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSKDLPL 101 (697)
T ss_pred CCCcCHHHHHHHHHHHHHHhccc-ccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhhhhhH
Confidence 4677789999 6666665300 01247899999999999974 22233334457899999999999999998775544
Q ss_pred HHH
Q 041971 101 VKE 103 (1044)
Q Consensus 101 ~~~ 103 (1044)
+.+
T Consensus 102 l~~ 104 (697)
T PRK11747 102 LLK 104 (697)
T ss_pred HHH
Confidence 443
Done!