Query psy16285
Match_columns 97
No_of_seqs 169 out of 1420
Neff 9.1
Searched_HMMs 46136
Date Fri Aug 16 17:29:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16285.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16285hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13086 AAA_11: AAA domain; P 99.7 2.3E-17 5.1E-22 106.5 8.0 73 19-91 1-75 (236)
2 KOG1803|consensus 99.7 2.6E-16 5.6E-21 113.2 7.3 74 15-95 181-255 (649)
3 TIGR00376 DNA helicase, putati 99.6 1.9E-15 4.1E-20 111.1 9.2 69 18-93 156-225 (637)
4 KOG1802|consensus 99.6 1.3E-15 2.8E-20 110.9 7.6 79 12-96 403-481 (935)
5 PF13245 AAA_19: Part of AAA d 99.6 4.3E-15 9.3E-20 82.5 7.5 60 27-89 2-62 (76)
6 PF13604 AAA_30: AAA domain; P 99.5 2.3E-13 5E-18 87.5 9.0 64 19-89 1-66 (196)
7 PF00580 UvrD-helicase: UvrD/R 99.5 2E-13 4.3E-18 91.7 7.5 69 20-93 1-69 (315)
8 PF04851 ResIII: Type III rest 99.4 4E-12 8.6E-17 79.5 8.2 67 18-94 2-75 (184)
9 PHA02558 uvsW UvsW helicase; P 99.3 1.1E-11 2.3E-16 89.3 9.9 71 17-93 112-182 (501)
10 KOG1805|consensus 99.3 3.7E-12 8.1E-17 95.8 7.6 73 17-96 667-740 (1100)
11 PF00270 DEAD: DEAD/DEAH box h 99.3 1.8E-11 3.9E-16 75.9 9.7 70 21-95 1-70 (169)
12 COG1061 SSL2 DNA or RNA helica 99.3 1.1E-11 2.4E-16 88.2 9.5 71 14-94 31-105 (442)
13 PRK10919 ATP-dependent DNA hel 99.3 8.4E-12 1.8E-16 92.6 7.7 70 19-93 2-71 (672)
14 smart00487 DEXDc DEAD-like hel 99.3 4.5E-11 9.7E-16 74.7 10.0 74 16-94 5-79 (201)
15 PRK11773 uvrD DNA-dependent he 99.3 1.4E-11 3E-16 92.0 8.0 71 19-94 9-79 (721)
16 TIGR01075 uvrD DNA helicase II 99.3 1.1E-11 2.4E-16 92.4 7.2 71 19-94 4-74 (715)
17 PRK11054 helD DNA helicase IV; 99.3 7.3E-12 1.6E-16 93.0 5.9 75 14-93 191-265 (684)
18 TIGR01447 recD exodeoxyribonuc 99.3 3.2E-11 7E-16 88.3 9.2 69 22-92 148-216 (586)
19 PRK10875 recD exonuclease V su 99.3 2.7E-11 5.8E-16 89.1 8.7 69 20-91 153-221 (615)
20 TIGR01448 recD_rel helicase, p 99.3 2.9E-11 6.4E-16 90.3 9.1 68 16-88 320-387 (720)
21 TIGR00603 rad25 DNA repair hel 99.2 9.9E-11 2.1E-15 87.2 9.8 68 16-93 252-322 (732)
22 TIGR01073 pcrA ATP-dependent D 99.2 4.6E-11 1E-15 89.2 7.5 70 19-93 4-73 (726)
23 cd00268 DEADc DEAD-box helicas 99.2 2.7E-10 5.8E-15 72.9 9.7 74 18-94 20-94 (203)
24 TIGR01074 rep ATP-dependent DN 99.2 8.2E-11 1.8E-15 87.0 8.1 69 20-93 2-70 (664)
25 PRK11192 ATP-dependent RNA hel 99.2 3.3E-10 7.1E-15 80.1 9.9 78 16-94 20-98 (434)
26 TIGR02768 TraA_Ti Ti-type conj 99.2 1.7E-10 3.7E-15 86.5 8.8 66 16-88 349-415 (744)
27 PRK08181 transposase; Validate 99.2 2.8E-10 6E-15 76.5 9.0 51 19-76 87-141 (269)
28 PTZ00424 helicase 45; Provisio 99.2 3.5E-10 7.6E-15 79.0 9.2 73 17-93 48-120 (401)
29 PRK10917 ATP-dependent DNA hel 99.1 3.6E-10 7.7E-15 84.1 9.4 73 15-94 257-335 (681)
30 KOG1807|consensus 99.1 1.2E-10 2.6E-15 86.5 6.4 76 15-91 374-449 (1025)
31 PRK11776 ATP-dependent RNA hel 99.1 5.7E-10 1.2E-14 79.5 9.7 73 16-93 23-96 (460)
32 TIGR00643 recG ATP-dependent D 99.1 4.2E-10 9.1E-15 83.1 9.3 73 15-94 231-309 (630)
33 PRK01172 ski2-like helicase; P 99.1 6.6E-10 1.4E-14 82.5 9.7 70 16-92 19-88 (674)
34 PRK09401 reverse gyrase; Revie 99.1 6.5E-10 1.4E-14 86.6 9.7 71 17-94 78-148 (1176)
35 KOG0354|consensus 99.1 3.7E-10 8E-15 83.8 8.0 77 11-93 54-130 (746)
36 PF05970 PIF1: PIF1-like helic 99.1 3.3E-10 7E-15 78.9 6.8 60 19-85 1-66 (364)
37 PRK05580 primosome assembly pr 99.1 1.1E-09 2.4E-14 81.5 10.0 71 16-93 141-214 (679)
38 PRK06526 transposase; Provisio 99.1 2E-10 4.3E-15 76.7 5.4 51 19-76 80-133 (254)
39 COG1484 DnaC DNA replication p 99.1 5.1E-10 1.1E-14 74.7 7.3 48 33-92 104-151 (254)
40 PRK11634 ATP-dependent RNA hel 99.1 1.3E-09 2.8E-14 80.6 9.8 73 16-93 25-98 (629)
41 cd00046 DEXDc DEAD-like helica 99.1 8.6E-10 1.9E-14 65.3 7.4 55 35-94 1-55 (144)
42 PF01695 IstB_IS21: IstB-like 99.1 5.6E-10 1.2E-14 70.9 6.5 48 33-92 46-93 (178)
43 PRK10590 ATP-dependent RNA hel 99.1 2.1E-09 4.5E-14 76.7 9.9 79 16-94 20-100 (456)
44 PRK13889 conjugal transfer rel 99.1 9.9E-10 2.1E-14 84.3 8.7 65 16-87 343-408 (988)
45 TIGR00580 mfd transcription-re 99.1 1.9E-09 4.2E-14 82.4 9.9 72 16-94 448-525 (926)
46 TIGR01054 rgy reverse gyrase. 99.1 1.2E-09 2.7E-14 85.1 9.0 72 16-94 75-146 (1171)
47 PRK04837 ATP-dependent RNA hel 99.0 2.6E-09 5.6E-14 75.5 9.8 78 16-93 27-107 (423)
48 PRK11448 hsdR type I restricti 99.0 1.6E-09 3.6E-14 84.1 9.4 72 17-93 411-487 (1123)
49 PRK02362 ski2-like helicase; P 99.0 3.2E-09 7E-14 79.6 9.4 71 16-93 20-91 (737)
50 PTZ00110 helicase; Provisional 99.0 3.9E-09 8.4E-14 77.0 9.3 78 17-94 150-228 (545)
51 PRK04537 ATP-dependent RNA hel 99.0 5.4E-09 1.2E-13 76.6 9.9 80 16-95 28-110 (572)
52 PRK13766 Hef nuclease; Provisi 99.0 4.8E-09 1E-13 78.9 9.8 71 16-93 12-82 (773)
53 PRK10689 transcription-repair 99.0 4E-09 8.7E-14 82.1 9.6 73 15-94 596-674 (1147)
54 PRK00254 ski2-like helicase; P 99.0 4.8E-09 1E-13 78.5 9.1 70 16-92 20-91 (720)
55 COG4096 HsdR Type I site-speci 99.0 3.4E-09 7.4E-14 79.3 7.7 76 15-95 161-241 (875)
56 PRK12377 putative replication 98.9 1.3E-08 2.8E-13 67.8 9.6 43 35-85 102-144 (248)
57 PLN00206 DEAD-box ATP-dependen 98.9 9.5E-09 2.1E-13 74.5 9.6 79 16-94 140-221 (518)
58 PRK13826 Dtr system oriT relax 98.9 6.1E-09 1.3E-13 80.6 8.8 66 16-88 378-444 (1102)
59 PRK01297 ATP-dependent RNA hel 98.9 1.4E-08 3E-13 72.8 10.0 77 17-93 107-186 (475)
60 PRK09183 transposase/IS protei 98.9 7E-09 1.5E-13 69.4 8.0 50 20-76 85-137 (259)
61 PRK06835 DNA replication prote 98.9 1.1E-08 2.4E-13 70.6 9.0 36 34-76 183-218 (329)
62 PRK14701 reverse gyrase; Provi 98.9 7.8E-09 1.7E-13 82.6 9.3 71 17-94 77-147 (1638)
63 PRK07952 DNA replication prote 98.9 1.5E-08 3.4E-13 67.3 9.3 58 21-90 78-143 (244)
64 PF02562 PhoH: PhoH-like prote 98.9 4.1E-09 8.8E-14 68.4 6.4 56 19-79 4-59 (205)
65 COG0210 UvrD Superfamily I DNA 98.9 3.9E-09 8.5E-14 78.1 6.9 71 19-94 2-72 (655)
66 COG0556 UvrB Helicase subunit 98.9 6.7E-09 1.5E-13 75.0 6.9 72 14-95 7-83 (663)
67 TIGR03817 DECH_helic helicase/ 98.9 1.8E-08 4E-13 75.7 9.4 71 17-93 34-105 (742)
68 cd01124 KaiC KaiC is a circadi 98.9 7.5E-09 1.6E-13 65.3 6.1 51 36-94 1-51 (187)
69 TIGR00614 recQ_fam ATP-depende 98.8 2.6E-08 5.5E-13 71.5 8.9 67 17-93 9-75 (470)
70 TIGR02785 addA_Gpos recombinat 98.8 1.6E-08 3.4E-13 79.5 8.0 68 20-93 2-69 (1232)
71 PRK10536 hypothetical protein; 98.8 1.7E-08 3.7E-13 67.5 7.1 45 17-61 57-101 (262)
72 TIGR02760 TraI_TIGR conjugativ 98.8 2.6E-08 5.7E-13 80.9 9.1 67 16-89 426-494 (1960)
73 PRK13767 ATP-dependent helicas 98.8 4.5E-08 9.7E-13 74.8 9.2 74 18-91 31-106 (876)
74 PRK14712 conjugal transfer nic 98.8 3.5E-08 7.5E-13 78.7 8.5 67 18-87 834-902 (1623)
75 COG3973 Superfamily I DNA and 98.8 2.8E-08 6E-13 72.7 7.3 73 21-95 214-286 (747)
76 COG4581 Superfamily II RNA hel 98.8 4E-08 8.6E-13 75.5 8.1 74 15-95 115-188 (1041)
77 PRK13709 conjugal transfer nic 98.8 4.7E-08 1E-12 78.5 8.7 68 17-87 965-1034(1747)
78 PRK11057 ATP-dependent DNA hel 98.8 7.7E-08 1.7E-12 71.0 8.9 68 17-94 23-90 (607)
79 COG1110 Reverse gyrase [DNA re 98.7 9E-08 2E-12 73.3 9.1 73 16-95 79-151 (1187)
80 TIGR00348 hsdR type I site-spe 98.7 4.6E-08 1E-12 72.9 7.4 73 17-94 236-318 (667)
81 PRK08116 hypothetical protein; 98.7 1.3E-07 2.8E-12 63.6 9.0 34 36-76 116-149 (268)
82 COG0513 SrmB Superfamily II DN 98.7 1.4E-07 3.1E-12 68.4 9.6 76 16-95 48-125 (513)
83 TIGR01389 recQ ATP-dependent D 98.7 1E-07 2.3E-12 70.0 8.8 68 17-94 11-78 (591)
84 PRK08939 primosomal protein Dn 98.7 1.5E-07 3.3E-12 64.4 8.8 35 35-76 157-191 (306)
85 KOG1806|consensus 98.7 4E-08 8.6E-13 75.1 6.3 76 13-93 732-807 (1320)
86 TIGR02760 TraI_TIGR conjugativ 98.7 8.8E-08 1.9E-12 77.9 8.5 68 17-87 1017-1086(1960)
87 TIGR02621 cas3_GSU0051 CRISPR- 98.7 2.5E-08 5.3E-13 75.6 5.0 75 16-94 12-87 (844)
88 COG1198 PriA Primosomal protei 98.7 1.4E-07 3E-12 70.7 8.8 73 16-95 195-271 (730)
89 smart00488 DEXDc2 DEAD-like he 98.7 2.7E-07 5.8E-12 62.7 9.4 72 19-92 8-84 (289)
90 smart00489 DEXDc3 DEAD-like he 98.7 2.7E-07 5.8E-12 62.7 9.4 72 19-92 8-84 (289)
91 COG1111 MPH1 ERCC4-like helica 98.7 1.6E-07 3.4E-12 67.5 8.3 73 14-93 10-82 (542)
92 TIGR01970 DEAH_box_HrpB ATP-de 98.7 2.3E-07 5.1E-12 70.5 9.5 66 21-93 4-69 (819)
93 PRK06921 hypothetical protein; 98.7 1.7E-07 3.8E-12 63.0 7.9 45 34-85 117-161 (266)
94 PRK09694 helicase Cas3; Provis 98.7 1.3E-07 2.9E-12 72.2 8.2 72 17-93 284-355 (878)
95 TIGR01587 cas3_core CRISPR-ass 98.7 1E-07 2.3E-12 65.8 7.0 52 37-93 2-53 (358)
96 COG1204 Superfamily II helicas 98.7 1.3E-07 2.9E-12 71.3 7.7 66 19-90 31-97 (766)
97 TIGR03877 thermo_KaiC_1 KaiC d 98.6 9.1E-08 2E-12 63.1 5.9 53 34-94 21-73 (237)
98 PHA00729 NTP-binding motif con 98.6 1.4E-07 3E-12 62.1 6.6 25 35-59 18-42 (226)
99 KOG0330|consensus 98.6 1.6E-07 3.4E-12 65.8 7.2 74 17-95 81-155 (476)
100 PHA02653 RNA helicase NPH-II; 98.6 1.4E-07 3E-12 70.4 7.4 71 22-92 167-245 (675)
101 cd00009 AAA The AAA+ (ATPases 98.6 3.2E-07 6.9E-12 54.6 7.7 39 34-79 19-57 (151)
102 PRK11664 ATP-dependent RNA hel 98.6 2.3E-07 4.9E-12 70.5 8.2 67 19-92 5-71 (812)
103 PRK08533 flagellar accessory p 98.6 1.4E-07 3E-12 62.2 6.3 54 33-94 23-76 (230)
104 COG1474 CDC6 Cdc6-related prot 98.6 3.1E-07 6.6E-12 64.3 8.3 74 15-93 16-97 (366)
105 PRK08084 DNA replication initi 98.6 3.1E-07 6.7E-12 60.6 8.0 50 21-77 29-81 (235)
106 TIGR03158 cas3_cyano CRISPR-as 98.6 3.4E-07 7.5E-12 63.7 8.2 60 24-93 2-63 (357)
107 TIGR00595 priA primosomal prot 98.6 1.3E-07 2.8E-12 68.6 6.2 49 38-93 1-49 (505)
108 PF00308 Bac_DnaA: Bacterial d 98.6 8.4E-07 1.8E-11 58.1 9.4 51 21-76 16-71 (219)
109 PRK06893 DNA replication initi 98.6 1.1E-07 2.4E-12 62.5 5.2 36 35-77 40-75 (229)
110 COG1201 Lhr Lhr-like helicases 98.6 3.4E-07 7.4E-12 69.3 8.3 79 16-94 19-98 (814)
111 PF09848 DUF2075: Uncharacteri 98.6 1.7E-07 3.6E-12 65.1 6.2 53 35-92 2-54 (352)
112 PRK08727 hypothetical protein; 98.6 8.9E-07 1.9E-11 58.4 9.3 35 35-76 42-76 (233)
113 PF06745 KaiC: KaiC; InterPro 98.6 1.3E-07 2.8E-12 61.7 5.0 54 34-94 19-72 (226)
114 TIGR00604 rad3 DNA repair heli 98.6 5.2E-07 1.1E-11 67.7 8.9 68 20-92 11-83 (705)
115 COG0467 RAD55 RecA-superfamily 98.6 2E-07 4.4E-12 62.1 5.9 54 33-94 22-75 (260)
116 smart00382 AAA ATPases associa 98.6 9.1E-08 2E-12 56.4 3.7 39 34-79 2-40 (148)
117 COG1200 RecG RecG-like helicas 98.5 3E-07 6.4E-12 68.0 6.9 74 15-95 258-337 (677)
118 PRK05642 DNA replication initi 98.5 3E-07 6.5E-12 60.6 6.2 36 35-77 46-81 (234)
119 PRK08903 DnaA regulatory inact 98.5 5.7E-07 1.2E-11 58.7 7.4 41 21-61 25-69 (227)
120 PRK06067 flagellar accessory p 98.5 2.9E-07 6.2E-12 60.4 6.0 53 34-94 25-77 (234)
121 PRK04328 hypothetical protein; 98.5 3.2E-07 7E-12 61.0 6.0 53 34-94 23-75 (249)
122 PRK05973 replicative DNA helic 98.5 3.6E-07 7.8E-12 60.6 5.8 54 33-94 63-116 (237)
123 TIGR03880 KaiC_arch_3 KaiC dom 98.5 4.4E-07 9.6E-12 59.1 6.0 54 34-95 16-69 (224)
124 TIGR03420 DnaA_homol_Hda DnaA 98.5 1.1E-06 2.5E-11 56.9 7.7 41 21-61 22-65 (226)
125 TIGR00631 uvrb excinuclease AB 98.5 2E-06 4.3E-11 64.2 9.6 71 15-95 5-80 (655)
126 PF00004 AAA: ATPase family as 98.5 3.9E-07 8.4E-12 54.1 4.8 22 37-58 1-22 (132)
127 TIGR01407 dinG_rel DnaQ family 98.5 1.3E-06 2.8E-11 66.8 8.7 66 16-88 242-311 (850)
128 TIGR02655 circ_KaiC circadian 98.5 4.3E-07 9.3E-12 65.5 5.8 53 34-94 263-315 (484)
129 TIGR02928 orc1/cdc6 family rep 98.5 8.4E-07 1.8E-11 61.4 7.1 46 16-61 15-67 (365)
130 TIGR02640 gas_vesic_GvpN gas v 98.4 1.1E-06 2.4E-11 58.9 7.2 28 31-58 18-45 (262)
131 PF00448 SRP54: SRP54-type pro 98.4 1.1E-06 2.3E-11 56.7 6.8 45 36-87 3-50 (196)
132 TIGR02655 circ_KaiC circadian 98.4 5.7E-07 1.2E-11 64.9 6.1 55 34-95 21-75 (484)
133 TIGR03881 KaiC_arch_4 KaiC dom 98.4 6.5E-07 1.4E-11 58.4 5.8 52 34-93 20-71 (229)
134 KOG0952|consensus 98.4 1E-06 2.3E-11 67.7 7.5 78 17-94 108-189 (1230)
135 COG4889 Predicted helicase [Ge 98.4 9.9E-07 2.2E-11 67.4 7.2 69 14-91 156-228 (1518)
136 PF07652 Flavi_DEAD: Flaviviru 98.4 6.1E-07 1.3E-11 55.3 5.1 52 34-92 4-56 (148)
137 PF05496 RuvB_N: Holliday junc 98.4 3.1E-07 6.8E-12 60.4 3.9 24 35-58 51-74 (233)
138 PRK13833 conjugal transfer pro 98.4 1.3E-06 2.7E-11 60.3 7.0 42 19-60 128-170 (323)
139 TIGR00609 recB exodeoxyribonuc 98.4 6.9E-07 1.5E-11 69.8 6.4 56 34-92 9-65 (1087)
140 TIGR03878 thermo_KaiC_2 KaiC d 98.4 1.7E-06 3.6E-11 57.9 7.3 38 34-78 36-73 (259)
141 PLN03137 ATP-dependent DNA hel 98.4 2.5E-06 5.4E-11 66.6 9.0 67 16-92 457-523 (1195)
142 COG2805 PilT Tfp pilus assembl 98.4 8.9E-07 1.9E-11 60.5 5.9 29 33-61 124-152 (353)
143 COG1199 DinG Rad3-related DNA 98.4 2.8E-06 6E-11 63.1 9.0 72 15-92 11-86 (654)
144 COG2256 MGS1 ATPase related to 98.4 8E-07 1.7E-11 62.5 5.7 47 35-91 49-95 (436)
145 PRK00411 cdc6 cell division co 98.4 2.2E-06 4.8E-11 59.9 8.1 47 15-61 29-82 (394)
146 COG1205 Distinct helicase fami 98.4 2.3E-06 5E-11 65.5 8.6 71 19-95 70-141 (851)
147 PF13401 AAA_22: AAA domain; P 98.4 3.1E-07 6.8E-12 54.7 3.2 58 34-92 4-61 (131)
148 TIGR03117 cas_csf4 CRISPR-asso 98.4 2.4E-06 5.2E-11 63.5 8.2 55 33-93 15-70 (636)
149 KOG0331|consensus 98.4 1E-06 2.2E-11 63.8 6.1 80 16-95 110-191 (519)
150 KOG1123|consensus 98.4 1.5E-07 3.2E-12 68.1 1.8 81 3-93 277-369 (776)
151 PLN03025 replication factor C 98.4 1E-06 2.2E-11 60.4 5.5 43 19-61 16-61 (319)
152 cd01120 RecA-like_NTPases RecA 98.4 1.5E-06 3.2E-11 53.0 5.7 36 37-79 2-37 (165)
153 KOG0744|consensus 98.4 7.5E-07 1.6E-11 61.5 4.6 59 34-94 177-246 (423)
154 TIGR02782 TrbB_P P-type conjug 98.4 2.2E-06 4.7E-11 58.6 6.9 42 19-60 116-158 (299)
155 PF07728 AAA_5: AAA domain (dy 98.4 6.5E-07 1.4E-11 54.2 3.9 23 36-58 1-23 (139)
156 PRK13894 conjugal transfer ATP 98.3 2.5E-06 5.5E-11 58.8 7.1 40 20-59 133-173 (319)
157 PRK00149 dnaA chromosomal repl 98.3 7.5E-06 1.6E-10 58.6 9.7 37 35-76 149-185 (450)
158 PF13207 AAA_17: AAA domain; P 98.3 5.6E-07 1.2E-11 53.1 3.3 22 37-58 2-23 (121)
159 PF13481 AAA_25: AAA domain; P 98.3 2.8E-06 6.1E-11 53.8 6.7 59 34-93 32-93 (193)
160 PRK14088 dnaA chromosomal repl 98.3 5E-06 1.1E-10 59.5 8.5 37 36-77 132-168 (440)
161 TIGR02784 addA_alphas double-s 98.3 1.9E-06 4.2E-11 67.6 6.9 57 33-93 9-65 (1141)
162 cd01129 PulE-GspE PulE/GspE Th 98.3 2.2E-06 4.9E-11 57.5 6.4 45 16-60 60-106 (264)
163 TIGR02237 recomb_radB DNA repa 98.3 2E-06 4.2E-11 55.4 5.7 38 34-78 12-49 (209)
164 PRK14974 cell division protein 98.3 3.1E-06 6.8E-11 58.7 7.0 51 35-92 141-194 (336)
165 PRK07246 bifunctional ATP-depe 98.3 7.2E-06 1.6E-10 62.6 9.5 69 16-92 242-315 (820)
166 KOG0335|consensus 98.3 1.3E-06 2.8E-11 62.6 5.2 80 15-94 92-177 (482)
167 PRK12422 chromosomal replicati 98.3 2.8E-06 6.1E-11 60.9 6.7 35 36-77 143-177 (445)
168 KOG0991|consensus 98.3 2.1E-06 4.5E-11 57.2 5.6 71 19-94 30-104 (333)
169 TIGR02881 spore_V_K stage V sp 98.3 7.7E-07 1.7E-11 59.4 3.6 26 35-60 43-68 (261)
170 cd01130 VirB11-like_ATPase Typ 98.3 1.9E-06 4.1E-11 54.9 5.3 41 18-58 8-49 (186)
171 PRK04195 replication factor C 98.3 4E-06 8.7E-11 60.5 7.1 53 4-58 4-63 (482)
172 PF00176 SNF2_N: SNF2 family N 98.3 7.7E-06 1.7E-10 54.7 8.1 57 35-94 26-82 (299)
173 PRK05298 excinuclease ABC subu 98.3 1E-05 2.3E-10 60.4 9.4 73 12-94 5-82 (652)
174 KOG0345|consensus 98.3 9.5E-06 2.1E-10 58.3 8.6 79 16-94 25-104 (567)
175 TIGR00362 DnaA chromosomal rep 98.3 3.9E-06 8.5E-11 59.2 6.7 37 36-77 138-174 (405)
176 cd00984 DnaB_C DnaB helicase C 98.3 3.6E-06 7.8E-11 55.2 6.2 40 33-78 12-51 (242)
177 PRK08074 bifunctional ATP-depe 98.3 8.9E-06 1.9E-10 62.9 9.1 67 16-88 254-324 (928)
178 cd01131 PilT Pilus retraction 98.3 1.9E-06 4.2E-11 55.4 4.7 27 35-61 2-28 (198)
179 PF13191 AAA_16: AAA ATPase do 98.3 8.3E-06 1.8E-10 51.0 7.5 42 20-61 4-51 (185)
180 CHL00181 cbbX CbbX; Provisiona 98.2 3.9E-06 8.4E-11 57.0 6.3 26 36-61 61-86 (287)
181 PRK11823 DNA repair protein Ra 98.2 3.1E-06 6.8E-11 60.6 6.1 52 34-93 80-131 (446)
182 COG2804 PulE Type II secretory 98.2 2.8E-06 6.1E-11 61.2 5.7 46 16-61 238-285 (500)
183 PRK12899 secA preprotein trans 98.2 1.1E-05 2.3E-10 62.1 9.0 69 18-94 91-160 (970)
184 TIGR02880 cbbX_cfxQ probable R 98.2 3.5E-06 7.6E-11 57.1 5.8 26 36-61 60-85 (284)
185 PRK09302 circadian clock prote 98.2 3.1E-06 6.8E-11 61.4 5.9 54 34-94 31-84 (509)
186 TIGR03015 pepcterm_ATPase puta 98.2 5.1E-06 1.1E-10 55.2 6.5 43 17-59 21-68 (269)
187 TIGR00064 ftsY signal recognit 98.2 6.2E-06 1.3E-10 55.7 7.0 36 35-77 73-108 (272)
188 KOG0989|consensus 98.2 1.6E-06 3.4E-11 59.3 4.0 27 34-60 57-83 (346)
189 TIGR01967 DEAH_box_HrpA ATP-de 98.2 6.2E-06 1.4E-10 65.2 7.8 72 16-93 64-135 (1283)
190 TIGR01650 PD_CobS cobaltochela 98.2 4.3E-06 9.3E-11 57.8 6.0 44 15-58 44-88 (327)
191 TIGR00635 ruvB Holliday juncti 98.2 7E-06 1.5E-10 55.7 7.1 24 35-58 31-54 (305)
192 PRK14087 dnaA chromosomal repl 98.2 6.8E-06 1.5E-10 59.0 7.1 38 35-77 142-179 (450)
193 PRK12898 secA preprotein trans 98.2 1.1E-05 2.4E-10 60.2 8.3 70 16-94 100-169 (656)
194 PRK11331 5-methylcytosine-spec 98.2 3.8E-06 8.2E-11 60.2 5.6 34 27-60 187-220 (459)
195 PRK11747 dinG ATP-dependent DN 98.2 1.4E-05 3E-10 60.2 8.8 67 16-88 22-97 (697)
196 TIGR02688 conserved hypothetic 98.2 4.7E-06 1E-10 59.4 6.0 32 30-61 205-237 (449)
197 cd01122 GP4d_helicase GP4d_hel 98.2 5.9E-06 1.3E-10 55.2 6.2 51 33-90 29-79 (271)
198 PRK04296 thymidine kinase; Pro 98.2 3.2E-06 6.9E-11 54.1 4.6 36 35-77 3-38 (190)
199 PRK10416 signal recognition pa 98.2 6.6E-06 1.4E-10 56.7 6.4 36 35-77 115-150 (318)
200 PRK14722 flhF flagellar biosyn 98.2 3.6E-06 7.8E-11 59.1 5.2 39 34-77 137-175 (374)
201 TIGR02525 plasmid_TraJ plasmid 98.2 8.9E-06 1.9E-10 57.2 7.1 42 18-61 135-176 (372)
202 PRK11131 ATP-dependent RNA hel 98.2 1.2E-05 2.5E-10 63.7 8.3 73 15-93 70-142 (1294)
203 PF03215 Rad17: Rad17 cell cyc 98.2 3.4E-06 7.3E-11 61.5 5.1 55 3-59 8-70 (519)
204 cd01121 Sms Sms (bacterial rad 98.2 5.2E-06 1.1E-10 58.3 5.8 52 34-93 82-133 (372)
205 PHA02544 44 clamp loader, smal 98.2 1.3E-05 2.8E-10 54.6 7.6 43 16-58 21-67 (316)
206 PRK05703 flhF flagellar biosyn 98.2 7.9E-06 1.7E-10 58.3 6.7 38 34-77 221-259 (424)
207 PHA02244 ATPase-like protein 98.2 4.6E-06 1E-10 58.5 5.4 29 30-58 115-143 (383)
208 TIGR03714 secA2 accessory Sec 98.2 1.4E-05 3E-10 60.5 8.2 68 19-93 68-135 (762)
209 PRK10436 hypothetical protein; 98.2 6.5E-06 1.4E-10 59.3 6.3 46 16-61 198-245 (462)
210 cd01394 radB RadB. The archaea 98.2 6.6E-06 1.4E-10 53.3 5.8 36 34-76 19-54 (218)
211 TIGR00416 sms DNA repair prote 98.2 6.5E-06 1.4E-10 59.2 6.2 52 34-93 94-145 (454)
212 PRK09361 radB DNA repair and r 98.2 6.7E-06 1.5E-10 53.6 5.8 38 34-78 23-60 (225)
213 PRK12402 replication factor C 98.2 5.5E-06 1.2E-10 56.6 5.6 43 19-61 18-63 (337)
214 TIGR02533 type_II_gspE general 98.2 5.1E-06 1.1E-10 60.2 5.6 45 16-60 222-268 (486)
215 KOG0328|consensus 98.2 8.2E-07 1.8E-11 60.3 1.4 72 18-94 48-120 (400)
216 COG1222 RPT1 ATP-dependent 26S 98.1 4E-06 8.7E-11 58.5 4.7 24 35-58 186-209 (406)
217 PRK08118 topology modulation p 98.1 2.5E-06 5.5E-11 53.6 3.4 23 36-58 3-25 (167)
218 PRK09302 circadian clock prote 98.1 6.7E-06 1.5E-10 59.6 6.0 53 34-94 273-325 (509)
219 TIGR03499 FlhF flagellar biosy 98.1 1.4E-05 3.1E-10 54.1 7.2 39 35-78 195-233 (282)
220 KOG2028|consensus 98.1 5.3E-06 1.2E-10 58.4 5.2 49 35-90 163-211 (554)
221 COG1643 HrpA HrpA-like helicas 98.1 2.2E-05 4.8E-10 60.0 8.7 74 15-94 46-119 (845)
222 PTZ00112 origin recognition co 98.1 1.8E-05 3.9E-10 61.0 8.1 47 15-61 754-808 (1164)
223 KOG0922|consensus 98.1 8.7E-06 1.9E-10 60.2 6.3 71 16-93 48-119 (674)
224 PRK13342 recombination factor 98.1 9E-06 2E-10 57.7 6.2 24 35-58 37-60 (413)
225 PRK12726 flagellar biosynthesi 98.1 5.7E-06 1.2E-10 58.4 5.1 48 34-88 206-256 (407)
226 cd03115 SRP The signal recogni 98.1 6.8E-06 1.5E-10 51.5 5.0 34 36-76 2-35 (173)
227 COG1419 FlhF Flagellar GTP-bin 98.1 2.1E-05 4.4E-10 55.7 7.8 48 34-86 203-253 (407)
228 TIGR02012 tigrfam_recA protein 98.1 9E-06 2E-10 56.1 6.0 37 34-77 55-91 (321)
229 PF13238 AAA_18: AAA domain; P 98.1 3.1E-06 6.7E-11 50.0 3.3 22 37-58 1-22 (129)
230 COG1074 RecB ATP-dependent exo 98.1 6.1E-06 1.3E-10 64.9 5.7 58 33-93 15-73 (1139)
231 PRK11889 flhF flagellar biosyn 98.1 1.3E-05 2.8E-10 57.0 6.6 46 35-87 242-290 (436)
232 TIGR02538 type_IV_pilB type IV 98.1 9.3E-06 2E-10 59.8 6.1 44 16-59 296-341 (564)
233 KOG0731|consensus 98.1 4.9E-06 1.1E-10 62.7 4.6 24 35-58 345-368 (774)
234 PF13671 AAA_33: AAA domain; P 98.1 2.4E-06 5.3E-11 51.6 2.6 21 37-57 2-22 (143)
235 KOG0948|consensus 98.1 1.1E-05 2.4E-10 60.8 6.4 73 16-95 126-198 (1041)
236 PF05729 NACHT: NACHT domain 98.1 4.4E-06 9.5E-11 51.2 3.7 27 36-62 2-28 (166)
237 PRK05800 cobU adenosylcobinami 98.1 6.5E-06 1.4E-10 52.0 4.5 47 36-92 3-49 (170)
238 PRK06620 hypothetical protein; 98.1 6.5E-06 1.4E-10 53.7 4.5 22 35-56 45-66 (214)
239 PRK10876 recB exonuclease V su 98.1 1.3E-05 2.8E-10 63.3 6.8 60 34-93 17-81 (1181)
240 TIGR02524 dot_icm_DotB Dot/Icm 98.1 1.6E-05 3.5E-10 55.6 6.7 28 33-60 133-160 (358)
241 PRK13909 putative recombinatio 98.1 1.1E-05 2.3E-10 62.3 6.2 52 38-93 2-53 (910)
242 KOG0743|consensus 98.1 4.1E-06 9E-11 59.6 3.7 24 35-58 236-259 (457)
243 PRK14086 dnaA chromosomal repl 98.1 1.5E-05 3.3E-10 59.0 6.7 37 36-77 316-352 (617)
244 KOG0342|consensus 98.1 6.9E-06 1.5E-10 59.0 4.7 77 16-93 101-178 (543)
245 PRK00080 ruvB Holliday junctio 98.1 9.5E-06 2.1E-10 55.8 5.3 43 16-58 25-75 (328)
246 PF13173 AAA_14: AAA domain 98.1 2E-05 4.3E-10 47.3 6.0 41 34-82 2-42 (128)
247 cd00983 recA RecA is a bacter 98.1 1.4E-05 3.1E-10 55.2 5.9 38 34-78 55-92 (325)
248 KOG0920|consensus 98.1 1.6E-05 3.4E-10 61.1 6.6 72 15-91 169-241 (924)
249 PF12846 AAA_10: AAA-like doma 98.0 1.1E-05 2.3E-10 53.9 5.2 40 34-80 1-40 (304)
250 PRK13531 regulatory ATPase Rav 98.0 7.4E-06 1.6E-10 59.2 4.5 29 32-60 37-65 (498)
251 TIGR01241 FtsH_fam ATP-depende 98.0 1.1E-05 2.5E-10 58.3 5.6 24 35-58 89-112 (495)
252 PF00437 T2SE: Type II/IV secr 98.0 8.6E-06 1.9E-10 54.5 4.6 39 23-61 115-154 (270)
253 TIGR01420 pilT_fam pilus retra 98.0 7.3E-06 1.6E-10 56.9 4.4 28 33-60 121-148 (343)
254 PRK14530 adenylate kinase; Pro 98.0 5.6E-06 1.2E-10 53.8 3.6 25 34-58 3-27 (215)
255 cd01125 repA Hexameric Replica 98.0 1.5E-05 3.2E-10 52.6 5.6 58 35-93 2-64 (239)
256 KOG0348|consensus 98.0 3.2E-05 6.9E-10 56.5 7.5 76 19-94 159-236 (708)
257 PRK03992 proteasome-activating 98.0 1.6E-05 3.6E-10 56.0 6.0 24 35-58 166-189 (389)
258 COG0593 DnaA ATPase involved i 98.0 6E-05 1.3E-09 53.5 8.7 38 35-77 114-151 (408)
259 PRK00771 signal recognition pa 98.0 2.8E-05 6.1E-10 55.7 7.0 35 36-77 97-131 (437)
260 PF00910 RNA_helicase: RNA hel 98.0 7.1E-06 1.5E-10 47.9 3.4 25 37-61 1-25 (107)
261 PF01078 Mg_chelatase: Magnesi 98.0 1.3E-05 2.9E-10 52.1 4.9 36 22-57 9-45 (206)
262 PRK10867 signal recognition pa 98.0 2.7E-05 5.9E-10 55.7 6.9 36 36-77 102-137 (433)
263 PRK03839 putative kinase; Prov 98.0 6.3E-06 1.4E-10 52.0 3.4 23 36-58 2-24 (180)
264 TIGR01425 SRP54_euk signal rec 98.0 2.2E-05 4.7E-10 56.1 6.3 35 36-77 102-136 (429)
265 PF03266 NTPase_1: NTPase; In 98.0 7.1E-06 1.5E-10 51.8 3.5 26 36-61 1-26 (168)
266 cd02019 NK Nucleoside/nucleoti 98.0 2.1E-05 4.5E-10 42.5 4.9 22 37-58 2-23 (69)
267 CHL00195 ycf46 Ycf46; Provisio 98.0 2.3E-05 4.9E-10 56.9 6.4 24 35-58 260-283 (489)
268 KOG0947|consensus 98.0 3.3E-05 7.2E-10 59.5 7.4 75 15-96 293-367 (1248)
269 PRK00131 aroK shikimate kinase 98.0 8E-06 1.7E-10 50.7 3.6 25 34-58 4-28 (175)
270 PRK00440 rfc replication facto 98.0 1.9E-05 4.1E-10 53.6 5.7 44 18-61 19-65 (319)
271 TIGR01360 aden_kin_iso1 adenyl 98.0 7.2E-06 1.6E-10 51.7 3.4 23 35-57 4-26 (188)
272 PRK05541 adenylylsulfate kinas 98.0 1.7E-05 3.8E-10 49.8 5.1 28 34-61 7-34 (176)
273 cd00544 CobU Adenosylcobinamid 98.0 1.7E-05 3.8E-10 50.1 5.1 46 37-92 2-47 (169)
274 TIGR01359 UMP_CMP_kin_fam UMP- 98.0 6.9E-06 1.5E-10 51.8 3.3 22 37-58 2-23 (183)
275 COG0563 Adk Adenylate kinase a 98.0 7.2E-06 1.6E-10 52.2 3.3 22 36-57 2-23 (178)
276 PRK06762 hypothetical protein; 98.0 2.7E-05 5.9E-10 48.4 5.9 24 35-58 3-26 (166)
277 smart00763 AAA_PrkA PrkA AAA d 98.0 1.6E-05 3.5E-10 55.6 5.2 42 20-61 56-105 (361)
278 PRK00889 adenylylsulfate kinas 98.0 1.7E-05 3.6E-10 49.8 4.9 28 34-61 4-31 (175)
279 KOG0340|consensus 98.0 2.8E-05 6E-10 54.3 6.2 73 17-94 27-100 (442)
280 PRK13851 type IV secretion sys 98.0 1.2E-05 2.6E-10 56.0 4.4 36 24-59 151-187 (344)
281 COG1125 OpuBA ABC-type proline 98.0 2.9E-06 6.3E-11 57.0 1.3 38 33-77 26-63 (309)
282 TIGR02322 phosphon_PhnN phosph 98.0 8.1E-06 1.8E-10 51.4 3.3 24 35-58 2-25 (179)
283 PRK07261 topology modulation p 98.0 8.7E-06 1.9E-10 51.3 3.4 23 36-58 2-24 (171)
284 PTZ00454 26S protease regulato 98.0 1.6E-05 3.4E-10 56.4 5.0 24 35-58 180-203 (398)
285 PRK14532 adenylate kinase; Pro 98.0 7.5E-06 1.6E-10 52.0 3.0 22 36-57 2-23 (188)
286 TIGR00963 secA preprotein tran 98.0 6.4E-05 1.4E-09 56.8 8.2 69 17-94 54-122 (745)
287 TIGR00959 ffh signal recogniti 98.0 3.9E-05 8.4E-10 54.9 6.8 36 36-77 101-136 (428)
288 PRK14531 adenylate kinase; Pro 97.9 1E-05 2.3E-10 51.3 3.6 24 35-58 3-26 (183)
289 PF03205 MobB: Molybdopterin g 97.9 1.7E-05 3.8E-10 48.6 4.4 35 36-77 2-36 (140)
290 COG1618 Predicted nucleotide k 97.9 1.3E-05 2.9E-10 50.4 3.9 26 36-61 7-32 (179)
291 cd01428 ADK Adenylate kinase ( 97.9 9.4E-06 2E-10 51.4 3.2 22 36-57 1-22 (194)
292 TIGR03574 selen_PSTK L-seryl-t 97.9 3.6E-05 7.8E-10 51.0 6.1 25 37-61 2-26 (249)
293 PRK12723 flagellar biosynthesi 97.9 4.4E-05 9.4E-10 54.0 6.8 40 35-77 175-214 (388)
294 PF03029 ATP_bind_1: Conserved 97.9 1E-05 2.3E-10 53.6 3.5 23 39-61 1-23 (238)
295 PRK06851 hypothetical protein; 97.9 1.2E-05 2.5E-10 56.5 3.8 28 34-61 30-57 (367)
296 TIGR00150 HI0065_YjeE ATPase, 97.9 1.9E-05 4.2E-10 48.1 4.2 27 34-60 22-48 (133)
297 PTZ00361 26 proteosome regulat 97.9 2.2E-05 4.8E-10 56.2 5.2 24 35-58 218-241 (438)
298 TIGR00764 lon_rel lon-related 97.9 3.3E-05 7.1E-10 57.4 6.2 29 33-61 36-64 (608)
299 PRK09354 recA recombinase A; P 97.9 3.1E-05 6.7E-10 54.0 5.7 37 34-77 60-96 (349)
300 PRK08233 hypothetical protein; 97.9 9E-06 1.9E-10 51.0 2.8 24 35-58 4-27 (182)
301 COG0714 MoxR-like ATPases [Gen 97.9 3.3E-05 7.1E-10 53.2 5.8 30 30-59 39-68 (329)
302 PF07724 AAA_2: AAA domain (Cd 97.9 1.8E-05 4E-10 50.0 4.2 25 35-59 4-28 (171)
303 PF04665 Pox_A32: Poxvirus A32 97.9 1.8E-05 3.9E-10 52.6 4.3 35 36-77 15-49 (241)
304 TIGR01313 therm_gnt_kin carboh 97.9 8.8E-06 1.9E-10 50.5 2.7 22 37-58 1-22 (163)
305 PRK06995 flhF flagellar biosyn 97.9 3.3E-05 7.2E-10 55.9 6.0 39 34-77 256-294 (484)
306 PRK13900 type IV secretion sys 97.9 2.2E-05 4.7E-10 54.5 4.8 34 26-59 151-185 (332)
307 CHL00095 clpC Clp protease ATP 97.9 6.4E-05 1.4E-09 57.6 7.7 41 21-61 184-227 (821)
308 COG1203 CRISPR-associated heli 97.9 9E-05 2E-09 56.1 8.4 71 20-94 196-271 (733)
309 PRK12724 flagellar biosynthesi 97.9 2.2E-05 4.8E-10 56.0 4.9 37 35-77 224-260 (432)
310 cd00227 CPT Chloramphenicol (C 97.9 1.4E-05 3.1E-10 50.3 3.6 25 34-58 2-26 (175)
311 TIGR01242 26Sp45 26S proteasom 97.9 1E-05 2.2E-10 56.4 3.1 23 36-58 158-180 (364)
312 PRK09200 preprotein translocas 97.9 0.00011 2.4E-09 56.0 8.8 69 17-94 76-144 (790)
313 cd01123 Rad51_DMC1_radA Rad51_ 97.9 3E-05 6.5E-10 50.7 5.2 44 34-78 19-62 (235)
314 PRK13947 shikimate kinase; Pro 97.9 1.3E-05 2.9E-10 49.9 3.3 23 36-58 3-25 (171)
315 PRK13341 recombination factor 97.9 2.9E-05 6.4E-10 58.7 5.6 24 35-58 53-76 (725)
316 TIGR00750 lao LAO/AO transport 97.9 2.7E-05 5.8E-10 53.2 5.0 28 34-61 34-61 (300)
317 KOG0338|consensus 97.9 3.2E-05 7E-10 56.3 5.5 75 16-92 200-275 (691)
318 TIGR03689 pup_AAA proteasome A 97.9 1.2E-05 2.5E-10 58.6 3.3 26 35-60 217-242 (512)
319 cd02028 UMPK_like Uridine mono 97.9 4.1E-05 8.9E-10 48.6 5.4 25 37-61 2-26 (179)
320 TIGR00665 DnaB replicative DNA 97.9 4.3E-05 9.3E-10 54.4 6.1 51 34-91 195-245 (434)
321 PRK13764 ATPase; Provisional 97.9 2.3E-05 5E-10 58.1 4.8 29 33-61 256-284 (602)
322 cd00464 SK Shikimate kinase (S 97.9 1.6E-05 3.5E-10 48.5 3.5 23 36-58 1-23 (154)
323 KOG3347|consensus 97.9 1.5E-05 3.3E-10 49.6 3.3 25 33-57 6-30 (176)
324 COG2255 RuvB Holliday junction 97.9 3.1E-05 6.7E-10 52.8 5.0 27 35-61 53-79 (332)
325 PTZ00301 uridine kinase; Provi 97.9 3E-05 6.5E-10 50.6 4.8 26 36-61 5-30 (210)
326 cd01393 recA_like RecA is a b 97.9 3E-05 6.6E-10 50.3 4.9 44 34-78 19-62 (226)
327 PRK06851 hypothetical protein; 97.9 2.5E-05 5.4E-10 54.8 4.7 28 34-61 214-241 (367)
328 PRK12608 transcription termina 97.9 3.6E-05 7.8E-10 54.2 5.3 37 25-61 121-160 (380)
329 PF03308 ArgK: ArgK protein; 97.9 2.5E-05 5.4E-10 52.4 4.3 47 23-76 14-64 (266)
330 COG1197 Mfd Transcription-repa 97.9 0.00014 2.9E-09 57.0 8.7 74 15-95 590-669 (1139)
331 PF05673 DUF815: Protein of un 97.9 0.00011 2.3E-09 49.1 7.2 41 21-61 32-79 (249)
332 PRK12727 flagellar biosynthesi 97.9 6.1E-05 1.3E-09 55.2 6.4 38 34-76 350-387 (559)
333 PF01583 APS_kinase: Adenylyls 97.8 3.8E-05 8.2E-10 48.0 4.7 33 36-75 4-36 (156)
334 KOG0739|consensus 97.8 3.7E-05 8.1E-10 53.0 5.0 40 36-86 168-207 (439)
335 TIGR02639 ClpA ATP-dependent C 97.8 0.00011 2.3E-09 55.7 7.9 28 34-61 203-230 (731)
336 PF13521 AAA_28: AAA domain; P 97.8 1.5E-05 3.2E-10 49.6 2.8 22 36-57 1-22 (163)
337 PRK02496 adk adenylate kinase; 97.8 1.9E-05 4.1E-10 50.0 3.4 23 36-58 3-25 (184)
338 TIGR00176 mobB molybdopterin-g 97.8 4.9E-05 1.1E-09 47.3 5.1 25 37-61 2-26 (155)
339 PRK13768 GTPase; Provisional 97.8 3.6E-05 7.9E-10 51.4 4.8 33 36-75 4-36 (253)
340 PRK06217 hypothetical protein; 97.8 1.7E-05 3.6E-10 50.3 3.0 23 36-58 3-25 (183)
341 COG3839 MalK ABC-type sugar tr 97.8 1.3E-05 2.9E-10 55.6 2.7 24 33-56 28-51 (338)
342 KOG0350|consensus 97.8 4.8E-05 1E-09 55.1 5.5 74 19-95 159-241 (620)
343 cd02021 GntK Gluconate kinase 97.8 1.7E-05 3.7E-10 48.5 3.0 21 37-57 2-22 (150)
344 PRK14528 adenylate kinase; Pro 97.8 2.1E-05 4.6E-10 50.1 3.5 23 35-57 2-24 (186)
345 COG1102 Cmk Cytidylate kinase 97.8 1.8E-05 3.8E-10 49.8 2.9 22 37-58 3-24 (179)
346 TIGR01351 adk adenylate kinase 97.8 1.9E-05 4.1E-10 51.1 3.2 22 36-57 1-22 (210)
347 KOG0343|consensus 97.8 3.1E-05 6.8E-10 56.8 4.6 78 16-94 88-166 (758)
348 PLN00020 ribulose bisphosphate 97.8 3E-05 6.5E-10 54.7 4.3 23 36-58 150-172 (413)
349 COG4088 Predicted nucleotide k 97.8 2.1E-05 4.5E-10 51.5 3.3 27 36-62 3-29 (261)
350 COG3842 PotA ABC-type spermidi 97.8 1.5E-05 3.2E-10 55.6 2.8 25 33-57 30-54 (352)
351 PRK14527 adenylate kinase; Pro 97.8 2.3E-05 5E-10 50.0 3.5 23 34-56 6-28 (191)
352 KOG0327|consensus 97.8 1.2E-05 2.6E-10 56.2 2.3 74 17-94 46-119 (397)
353 COG1223 Predicted ATPase (AAA+ 97.8 1.2E-05 2.5E-10 54.5 2.2 24 35-58 152-175 (368)
354 PRK10078 ribose 1,5-bisphospho 97.8 1.8E-05 4E-10 50.3 3.0 25 34-58 2-26 (186)
355 PRK05480 uridine/cytidine kina 97.8 4.1E-05 8.9E-10 49.4 4.7 25 34-58 6-30 (209)
356 PHA02624 large T antigen; Prov 97.8 2.9E-05 6.2E-10 57.5 4.3 25 34-58 431-455 (647)
357 cd02023 UMPK Uridine monophosp 97.8 4.4E-05 9.4E-10 48.8 4.7 22 37-58 2-23 (198)
358 PRK06696 uridine kinase; Valid 97.8 4.4E-05 9.5E-10 49.9 4.8 26 36-61 24-49 (223)
359 cd02027 APSK Adenosine 5'-phos 97.8 5.7E-05 1.2E-09 46.6 5.0 25 37-61 2-26 (149)
360 PF13555 AAA_29: P-loop contai 97.8 3.3E-05 7.2E-10 41.1 3.4 27 35-61 24-50 (62)
361 PRK14962 DNA polymerase III su 97.8 4.5E-05 9.7E-10 55.2 5.1 24 37-60 39-62 (472)
362 PF06309 Torsin: Torsin; Inte 97.8 0.00015 3.2E-09 43.8 6.5 26 37-62 56-81 (127)
363 PRK07667 uridine kinase; Provi 97.8 5.6E-05 1.2E-09 48.4 5.1 26 36-61 19-44 (193)
364 COG1126 GlnQ ABC-type polar am 97.8 7.3E-06 1.6E-10 53.8 0.9 22 33-54 27-48 (240)
365 COG1702 PhoH Phosphate starvat 97.8 4E-05 8.6E-10 53.1 4.5 56 17-77 126-181 (348)
366 TIGR00041 DTMP_kinase thymidyl 97.8 5.6E-05 1.2E-09 48.1 5.0 28 34-61 3-30 (195)
367 PRK13949 shikimate kinase; Pro 97.8 2.3E-05 5.1E-10 49.3 3.2 23 36-58 3-25 (169)
368 PRK04914 ATP-dependent helicas 97.8 0.00024 5.3E-09 55.2 9.2 72 16-93 149-222 (956)
369 COG1136 SalX ABC-type antimicr 97.8 2E-05 4.4E-10 51.9 3.0 28 33-61 30-57 (226)
370 cd02025 PanK Pantothenate kina 97.8 5.1E-05 1.1E-09 49.7 4.9 24 37-60 2-25 (220)
371 COG4962 CpaF Flp pilus assembl 97.8 6.2E-05 1.4E-09 52.3 5.4 41 18-58 156-197 (355)
372 PRK14961 DNA polymerase III su 97.8 4E-05 8.8E-10 53.6 4.6 24 36-59 40-63 (363)
373 TIGR03600 phage_DnaB phage rep 97.8 8.4E-05 1.8E-09 52.8 6.2 50 34-90 194-243 (421)
374 PF00406 ADK: Adenylate kinase 97.8 2.2E-05 4.7E-10 48.2 2.9 20 39-58 1-20 (151)
375 cd01983 Fer4_NifH The Fer4_Nif 97.8 7.4E-05 1.6E-09 41.6 4.9 25 37-61 2-26 (99)
376 TIGR03263 guanyl_kin guanylate 97.8 2.2E-05 4.8E-10 49.3 3.0 24 35-58 2-25 (180)
377 KOG0923|consensus 97.8 6.5E-05 1.4E-09 56.2 5.7 70 17-92 263-333 (902)
378 PLN03142 Probable chromatin-re 97.8 0.00019 4.2E-09 56.1 8.5 72 18-94 168-243 (1033)
379 PLN02200 adenylate kinase fami 97.8 2.6E-05 5.6E-10 51.6 3.3 23 36-58 45-67 (234)
380 KOG0334|consensus 97.8 5.7E-05 1.2E-09 58.2 5.5 77 18-94 386-463 (997)
381 PLN02165 adenylate isopentenyl 97.8 1.7E-05 3.7E-10 55.0 2.5 26 33-58 42-67 (334)
382 cd02020 CMPK Cytidine monophos 97.8 3.1E-05 6.8E-10 46.8 3.4 22 37-58 2-23 (147)
383 KOG0344|consensus 97.8 0.00015 3.2E-09 53.2 7.3 74 20-93 159-233 (593)
384 COG0552 FtsY Signal recognitio 97.8 9.9E-05 2.1E-09 51.1 6.1 45 36-87 141-188 (340)
385 PRK09087 hypothetical protein; 97.8 2.9E-05 6.2E-10 51.1 3.4 22 35-56 45-66 (226)
386 PF03796 DnaB_C: DnaB-like hel 97.8 9.6E-05 2.1E-09 49.2 6.0 49 34-89 19-67 (259)
387 PRK04040 adenylate kinase; Pro 97.8 2.8E-05 6E-10 49.9 3.2 23 36-58 4-26 (188)
388 KOG0346|consensus 97.8 0.00015 3.2E-09 52.1 7.0 74 19-92 41-116 (569)
389 KOG0733|consensus 97.8 5.2E-05 1.1E-09 56.3 4.9 24 35-58 224-247 (802)
390 PRK00279 adk adenylate kinase; 97.8 3E-05 6.4E-10 50.4 3.4 23 36-58 2-24 (215)
391 PF01935 DUF87: Domain of unkn 97.8 6.2E-05 1.3E-09 49.1 4.8 41 34-80 23-63 (229)
392 PTZ00088 adenylate kinase 1; P 97.8 3.1E-05 6.7E-10 51.1 3.4 23 36-58 8-30 (229)
393 PRK05748 replicative DNA helic 97.8 9.2E-05 2E-09 53.1 6.0 50 34-90 203-252 (448)
394 PRK05342 clpX ATP-dependent pr 97.7 3.2E-05 7E-10 55.0 3.6 24 35-58 109-132 (412)
395 PRK10865 protein disaggregatio 97.7 0.00015 3.2E-09 55.9 7.4 28 34-61 199-226 (857)
396 PRK00625 shikimate kinase; Pro 97.7 3.4E-05 7.4E-10 48.9 3.4 23 36-58 2-24 (173)
397 cd03114 ArgK-like The function 97.7 7.2E-05 1.6E-09 46.2 4.7 25 37-61 2-26 (148)
398 PRK06547 hypothetical protein; 97.7 6.9E-05 1.5E-09 47.4 4.7 23 36-58 17-39 (172)
399 COG0466 Lon ATP-dependent Lon 97.7 0.00012 2.7E-09 55.0 6.6 46 16-61 324-377 (782)
400 PRK00300 gmk guanylate kinase; 97.7 2.9E-05 6.2E-10 49.8 3.0 26 33-58 4-29 (205)
401 COG0606 Predicted ATPase with 97.7 4.3E-05 9.3E-10 55.0 4.1 31 24-54 187-218 (490)
402 PRK09435 membrane ATPase/prote 97.7 6.6E-05 1.4E-09 52.1 4.9 34 36-76 58-91 (332)
403 KOG0727|consensus 97.7 5.1E-05 1.1E-09 51.4 4.2 22 35-56 190-211 (408)
404 PF00485 PRK: Phosphoribulokin 97.7 3.4E-05 7.3E-10 49.4 3.3 25 37-61 2-26 (194)
405 cd01672 TMPK Thymidine monopho 97.7 8.1E-05 1.8E-09 47.0 5.0 26 36-61 2-27 (200)
406 TIGR00235 udk uridine kinase. 97.7 3.1E-05 6.6E-10 50.0 3.1 25 34-58 6-30 (207)
407 TIGR01243 CDC48 AAA family ATP 97.7 0.0001 2.3E-09 55.7 6.3 24 35-58 213-236 (733)
408 KOG1970|consensus 97.7 4.1E-05 8.9E-10 56.0 3.9 43 18-60 84-136 (634)
409 PF06068 TIP49: TIP49 C-termin 97.7 2.3E-05 5.1E-10 55.0 2.5 26 34-59 50-75 (398)
410 COG1120 FepC ABC-type cobalami 97.7 2.4E-05 5.1E-10 52.5 2.5 27 33-59 27-53 (258)
411 PF12775 AAA_7: P-loop contain 97.7 3.2E-05 6.9E-10 52.3 3.1 26 33-58 32-57 (272)
412 COG1116 TauB ABC-type nitrate/ 97.7 3.7E-05 8.1E-10 51.2 3.1 26 33-58 28-53 (248)
413 PRK08506 replicative DNA helic 97.7 0.00015 3.2E-09 52.5 6.4 50 34-91 192-241 (472)
414 COG1219 ClpX ATP-dependent pro 97.7 3.8E-05 8.2E-10 53.2 3.2 27 34-60 97-123 (408)
415 KOG0738|consensus 97.7 3.3E-05 7.2E-10 54.6 3.0 24 35-58 246-269 (491)
416 TIGR02788 VirB11 P-type DNA tr 97.7 6E-05 1.3E-09 51.6 4.2 32 27-58 136-168 (308)
417 PRK13765 ATP-dependent proteas 97.7 0.00012 2.7E-09 54.6 6.1 29 33-61 49-77 (637)
418 COG1066 Sms Predicted ATP-depe 97.7 0.00014 3.1E-09 51.7 6.1 60 25-93 79-143 (456)
419 PRK04301 radA DNA repair and r 97.7 0.0001 2.2E-09 50.7 5.3 56 34-90 102-158 (317)
420 cd01128 rho_factor Transcripti 97.7 7.1E-05 1.5E-09 50.0 4.4 29 32-60 14-42 (249)
421 PRK09825 idnK D-gluconate kina 97.7 4.5E-05 9.8E-10 48.4 3.3 25 34-58 3-27 (176)
422 PRK08760 replicative DNA helic 97.7 0.00014 3E-09 52.7 6.1 52 34-92 229-280 (476)
423 PRK03846 adenylylsulfate kinas 97.7 9.9E-05 2.1E-09 47.4 4.9 41 20-61 11-51 (198)
424 PRK05057 aroK shikimate kinase 97.7 4.9E-05 1.1E-09 48.0 3.4 25 34-58 4-28 (172)
425 cd02034 CooC The accessory pro 97.7 0.00013 2.9E-09 43.3 5.0 34 37-77 2-35 (116)
426 PF10412 TrwB_AAD_bind: Type I 97.7 9.6E-05 2.1E-09 52.1 5.2 47 34-87 15-61 (386)
427 PRK08154 anaerobic benzoate ca 97.7 0.00012 2.5E-09 50.3 5.4 40 19-58 107-157 (309)
428 PF02492 cobW: CobW/HypB/UreG, 97.7 9.3E-05 2E-09 46.8 4.6 35 35-77 1-35 (178)
429 COG1224 TIP49 DNA helicase TIP 97.7 4.7E-05 1E-09 53.4 3.5 26 34-59 65-90 (450)
430 KOG1533|consensus 97.7 5E-05 1.1E-09 50.6 3.4 25 37-61 5-29 (290)
431 TIGR03346 chaperone_ClpB ATP-d 97.7 0.00021 4.6E-09 55.0 7.3 27 35-61 195-221 (852)
432 PHA02530 pseT polynucleotide k 97.7 3.6E-05 7.9E-10 52.1 2.9 23 36-58 4-26 (300)
433 TIGR01243 CDC48 AAA family ATP 97.7 0.00013 2.7E-09 55.3 6.0 23 36-58 489-511 (733)
434 COG0470 HolB ATPase involved i 97.7 0.00021 4.5E-09 48.5 6.5 27 35-61 24-51 (325)
435 KOG0733|consensus 97.7 1.6E-05 3.5E-10 58.9 1.1 24 35-58 546-569 (802)
436 KOG0741|consensus 97.7 4.1E-05 8.8E-10 56.1 3.1 26 36-61 258-283 (744)
437 COG4098 comFA Superfamily II D 97.7 0.0003 6.6E-09 49.2 7.1 70 18-94 96-169 (441)
438 CHL00176 ftsH cell division pr 97.7 5E-05 1.1E-09 56.7 3.6 23 36-58 218-240 (638)
439 COG3854 SpoIIIAA ncharacterize 97.7 0.00011 2.3E-09 49.1 4.7 44 36-81 139-182 (308)
440 TIGR00382 clpX endopeptidase C 97.6 4.8E-05 1E-09 54.2 3.3 24 35-58 117-140 (413)
441 PF07726 AAA_3: ATPase family 97.6 2.7E-05 5.9E-10 47.2 1.7 23 37-59 2-24 (131)
442 PRK09376 rho transcription ter 97.6 0.00012 2.6E-09 52.0 5.2 29 33-61 168-196 (416)
443 PRK14956 DNA polymerase III su 97.6 8E-05 1.7E-09 53.9 4.4 26 36-61 42-67 (484)
444 COG1875 NYN ribonuclease and A 97.6 0.00023 5.1E-09 50.1 6.5 56 18-77 227-284 (436)
445 KOG0329|consensus 97.6 4.4E-05 9.5E-10 51.5 2.7 70 19-93 64-134 (387)
446 PRK10751 molybdopterin-guanine 97.6 0.00012 2.6E-09 46.5 4.6 27 35-61 7-33 (173)
447 TIGR03575 selen_PSTK_euk L-ser 97.6 8.1E-05 1.8E-09 51.8 4.1 38 37-80 2-39 (340)
448 PRK15453 phosphoribulokinase; 97.6 0.00013 2.8E-09 49.7 5.0 26 34-59 5-30 (290)
449 TIGR02236 recomb_radA DNA repa 97.6 0.00013 2.9E-09 49.8 5.1 26 34-59 95-120 (310)
450 COG1936 Predicted nucleotide k 97.6 5E-05 1.1E-09 48.2 2.8 20 36-55 2-21 (180)
451 PRK14723 flhF flagellar biosyn 97.6 0.00023 4.9E-09 54.2 6.7 38 35-77 186-223 (767)
452 TIGR00763 lon ATP-dependent pr 97.6 5.8E-05 1.3E-09 57.4 3.6 24 35-58 348-371 (775)
453 PF00158 Sigma54_activat: Sigm 97.6 0.00024 5.1E-09 44.8 5.8 25 34-58 22-46 (168)
454 cd01127 TrwB Bacterial conjuga 97.6 0.00015 3.2E-09 51.5 5.4 45 34-85 42-86 (410)
455 cd00820 PEPCK_HprK Phosphoenol 97.6 5.3E-05 1.2E-09 44.5 2.7 22 34-55 15-36 (107)
456 PHA02774 E1; Provisional 97.6 0.0001 2.2E-09 54.5 4.7 24 35-58 435-458 (613)
457 PRK14526 adenylate kinase; Pro 97.6 6.6E-05 1.4E-09 49.0 3.3 22 36-57 2-23 (211)
458 PF02367 UPF0079: Uncharacteri 97.6 7.9E-05 1.7E-09 44.9 3.4 27 33-59 14-40 (123)
459 PF02399 Herpes_ori_bp: Origin 97.6 0.0002 4.2E-09 54.6 6.1 54 34-93 49-102 (824)
460 PRK05595 replicative DNA helic 97.6 0.00021 4.5E-09 51.3 6.1 51 34-91 201-251 (444)
461 TIGR00602 rad24 checkpoint pro 97.6 0.00012 2.5E-09 54.7 4.9 45 16-60 84-136 (637)
462 PRK11034 clpA ATP-dependent Cl 97.6 0.00028 6.1E-09 53.7 7.0 28 34-61 207-234 (758)
463 PRK06645 DNA polymerase III su 97.6 0.00015 3.2E-09 53.0 5.4 27 35-61 44-70 (507)
464 TIGR00390 hslU ATP-dependent p 97.6 7.2E-05 1.6E-09 53.5 3.6 24 35-58 48-71 (441)
465 PRK14529 adenylate kinase; Pro 97.6 7.3E-05 1.6E-09 49.2 3.4 23 36-58 2-24 (223)
466 KOG0951|consensus 97.6 0.00042 9.2E-09 55.0 7.9 76 18-93 308-388 (1674)
467 cd00071 GMPK Guanosine monopho 97.6 6.6E-05 1.4E-09 45.7 3.0 22 37-58 2-23 (137)
468 PLN02674 adenylate kinase 97.6 6.8E-05 1.5E-09 50.0 3.2 23 35-57 32-54 (244)
469 TIGR00455 apsK adenylylsulfate 97.6 0.00028 6.1E-09 44.6 5.9 29 33-61 17-45 (184)
470 PHA02542 41 41 helicase; Provi 97.6 0.00024 5.2E-09 51.5 6.2 37 34-77 190-226 (473)
471 COG1703 ArgK Putative periplas 97.6 0.00011 2.3E-09 50.4 4.1 45 25-76 38-86 (323)
472 COG2874 FlaH Predicted ATPases 97.6 0.00036 7.8E-09 45.8 6.4 54 35-96 29-82 (235)
473 PF00005 ABC_tran: ABC transpo 97.6 5.5E-05 1.2E-09 45.4 2.5 26 33-58 10-35 (137)
474 PRK00698 tmk thymidylate kinas 97.6 0.00018 4E-09 45.8 5.0 28 34-61 3-30 (205)
475 KOG0730|consensus 97.6 3.7E-05 8.1E-10 57.1 2.0 59 35-93 469-527 (693)
476 KOG0736|consensus 97.6 5.3E-05 1.2E-09 57.4 2.8 24 35-58 706-729 (953)
477 PF00931 NB-ARC: NB-ARC domain 97.6 0.00012 2.6E-09 48.9 4.3 25 35-59 20-44 (287)
478 PRK14738 gmk guanylate kinase; 97.6 6.9E-05 1.5E-09 48.5 3.0 23 34-56 13-35 (206)
479 TIGR00767 rho transcription te 97.6 0.00016 3.5E-09 51.4 5.0 29 33-61 167-195 (415)
480 TIGR03819 heli_sec_ATPase heli 97.6 0.00016 3.4E-09 50.4 4.9 39 20-58 163-202 (340)
481 KOG0734|consensus 97.6 9E-05 2E-09 54.5 3.8 22 35-56 338-359 (752)
482 PRK10865 protein disaggregatio 97.6 0.0002 4.3E-09 55.2 5.8 26 36-61 600-625 (857)
483 TIGR03345 VI_ClpV1 type VI sec 97.6 0.00038 8.3E-09 53.6 7.3 27 35-61 209-235 (852)
484 PRK01184 hypothetical protein; 97.6 7.4E-05 1.6E-09 47.2 3.0 17 36-52 3-19 (184)
485 COG0529 CysC Adenylylsulfate k 97.6 0.00025 5.4E-09 45.4 5.3 35 35-76 24-58 (197)
486 PRK14963 DNA polymerase III su 97.6 8.1E-05 1.8E-09 54.3 3.5 24 37-60 39-62 (504)
487 PRK13407 bchI magnesium chelat 97.6 0.00017 3.7E-09 50.1 4.9 24 35-58 30-53 (334)
488 COG3911 Predicted ATPase [Gene 97.6 7.6E-05 1.6E-09 46.6 2.8 23 34-56 9-31 (183)
489 COG0464 SpoVK ATPases of the A 97.6 6.2E-05 1.3E-09 54.4 2.8 23 36-58 278-300 (494)
490 PTZ00202 tuzin; Provisional 97.6 0.00072 1.6E-08 49.0 8.0 44 15-58 261-310 (550)
491 PF02374 ArsA_ATPase: Anion-tr 97.5 0.00033 7.1E-09 48.1 6.2 36 35-77 2-37 (305)
492 PRK03731 aroL shikimate kinase 97.5 0.00011 2.3E-09 45.9 3.5 24 35-58 3-26 (171)
493 PRK13946 shikimate kinase; Pro 97.5 0.0001 2.2E-09 46.9 3.4 26 33-58 9-34 (184)
494 PRK14737 gmk guanylate kinase; 97.5 8.2E-05 1.8E-09 47.6 3.0 25 34-58 4-28 (186)
495 PF08477 Miro: Miro-like prote 97.5 0.0001 2.3E-09 43.0 3.2 25 36-60 1-25 (119)
496 KOG0949|consensus 97.5 0.00043 9.3E-09 53.8 7.1 73 16-93 508-580 (1330)
497 PRK15455 PrkA family serine pr 97.5 0.0002 4.3E-09 53.1 5.2 45 17-61 78-130 (644)
498 PRK14493 putative bifunctional 97.5 0.0002 4.3E-09 48.5 4.9 26 36-61 3-28 (274)
499 PRK14721 flhF flagellar biosyn 97.5 0.00022 4.9E-09 50.9 5.4 27 34-60 191-217 (420)
500 PRK13975 thymidylate kinase; P 97.5 0.00011 2.4E-09 46.7 3.5 24 35-58 3-26 (196)
No 1
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.72 E-value=2.3e-17 Score=106.52 Aligned_cols=73 Identities=37% Similarity=0.465 Sum_probs=55.8
Q ss_pred CCCHHHHHHHHHHhcCCc-eEEeCCCCCchHHHHHHHHHHHHhch-hhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 19 GLNTIQFEAYKAALTREF-AIIQGPPGTGKTYVALRIVEGFLKNK-ELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~-~~v~Gp~GtGKT~~~~~~~~~~~~~~-~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
.||+.|++|+..+..... .+|+||||||||+++..++..+.+.. ......+.++|+++++|.+++++.+++.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 378999999999998876 99999999999999999998884210 00011588999999999999999999988
No 2
>KOG1803|consensus
Probab=99.66 E-value=2.6e-16 Score=113.18 Aligned_cols=74 Identities=32% Similarity=0.464 Sum_probs=65.4
Q ss_pred ccCCCCCHHHHHHHHHHhcC-CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 15 QEELGLNTIQFEAYKAALTR-EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~-~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.-...++..|.+|+..+... ...+|.||||||||+++..++.+++.+ +++||+|+|||.+++++.+++.-.+
T Consensus 181 ~~~~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~-------~k~VLVcaPSn~AVdNiverl~~~~ 253 (649)
T KOG1803|consen 181 FFNKNLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQ-------KKRVLVCAPSNVAVDNIVERLTHLK 253 (649)
T ss_pred cCCccccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHc-------CCeEEEEcCchHHHHHHHHHhcccc
Confidence 34567899999999998866 788999999999999999999999998 7999999999999999999977544
Q ss_pred cC
Q psy16285 94 QN 95 (97)
Q Consensus 94 ~~ 95 (97)
.+
T Consensus 254 ~~ 255 (649)
T KOG1803|consen 254 LN 255 (649)
T ss_pred cc
Confidence 33
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=99.63 E-value=1.9e-15 Score=111.13 Aligned_cols=69 Identities=32% Similarity=0.479 Sum_probs=62.8
Q ss_pred CCCCHHHHHHHHHHhcC-CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 18 LGLNTIQFEAYKAALTR-EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~-~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..+++.|.+++..+... +.++|.||||||||+++..++.++++. +.+||+++|||.|++++.+++.+.+
T Consensus 156 ~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~-------g~~VLv~a~sn~Avd~l~e~l~~~~ 225 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKR-------GLRVLVTAPSNIAVDNLLERLALCD 225 (637)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHc-------CCCEEEEcCcHHHHHHHHHHHHhCC
Confidence 57899999999998876 789999999999999999999998876 6699999999999999999998753
No 4
>KOG1802|consensus
Probab=99.62 E-value=1.3e-15 Score=110.92 Aligned_cols=79 Identities=37% Similarity=0.504 Sum_probs=71.2
Q ss_pred cccccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 12 ANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 12 ~~~~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
+....-..||..|..|++.+++++..+|+||||||||.+...|+.++.+. ...+||+++|+|.|+|++.+++.+
T Consensus 403 ~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~------~~~~VLvcApSNiAVDqLaeKIh~ 476 (935)
T KOG1802|consen 403 FSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ------HAGPVLVCAPSNIAVDQLAEKIHK 476 (935)
T ss_pred hcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHh------cCCceEEEcccchhHHHHHHHHHh
Confidence 34456677899999999999999999999999999999999999999988 588999999999999999999988
Q ss_pred hccCC
Q psy16285 92 YTQNT 96 (97)
Q Consensus 92 ~~~~~ 96 (97)
.+..+
T Consensus 477 tgLKV 481 (935)
T KOG1802|consen 477 TGLKV 481 (935)
T ss_pred cCceE
Confidence 77554
No 5
>PF13245 AAA_19: Part of AAA domain
Probab=99.61 E-value=4.3e-15 Score=82.49 Aligned_cols=60 Identities=30% Similarity=0.445 Sum_probs=47.9
Q ss_pred HHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 27 AYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 27 ~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
++..+.. ++.++|.||||||||+++..++..+...... .+++|++++|++.+++++.+++
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~---~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARAD---PGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcC---CCCeEEEECCCHHHHHHHHHHH
Confidence 4454444 6677789999999999988888888753211 3679999999999999999998
No 6
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.50 E-value=2.3e-13 Score=87.51 Aligned_cols=64 Identities=33% Similarity=0.409 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHHhcC--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 19 GLNTIQFEAYKAALTR--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
+|++.|.+++..+..+ +..+|+||||||||+++..+...+... +.++++++||+.++.++.++.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~-------g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAA-------GKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHT-------T--EEEEESSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhC-------CCeEEEECCcHHHHHHHHHhh
Confidence 4789999999998754 478889999999999988877777665 789999999999999988874
No 7
>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=99.47 E-value=2e-13 Score=91.73 Aligned_cols=69 Identities=22% Similarity=0.273 Sum_probs=57.5
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
|+++|.+++.. ..+.++|.|+||||||+++...+..++...+. ++.+||++++|+.++.++.+++.+..
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~---~~~~Il~lTft~~aa~e~~~ri~~~l 69 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGV---PPERILVLTFTNAAAQEMRERIRELL 69 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSS---TGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccC---ChHHheecccCHHHHHHHHHHHHHhc
Confidence 57889999886 67889999999999999998888888877532 57899999999999999999998864
No 8
>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=99.38 E-value=4e-12 Score=79.46 Aligned_cols=67 Identities=24% Similarity=0.391 Sum_probs=56.5
Q ss_pred CCCCHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 18 LGLNTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
+.|+++|.+++..+.+ .+.+++.+|+|+|||.++..++..+.. ++++++|+...++|+.+.+.
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----------~~l~~~p~~~l~~Q~~~~~~ 71 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----------KVLIVAPNISLLEQWYDEFD 71 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----------EEEEEESSHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----------ceeEecCHHHHHHHHHHHHH
Confidence 5689999999999884 578999999999999999987777744 69999999999999999996
Q ss_pred hhcc
Q psy16285 91 KYTQ 94 (97)
Q Consensus 91 ~~~~ 94 (97)
.+..
T Consensus 72 ~~~~ 75 (184)
T PF04851_consen 72 DFGS 75 (184)
T ss_dssp HHST
T ss_pred Hhhh
Confidence 5553
No 9
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.34 E-value=1.1e-11 Score=89.34 Aligned_cols=71 Identities=20% Similarity=0.401 Sum_probs=62.3
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...++++|.+++..+..+...++.+|+|+|||.++..++..+... ...++||++|+.+++.|+.+++.++.
T Consensus 112 ~~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~------~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLEN------YEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred cCCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhc------CCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 468999999999999988889999999999999987777666555 24489999999999999999999876
No 10
>KOG1805|consensus
Probab=99.34 E-value=3.7e-12 Score=95.81 Aligned_cols=73 Identities=29% Similarity=0.385 Sum_probs=65.7
Q ss_pred CCCCCHHHHHHHHHHhcC-CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 17 ELGLNTIQFEAYKAALTR-EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~-~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
...||..|++|+..+... ...+|.|-|||||||++..++..+... +++||+.++|+.|+++++.+|+.++..
T Consensus 667 ~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~-------gkkVLLtsyThsAVDNILiKL~~~~i~ 739 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVAL-------GKKVLLTSYTHSAVDNILIKLKGFGIY 739 (1100)
T ss_pred HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHc-------CCeEEEEehhhHHHHHHHHHHhccCcc
Confidence 447899999999998864 578999999999999999999999887 899999999999999999999988754
Q ss_pred C
Q psy16285 96 T 96 (97)
Q Consensus 96 ~ 96 (97)
+
T Consensus 740 ~ 740 (1100)
T KOG1805|consen 740 I 740 (1100)
T ss_pred e
Confidence 3
No 11
>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=99.34 E-value=1.8e-11 Score=75.87 Aligned_cols=70 Identities=26% Similarity=0.330 Sum_probs=58.4
Q ss_pred CHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 21 NTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 21 ~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
++.|.+++..+.+++++++.||+|+|||+.+...+...+.+. ...++++++|+..++.+..+++.+++..
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~-----~~~~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG-----KDARVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT-----SSSEEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC-----CCceEEEEeecccccccccccccccccc
Confidence 378999999999888999999999999998776655555441 2459999999999999999999998754
No 12
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.34 E-value=1.1e-11 Score=88.20 Aligned_cols=71 Identities=31% Similarity=0.384 Sum_probs=63.2
Q ss_pred cccCCCCCHHHHHHHHHHhc----CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 14 VQEELGLNTIQFEAYKAALT----REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 14 ~~~~~~l~~~Q~~~i~~~~~----~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
....+.++++|.++++.+.+ .+..+|..|||+|||.+++.++..+ ..++||++|+.++++||.+++
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~----------~~~~Lvlv~~~~L~~Qw~~~~ 100 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL----------KRSTLVLVPTKELLDQWAEAL 100 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHh----------cCCEEEEECcHHHHHHHHHHH
Confidence 45677899999999999998 7899999999999999999998887 555999999999999999888
Q ss_pred Hhhcc
Q psy16285 90 LKYTQ 94 (97)
Q Consensus 90 ~~~~~ 94 (97)
..+..
T Consensus 101 ~~~~~ 105 (442)
T COG1061 101 KKFLL 105 (442)
T ss_pred HHhcC
Confidence 87764
No 13
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.31 E-value=8.4e-12 Score=92.59 Aligned_cols=70 Identities=23% Similarity=0.231 Sum_probs=59.8
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.|++.|++++.. ..+.++|.|+||||||+++...+.+++..... ++.+||++++|+.|+.++.+++.+..
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v---~p~~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGY---QARHIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC---CHHHeeeEechHHHHHHHHHHHHHHh
Confidence 589999999875 35678899999999999999999999875322 47899999999999999999998764
No 14
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.31 E-value=4.5e-11 Score=74.71 Aligned_cols=74 Identities=28% Similarity=0.271 Sum_probs=62.3
Q ss_pred cCCCCCHHHHHHHHHHhcC-CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTR-EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~-~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
....+++.|.+++..+... ...++.||+|||||+++...+....... ...++++++|+..++.++.+.+.++..
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~-----~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRG-----KGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhccc-----CCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 4567899999999998888 8999999999999997666666665552 257899999999999999999987763
No 15
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.29 E-value=1.4e-11 Score=92.01 Aligned_cols=71 Identities=23% Similarity=0.244 Sum_probs=60.8
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.|++.|++++.. ..+.++|.|+||||||+++...+.+++..... ++.+||++++||.|+.++.+++.+...
T Consensus 9 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v---~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 9 SLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENA---SPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred hcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC---ChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 489999999874 35678999999999999999999999875333 578999999999999999999988653
No 16
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.28 E-value=1.1e-11 Score=92.38 Aligned_cols=71 Identities=25% Similarity=0.257 Sum_probs=61.0
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.|++.|++++.. ..+.++|.|+||||||+++...+.+++..... ++.+||++++||.|+.++.+++.+...
T Consensus 4 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v---~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 4 GLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENA---SPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred ccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC---CHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 489999999874 35678999999999999999999999875333 578999999999999999999988753
No 17
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.28 E-value=7.3e-12 Score=93.00 Aligned_cols=75 Identities=20% Similarity=0.214 Sum_probs=62.7
Q ss_pred cccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 14 VQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 14 ~~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..+..+|++.|++++.. ..+.++|.|+||||||+++...+.+++..... .+.+||++++++.++.++.+++.+..
T Consensus 191 ~~e~~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~---~~~~IL~ltft~~AA~em~eRL~~~l 265 (684)
T PRK11054 191 QVESSPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQA---QPEQILLLAFGRQAAEEMDERIRERL 265 (684)
T ss_pred hccCCCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCC---CHHHeEEEeccHHHHHHHHHHHHHhc
Confidence 34557899999999874 34568999999999999999999988876432 46799999999999999999998754
No 18
>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=99.28 E-value=3.2e-11 Score=88.30 Aligned_cols=69 Identities=29% Similarity=0.330 Sum_probs=58.1
Q ss_pred HHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 22 TIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 22 ~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++|+.++..+..+...+|+|+|||||||++..++..+.+..... ...+|++++||..|+.++.+.+...
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~--~~~~I~l~APTGkAA~rL~e~~~~~ 216 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQ--GKLRIALAAPTGKAAARLAESLRKA 216 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhcccc--CCCcEEEECCcHHHHHHHHHHHHhh
Confidence 78999999999999999999999999999999998887642100 1257999999999999999987653
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.27 E-value=2.7e-11 Score=89.08 Aligned_cols=69 Identities=28% Similarity=0.308 Sum_probs=58.6
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
..++|+.|+..+..++..+|+|+|||||||++..++..+.+.... +..+|++++||+.|+.++.+.+..
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~---~~~~i~l~APTgkAA~rL~e~~~~ 221 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADG---ERCRIRLAAPTGKAAARLTESLGK 221 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCC---CCcEEEEECCcHHHHHHHHHHHHh
Confidence 348999999999999999999999999999999999888664110 246799999999999999998764
No 20
>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=99.27 E-value=2.9e-11 Score=90.28 Aligned_cols=68 Identities=28% Similarity=0.278 Sum_probs=58.6
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
..+.+++.|++++..+..++..+|+|+||||||+++..++..+...+ +..++++++||..++.++.+.
T Consensus 320 ~~~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~-----~~~~v~l~ApTg~AA~~L~e~ 387 (720)
T TIGR01448 320 LRKGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELG-----GLLPVGLAAPTGRAAKRLGEV 387 (720)
T ss_pred cCCCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHHHcC-----CCceEEEEeCchHHHHHHHHh
Confidence 45789999999999999889999999999999999999988776651 126899999999999988764
No 21
>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=99.23 E-value=9.9e-11 Score=87.23 Aligned_cols=68 Identities=16% Similarity=0.266 Sum_probs=58.8
Q ss_pred cCCCCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
....++++|.+++..+... ++.+|..|+|+|||.++..++..+ .+++||+||+..+++||.+++.+|
T Consensus 252 ~~~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----------~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 252 PTTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----------KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred cCCCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----------CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 4577999999999998853 378999999999999988776654 567999999999999999999988
Q ss_pred c
Q psy16285 93 T 93 (97)
Q Consensus 93 ~ 93 (97)
.
T Consensus 322 ~ 322 (732)
T TIGR00603 322 S 322 (732)
T ss_pred c
Confidence 5
No 22
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.21 E-value=4.6e-11 Score=89.23 Aligned_cols=70 Identities=31% Similarity=0.329 Sum_probs=60.3
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.|++.|++++.. ..+.++|.|+||||||+++...+.+++..... .+.+||++++||.|+.++.+++.+..
T Consensus 4 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i---~P~~IL~lTFT~kAA~em~~Rl~~~~ 73 (726)
T TIGR01073 4 HLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNV---APWNILAITFTNKAAREMKERVEKLL 73 (726)
T ss_pred ccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCC---CHHHeeeeeccHHHHHHHHHHHHHHh
Confidence 489999999874 35679999999999999999999999875332 46899999999999999999998764
No 23
>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=99.20 E-value=2.7e-10 Score=72.85 Aligned_cols=74 Identities=24% Similarity=0.137 Sum_probs=58.8
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
..+++.|.+++..+.+++++++.+|+|+|||.+. ..++..+..... ..+.++++++|+..++.|+.+.++++..
T Consensus 20 ~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~---~~~~~viii~p~~~L~~q~~~~~~~~~~ 94 (203)
T cd00268 20 EKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPK---KDGPQALILAPTRELALQIAEVARKLGK 94 (203)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcc---cCCceEEEEcCCHHHHHHHHHHHHHHhc
Confidence 3578999999999999999999999999999873 444444443310 0356899999999999999999888753
No 24
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.20 E-value=8.2e-11 Score=87.05 Aligned_cols=69 Identities=28% Similarity=0.267 Sum_probs=58.7
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
|++.|++++.. ..+.++|.|+||||||+++...+..++..... ++.+||++++|+.++.++.+++.+..
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~---~p~~IL~vTFt~~Aa~em~~Rl~~~l 70 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGY---KARNIAAVTFTNKAAREMKERVAKTL 70 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC---CHHHeEEEeccHHHHHHHHHHHHHHh
Confidence 78999999874 35789999999999999999999888864222 47899999999999999999998754
No 25
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.17 E-value=3.3e-10 Score=80.14 Aligned_cols=78 Identities=24% Similarity=0.168 Sum_probs=59.2
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHH-HHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRI-VEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~-~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+...+++.|.+++..+.++..+++.+|||+|||..+... +..+...... .....++++++|+.+++.|+.+.+..+..
T Consensus 20 g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~-~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~ 98 (434)
T PRK11192 20 GYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRR-KSGPPRILILTPTRELAMQVADQARELAK 98 (434)
T ss_pred CCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhcccc-CCCCceEEEECCcHHHHHHHHHHHHHHHc
Confidence 445678999999999999999999999999999865433 3333322100 01246899999999999999998888753
No 26
>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=99.17 E-value=1.7e-10 Score=86.50 Aligned_cols=66 Identities=18% Similarity=0.262 Sum_probs=56.6
Q ss_pred cCCCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
..+.|++.|++++..+.. ++.++|+|+||||||+++..+...+... +.++++++||..++..+.+.
T Consensus 349 ~~~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~-------g~~V~~~ApTg~Aa~~L~~~ 415 (744)
T TIGR02768 349 QHYRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAA-------GYRVIGAALSGKAAEGLQAE 415 (744)
T ss_pred ccCCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhC-------CCeEEEEeCcHHHHHHHHhc
Confidence 357899999999999886 4688999999999999999887766554 78899999999999988753
No 27
>PRK08181 transposase; Validated
Probab=99.17 E-value=2.8e-10 Score=76.52 Aligned_cols=51 Identities=25% Similarity=0.318 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHH----hcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 19 GLNTIQFEAYKAA----LTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 19 ~l~~~Q~~~i~~~----~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.++..|..++..+ ..+.++++.|||||||||++.+++..+++. +.+++++.
T Consensus 87 ~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~-------g~~v~f~~ 141 (269)
T PRK08181 87 MVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIEN-------GWRVLFTR 141 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHc-------CCceeeee
Confidence 4567777777543 356789999999999999999999999877 67787776
No 28
>PTZ00424 helicase 45; Provisional
Probab=99.16 E-value=3.5e-10 Score=78.97 Aligned_cols=73 Identities=23% Similarity=0.102 Sum_probs=58.7
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...+++.|.+++..+.++...++.+|||+|||.++...+...+.... ...++++++|+.+++.|+.+.+..++
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~----~~~~~lil~Pt~~L~~Q~~~~~~~~~ 120 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDL----NACQALILAPTRELAQQIQKVVLALG 120 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCC----CCceEEEECCCHHHHHHHHHHHHHHh
Confidence 34589999999999999999999999999999876544444433211 35689999999999999998887775
No 29
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.15 E-value=3.6e-10 Score=84.13 Aligned_cols=73 Identities=21% Similarity=0.165 Sum_probs=61.8
Q ss_pred ccCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
.-.+.+++.|.+++..+..+ .+.+++||+|||||.++...+...+.. +.++++++||.+++.|..+.
T Consensus 257 ~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~-------g~q~lilaPT~~LA~Q~~~~ 329 (681)
T PRK10917 257 SLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA-------GYQAALMAPTEILAEQHYEN 329 (681)
T ss_pred hCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc-------CCeEEEEeccHHHHHHHHHH
Confidence 35678999999999998764 378999999999999877666655554 77899999999999999999
Q ss_pred HHhhcc
Q psy16285 89 VLKYTQ 94 (97)
Q Consensus 89 l~~~~~ 94 (97)
+.++..
T Consensus 330 l~~l~~ 335 (681)
T PRK10917 330 LKKLLE 335 (681)
T ss_pred HHHHHh
Confidence 998764
No 30
>KOG1807|consensus
Probab=99.14 E-value=1.2e-10 Score=86.46 Aligned_cols=76 Identities=43% Similarity=0.630 Sum_probs=65.2
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
.+...++..|+.|.......+..+++||||||||++...++..++.+.-.+ ....++++.|.||.+++|+..++..
T Consensus 374 ~g~~ildsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~-~~~epIlvvC~Tnhavdq~ligiy~ 449 (1025)
T KOG1807|consen 374 PGLVILDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGY-TEPEPILVVCLTNHAVDQYLIGIYY 449 (1025)
T ss_pred CCceeecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHHHHHHhccccc-ccccceeeeehhhHHHHHHHHHHHh
Confidence 355667889999999999999999999999999999999999998874111 1468999999999999999999875
No 31
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.14 E-value=5.7e-10 Score=79.54 Aligned_cols=73 Identities=21% Similarity=0.254 Sum_probs=57.6
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHH-HHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVAL-RIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~-~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+...+++.|.+++..+.++..+++.+|||||||.... .++..+.... ...++++++||.+++.|+.+.++.+.
T Consensus 23 g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~-----~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 23 GYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKR-----FRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhcc-----CCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 3445889999999999999999999999999997643 3334332221 24579999999999999999988765
No 32
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.14 E-value=4.2e-10 Score=83.11 Aligned_cols=73 Identities=19% Similarity=0.179 Sum_probs=60.6
Q ss_pred ccCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
.-.+.+++.|++++..+..+ .+.+++||+|||||.++...+...+.. +.++++++||.+++.|+.+.
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~-------g~qvlilaPT~~LA~Q~~~~ 303 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA-------GYQVALMAPTEILAEQHYNS 303 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc-------CCcEEEECCHHHHHHHHHHH
Confidence 34678999999999988753 257999999999999876655555554 67899999999999999999
Q ss_pred HHhhcc
Q psy16285 89 VLKYTQ 94 (97)
Q Consensus 89 l~~~~~ 94 (97)
+++++.
T Consensus 304 ~~~l~~ 309 (630)
T TIGR00643 304 LRNLLA 309 (630)
T ss_pred HHHHhc
Confidence 998764
No 33
>PRK01172 ski2-like helicase; Provisional
Probab=99.12 E-value=6.6e-10 Score=82.51 Aligned_cols=70 Identities=16% Similarity=0.097 Sum_probs=59.2
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..+.+++.|.+++..+.+++++++.+|||+|||.++...+...+.. +.++++++|+++++.+..+++.++
T Consensus 19 ~~~~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~-------~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 19 NDFELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLA-------GLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCCCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHh-------CCcEEEEechHHHHHHHHHHHHHH
Confidence 4567899999999999889999999999999999866555444443 568999999999999999998865
No 34
>PRK09401 reverse gyrase; Reviewed
Probab=99.11 E-value=6.5e-10 Score=86.61 Aligned_cols=71 Identities=25% Similarity=0.175 Sum_probs=60.5
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
++.+.+.|+.++..+..+.++++.+|||+|||+.+..++..+.. .+.++++++||++++.|+.+++.+++.
T Consensus 78 G~~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~~~~~l~~-------~g~~alIL~PTreLa~Qi~~~l~~l~~ 148 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAK-------KGKKSYIIFPTRLLVEQVVEKLEKFGE 148 (1176)
T ss_pred CCCCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHh-------cCCeEEEEeccHHHHHHHHHHHHHHhh
Confidence 45789999999999999999999999999999865555444432 378899999999999999999998874
No 35
>KOG0354|consensus
Probab=99.11 E-value=3.7e-10 Score=83.78 Aligned_cols=77 Identities=25% Similarity=0.311 Sum_probs=68.5
Q ss_pred CcccccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 11 SANVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 11 ~~~~~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
.|..+..+.++++|.+.+..++ +.+++|..|+|+|||.+|..++...++.. +..+|+|++|+..++.|-...+.
T Consensus 54 ~~~~p~~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~-----p~~KiVF~aP~~pLv~QQ~a~~~ 127 (746)
T KOG0354|consen 54 RWIYPTNLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWR-----PKGKVVFLAPTRPLVNQQIACFS 127 (746)
T ss_pred cccccCcccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcC-----CcceEEEeeCCchHHHHHHHHHh
Confidence 3455678999999999999999 99999999999999999999998888874 56899999999999999887777
Q ss_pred hhc
Q psy16285 91 KYT 93 (97)
Q Consensus 91 ~~~ 93 (97)
.++
T Consensus 128 ~~~ 130 (746)
T KOG0354|consen 128 IYL 130 (746)
T ss_pred hcc
Confidence 766
No 36
>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=99.09 E-value=3.3e-10 Score=78.94 Aligned_cols=60 Identities=22% Similarity=0.290 Sum_probs=51.9
Q ss_pred CCCHHHHHHHHHH------hcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHH
Q psy16285 19 GLNTIQFEAYKAA------LTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQF 85 (97)
Q Consensus 19 ~l~~~Q~~~i~~~------~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~ 85 (97)
.|+++|+.+++.+ .++.+++|.||.|||||+++.++...+... +..+++++||..|+..+
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-------~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-------GKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-------cceEEEecchHHHHHhc
Confidence 4789999999888 456789999999999999999988877443 67899999999998877
No 37
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.09 E-value=1.1e-09 Score=81.49 Aligned_cols=71 Identities=23% Similarity=0.184 Sum_probs=62.0
Q ss_pred cCCCCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
....+++.|+++++.+..+ ..+++.||||+|||.+...++...+.. ++++++++|+.+++.|+.++++++
T Consensus 141 ~~~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~-------g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 141 EPPTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQ-------GKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCCCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHc-------CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 4567999999999998863 679999999999999988777777665 678999999999999999999886
Q ss_pred c
Q psy16285 93 T 93 (97)
Q Consensus 93 ~ 93 (97)
+
T Consensus 214 f 214 (679)
T PRK05580 214 F 214 (679)
T ss_pred h
Confidence 5
No 38
>PRK06526 transposase; Provisional
Probab=99.09 E-value=2e-10 Score=76.68 Aligned_cols=51 Identities=24% Similarity=0.322 Sum_probs=38.3
Q ss_pred CCCHHHHHHH---HHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 19 GLNTIQFEAY---KAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 19 ~l~~~Q~~~i---~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.++..|...+ +++..++++++.||||||||+++.+++..++.. +.++++.+
T Consensus 80 ~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~-------g~~v~f~t 133 (254)
T PRK06526 80 SLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQA-------GHRVLFAT 133 (254)
T ss_pred CcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHC-------CCchhhhh
Confidence 3444444433 344457899999999999999999999999876 66777765
No 39
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=99.09 E-value=5.1e-10 Score=74.71 Aligned_cols=48 Identities=27% Similarity=0.439 Sum_probs=38.7
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++.++++.||||+||||++.+++..++.. +.+|+++. +.+++.+|+..
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~-------g~sv~f~~-----~~el~~~Lk~~ 151 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELLKA-------GISVLFIT-----APDLLSKLKAA 151 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHc-------CCeEEEEE-----HHHHHHHHHHH
Confidence 46799999999999999999999999943 78898888 55555555443
No 40
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.08 E-value=1.3e-09 Score=80.62 Aligned_cols=73 Identities=18% Similarity=0.128 Sum_probs=58.2
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
....+++.|.+++..+..+..+++++|||||||..... ++..+.... ...++||++||++++.|+.+.+.++.
T Consensus 25 G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~-----~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 25 GYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPEL-----KAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhcc-----CCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 45568999999999999999999999999999986433 333332221 24589999999999999999888764
No 41
>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=99.08 E-value=8.6e-10 Score=65.30 Aligned_cols=55 Identities=24% Similarity=0.350 Sum_probs=47.0
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+++++.||||+|||+++...+..+.... ...++++++|++.++.++.+.+..+..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-----~~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-----KGGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-----cCCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 3578999999999999888888887652 368999999999999999998887763
No 42
>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=99.07 E-value=5.6e-10 Score=70.94 Aligned_cols=48 Identities=27% Similarity=0.495 Sum_probs=37.1
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++.++++.||||||||+++.+++..++.. +.+++++. ..++++.++..
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~-------g~~v~f~~-----~~~L~~~l~~~ 93 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAIRK-------GYSVLFIT-----ASDLLDELKQS 93 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHHHT-------T--EEEEE-----HHHHHHHHHCC
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhccC-------CcceeEee-----cCceecccccc
Confidence 45789999999999999999999999887 78898888 56666666543
No 43
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.06 E-value=2.1e-09 Score=76.75 Aligned_cols=79 Identities=22% Similarity=0.125 Sum_probs=59.4
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHH-HHHHHhchhh-hhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRI-VEGFLKNKEL-ARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~-~~~~~~~~~~-~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
....+++.|.+++..+..+..+++.+|||||||...... +..+...... ....+.++||++||++++.|+.+.+.++.
T Consensus 20 g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~ 99 (456)
T PRK10590 20 GYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYS 99 (456)
T ss_pred CCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 445678999999999999999999999999999875443 3443332110 01123479999999999999999998875
Q ss_pred c
Q psy16285 94 Q 94 (97)
Q Consensus 94 ~ 94 (97)
.
T Consensus 100 ~ 100 (456)
T PRK10590 100 K 100 (456)
T ss_pred c
Confidence 3
No 44
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.06 E-value=9.9e-10 Score=84.25 Aligned_cols=65 Identities=18% Similarity=0.171 Sum_probs=53.7
Q ss_pred cCCCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVE 87 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~ 87 (97)
..+.|++.|++++..+.. ++.++|+|++||||||++..+...+... +.+|+.++||..++..+.+
T Consensus 343 ~g~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~-------G~~V~~~ApTGkAA~~L~e 408 (988)
T PRK13889 343 RGLVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAA-------GYEVRGAALSGIAAENLEG 408 (988)
T ss_pred cCCCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHc-------CCeEEEecCcHHHHHHHhh
Confidence 357899999999999887 4578999999999999976655554333 7889999999999988865
No 45
>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=99.05 E-value=1.9e-09 Score=82.41 Aligned_cols=72 Identities=18% Similarity=0.101 Sum_probs=59.8
Q ss_pred cCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
-.+.+++.|.+++..+..+ ...+++||+|+|||.++...+...+.. +.++++++||..++.|..+.+
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~-------g~qvlvLvPT~~LA~Q~~~~f 520 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD-------GKQVAVLVPTTLLAQQHFETF 520 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh-------CCeEEEEeCcHHHHHHHHHHH
Confidence 3567899999999998763 468999999999999877665555544 678999999999999999999
Q ss_pred Hhhcc
Q psy16285 90 LKYTQ 94 (97)
Q Consensus 90 ~~~~~ 94 (97)
.+++.
T Consensus 521 ~~~~~ 525 (926)
T TIGR00580 521 KERFA 525 (926)
T ss_pred HHHhc
Confidence 88654
No 46
>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=99.05 E-value=1.2e-09 Score=85.09 Aligned_cols=72 Identities=22% Similarity=0.103 Sum_probs=61.1
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
....+.+.|+.++..+..+..+++++|||+|||+.+..++..+.. .+.++++++||++++.|+.+.+.++..
T Consensus 75 ~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~-------~g~~vLIL~PTreLa~Qi~~~l~~l~~ 146 (1171)
T TIGR01054 75 VGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAK-------KGKRCYIILPTTLLVIQVAEKISSLAE 146 (1171)
T ss_pred cCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHh-------cCCeEEEEeCHHHHHHHHHHHHHHHHH
Confidence 456788999999999999999999999999999876655544433 267899999999999999999998864
No 47
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.05 E-value=2.6e-09 Score=75.49 Aligned_cols=78 Identities=21% Similarity=0.070 Sum_probs=58.5
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhh--hhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKEL--ARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~--~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+...+++.|.+++..+.++..+++.+|+|||||..... ++..+...... ....+.+++|++|+++++.|+.+.+..+
T Consensus 27 g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l 106 (423)
T PRK04837 27 GFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPL 106 (423)
T ss_pred CCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHH
Confidence 44567899999999999999999999999999986433 33444332110 0012467999999999999999888776
Q ss_pred c
Q psy16285 93 T 93 (97)
Q Consensus 93 ~ 93 (97)
.
T Consensus 107 ~ 107 (423)
T PRK04837 107 A 107 (423)
T ss_pred h
Confidence 5
No 48
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.05 E-value=1.6e-09 Score=84.08 Aligned_cols=72 Identities=25% Similarity=0.231 Sum_probs=61.6
Q ss_pred CCCCCHHHHHHHHHHhc-----CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 17 ELGLNTIQFEAYKAALT-----REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~-----~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
.+.++++|.+++..+.. .+..+|..|+|||||.++..++..+++.. ..++|||+++++++++|..+.+.+
T Consensus 411 ~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~-----~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 411 GLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAK-----RFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred CCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcC-----ccCeEEEEecHHHHHHHHHHHHHh
Confidence 36789999999987753 35789999999999999998988887763 357999999999999999999988
Q ss_pred hc
Q psy16285 92 YT 93 (97)
Q Consensus 92 ~~ 93 (97)
+.
T Consensus 486 ~~ 487 (1123)
T PRK11448 486 TK 487 (1123)
T ss_pred cc
Confidence 74
No 49
>PRK02362 ski2-like helicase; Provisional
Probab=99.01 E-value=3.2e-09 Score=79.61 Aligned_cols=71 Identities=20% Similarity=0.139 Sum_probs=58.4
Q ss_pred cCCCCCHHHHHHHHH-HhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKA-ALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~-~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+...+++.|.+++.. +.+++++++.+|||+|||.++...+...+.. +.++++++|+++++.|..+++.++.
T Consensus 20 g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-------~~kal~i~P~raLa~q~~~~~~~~~ 91 (737)
T PRK02362 20 GIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-------GGKALYIVPLRALASEKFEEFERFE 91 (737)
T ss_pred CCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-------CCcEEEEeChHHHHHHHHHHHHHhh
Confidence 345689999999987 5578899999999999999876544443333 6789999999999999999998873
No 50
>PTZ00110 helicase; Provisional
Probab=99.00 E-value=3.9e-09 Score=76.96 Aligned_cols=78 Identities=21% Similarity=0.135 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHH-HHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVAL-RIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~-~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
...+++.|.+++..++++..+++.+|||+|||.... -++..+..+.......+..+||++||++++.|+.+.+.++..
T Consensus 150 ~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~ 228 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGA 228 (545)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhc
Confidence 345789999999999999999999999999998532 233333332111111245799999999999999999998864
No 51
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.99 E-value=5.4e-09 Score=76.61 Aligned_cols=80 Identities=24% Similarity=0.181 Sum_probs=60.8
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhhh--hcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKELA--RYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~~--~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
....+++.|.++|..++++..+++++|+|||||..... ++..+....... .....++||++|+++++.|+.+.+.++
T Consensus 28 g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 28 GFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred CCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 44568999999999999999999999999999986444 444444321100 001368999999999999999999888
Q ss_pred ccC
Q psy16285 93 TQN 95 (97)
Q Consensus 93 ~~~ 95 (97)
+.+
T Consensus 108 ~~~ 110 (572)
T PRK04537 108 GAD 110 (572)
T ss_pred hcc
Confidence 643
No 52
>PRK13766 Hef nuclease; Provisional
Probab=98.99 E-value=4.8e-09 Score=78.89 Aligned_cols=71 Identities=25% Similarity=0.309 Sum_probs=61.3
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..+..+++|.+++..+..+ +.+|..|+|+|||.++..++...+.. .+.++||++|+..++.|+.+.++++.
T Consensus 12 ~~~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~------~~~~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 12 NTIEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHK------KGGKVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred CcCCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHh------CCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 5577899999999887766 89999999999999888777776654 47899999999999999999998875
No 53
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.99 E-value=4e-09 Score=82.13 Aligned_cols=73 Identities=21% Similarity=0.133 Sum_probs=60.1
Q ss_pred ccCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
.-.+.+++.|.+++..+..+ ...+++||+|+|||.++...+...+.. +.+++|++||..++.|+.+.
T Consensus 596 ~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~-------g~qvlvLvPT~eLA~Q~~~~ 668 (1147)
T PRK10689 596 SFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN-------HKQVAVLVPTTLLAQQHYDN 668 (1147)
T ss_pred hCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc-------CCeEEEEeCcHHHHHHHHHH
Confidence 34568899999999998764 578999999999999876555555443 78899999999999999999
Q ss_pred HHhhcc
Q psy16285 89 VLKYTQ 94 (97)
Q Consensus 89 l~~~~~ 94 (97)
+.+.+.
T Consensus 669 f~~~~~ 674 (1147)
T PRK10689 669 FRDRFA 674 (1147)
T ss_pred HHHhhc
Confidence 887543
No 54
>PRK00254 ski2-like helicase; Provisional
Probab=98.97 E-value=4.8e-09 Score=78.54 Aligned_cols=70 Identities=21% Similarity=0.252 Sum_probs=57.7
Q ss_pred cCCCCCHHHHHHHHH-HhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKA-ALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~-~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+...+++.|.+++.. +.+++++++.+|||+|||.++ ..++..+... +.++++++|+++++.+..+++.++
T Consensus 20 g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~-------~~~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 20 GIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE-------GGKAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred CCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc-------CCeEEEEeChHHHHHHHHHHHHHH
Confidence 445689999999986 567889999999999999987 4445555443 678999999999999999998875
No 55
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.96 E-value=3.4e-09 Score=79.28 Aligned_cols=76 Identities=21% Similarity=0.276 Sum_probs=66.8
Q ss_pred ccCCCCCHHHHHHHHHHhc-----CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALT-----REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~-----~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
.....++.+|..||..... ++..+|..+||||||.+|.+++..+.+.++ .++|||++-++.+++|-...+
T Consensus 161 ~s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~-----~KRVLFLaDR~~Lv~QA~~af 235 (875)
T COG4096 161 DSAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGW-----VKRVLFLADRNALVDQAYGAF 235 (875)
T ss_pred cccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcch-----hheeeEEechHHHHHHHHHHH
Confidence 4567789999999998764 357999999999999999999999999875 689999999999999999988
Q ss_pred HhhccC
Q psy16285 90 LKYTQN 95 (97)
Q Consensus 90 ~~~~~~ 95 (97)
.+|..+
T Consensus 236 ~~~~P~ 241 (875)
T COG4096 236 EDFLPF 241 (875)
T ss_pred HHhCCC
Confidence 888753
No 56
>PRK12377 putative replication protein; Provisional
Probab=98.95 E-value=1.3e-08 Score=67.77 Aligned_cols=43 Identities=23% Similarity=0.444 Sum_probs=33.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQF 85 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~ 85 (97)
.++++.|||||||||++.+++..+.+. +.+++++. ..+.+..+
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~-------g~~v~~i~-~~~l~~~l 144 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAK-------GRSVIVVT-VPDVMSRL 144 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc-------CCCeEEEE-HHHHHHHH
Confidence 578999999999999999999999876 66777766 23444433
No 57
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.94 E-value=9.5e-09 Score=74.50 Aligned_cols=79 Identities=18% Similarity=0.102 Sum_probs=58.5
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchh--hhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKE--LARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~--~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+...+++.|.+++..+..++++++.+|||+|||..... ++..+..... .....+.+++|++||++++.|+.+.++.+
T Consensus 140 g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 140 GYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 34568999999999999999999999999999975333 3333332110 00113568999999999999998888776
Q ss_pred cc
Q psy16285 93 TQ 94 (97)
Q Consensus 93 ~~ 94 (97)
..
T Consensus 220 ~~ 221 (518)
T PLN00206 220 GK 221 (518)
T ss_pred hC
Confidence 54
No 58
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=98.94 E-value=6.1e-09 Score=80.60 Aligned_cols=66 Identities=17% Similarity=0.130 Sum_probs=56.1
Q ss_pred cCCCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
..+.|++.|.+++..+.. ++..+|+|++||||||++..+...+-.. +.+|+.++||..++.++.+.
T Consensus 378 ~~~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~-------G~~V~g~ApTgkAA~~L~e~ 444 (1102)
T PRK13826 378 RHARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAA-------GYRVVGGALAGKAAEGLEKE 444 (1102)
T ss_pred cCCCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHc-------CCeEEEEcCcHHHHHHHHHh
Confidence 357899999999998754 5688999999999999988887766554 78999999999999998653
No 59
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.93 E-value=1.4e-08 Score=72.84 Aligned_cols=77 Identities=23% Similarity=0.152 Sum_probs=58.0
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHH-HHHHHHHhchhhh--hcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVAL-RIVEGFLKNKELA--RYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~-~~~~~~~~~~~~~--~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...+++.|.+++..+.++.++++.+|+|||||.... .++..+.+..... .....++||++||++++.|+.+.+.++.
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~ 186 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALT 186 (475)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhh
Confidence 345789999999999999999999999999997533 3344454431000 0013579999999999999999888775
No 60
>PRK09183 transposase/IS protein; Provisional
Probab=98.93 E-value=7e-09 Score=69.39 Aligned_cols=50 Identities=18% Similarity=0.268 Sum_probs=37.5
Q ss_pred CCHHHHHHHHH---HhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 20 LNTIQFEAYKA---ALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 20 l~~~Q~~~i~~---~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
++..|...+.. +.++.++++.||||+||||++.+++..++.. +.+++++.
T Consensus 85 ~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~-------G~~v~~~~ 137 (259)
T PRK09183 85 APQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRA-------GIKVRFTT 137 (259)
T ss_pred CCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHc-------CCeEEEEe
Confidence 34445555543 3456789999999999999999998887765 67787765
No 61
>PRK06835 DNA replication protein DnaC; Validated
Probab=98.93 E-value=1.1e-08 Score=70.57 Aligned_cols=36 Identities=25% Similarity=0.421 Sum_probs=32.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
+.++++.|||||||||++.+++..++.. +.+|++++
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~-------g~~V~y~t 218 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDR-------GKSVIYRT 218 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHC-------CCeEEEEE
Confidence 4789999999999999999999999876 67888877
No 62
>PRK14701 reverse gyrase; Provisional
Probab=98.93 E-value=7.8e-09 Score=82.63 Aligned_cols=71 Identities=21% Similarity=0.132 Sum_probs=58.6
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.+.+++.|.+++..+..++.+++++|||+|||.....++..+ .. ++.+++|++||.+++.|+.+++..+..
T Consensus 77 G~~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~-~~------~g~~aLVl~PTreLa~Qi~~~l~~l~~ 147 (1638)
T PRK14701 77 GFEFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFL-AL------KGKKCYIILPTTLLVKQTVEKIESFCE 147 (1638)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHH-Hh------cCCeEEEEECHHHHHHHHHHHHHHHHh
Confidence 447899999999999999999999999999998544333333 22 367899999999999999999998754
No 63
>PRK07952 DNA replication protein DnaC; Validated
Probab=98.92 E-value=1.5e-08 Score=67.28 Aligned_cols=58 Identities=26% Similarity=0.348 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHhc------C--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 21 NTIQFEAYKAALT------R--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 21 ~~~Q~~~i~~~~~------~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
++.|..++..+.+ . ..+++.|+||||||+++.+++..+... +.+++++. +.++...++
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~-------g~~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR-------GKSVLIIT-----VADIMSAMK 143 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc-------CCeEEEEE-----HHHHHHHHH
Confidence 4556556555442 1 468999999999999999999999876 67888876 444444443
No 64
>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=98.92 E-value=4.1e-09 Score=68.38 Aligned_cols=56 Identities=32% Similarity=0.385 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCCh
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~ 79 (97)
+.+..|..+++.+.+.+.+++.||+|||||+++.+.+..++.++ .-.+++++-|.-
T Consensus 4 p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g-----~~~kiii~Rp~v 59 (205)
T PF02562_consen 4 PKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEG-----EYDKIIITRPPV 59 (205)
T ss_dssp --SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTT-----S-SEEEEEE-S-
T ss_pred CCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhC-----CCcEEEEEecCC
Confidence 56889999999999899999999999999999999998888773 345666666644
No 65
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=98.92 E-value=3.9e-09 Score=78.09 Aligned_cols=71 Identities=25% Similarity=0.253 Sum_probs=62.3
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.|++.|++++... .+.++|.++||||||.++...+.+++..... .+.+|+.+++||.|+.++.+++.+...
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v---~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGV---DPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCc---ChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 5789999998864 6778899999999999999999999998544 577899999999999999999998764
No 66
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.89 E-value=6.7e-09 Score=74.97 Aligned_cols=72 Identities=15% Similarity=0.244 Sum_probs=59.9
Q ss_pred cccCCCCCHHHHHHHHHHhcC-----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 14 VQEELGLNTIQFEAYKAALTR-----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 14 ~~~~~~l~~~Q~~~i~~~~~~-----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
....+.....|-+||..+..+ +.-++.|.+|||||++...++... +++.||++|++.++.|+...
T Consensus 7 l~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~----------~rPtLV~AhNKTLAaQLy~E 76 (663)
T COG0556 7 LHSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV----------QRPTLVLAHNKTLAAQLYSE 76 (663)
T ss_pred eccCCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh----------CCCeEEEecchhHHHHHHHH
Confidence 344556667788888887642 467899999999999988888776 77899999999999999999
Q ss_pred HHhhccC
Q psy16285 89 VLKYTQN 95 (97)
Q Consensus 89 l~~~~~~ 95 (97)
+++|+.+
T Consensus 77 fk~fFP~ 83 (663)
T COG0556 77 FKEFFPE 83 (663)
T ss_pred HHHhCcC
Confidence 9999964
No 67
>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=98.88 E-value=1.8e-08 Score=75.74 Aligned_cols=71 Identities=13% Similarity=0.064 Sum_probs=59.3
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...+.+.|.+++..+.+++++++..|||||||..... ++..+... +..++|+++|+++++.+..+.+.++.
T Consensus 34 ~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~------~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD------PRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred CCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC------CCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 3468999999999999999999999999999986443 34444443 36789999999999999999999875
No 68
>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=98.87 E-value=7.5e-09 Score=65.29 Aligned_cols=51 Identities=27% Similarity=0.387 Sum_probs=41.3
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.++|.||||||||+++..++....++ +.++++++. .+..+++.+++.+++.
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~-------g~~v~~~s~-e~~~~~~~~~~~~~g~ 51 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLAR-------GEPGLYVTL-EESPEELIENAESLGW 51 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHC-------CCcEEEEEC-CCCHHHHHHHHHHcCC
Confidence 36899999999999999999888766 778888874 4567788877776653
No 69
>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=98.85 E-value=2.6e-08 Score=71.46 Aligned_cols=67 Identities=16% Similarity=0.173 Sum_probs=54.1
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...+++.|.+++..+..++.+++.+|||+|||..... -.+. . ....+|++|+.+++.+..+++..++
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~l--p~l~-~-------~~~~lVi~P~~~L~~dq~~~l~~~g 75 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQL--PALC-S-------DGITLVISPLISLMEDQVLQLKASG 75 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHH--HHHH-c-------CCcEEEEecHHHHHHHHHHHHHHcC
Confidence 3457899999999999999999999999999965322 2222 2 4579999999999999999888765
No 70
>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=98.84 E-value=1.6e-08 Score=79.51 Aligned_cols=68 Identities=19% Similarity=0.210 Sum_probs=55.7
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+++.|+++|. ..+.+++|.+++|||||+++...+..++..+. ...++|++|+|+.++.++.+++.+..
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~----~~~~il~~tFt~~aa~e~~~ri~~~l 69 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGV----DIDRLLVVTFTNAAAREMKERIEEAL 69 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCC----CHhhEEEEeccHHHHHHHHHHHHHHH
Confidence 5788999987 35778999999999999988777666655421 34679999999999999999988754
No 71
>PRK10536 hypothetical protein; Provisional
Probab=98.84 E-value=1.7e-08 Score=67.45 Aligned_cols=45 Identities=24% Similarity=0.296 Sum_probs=39.0
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
-.+.+..|...+..+.+.+.+++.||+|||||+++.+++...+..
T Consensus 57 i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 57 ILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred ccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 356789999999988888899999999999999999999876644
No 72
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.82 E-value=2.6e-08 Score=80.88 Aligned_cols=67 Identities=22% Similarity=0.267 Sum_probs=58.3
Q ss_pred cCCCCCHHHHHHHHHHhcC--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALTR--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
..+.|++.|++++..+..+ +..+|+|+||||||+++..+...+-.. +.+|.+++||..++.++.+..
T Consensus 426 ~~~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~-------G~~V~~lAPTgrAA~~L~e~~ 494 (1960)
T TIGR02760 426 SEFALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQ-------GYEIQIITAGSLSAQELRQKI 494 (1960)
T ss_pred ccCCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhc-------CCeEEEEeCCHHHHHHHHHHh
Confidence 3578999999999998864 688999999999999988888776554 789999999999999998763
No 73
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.80 E-value=4.5e-08 Score=74.83 Aligned_cols=74 Identities=16% Similarity=0.086 Sum_probs=55.6
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhhh-hcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKELA-RYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~~-~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
..+++.|.+++..+.++++++|.+|||+|||..+.. ++..+....... ...+.++++++|+++++.++.+++.+
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 458999999999999999999999999999987543 344444321100 01245799999999999998876653
No 74
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.79 E-value=3.5e-08 Score=78.65 Aligned_cols=67 Identities=21% Similarity=0.177 Sum_probs=53.4
Q ss_pred CCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHH
Q psy16285 18 LGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVE 87 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~ 87 (97)
..|++.|++++..++. ++.++|+|++||||||++..++..+..-.. ..+.+|+.++||+.++.++.+
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e---~~g~~V~glAPTgkAa~~L~e 902 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPE---SERPRVVGLGPTHRAVGEMRS 902 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhh---ccCceEEEEechHHHHHHHHH
Confidence 4789999999999885 478999999999999998887665533100 035679999999999988854
No 75
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.78 E-value=2.8e-08 Score=72.74 Aligned_cols=73 Identities=21% Similarity=0.245 Sum_probs=57.2
Q ss_pred CHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 21 NTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 21 ~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
-.+|-++|+. ..+..++|+|.+|||||+++.+.+++++..-+-. ...+.||++.|+..-++-+...|.+++++
T Consensus 214 QkEQneIIR~-ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~-l~~k~vlvl~PN~vFleYis~VLPeLGe~ 286 (747)
T COG3973 214 QKEQNEIIRF-EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGP-LQAKPVLVLGPNRVFLEYISRVLPELGEE 286 (747)
T ss_pred hHhHHHHHhc-cCCCeEEEecCCCCCchhHHHHHHHHHHhccccc-cccCceEEEcCcHHHHHHHHHhchhhccC
Confidence 3445555554 3467899999999999999999999998863211 13456999999999999999999998864
No 76
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.77 E-value=4e-08 Score=75.52 Aligned_cols=74 Identities=19% Similarity=0.171 Sum_probs=67.2
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.-.+.+++.|++++..+.++.+++|.+|+|+|||.++-..+...+.. ++++.+++|.+++..|...++..-+.
T Consensus 115 ~~~F~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~-------~qrviYTsPIKALsNQKyrdl~~~fg 187 (1041)
T COG4581 115 EYPFELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRD-------GQRVIYTSPIKALSNQKYRDLLAKFG 187 (1041)
T ss_pred hCCCCcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHc-------CCceEeccchhhhhhhHHHHHHHHhh
Confidence 46789999999999999999999999999999999999999888887 78899999999999999998887665
Q ss_pred C
Q psy16285 95 N 95 (97)
Q Consensus 95 ~ 95 (97)
+
T Consensus 188 d 188 (1041)
T COG4581 188 D 188 (1041)
T ss_pred h
Confidence 4
No 77
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.77 E-value=4.7e-08 Score=78.53 Aligned_cols=68 Identities=22% Similarity=0.209 Sum_probs=54.6
Q ss_pred CCCCCHHHHHHHHHHhcC--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHH
Q psy16285 17 ELGLNTIQFEAYKAALTR--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVE 87 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~ 87 (97)
...|++.|++++..++.+ +..+|+|.|||||||++..++..+...... .+.+|+.++||+.++.++.+
T Consensus 965 ~~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~---~~~~V~glAPTgrAAk~L~e 1034 (1747)
T PRK13709 965 MEGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPES---ERPRVVGLGPTHRAVGEMRS 1034 (1747)
T ss_pred cCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcc---cCceEEEECCcHHHHHHHHh
Confidence 457899999999998864 689999999999999988888776431100 25679999999999998764
No 78
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=98.75 E-value=7.7e-08 Score=71.02 Aligned_cols=68 Identities=19% Similarity=0.195 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
...+++.|.+++..+..++.+++.+|||+|||.... +-.+.. ...++|++|+.+++.+..+.+..++.
T Consensus 23 ~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~--lpal~~--------~g~tlVisPl~sL~~dqv~~l~~~gi 90 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQ--IPALVL--------DGLTLVVSPLISLMKDQVDQLLANGV 90 (607)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHH--HHHHHc--------CCCEEEEecHHHHHHHHHHHHHHcCC
Confidence 346789999999999999999999999999996533 222322 45799999999999999998887653
No 79
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.74 E-value=9e-08 Score=73.26 Aligned_cols=73 Identities=21% Similarity=0.178 Sum_probs=63.8
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
..+.+-..|+.......++.++.+.+|||.||||....+...+-.. +++++++.||..++.|..+++.++.++
T Consensus 79 ~G~~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~k-------gkr~yii~PT~~Lv~Q~~~kl~~~~e~ 151 (1187)
T COG1110 79 TGFRPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKK-------GKRVYIIVPTTTLVRQVYERLKKFAED 151 (1187)
T ss_pred hCCCchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhc-------CCeEEEEecCHHHHHHHHHHHHHHHhh
Confidence 3456677899999999999999999999999999987777766555 799999999999999999999998853
No 80
>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=98.74 E-value=4.6e-08 Score=72.89 Aligned_cols=73 Identities=16% Similarity=0.122 Sum_probs=60.6
Q ss_pred CCCCCHHHHHHHHHHhc----------CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHH
Q psy16285 17 ELGLNTIQFEAYKAALT----------REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV 86 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~----------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~ 86 (97)
....+..|..++..+.. .+..+|+.|+|||||.++..++..+.... ...+|+|++++.++.+|+.
T Consensus 236 k~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~-----~~~~vl~lvdR~~L~~Q~~ 310 (667)
T TIGR00348 236 KPYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL-----KNPKVFFVVDRRELDYQLM 310 (667)
T ss_pred eeehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc-----CCCeEEEEECcHHHHHHHH
Confidence 34467889999988652 24789999999999999999988887542 4678999999999999999
Q ss_pred HHHHhhcc
Q psy16285 87 EGVLKYTQ 94 (97)
Q Consensus 87 ~~l~~~~~ 94 (97)
+.+.+++.
T Consensus 311 ~~f~~~~~ 318 (667)
T TIGR00348 311 KEFQSLQK 318 (667)
T ss_pred HHHHhhCC
Confidence 99998873
No 81
>PRK08116 hypothetical protein; Validated
Probab=98.74 E-value=1.3e-07 Score=63.61 Aligned_cols=34 Identities=32% Similarity=0.549 Sum_probs=29.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.+++.|+|||||||++.+++..+.+. +.+++++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~-------~~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEK-------GVPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc-------CCeEEEEE
Confidence 48999999999999999999999876 56677766
No 82
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.73 E-value=1.4e-07 Score=68.42 Aligned_cols=76 Identities=28% Similarity=0.207 Sum_probs=59.1
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCC-EEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGP-ILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~-ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.....++.|..++..+..+..+++.+++|||||.. +.-++..+..... .... .||++||++++.|+.+.+..+.
T Consensus 48 gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~----~~~~~aLil~PTRELA~Qi~~~~~~~~ 123 (513)
T COG0513 48 GFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVE----RKYVSALILAPTRELAVQIAEELRKLG 123 (513)
T ss_pred CCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccc----cCCCceEEECCCHHHHHHHHHHHHHHH
Confidence 45667999999999999999999999999999863 3444555442100 1222 9999999999999999999887
Q ss_pred cC
Q psy16285 94 QN 95 (97)
Q Consensus 94 ~~ 95 (97)
..
T Consensus 124 ~~ 125 (513)
T COG0513 124 KN 125 (513)
T ss_pred hh
Confidence 64
No 83
>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=98.72 E-value=1e-07 Score=69.99 Aligned_cols=68 Identities=15% Similarity=0.088 Sum_probs=55.3
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.-.+++.|.+++..+..+..+++..|||+|||..... -.+. . ....+|++|+..++.+..+.+.+++.
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~l--pal~-~-------~g~~lVisPl~sL~~dq~~~l~~~gi 78 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQV--PALL-L-------KGLTVVISPLISLMKDQVDQLRAAGV 78 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHH--HHHH-c-------CCcEEEEcCCHHHHHHHHHHHHHcCC
Confidence 3457899999999999999999999999999977542 2232 2 45689999999999999999888653
No 84
>PRK08939 primosomal protein DnaI; Reviewed
Probab=98.71 E-value=1.5e-07 Score=64.37 Aligned_cols=35 Identities=20% Similarity=0.273 Sum_probs=30.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
..+++.||+|+|||+++.+++..+... +.++.++.
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~-------g~~v~~~~ 191 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKK-------GVSSTLLH 191 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc-------CCCEEEEE
Confidence 478999999999999999999999866 67777776
No 85
>KOG1806|consensus
Probab=98.71 E-value=4e-08 Score=75.09 Aligned_cols=76 Identities=30% Similarity=0.487 Sum_probs=66.6
Q ss_pred ccccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 13 NVQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 13 ~~~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+..+...+++.|.+++......+..++.||||||||.++..++..+..+. +.++.+|++++|.++.++++++.+.
T Consensus 732 p~~n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn~-----p~qrTlivthsnqaln~lfeKi~~~ 806 (1320)
T KOG1806|consen 732 PKKNQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHNS-----PNQRTLIVTHSNQALNQLFEKIMAL 806 (1320)
T ss_pred cccchhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhcC-----CCcceEEEEecccchhHHHHHHHhc
Confidence 33455667889999999988899999999999999999999999998875 6899999999999999999988765
Q ss_pred c
Q psy16285 93 T 93 (97)
Q Consensus 93 ~ 93 (97)
.
T Consensus 807 d 807 (1320)
T KOG1806|consen 807 D 807 (1320)
T ss_pred c
Confidence 3
No 86
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.70 E-value=8.8e-08 Score=77.94 Aligned_cols=68 Identities=21% Similarity=0.171 Sum_probs=52.3
Q ss_pred CCCCCHHHHHHHHHHhcC--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHH
Q psy16285 17 ELGLNTIQFEAYKAALTR--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVE 87 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~ 87 (97)
...|++.|++++..+..+ +.++|+|++|||||+++..++..+.+.... .+.+|+.++||+.++.++.+
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~---~g~~v~glApT~~Aa~~L~~ 1086 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES---EQLQVIGLAPTHEAVGELKS 1086 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh---cCCeEEEEeChHHHHHHHHh
Confidence 467999999999998753 577899999999999986554433221110 37789999999999998864
No 87
>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=98.70 E-value=2.5e-08 Score=75.56 Aligned_cols=75 Identities=15% Similarity=0.097 Sum_probs=55.1
Q ss_pred cCCCCCHHHHHHHHHHhcCC-ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTRE-FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~-~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
..+...++|.+++..+..+. ..++..|+|||||..+..-...+.... ...+++++++|++++++|+.+.+++++.
T Consensus 12 ~G~~PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~----~~~~rLv~~vPtReLa~Qi~~~~~~~~k 87 (844)
T TIGR02621 12 HGYSPFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGA----KVPRRLVYVVNRRTVVDQVTEEAEKIGE 87 (844)
T ss_pred hCCCCCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccc----cccceEEEeCchHHHHHHHHHHHHHHHH
Confidence 45568999999999999886 577789999999975321111111111 1355677788999999999999998875
No 88
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.70 E-value=1.4e-07 Score=70.74 Aligned_cols=73 Identities=25% Similarity=0.237 Sum_probs=65.9
Q ss_pred cCCCCCHHHHHHHHHHhcC----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 16 EELGLNTIQFEAYKAALTR----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
....++..|..++..+... ...++.|.||+|||-+...++...+.+ ++++|+++|......|+.++++.
T Consensus 195 ~~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~-------GkqvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 195 EWLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ-------GKQVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred cccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHc-------CCEEEEEeccccchHHHHHHHHH
Confidence 4578999999999998765 578999999999999999999999998 89999999999999999999998
Q ss_pred hccC
Q psy16285 92 YTQN 95 (97)
Q Consensus 92 ~~~~ 95 (97)
.+..
T Consensus 268 rFg~ 271 (730)
T COG1198 268 RFGA 271 (730)
T ss_pred HhCC
Confidence 8753
No 89
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.69 E-value=2.7e-07 Score=62.69 Aligned_cols=72 Identities=21% Similarity=0.240 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHH-HHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 19 GLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIV-EGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~-~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..++.|.+.+..+. +++.+++.+|+|||||..+...+ .++...... ..+.+++++++|....++....+++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~--~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER--IQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc--ccccceeEEeccHHHHHHHHHHHHhc
Confidence 34889999666544 46799999999999997544443 444443100 01238999999999999988888765
No 90
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.69 E-value=2.7e-07 Score=62.69 Aligned_cols=72 Identities=21% Similarity=0.240 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHH-HHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 19 GLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIV-EGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~-~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..++.|.+.+..+. +++.+++.+|+|||||..+...+ .++...... ..+.+++++++|....++....+++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~--~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER--IQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc--ccccceeEEeccHHHHHHHHHHHHhc
Confidence 34889999666544 46799999999999997544443 444443100 01238999999999999988888765
No 91
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.68 E-value=1.6e-07 Score=67.46 Aligned_cols=73 Identities=23% Similarity=0.276 Sum_probs=61.1
Q ss_pred cccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 14 VQEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 14 ~~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.+.....+.+|......+..+ +.+|.-|+|-|||+++..++...+.. .++++++++||..++.|=.+.+++..
T Consensus 10 ~p~~ie~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~------~~~kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 10 KPNTIEPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRW------FGGKVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred ccccccHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHh------cCCeEEEecCCchHHHHHHHHHHHHh
Confidence 345667899999998887766 78888999999999999888866666 35589999999999999888887765
No 92
>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=98.67 E-value=2.3e-07 Score=70.50 Aligned_cols=66 Identities=14% Similarity=0.168 Sum_probs=48.9
Q ss_pred CHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 21 NTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 21 ~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...-.+.++.+.+++.+++.|+||||||+.....+..... ...+++++.|++.++.++.+++.+..
T Consensus 4 ~~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-------~~~~ilvlqPrR~aA~qiA~rva~~~ 69 (819)
T TIGR01970 4 HAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-------IGGKIIMLEPRRLAARSAAQRLASQL 69 (819)
T ss_pred hHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-------cCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 3444456666667889999999999999975544332221 25689999999999999999996543
No 93
>PRK06921 hypothetical protein; Provisional
Probab=98.67 E-value=1.7e-07 Score=62.97 Aligned_cols=45 Identities=18% Similarity=0.405 Sum_probs=34.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQF 85 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~ 85 (97)
+.++++.||||+||||++.+++..+.+. .+..++++.. ...++++
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~------~g~~v~y~~~-~~l~~~l 161 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRK------KGVPVLYFPF-VEGFGDL 161 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhh------cCceEEEEEH-HHHHHHH
Confidence 4679999999999999999999998765 2566777763 3333443
No 94
>PRK09694 helicase Cas3; Provisional
Probab=98.67 E-value=1.3e-07 Score=72.20 Aligned_cols=72 Identities=18% Similarity=0.240 Sum_probs=58.1
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.+..++.|..+.......+.++|.+|+|+|||..+...+..+...+ ...++++..|+..+++++.+++.++.
T Consensus 284 ~~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-----~~~gi~~aLPT~Atan~m~~Rl~~~~ 355 (878)
T PRK09694 284 GYQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-----LADSIIFALPTQATANAMLSRLEALA 355 (878)
T ss_pred CCCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEECcHHHHHHHHHHHHHHHH
Confidence 4567888987754433467899999999999999988888776652 35789999999999999999998643
No 95
>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=98.66 E-value=1e-07 Score=65.80 Aligned_cols=52 Identities=21% Similarity=0.275 Sum_probs=43.1
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
++|.+|||+|||.++...+....... ...++++++|+..++.++.+++.+++
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~-----~~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQ-----KADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhC-----CCCeEEEEeehHHHHHHHHHHHHHHh
Confidence 68999999999998776655554332 36799999999999999999999974
No 96
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.65 E-value=1.3e-07 Score=71.33 Aligned_cols=66 Identities=26% Similarity=0.293 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHHh-cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 19 GLNTIQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
.+.+.|++++.... ++++++|..|||+|||.++...+..-+.+ .+.++++++|.+.++.+..+++.
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~------~~~k~vYivPlkALa~Ek~~~~~ 97 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLE------GGGKVVYIVPLKALAEEKYEEFS 97 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHh------cCCcEEEEeChHHHHHHHHHHhh
Confidence 55666777777765 45899999999999999977766665555 36899999999999999999988
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=98.64 E-value=9.1e-08 Score=63.11 Aligned_cols=53 Identities=21% Similarity=0.313 Sum_probs=43.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.||||+|||+++..++...+.+ +.++++++ +.+..+++.+++.+++-
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~-------ge~~lyvs-~ee~~~~i~~~~~~~g~ 73 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQM-------GEPGIYVA-LEEHPVQVRRNMAQFGW 73 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHc-------CCcEEEEE-eeCCHHHHHHHHHHhCC
Confidence 4578999999999999999988877655 77888888 45678888888887664
No 98
>PHA00729 NTP-binding motif containing protein
Probab=98.64 E-value=1.4e-07 Score=62.06 Aligned_cols=25 Identities=36% Similarity=0.538 Sum_probs=22.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.+++|+|+|||||||++..++..+.
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
Confidence 3789999999999999999998875
No 99
>KOG0330|consensus
Probab=98.64 E-value=1.6e-07 Score=65.82 Aligned_cols=74 Identities=26% Similarity=0.140 Sum_probs=63.4
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
-..++..|+++|..+..++.++..+.+|+|||- .+.=++..++++. .....+|++||++++.|+.+.++.++..
T Consensus 81 ~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p-----~~~~~lVLtPtRELA~QI~e~fe~Lg~~ 155 (476)
T KOG0330|consen 81 WKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEP-----KLFFALVLTPTRELAQQIAEQFEALGSG 155 (476)
T ss_pred cCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCC-----CCceEEEecCcHHHHHHHHHHHHHhccc
Confidence 345688899999999999999999999999996 4666778887763 4678999999999999999999988754
No 100
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.64 E-value=1.4e-07 Score=70.40 Aligned_cols=71 Identities=20% Similarity=0.363 Sum_probs=50.0
Q ss_pred HHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHH------Hhchh-h-hhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 22 TIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGF------LKNKE-L-ARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 22 ~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~------~~~~~-~-~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+.|.+++..+.+++.++++|+||||||+.+-..+.+. +.... . ......++++++|+++++.++.+++.+.
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~ 245 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHH
Confidence 4577888888889999999999999998643332211 11000 0 0113568999999999999999988753
No 101
>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=98.63 E-value=3.2e-07 Score=54.60 Aligned_cols=39 Identities=31% Similarity=0.572 Sum_probs=30.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCCh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~ 79 (97)
+..++|.||||+|||+++..++..+... ...++++..+.
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~-------~~~v~~~~~~~ 57 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRP-------GAPFLYLNASD 57 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcC-------CCCeEEEehhh
Confidence 4689999999999999999999888643 45566665443
No 102
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.62 E-value=2.3e-07 Score=70.54 Aligned_cols=67 Identities=16% Similarity=0.212 Sum_probs=48.3
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+....-.+.++.+.+++.++++||||||||+.....+ ++... ...+++++.|++.++.++.+++.+.
T Consensus 5 Pi~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~l---L~~~~----~~~~ilvlqPrR~aA~qia~rva~~ 71 (812)
T PRK11664 5 PVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQL---LQHGG----INGKIIMLEPRRLAARNVAQRLAEQ 71 (812)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHH---HHcCC----cCCeEEEECChHHHHHHHHHHHHHH
Confidence 3344444566666678899999999999999754322 22211 1358999999999999999998654
No 103
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=98.62 E-value=1.4e-07 Score=62.16 Aligned_cols=54 Identities=24% Similarity=0.448 Sum_probs=41.6
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.+..++|.||||||||+++..++..+.++ +.++++++ +.+...++.+.+.+++.
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~-------g~~~~yi~-~e~~~~~~~~~~~~~g~ 76 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQN-------GYSVSYVS-TQLTTTEFIKQMMSLGY 76 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhC-------CCcEEEEe-CCCCHHHHHHHHHHhCC
Confidence 45688999999999999998888887665 67788887 44456777777766553
No 104
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=3.1e-07 Score=64.31 Aligned_cols=74 Identities=24% Similarity=0.288 Sum_probs=59.2
Q ss_pred ccCCCCCHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCC-CEEEEeCChHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSG-PILIVCYTNHALDQFV 86 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~-~ilv~~~~~~~~~~~~ 86 (97)
+..++.++.|.+.+..++. ..+++|.||||||||.++..++.++..... .. .+.|.|.......+++
T Consensus 16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~-----~~~~~yINc~~~~t~~~i~ 90 (366)
T COG1474 16 PEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSA-----NVEVVYINCLELRTPYQVL 90 (366)
T ss_pred cccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhc-----cCceEEEeeeeCCCHHHHH
Confidence 3458889999998887663 247999999999999999999999987742 23 5888998888888888
Q ss_pred HHHHhhc
Q psy16285 87 EGVLKYT 93 (97)
Q Consensus 87 ~~l~~~~ 93 (97)
.++.+..
T Consensus 91 ~~i~~~~ 97 (366)
T COG1474 91 SKILNKL 97 (366)
T ss_pred HHHHHHc
Confidence 8777644
No 105
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.62 E-value=3.1e-07 Score=60.60 Aligned_cols=50 Identities=14% Similarity=0.175 Sum_probs=37.2
Q ss_pred CHHHHHHHHHHhc---CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 21 NTIQFEAYKAALT---REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 21 ~~~Q~~~i~~~~~---~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+.....++..+.. .+.+++.||+|+||||++.+++..+... +.++.++..
T Consensus 29 n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~-------~~~v~y~~~ 81 (235)
T PRK08084 29 NDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR-------GRAVGYVPL 81 (235)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC-------CCeEEEEEH
Confidence 4555555555442 3578999999999999999999888765 567777664
No 106
>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=98.60 E-value=3.4e-07 Score=63.72 Aligned_cols=60 Identities=18% Similarity=0.329 Sum_probs=48.0
Q ss_pred HHHHHHHHhcCC--ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 24 QFEAYKAALTRE--FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 24 Q~~~i~~~~~~~--~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
|.+++..+.++. ++++.+|||+|||..+...+. .. ..+.++++|++.++.+..+++.++.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~~-------~~~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---HG-------ENDTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---Hc-------CCCEEEEeChHHHHHHHHHHHHHHH
Confidence 778888888665 578899999999987643322 22 4578999999999999999998886
No 107
>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=98.60 E-value=1.3e-07 Score=68.60 Aligned_cols=49 Identities=22% Similarity=0.270 Sum_probs=43.5
Q ss_pred EEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 38 ~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+|.||+|+|||.+...++..++.. ++++++++|+..++.|+.+++++.+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~-------g~~vLvlvP~i~L~~Q~~~~l~~~f 49 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLAL-------GKSVLVLVPEIALTPQMIQRFKYRF 49 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHc-------CCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 478999999999988888777766 7789999999999999999998765
No 108
>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=98.59 E-value=8.4e-07 Score=58.06 Aligned_cols=51 Identities=24% Similarity=0.320 Sum_probs=36.3
Q ss_pred CHHHHHHHHHHhcC-----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 21 NTIQFEAYKAALTR-----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 21 ~~~Q~~~i~~~~~~-----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
|..-..++..+..+ ..++|.||+|+||||++.+++..+.+.. ++.+++++.
T Consensus 16 N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~-----~~~~v~y~~ 71 (219)
T PF00308_consen 16 NELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQH-----PGKRVVYLS 71 (219)
T ss_dssp THHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHC-----TTS-EEEEE
T ss_pred HHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhcc-----ccccceeec
Confidence 44444455544432 2589999999999999999999987753 366788777
No 109
>PRK06893 DNA replication initiation factor; Validated
Probab=98.59 E-value=1.1e-07 Score=62.49 Aligned_cols=36 Identities=19% Similarity=0.289 Sum_probs=28.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+.+++.|||||||||++.+++..+..+ +.++.++..
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~-------~~~~~y~~~ 75 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLN-------QRTAIYIPL 75 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc-------CCCeEEeeH
Confidence 467999999999999999999998776 445555553
No 110
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.59 E-value=3.4e-07 Score=69.28 Aligned_cols=79 Identities=18% Similarity=0.072 Sum_probs=61.9
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
....+++.|..++..+.++.+++|.+|||+|||-.| .-++..+.+........+-.+|+++|-+.+...+..+|+.++.
T Consensus 19 ~~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~ 98 (814)
T COG1201 19 KFTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLR 98 (814)
T ss_pred hcCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 467789999999999999999999999999999864 3445566555211111346899999999999999999987763
No 111
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=98.58 E-value=1.7e-07 Score=65.10 Aligned_cols=53 Identities=25% Similarity=0.417 Sum_probs=43.3
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..++|.|.||||||.++..++..+.... .+.++++++++......+.+.+.+-
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~-----~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSE-----EGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccc-----cCCceEEEEecchHHHHHHHHHhhh
Confidence 3579999999999999999999992221 3788999999999888888777654
No 112
>PRK08727 hypothetical protein; Validated
Probab=98.58 E-value=8.9e-07 Score=58.37 Aligned_cols=35 Identities=26% Similarity=0.410 Sum_probs=29.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
..+++.||+||||||++.+++..+.+. +.++.++.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~-------~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQA-------GRSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc-------CCcEEEEe
Confidence 468999999999999999999998776 56777766
No 113
>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=98.57 E-value=1.3e-07 Score=61.73 Aligned_cols=54 Identities=30% Similarity=0.568 Sum_probs=40.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.||||||||.++..++...+++ .+.++++++. .+..+++.+.+++++-
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~------~ge~vlyvs~-ee~~~~l~~~~~s~g~ 72 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKN------FGEKVLYVSF-EEPPEELIENMKSFGW 72 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHH------HT--EEEEES-SS-HHHHHHHHHTTTS
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhh------cCCcEEEEEe-cCCHHHHHHHHHHcCC
Confidence 4578999999999999999888776665 2567888884 5556888888888764
No 114
>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=98.57 E-value=5.2e-07 Score=67.68 Aligned_cols=68 Identities=24% Similarity=0.198 Sum_probs=53.2
Q ss_pred CCHHHHHHHHHHhc----CCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 20 LNTIQFEAYKAALT----REFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 20 l~~~Q~~~i~~~~~----~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+++.|.+.+..+.+ ++.+++.+|||||||. +++..+.+..+.. ...+|++++.|+.-+.|+++.+++.
T Consensus 11 ~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~-----~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP-----EVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred CCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc-----ccccEEEEcccchHHHHHHHHHHhh
Confidence 46889888887663 6799999999999995 4445555544331 2478999999999999999999984
No 115
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=98.56 E-value=2e-07 Score=62.13 Aligned_cols=54 Identities=30% Similarity=0.521 Sum_probs=44.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.+..++|.|+||||||.++...+....+. +.++++++ +.+...++.+.+.+++-
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~-------ge~vlyvs-~~e~~~~l~~~~~~~g~ 75 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGARE-------GEPVLYVS-TEESPEELLENARSFGW 75 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhc-------CCcEEEEE-ecCCHHHHHHHHHHcCC
Confidence 45789999999999999999999988887 78888888 55567777777776653
No 116
>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=98.55 E-value=9.1e-08 Score=56.42 Aligned_cols=39 Identities=28% Similarity=0.480 Sum_probs=29.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCCh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~ 79 (97)
+..++|.||||||||+++..++..+... ...++++..+.
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~-------~~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPP-------GGGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCC-------CCCEEEECCEE
Confidence 4678999999999999999998887554 23466666543
No 117
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.55 E-value=3e-07 Score=68.01 Aligned_cols=74 Identities=23% Similarity=0.229 Sum_probs=64.4
Q ss_pred ccCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
.-.|.|+..|+.++..+... -+-+|+|..|||||.++...+..++.. +.++.+++||..++.|-.+.
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~-------G~Q~ALMAPTEILA~QH~~~ 330 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA-------GYQAALMAPTEILAEQHYES 330 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc-------CCeeEEeccHHHHHHHHHHH
Confidence 45788999999999998752 256899999999999988888877777 88999999999999999999
Q ss_pred HHhhccC
Q psy16285 89 VLKYTQN 95 (97)
Q Consensus 89 l~~~~~~ 95 (97)
+.+++.+
T Consensus 331 ~~~~l~~ 337 (677)
T COG1200 331 LRKWLEP 337 (677)
T ss_pred HHHHhhh
Confidence 9998864
No 118
>PRK05642 DNA replication initiation factor; Validated
Probab=98.54 E-value=3e-07 Score=60.65 Aligned_cols=36 Identities=14% Similarity=0.254 Sum_probs=29.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..+++.||+|+||||++.+++..+... +.+++++..
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~-------~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQR-------GEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhC-------CCcEEEeeH
Confidence 467899999999999999998887654 567777773
No 119
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=98.53 E-value=5.7e-07 Score=58.71 Aligned_cols=41 Identities=15% Similarity=0.216 Sum_probs=31.1
Q ss_pred CHHHHHHHHHHhc----CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 21 NTIQFEAYKAALT----REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 21 ~~~Q~~~i~~~~~----~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+......+..+.. .+.+++.||+|||||+++.++...+...
T Consensus 25 ~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~ 69 (227)
T PRK08903 25 NAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYG 69 (227)
T ss_pred cHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 3445555555533 3579999999999999999999887665
No 120
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=98.53 E-value=2.9e-07 Score=60.44 Aligned_cols=53 Identities=19% Similarity=0.371 Sum_probs=42.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.|+||+|||+++..++...+.+ +.++++++.. +..+++.+++.+++-
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~-------g~~~~y~~~e-~~~~~~~~~~~~~g~ 77 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQ-------GKKVYVITTE-NTSKSYLKQMESVKI 77 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhC-------CCEEEEEEcC-CCHHHHHHHHHHCCC
Confidence 4578999999999999999998877665 7788888864 456788888887764
No 121
>PRK04328 hypothetical protein; Provisional
Probab=98.52 E-value=3.2e-07 Score=61.01 Aligned_cols=53 Identities=21% Similarity=0.300 Sum_probs=41.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.||||||||+++..++...+++ +.++++++ +.+..+++.+.+.+++-
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~-------ge~~lyis-~ee~~~~i~~~~~~~g~ 75 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQM-------GEPGVYVA-LEEHPVQVRRNMRQFGW 75 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhc-------CCcEEEEE-eeCCHHHHHHHHHHcCC
Confidence 4578999999999999999988887666 67788887 44456677777777653
No 122
>PRK05973 replicative DNA helicase; Provisional
Probab=98.50 E-value=3.6e-07 Score=60.55 Aligned_cols=54 Identities=13% Similarity=0.238 Sum_probs=41.6
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.+..++|.|+||+|||+++..++.....+ +.++++++.. +..+++.+++..++-
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~-------Ge~vlyfSlE-es~~~i~~R~~s~g~ 116 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAMKS-------GRTGVFFTLE-YTEQDVRDRLRALGA 116 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHHhc-------CCeEEEEEEe-CCHHHHHHHHHHcCC
Confidence 45678999999999999999998888766 6778887743 335777777776653
No 123
>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=98.49 E-value=4.4e-07 Score=59.15 Aligned_cols=54 Identities=19% Similarity=0.218 Sum_probs=43.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
+..++|.|+||+|||+++..++...+++ +.++++++. ....+++.+++..++.+
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~-------g~~~~y~s~-e~~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKN-------GEKAMYISL-EEREERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhC-------CCeEEEEEC-CCCHHHHHHHHHHcCCC
Confidence 4578999999999999999998887766 678888875 44688888888777643
No 124
>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=98.48 E-value=1.1e-06 Score=56.94 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHh---cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 21 NTIQFEAYKAAL---TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 21 ~~~Q~~~i~~~~---~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..-.+.+..+. .+..++|.||+|||||+++..++..+.+.
T Consensus 22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~ 65 (226)
T TIGR03420 22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER 65 (226)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 333444555542 24689999999999999999998887654
No 125
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.47 E-value=2e-06 Score=64.19 Aligned_cols=71 Identities=14% Similarity=0.240 Sum_probs=57.7
Q ss_pred ccCCCCCHHHHHHHHHHhcC-----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR-----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~-----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
...+.....|..++..+.++ ...++.|.+|||||+++..++..+ ++++||++|+...+.++.+.+
T Consensus 5 ~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----------~~p~Lvi~~n~~~A~ql~~el 74 (655)
T TIGR00631 5 HSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----------NRPTLVIAHNKTLAAQLYNEF 74 (655)
T ss_pred ccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----------CCCEEEEECCHHHHHHHHHHH
Confidence 34566778898888887542 256799999999999987776554 678999999999999999999
Q ss_pred HhhccC
Q psy16285 90 LKYTQN 95 (97)
Q Consensus 90 ~~~~~~ 95 (97)
+.|+.+
T Consensus 75 ~~f~p~ 80 (655)
T TIGR00631 75 KEFFPE 80 (655)
T ss_pred HHhCCC
Confidence 999743
No 126
>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=98.46 E-value=3.9e-07 Score=54.11 Aligned_cols=22 Identities=41% Similarity=0.777 Sum_probs=20.2
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++.||||||||+++..++..+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 5799999999999999998887
No 127
>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=98.46 E-value=1.3e-06 Score=66.80 Aligned_cols=66 Identities=26% Similarity=0.269 Sum_probs=48.2
Q ss_pred cCCCCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
..+..++.|.+.+..+. ++..+++.+|||||||.....-+...... +++++|.+||+.+.+|+..+
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~-------~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAIT-------EKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcC-------CCeEEEEeCcHHHHHHHHHH
Confidence 45778999998666433 46788999999999996533332222222 67999999999999998763
No 128
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=98.46 E-value=4.3e-07 Score=65.55 Aligned_cols=53 Identities=17% Similarity=0.315 Sum_probs=44.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.||||+|||+++...+....++ +.++++++ ..+..+++..+.++++-
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~-------ge~~~y~s-~eEs~~~i~~~~~~lg~ 315 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACAN-------KERAILFA-YEESRAQLLRNAYSWGI 315 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHC-------CCeEEEEE-eeCCHHHHHHHHHHcCC
Confidence 3478999999999999999999988776 67888877 56678888888888764
No 129
>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=98.46 E-value=8.4e-07 Score=61.41 Aligned_cols=46 Identities=26% Similarity=0.300 Sum_probs=36.7
Q ss_pred cCCCCCHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 16 EELGLNTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.-++.|.+.+..... .++++|.||||||||+++..++..+.+.
T Consensus 15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~ 67 (365)
T TIGR02928 15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEA 67 (365)
T ss_pred CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 456778888877777653 2579999999999999999999887543
No 130
>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=98.45 E-value=1.1e-06 Score=58.85 Aligned_cols=28 Identities=29% Similarity=0.404 Sum_probs=23.6
Q ss_pred HhcCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 31 ALTREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 31 ~~~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..+..+++.||||||||+++..++..+
T Consensus 18 l~~g~~vLL~G~~GtGKT~lA~~la~~l 45 (262)
T TIGR02640 18 LKSGYPVHLRGPAGTGKTTLAMHVARKR 45 (262)
T ss_pred HhcCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3356789999999999999999988744
No 131
>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=98.44 E-value=1.1e-06 Score=56.75 Aligned_cols=45 Identities=18% Similarity=0.313 Sum_probs=33.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC---ChHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY---TNHALDQFVE 87 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~---~~~~~~~~~~ 87 (97)
.+++.||+|+||||++..++.++..+ +.++.++|. ...+.+|+..
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~-------~~~v~lis~D~~R~ga~eQL~~ 50 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK-------GKKVALISADTYRIGAVEQLKT 50 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT-------T--EEEEEESTSSTHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc-------cccceeecCCCCCccHHHHHHH
Confidence 57899999999999999999998776 566777764 4456666544
No 132
>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=98.44 E-value=5.7e-07 Score=64.92 Aligned_cols=55 Identities=15% Similarity=0.352 Sum_probs=43.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
+..++|.||||||||+++..++..-+.+ .+.++++++.. +..+++.+..++++-+
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~------~ge~~lyvs~e-E~~~~l~~~~~~~G~~ 75 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIH------FDEPGVFVTFE-ESPQDIIKNARSFGWD 75 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHh------CCCCEEEEEEe-cCHHHHHHHHHHcCCC
Confidence 4578999999999999999988765554 36788888854 6788888888887643
No 133
>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=98.44 E-value=6.5e-07 Score=58.45 Aligned_cols=52 Identities=23% Similarity=0.452 Sum_probs=38.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+..++|.||||+|||+++..++...+.+ +.++++++. ....+++.++.++++
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~-------g~~~~~is~-e~~~~~i~~~~~~~g 71 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRD-------GDPVIYVTT-EESRESIIRQAAQFG 71 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhc-------CCeEEEEEc-cCCHHHHHHHHHHhC
Confidence 5688999999999999999988776655 567777774 334566666655544
No 134
>KOG0952|consensus
Probab=98.43 E-value=1e-06 Score=67.74 Aligned_cols=78 Identities=23% Similarity=0.188 Sum_probs=60.0
Q ss_pred CCCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhchh---hhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 17 ELGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKNKE---LARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~---~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
.-.+|..|..+...+.+ +++.+|.+|+|+|||.++...+-..+++.. ....+..+|++++|.+.++.++.+.+.+-
T Consensus 108 f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kk 187 (1230)
T KOG0952|consen 108 FEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKK 187 (1230)
T ss_pred HHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhh
Confidence 34578889999988885 579999999999999987766666666411 01114679999999999999999887665
Q ss_pred cc
Q psy16285 93 TQ 94 (97)
Q Consensus 93 ~~ 94 (97)
+.
T Consensus 188 l~ 189 (1230)
T KOG0952|consen 188 LA 189 (1230)
T ss_pred cc
Confidence 43
No 135
>COG4889 Predicted helicase [General function prediction only]
Probab=98.43 E-value=9.9e-07 Score=67.38 Aligned_cols=69 Identities=23% Similarity=0.216 Sum_probs=57.4
Q ss_pred cccCCCCCHHHHHHHHHHhc----CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 14 VQEELGLNTIQFEAYKAALT----REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 14 ~~~~~~l~~~Q~~~i~~~~~----~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
......+++.|+.|++.+.+ +.+.=++.++|||||++++.+.+++. ..++|+++|+..++.|-++.+
T Consensus 156 l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala---------~~~iL~LvPSIsLLsQTlrew 226 (1518)
T COG4889 156 LKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALA---------AARILFLVPSISLLSQTLREW 226 (1518)
T ss_pred cCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHh---------hhheEeecchHHHHHHHHHHH
Confidence 34567789999999999886 35666778999999999999999884 458999999999999977766
Q ss_pred Hh
Q psy16285 90 LK 91 (97)
Q Consensus 90 ~~ 91 (97)
..
T Consensus 227 ~~ 228 (1518)
T COG4889 227 TA 228 (1518)
T ss_pred hh
Confidence 54
No 136
>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=98.42 E-value=6.1e-07 Score=55.29 Aligned_cols=52 Identities=25% Similarity=0.349 Sum_probs=41.5
Q ss_pred CCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 34 REFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+...+|.-.||+|||+ ++-.++.+.++. ..++|++.||+..++++.+.|+..
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~-------~~rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKR-------RLRVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHT-------T--EEEEESSHHHHHHHHHHTTTS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHc-------cCeEEEecccHHHHHHHHHHHhcC
Confidence 4567889999999999 678888888777 789999999999999999988754
No 137
>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=98.42 E-value=3.1e-07 Score=60.39 Aligned_cols=24 Identities=38% Similarity=0.657 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++++.||||+||||+|..++..+
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e~ 74 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANEL 74 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHHC
T ss_pred ceEEEECCCccchhHHHHHHHhcc
Confidence 478999999999999999888876
No 138
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=98.42 E-value=1.3e-06 Score=60.33 Aligned_cols=42 Identities=24% Similarity=0.352 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 19 GLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.+++.|.+.+..+.. +.+++|.|++|+||||++.+++..+..
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~ 170 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVA 170 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhc
Confidence 467778888888775 568999999999999999999887753
No 139
>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=98.42 E-value=6.9e-07 Score=69.75 Aligned_cols=56 Identities=25% Similarity=0.360 Sum_probs=47.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhch-hhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNK-ELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~-~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++..+|.+.+|||||+++..+...++-+. .. ...+||++++|+.|..++.+++++.
T Consensus 9 ~G~~lieAsAGtGKT~ti~~~~lrll~~~~~~---~~~~iLvvTFT~aAt~el~~RIr~r 65 (1087)
T TIGR00609 9 NGTFLIEASAGTGKTFTIAQLYLRLLLEGGPL---TVEEILVVTFTNAATEELKTRIRGR 65 (1087)
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHHhcCCCC---ChhhEEEEehhHHHHHHHHHHHHHH
Confidence 46789999999999999888887777753 11 4689999999999999999999874
No 140
>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=98.41 E-value=1.7e-06 Score=57.94 Aligned_cols=38 Identities=21% Similarity=0.276 Sum_probs=31.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..++|.||||||||+++..++.....+ +.++++++..
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~-------Ge~vlyis~E 73 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASR-------GNPVLFVTVE 73 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhC-------CCcEEEEEec
Confidence 4578999999999999999988877665 6778888754
No 141
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.40 E-value=2.5e-06 Score=66.57 Aligned_cols=67 Identities=15% Similarity=0.176 Sum_probs=52.3
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+...+++.|.++|..++.++.+++..|||+|||..... -.+. . +..++|++|+.+++.+.+.++...
T Consensus 457 G~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQL--PAL~-~-------~GiTLVISPLiSLmqDQV~~L~~~ 523 (1195)
T PLN03137 457 GNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQL--PALI-C-------PGITLVISPLVSLIQDQIMNLLQA 523 (1195)
T ss_pred CCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHH--HHHH-c-------CCcEEEEeCHHHHHHHHHHHHHhC
Confidence 34578999999999999999999999999999965332 2232 2 457999999999987666666544
No 142
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=98.40 E-value=8.9e-07 Score=60.52 Aligned_cols=29 Identities=24% Similarity=0.536 Sum_probs=26.7
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.++|+||+||||||++.+++.++.+.
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~ 152 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKH 152 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence 45789999999999999999999999887
No 143
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.40 E-value=2.8e-06 Score=63.13 Aligned_cols=72 Identities=24% Similarity=0.219 Sum_probs=55.7
Q ss_pred ccCCCCCHHHHHHHHHHh---cC-CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAAL---TR-EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~---~~-~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
...+..++.|.+.+..+. .+ ..+++.+|+|||||.-.+..+...... .+.++++.+.|+...+|+.++..
T Consensus 11 ~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~------~~~~viist~t~~lq~q~~~~~~ 84 (654)
T COG1199 11 FPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYARE------EGKKVIISTRTKALQEQLLEEDL 84 (654)
T ss_pred CCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHH------cCCcEEEECCCHHHHHHHHHhhc
Confidence 456778999999887655 34 459999999999998655544444333 36899999999999999999887
Q ss_pred hh
Q psy16285 91 KY 92 (97)
Q Consensus 91 ~~ 92 (97)
..
T Consensus 85 ~~ 86 (654)
T COG1199 85 PI 86 (654)
T ss_pred ch
Confidence 65
No 144
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.40 E-value=8e-07 Score=62.55 Aligned_cols=47 Identities=26% Similarity=0.324 Sum_probs=31.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
.+++++||||||||+++..++... +..+.-++.+...+.++.+.+++
T Consensus 49 ~SmIl~GPPG~GKTTlA~liA~~~----------~~~f~~~sAv~~gvkdlr~i~e~ 95 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLIAGTT----------NAAFEALSAVTSGVKDLREIIEE 95 (436)
T ss_pred ceeEEECCCCCCHHHHHHHHHHhh----------CCceEEeccccccHHHHHHHHHH
Confidence 478999999999999998887755 33455555444444444444433
No 145
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=98.40 E-value=2.2e-06 Score=59.90 Aligned_cols=47 Identities=34% Similarity=0.406 Sum_probs=36.2
Q ss_pred ccCCCCCHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 15 QEELGLNTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..+.-++.+.+.+..... .++++|.||||||||+++..++..+...
T Consensus 29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~ 82 (394)
T PRK00411 29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEI 82 (394)
T ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 3556667777777766542 2578999999999999999999887654
No 146
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.40 E-value=2.3e-06 Score=65.47 Aligned_cols=71 Identities=21% Similarity=0.266 Sum_probs=61.3
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
.+...|.+|++.+.++++++|+-|||+|||-. ..-++..+++. +..+.|++-|+|.++..=.++++++..+
T Consensus 70 ~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~------~~a~AL~lYPtnALa~DQ~~rl~~~~~~ 141 (851)
T COG1205 70 RLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRD------PSARALLLYPTNALANDQAERLRELISD 141 (851)
T ss_pred cccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhC------cCccEEEEechhhhHhhHHHHHHHHHHh
Confidence 37788999999999999999999999999975 55667777776 4668999999999999999999988754
No 147
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.39 E-value=3.1e-07 Score=54.72 Aligned_cols=58 Identities=24% Similarity=0.502 Sum_probs=34.0
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++.++|.||||+|||+++..++..+........ ...-+.+.++.......+...+.+.
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~ 61 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKN-HPDVIYVNCPSSRTPRDFAQEILEA 61 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCC-CEEEEEEEHHHHSSHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccC-CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence 467899999999999999999988866421100 1223445555444455555555443
No 148
>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=98.38 E-value=2.4e-06 Score=63.51 Aligned_cols=55 Identities=16% Similarity=0.217 Sum_probs=42.0
Q ss_pred cCCceEEeCCCCCchHHHHHHHH-HHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIV-EGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~-~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
++..+++.+|+|||||.....-+ ..+... .+.+++|.+||+.+.+|+.+.+..+.
T Consensus 15 ~~~~lliEA~TGtGKTlAYLlpal~~~~~~------~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 15 QKRIGMLEASTGVGKTLAMIMAALTMLKER------PDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHHHHhc------cCceEEEECCcHHHHHHHHHHHHHHH
Confidence 45788999999999996433333 333322 36899999999999999999887765
No 149
>KOG0331|consensus
Probab=98.38 E-value=1e-06 Score=63.80 Aligned_cols=80 Identities=18% Similarity=0.132 Sum_probs=60.9
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHh-chhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLK-NKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~-~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
....+.+.|.+.+..++.++.++....+|||||.- ++=.+.++.. .....+..+.++||++||++++.|+...+.+|.
T Consensus 110 g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~ 189 (519)
T KOG0331|consen 110 GFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFG 189 (519)
T ss_pred CCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHc
Confidence 44557888999999999999999999999999963 2223344443 222233357789999999999999999999987
Q ss_pred cC
Q psy16285 94 QN 95 (97)
Q Consensus 94 ~~ 95 (97)
..
T Consensus 190 ~~ 191 (519)
T KOG0331|consen 190 KS 191 (519)
T ss_pred CC
Confidence 53
No 150
>KOG1123|consensus
Probab=98.38 E-value=1.5e-07 Score=68.06 Aligned_cols=81 Identities=19% Similarity=0.349 Sum_probs=63.8
Q ss_pred cccccccCCccc---------ccCCCCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCC
Q psy16285 3 SILDAYDLSANV---------QEELGLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSG 70 (97)
Q Consensus 3 ~~~~~~~~~~~~---------~~~~~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~ 70 (97)
+++++|++..+. .....++++|...+.....+ ++.+|.-|.|+|||.+....+..+ .+
T Consensus 277 PlLeEYDFRND~~npdl~idLKPst~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~ti----------kK 346 (776)
T KOG1123|consen 277 PLLEEYDFRNDNVNPDLDIDLKPSTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACTI----------KK 346 (776)
T ss_pred hhhhhhccccCCCCCCCCcCcCcccccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeeee----------cc
Confidence 467777774332 23456899999999998854 467889999999998765555444 67
Q ss_pred CEEEEeCChHHHHHHHHHHHhhc
Q psy16285 71 PILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 71 ~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
++||+|.+..+++||..++..|.
T Consensus 347 ~clvLcts~VSVeQWkqQfk~ws 369 (776)
T KOG1123|consen 347 SCLVLCTSAVSVEQWKQQFKQWS 369 (776)
T ss_pred cEEEEecCccCHHHHHHHHHhhc
Confidence 89999999999999999988775
No 151
>PLN03025 replication factor C subunit; Provisional
Probab=98.36 E-value=1e-06 Score=60.42 Aligned_cols=43 Identities=28% Similarity=0.330 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 19 GLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.-++...+.+..+... +++++.||||||||+++..++..+...
T Consensus 16 ~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~ 61 (319)
T PLN03025 16 VGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP 61 (319)
T ss_pred cCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 3345555566655433 478999999999999999999888543
No 152
>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=98.35 E-value=1.5e-06 Score=52.99 Aligned_cols=36 Identities=28% Similarity=0.529 Sum_probs=29.4
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCCh
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTN 79 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~ 79 (97)
++|.||||+|||+++..++..+... +.+++++....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~-------~~~v~~~~~e~ 37 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATK-------GGKVVYVDIEE 37 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhc-------CCEEEEEECCc
Confidence 6899999999999999999888664 66777776543
No 153
>KOG0744|consensus
Probab=98.35 E-value=7.5e-07 Score=61.52 Aligned_cols=59 Identities=17% Similarity=0.322 Sum_probs=37.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC-----------ChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY-----------TNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~-----------~~~~~~~~~~~l~~~~~ 94 (97)
++.+++.||||||||++..+++..+--+. .+...+.+++=.. +...+..+++++.+.-+
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~--~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~ 246 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSIRT--NDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVE 246 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhheeee--cCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHHh
Confidence 35678999999999999888887763321 1112333443322 55667777777766543
No 154
>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=98.35 E-value=2.2e-06 Score=58.56 Aligned_cols=42 Identities=24% Similarity=0.350 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 19 GLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.+++.+.+.+..+.. +.+++|.||+|+||||++.+++..+-.
T Consensus 116 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~ 158 (299)
T TIGR02782 116 IMTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAK 158 (299)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhc
Confidence 356667777777665 568999999999999999999887754
No 155
>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=98.35 E-value=6.5e-07 Score=54.17 Aligned_cols=23 Identities=39% Similarity=0.647 Sum_probs=21.2
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.||||||||+++..++..+
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 37899999999999999999888
No 156
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=98.34 E-value=2.5e-06 Score=58.75 Aligned_cols=40 Identities=28% Similarity=0.390 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHh-cCCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 20 LNTIQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 20 l~~~Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+++.|.+.+..+. .+.+++|.|+||+||||++.+++..+.
T Consensus 133 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~ 173 (319)
T PRK13894 133 MTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMV 173 (319)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhh
Confidence 5667778887765 467999999999999999999987764
No 157
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.34 E-value=7.5e-06 Score=58.61 Aligned_cols=37 Identities=24% Similarity=0.243 Sum_probs=29.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
..+++.||||+||||++.+++..+.+.. ++.+++++.
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~-----~~~~v~yi~ 185 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKN-----PNAKVVYVT 185 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEEE
Confidence 3589999999999999999999987752 245666665
No 158
>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=98.33 E-value=5.6e-07 Score=53.08 Aligned_cols=22 Identities=45% Similarity=0.859 Sum_probs=20.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++|.||||+||||++..++..+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999999999998875
No 159
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=98.33 E-value=2.8e-06 Score=53.85 Aligned_cols=59 Identities=24% Similarity=0.454 Sum_probs=38.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhh---cCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELAR---YMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~---~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+...+|.||||+|||+++..++..+.....-.+ ..+.+++++..... ..++.+++....
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 567899999999999999999998876321111 13678888886555 666777776544
No 160
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=98.33 E-value=5e-06 Score=59.52 Aligned_cols=37 Identities=22% Similarity=0.186 Sum_probs=30.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.||||+||||++.+++..+.+.. ++.+++++..
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~-----~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNE-----PDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhC-----CCCeEEEEEH
Confidence 589999999999999999999887652 2456777663
No 161
>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=98.32 E-value=1.9e-06 Score=67.56 Aligned_cols=57 Identities=26% Similarity=0.282 Sum_probs=47.4
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...+++|.+++|||||+++...+..++..+. .+.+|+++++|+.++.+|.+++.+..
T Consensus 9 p~~~~~~~a~agsgkt~~l~~~~~~~~~~~~----~~~~i~~~t~t~~aa~em~~Ri~~~L 65 (1141)
T TIGR02784 9 PKTSAWVSANAGSGKTHVLTQRVIRLLLNGV----PPSKILCLTYTKAAAAEMQNRVFDRL 65 (1141)
T ss_pred CCCCEEEEEECCCCHHHHHHHHHHHHHHcCC----CCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 3468899999999999988877777765432 47899999999999999999988765
No 162
>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=98.32 E-value=2.2e-06 Score=57.55 Aligned_cols=45 Identities=27% Similarity=0.519 Sum_probs=36.1
Q ss_pred cCCCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 16 EELGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..+.+.+.|.+.+..+.. ++.++|.||+|+||||++.+++..+..
T Consensus 60 ~~lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~ 106 (264)
T cd01129 60 EKLGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNT 106 (264)
T ss_pred HHcCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence 345578888888877664 467899999999999999988887754
No 163
>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=98.31 E-value=2e-06 Score=55.43 Aligned_cols=38 Identities=21% Similarity=0.420 Sum_probs=30.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..+.|.||||+|||+++..++...... +.+++++...
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~-------g~~v~yi~~e 49 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQ-------GKKVVYIDTE 49 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhC-------CCeEEEEECC
Confidence 4578999999999999999998887765 5667777754
No 164
>PRK14974 cell division protein FtsY; Provisional
Probab=98.31 E-value=3.1e-06 Score=58.70 Aligned_cols=51 Identities=24% Similarity=0.260 Sum_probs=36.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC---hHHHHHHHHHHHhh
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT---NHALDQFVEGVLKY 92 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~---~~~~~~~~~~l~~~ 92 (97)
..+++.||||+||||++..++..+... +.++++++.. ..+.+|+.......
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~-------g~~V~li~~Dt~R~~a~eqL~~~a~~l 194 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKN-------GFSVVIAAGDTFRAGAIEQLEEHAERL 194 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHc-------CCeEEEecCCcCcHHHHHHHHHHHHHc
Confidence 367899999999999999999877554 5677666543 55666665544443
No 165
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.31 E-value=7.2e-06 Score=62.65 Aligned_cols=69 Identities=23% Similarity=0.115 Sum_probs=49.1
Q ss_pred cCCCCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHH-HHHH
Q psy16285 16 EELGLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV-EGVL 90 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~-~~l~ 90 (97)
..+..++.|.+....+. ++..+++.++||||||.....- .+... .+.+++|.+||.++.+|+. +.+.
T Consensus 242 ~~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp--~l~~~------~~~~vvI~t~T~~Lq~Ql~~~~i~ 313 (820)
T PRK07246 242 LGLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLP--LLAQS------DQRQIIVSVPTKILQDQIMAEEVK 313 (820)
T ss_pred CCCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHH--HHHhc------CCCcEEEEeCcHHHHHHHHHHHHH
Confidence 45788999999554443 3567889999999999743222 22222 2678999999999999995 4454
Q ss_pred hh
Q psy16285 91 KY 92 (97)
Q Consensus 91 ~~ 92 (97)
.+
T Consensus 314 ~l 315 (820)
T PRK07246 314 AI 315 (820)
T ss_pred HH
Confidence 43
No 166
>KOG0335|consensus
Probab=98.31 E-value=1.3e-06 Score=62.63 Aligned_cols=80 Identities=18% Similarity=0.116 Sum_probs=62.3
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhc-----CCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARY-----MSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~-----~~~~ilv~~~~~~~~~~~~~~ 88 (97)
......++.|+-++..+..++-++..+++|+|||. .+.=++..+++.+....+ ...+.++++||+++++|+.++
T Consensus 92 ~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ne 171 (482)
T KOG0335|consen 92 SGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNE 171 (482)
T ss_pred ccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHH
Confidence 34566788999999988888999999999999997 345556666665432111 246899999999999999999
Q ss_pred HHhhcc
Q psy16285 89 VLKYTQ 94 (97)
Q Consensus 89 l~~~~~ 94 (97)
.+++..
T Consensus 172 a~k~~~ 177 (482)
T KOG0335|consen 172 ARKFSY 177 (482)
T ss_pred HHhhcc
Confidence 998864
No 167
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=98.30 E-value=2.8e-06 Score=60.90 Aligned_cols=35 Identities=31% Similarity=0.421 Sum_probs=30.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.||+|+||||++.+++..+... +.+++++..
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~-------~~~v~yi~~ 177 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRES-------GGKILYVRS 177 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHc-------CCCEEEeeH
Confidence 58999999999999999999998765 677877764
No 168
>KOG0991|consensus
Probab=98.29 E-value=2.1e-06 Score=57.22 Aligned_cols=71 Identities=24% Similarity=0.299 Sum_probs=44.0
Q ss_pred CCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEE-EEeCChHHHHHHHHHHHhhcc
Q psy16285 19 GLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPIL-IVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~il-v~~~~~~~~~~~~~~l~~~~~ 94 (97)
.-|+.-.+.+..+.+. +++++.|||||||||.+..++..++-...+ .-+| +.+....-.+.+..+++.|.+
T Consensus 30 VGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~k-----e~vLELNASdeRGIDvVRn~IK~FAQ 104 (333)
T KOG0991|consen 30 VGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYK-----EAVLELNASDERGIDVVRNKIKMFAQ 104 (333)
T ss_pred hCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhh-----hHhhhccCccccccHHHHHHHHHHHH
Confidence 3345555555554432 689999999999999999999988775321 1122 233333445555666665553
No 169
>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=98.29 E-value=7.7e-07 Score=59.43 Aligned_cols=26 Identities=42% Similarity=0.505 Sum_probs=22.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.++++.||||||||+++..++..+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 46799999999999999999887754
No 170
>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=98.29 E-value=1.9e-06 Score=54.90 Aligned_cols=41 Identities=22% Similarity=0.229 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 18 LGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
-.+++.+.+.+....+ +.+++|.||+|+||||++..++..+
T Consensus 8 g~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 8 GTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CCCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 3567888888888775 5789999999999999988887665
No 171
>PRK04195 replication factor C large subunit; Provisional
Probab=98.27 E-value=4e-06 Score=60.50 Aligned_cols=53 Identities=21% Similarity=0.379 Sum_probs=36.9
Q ss_pred ccccccCCcccccCCCCCHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 4 ILDAYDLSANVQEELGLNTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 4 ~~~~~~~~~~~~~~~~l~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
|.+.|.+. ....+..++.+.+.+..+.. ...++|.||||+|||+++..++..+
T Consensus 4 W~eKyrP~--~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 4 WVEKYRPK--TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred chhhcCCC--CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 44555332 22345566767667766553 3578999999999999999998776
No 172
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=98.27 E-value=7.7e-06 Score=54.70 Aligned_cols=57 Identities=21% Similarity=0.227 Sum_probs=39.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++.-.+|+|||..+..++..+....... ...++||+||+ ..+.+|...+.++..
T Consensus 26 ~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~--~~~~~LIv~P~-~l~~~W~~E~~~~~~ 82 (299)
T PF00176_consen 26 RGGLLADEMGLGKTITAIALISYLKNEFPQR--GEKKTLIVVPS-SLLSQWKEEIEKWFD 82 (299)
T ss_dssp -EEEE---TTSSHHHHHHHHHHHHHHCCTTS--S-S-EEEEE-T-TTHHHHHHHHHHHSG
T ss_pred CCEEEEECCCCCchhhhhhhhhhhhhccccc--cccceeEeecc-chhhhhhhhhccccc
Confidence 4567777899999999999998777663110 11259999999 778999999999873
No 173
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=98.27 E-value=1e-05 Score=60.40 Aligned_cols=73 Identities=14% Similarity=0.216 Sum_probs=59.3
Q ss_pred cccccCCCCCHHHHHHHHHHhcC-----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHH
Q psy16285 12 ANVQEELGLNTIQFEAYKAALTR-----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV 86 (97)
Q Consensus 12 ~~~~~~~~l~~~Q~~~i~~~~~~-----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~ 86 (97)
+.....+.++..|..++..+.+. ...+|.|.+|+||+.++..++... ++++|+++|+...+.++.
T Consensus 5 ~~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~----------~r~vLIVt~~~~~A~~l~ 74 (652)
T PRK05298 5 FKLVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARL----------QRPTLVLAHNKTLAAQLY 74 (652)
T ss_pred cccccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHh----------CCCEEEEECCHHHHHHHH
Confidence 34567788999999999887532 256799999999999977655432 678999999999999999
Q ss_pred HHHHhhcc
Q psy16285 87 EGVLKYTQ 94 (97)
Q Consensus 87 ~~l~~~~~ 94 (97)
+.|..|..
T Consensus 75 ~dL~~~~~ 82 (652)
T PRK05298 75 SEFKEFFP 82 (652)
T ss_pred HHHHHhcC
Confidence 99999864
No 174
>KOG0345|consensus
Probab=98.26 E-value=9.5e-06 Score=58.25 Aligned_cols=79 Identities=16% Similarity=0.134 Sum_probs=58.1
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHH-HHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALR-IVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~-~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+....++.|..+|...+.+.-+++.+++|||||.-... +++.+.+......+..-.-+|++||++++.||.+.+..|..
T Consensus 25 GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~ 104 (567)
T KOG0345|consen 25 GFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLE 104 (567)
T ss_pred CCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHH
Confidence 44567899999999999999999999999999974333 33444333221111123679999999999999998887754
No 175
>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=98.26 E-value=3.9e-06 Score=59.23 Aligned_cols=37 Identities=27% Similarity=0.279 Sum_probs=30.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.||+|+||||++.+++..+.+.. ++.+++++..
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~-----~~~~v~yi~~ 174 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENN-----PNAKVVYVSS 174 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhC-----CCCcEEEEEH
Confidence 578999999999999999999987652 2567777763
No 176
>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=98.26 E-value=3.6e-06 Score=55.23 Aligned_cols=40 Identities=33% Similarity=0.507 Sum_probs=33.4
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
.+..++|.|+||+|||+++..++..+..+ .+.++++++..
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~------~g~~vly~s~E 51 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKK------QGKPVLFFSLE 51 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHh------CCCceEEEeCC
Confidence 45688999999999999999998888776 37788888853
No 177
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.26 E-value=8.9e-06 Score=62.85 Aligned_cols=67 Identities=28% Similarity=0.325 Sum_probs=48.9
Q ss_pred cCCCCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
..+..++.|.+....+. ++..++|.+|||||||.--..-+...... .+++++|.++|..+-+|++++
T Consensus 254 ~~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~------~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 254 PKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKK------KEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhc------cCCeEEEEcCCHHHHHHHHHh
Confidence 45788999999666544 35678899999999997432222222222 378999999999999999774
No 178
>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=98.26 E-value=1.9e-06 Score=55.44 Aligned_cols=27 Identities=26% Similarity=0.560 Sum_probs=23.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.++|.||+|+||||++..++..+...
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~ 28 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKN 28 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence 568999999999999999888887644
No 179
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.25 E-value=8.3e-06 Score=51.02 Aligned_cols=42 Identities=17% Similarity=0.289 Sum_probs=29.4
Q ss_pred CCHHHHHHHHHHhc------CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 20 LNTIQFEAYKAALT------REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 20 l~~~Q~~~i~~~~~------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
-++.|.+.+..... ...++|.|++|+|||+++..+...+...
T Consensus 4 gR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 4 GREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp T-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 35677777777661 3589999999999999999988888766
No 180
>CHL00181 cbbX CbbX; Provisional
Probab=98.25 E-value=3.9e-06 Score=57.04 Aligned_cols=26 Identities=42% Similarity=0.616 Sum_probs=23.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
++++.||||||||++|..++..+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 57899999999999999999887654
No 181
>PRK11823 DNA repair protein RadA; Provisional
Probab=98.24 E-value=3.1e-06 Score=60.64 Aligned_cols=52 Identities=21% Similarity=0.345 Sum_probs=40.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+..++|.|+||+|||+++..++..+.+. +.++++++. .+..+++..+..+++
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~-------g~~vlYvs~-Ees~~qi~~ra~rlg 131 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAA-------GGKVLYVSG-EESASQIKLRAERLG 131 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhc-------CCeEEEEEc-cccHHHHHHHHHHcC
Confidence 3477999999999999999998887654 678888874 456677777766654
No 182
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=98.24 E-value=2.8e-06 Score=61.23 Aligned_cols=46 Identities=24% Similarity=0.452 Sum_probs=37.8
Q ss_pred cCCCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 16 EELGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
....+.+.|.+.+..+.+ ++.++|+||+|+||||++..++..+...
T Consensus 238 ~~Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 238 EKLGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred HHhCCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 445567788888888775 4688999999999999999999988766
No 183
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.24 E-value=1.1e-05 Score=62.10 Aligned_cols=69 Identities=17% Similarity=0.110 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHH-HHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVE-GFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~-~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+.+++.|.+.+..+..+...+...+||+|||..+..-+. .++. +..++|++||..++.|..+.+..+..
T Consensus 91 ~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~--------g~~v~IVTpTrELA~Qdae~m~~L~k 160 (970)
T PRK12899 91 WDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALT--------GKPVHLVTVNDYLAQRDCEWVGSVLR 160 (970)
T ss_pred CCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhh--------cCCeEEEeCCHHHHHHHHHHHHHHHh
Confidence 347888999999888888899999999999986543333 3322 34589999999999999998887753
No 184
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=98.23 E-value=3.5e-06 Score=57.14 Aligned_cols=26 Identities=42% Similarity=0.581 Sum_probs=23.4
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+++.||||||||++|..++..+...
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~ 85 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRL 85 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 68999999999999999998888765
No 185
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=98.23 E-value=3.1e-06 Score=61.36 Aligned_cols=54 Identities=22% Similarity=0.379 Sum_probs=42.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.|+||+|||+++..++...+.+ .+.++++++ ..+..+++.+.+..++-
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~------~ge~~lyis-~ee~~~~i~~~~~~~g~ 84 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKR------FDEPGVFVT-FEESPEDIIRNVASFGW 84 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHh------cCCCEEEEE-ccCCHHHHHHHHHHcCC
Confidence 4578999999999999999998776655 367888887 45567788888877764
No 186
>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=98.23 E-value=5.1e-06 Score=55.21 Aligned_cols=43 Identities=19% Similarity=0.158 Sum_probs=31.3
Q ss_pred CCCCCHHHHHHHHHHh---c--CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 17 ELGLNTIQFEAYKAAL---T--REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~---~--~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.+..+..+.+++.... + .+.++|.||+|+|||+++..+...+.
T Consensus 21 ~~~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 21 FFYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred HhCCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 4455666666666543 2 34789999999999999998877663
No 187
>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=98.23 E-value=6.2e-06 Score=55.68 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=29.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..+++.||+|+||||++..++..+.+. +.+++++.-
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~-------g~~V~li~~ 108 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQ-------GKSVLLAAG 108 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhc-------CCEEEEEeC
Confidence 367788999999999999999887554 677877763
No 188
>KOG0989|consensus
Probab=98.23 E-value=1.6e-06 Score=59.35 Aligned_cols=27 Identities=37% Similarity=0.524 Sum_probs=24.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.+++++.||||||||.++.+.+++++-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 368999999999999999999998877
No 189
>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=98.23 E-value=6.2e-06 Score=65.19 Aligned_cols=72 Identities=18% Similarity=0.156 Sum_probs=52.6
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..++......+.+..+..++.++|.|+|||||||.+-.++...... ...+|+++-|.+.++..+.+++.+..
T Consensus 64 ~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~------~~~~I~~tQPRRlAA~svA~RvA~el 135 (1283)
T TIGR01967 64 DNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRG------SHGLIGHTQPRRLAARTVAQRIAEEL 135 (1283)
T ss_pred CCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCC------CCceEecCCccHHHHHHHHHHHHHHh
Confidence 4455666566677777678899999999999999766555433211 23467778899999999998887754
No 190
>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=98.22 E-value=4.3e-06 Score=57.75 Aligned_cols=44 Identities=20% Similarity=0.211 Sum_probs=35.4
Q ss_pred ccCCCCCHHHHHHHHHHh-cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
...+.+++.-..++..+. .++.+++.||||||||+++..++..+
T Consensus 44 d~~y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 44 DPAYLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred CCCccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 346778877766666555 46789999999999999999998877
No 191
>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=98.22 E-value=7e-06 Score=55.66 Aligned_cols=24 Identities=38% Similarity=0.674 Sum_probs=21.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||+|||+++..++..+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 368999999999999999988776
No 192
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=98.21 E-value=6.8e-06 Score=59.02 Aligned_cols=38 Identities=18% Similarity=0.046 Sum_probs=30.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..++|.|++|+||||++.+++..+.+.. ++.+++++..
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~-----~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNF-----SDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhC-----CCCeEEEEEH
Confidence 3588999999999999999998886642 3567777663
No 193
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.20 E-value=1.1e-05 Score=60.16 Aligned_cols=70 Identities=14% Similarity=0.037 Sum_probs=55.6
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
-.+...+.|..++..+..+. +....||+|||.++...+..... .+..++|++||..++.|..+.+..+..
T Consensus 100 lg~~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al-------~G~~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 100 LGQRHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAAL-------AGLPVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred hCCCCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhh-------cCCeEEEEcCcHHHHHHHHHHHHHHHh
Confidence 35566788999988887776 89999999999876554444333 377999999999999999999888753
No 194
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.20 E-value=3.8e-06 Score=60.21 Aligned_cols=34 Identities=38% Similarity=0.566 Sum_probs=27.3
Q ss_pred HHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 27 AYKAALTREFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 27 ~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.+.....++++++.||||||||+++..++..+..
T Consensus 187 l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~~ 220 (459)
T PRK11331 187 ILKRLTIKKNIILQGPPGVGKTFVARRLAYLLTG 220 (459)
T ss_pred HHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3333345789999999999999999999887754
No 195
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.20 E-value=1.4e-05 Score=60.16 Aligned_cols=67 Identities=16% Similarity=0.079 Sum_probs=47.6
Q ss_pred cCCCCCHHHHHHHHHHh---cC------CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAAL---TR------EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV 86 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~---~~------~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~ 86 (97)
..+..++.|.+....+. .+ +.++|.+|||||||.--+.-+...... .+++|+|-+.|..+-+|++
T Consensus 22 ~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~------~~k~vVIST~T~~LQeQL~ 95 (697)
T PRK11747 22 PGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARA------EKKKLVISTATVALQEQLV 95 (697)
T ss_pred CCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHH------cCCeEEEEcCCHHHHHHHH
Confidence 46889999999655544 33 578899999999996322222111122 3789999999999999997
Q ss_pred HH
Q psy16285 87 EG 88 (97)
Q Consensus 87 ~~ 88 (97)
.+
T Consensus 96 ~k 97 (697)
T PRK11747 96 SK 97 (697)
T ss_pred hh
Confidence 53
No 196
>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=98.20 E-value=4.7e-06 Score=59.37 Aligned_cols=32 Identities=28% Similarity=0.317 Sum_probs=26.7
Q ss_pred HHhcCCceEEeCCCCCchHHHHHHHHHH-HHhc
Q psy16285 30 AALTREFAIIQGPPGTGKTYVALRIVEG-FLKN 61 (97)
Q Consensus 30 ~~~~~~~~~v~Gp~GtGKT~~~~~~~~~-~~~~ 61 (97)
.+.++.++++.||+||||||++.++... ++..
T Consensus 205 fve~~~Nli~lGp~GTGKThla~~l~~~~a~~s 237 (449)
T TIGR02688 205 LVEPNYNLIELGPKGTGKSYIYNNLSPYVILIS 237 (449)
T ss_pred HHhcCCcEEEECCCCCCHHHHHHHHhHHHHHHc
Confidence 3346789999999999999999998877 5555
No 197
>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=98.19 E-value=5.9e-06 Score=55.16 Aligned_cols=51 Identities=14% Similarity=0.178 Sum_probs=37.4
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
.+..++|.||||+|||+++..++..+..+ .+.++++++... ..+++..++.
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~------~g~~vl~iS~E~-~~~~~~~r~~ 79 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQ------HGVRVGTISLEE-PVVRTARRLL 79 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHh------cCceEEEEEccc-CHHHHHHHHH
Confidence 45688999999999999999998887655 367888888533 3444554443
No 198
>PRK04296 thymidine kinase; Provisional
Probab=98.19 E-value=3.2e-06 Score=54.15 Aligned_cols=36 Identities=17% Similarity=0.229 Sum_probs=29.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
...+++||+|+|||+.+..++..+... +.+++++.|
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~-------g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEER-------GMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHc-------CCeEEEEec
Confidence 356899999999999999998888765 667777755
No 199
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=98.19 E-value=6.6e-06 Score=56.71 Aligned_cols=36 Identities=17% Similarity=0.269 Sum_probs=29.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..+++.||+|+||||++..++..+... +.+|++++.
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~-------g~~V~Li~~ 150 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQ-------GKKVLLAAG 150 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhc-------CCeEEEEec
Confidence 467889999999999999999887654 667777763
No 200
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=98.18 E-value=3.6e-06 Score=59.11 Aligned_cols=39 Identities=15% Similarity=0.261 Sum_probs=30.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
++.+++.||+|+||||++..++..+.... +..+|.+++.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~-----G~~~V~lit~ 175 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRF-----GASKVALLTT 175 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc-----CCCeEEEEec
Confidence 46889999999999999999998876541 1356766664
No 201
>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=98.18 E-value=8.9e-06 Score=57.17 Aligned_cols=42 Identities=21% Similarity=0.356 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.+.+...+.+. ..++.++|.||+|+||||++.+++..+.+.
T Consensus 135 lgl~~~~~~~l~--~~~GlilI~G~TGSGKTT~l~al~~~i~~~ 176 (372)
T TIGR02525 135 MGIEPDLFNSLL--PAAGLGLICGETGSGKSTLAASIYQHCGET 176 (372)
T ss_pred cCCCHHHHHHHH--hcCCEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 444554444332 246788999999999999999998888653
No 202
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.18 E-value=1.2e-05 Score=63.72 Aligned_cols=73 Identities=18% Similarity=0.175 Sum_probs=51.1
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...++......+.+..+.+++.++|.|+|||||||.+-.++..+... ....|.++.|.+.++..+..++.+-.
T Consensus 70 ~~~LPi~~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g------~~g~I~~TQPRRlAArsLA~RVA~El 142 (1294)
T PRK11131 70 PENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRG------VKGLIGHTQPRRLAARTVANRIAEEL 142 (1294)
T ss_pred CCCCCHHHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCC------CCCceeeCCCcHHHHHHHHHHHHHHH
Confidence 45566677777777777788899999999999999755554433111 13456677788888777777776543
No 203
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=98.18 E-value=3.4e-06 Score=61.52 Aligned_cols=55 Identities=20% Similarity=0.382 Sum_probs=37.1
Q ss_pred cccccccCCcccccCCCCCHHHHHHHHHHhc--------CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 3 SILDAYDLSANVQEELGLNTIQFEAYKAALT--------REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 3 ~~~~~~~~~~~~~~~~~l~~~Q~~~i~~~~~--------~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.|.|.|.+. ...++..+....+.++.|+. .+.++++||||||||+++..++..+.
T Consensus 8 ~W~~ky~P~--~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg 70 (519)
T PF03215_consen 8 PWVEKYAPK--TLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG 70 (519)
T ss_pred ccchhcCCC--CHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence 355555432 23345556666666666653 23578999999999999988887763
No 204
>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=98.17 E-value=5.2e-06 Score=58.32 Aligned_cols=52 Identities=23% Similarity=0.359 Sum_probs=39.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+..++|.|+||+|||+++..++..+... +.++++++.. +..+++..+..+++
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~-------g~~VlYvs~E-Es~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKR-------GGKVLYVSGE-ESPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhc-------CCeEEEEECC-cCHHHHHHHHHHcC
Confidence 3578999999999999999998887665 5678887743 45667766666554
No 205
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=98.17 E-value=1.3e-05 Score=54.63 Aligned_cols=43 Identities=28% Similarity=0.363 Sum_probs=29.8
Q ss_pred cCCCCCHHHHHHHHHHhcC---Cce-EEeCCCCCchHHHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALTR---EFA-IIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~---~~~-~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
......+...+.+..+... ++. ++.||||+|||+++..++..+
T Consensus 21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 4455566666666665532 234 448999999999999887765
No 206
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=98.17 E-value=7.9e-06 Score=58.28 Aligned_cols=38 Identities=16% Similarity=0.309 Sum_probs=30.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHH-hchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFL-KNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~-~~~~~~~~~~~~ilv~~~ 77 (97)
++.+++.||+|+||||++..++..+. .. .+.+|.+++.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~------~g~~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLY------GKKKVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc------CCCeEEEEEC
Confidence 35789999999999999999988886 33 2567777764
No 207
>PHA02244 ATPase-like protein
Probab=98.17 E-value=4.6e-06 Score=58.52 Aligned_cols=29 Identities=24% Similarity=0.369 Sum_probs=24.3
Q ss_pred HHhcCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 30 AALTREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 30 ~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+..+.+++|.||||||||+++.+++..+
T Consensus 115 ~l~~~~PVLL~GppGtGKTtLA~aLA~~l 143 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHIAEQIAEAL 143 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence 33356789999999999999999998774
No 208
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.17 E-value=1.4e-05 Score=60.48 Aligned_cols=68 Identities=15% Similarity=0.032 Sum_probs=48.3
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.++++|.+++..+.-+.-.++..+||+|||.++...+..... .+..++|++|+..++.++.+.+..+.
T Consensus 68 glrpydVQlig~l~l~~G~Iaem~TGeGKTLta~Lpa~l~aL-------~g~~V~VVTpn~yLA~Rdae~m~~l~ 135 (762)
T TIGR03714 68 GMFPYDVQVLGAIVLHQGNIAEMKTGEGKTLTATMPLYLNAL-------TGKGAMLVTTNDYLAKRDAEEMGPVY 135 (762)
T ss_pred CCCccHHHHHHHHHhcCCceeEecCCcchHHHHHHHHHHHhh-------cCCceEEeCCCHHHHHHHHHHHHHHH
Confidence 345555556665554444689999999999876555322211 36679999999999999999886654
No 209
>PRK10436 hypothetical protein; Provisional
Probab=98.17 E-value=6.5e-06 Score=59.28 Aligned_cols=46 Identities=26% Similarity=0.549 Sum_probs=36.8
Q ss_pred cCCCCCHHHHHHHHHHh--cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 16 EELGLNTIQFEAYKAAL--TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~--~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.+.+.|.+.+..+. .++.++|.||+|+||||++.+++..+...
T Consensus 198 ~~LG~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~ 245 (462)
T PRK10436 198 ETLGMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTA 245 (462)
T ss_pred HHcCcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCC
Confidence 45667888888888765 35789999999999999998888877443
No 210
>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=98.16 E-value=6.6e-06 Score=53.35 Aligned_cols=36 Identities=25% Similarity=0.435 Sum_probs=29.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
+..+.|.|+||+|||+++..++..+... +.+++++.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~-------g~~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQ-------GKKVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhc-------CCeEEEEE
Confidence 4568999999999999999998888655 56676664
No 211
>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=98.16 E-value=6.5e-06 Score=59.17 Aligned_cols=52 Identities=25% Similarity=0.392 Sum_probs=40.0
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+..++|.|+||+|||+++..++..+... +.++++++. .+...++..+..+++
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~-------g~kvlYvs~-EEs~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKN-------QMKVLYVSG-EESLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhc-------CCcEEEEEC-cCCHHHHHHHHHHcC
Confidence 3478999999999999999998887665 567888874 345677777766654
No 212
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=98.16 E-value=6.7e-06 Score=53.58 Aligned_cols=38 Identities=29% Similarity=0.495 Sum_probs=31.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..+.|.||||+|||+++..++...... +.+++++...
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~-------~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKN-------GKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHC-------CCeEEEEECC
Confidence 3478999999999999999999888765 5677777654
No 213
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=98.15 E-value=5.5e-06 Score=56.62 Aligned_cols=43 Identities=23% Similarity=0.343 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHhcCC---ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 19 GLNTIQFEAYKAALTRE---FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~---~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.-++...+.+..+...+ .+++.||||||||+++..++..+...
T Consensus 18 ~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 18 LGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred cCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34566666666665432 68999999999999999999888644
No 214
>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=98.15 E-value=5.1e-06 Score=60.18 Aligned_cols=45 Identities=20% Similarity=0.434 Sum_probs=36.2
Q ss_pred cCCCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 16 EELGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..+.+.+.|.+.+..+.. ++.++|.||+|+||||++.+++..+..
T Consensus 222 ~~Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~ 268 (486)
T TIGR02533 222 ETLGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNT 268 (486)
T ss_pred HHcCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCC
Confidence 456678888888888765 357899999999999999888777743
No 215
>KOG0328|consensus
Probab=98.15 E-value=8.2e-07 Score=60.33 Aligned_cols=72 Identities=22% Similarity=0.179 Sum_probs=55.5
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
...+..|+.|+..+++++.++.++.+|||||.+ .+.++..+--.. ..-++|+++||++++.|+.+.+...+.
T Consensus 48 ekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~-----r~tQ~lilsPTRELa~Qi~~vi~alg~ 120 (400)
T KOG0328|consen 48 EKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISV-----RETQALILSPTRELAVQIQKVILALGD 120 (400)
T ss_pred CCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeeccccc-----ceeeEEEecChHHHHHHHHHHHHHhcc
Confidence 445788999999999999999999999999975 333333221111 246899999999999999998877664
No 216
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=4e-06 Score=58.45 Aligned_cols=24 Identities=38% Similarity=0.634 Sum_probs=20.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.-+++.||||||||.+|.+++.+-
T Consensus 186 KGVLLYGPPGTGKTLLAkAVA~~T 209 (406)
T COG1222 186 KGVLLYGPPGTGKTLLAKAVANQT 209 (406)
T ss_pred CceEeeCCCCCcHHHHHHHHHhcc
Confidence 468999999999999999987543
No 217
>PRK08118 topology modulation protein; Reviewed
Probab=98.14 E-value=2.5e-06 Score=53.63 Aligned_cols=23 Identities=30% Similarity=0.453 Sum_probs=20.7
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||+||||++..+...+
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 57899999999999999998775
No 218
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=98.14 E-value=6.7e-06 Score=59.64 Aligned_cols=53 Identities=19% Similarity=0.380 Sum_probs=42.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
+..++|.|+||+|||+++..++...+.. +.++++++... ..+++.+.+..++-
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~-------g~~~~yis~e~-~~~~i~~~~~~~g~ 325 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRR-------GERCLLFAFEE-SRAQLIRNARSWGI 325 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhC-------CCcEEEEEecC-CHHHHHHHHHHcCC
Confidence 4577899999999999999998887766 77888887543 47778887777653
No 219
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=98.14 E-value=1.4e-05 Score=54.10 Aligned_cols=39 Identities=18% Similarity=0.359 Sum_probs=29.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
..+++.||+|+||||++..++..+.... .+.+|.+++..
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~-----g~~~V~li~~D 233 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEH-----GNKKVALITTD 233 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHc-----CCCeEEEEECC
Confidence 4788999999999999999998886541 13567776643
No 220
>KOG2028|consensus
Probab=98.14 E-value=5.3e-06 Score=58.40 Aligned_cols=49 Identities=31% Similarity=0.284 Sum_probs=32.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
+.++++||||||||+++..++...-.. ..+++=++.++..+..+.+-++
T Consensus 163 pSmIlWGppG~GKTtlArlia~tsk~~-------SyrfvelSAt~a~t~dvR~ife 211 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARLIASTSKKH-------SYRFVELSATNAKTNDVRDIFE 211 (554)
T ss_pred CceEEecCCCCchHHHHHHHHhhcCCC-------ceEEEEEeccccchHHHHHHHH
Confidence 588999999999999988877654222 3445555555555544444333
No 221
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=98.13 E-value=2.2e-05 Score=60.02 Aligned_cols=74 Identities=22% Similarity=0.152 Sum_probs=57.8
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
...++......+.+..+.+++.++|.||||+||||-+-..+...... ....|.++-|.+.++..+.+++.+-..
T Consensus 46 ~~~LPv~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~------~~g~I~~tQPRRlAArsvA~RvAeel~ 119 (845)
T COG1643 46 RSGLPVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLG------IAGKIGCTQPRRLAARSVAERVAEELG 119 (845)
T ss_pred cccCCcHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcc------cCCeEEecCchHHHHHHHHHHHHHHhC
Confidence 44566677777777777789999999999999999765555444332 367899999999999999999887554
No 222
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.13 E-value=1.8e-05 Score=60.97 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=36.9
Q ss_pred ccCCCCCHHHHHHHHHHhc------CC-c-eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 15 QEELGLNTIQFEAYKAALT------RE-F-AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~------~~-~-~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
++.++-++.|.+.+...+. ++ . ++|.|+||||||.++..++..+.+.
T Consensus 754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqee 808 (1164)
T PTZ00112 754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHK 808 (1164)
T ss_pred CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 4667789999988877663 12 3 4699999999999999999887654
No 223
>KOG0922|consensus
Probab=98.12 E-value=8.7e-06 Score=60.21 Aligned_cols=71 Identities=20% Similarity=0.168 Sum_probs=53.3
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..++..+...+.+..+.+++.++|.|.+|+||||= -..+.++-... ..+|.+.-|.+.|+-.+.+++.+-.
T Consensus 48 ~~LPI~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~-------~g~I~~TQPRRVAavslA~RVAeE~ 119 (674)
T KOG0922|consen 48 ESLPIYKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFAS-------SGKIACTQPRRVAAVSLAKRVAEEM 119 (674)
T ss_pred ccCCHHHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhccccc-------CCcEEeecCchHHHHHHHHHHHHHh
Confidence 44566666677788888899999999999999984 33333333333 3449999999999999999987643
No 224
>PRK13342 recombination factor protein RarA; Reviewed
Probab=98.12 E-value=9e-06 Score=57.66 Aligned_cols=24 Identities=46% Similarity=0.602 Sum_probs=20.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++..++...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~~ 60 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGAT 60 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999887654
No 225
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=98.12 E-value=5.7e-06 Score=58.37 Aligned_cols=48 Identities=21% Similarity=0.289 Sum_probs=34.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC---hHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT---NHALDQFVEG 88 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~---~~~~~~~~~~ 88 (97)
++.+++.||+|+||||++..++..+... +.++.+++-. ..+++||...
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~-------g~~V~lItaDtyR~gAveQLk~y 256 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQ-------NRTVGFITTDTFRSGAVEQFQGY 256 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHc-------CCeEEEEeCCccCccHHHHHHHH
Confidence 4578999999999999999999887665 5667666642 2345555443
No 226
>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=98.12 E-value=6.8e-06 Score=51.51 Aligned_cols=34 Identities=26% Similarity=0.402 Sum_probs=27.4
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.+++.|+||+|||+++..++..+.+. +.+++++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~-------g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKK-------GKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC-------CCcEEEEE
Confidence 46789999999999999998887665 56666555
No 227
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=98.12 E-value=2.1e-05 Score=55.66 Aligned_cols=48 Identities=21% Similarity=0.357 Sum_probs=35.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC---ChHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY---TNHALDQFV 86 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~---~~~~~~~~~ 86 (97)
++.+.+.||+|.||||++..++..+.... ..++|-+++- ...|++|+.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~-----~~~kVaiITtDtYRIGA~EQLk 253 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLK-----KKKKVAIITTDTYRIGAVEQLK 253 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhc-----cCcceEEEEeccchhhHHHHHH
Confidence 56889999999999999999988887221 3677777763 445666553
No 228
>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=98.12 E-value=9e-06 Score=56.10 Aligned_cols=37 Identities=27% Similarity=0.346 Sum_probs=29.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+..+.|.||||||||+++..++...... +.+++++..
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~-------g~~v~yId~ 91 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKA-------GGTAAFIDA 91 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHc-------CCcEEEEcc
Confidence 3578899999999999999998888765 556665543
No 229
>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=98.12 E-value=3.1e-06 Score=49.99 Aligned_cols=22 Identities=41% Similarity=0.611 Sum_probs=19.8
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++|.|+||+||||++..+...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 4799999999999999998884
No 230
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=98.12 E-value=6.1e-06 Score=64.87 Aligned_cols=58 Identities=26% Similarity=0.345 Sum_probs=45.8
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhch-hhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNK-ELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~-~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.+++++|.+..|||||+++..++-.++-.. .. ...++|++++|+.|+.+|.+|+.+-.
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~---~v~~ILvvTFT~aAa~Emk~RI~~~L 73 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPL---DVDEILVVTFTKAAAAEMKERIRDRL 73 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCC---ChhHeeeeeccHHHHHHHHHHHHHHH
Confidence 456899999999999997666655554442 12 46899999999999999999988754
No 231
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=98.10 E-value=1.3e-05 Score=56.96 Aligned_cols=46 Identities=17% Similarity=0.270 Sum_probs=34.3
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC---hHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT---NHALDQFVE 87 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~---~~~~~~~~~ 87 (97)
..+++.||+|+||||++..++..+... +.++.+++.. ..+++|+..
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~-------GkkVglI~aDt~RiaAvEQLk~ 290 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGK-------KKTVGFITTDHSRIGTVQQLQD 290 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHc-------CCcEEEEecCCcchHHHHHHHH
Confidence 467899999999999999999888654 6677766642 235556554
No 232
>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=98.10 E-value=9.3e-06 Score=59.76 Aligned_cols=44 Identities=23% Similarity=0.423 Sum_probs=36.3
Q ss_pred cCCCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
..+.+.+.|.+.+..+.. ++.++|.||+|+||||++.+++..+.
T Consensus 296 ~~lg~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~ 341 (564)
T TIGR02538 296 DKLGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILN 341 (564)
T ss_pred HHcCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhC
Confidence 456678888888887664 56889999999999999988888774
No 233
>KOG0731|consensus
Probab=98.10 E-value=4.9e-06 Score=62.68 Aligned_cols=24 Identities=42% Similarity=0.627 Sum_probs=21.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+-+++.||||||||.+|.+++...
T Consensus 345 kGvLL~GPPGTGKTLLAKAiAGEA 368 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAKAIAGEA 368 (774)
T ss_pred CceEEECCCCCcHHHHHHHHhccc
Confidence 458999999999999999997765
No 234
>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=98.10 E-value=2.4e-06 Score=51.60 Aligned_cols=21 Identities=43% Similarity=0.838 Sum_probs=18.3
Q ss_pred eEEeCCCCCchHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++.||||+||||++..+...
T Consensus 2 ii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999998888644
No 235
>KOG0948|consensus
Probab=98.09 E-value=1.1e-05 Score=60.76 Aligned_cols=73 Identities=18% Similarity=0.139 Sum_probs=62.6
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccC
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQN 95 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~ 95 (97)
-.|.|++.|..+|..+.++++++|.+-+.+|||.+|-..++..++. .+||++.+|=..+-.|=.+.+.+-+.+
T Consensus 126 YPF~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~-------kQRVIYTSPIKALSNQKYREl~~EF~D 198 (1041)
T KOG0948|consen 126 YPFTLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE-------KQRVIYTSPIKALSNQKYRELLEEFKD 198 (1041)
T ss_pred CCcccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh-------cCeEEeeChhhhhcchhHHHHHHHhcc
Confidence 4688999999999999899999999999999999999999998887 899999999777777766665554443
No 236
>PF05729 NACHT: NACHT domain
Probab=98.09 E-value=4.4e-06 Score=51.23 Aligned_cols=27 Identities=22% Similarity=0.511 Sum_probs=24.4
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhch
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNK 62 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~ 62 (97)
.++|.|+||+|||+++..++..+....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 578999999999999999999888874
No 237
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=98.09 E-value=6.5e-06 Score=52.01 Aligned_cols=47 Identities=15% Similarity=0.222 Sum_probs=33.4
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
.++|.||||||||+++..++..+ +.++++++.....-+++.+++..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~----------~~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS----------GLQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc----------CCCcEeCcCCCCChHHHHHHHHHH
Confidence 57899999999999988886553 345666665555556666666544
No 238
>PRK06620 hypothetical protein; Validated
Probab=98.08 E-value=6.5e-06 Score=53.74 Aligned_cols=22 Identities=32% Similarity=0.502 Sum_probs=18.6
Q ss_pred CceEEeCCCCCchHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+.+++.||||+||||++..+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~~ 66 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQN 66 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHHh
Confidence 3489999999999999887644
No 239
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=98.08 E-value=1.3e-05 Score=63.33 Aligned_cols=60 Identities=20% Similarity=0.240 Sum_probs=44.4
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHh-chhh--hh--cCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLK-NKEL--AR--YMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~-~~~~--~~--~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.+..+|.+..|||||+++..+.-.++- .+.. +. ....+||++++|+.|+.++.+|+++..
T Consensus 17 ~G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr~rL 81 (1181)
T PRK10876 17 QGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIRSNI 81 (1181)
T ss_pred CCCEEEEeCCCCcHHHHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHHHHH
Confidence 467899999999999988777655544 2110 00 023689999999999999999997643
No 240
>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=98.08 E-value=1.6e-05 Score=55.60 Aligned_cols=28 Identities=21% Similarity=0.450 Sum_probs=24.9
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.++.++|.||+|+||||++.+++..+..
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 4679999999999999999999888754
No 241
>PRK13909 putative recombination protein RecB; Provisional
Probab=98.07 E-value=1.1e-05 Score=62.30 Aligned_cols=52 Identities=19% Similarity=0.317 Sum_probs=41.5
Q ss_pred EEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 38 IIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 38 ~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
++.++.|||||+++....-.++..+. .+..||++++||.|+.+|.+|+.+..
T Consensus 2 ~~~AsAGsGKT~~L~~~yl~ll~~~~----~~~~IlavTFT~kAa~Emk~Ri~~~L 53 (910)
T PRK13909 2 ALKASAGSGKTFALSVRFLALLFKGA----NPSEILALTFTKKAANEMKERIIDTL 53 (910)
T ss_pred ceecCCCCchhHHHHHHHHHHHhcCC----CcceEEEEeehHHHHHHHHHHHHHHH
Confidence 57789999999976666555555432 46799999999999999999988764
No 242
>KOG0743|consensus
Probab=98.07 E-value=4.1e-06 Score=59.64 Aligned_cols=24 Identities=29% Similarity=0.503 Sum_probs=21.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+-.++.||||||||+++.+|+..+
T Consensus 236 RGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 236 RGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ccceeeCCCCCCHHHHHHHHHhhc
Confidence 457999999999999999998877
No 243
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=98.07 E-value=1.5e-05 Score=59.04 Aligned_cols=37 Identities=22% Similarity=0.059 Sum_probs=30.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.++|.|++|+||||++.+++..+.+.. .+.+++++..
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~-----~g~~V~Yita 352 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLY-----PGTRVRYVSS 352 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhC-----CCCeEEEeeH
Confidence 489999999999999999999987642 3567777763
No 244
>KOG0342|consensus
Probab=98.07 E-value=6.9e-06 Score=59.03 Aligned_cols=77 Identities=21% Similarity=0.157 Sum_probs=57.8
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+.....+.|...+..++.++.++..+-+|||||.-. .-.++.+..... ....+-.++|+|||++++-|++..+++..
T Consensus 101 GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~-~~r~~~~vlIi~PTRELA~Q~~~eak~Ll 178 (543)
T KOG0342|consen 101 GFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKF-KPRNGTGVLIICPTRELAMQIFAEAKELL 178 (543)
T ss_pred CccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhccc-CCCCCeeEEEecccHHHHHHHHHHHHHHH
Confidence 445578889888888888999999999999999743 333444444322 12246689999999999999999887754
No 245
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=98.07 E-value=9.5e-06 Score=55.84 Aligned_cols=43 Identities=28% Similarity=0.356 Sum_probs=30.5
Q ss_pred cCCCCCHHHHHHHHHHhc--------CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 16 EELGLNTIQFEAYKAALT--------REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--------~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+.-.+...+.+..+.. .+.+++.||||||||+++..++..+
T Consensus 25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 344455555555544332 2478999999999999999998776
No 246
>PF13173 AAA_14: AAA domain
Probab=98.05 E-value=2e-05 Score=47.29 Aligned_cols=41 Identities=27% Similarity=0.500 Sum_probs=30.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHAL 82 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~ 82 (97)
++.++|.||.|+|||+++..++..+. . +.+++++.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~-------~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-P-------PENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-c-------cccceeeccCCHHH
Confidence 46789999999999999999988876 2 45566665544433
No 247
>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=98.05 E-value=1.4e-05 Score=55.20 Aligned_cols=38 Identities=26% Similarity=0.347 Sum_probs=30.0
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..+.|.||||+|||+++..++...... +.+++++...
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~-------g~~~vyId~E 92 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKL-------GGTVAFIDAE 92 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHc-------CCCEEEECcc
Confidence 3578899999999999999998887665 5566666643
No 248
>KOG0920|consensus
Probab=98.05 E-value=1.6e-05 Score=61.08 Aligned_cols=72 Identities=21% Similarity=0.203 Sum_probs=57.8
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
...++....+.+.++.+.+++.++|.|.||||||| +-..++......+ +..+|++.-|.+.++-.+.+++..
T Consensus 169 R~~LPa~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~-----~~~~IicTQPRRIsAIsvAeRVa~ 241 (924)
T KOG0920|consen 169 RESLPAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESG-----AACNIICTQPRRISAISVAERVAK 241 (924)
T ss_pred HHhCccHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcC-----CCCeEEecCCchHHHHHHHHHHHH
Confidence 35566677788888888889999999999999999 4555566655553 477899999999999999998865
No 249
>PF12846 AAA_10: AAA-like domain
Probab=98.04 E-value=1.1e-05 Score=53.90 Aligned_cols=40 Identities=20% Similarity=0.380 Sum_probs=33.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNH 80 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~ 80 (97)
+++++|.|++|+|||+++..++..+... +..++++=+..+
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~-------g~~~~i~D~~g~ 40 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRR-------GPRVVIFDPKGD 40 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHc-------CCCEEEEcCCch
Confidence 3578999999999999999999888887 677777766544
No 250
>PRK13531 regulatory ATPase RavA; Provisional
Probab=98.04 E-value=7.4e-06 Score=59.24 Aligned_cols=29 Identities=34% Similarity=0.604 Sum_probs=25.3
Q ss_pred hcCCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 32 LTREFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 32 ~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..++++++.||||||||+++..+...+..
T Consensus 37 lag~hVLL~GpPGTGKT~LAraLa~~~~~ 65 (498)
T PRK13531 37 LSGESVFLLGPPGIAKSLIARRLKFAFQN 65 (498)
T ss_pred ccCCCEEEECCCChhHHHHHHHHHHHhcc
Confidence 36789999999999999999999887644
No 251
>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=98.04 E-value=1.1e-05 Score=58.32 Aligned_cols=24 Identities=38% Similarity=0.614 Sum_probs=20.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++.+++..+
T Consensus 89 ~giLL~GppGtGKT~la~alA~~~ 112 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLLAKAVAGEA 112 (495)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHc
Confidence 368999999999999999997654
No 252
>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=98.04 E-value=8.6e-06 Score=54.46 Aligned_cols=39 Identities=28% Similarity=0.382 Sum_probs=28.4
Q ss_pred HHHHHHHHHh-cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 23 IQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 23 ~Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
...+.+.... .++++++.||+|+||||++.+++..+-..
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~ 154 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE 154 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred HHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence 3444444433 36799999999999999998888766444
No 253
>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=98.04 E-value=7.3e-06 Score=56.92 Aligned_cols=28 Identities=25% Similarity=0.546 Sum_probs=24.1
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.++.++|.||+|+||||++..++..+..
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~ 148 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINK 148 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCc
Confidence 3578999999999999999998887654
No 254
>PRK14530 adenylate kinase; Provisional
Probab=98.04 E-value=5.6e-06 Score=53.77 Aligned_cols=25 Identities=28% Similarity=0.534 Sum_probs=21.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++.++|.||||+||||++..++..+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 4578999999999999999887655
No 255
>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=98.03 E-value=1.5e-05 Score=52.56 Aligned_cols=58 Identities=16% Similarity=0.211 Sum_probs=38.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhh-----cCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELAR-----YMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~-----~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
...++.||||+|||+++..++..+.......+ ..+.+|++++-.. ..+++.+++..+.
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed-~~~~i~~Rl~~i~ 64 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAED-PREEIHRRLEAIL 64 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCC-CHHHHHHHHHHHH
Confidence 35789999999999999999877654321111 1356788888433 2445666666554
No 256
>KOG0348|consensus
Probab=98.03 E-value=3.2e-05 Score=56.54 Aligned_cols=76 Identities=22% Similarity=0.213 Sum_probs=57.8
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHH-HHHHHhch-hhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRI-VEGFLKNK-ELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~-~~~~~~~~-~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.++..|+++|..+++++-++|..++|+|||.--+.- +..+.... ++.+-.+.-.||++||++++-|+++.+.++..
T Consensus 159 ~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~ 236 (708)
T KOG0348|consen 159 APTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLK 236 (708)
T ss_pred ccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhc
Confidence 356789999999999999999999999999754333 44443332 22333567899999999999999998877653
No 257
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=98.03 E-value=1.6e-05 Score=56.03 Aligned_cols=24 Identities=38% Similarity=0.629 Sum_probs=21.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++.+++..+
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHHh
Confidence 358999999999999999998765
No 258
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=98.03 E-value=6e-05 Score=53.55 Aligned_cols=38 Identities=24% Similarity=0.201 Sum_probs=31.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..++|.||+|.||||++.+++..+.+.. +..+++.++.
T Consensus 114 nplfi~G~~GlGKTHLl~Aign~~~~~~-----~~a~v~y~~s 151 (408)
T COG0593 114 NPLFIYGGVGLGKTHLLQAIGNEALANG-----PNARVVYLTS 151 (408)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHhhC-----CCceEEeccH
Confidence 5789999999999999999999998883 3456666663
No 259
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=98.02 E-value=2.8e-05 Score=55.73 Aligned_cols=35 Identities=26% Similarity=0.326 Sum_probs=28.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.|++|+||||++..++..+.+. +.++++++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~-------g~kV~lV~~ 131 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKK-------GLKVGLVAA 131 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHc-------CCeEEEecC
Confidence 57889999999999999999887654 566776664
No 260
>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=98.01 E-value=7.1e-06 Score=47.95 Aligned_cols=25 Identities=40% Similarity=0.720 Sum_probs=22.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.|.||||+|||+++..++..+.+.
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHHH
Confidence 4689999999999999998888865
No 261
>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=98.01 E-value=1.3e-05 Score=52.10 Aligned_cols=36 Identities=33% Similarity=0.421 Sum_probs=24.1
Q ss_pred HHHHHHHHHHh-cCCceEEeCCCCCchHHHHHHHHHH
Q psy16285 22 TIQFEAYKAAL-TREFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 22 ~~Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+..+.++..+. .+.++++.||||||||+++..+...
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~l 45 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSL 45 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHh
Confidence 34455555544 4568999999999999998888543
No 262
>PRK10867 signal recognition particle protein; Provisional
Probab=98.01 E-value=2.7e-05 Score=55.71 Aligned_cols=36 Identities=25% Similarity=0.351 Sum_probs=29.2
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.|++|+||||++..++.++... .+.++++++.
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~------~G~kV~lV~~ 137 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKK------KKKKVLLVAA 137 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh------cCCcEEEEEc
Confidence 57889999999999999999988665 2667777664
No 263
>PRK03839 putative kinase; Provisional
Probab=98.01 E-value=6.3e-06 Score=51.99 Aligned_cols=23 Identities=39% Similarity=0.613 Sum_probs=20.2
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.|+||+||||++..++..+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999999887765
No 264
>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=98.01 E-value=2.2e-05 Score=56.14 Aligned_cols=35 Identities=20% Similarity=0.335 Sum_probs=28.9
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.|++|+||||++..++.++... +.++++++.
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~-------G~kV~lV~~ 136 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRK-------GFKPCLVCA 136 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC-------CCCEEEEcC
Confidence 57899999999999999999877544 667777764
No 265
>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=98.00 E-value=7.1e-06 Score=51.76 Aligned_cols=26 Identities=38% Similarity=0.731 Sum_probs=21.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++|+|+||+||||++..++..+...
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l~~~ 26 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEELKKK 26 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHHHHT
T ss_pred CEEEECcCCCCHHHHHHHHHHHhhcc
Confidence 47899999999999999999888554
No 266
>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=98.00 E-value=2.1e-05 Score=42.51 Aligned_cols=22 Identities=36% Similarity=0.594 Sum_probs=20.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.+.|+||+|||+++..+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999999998887
No 267
>CHL00195 ycf46 Ycf46; Provisional
Probab=98.00 E-value=2.3e-05 Score=56.89 Aligned_cols=24 Identities=29% Similarity=0.428 Sum_probs=21.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.+++.||||||||.++.+++..+
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e~ 283 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIANDW 283 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHh
Confidence 468999999999999999998876
No 268
>KOG0947|consensus
Probab=98.00 E-value=3.3e-05 Score=59.52 Aligned_cols=75 Identities=16% Similarity=0.035 Sum_probs=66.1
Q ss_pred ccCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 15 QEELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.-.|.++..|++||....++.+++|.+++.+|||.+|-+.+...... ..|.++.+|=+.+-.|=+.++++.++
T Consensus 293 ~~pFelD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq~h-------~TR~iYTSPIKALSNQKfRDFk~tF~ 365 (1248)
T KOG0947|consen 293 IYPFELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQKH-------MTRTIYTSPIKALSNQKFRDFKETFG 365 (1248)
T ss_pred hCCCCccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHHhh-------ccceEecchhhhhccchHHHHHHhcc
Confidence 34678899999999999999999999999999999998888877766 78999999999999998888888776
Q ss_pred CC
Q psy16285 95 NT 96 (97)
Q Consensus 95 ~~ 96 (97)
++
T Consensus 366 Dv 367 (1248)
T KOG0947|consen 366 DV 367 (1248)
T ss_pred cc
Confidence 54
No 269
>PRK00131 aroK shikimate kinase; Reviewed
Probab=97.99 E-value=8e-06 Score=50.73 Aligned_cols=25 Identities=16% Similarity=0.267 Sum_probs=21.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..+++.|+||||||+++..++..+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 4578999999999999999987765
No 270
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.99 E-value=1.9e-05 Score=53.58 Aligned_cols=44 Identities=27% Similarity=0.394 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHhcC---CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 18 LGLNTIQFEAYKAALTR---EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~---~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.-.+...+.+..+.+. +.+++.||||+|||+++..++..+...
T Consensus 19 ~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~ 65 (319)
T PRK00440 19 IVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE 65 (319)
T ss_pred hcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 33455666677766543 368999999999999999998887543
No 271
>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=97.99 E-value=7.2e-06 Score=51.67 Aligned_cols=23 Identities=39% Similarity=0.598 Sum_probs=19.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+.++|.||||+||||++..++..
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 56889999999999998888744
No 272
>PRK05541 adenylylsulfate kinase; Provisional
Probab=97.99 E-value=1.7e-05 Score=49.81 Aligned_cols=28 Identities=29% Similarity=0.318 Sum_probs=24.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..+++.|++|+||||++..+...+...
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~ 34 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLK 34 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 4578999999999999999998888544
No 273
>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=97.99 E-value=1.7e-05 Score=50.06 Aligned_cols=46 Identities=20% Similarity=0.355 Sum_probs=34.2
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
++|.||+|+|||+.+..++.. . +.++++++.....-.++.++++++
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~---~-------~~~~~y~at~~~~d~em~~rI~~H 47 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE---L-------GGPVTYIATAEAFDDEMAERIARH 47 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh---c-------CCCeEEEEccCcCCHHHHHHHHHH
Confidence 689999999999998887654 2 567777776655556667666554
No 274
>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=97.99 E-value=6.9e-06 Score=51.75 Aligned_cols=22 Identities=41% Similarity=0.742 Sum_probs=19.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++|.||||+||||++..++..+
T Consensus 2 i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 6899999999999988886654
No 275
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=97.99 E-value=7.2e-06 Score=52.21 Aligned_cols=22 Identities=36% Similarity=0.718 Sum_probs=19.9
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++|.||||+||||.+..++..
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999999766
No 276
>PRK06762 hypothetical protein; Provisional
Probab=97.98 E-value=2.7e-05 Score=48.40 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=20.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.|+||+||||++..+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999999888776
No 277
>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=97.98 E-value=1.6e-05 Score=55.58 Aligned_cols=42 Identities=14% Similarity=0.206 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHhc--------CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 20 LNTIQFEAYKAALT--------REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 20 l~~~Q~~~i~~~~~--------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.++...+.+..+.. +..+++.||||+|||+++..++..+...
T Consensus 56 ~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~y 105 (361)
T smart00763 56 MEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEY 105 (361)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhh
Confidence 44445555554432 2467999999999999999999888663
No 278
>PRK00889 adenylylsulfate kinase; Provisional
Probab=97.98 E-value=1.7e-05 Score=49.84 Aligned_cols=28 Identities=25% Similarity=0.303 Sum_probs=24.0
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..+++.|+||+||||++..+...+...
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~~~ 31 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLREA 31 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 4578899999999999999999888544
No 279
>KOG0340|consensus
Probab=97.97 E-value=2.8e-05 Score=54.32 Aligned_cols=73 Identities=21% Similarity=0.119 Sum_probs=60.5
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
-....+.|...|..++.++..+-.+-+|||||+ .+.-++..+-+.. .+-=.+|++||++.+.|+.+++.-.+.
T Consensus 27 i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP-----~giFalvlTPTrELA~QiaEQF~alGk 100 (442)
T KOG0340|consen 27 IKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDP-----YGIFALVLTPTRELALQIAEQFIALGK 100 (442)
T ss_pred CCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCC-----CcceEEEecchHHHHHHHHHHHHHhcc
Confidence 345678899999999999999899999999998 5677777775552 345689999999999999999987764
No 280
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=97.97 E-value=1.2e-05 Score=55.98 Aligned_cols=36 Identities=22% Similarity=0.355 Sum_probs=27.7
Q ss_pred HHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 24 QFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 24 Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
..+.+..+.+ +.+++|.||+|+||||++.+++..+-
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~ 187 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP 187 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC
Confidence 3444555553 57999999999999999999887653
No 281
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=97.97 E-value=2.9e-06 Score=56.97 Aligned_cols=38 Identities=37% Similarity=0.656 Sum_probs=29.0
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+..+++.||+||||||+ ..|++.+++. ....|++--.
T Consensus 26 ~gef~vliGpSGsGKTTt-LkMINrLiep------t~G~I~i~g~ 63 (309)
T COG1125 26 EGEFLVLIGPSGSGKTTT-LKMINRLIEP------TSGEILIDGE 63 (309)
T ss_pred CCeEEEEECCCCCcHHHH-HHHHhcccCC------CCceEEECCe
Confidence 467899999999999999 5677777776 4566666543
No 282
>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=97.97 E-value=8.1e-06 Score=51.37 Aligned_cols=24 Identities=21% Similarity=0.351 Sum_probs=20.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..++|.||+|+||||++..++..+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 467899999999999998887764
No 283
>PRK07261 topology modulation protein; Provisional
Probab=97.97 E-value=8.7e-06 Score=51.33 Aligned_cols=23 Identities=26% Similarity=0.443 Sum_probs=20.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.|+||+||||++..+...+
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~ 24 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHY 24 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHh
Confidence 47899999999999999887654
No 284
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=97.96 E-value=1.6e-05 Score=56.37 Aligned_cols=24 Identities=38% Similarity=0.607 Sum_probs=20.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++.+++..+
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~l 203 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHHT 203 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhc
Confidence 468999999999999999887654
No 285
>PRK14532 adenylate kinase; Provisional
Probab=97.96 E-value=7.5e-06 Score=51.95 Aligned_cols=22 Identities=45% Similarity=0.638 Sum_probs=18.9
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
++++.||||+||||++..++..
T Consensus 2 ~i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999998888654
No 286
>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=97.95 E-value=6.4e-05 Score=56.82 Aligned_cols=69 Identities=14% Similarity=-0.006 Sum_probs=47.4
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
.+.+.+.|.........+ .+...+||+|||.++...+. +..- .+..++|++||..++.+..+.+..+..
T Consensus 54 g~~p~~vQlig~~~l~~G--~Iaem~TGeGKTLva~lpa~-l~aL------~G~~V~VvTpt~~LA~qdae~~~~l~~ 122 (745)
T TIGR00963 54 GMRPFDVQLIGGIALHKG--KIAEMKTGEGKTLTATLPAY-LNAL------TGKGVHVVTVNDYLAQRDAEWMGQVYR 122 (745)
T ss_pred CCCccchHHhhhhhhcCC--ceeeecCCCccHHHHHHHHH-HHHH------hCCCEEEEcCCHHHHHHHHHHHHHHhc
Confidence 344455565554443333 38899999999976543332 2121 256899999999999999999888765
No 287
>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=97.95 E-value=3.9e-05 Score=54.89 Aligned_cols=36 Identities=22% Similarity=0.331 Sum_probs=28.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+++.|++|+||||++..++..+... .+.++++++.
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~------~g~kV~lV~~ 136 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKK------QGKKVLLVAC 136 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHh------CCCeEEEEec
Confidence 57899999999999999999987643 2567776664
No 288
>PRK14531 adenylate kinase; Provisional
Probab=97.95 E-value=1e-05 Score=51.32 Aligned_cols=24 Identities=33% Similarity=0.596 Sum_probs=20.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||+||||++..++..+
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 468999999999999988886654
No 289
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=97.95 E-value=1.7e-05 Score=48.59 Aligned_cols=35 Identities=14% Similarity=0.333 Sum_probs=27.7
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
.+.|.|+.|+||||++..++..+.++ +.++.++-+
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~~-------g~~v~~ik~ 36 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKRR-------GYRVAVIKH 36 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT-------T--EEEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhHc-------CCceEEEEE
Confidence 57899999999999999999999877 556664443
No 290
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.95 E-value=1.3e-05 Score=50.37 Aligned_cols=26 Identities=38% Similarity=0.618 Sum_probs=23.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.|+|+||+||||++..++..+.+.
T Consensus 7 ki~ITG~PGvGKtTl~~ki~e~L~~~ 32 (179)
T COG1618 7 KIFITGRPGVGKTTLVLKIAEKLREK 32 (179)
T ss_pred EEEEeCCCCccHHHHHHHHHHHHHhc
Confidence 67899999999999999999988776
No 291
>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=97.94 E-value=9.4e-06 Score=51.43 Aligned_cols=22 Identities=36% Similarity=0.644 Sum_probs=19.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++|.||||+||||++..++..
T Consensus 1 ~I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999998888665
No 292
>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=97.94 E-value=3.6e-05 Score=51.04 Aligned_cols=25 Identities=24% Similarity=0.511 Sum_probs=21.9
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++.|+||+||||++..+...+...
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~ 26 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEK 26 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 6899999999999999999887544
No 293
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.94 E-value=4.4e-05 Score=54.01 Aligned_cols=40 Identities=28% Similarity=0.321 Sum_probs=29.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..+++.||+|+||||++..++..+...... .+.+|.+++-
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~---~g~~V~lit~ 214 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDD---KSLNIKIITI 214 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhcc---CCCeEEEEec
Confidence 468899999999999999999877643110 2566776664
No 294
>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=97.94 E-value=1e-05 Score=53.63 Aligned_cols=23 Identities=35% Similarity=0.525 Sum_probs=19.3
Q ss_pred EeCCCCCchHHHHHHHHHHHHhc
Q psy16285 39 IQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 39 v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
|.||||+||||....+..++...
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~ 23 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESN 23 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT
T ss_pred CCCCCCCCHHHHHHHHHHHHHhc
Confidence 68999999999988888887555
No 295
>PRK06851 hypothetical protein; Provisional
Probab=97.93 E-value=1.2e-05 Score=56.47 Aligned_cols=28 Identities=39% Similarity=0.679 Sum_probs=25.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.++|.|+||||||+++..++..+.+.
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~ 57 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEK 57 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 4678999999999999999999988775
No 296
>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=97.92 E-value=1.9e-05 Score=48.11 Aligned_cols=27 Identities=22% Similarity=0.434 Sum_probs=23.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
+..+++.|+.|+|||+++..++..+-.
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~ 48 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGLGI 48 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence 568899999999999999999988743
No 297
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=97.92 E-value=2.2e-05 Score=56.25 Aligned_cols=24 Identities=42% Similarity=0.653 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++.+++..+
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhh
Confidence 368999999999999999998765
No 298
>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=97.92 E-value=3.3e-05 Score=57.42 Aligned_cols=29 Identities=24% Similarity=0.456 Sum_probs=24.7
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.+++++||||||||+++..++..+...
T Consensus 36 ~~~~~ll~G~pG~GKT~la~~la~~l~~~ 64 (608)
T TIGR00764 36 QKRNVLLIGEPGVGKSMLAKAMAELLPDE 64 (608)
T ss_pred cCCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence 46789999999999999999998877443
No 299
>PRK09354 recA recombinase A; Provisional
Probab=97.92 E-value=3.1e-05 Score=54.04 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=29.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+..+.|.||||||||+++..++...... +.+++++..
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~-------G~~~~yId~ 96 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKA-------GGTAAFIDA 96 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHc-------CCcEEEECC
Confidence 3477899999999999999998887665 555665554
No 300
>PRK08233 hypothetical protein; Provisional
Probab=97.92 E-value=9e-06 Score=50.98 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=20.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+.|.|+||+||||++..++..+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 457789999999999999888776
No 301
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=97.92 E-value=3.3e-05 Score=53.24 Aligned_cols=30 Identities=33% Similarity=0.609 Sum_probs=26.1
Q ss_pred HHhcCCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 30 AALTREFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 30 ~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.+..++.+++.||||+|||.++..++..+-
T Consensus 39 a~~~~~~vll~G~PG~gKT~la~~lA~~l~ 68 (329)
T COG0714 39 ALLAGGHVLLEGPPGVGKTLLARALARALG 68 (329)
T ss_pred HHHcCCCEEEECCCCccHHHHHHHHHHHhC
Confidence 344688999999999999999999998884
No 302
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=97.92 E-value=1.8e-05 Score=50.01 Aligned_cols=25 Identities=32% Similarity=0.515 Sum_probs=22.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.++++.||+|+|||.++..++..+.
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~l~ 28 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAELLF 28 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3689999999999999999999886
No 303
>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=97.92 E-value=1.8e-05 Score=52.61 Aligned_cols=35 Identities=20% Similarity=0.273 Sum_probs=28.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+++|.|++|||||+++..++..+... -..+.+.++
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~-------f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHK-------FDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhccc-------CCEEEEEec
Confidence 78999999999999999998776554 355666665
No 304
>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=97.91 E-value=8.8e-06 Score=50.46 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=18.9
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++.||+|+||||++..+...+
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhc
Confidence 4689999999999998887664
No 305
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.91 E-value=3.3e-05 Score=55.94 Aligned_cols=39 Identities=15% Similarity=0.295 Sum_probs=29.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
++.+.+.||+|+||||++..++..+.... +..+|.+++-
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~-----G~~kV~LI~~ 294 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRH-----GASKVALLTT 294 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhc-----CCCeEEEEeC
Confidence 35788999999999999999998875441 1346666553
No 306
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=97.91 E-value=2.2e-05 Score=54.48 Aligned_cols=34 Identities=26% Similarity=0.300 Sum_probs=26.4
Q ss_pred HHHHHHh-cCCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 26 EAYKAAL-TREFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 26 ~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+.+..+. .+.+++|.||+|+||||++.+++..+-
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip 185 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNAALREIP 185 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCC
Confidence 3444444 367999999999999999998887664
No 307
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.91 E-value=6.4e-05 Score=57.55 Aligned_cols=41 Identities=24% Similarity=0.390 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHhc---CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 21 NTIQFEAYKAALT---REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 21 ~~~Q~~~i~~~~~---~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
++.+.+.+..++. ..+.++.||||+|||+++..++..+...
T Consensus 184 r~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~ 227 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNR 227 (821)
T ss_pred cHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhC
Confidence 5555555655553 3588999999999999999999888654
No 308
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.91 E-value=9e-05 Score=56.15 Aligned_cols=71 Identities=18% Similarity=0.281 Sum_probs=58.3
Q ss_pred CCHHHHHHHHHHhc---CC-ceEEeCCCCCchHHHHHHHHHHHHhch-hhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 20 LNTIQFEAYKAALT---RE-FAIIQGPPGTGKTYVALRIVEGFLKNK-ELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 20 l~~~Q~~~i~~~~~---~~-~~~v~Gp~GtGKT~~~~~~~~~~~~~~-~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
..+.|..+++.+.+ .. .+++.+|+|.|||.++...+....... + ...+++.+-|.+.+++++.+++++++.
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~----~~~r~i~vlP~~t~ie~~~~r~~~~~~ 271 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIK----LKSRVIYVLPFRTIIEDMYRRAKEIFG 271 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcccc----ccceEEEEccHHHHHHHHHHHHHhhhc
Confidence 35678888877664 34 789999999999999988888887772 2 377899999999999999999998764
No 309
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.91 E-value=2.2e-05 Score=55.99 Aligned_cols=37 Identities=19% Similarity=0.422 Sum_probs=28.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
..+++.||+|+||||++..++..+... .+.++.+++-
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~------~G~~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLH------MGKSVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHh------cCCeEEEecc
Confidence 357899999999999999999866433 2566766664
No 310
>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=97.91 E-value=1.4e-05 Score=50.27 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=21.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..+++.|+||+||||++..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 4578999999999999999887764
No 311
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.90 E-value=1e-05 Score=56.44 Aligned_cols=23 Identities=39% Similarity=0.639 Sum_probs=20.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.||||||||+++.+++..+
T Consensus 158 gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhC
Confidence 48999999999999999987654
No 312
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=97.90 E-value=0.00011 Score=56.02 Aligned_cols=69 Identities=12% Similarity=-0.008 Sum_probs=49.8
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
++...+.|...+....++. +....||+|||.++...+..... .+..++|++||..++.+..+.+..+..
T Consensus 76 g~~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al-------~G~~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 76 GMRPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNAL-------EGKGVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred CCCCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHH-------cCCCeEEEeCCHHHHHHHHHHHHHHHh
Confidence 4556667766655444433 89999999999875544332222 378999999999999999998887754
No 313
>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=97.90 E-value=3e-05 Score=50.65 Aligned_cols=44 Identities=18% Similarity=0.156 Sum_probs=29.4
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..+.|.||||+|||+++..++........ .......+++++..
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~-~~g~~~~viyi~~e 62 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIE-LGGLEGKAVYIDTE 62 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccc-cCCCCccEEEEeCC
Confidence 467899999999999999999866543310 00013566666643
No 314
>PRK13947 shikimate kinase; Provisional
Probab=97.90 E-value=1.3e-05 Score=49.93 Aligned_cols=23 Identities=35% Similarity=0.443 Sum_probs=20.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++|.|+||+|||+++..++..+
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHh
Confidence 58899999999999999988765
No 315
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=97.89 E-value=2.9e-05 Score=58.67 Aligned_cols=24 Identities=42% Similarity=0.558 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++++.||||||||+++..++...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999888654
No 316
>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=97.89 E-value=2.7e-05 Score=53.17 Aligned_cols=28 Identities=21% Similarity=0.285 Sum_probs=24.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
...+.|.||||+|||+++..++..+...
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~ 61 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRR 61 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 4578899999999999999999887665
No 317
>KOG0338|consensus
Probab=97.89 E-value=3.2e-05 Score=56.27 Aligned_cols=75 Identities=21% Similarity=0.134 Sum_probs=55.1
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+....++.|...|..++-+.-++-.+.+|||||. .+.=++..++..-.. ....||||++||++++-|+....++.
T Consensus 200 Gy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~--~~~TRVLVL~PTRELaiQv~sV~~ql 275 (691)
T KOG0338|consen 200 GYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKK--VAATRVLVLVPTRELAIQVHSVTKQL 275 (691)
T ss_pred CCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCccc--CcceeEEEEeccHHHHHHHHHHHHHH
Confidence 4556678898888888888888899999999996 345556666554111 13569999999999988877655443
No 318
>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=97.89 E-value=1.2e-05 Score=58.63 Aligned_cols=26 Identities=31% Similarity=0.639 Sum_probs=22.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..+++.||||||||+++.+++..+..
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~eL~~ 242 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVANSLAQ 242 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHHhhcc
Confidence 46899999999999999999888744
No 319
>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=97.88 E-value=4.1e-05 Score=48.62 Aligned_cols=25 Identities=36% Similarity=0.523 Sum_probs=21.2
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.|.|+||+||||++..+...+...
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~ 26 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVN 26 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc
Confidence 5789999999999999888877543
No 320
>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=97.88 E-value=4.3e-05 Score=54.43 Aligned_cols=51 Identities=24% Similarity=0.350 Sum_probs=36.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
+..++|.|+||+|||+++..++..+... .+.++++++..- ...++.+++..
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~------~g~~vl~~SlEm-~~~~i~~R~~~ 245 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIK------EGKPVAFFSLEM-SAEQLAMRMLS 245 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHh------CCCeEEEEeCcC-CHHHHHHHHHH
Confidence 4578999999999999999998887654 267788887532 34445554443
No 321
>PRK13764 ATPase; Provisional
Probab=97.88 E-value=2.3e-05 Score=58.07 Aligned_cols=29 Identities=31% Similarity=0.441 Sum_probs=25.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+++++|.||||+||||++.+++..+...
T Consensus 256 ~~~~ILIsG~TGSGKTTll~AL~~~i~~~ 284 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFAQALAEFYADM 284 (602)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhC
Confidence 36789999999999999999999888654
No 322
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=97.88 E-value=1.6e-05 Score=48.54 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=19.9
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++|.|+||+|||+++..+...+
T Consensus 1 ~i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHh
Confidence 47899999999999999987654
No 323
>KOG3347|consensus
Probab=97.88 E-value=1.5e-05 Score=49.59 Aligned_cols=25 Identities=40% Similarity=0.672 Sum_probs=21.5
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
..++++|+|-|||||||++..++..
T Consensus 6 ~~PNILvtGTPG~GKstl~~~lae~ 30 (176)
T KOG3347|consen 6 ERPNILVTGTPGTGKSTLAERLAEK 30 (176)
T ss_pred cCCCEEEeCCCCCCchhHHHHHHHH
Confidence 3579999999999999998888643
No 324
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=97.88 E-value=3.1e-05 Score=52.75 Aligned_cols=27 Identities=37% Similarity=0.581 Sum_probs=23.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+++.||||.||||++..++..+-.+
T Consensus 53 DHvLl~GPPGlGKTTLA~IIA~Emgvn 79 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHIIANELGVN 79 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHHHHHhcCC
Confidence 478999999999999999998887554
No 325
>PTZ00301 uridine kinase; Provisional
Probab=97.88 E-value=3e-05 Score=50.57 Aligned_cols=26 Identities=27% Similarity=0.489 Sum_probs=22.2
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.|.||||+||||++..+...+...
T Consensus 5 iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 5 VIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 46789999999999999998887654
No 326
>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=97.88 E-value=3e-05 Score=50.34 Aligned_cols=44 Identities=23% Similarity=0.262 Sum_probs=30.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYT 78 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~ 78 (97)
+..+.|.||||+|||+++..++......... .....+++++...
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~-~g~~~~v~yi~~e 62 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGEL-GGLEGKVVYIDTE 62 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhccccc-CCCcceEEEEecC
Confidence 4688999999999999999998877654100 0012566666653
No 327
>PRK06851 hypothetical protein; Provisional
Probab=97.88 E-value=2.5e-05 Score=54.81 Aligned_cols=28 Identities=25% Similarity=0.459 Sum_probs=25.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.++|.|+||||||+++..++..+.++
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~ 241 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEER 241 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhC
Confidence 3578999999999999999999999877
No 328
>PRK12608 transcription termination factor Rho; Provisional
Probab=97.87 E-value=3.6e-05 Score=54.17 Aligned_cols=37 Identities=22% Similarity=0.330 Sum_probs=29.5
Q ss_pred HHHHHHHh---cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 25 FEAYKAAL---TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 25 ~~~i~~~~---~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+|+... ++++.+|.||||+|||+++..++..+..+
T Consensus 121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 34555544 46799999999999999999998888665
No 329
>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=97.86 E-value=2.5e-05 Score=52.42 Aligned_cols=47 Identities=19% Similarity=0.320 Sum_probs=32.5
Q ss_pred HHHHHHHHHhcC----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 23 IQFEAYKAALTR----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 23 ~Q~~~i~~~~~~----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.-.+.+..+..+ ..+=|+||||.||||+.-.++..+.+. +.+|-|++
T Consensus 14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~-------g~~VaVlA 64 (266)
T PF03308_consen 14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER-------GKRVAVLA 64 (266)
T ss_dssp HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT-------T--EEEEE
T ss_pred HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc-------CCceEEEE
Confidence 344556655532 255679999999999999999999876 66777766
No 330
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.86 E-value=0.00014 Score=57.02 Aligned_cols=74 Identities=19% Similarity=0.105 Sum_probs=60.8
Q ss_pred ccCCCCCHHHHHHHHHHhc----CC--ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALT----RE--FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEG 88 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~----~~--~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~ 88 (97)
.-.+..++.|..+|+.+.+ +. --+|+|-.|=|||-+|...+-.++.. +++|.|++||..++.|=++.
T Consensus 590 ~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~-------GKQVAvLVPTTlLA~QHy~t 662 (1139)
T COG1197 590 SFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMD-------GKQVAVLVPTTLLAQQHYET 662 (1139)
T ss_pred cCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcC-------CCeEEEEcccHHhHHHHHHH
Confidence 4456778999999999874 22 34899999999999998888777776 89999999999999998887
Q ss_pred HHhhccC
Q psy16285 89 VLKYTQN 95 (97)
Q Consensus 89 l~~~~~~ 95 (97)
+++-+.+
T Consensus 663 FkeRF~~ 669 (1139)
T COG1197 663 FKERFAG 669 (1139)
T ss_pred HHHHhcC
Confidence 7776643
No 331
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=97.86 E-value=0.00011 Score=49.10 Aligned_cols=41 Identities=20% Similarity=0.246 Sum_probs=30.9
Q ss_pred CHHHHHHHHHHhc-------CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 21 NTIQFEAYKAALT-------REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 21 ~~~Q~~~i~~~~~-------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
-+.|++.+..-.. ..++++.|+.|||||+++.+++..+...
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~ 79 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ 79 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence 3456666554332 2589999999999999999998887665
No 332
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.85 E-value=6.1e-05 Score=55.22 Aligned_cols=38 Identities=21% Similarity=0.409 Sum_probs=29.4
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
++.+.+.||+|+||||++..++..+.... .+.++.++.
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~-----~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQH-----APRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhc-----CCCceEEEe
Confidence 56889999999999999999988876642 235566655
No 333
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=97.85 E-value=3.8e-05 Score=48.02 Aligned_cols=33 Identities=18% Similarity=0.326 Sum_probs=27.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEE
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~ 75 (97)
.+.++|.||+||||++..+...+... +.++.++
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~-------g~~~~~L 36 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFAR-------GIKVYLL 36 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHT-------TS-EEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHc-------CCcEEEe
Confidence 56889999999999999999999877 5666666
No 334
>KOG0739|consensus
Probab=97.85 E-value=3.7e-05 Score=53.00 Aligned_cols=40 Identities=23% Similarity=0.475 Sum_probs=28.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFV 86 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~ 86 (97)
-+++.||||||||+++.+++.... ...|-..+..++..|.
T Consensus 168 giLLyGPPGTGKSYLAKAVATEAn-----------STFFSvSSSDLvSKWm 207 (439)
T KOG0739|consen 168 GILLYGPPGTGKSYLAKAVATEAN-----------STFFSVSSSDLVSKWM 207 (439)
T ss_pred eEEEeCCCCCcHHHHHHHHHhhcC-----------CceEEeehHHHHHHHh
Confidence 579999999999999999987652 4445555555444443
No 335
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.85 E-value=0.00011 Score=55.72 Aligned_cols=28 Identities=25% Similarity=0.448 Sum_probs=24.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.++.||||+|||+++..++..+...
T Consensus 203 ~~n~lL~G~pG~GKT~l~~~la~~~~~~ 230 (731)
T TIGR02639 203 KNNPLLVGEPGVGKTAIAEGLALRIAEG 230 (731)
T ss_pred CCceEEECCCCCCHHHHHHHHHHHHHhC
Confidence 3589999999999999999999988765
No 336
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=97.84 E-value=1.5e-05 Score=49.58 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=16.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
.++|+|++||||||++..+...
T Consensus 1 rI~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 1 RIVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp -EEEE--TTSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHc
Confidence 3789999999999999888765
No 337
>PRK02496 adk adenylate kinase; Provisional
Probab=97.84 E-value=1.9e-05 Score=49.99 Aligned_cols=23 Identities=39% Similarity=0.618 Sum_probs=19.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||+|||+++..++..+
T Consensus 3 ~i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 3 RLIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999988886554
No 338
>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=97.84 E-value=4.9e-05 Score=47.33 Aligned_cols=25 Identities=32% Similarity=0.480 Sum_probs=22.1
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.|.|++|+|||+++..++..+...
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~ 26 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKAR 26 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhc
Confidence 5689999999999999999988655
No 339
>PRK13768 GTPase; Provisional
Probab=97.84 E-value=3.6e-05 Score=51.38 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=27.2
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEE
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIV 75 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~ 75 (97)
.+++.||+|+||||++..++..+... +.+++++
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~-------g~~v~~i 36 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQ-------GYDVAIV 36 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhc-------CCceEEE
Confidence 46899999999999999999888665 5666665
No 340
>PRK06217 hypothetical protein; Validated
Probab=97.83 E-value=1.7e-05 Score=50.34 Aligned_cols=23 Identities=26% Similarity=0.414 Sum_probs=20.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.|+||+||||++..+...+
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHc
Confidence 47899999999999999998765
No 341
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=97.83 E-value=1.3e-05 Score=55.57 Aligned_cols=24 Identities=33% Similarity=0.613 Sum_probs=20.3
Q ss_pred cCCceEEeCCCCCchHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+++.+++.||+||||||++..++.
T Consensus 28 ~Gef~vllGPSGcGKSTlLr~IAG 51 (338)
T COG3839 28 DGEFVVLLGPSGCGKSTLLRMIAG 51 (338)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhC
Confidence 478999999999999999666643
No 342
>KOG0350|consensus
Probab=97.83 E-value=4.8e-05 Score=55.15 Aligned_cols=74 Identities=15% Similarity=0.203 Sum_probs=53.3
Q ss_pred CCCHHHHHHHHHHhc---------CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 19 GLNTIQFEAYKAALT---------REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~---------~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
.+=+.|...+..++. .+-++|.+|+|+|||.--..-+-+++..+.. +.-|.+|+.|+++++.|+.+.+
T Consensus 159 ~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v---~~LRavVivPtr~L~~QV~~~f 235 (620)
T KOG0350|consen 159 RLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPV---KRLRAVVIVPTRELALQVYDTF 235 (620)
T ss_pred cccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCc---cceEEEEEeeHHHHHHHHHHHH
Confidence 344667777777642 2468999999999997533334444444322 2358999999999999999999
Q ss_pred HhhccC
Q psy16285 90 LKYTQN 95 (97)
Q Consensus 90 ~~~~~~ 95 (97)
.++..+
T Consensus 236 ~~~~~~ 241 (620)
T KOG0350|consen 236 KRLNSG 241 (620)
T ss_pred HHhccC
Confidence 988754
No 343
>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=97.83 E-value=1.7e-05 Score=48.47 Aligned_cols=21 Identities=29% Similarity=0.537 Sum_probs=18.6
Q ss_pred eEEeCCCCCchHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++.|+||+||||++..+...
T Consensus 2 i~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhh
Confidence 678999999999999888765
No 344
>PRK14528 adenylate kinase; Provisional
Probab=97.83 E-value=2.1e-05 Score=50.15 Aligned_cols=23 Identities=39% Similarity=0.564 Sum_probs=19.4
Q ss_pred CceEEeCCCCCchHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
.+++|.||||+||||++..++..
T Consensus 2 ~~i~i~G~pGsGKtt~a~~la~~ 24 (186)
T PRK14528 2 KNIIFMGPPGAGKGTQAKILCER 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35789999999999998888643
No 345
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=97.83 E-value=1.8e-05 Score=49.84 Aligned_cols=22 Identities=45% Similarity=0.671 Sum_probs=19.6
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.|.|||||||||++..++..+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 5789999999999999988766
No 346
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=97.82 E-value=1.9e-05 Score=51.14 Aligned_cols=22 Identities=45% Similarity=0.708 Sum_probs=18.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++|.||||+||||++..++..
T Consensus 1 rI~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 1 RLVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999998888653
No 347
>KOG0343|consensus
Probab=97.82 E-value=3.1e-05 Score=56.80 Aligned_cols=78 Identities=21% Similarity=0.122 Sum_probs=63.5
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHH-HHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTY-VALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~-~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
....+.+.|++.|..++.+.-++-.+-+|||||. .+.=+++.+.+.++. ...+--.||++||++++.|+++.|.+.+.
T Consensus 88 ~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs-~~DGlGalIISPTRELA~QtFevL~kvgk 166 (758)
T KOG0343|consen 88 KFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWS-PTDGLGALIISPTRELALQTFEVLNKVGK 166 (758)
T ss_pred CCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCC-CCCCceeEEecchHHHHHHHHHHHHHHhh
Confidence 4556788999999999999999899999999996 455567777776543 12466899999999999999999987663
No 348
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=97.82 E-value=3e-05 Score=54.67 Aligned_cols=23 Identities=22% Similarity=0.333 Sum_probs=20.7
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||||||.++.+++..+
T Consensus 150 gllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 150 ILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHc
Confidence 46789999999999999998887
No 349
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.82 E-value=2.1e-05 Score=51.53 Aligned_cols=27 Identities=30% Similarity=0.517 Sum_probs=24.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhch
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNK 62 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~ 62 (97)
.++++|+||+|||+.+..++..+.++.
T Consensus 3 LiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 3 LIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred eEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 478999999999999999999987763
No 350
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=97.82 E-value=1.5e-05 Score=55.65 Aligned_cols=25 Identities=36% Similarity=0.485 Sum_probs=20.6
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
.++.+.+.||+||||||++..++..
T Consensus 30 ~Gef~~lLGPSGcGKTTlLR~IAGf 54 (352)
T COG3842 30 KGEFVTLLGPSGCGKTTLLRMIAGF 54 (352)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhCC
Confidence 4678899999999999997766543
No 351
>PRK14527 adenylate kinase; Provisional
Probab=97.82 E-value=2.3e-05 Score=49.99 Aligned_cols=23 Identities=39% Similarity=0.700 Sum_probs=19.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+..+++.||||+||||++..++.
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~ 28 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQ 28 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 45789999999999999888863
No 352
>KOG0327|consensus
Probab=97.82 E-value=1.2e-05 Score=56.22 Aligned_cols=74 Identities=22% Similarity=0.092 Sum_probs=59.0
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
....+..|+.||..+.++..+.++..+|||||..-...+...+.-.. ....+++++|+++++.|+.+.....+.
T Consensus 46 FekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~----ke~qalilaPtreLa~qi~~v~~~lg~ 119 (397)
T KOG0327|consen 46 FEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSV----KETQALILAPTRELAQQIQKVVRALGD 119 (397)
T ss_pred cCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcch----HHHHHHHhcchHHHHHHHHHHHHhhhc
Confidence 44567889999999999999999999999999985555544443322 356899999999999999988777663
No 353
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.82 E-value=1.2e-05 Score=54.49 Aligned_cols=24 Identities=38% Similarity=0.630 Sum_probs=20.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++++..||||||||.++.+++...
T Consensus 152 knVLFyGppGTGKTm~Akalane~ 175 (368)
T COG1223 152 KNVLFYGPPGTGKTMMAKALANEA 175 (368)
T ss_pred ceeEEECCCCccHHHHHHHHhccc
Confidence 589999999999999999886543
No 354
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=97.82 E-value=1.8e-05 Score=50.27 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=20.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..++|.||+|+||||++..+....
T Consensus 2 g~~i~l~G~sGsGKsTl~~~l~~~~ 26 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLAALRQRE 26 (186)
T ss_pred CcEEEEECCCCCCHHHHHHHHhccC
Confidence 3578999999999999988885543
No 355
>PRK05480 uridine/cytidine kinase; Provisional
Probab=97.82 E-value=4.1e-05 Score=49.40 Aligned_cols=25 Identities=40% Similarity=0.414 Sum_probs=21.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
...+.|.|++|+||||++..+...+
T Consensus 6 ~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3467899999999999998888876
No 356
>PHA02624 large T antigen; Provisional
Probab=97.82 E-value=2.9e-05 Score=57.55 Aligned_cols=25 Identities=28% Similarity=0.549 Sum_probs=22.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..+++.||||||||+++.+++..+
T Consensus 431 k~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 431 RRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHc
Confidence 4578999999999999999999888
No 357
>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=97.81 E-value=4.4e-05 Score=48.85 Aligned_cols=22 Identities=45% Similarity=0.569 Sum_probs=19.5
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.|.||+|+||||++..+...+
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999998887776
No 358
>PRK06696 uridine kinase; Validated
Probab=97.81 E-value=4.4e-05 Score=49.92 Aligned_cols=26 Identities=31% Similarity=0.316 Sum_probs=22.3
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.|.|++|+||||++..++..+-..
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~ 49 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKR 49 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 67889999999999999998887443
No 359
>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=97.81 E-value=5.7e-05 Score=46.56 Aligned_cols=25 Identities=24% Similarity=0.458 Sum_probs=21.8
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++.|+||+|||+++..+...+...
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~ 26 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQR 26 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 6889999999999999998887644
No 360
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=97.81 E-value=3.3e-05 Score=41.10 Aligned_cols=27 Identities=30% Similarity=0.505 Sum_probs=22.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
...+|.||+|+|||+++-++...+...
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~~ 50 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYGN 50 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 479999999999999988887776554
No 361
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.81 E-value=4.5e-05 Score=55.18 Aligned_cols=24 Identities=42% Similarity=0.519 Sum_probs=21.6
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
+++.||||||||+++..++..+..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcc
Confidence 689999999999999999888754
No 362
>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=97.80 E-value=0.00015 Score=43.82 Aligned_cols=26 Identities=35% Similarity=0.473 Sum_probs=23.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhch
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNK 62 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~ 62 (97)
+.+.|+||||||+++..+++.+...+
T Consensus 56 lSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 56 LSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred EEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 34799999999999999999998874
No 363
>PRK07667 uridine kinase; Provisional
Probab=97.80 E-value=5.6e-05 Score=48.45 Aligned_cols=26 Identities=23% Similarity=0.285 Sum_probs=22.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.|.|++|+||||++..+...+...
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~ 44 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQE 44 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 56789999999999998888887544
No 364
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=97.80 E-value=7.3e-06 Score=53.78 Aligned_cols=22 Identities=32% Similarity=0.594 Sum_probs=19.2
Q ss_pred cCCceEEeCCCCCchHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRI 54 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~ 54 (97)
+++.++|.||+|+||||++..+
T Consensus 27 ~Gevv~iiGpSGSGKSTlLRcl 48 (240)
T COG1126 27 KGEVVVIIGPSGSGKSTLLRCL 48 (240)
T ss_pred CCCEEEEECCCCCCHHHHHHHH
Confidence 5789999999999999996655
No 365
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.80 E-value=4e-05 Score=53.13 Aligned_cols=56 Identities=23% Similarity=0.172 Sum_probs=46.0
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
-...++.|..-++.+.++...+-.||.|||||+++...+..++..+ .-.+|++.-|
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~-----~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAG-----QVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhhc-----ccceeeecCc
Confidence 3456788999999999999999999999999999999988888874 2456666555
No 366
>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=97.80 E-value=5.6e-05 Score=48.05 Aligned_cols=28 Identities=32% Similarity=0.381 Sum_probs=23.4
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..++|.|++|+||||++..+...+...
T Consensus 3 g~~IvieG~~GsGKsT~~~~L~~~l~~~ 30 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTTQANLLKKLLQEN 30 (195)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3468999999999999999988877554
No 367
>PRK13949 shikimate kinase; Provisional
Probab=97.80 E-value=2.3e-05 Score=49.33 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=19.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++|.|+||+|||+++..++..+
T Consensus 3 ~I~liG~~GsGKstl~~~La~~l 25 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALAREL 25 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHHc
Confidence 58899999999999998887653
No 368
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.80 E-value=0.00024 Score=55.23 Aligned_cols=72 Identities=18% Similarity=0.112 Sum_probs=58.6
Q ss_pred cCCCCCHHHHHHHHHHhc--CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALT--REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~--~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
....+.+.|...+..+.. .++++|.=..|.|||--+..++..+...+ ..+++||+||+ .+..||...+.+.+
T Consensus 149 ~~~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g-----~~~rvLIVvP~-sL~~QW~~El~~kF 222 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTG-----RAERVLILVPE-TLQHQWLVEMLRRF 222 (956)
T ss_pred CCCCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcC-----CCCcEEEEcCH-HHHHHHHHHHHHHh
Confidence 456788999999887664 35788999999999999988888876663 35799999997 67999999996543
No 369
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=97.80 E-value=2e-05 Score=51.92 Aligned_cols=28 Identities=36% Similarity=0.624 Sum_probs=21.3
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++.+.|.||+||||||++. ++..+.+.
T Consensus 30 ~Ge~vaI~GpSGSGKSTLLn-iig~ld~p 57 (226)
T COG1136 30 AGEFVAIVGPSGSGKSTLLN-LLGGLDKP 57 (226)
T ss_pred CCCEEEEECCCCCCHHHHHH-HHhcccCC
Confidence 47899999999999999954 44444443
No 370
>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=97.79 E-value=5.1e-05 Score=49.73 Aligned_cols=24 Identities=21% Similarity=0.159 Sum_probs=20.1
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
+-|.||+|+||||++..+...+..
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~ 25 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSR 25 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhh
Confidence 458899999999999888877643
No 371
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=97.79 E-value=6.2e-05 Score=52.30 Aligned_cols=41 Identities=17% Similarity=0.100 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHHHhcCC-ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 18 LGLNTIQFEAYKAALTRE-FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~-~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
-.++..+.+.+..+.... +++|.|.+||||||++.++....
T Consensus 156 gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i 197 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFI 197 (355)
T ss_pred CCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcC
Confidence 356777888888877765 99999999999999988887665
No 372
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.79 E-value=4e-05 Score=53.56 Aligned_cols=24 Identities=25% Similarity=0.380 Sum_probs=21.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.+++.||+|+|||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 358999999999999999998885
No 373
>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=97.79 E-value=8.4e-05 Score=52.82 Aligned_cols=50 Identities=28% Similarity=0.430 Sum_probs=36.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
+..++|.|+||.|||+++..++..+... .+.++++++.. ...+++..++.
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~------~g~~v~~fSlE-m~~~~l~~Rl~ 243 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALR------EGKPVLFFSLE-MSAEQLGERLL 243 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHh------CCCcEEEEECC-CCHHHHHHHHH
Confidence 5678999999999999999999777533 26788888843 34555555543
No 374
>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=97.78 E-value=2.2e-05 Score=48.24 Aligned_cols=20 Identities=45% Similarity=0.846 Sum_probs=17.5
Q ss_pred EeCCCCCchHHHHHHHHHHH
Q psy16285 39 IQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 39 v~Gp~GtGKT~~~~~~~~~~ 58 (97)
|.||||+|||+++..++..+
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 68999999999999987654
No 375
>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=97.78 E-value=7.4e-05 Score=41.60 Aligned_cols=25 Identities=28% Similarity=0.505 Sum_probs=22.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++.|.+|+|||+++..++..+.+.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~ 26 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKR 26 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 5788999999999999999998764
No 376
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=97.78 E-value=2.2e-05 Score=49.30 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=20.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..++|.||+|+|||+++..++...
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~~ 25 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEED 25 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHccC
Confidence 468899999999999988887643
No 377
>KOG0923|consensus
Probab=97.78 E-value=6.5e-05 Score=56.17 Aligned_cols=70 Identities=21% Similarity=0.088 Sum_probs=49.7
Q ss_pred CCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 17 ELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
.++...+.-+.+..+..+..++|.|.||+||||=+ ..+.+.=+.. .+++|-+.-|.+.|+..+..++.+-
T Consensus 263 sLPVy~ykdell~av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk------~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 263 SLPVYPYKDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTK------GGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred cCCchhhHHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhccccc------CCceEeecCcchHHHHHHHHHHHHH
Confidence 34455555666777777899999999999999843 3332222222 3555888889999999999888753
No 378
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.78 E-value=0.00019 Score=56.12 Aligned_cols=72 Identities=14% Similarity=0.289 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 18 LGLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..|+++|.+.+..+. .+...++.=..|.|||..+..++..+..... ...++||+||.. .+.+|.+.+.+|.
T Consensus 168 ~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~----~~gp~LIVvP~S-lL~nW~~Ei~kw~ 242 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRG----ITGPHMVVAPKS-TLGNWMNEIRRFC 242 (1033)
T ss_pred cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcC----CCCCEEEEeChH-HHHHHHHHHHHHC
Confidence 478999999999875 3457788888999999998888887765422 256899999965 4799999999876
Q ss_pred c
Q psy16285 94 Q 94 (97)
Q Consensus 94 ~ 94 (97)
.
T Consensus 243 p 243 (1033)
T PLN03142 243 P 243 (1033)
T ss_pred C
Confidence 4
No 379
>PLN02200 adenylate kinase family protein
Probab=97.78 E-value=2.6e-05 Score=51.60 Aligned_cols=23 Identities=39% Similarity=0.687 Sum_probs=19.7
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||+||||++..++..+
T Consensus 45 ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 67899999999999988886543
No 380
>KOG0334|consensus
Probab=97.78 E-value=5.7e-05 Score=58.23 Aligned_cols=77 Identities=22% Similarity=0.164 Sum_probs=62.5
Q ss_pred CCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHH-HHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhcc
Q psy16285 18 LGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVA-LRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQ 94 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~-~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~ 94 (97)
-..++.|.+||..+..+..++.++-+|+|||.-. +=++.+...+.......+.-.+|+|||++.+.||-+.++.|..
T Consensus 386 ~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k 463 (997)
T KOG0334|consen 386 EKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLK 463 (997)
T ss_pred CCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHh
Confidence 3567889999999999999999999999999843 4455666555444444567789999999999999999998864
No 381
>PLN02165 adenylate isopentenyltransferase
Probab=97.78 E-value=1.7e-05 Score=54.99 Aligned_cols=26 Identities=23% Similarity=0.579 Sum_probs=22.6
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+..++|.||||+|||+++..++..+
T Consensus 42 ~g~iivIiGPTGSGKStLA~~LA~~l 67 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRLSVDLATRF 67 (334)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHc
Confidence 45689999999999999999987775
No 382
>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=97.77 E-value=3.1e-05 Score=46.79 Aligned_cols=22 Identities=36% Similarity=0.634 Sum_probs=19.7
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++|.|+||||||+++..++..+
T Consensus 2 I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999999999998765
No 383
>KOG0344|consensus
Probab=97.77 E-value=0.00015 Score=53.21 Aligned_cols=74 Identities=23% Similarity=0.244 Sum_probs=55.5
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..+.|+.++......+.++..+|+|+|||.- .+-++..+.......+..+-+.+|+.|+++++.|+.....+|.
T Consensus 159 Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 159 PTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred CCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC
Confidence 4567888999988999999999999999752 2223444433321111246789999999999999999999987
No 384
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.77 E-value=9.9e-05 Score=51.10 Aligned_cols=45 Identities=18% Similarity=0.291 Sum_probs=35.3
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC---ChHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY---TNHALDQFVE 87 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~---~~~~~~~~~~ 87 (97)
.+++.|-.|+||||++..++.++.++ +++|++.+- ...|++|+..
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~~-------g~~VllaA~DTFRAaAiEQL~~ 188 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQQ-------GKSVLLAAGDTFRAAAIEQLEV 188 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHHC-------CCeEEEEecchHHHHHHHHHHH
Confidence 56889999999999999999999877 788888774 3445555443
No 385
>PRK09087 hypothetical protein; Validated
Probab=97.77 E-value=2.9e-05 Score=51.11 Aligned_cols=22 Identities=36% Similarity=0.539 Sum_probs=19.0
Q ss_pred CceEEeCCCCCchHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+.++|.||+|+||||++..++.
T Consensus 45 ~~l~l~G~~GsGKThLl~~~~~ 66 (226)
T PRK09087 45 PVVVLAGPVGSGKTHLASIWRE 66 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 4589999999999999887664
No 386
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=97.77 E-value=9.6e-05 Score=49.24 Aligned_cols=49 Identities=27% Similarity=0.371 Sum_probs=36.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGV 89 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l 89 (97)
+..++|.|+||.|||+++..++..+... .+.++++++..- ..+++..++
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~------~~~~vly~SlEm-~~~~l~~R~ 67 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALN------GGYPVLYFSLEM-SEEELAARL 67 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHT------TSSEEEEEESSS--HHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHh------cCCeEEEEcCCC-CHHHHHHHH
Confidence 4588999999999999999999999887 357899998532 233444444
No 387
>PRK04040 adenylate kinase; Provisional
Probab=97.77 E-value=2.8e-05 Score=49.86 Aligned_cols=23 Identities=35% Similarity=0.626 Sum_probs=20.7
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.|+||+||||++..+...+
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999999888876
No 388
>KOG0346|consensus
Probab=97.76 E-value=0.00015 Score=52.09 Aligned_cols=74 Identities=20% Similarity=0.193 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhh-hhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKEL-ARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~-~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..+..|..+|..++.+..++..+.+|+|||.. +.=++..++..... ....+..-++++||+++..|+...+.+.
T Consensus 41 kpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL 116 (569)
T KOG0346|consen 41 KPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKL 116 (569)
T ss_pred CcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHH
Confidence 34667899999999999999999999999964 44455666655433 2234568899999999999988877654
No 389
>KOG0733|consensus
Probab=97.76 E-value=5.2e-05 Score=56.29 Aligned_cols=24 Identities=38% Similarity=0.632 Sum_probs=21.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+-+++.||||||||.+|.+++.++
T Consensus 224 rGvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 224 RGVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred CceeeeCCCCccHHHHHHHHhhhc
Confidence 457999999999999999998877
No 390
>PRK00279 adk adenylate kinase; Reviewed
Probab=97.76 E-value=3e-05 Score=50.37 Aligned_cols=23 Identities=43% Similarity=0.637 Sum_probs=19.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||+||||++..++..+
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~~ 24 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEKY 24 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999988886554
No 391
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=97.76 E-value=6.2e-05 Score=49.13 Aligned_cols=41 Identities=22% Similarity=0.340 Sum_probs=33.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNH 80 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~ 80 (97)
.+.+.|.|.+|+|||+++..++..+.+. .+.+++++=|..+
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ll~~l~~~------~~~~~ii~D~~GE 63 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKVLLEELLKK------KGAKVIIFDPHGE 63 (229)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHHHhc------CCCCEEEEcCCCc
Confidence 4678999999999999999999999843 3667887777554
No 392
>PTZ00088 adenylate kinase 1; Provisional
Probab=97.75 E-value=3.1e-05 Score=51.14 Aligned_cols=23 Identities=26% Similarity=0.326 Sum_probs=19.8
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.||||+||||++..++..+
T Consensus 8 rIvl~G~PGsGK~T~a~~La~~~ 30 (229)
T PTZ00088 8 KIVLFGAPGVGKGTFAEILSKKE 30 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 48999999999999998886553
No 393
>PRK05748 replicative DNA helicase; Provisional
Probab=97.75 E-value=9.2e-05 Score=53.09 Aligned_cols=50 Identities=22% Similarity=0.371 Sum_probs=36.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVL 90 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~ 90 (97)
+..++|.|+||+|||+++..++...... .+.++++++. ....+++..++.
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~------~g~~v~~fSl-Ems~~~l~~R~l 252 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATK------TDKNVAIFSL-EMGAESLVMRML 252 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHh------CCCeEEEEeC-CCCHHHHHHHHH
Confidence 4578999999999999999999887544 2678888774 333555555553
No 394
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=97.75 E-value=3.2e-05 Score=55.05 Aligned_cols=24 Identities=29% Similarity=0.527 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++++.||||||||+++..++..+
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~~l 132 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLARIL 132 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHh
Confidence 579999999999999999997654
No 395
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.75 E-value=0.00015 Score=55.90 Aligned_cols=28 Identities=21% Similarity=0.515 Sum_probs=24.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.+++||||+|||+++..++..+...
T Consensus 199 ~~n~lL~G~pGvGKT~l~~~la~~i~~~ 226 (857)
T PRK10865 199 KNNPVLIGEPGVGKTAIVEGLAQRIING 226 (857)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHhhcC
Confidence 3589999999999999999999988654
No 396
>PRK00625 shikimate kinase; Provisional
Probab=97.74 E-value=3.4e-05 Score=48.88 Aligned_cols=23 Identities=22% Similarity=0.263 Sum_probs=20.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++++.|.||+|||+++..++..+
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~l 24 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKFL 24 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 57899999999999999887664
No 397
>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=97.74 E-value=7.2e-05 Score=46.20 Aligned_cols=25 Identities=24% Similarity=0.402 Sum_probs=21.5
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.+.|++|+|||+++..++..+.+.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~ 26 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRAR 26 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHC
Confidence 5688999999999999998887555
No 398
>PRK06547 hypothetical protein; Provisional
Probab=97.74 E-value=6.9e-05 Score=47.44 Aligned_cols=23 Identities=30% Similarity=0.423 Sum_probs=19.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++|.|++|+|||+++..++..+
T Consensus 17 ~i~i~G~~GsGKTt~a~~l~~~~ 39 (172)
T PRK06547 17 TVLIDGRSGSGKTTLAGALAART 39 (172)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 56777999999999998887763
No 399
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=0.00012 Score=54.98 Aligned_cols=46 Identities=22% Similarity=0.406 Sum_probs=35.7
Q ss_pred cCCCCCHHHHHHHHHHh--------cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 16 EELGLNTIQFEAYKAAL--------TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~--------~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++.|.+.....+++.. +++.+|+.||||.|||.++..++..+-+.
T Consensus 324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk 377 (782)
T COG0466 324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK 377 (782)
T ss_pred cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC
Confidence 55667776666666643 24688999999999999999999988544
No 400
>PRK00300 gmk guanylate kinase; Provisional
Probab=97.74 E-value=2.9e-05 Score=49.80 Aligned_cols=26 Identities=23% Similarity=0.468 Sum_probs=22.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+..++|.||+|+|||+++..++..+
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~~~ 29 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLERD 29 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence 35688999999999999988887764
No 401
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=4.3e-05 Score=55.02 Aligned_cols=31 Identities=39% Similarity=0.556 Sum_probs=23.5
Q ss_pred HHHHHHHHh-cCCceEEeCCCCCchHHHHHHH
Q psy16285 24 QFEAYKAAL-TREFAIIQGPPGTGKTYVALRI 54 (97)
Q Consensus 24 Q~~~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~ 54 (97)
-+.++.-+. .+.++++.||||||||.++..+
T Consensus 187 AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl 218 (490)
T COG0606 187 AKRALEIAAAGGHNLLLVGPPGTGKTMLASRL 218 (490)
T ss_pred HHHHHHHHHhcCCcEEEecCCCCchHHhhhhh
Confidence 344444444 3569999999999999998887
No 402
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=97.74 E-value=6.6e-05 Score=52.11 Aligned_cols=34 Identities=18% Similarity=0.279 Sum_probs=27.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
.+-|.|+||+||||++..++..+... +.++.+++
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~-------g~~v~vi~ 91 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQ-------GHKVAVLA 91 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC-------CCeEEEEE
Confidence 57889999999999999998888654 55666665
No 403
>KOG0727|consensus
Probab=97.74 E-value=5.1e-05 Score=51.39 Aligned_cols=22 Identities=41% Similarity=0.724 Sum_probs=19.1
Q ss_pred CceEEeCCCCCchHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+-+++.||||||||.++.+++.
T Consensus 190 rgvllygppg~gktml~kava~ 211 (408)
T KOG0727|consen 190 RGVLLYGPPGTGKTMLAKAVAN 211 (408)
T ss_pred cceEEeCCCCCcHHHHHHHHhh
Confidence 4688999999999999988854
No 404
>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=97.74 E-value=3.4e-05 Score=49.37 Aligned_cols=25 Identities=40% Similarity=0.547 Sum_probs=21.9
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+.|.||+|+||||++..+...+...
T Consensus 2 IgI~G~sgSGKTTla~~L~~~L~~~ 26 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQILNKR 26 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred EEEECCCCCCHHHHHHHHHHHhCcc
Confidence 5689999999999999998888654
No 405
>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=97.73 E-value=8.1e-05 Score=46.99 Aligned_cols=26 Identities=27% Similarity=0.431 Sum_probs=22.3
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.++|.|++|+||||++..+...+...
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~ 27 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEAR 27 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 36899999999999999998888543
No 406
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=97.73 E-value=3.1e-05 Score=50.05 Aligned_cols=25 Identities=40% Similarity=0.437 Sum_probs=21.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..+.|.||+|+||||++..+...+
T Consensus 6 g~vi~I~G~sGsGKSTl~~~l~~~l 30 (207)
T TIGR00235 6 GIIIGIGGGSGSGKTTVARKIYEQL 30 (207)
T ss_pred eEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3467899999999999998887765
No 407
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=97.73 E-value=0.0001 Score=55.72 Aligned_cols=24 Identities=38% Similarity=0.635 Sum_probs=21.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++..++..+
T Consensus 213 ~giLL~GppGtGKT~laraia~~~ 236 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEA 236 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHHHh
Confidence 468999999999999999887765
No 408
>KOG1970|consensus
Probab=97.72 E-value=4.1e-05 Score=56.04 Aligned_cols=43 Identities=19% Similarity=0.312 Sum_probs=29.8
Q ss_pred CCCCHHHHHHHHHHhc----------CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 18 LGLNTIQFEAYKAALT----------REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~----------~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
+.........++.|+. ++.++|+||+|+||||++..+...+.-
T Consensus 84 LAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~ 136 (634)
T KOG1970|consen 84 LAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELGY 136 (634)
T ss_pred HhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhCc
Confidence 3344444555555554 357899999999999998888766543
No 409
>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=97.72 E-value=2.3e-05 Score=55.00 Aligned_cols=26 Identities=42% Similarity=0.672 Sum_probs=21.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
++.+++.||||||||.++.+++..+-
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKELG 75 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHCT
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHhC
Confidence 56789999999999999999998883
No 410
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=97.72 E-value=2.4e-05 Score=52.54 Aligned_cols=27 Identities=26% Similarity=0.334 Sum_probs=23.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+++.+.|.||.|+||||++..+...+-
T Consensus 27 ~G~i~~iiGpNG~GKSTLLk~l~g~l~ 53 (258)
T COG1120 27 KGEITGILGPNGSGKSTLLKCLAGLLK 53 (258)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence 478899999999999999888877663
No 411
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=97.72 E-value=3.2e-05 Score=52.27 Aligned_cols=26 Identities=27% Similarity=0.507 Sum_probs=21.3
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+..+++.||+|||||.++...+..+
T Consensus 32 ~~~pvLl~G~~GtGKT~li~~~l~~l 57 (272)
T PF12775_consen 32 NGRPVLLVGPSGTGKTSLIQNFLSSL 57 (272)
T ss_dssp CTEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred cCCcEEEECCCCCchhHHHHhhhccC
Confidence 45689999999999999987766543
No 412
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.70 E-value=3.7e-05 Score=51.18 Aligned_cols=26 Identities=35% Similarity=0.420 Sum_probs=21.5
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++.+.|.||+||||||++..++...
T Consensus 28 ~GEfvsilGpSGcGKSTLLriiAGL~ 53 (248)
T COG1116 28 KGEFVAILGPSGCGKSTLLRLIAGLE 53 (248)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence 47899999999999999977665443
No 413
>PRK08506 replicative DNA helicase; Provisional
Probab=97.70 E-value=0.00015 Score=52.52 Aligned_cols=50 Identities=20% Similarity=0.309 Sum_probs=38.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
+..++|.|+||.|||+++..++..+..+ +.++++.+.- ....++..++..
T Consensus 192 G~LivIaarpg~GKT~fal~ia~~~~~~-------g~~V~~fSlE-Ms~~ql~~Rlla 241 (472)
T PRK08506 192 GDLIIIAARPSMGKTTLCLNMALKALNQ-------DKGVAFFSLE-MPAEQLMLRMLS 241 (472)
T ss_pred CceEEEEcCCCCChHHHHHHHHHHHHhc-------CCcEEEEeCc-CCHHHHHHHHHH
Confidence 4578999999999999999999887654 6788888753 455666665543
No 414
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=3.8e-05 Score=53.20 Aligned_cols=27 Identities=26% Similarity=0.454 Sum_probs=23.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..++++.||+|||||.+|..++..+.-
T Consensus 97 KSNILLiGPTGsGKTlLAqTLAk~LnV 123 (408)
T COG1219 97 KSNILLIGPTGSGKTLLAQTLAKILNV 123 (408)
T ss_pred eccEEEECCCCCcHHHHHHHHHHHhCC
Confidence 468999999999999999999887733
No 415
>KOG0738|consensus
Probab=97.70 E-value=3.3e-05 Score=54.64 Aligned_cols=24 Identities=38% Similarity=0.641 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+-+++.||||||||.++.+++...
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATEc 269 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATEC 269 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHhh
Confidence 468999999999999999997765
No 416
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=97.70 E-value=6e-05 Score=51.64 Aligned_cols=32 Identities=31% Similarity=0.474 Sum_probs=25.0
Q ss_pred HHHHHh-cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 27 AYKAAL-TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 27 ~i~~~~-~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+..+. .+.+++|.||+|+||||++.+++..+
T Consensus 136 ~l~~~v~~~~~ili~G~tGsGKTTll~al~~~~ 168 (308)
T TIGR02788 136 FLRLAIASRKNIIISGGTGSGKTTFLKSLVDEI 168 (308)
T ss_pred HHHHHhhCCCEEEEECCCCCCHHHHHHHHHccC
Confidence 344444 46799999999999999998887665
No 417
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=97.70 E-value=0.00012 Score=54.63 Aligned_cols=29 Identities=34% Similarity=0.576 Sum_probs=24.4
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.++.+++.||||||||+++..++..+...
T Consensus 49 ~~~~~l~~G~~G~GKttla~~l~~~l~~~ 77 (637)
T PRK13765 49 QRRHVMMIGSPGTGKSMLAKAMAELLPKE 77 (637)
T ss_pred hCCeEEEECCCCCcHHHHHHHHHHHcChH
Confidence 46789999999999999999988776433
No 418
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=0.00014 Score=51.70 Aligned_cols=60 Identities=23% Similarity=0.363 Sum_probs=47.5
Q ss_pred HHHHHHHhcC-----CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 25 FEAYKAALTR-----EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 25 ~~~i~~~~~~-----~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..-++.++.+ ..++|-|.||.||||+++.++..+... . ++|+++ ..+++.|+.-+..+++
T Consensus 79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~-------~-~vLYVs-GEES~~QiklRA~RL~ 143 (456)
T COG1066 79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKR-------G-KVLYVS-GEESLQQIKLRADRLG 143 (456)
T ss_pred hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhc-------C-cEEEEe-CCcCHHHHHHHHHHhC
Confidence 3345555543 467889999999999999999988666 3 888888 7788999998888886
No 419
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=97.69 E-value=0.0001 Score=50.65 Aligned_cols=56 Identities=13% Similarity=0.132 Sum_probs=33.7
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChH-HHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNH-ALDQFVEGVL 90 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~-~~~~~~~~l~ 90 (97)
+..+.|.||||+|||+++..++......... +..+.+++++..... ..+++.+..+
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~-gg~~~~~~yi~te~~f~~~rl~~~~~ 158 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEK-GGLEGKAVYIDTEGTFRPERIEQMAE 158 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhcccccc-CCCCceEEEEeCCCCcCHHHHHHHHH
Confidence 4577899999999999999998776543110 001246666664331 2344444433
No 420
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=97.69 E-value=7.1e-05 Score=50.02 Aligned_cols=29 Identities=28% Similarity=0.367 Sum_probs=24.4
Q ss_pred hcCCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 32 LTREFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 32 ~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..++..+|.||+|+|||+++..+...+..
T Consensus 14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~ 42 (249)
T cd01128 14 GKGQRGLIVAPPKAGKTTLLQSIANAITK 42 (249)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence 35789999999999999998888776644
No 421
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=97.69 E-value=4.5e-05 Score=48.36 Aligned_cols=25 Identities=32% Similarity=0.519 Sum_probs=21.6
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++.+++.||+|+||||++..++..+
T Consensus 3 ge~i~l~G~sGsGKSTl~~~la~~l 27 (176)
T PRK09825 3 GESYILMGVSGSGKSLIGSKIAALF 27 (176)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhc
Confidence 5678999999999999988887654
No 422
>PRK08760 replicative DNA helicase; Provisional
Probab=97.69 E-value=0.00014 Score=52.71 Aligned_cols=52 Identities=19% Similarity=0.252 Sum_probs=37.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
+..++|.|+||.|||+++..++..+..+ .+.++++.+. ....+++..++...
T Consensus 229 G~LivIaarPg~GKTafal~iA~~~a~~------~g~~V~~fSl-EMs~~ql~~Rl~a~ 280 (476)
T PRK08760 229 TDLIILAARPAMGKTTFALNIAEYAAIK------SKKGVAVFSM-EMSASQLAMRLISS 280 (476)
T ss_pred CceEEEEeCCCCChhHHHHHHHHHHHHh------cCCceEEEec-cCCHHHHHHHHHHh
Confidence 4578999999999999999999877644 2667888874 23345666665443
No 423
>PRK03846 adenylylsulfate kinase; Provisional
Probab=97.69 E-value=9.9e-05 Score=47.39 Aligned_cols=41 Identities=22% Similarity=0.179 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 20 LNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 20 l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+..+.+. ..-.++..+.+.|++|+||||++..+...+...
T Consensus 11 v~~~~~~~-~~~~~~~~i~i~G~~GsGKSTla~~l~~~l~~~ 51 (198)
T PRK03846 11 VTKAQREQ-LHGHKGVVLWFTGLSGSGKSTVAGALEEALHEL 51 (198)
T ss_pred CCHHHHHH-hcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 44445443 221234578899999999999999998877554
No 424
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=97.68 E-value=4.9e-05 Score=47.96 Aligned_cols=25 Identities=20% Similarity=0.513 Sum_probs=21.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..++++.|++|+|||+++..++..+
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~l 28 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQL 28 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHHc
Confidence 4578999999999999999987664
No 425
>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=97.68 E-value=0.00013 Score=43.34 Aligned_cols=34 Identities=26% Similarity=0.383 Sum_probs=27.2
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+++.|.+|+|||+++..++..+.+. +.+++++-.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~-------g~~V~~id~ 35 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEK-------GKPVLAIDA 35 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC-------CCcEEEEEC
Confidence 6899999999999999998887654 556666553
No 426
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=97.68 E-value=9.6e-05 Score=52.14 Aligned_cols=47 Identities=17% Similarity=0.279 Sum_probs=33.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVE 87 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~ 87 (97)
.++++|.|.+|||||+++..++..+... +.+++|.=++.+-...+.+
T Consensus 15 ~~~~li~G~~GsGKT~~i~~ll~~~~~~-------g~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQAIRHLLDQIRAR-------GDRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp GG-EEEEE-TTSSHHHHHHHHHHHHHHT-------T-EEEEEEETTHHHHHH--
T ss_pred hCcEEEECCCCCCHHHHHHHHHHHHHHc-------CCEEEEEECCchHHHHhcC
Confidence 4689999999999999989998888776 5677777777666555443
No 427
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=97.68 E-value=0.00012 Score=50.30 Aligned_cols=40 Identities=20% Similarity=0.292 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHHhc-----------CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 19 GLNTIQFEAYKAALT-----------REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~-----------~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.|++.+..+.+ +..+++.|++|+|||+++..++..+
T Consensus 107 ~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 107 QASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred cCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 456666666665543 3588999999999999998886553
No 428
>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=97.68 E-value=9.3e-05 Score=46.84 Aligned_cols=35 Identities=20% Similarity=0.298 Sum_probs=26.0
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+.++|.|..|+|||+++..++. ... .+.++.++..
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~-------~~~~~~vI~n 35 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNR-------QGERVAVIVN 35 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHT-------TTS-EEEEEC
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-Hhc-------CCceeEEEEc
Confidence 3578999999999999998887 222 3677777764
No 429
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=97.68 E-value=4.7e-05 Score=53.40 Aligned_cols=26 Identities=42% Similarity=0.603 Sum_probs=23.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
++-+++.||||||||.+|..+...+-
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eLG 90 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIARELG 90 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHhC
Confidence 45789999999999999999999884
No 430
>KOG1533|consensus
Probab=97.68 E-value=5e-05 Score=50.57 Aligned_cols=25 Identities=24% Similarity=0.448 Sum_probs=19.1
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+|+||||+||||-...+-..+-..
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~ 29 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAI 29 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHh
Confidence 4799999999999866665555444
No 431
>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=97.68 E-value=0.00021 Score=54.98 Aligned_cols=27 Identities=22% Similarity=0.489 Sum_probs=24.1
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.+++||||+|||+++..++..+...
T Consensus 195 ~n~lL~G~pGvGKT~l~~~la~~i~~~ 221 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVEGLAQRIVNG 221 (852)
T ss_pred CceEEEcCCCCCHHHHHHHHHHHHhcc
Confidence 588999999999999999998888654
No 432
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=97.67 E-value=3.6e-05 Score=52.05 Aligned_cols=23 Identities=26% Similarity=0.374 Sum_probs=19.9
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.|+|||||||++..+...+
T Consensus 4 liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHC
Confidence 57889999999999999987665
No 433
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=97.67 E-value=0.00013 Score=55.30 Aligned_cols=23 Identities=39% Similarity=0.611 Sum_probs=20.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.||||||||+++.+++..+
T Consensus 489 giLL~GppGtGKT~lakalA~e~ 511 (733)
T TIGR01243 489 GVLLFGPPGTGKTLLAKAVATES 511 (733)
T ss_pred eEEEECCCCCCHHHHHHHHHHhc
Confidence 57899999999999999998765
No 434
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.66 E-value=0.00021 Score=48.47 Aligned_cols=27 Identities=37% Similarity=0.647 Sum_probs=24.3
Q ss_pred Cc-eEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EF-AIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~-~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+. +++.||||+|||+++..++..+...
T Consensus 24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 24 PHALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred CceeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 45 8999999999999999999999854
No 435
>KOG0733|consensus
Probab=97.66 E-value=1.6e-05 Score=58.90 Aligned_cols=24 Identities=33% Similarity=0.570 Sum_probs=20.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.-+++.||||||||.+|.++++..
T Consensus 546 sGvLL~GPPGCGKTLlAKAVANEa 569 (802)
T KOG0733|consen 546 SGVLLCGPPGCGKTLLAKAVANEA 569 (802)
T ss_pred CceEEeCCCCccHHHHHHHHhhhc
Confidence 357899999999999999997665
No 436
>KOG0741|consensus
Probab=97.66 E-value=4.1e-05 Score=56.14 Aligned_cols=26 Identities=38% Similarity=0.554 Sum_probs=23.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
-+++.||||||||.+|..+...+...
T Consensus 258 GiLLyGPPGTGKTLiARqIGkMLNAr 283 (744)
T KOG0741|consen 258 GILLYGPPGTGKTLIARQIGKMLNAR 283 (744)
T ss_pred eEEEECCCCCChhHHHHHHHHHhcCC
Confidence 47899999999999999998888665
No 437
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.66 E-value=0.0003 Score=49.19 Aligned_cols=70 Identities=17% Similarity=0.129 Sum_probs=58.9
Q ss_pred CCCCHHHHHHHHHHh----cCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 18 LGLNTIQFEAYKAAL----TREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~----~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
-+|++.|+.+-..+. +..-.+|++-+|+|||.++-..++..+.+ +.+|.+.+|.-+-.-++..++...+
T Consensus 96 G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~-------G~~vciASPRvDVclEl~~Rlk~aF 168 (441)
T COG4098 96 GTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQ-------GGRVCIASPRVDVCLELYPRLKQAF 168 (441)
T ss_pred cccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhc-------CCeEEEecCcccchHHHHHHHHHhh
Confidence 357888887655544 46789999999999999999999998887 8899999999988888888888776
Q ss_pred c
Q psy16285 94 Q 94 (97)
Q Consensus 94 ~ 94 (97)
.
T Consensus 169 ~ 169 (441)
T COG4098 169 S 169 (441)
T ss_pred c
Confidence 5
No 438
>CHL00176 ftsH cell division protein; Validated
Probab=97.66 E-value=5e-05 Score=56.75 Aligned_cols=23 Identities=43% Similarity=0.637 Sum_probs=20.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.||||||||+++.+++..+
T Consensus 218 gVLL~GPpGTGKT~LAralA~e~ 240 (638)
T CHL00176 218 GVLLVGPPGTGKTLLAKAIAGEA 240 (638)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 58999999999999999997654
No 439
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=97.65 E-value=0.00011 Score=49.12 Aligned_cols=44 Identities=20% Similarity=0.293 Sum_probs=31.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHA 81 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~ 81 (97)
+.++.||||+||||++.-+++.+-..- ..+.++++.++-.+++.
T Consensus 139 ntLiigpP~~GKTTlLRdiaR~~s~g~--~~~l~kkv~IiDersEI 182 (308)
T COG3854 139 NTLIIGPPQVGKTTLLRDIARLLSDGI--NQFLPKKVGIIDERSEI 182 (308)
T ss_pred eeEEecCCCCChHHHHHHHHHHhhccc--cccCCceEEEEeccchh
Confidence 689999999999999988887764431 12346677776655543
No 440
>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=97.65 E-value=4.8e-05 Score=54.17 Aligned_cols=24 Identities=29% Similarity=0.527 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++++.||||+|||+++..++..+
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l 140 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARIL 140 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhc
Confidence 469999999999999999998665
No 441
>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=97.65 E-value=2.7e-05 Score=47.20 Aligned_cols=23 Identities=30% Similarity=0.575 Sum_probs=17.4
Q ss_pred eEEeCCCCCchHHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+++.|+||+|||+++..++..+-
T Consensus 2 vLleg~PG~GKT~la~~lA~~~~ 24 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSLG 24 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHTT
T ss_pred EeeECCCccHHHHHHHHHHHHcC
Confidence 68999999999999998887763
No 442
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=97.64 E-value=0.00012 Score=51.97 Aligned_cols=29 Identities=28% Similarity=0.439 Sum_probs=25.4
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+++..+|.||||+|||+++..+...+..+
T Consensus 168 kGQR~lIvgppGvGKTTLaK~Ian~I~~n 196 (416)
T PRK09376 168 KGQRGLIVAPPKAGKTVLLQNIANSITTN 196 (416)
T ss_pred cCceEEEeCCCCCChhHHHHHHHHHHHhh
Confidence 46799999999999999999988887664
No 443
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.64 E-value=8e-05 Score=53.95 Aligned_cols=26 Identities=31% Similarity=0.377 Sum_probs=22.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+++.||+|||||+++..++..+...
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Lnce 67 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLNCE 67 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCcc
Confidence 36999999999999999999887653
No 444
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.64 E-value=0.00023 Score=50.08 Aligned_cols=56 Identities=23% Similarity=0.188 Sum_probs=39.7
Q ss_pred CCCCHHHHHHHHHHhcC--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 18 LGLNTIQFEAYKAALTR--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
-+.+.+|.-|++..++. +.+.+.|+.|||||-+|.+.+-.....++ .-.++++.-|
T Consensus 227 ~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~----~y~KiiVtRp 284 (436)
T COG1875 227 RPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERK----RYRKIIVTRP 284 (436)
T ss_pred CcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHh----hhceEEEecC
Confidence 45688999999998865 47888999999999987766544444332 2345555544
No 445
>KOG0329|consensus
Probab=97.63 E-value=4.4e-05 Score=51.53 Aligned_cols=70 Identities=20% Similarity=0.226 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHhcCCceEEeCCCCCchHHH-HHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 19 GLNTIQFEAYKAALTREFAIIQGPPGTGKTYV-ALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 19 ~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~-~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
..++.|.+.|..+.-+--++.++-+|-|||.+ ..+.+.++-.-. +...++++|+|++++.|+.+...+|.
T Consensus 64 hpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~-----g~vsvlvmchtrelafqi~~ey~rfs 134 (387)
T KOG0329|consen 64 HPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVD-----GQVSVLVMCHTRELAFQISKEYERFS 134 (387)
T ss_pred CchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCC-----CeEEEEEEeccHHHHHHHHHHHHHHH
Confidence 35677888888888888899999999999975 333344432221 24579999999999999999888775
No 446
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=97.63 E-value=0.00012 Score=46.46 Aligned_cols=27 Identities=22% Similarity=0.325 Sum_probs=23.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.|.|++||||||++..++..+...
T Consensus 7 ~ii~ivG~sgsGKTTLi~~li~~l~~~ 33 (173)
T PRK10751 7 PLLAIAAWSGTGKTTLLKKLIPALCAR 33 (173)
T ss_pred eEEEEECCCCChHHHHHHHHHHHHhhc
Confidence 467899999999999999999887653
No 447
>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=97.63 E-value=8.1e-05 Score=51.83 Aligned_cols=38 Identities=16% Similarity=0.376 Sum_probs=30.8
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNH 80 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~ 80 (97)
.++.|+||+||||++..+...+... .+.++.+++....
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~------~g~~v~~~~~Dd~ 39 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRE------RGWAVAVITYDDI 39 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhc------cCCeEEEEccccc
Confidence 5789999999999999999888754 3678888885443
No 448
>PRK15453 phosphoribulokinase; Provisional
Probab=97.63 E-value=0.00013 Score=49.68 Aligned_cols=26 Identities=23% Similarity=0.326 Sum_probs=21.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+..+.|.|+||+||||++..+...+-
T Consensus 5 ~piI~ItG~SGsGKTTva~~l~~if~ 30 (290)
T PRK15453 5 HPIIAVTGSSGAGTTTVKRAFEKIFR 30 (290)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence 46789999999999999888876553
No 449
>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=97.63 E-value=0.00013 Score=49.81 Aligned_cols=26 Identities=19% Similarity=0.322 Sum_probs=21.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
+..+.|.||||+|||+++..++....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~ 120 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQ 120 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34678999999999999998877654
No 450
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=97.63 E-value=5e-05 Score=48.16 Aligned_cols=20 Identities=40% Similarity=0.602 Sum_probs=17.2
Q ss_pred ceEEeCCCCCchHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIV 55 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~ 55 (97)
.++|+|.||+||||++..+.
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 57899999999999977664
No 451
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.62 E-value=0.00023 Score=54.16 Aligned_cols=38 Identities=16% Similarity=0.329 Sum_probs=28.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+.+.+.||+|+||||++..++..+.... +.++|.+++.
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~-----G~kkV~lit~ 223 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVARE-----GADQLALLTT 223 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHc-----CCCeEEEecC
Confidence 4678999999999999999998775431 2356766664
No 452
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=97.62 E-value=5.8e-05 Score=57.44 Aligned_cols=24 Identities=33% Similarity=0.641 Sum_probs=22.0
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.+++.||||||||+++..++..+
T Consensus 348 ~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 348 PILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999998887
No 453
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=97.62 E-value=0.00024 Score=44.83 Aligned_cols=25 Identities=32% Similarity=0.360 Sum_probs=20.3
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
...++|.|++||||+.+|..+-...
T Consensus 22 ~~pVlI~GE~GtGK~~lA~~IH~~s 46 (168)
T PF00158_consen 22 DLPVLITGETGTGKELLARAIHNNS 46 (168)
T ss_dssp TS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred CCCEEEEcCCCCcHHHHHHHHHHhh
Confidence 4689999999999999988886643
No 454
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=97.62 E-value=0.00015 Score=51.52 Aligned_cols=45 Identities=20% Similarity=0.280 Sum_probs=35.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQF 85 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~ 85 (97)
.++++|.|++|+|||+++..++..+... +.+++|+=|..+....+
T Consensus 42 ~~h~~i~g~tGsGKt~~i~~l~~~~~~~-------~~~~vi~D~kg~~~~~~ 86 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQIRELLASIRAR-------GDRAIIYDPNGGFVSKF 86 (410)
T ss_pred hccEEEEcCCCCCHHHHHHHHHHHHHhc-------CCCEEEEeCCcchhHhh
Confidence 3588999999999999988888877665 66788888877765544
No 455
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=97.62 E-value=5.3e-05 Score=44.54 Aligned_cols=22 Identities=36% Similarity=0.590 Sum_probs=19.2
Q ss_pred CCceEEeCCCCCchHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIV 55 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~ 55 (97)
++.+.+.||+|+|||+++..+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 4678999999999999988765
No 456
>PHA02774 E1; Provisional
Probab=97.62 E-value=0.0001 Score=54.47 Aligned_cols=24 Identities=29% Similarity=0.652 Sum_probs=22.0
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.||||||||+++..++..+
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999999887
No 457
>PRK14526 adenylate kinase; Provisional
Probab=97.61 E-value=6.6e-05 Score=48.98 Aligned_cols=22 Identities=32% Similarity=0.570 Sum_probs=18.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
+++|.||||+||||++..++..
T Consensus 2 ~i~l~G~pGsGKsT~a~~La~~ 23 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILSNE 23 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999998877643
No 458
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=97.61 E-value=7.9e-05 Score=44.86 Aligned_cols=27 Identities=19% Similarity=0.329 Sum_probs=23.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
.+..+++.|+-|+|||+++..++..+-
T Consensus 14 ~g~vi~L~GdLGaGKTtf~r~l~~~lg 40 (123)
T PF02367_consen 14 PGDVILLSGDLGAGKTTFVRGLARALG 40 (123)
T ss_dssp S-EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence 456889999999999999999998883
No 459
>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=97.61 E-value=0.0002 Score=54.56 Aligned_cols=54 Identities=28% Similarity=0.381 Sum_probs=45.1
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
++..+|.+|-|||||+.+..-+...+.. +..++|++++.+..+.++.+++...+
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~------~~~~VLvVShRrSL~~sL~~rf~~~~ 102 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKN------PDKSVLVVSHRRSLTKSLAERFKKAG 102 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccC------CCCeEEEEEhHHHHHHHHHHHHhhcC
Confidence 4678999999999999766666666544 58899999999999999999997654
No 460
>PRK05595 replicative DNA helicase; Provisional
Probab=97.61 E-value=0.00021 Score=51.28 Aligned_cols=51 Identities=24% Similarity=0.262 Sum_probs=36.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLK 91 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~ 91 (97)
+..++|.|+||.|||+++..++..+..+ .+.++++++.. ...+++..++..
T Consensus 201 g~liviaarpg~GKT~~al~ia~~~a~~------~g~~vl~fSlE-ms~~~l~~R~~a 251 (444)
T PRK05595 201 GDMILIAARPSMGKTTFALNIAEYAALR------EGKSVAIFSLE-MSKEQLAYKLLC 251 (444)
T ss_pred CcEEEEEecCCCChHHHHHHHHHHHHHH------cCCcEEEEecC-CCHHHHHHHHHH
Confidence 4577899999999999999999875433 26788888753 345555555443
No 461
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.61 E-value=0.00012 Score=54.75 Aligned_cols=45 Identities=22% Similarity=0.340 Sum_probs=31.9
Q ss_pred cCCCCCHHHHHHHHHHhcC--------CceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 16 EELGLNTIQFEAYKAALTR--------EFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~--------~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
..+...+.+.+.+..+... +.+++.||||+|||+++..++..+..
T Consensus 84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~ 136 (637)
T TIGR00602 84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGI 136 (637)
T ss_pred HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhh
Confidence 3455566666666665532 34899999999999998888766543
No 462
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.61 E-value=0.00028 Score=53.72 Aligned_cols=28 Identities=21% Similarity=0.384 Sum_probs=24.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+.++.||||+|||+++..++..+...
T Consensus 207 ~~n~LLvGppGvGKT~lae~la~~i~~~ 234 (758)
T PRK11034 207 KNNPLLVGESGVGKTAIAEGLAWRIVQG 234 (758)
T ss_pred CCCeEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3588999999999999999998877654
No 463
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=97.61 E-value=0.00015 Score=52.95 Aligned_cols=27 Identities=26% Similarity=0.191 Sum_probs=23.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
..+++.||+|+|||+++..++..+...
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc~ 70 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVNCS 70 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 368999999999999999999888653
No 464
>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=97.60 E-value=7.2e-05 Score=53.45 Aligned_cols=24 Identities=33% Similarity=0.509 Sum_probs=22.0
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++++.||||+|||+++..++..+
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~~l 71 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAKLA 71 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 589999999999999999998876
No 465
>PRK14529 adenylate kinase; Provisional
Probab=97.60 E-value=7.3e-05 Score=49.23 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=20.0
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++++.||||+||||.+..++..+
T Consensus 2 ~I~l~G~PGsGK~T~a~~La~~~ 24 (223)
T PRK14529 2 NILIFGPNGSGKGTQGALVKKKY 24 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 47899999999999988887665
No 466
>KOG0951|consensus
Probab=97.60 E-value=0.00042 Score=55.02 Aligned_cols=76 Identities=28% Similarity=0.285 Sum_probs=55.4
Q ss_pred CCCCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHHHhc-hhhh---hcCCCCEEEEeCChHHHHHHHHHHHhh
Q psy16285 18 LGLNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGFLKN-KELA---RYMSGPILIVCYTNHALDQFVEGVLKY 92 (97)
Q Consensus 18 ~~l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~~~~-~~~~---~~~~~~ilv~~~~~~~~~~~~~~l~~~ 92 (97)
..|+..|......+.. .+++++.||+|+|||-++..-+-+-+.. .+.. ...+.++.+++|...++.++...+.+.
T Consensus 308 ~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkR 387 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKR 387 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhh
Confidence 3488899988888885 4799999999999999865544333333 2211 114568999999999999998866554
Q ss_pred c
Q psy16285 93 T 93 (97)
Q Consensus 93 ~ 93 (97)
.
T Consensus 388 l 388 (1674)
T KOG0951|consen 388 L 388 (1674)
T ss_pred c
Confidence 3
No 467
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=97.60 E-value=6.6e-05 Score=45.72 Aligned_cols=22 Identities=36% Similarity=0.810 Sum_probs=19.0
Q ss_pred eEEeCCCCCchHHHHHHHHHHH
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
++|.||+|+|||+++..+...+
T Consensus 2 i~i~GpsGsGKstl~~~L~~~~ 23 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEEF 23 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhcC
Confidence 6789999999999988887654
No 468
>PLN02674 adenylate kinase
Probab=97.59 E-value=6.8e-05 Score=50.01 Aligned_cols=23 Identities=35% Similarity=0.544 Sum_probs=19.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEG 57 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~ 57 (97)
.+++|.||||+||||.+..++..
T Consensus 32 ~~i~l~G~PGsGKgT~a~~La~~ 54 (244)
T PLN02674 32 KRLILIGPPGSGKGTQSPIIKDE 54 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 57899999999999998888653
No 469
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=97.59 E-value=0.00028 Score=44.63 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=24.2
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+..+++.|+||+|||+++..+...+...
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~~l~~~ 45 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEKKLESK 45 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 34688999999999999999998877543
No 470
>PHA02542 41 41 helicase; Provisional
Probab=97.59 E-value=0.00024 Score=51.48 Aligned_cols=37 Identities=11% Similarity=0.275 Sum_probs=30.9
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+..++|.|+||.|||+++..++..+.+. +.++++++-
T Consensus 190 G~LiiIaarPgmGKTtfalniA~~~a~~-------g~~Vl~fSL 226 (473)
T PHA02542 190 KTLNVLLAGVNVGKSLGLCSLAADYLQQ-------GYNVLYISM 226 (473)
T ss_pred CcEEEEEcCCCccHHHHHHHHHHHHHhc-------CCcEEEEec
Confidence 4578899999999999999999888644 778888873
No 471
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=97.59 E-value=0.00011 Score=50.38 Aligned_cols=45 Identities=18% Similarity=0.252 Sum_probs=33.8
Q ss_pred HHHHHHHhc--C--CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 25 FEAYKAALT--R--EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 25 ~~~i~~~~~--~--~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
++.+..+.. + ..+=|+|+||.||||+.-.++..+.+. +.+|-|++
T Consensus 38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~-------G~rVaVlA 86 (323)
T COG1703 38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRER-------GHRVAVLA 86 (323)
T ss_pred HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHC-------CcEEEEEE
Confidence 445555542 2 356789999999999999999999777 66666665
No 472
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=97.58 E-value=0.00036 Score=45.85 Aligned_cols=54 Identities=26% Similarity=0.465 Sum_probs=45.3
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhccCC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYTQNT 96 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~~~~ 96 (97)
..++|.|+.|||||.+...++.-++.+ +.++.+++ |...+..++.+..+.+.++
T Consensus 29 sL~lIEGd~~tGKSvLsqr~~YG~L~~-------g~~v~yvs-Te~T~refi~qm~sl~ydv 82 (235)
T COG2874 29 SLILIEGDNGTGKSVLSQRFAYGFLMN-------GYRVTYVS-TELTVREFIKQMESLSYDV 82 (235)
T ss_pred eEEEEECCCCccHHHHHHHHHHHHHhC-------CceEEEEE-echhHHHHHHHHHhcCCCc
Confidence 467999999999999999999999998 77888888 6667888888887776543
No 473
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=97.58 E-value=5.5e-05 Score=45.41 Aligned_cols=26 Identities=27% Similarity=0.436 Sum_probs=21.7
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++.+.|.|++|+|||+++..++...
T Consensus 10 ~g~~~~i~G~nGsGKStLl~~l~g~~ 35 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLLKALAGLL 35 (137)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred CCCEEEEEccCCCccccceeeecccc
Confidence 46789999999999999988775544
No 474
>PRK00698 tmk thymidylate kinase; Validated
Probab=97.58 E-value=0.00018 Score=45.85 Aligned_cols=28 Identities=25% Similarity=0.271 Sum_probs=23.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
+..++|.|+.|+||||++..+...+...
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~ 30 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQ 30 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 4578999999999999999888877543
No 475
>KOG0730|consensus
Probab=97.58 E-value=3.7e-05 Score=57.06 Aligned_cols=59 Identities=19% Similarity=0.130 Sum_probs=34.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
+-+++.||||||||+++.+++...-.+.-....+.--..++-.+..++.+++++.+...
T Consensus 469 kGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~a 527 (693)
T KOG0730|consen 469 KGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVA 527 (693)
T ss_pred ceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcC
Confidence 46899999999999999999877633311000000011123335566666666655543
No 476
>KOG0736|consensus
Probab=97.58 E-value=5.3e-05 Score=57.38 Aligned_cols=24 Identities=38% Similarity=0.616 Sum_probs=20.6
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.-+++.||||||||.+|.+++..+
T Consensus 706 SGILLYGPPGTGKTLlAKAVATEc 729 (953)
T KOG0736|consen 706 SGILLYGPPGTGKTLLAKAVATEC 729 (953)
T ss_pred ceeEEECCCCCchHHHHHHHHhhc
Confidence 357899999999999999997654
No 477
>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=97.58 E-value=0.00012 Score=48.93 Aligned_cols=25 Identities=28% Similarity=0.379 Sum_probs=21.5
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFL 59 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~ 59 (97)
..+.|.|++|+|||++|..++....
T Consensus 20 ~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 20 RVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp EEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred EEEEEEcCCcCCcceeeeecccccc
Confidence 4789999999999999999886644
No 478
>PRK14738 gmk guanylate kinase; Provisional
Probab=97.57 E-value=6.9e-05 Score=48.51 Aligned_cols=23 Identities=39% Similarity=0.642 Sum_probs=19.2
Q ss_pred CCceEEeCCCCCchHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+..++|.||+|+|||+++..+..
T Consensus 13 ~~~ivi~GpsG~GK~tl~~~L~~ 35 (206)
T PRK14738 13 PLLVVISGPSGVGKDAVLARMRE 35 (206)
T ss_pred CeEEEEECcCCCCHHHHHHHHHh
Confidence 45788999999999999877754
No 479
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=97.57 E-value=0.00016 Score=51.42 Aligned_cols=29 Identities=28% Similarity=0.507 Sum_probs=24.6
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.++.++|.||||+|||+++..+...+..+
T Consensus 167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n 195 (415)
T TIGR00767 167 KGQRGLIVAPPKAGKTVLLQKIAQAITRN 195 (415)
T ss_pred CCCEEEEECCCCCChhHHHHHHHHhhccc
Confidence 46789999999999999988888776554
No 480
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=97.57 E-value=0.00016 Score=50.40 Aligned_cols=39 Identities=21% Similarity=0.215 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHHhc-CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 20 LNTIQFEAYKAALT-REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 20 l~~~Q~~~i~~~~~-~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+++.+.+.+..+.+ +.+++|.|++|+|||+++..++..+
T Consensus 163 ~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~~~i 202 (340)
T TIGR03819 163 FPPGVARLLRAIVAARLAFLISGGTGSGKTTLLSALLALV 202 (340)
T ss_pred CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHccC
Confidence 45666677776664 5699999999999999988887655
No 481
>KOG0734|consensus
Probab=97.57 E-value=9e-05 Score=54.45 Aligned_cols=22 Identities=41% Similarity=0.715 Sum_probs=19.2
Q ss_pred CceEEeCCCCCchHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+-++++||||||||.++.+++.
T Consensus 338 KGVLLvGPPGTGKTlLARAvAG 359 (752)
T KOG0734|consen 338 KGVLLVGPPGTGKTLLARAVAG 359 (752)
T ss_pred CceEEeCCCCCchhHHHHHhhc
Confidence 3579999999999999999853
No 482
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.57 E-value=0.0002 Score=55.19 Aligned_cols=26 Identities=23% Similarity=0.396 Sum_probs=23.1
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+++.||||||||+++..++..++..
T Consensus 600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~~ 625 (857)
T PRK10865 600 SFLFLGPTGVGKTELCKALANFMFDS 625 (857)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhcC
Confidence 57899999999999999999888654
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=97.57 E-value=0.00038 Score=53.65 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=23.9
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.+++||||+|||+++..++..+...
T Consensus 209 ~n~lLvG~pGvGKTal~~~La~~i~~~ 235 (852)
T TIGR03345 209 NNPILTGEAGVGKTAVVEGLALRIAAG 235 (852)
T ss_pred CceeEECCCCCCHHHHHHHHHHHHhhC
Confidence 588999999999999999998887654
No 484
>PRK01184 hypothetical protein; Provisional
Probab=97.56 E-value=7.4e-05 Score=47.22 Aligned_cols=17 Identities=29% Similarity=0.438 Sum_probs=14.7
Q ss_pred ceEEeCCCCCchHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVAL 52 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~ 52 (97)
.++|+||||+||||++.
T Consensus 3 ~i~l~G~~GsGKsT~a~ 19 (184)
T PRK01184 3 IIGVVGMPGSGKGEFSK 19 (184)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 46889999999999754
No 485
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=97.56 E-value=0.00025 Score=45.37 Aligned_cols=35 Identities=17% Similarity=0.289 Sum_probs=28.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEe
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVC 76 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~ 76 (97)
..+-++|.+|+||||++.++-..+.+. +..+.++-
T Consensus 24 ~viW~TGLSGsGKSTiA~ale~~L~~~-------G~~~y~LD 58 (197)
T COG0529 24 AVIWFTGLSGSGKSTIANALEEKLFAK-------GYHVYLLD 58 (197)
T ss_pred eEEEeecCCCCCHHHHHHHHHHHHHHc-------CCeEEEec
Confidence 367789999999999999999999887 55666554
No 486
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.56 E-value=8.1e-05 Score=54.25 Aligned_cols=24 Identities=33% Similarity=0.376 Sum_probs=21.6
Q ss_pred eEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 37 AIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 37 ~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
+++.||||||||+++..++..+..
T Consensus 39 ~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 39 YLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhc
Confidence 499999999999999999988864
No 487
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=97.56 E-value=0.00017 Score=50.13 Aligned_cols=24 Identities=21% Similarity=0.263 Sum_probs=21.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+.+++.|+||||||+++..+...+
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHHC
Confidence 589999999999999999887776
No 488
>COG3911 Predicted ATPase [General function prediction only]
Probab=97.56 E-value=7.6e-05 Score=46.57 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=19.5
Q ss_pred CCceEEeCCCCCchHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVE 56 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~ 56 (97)
+..++++|.||.|||+++.++..
T Consensus 9 ~~~fIltGgpGaGKTtLL~aLa~ 31 (183)
T COG3911 9 HKRFILTGGPGAGKTTLLAALAR 31 (183)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHH
Confidence 45889999999999999887743
No 489
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=6.2e-05 Score=54.43 Aligned_cols=23 Identities=39% Similarity=0.585 Sum_probs=20.5
Q ss_pred ceEEeCCCCCchHHHHHHHHHHH
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.+++.||||||||.++.+++...
T Consensus 278 giLl~GpPGtGKT~lAkava~~~ 300 (494)
T COG0464 278 GVLLYGPPGTGKTLLAKAVALES 300 (494)
T ss_pred eeEEECCCCCCHHHHHHHHHhhC
Confidence 58999999999999999998744
No 490
>PTZ00202 tuzin; Provisional
Probab=97.55 E-value=0.00072 Score=49.05 Aligned_cols=44 Identities=16% Similarity=0.165 Sum_probs=35.2
Q ss_pred ccCCCCCHHHHHHHHHHhcC------CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 15 QEELGLNTIQFEAYKAALTR------EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 15 ~~~~~l~~~Q~~~i~~~~~~------~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
...+.-++.+..++..+..+ ..++|+|++|+|||+++..++..+
T Consensus 261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l 310 (550)
T PTZ00202 261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE 310 (550)
T ss_pred ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC
Confidence 45677788899999888752 367899999999999988877544
No 491
>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=97.55 E-value=0.00033 Score=48.09 Aligned_cols=36 Identities=25% Similarity=0.346 Sum_probs=29.8
Q ss_pred CceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeC
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCY 77 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~ 77 (97)
+.+++.|.-|+||||++.+++.++-+. ++++|+++.
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~-------G~rtLlvS~ 37 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARR-------GKRTLLVST 37 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHT-------TS-EEEEES
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhC-------CCCeeEeec
Confidence 357899999999999999999888776 788888873
No 492
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=97.55 E-value=0.00011 Score=45.89 Aligned_cols=24 Identities=25% Similarity=0.483 Sum_probs=20.7
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
.++++.|++|+|||+++..++..+
T Consensus 3 ~~i~~~G~~GsGKst~~~~la~~l 26 (171)
T PRK03731 3 QPLFLVGARGCGKTTVGMALAQAL 26 (171)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 357889999999999999987765
No 493
>PRK13946 shikimate kinase; Provisional
Probab=97.54 E-value=0.0001 Score=46.88 Aligned_cols=26 Identities=23% Similarity=0.392 Sum_probs=22.5
Q ss_pred cCCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 33 TREFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 33 ~~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
...++++.|++|+|||+++..+...+
T Consensus 9 ~~~~I~l~G~~GsGKsti~~~LA~~L 34 (184)
T PRK13946 9 GKRTVVLVGLMGAGKSTVGRRLATML 34 (184)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 35689999999999999999987765
No 494
>PRK14737 gmk guanylate kinase; Provisional
Probab=97.54 E-value=8.2e-05 Score=47.60 Aligned_cols=25 Identities=24% Similarity=0.393 Sum_probs=21.0
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHH
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
+..++|.||+|+|||+++..++...
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~~ 28 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEEH 28 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhcC
Confidence 3568999999999999988887653
No 495
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=97.54 E-value=0.0001 Score=42.98 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=19.6
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
.++|.|++|+|||+++..++..-..
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~ 25 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP 25 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc
Confidence 3689999999999998888755444
No 496
>KOG0949|consensus
Probab=97.54 E-value=0.00043 Score=53.85 Aligned_cols=73 Identities=22% Similarity=0.290 Sum_probs=63.4
Q ss_pred cCCCCCHHHHHHHHHHhcCCceEEeCCCCCchHHHHHHHHHHHHhchhhhhcCCCCEEEEeCChHHHHHHHHHHHhhc
Q psy16285 16 EELGLNTIQFEAYKAALTREFAIIQGPPGTGKTYVALRIVEGFLKNKELARYMSGPILIVCYTNHALDQFVEGVLKYT 93 (97)
Q Consensus 16 ~~~~l~~~Q~~~i~~~~~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~~~~~~~~~~~ilv~~~~~~~~~~~~~~l~~~~ 93 (97)
.++..+.+|.+.++...+++..+|.+|+-+|||++.-..++..++.. ...-+++++|+..++.|+...+...+
T Consensus 508 ~dF~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLRes-----D~~VVIyvaPtKaLVnQvsa~VyaRF 580 (1330)
T KOG0949|consen 508 HDFCPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-----DSDVVIYVAPTKALVNQVSANVYARF 580 (1330)
T ss_pred hccCCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhc-----CCCEEEEecchHHHhhhhhHHHHHhh
Confidence 35778999999999999999999999999999999999888888875 46778999999999999887765544
No 497
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=97.54 E-value=0.0002 Score=53.13 Aligned_cols=45 Identities=18% Similarity=0.204 Sum_probs=32.4
Q ss_pred CCCCCHHHHHHHHHHh--------cCCceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 17 ELGLNTIQFEAYKAAL--------TREFAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 17 ~~~l~~~Q~~~i~~~~--------~~~~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.+.+.-...+.... +++.+++.||||+|||+++..++..+-+.
T Consensus 78 ~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~ 130 (644)
T PRK15455 78 FYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV 130 (644)
T ss_pred ccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence 3455565555555541 14578999999999999999998877554
No 498
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=97.53 E-value=0.0002 Score=48.54 Aligned_cols=26 Identities=31% Similarity=0.344 Sum_probs=23.4
Q ss_pred ceEEeCCCCCchHHHHHHHHHHHHhc
Q psy16285 36 FAIIQGPPGTGKTYVALRIVEGFLKN 61 (97)
Q Consensus 36 ~~~v~Gp~GtGKT~~~~~~~~~~~~~ 61 (97)
.+.|.|++||||||++..++..+.+.
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~ 28 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGR 28 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 46789999999999999999999776
No 499
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.53 E-value=0.00022 Score=50.92 Aligned_cols=27 Identities=22% Similarity=0.358 Sum_probs=22.8
Q ss_pred CCceEEeCCCCCchHHHHHHHHHHHHh
Q psy16285 34 REFAIIQGPPGTGKTYVALRIVEGFLK 60 (97)
Q Consensus 34 ~~~~~v~Gp~GtGKT~~~~~~~~~~~~ 60 (97)
++.+.+.||+|+||||++..++..+..
T Consensus 191 g~vi~lvGpnG~GKTTtlakLA~~~~~ 217 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTAKLAARAVI 217 (420)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 457899999999999999988876543
No 500
>PRK13975 thymidylate kinase; Provisional
Probab=97.53 E-value=0.00011 Score=46.72 Aligned_cols=24 Identities=33% Similarity=0.542 Sum_probs=21.2
Q ss_pred CceEEeCCCCCchHHHHHHHHHHH
Q psy16285 35 EFAIIQGPPGTGKTYVALRIVEGF 58 (97)
Q Consensus 35 ~~~~v~Gp~GtGKT~~~~~~~~~~ 58 (97)
..+++.|++|+||||++..+...+
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~l 26 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEKL 26 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999999888776
Done!