Query psy14273
Match_columns 115
No_of_seqs 103 out of 1033
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 15:39:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14273.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14273hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1133|consensus 99.8 3.7E-20 8E-25 163.6 7.9 95 21-115 6-105 (821)
2 smart00488 DEXDc2 DEAD-like he 99.7 5.3E-18 1.1E-22 135.5 7.0 56 24-79 2-57 (289)
3 smart00489 DEXDc3 DEAD-like he 99.7 5.3E-18 1.1E-22 135.5 7.0 56 24-79 2-57 (289)
4 TIGR00604 rad3 DNA repair heli 99.6 7.5E-16 1.6E-20 135.2 6.7 56 23-78 2-58 (705)
5 KOG1132|consensus 99.5 2.9E-14 6.3E-19 128.7 5.3 60 22-81 13-72 (945)
6 PRK11747 dinG ATP-dependent DN 99.5 7.7E-14 1.7E-18 123.1 6.2 57 25-81 19-81 (697)
7 COG1199 DinG Rad3-related DNA 99.4 1E-13 2.3E-18 119.5 6.1 59 23-81 7-66 (654)
8 KOG1131|consensus 99.4 6E-13 1.3E-17 116.3 6.1 63 18-80 3-66 (755)
9 PRK08074 bifunctional ATP-depe 99.4 6E-13 1.3E-17 120.6 6.3 53 29-81 256-308 (928)
10 TIGR01407 dinG_rel DnaQ family 99.2 8.2E-12 1.8E-16 112.0 5.7 49 27-75 242-290 (850)
11 PRK07246 bifunctional ATP-depe 99.1 1.5E-10 3.3E-15 104.2 6.2 47 28-74 243-289 (820)
12 TIGR03117 cas_csf4 CRISPR-asso 98.9 1.7E-09 3.8E-14 95.6 5.6 43 34-76 1-43 (636)
13 PF04851 ResIII: Type III rest 98.8 1.2E-08 2.7E-13 72.3 5.4 47 29-75 2-51 (184)
14 PRK04837 ATP-dependent RNA hel 98.7 1.7E-08 3.8E-13 83.2 6.1 48 25-76 24-72 (423)
15 cd00268 DEADc DEAD-box helicas 98.7 2.9E-08 6.2E-13 73.0 6.1 47 27-77 17-64 (203)
16 TIGR00614 recQ_fam ATP-depende 98.7 2.7E-08 6E-13 83.6 5.5 45 24-72 4-49 (470)
17 PF00270 DEAD: DEAD/DEAH box h 98.7 4.5E-08 9.8E-13 69.2 5.7 41 33-77 2-42 (169)
18 PLN00206 DEAD-box ATP-dependen 98.7 3.8E-08 8.2E-13 84.0 6.1 46 27-76 139-185 (518)
19 PRK10590 ATP-dependent RNA hel 98.7 4.3E-08 9.4E-13 82.0 6.2 48 26-77 18-66 (456)
20 PRK11192 ATP-dependent RNA hel 98.7 4.9E-08 1.1E-12 80.5 6.1 47 27-77 19-66 (434)
21 PTZ00424 helicase 45; Provisio 98.6 5.5E-08 1.2E-12 78.6 5.8 48 25-76 44-92 (401)
22 PRK11776 ATP-dependent RNA hel 98.6 9.5E-08 2.1E-12 79.6 6.1 48 26-77 21-69 (460)
23 PRK01297 ATP-dependent RNA hel 98.6 1E-07 2.2E-12 80.0 6.1 47 27-77 105-152 (475)
24 TIGR01389 recQ ATP-dependent D 98.6 7.5E-08 1.6E-12 83.0 5.4 45 24-72 6-51 (591)
25 PTZ00110 helicase; Provisional 98.6 1.2E-07 2.6E-12 81.7 5.9 46 27-76 148-194 (545)
26 PRK11057 ATP-dependent DNA hel 98.5 1E-07 2.2E-12 83.0 5.3 46 23-72 17-63 (607)
27 PRK04537 ATP-dependent RNA hel 98.5 1.4E-07 3.1E-12 81.8 6.2 47 26-76 26-73 (572)
28 TIGR03817 DECH_helic helicase/ 98.5 1.7E-07 3.6E-12 83.8 6.2 47 27-77 32-79 (742)
29 PRK10917 ATP-dependent DNA hel 98.5 3.6E-07 7.8E-12 80.7 6.5 52 25-76 256-309 (681)
30 PRK11634 ATP-dependent RNA hel 98.4 6E-07 1.3E-11 79.0 6.2 48 26-77 23-71 (629)
31 PLN03137 ATP-dependent DNA hel 98.4 4.7E-07 1E-11 84.8 5.4 46 23-72 452-498 (1195)
32 KOG0348|consensus 98.4 1.3E-07 2.8E-12 83.3 1.5 55 23-81 151-206 (708)
33 KOG0345|consensus 98.4 6E-07 1.3E-11 78.0 5.5 49 26-78 23-72 (567)
34 TIGR00643 recG ATP-dependent D 98.4 8.8E-07 1.9E-11 77.5 6.6 52 25-76 230-283 (630)
35 PRK13767 ATP-dependent helicas 98.3 8.2E-07 1.8E-11 80.6 6.0 44 29-76 30-74 (876)
36 COG1201 Lhr Lhr-like helicases 98.3 1E-06 2.2E-11 80.1 6.0 45 29-77 20-65 (814)
37 TIGR00580 mfd transcription-re 98.3 1.3E-06 2.8E-11 80.2 6.5 52 26-77 447-500 (926)
38 smart00487 DEXDc DEAD-like hel 98.3 1.3E-06 2.7E-11 61.2 5.1 46 28-77 6-52 (201)
39 COG0513 SrmB Superfamily II DN 98.3 1.2E-06 2.6E-11 75.2 5.9 46 27-76 47-93 (513)
40 PRK01172 ski2-like helicase; P 98.3 1.3E-06 2.8E-11 76.4 5.7 48 27-78 19-66 (674)
41 PRK02362 ski2-like helicase; P 98.2 2.1E-06 4.6E-11 76.1 5.5 49 28-79 20-69 (737)
42 PRK00254 ski2-like helicase; P 98.2 3.1E-06 6.8E-11 74.8 5.6 49 27-78 19-68 (720)
43 COG1205 Distinct helicase fami 98.1 5.1E-06 1.1E-10 75.8 5.7 47 30-80 70-116 (851)
44 KOG0335|consensus 98.0 2.7E-06 5.9E-11 73.6 1.4 47 29-79 94-141 (482)
45 KOG0331|consensus 98.0 4.5E-06 9.7E-11 72.8 2.7 46 27-76 109-155 (519)
46 PRK10689 transcription-repair 97.9 1.7E-05 3.8E-10 74.3 6.5 51 25-75 595-647 (1147)
47 PRK12899 secA preprotein trans 97.9 1.4E-05 3.1E-10 73.8 5.6 48 25-76 87-134 (970)
48 KOG0344|consensus 97.9 9.3E-06 2E-10 71.6 4.1 47 28-78 155-202 (593)
49 KOG0350|consensus 97.9 9E-06 2E-10 71.3 3.3 50 31-80 160-214 (620)
50 PRK11448 hsdR type I restricti 97.9 3.1E-05 6.7E-10 72.5 6.7 50 27-76 410-460 (1123)
51 KOG0330|consensus 97.8 1.7E-05 3.8E-10 67.9 3.5 49 28-80 80-129 (476)
52 COG0514 RecQ Superfamily II DN 97.8 2E-05 4.2E-10 69.8 3.7 47 23-73 9-56 (590)
53 PRK09694 helicase Cas3; Provis 97.8 3.2E-05 6.9E-10 71.0 5.2 45 28-76 284-328 (878)
54 COG1061 SSL2 DNA or RNA helica 97.8 4.3E-05 9.3E-10 64.6 5.5 45 25-69 31-75 (442)
55 PRK09401 reverse gyrase; Revie 97.7 5.6E-05 1.2E-09 71.1 5.8 48 26-78 76-123 (1176)
56 COG1204 Superfamily II helicas 97.7 3.6E-05 7.8E-10 69.7 4.1 48 30-80 31-78 (766)
57 TIGR02621 cas3_GSU0051 CRISPR- 97.7 4.9E-05 1.1E-09 69.6 4.7 41 27-71 12-53 (844)
58 KOG0346|consensus 97.7 4.3E-05 9.3E-10 66.5 4.0 50 27-80 37-87 (569)
59 PRK05580 primosome assembly pr 97.7 8.9E-05 1.9E-09 65.9 5.9 50 26-76 140-189 (679)
60 PRK14701 reverse gyrase; Provi 97.6 8.2E-05 1.8E-09 72.0 5.3 45 26-74 75-119 (1638)
61 PHA02653 RNA helicase NPH-II; 97.6 0.00012 2.6E-09 65.6 5.6 45 31-75 161-214 (675)
62 PHA02558 uvsW UvsW helicase; P 97.6 0.00013 2.8E-09 62.3 5.5 38 28-69 112-149 (501)
63 KOG0338|consensus 97.6 3.7E-05 7.9E-10 68.0 2.1 51 27-81 199-250 (691)
64 TIGR00348 hsdR type I site-spe 97.5 0.00014 3.1E-09 64.4 5.3 45 31-75 239-289 (667)
65 TIGR03158 cas3_cyano CRISPR-as 97.5 0.00011 2.4E-09 60.1 4.4 34 35-72 2-37 (357)
66 TIGR01054 rgy reverse gyrase. 97.5 0.00015 3.3E-09 68.2 5.7 49 27-80 75-123 (1171)
67 KOG0354|consensus 97.5 0.00017 3.7E-09 65.4 5.0 48 27-79 59-106 (746)
68 KOG0342|consensus 97.5 5.6E-05 1.2E-09 66.0 1.9 50 26-79 99-149 (543)
69 cd00046 DEXDc DEAD-like helica 97.4 0.00016 3.4E-09 47.6 3.5 27 50-76 1-27 (144)
70 COG4581 Superfamily II RNA hel 97.4 0.00024 5.3E-09 66.3 5.8 70 7-81 96-165 (1041)
71 PF02562 PhoH: PhoH-like prote 97.4 0.00026 5.6E-09 55.1 5.1 42 33-78 7-48 (205)
72 PRK11664 ATP-dependent RNA hel 97.4 0.00022 4.7E-09 64.9 5.2 38 37-74 8-45 (812)
73 TIGR01587 cas3_core CRISPR-ass 97.4 0.00014 3E-09 58.3 3.3 25 52-76 2-26 (358)
74 PRK13766 Hef nuclease; Provisi 97.4 0.00025 5.4E-09 62.8 5.2 50 26-80 11-60 (773)
75 TIGR03714 secA2 accessory Sec 97.4 0.00021 4.6E-09 64.9 4.5 41 32-76 70-110 (762)
76 TIGR00603 rad25 DNA repair hel 97.3 0.00045 9.8E-09 62.5 6.4 45 24-71 249-295 (732)
77 PF13086 AAA_11: AAA domain; P 97.3 0.00021 4.5E-09 52.1 3.5 38 33-74 4-41 (236)
78 PRK12898 secA preprotein trans 97.3 0.00032 6.9E-09 62.8 5.1 48 23-76 96-143 (656)
79 TIGR02640 gas_vesic_GvpN gas v 97.3 0.00061 1.3E-08 53.5 5.8 38 30-67 2-39 (262)
80 PF13245 AAA_19: Part of AAA d 97.3 0.00045 9.8E-09 45.6 4.1 35 41-75 2-36 (76)
81 KOG0334|consensus 97.3 0.00015 3.3E-09 67.3 2.4 48 25-76 381-429 (997)
82 KOG0340|consensus 97.3 0.0002 4.3E-09 61.0 2.9 49 29-81 28-76 (442)
83 TIGR01970 DEAH_box_HrpB ATP-de 97.2 0.00044 9.4E-09 63.1 5.1 38 37-74 5-42 (819)
84 KOG0952|consensus 97.2 0.00041 9E-09 65.1 4.2 53 21-76 100-153 (1230)
85 cd00009 AAA The AAA+ (ATPases 97.1 0.0011 2.4E-08 44.0 4.6 32 34-65 2-35 (151)
86 KOG0352|consensus 97.1 0.00062 1.3E-08 59.6 4.2 45 24-71 12-58 (641)
87 PRK09200 preprotein translocas 97.1 0.00091 2E-08 61.1 5.2 44 26-75 74-117 (790)
88 COG4096 HsdR Type I site-speci 97.0 0.001 2.2E-08 61.2 5.1 47 31-77 166-213 (875)
89 KOG0333|consensus 97.0 0.0005 1.1E-08 61.0 3.0 48 27-78 263-311 (673)
90 PF01695 IstB_IS21: IstB-like 96.9 0.0013 2.7E-08 49.4 4.2 48 33-81 29-78 (178)
91 KOG0343|consensus 96.9 0.00042 9.2E-09 61.9 1.4 43 31-77 92-134 (758)
92 PHA02244 ATPase-like protein 96.8 0.004 8.7E-08 52.9 7.0 43 23-65 92-135 (383)
93 TIGR00963 secA preprotein tran 96.8 0.0014 3E-08 59.6 4.3 45 25-75 51-96 (745)
94 PRK13900 type IV secretion sys 96.8 0.0019 4.1E-08 53.1 4.7 40 36-76 147-186 (332)
95 PRK10536 hypothetical protein; 96.8 0.0033 7.1E-08 50.9 5.8 42 31-76 59-101 (262)
96 PRK12402 replication factor C 96.8 0.0021 4.5E-08 50.6 4.5 36 34-69 19-56 (337)
97 KOG0989|consensus 96.8 0.0026 5.5E-08 53.3 5.1 46 29-74 35-82 (346)
98 PRK15483 type III restriction- 96.8 0.0031 6.8E-08 58.9 6.2 54 27-80 3-90 (986)
99 PRK06835 DNA replication prote 96.7 0.0032 6.9E-08 51.9 5.6 51 30-81 160-214 (329)
100 COG1203 CRISPR-associated heli 96.7 0.0026 5.5E-08 57.1 5.4 47 31-77 196-242 (733)
101 PRK13894 conjugal transfer ATP 96.7 0.0029 6.2E-08 51.9 5.1 34 40-74 139-172 (319)
102 TIGR02782 TrbB_P P-type conjug 96.7 0.0037 8.1E-08 50.6 5.3 37 39-76 122-158 (299)
103 KOG0351|consensus 96.6 0.00074 1.6E-08 62.7 1.3 47 23-73 256-303 (941)
104 PRK13833 conjugal transfer pro 96.6 0.0037 8.1E-08 51.6 5.2 34 40-74 135-168 (323)
105 COG2804 PulE Type II secretory 96.6 0.0023 5E-08 55.9 4.2 48 31-82 242-290 (500)
106 KOG0336|consensus 96.6 0.0004 8.7E-09 60.5 -0.6 49 28-80 239-288 (629)
107 PF13604 AAA_30: AAA domain; P 96.6 0.0047 1E-07 46.6 5.3 46 32-81 3-49 (196)
108 PRK13407 bchI magnesium chelat 96.5 0.0024 5.2E-08 52.8 3.1 42 24-65 2-45 (334)
109 PF00580 UvrD-helicase: UvrD/R 96.5 0.0046 1E-07 47.3 4.4 39 33-77 3-41 (315)
110 PF00437 T2SE: Type II/IV secr 96.4 0.0035 7.6E-08 48.7 3.7 41 39-80 117-157 (270)
111 PRK08181 transposase; Validate 96.4 0.013 2.7E-07 47.1 6.9 48 33-81 90-137 (269)
112 PLN03025 replication factor C 96.4 0.0049 1.1E-07 49.5 4.4 36 34-69 17-54 (319)
113 smart00382 AAA ATPases associa 96.4 0.0035 7.7E-08 40.8 2.9 21 49-69 2-22 (148)
114 PRK13531 regulatory ATPase Rav 96.4 0.003 6.5E-08 55.2 3.2 34 33-66 23-56 (498)
115 COG2805 PilT Tfp pilus assembl 96.3 0.0058 1.3E-07 51.3 4.2 54 26-80 100-155 (353)
116 KOG0326|consensus 96.2 0.00035 7.6E-09 59.2 -3.2 52 26-81 102-154 (459)
117 cd01130 VirB11-like_ATPase Typ 96.2 0.007 1.5E-07 44.9 4.1 30 33-65 12-41 (186)
118 PRK13104 secA preprotein trans 96.2 0.0058 1.2E-07 56.7 4.2 45 26-76 78-122 (896)
119 KOG0327|consensus 96.2 0.0035 7.6E-08 53.4 2.5 49 25-77 42-91 (397)
120 KOG0337|consensus 96.2 0.0025 5.5E-08 55.4 1.7 47 28-78 40-87 (529)
121 PRK10436 hypothetical protein; 96.2 0.0075 1.6E-07 51.9 4.5 33 48-81 217-249 (462)
122 COG0714 MoxR-like ATPases [Gen 96.1 0.006 1.3E-07 49.2 3.7 42 33-76 27-68 (329)
123 PRK06526 transposase; Provisio 96.1 0.013 2.9E-07 46.4 5.3 37 44-81 93-129 (254)
124 COG1484 DnaC DNA replication p 96.0 0.024 5.3E-07 44.9 6.6 47 34-81 90-136 (254)
125 PRK09751 putative ATP-dependen 96.0 0.0034 7.4E-08 60.8 2.0 23 54-76 1-23 (1490)
126 KOG0991|consensus 96.0 0.014 3.1E-07 48.0 5.3 40 36-75 33-74 (333)
127 TIGR02538 type_IV_pilB type IV 96.0 0.0098 2.1E-07 52.0 4.7 46 32-81 301-347 (564)
128 PRK13107 preprotein translocas 96.0 0.0059 1.3E-07 56.7 3.4 44 26-75 78-121 (908)
129 cd01129 PulE-GspE PulE/GspE Th 96.0 0.011 2.5E-07 46.9 4.4 45 33-81 66-111 (264)
130 PF12775 AAA_7: P-loop contain 95.9 0.013 2.9E-07 46.7 4.5 35 31-65 15-49 (272)
131 PRK00440 rfc replication facto 95.9 0.014 3E-07 45.5 4.4 36 33-68 20-57 (319)
132 PRK13851 type IV secretion sys 95.8 0.011 2.3E-07 49.2 4.0 38 38-76 151-188 (344)
133 PRK06645 DNA polymerase III su 95.8 0.013 2.8E-07 51.0 4.6 39 33-71 24-65 (507)
134 PRK12904 preprotein translocas 95.8 0.0082 1.8E-07 55.3 3.3 45 26-76 77-122 (830)
135 COG0630 VirB11 Type IV secreto 95.8 0.017 3.7E-07 47.1 4.8 40 41-81 135-174 (312)
136 TIGR00376 DNA helicase, putati 95.7 0.024 5.3E-07 50.4 6.0 47 31-81 158-204 (637)
137 KOG1803|consensus 95.7 0.015 3.3E-07 52.1 4.7 55 23-81 178-232 (649)
138 COG1474 CDC6 Cdc6-related prot 95.6 0.024 5.1E-07 47.4 5.3 42 29-70 19-63 (366)
139 PRK14961 DNA polymerase III su 95.6 0.018 3.9E-07 47.3 4.5 37 33-69 19-58 (363)
140 PRK08939 primosomal protein Dn 95.6 0.04 8.7E-07 44.8 6.3 46 34-80 135-186 (306)
141 KOG0353|consensus 95.6 0.01 2.3E-07 51.7 3.0 45 24-72 87-132 (695)
142 PRK14955 DNA polymerase III su 95.6 0.018 4E-07 47.9 4.4 42 29-70 15-59 (397)
143 TIGR02525 plasmid_TraJ plasmid 95.5 0.022 4.7E-07 47.9 4.7 29 47-76 147-175 (372)
144 COG4889 Predicted helicase [Ge 95.5 0.011 2.5E-07 55.6 3.2 46 23-68 154-199 (1518)
145 TIGR03015 pepcterm_ATPase puta 95.5 0.029 6.2E-07 42.9 5.0 37 31-67 24-61 (269)
146 TIGR01967 DEAH_box_HrpA ATP-de 95.5 0.021 4.6E-07 54.7 5.1 33 40-74 73-105 (1283)
147 PRK11131 ATP-dependent RNA hel 95.5 0.028 6E-07 54.1 5.7 33 40-74 80-112 (1294)
148 PF01078 Mg_chelatase: Magnesi 95.5 0.015 3.3E-07 45.5 3.4 33 33-65 6-38 (206)
149 TIGR03420 DnaA_homol_Hda DnaA 95.4 0.028 6E-07 41.9 4.5 35 33-67 20-56 (226)
150 KOG0347|consensus 95.4 0.0072 1.6E-07 54.2 1.4 47 26-75 198-245 (731)
151 COG1111 MPH1 ERCC4-like helica 95.4 0.021 4.6E-07 50.3 4.3 48 29-81 14-61 (542)
152 PF12340 DUF3638: Protein of u 95.4 0.018 3.8E-07 45.9 3.5 51 29-81 22-72 (229)
153 TIGR02030 BchI-ChlI magnesium 95.4 0.032 6.8E-07 46.2 5.1 40 27-66 1-42 (337)
154 TIGR02533 type_II_gspE general 95.3 0.02 4.4E-07 49.4 3.9 45 33-81 228-273 (486)
155 PRK08116 hypothetical protein; 95.3 0.054 1.2E-06 43.1 6.1 51 29-80 87-144 (268)
156 PRK12906 secA preprotein trans 95.3 0.024 5.3E-07 52.0 4.6 46 25-76 75-120 (796)
157 TIGR00635 ruvB Holliday juncti 95.3 0.032 6.9E-07 43.8 4.7 34 34-67 8-48 (305)
158 PF12846 AAA_10: AAA-like doma 95.3 0.021 4.5E-07 43.3 3.5 32 49-81 1-32 (304)
159 PF13401 AAA_22: AAA domain; P 95.3 0.011 2.3E-07 40.2 1.7 19 48-66 3-21 (131)
160 TIGR02524 dot_icm_DotB Dot/Icm 95.3 0.029 6.2E-07 46.7 4.6 32 43-75 127-159 (358)
161 PRK07952 DNA replication prote 95.2 0.043 9.3E-07 43.5 5.3 48 33-81 79-130 (244)
162 PRK14952 DNA polymerase III su 95.2 0.025 5.4E-07 50.1 4.2 40 33-72 16-58 (584)
163 PF01580 FtsK_SpoIIIE: FtsK/Sp 95.2 0.023 4.9E-07 42.3 3.4 30 47-76 36-65 (205)
164 PF00158 Sigma54_activat: Sigm 95.1 0.037 8E-07 41.2 4.4 33 33-65 6-38 (168)
165 PF13191 AAA_16: AAA ATPase do 95.1 0.011 2.5E-07 42.0 1.6 47 29-76 2-50 (185)
166 KOG0328|consensus 95.1 0.0031 6.7E-08 52.9 -1.5 51 25-79 43-94 (400)
167 PRK09183 transposase/IS protei 95.1 0.027 5.8E-07 44.5 3.8 23 45-67 98-120 (259)
168 PF05970 PIF1: PIF1-like helic 95.1 0.032 7E-07 45.9 4.3 48 33-81 4-53 (364)
169 PRK06921 hypothetical protein; 95.1 0.073 1.6E-06 42.4 6.2 21 48-68 116-136 (266)
170 TIGR03499 FlhF flagellar biosy 95.1 0.057 1.2E-06 43.1 5.6 32 50-81 195-227 (282)
171 PRK13764 ATPase; Provisional 95.1 0.03 6.5E-07 49.9 4.3 34 47-81 255-288 (602)
172 TIGR02928 orc1/cdc6 family rep 95.0 0.042 9.1E-07 44.0 4.8 36 31-66 19-57 (365)
173 PRK14962 DNA polymerase III su 95.0 0.034 7.4E-07 47.9 4.4 41 29-69 13-56 (472)
174 TIGR02788 VirB11 P-type DNA tr 95.0 0.031 6.7E-07 45.0 4.0 36 38-74 133-168 (308)
175 PRK11331 5-methylcytosine-spec 95.0 0.033 7.2E-07 48.3 4.3 29 38-66 183-211 (459)
176 PF00448 SRP54: SRP54-type pro 94.9 0.022 4.7E-07 43.4 2.8 30 51-81 3-32 (196)
177 PRK12326 preprotein translocas 94.9 0.038 8.3E-07 50.6 4.7 46 24-75 72-117 (764)
178 PRK14722 flhF flagellar biosyn 94.9 0.024 5.2E-07 47.8 3.2 32 47-78 135-166 (374)
179 PRK14958 DNA polymerase III su 94.9 0.034 7.3E-07 48.3 4.1 40 32-71 18-60 (509)
180 cd00984 DnaB_C DnaB helicase C 94.9 0.024 5.2E-07 42.8 2.8 37 45-81 9-45 (242)
181 PF02534 T4SS-DNA_transf: Type 94.8 0.011 2.4E-07 49.3 0.9 22 50-71 45-66 (469)
182 TIGR01650 PD_CobS cobaltochela 94.7 0.057 1.2E-06 44.9 4.9 28 38-65 53-80 (327)
183 cd01131 PilT Pilus retraction 94.7 0.028 6.1E-07 42.3 2.8 26 50-76 2-27 (198)
184 PRK13342 recombination factor 94.7 0.03 6.6E-07 46.7 3.2 36 32-67 14-54 (413)
185 COG1643 HrpA HrpA-like helicas 94.7 0.049 1.1E-06 50.4 4.8 33 39-73 55-87 (845)
186 TIGR00595 priA primosomal prot 94.7 0.016 3.5E-07 50.0 1.6 27 53-80 1-27 (505)
187 PRK14956 DNA polymerase III su 94.7 0.046 9.9E-07 47.7 4.3 39 32-70 20-61 (484)
188 PRK05342 clpX ATP-dependent pr 94.6 0.032 7E-07 47.3 3.1 33 33-65 74-124 (412)
189 cd01126 TraG_VirD4 The TraG/Tr 94.5 0.0083 1.8E-07 49.2 -0.4 22 51-72 1-22 (384)
190 PRK00080 ruvB Holliday junctio 94.5 0.049 1.1E-06 43.8 3.9 38 30-67 25-69 (328)
191 KOG0951|consensus 94.5 0.053 1.2E-06 52.5 4.6 53 25-80 303-356 (1674)
192 PRK14964 DNA polymerase III su 94.4 0.065 1.4E-06 46.7 4.6 39 33-71 16-57 (491)
193 PRK00411 cdc6 cell division co 94.4 0.07 1.5E-06 43.2 4.6 39 31-69 34-75 (394)
194 COG0556 UvrB Helicase subunit 94.3 0.038 8.2E-07 49.5 3.2 42 24-65 6-48 (663)
195 PRK12377 putative replication 94.3 0.14 3E-06 40.7 6.0 48 33-81 81-132 (248)
196 CHL00081 chlI Mg-protoporyphyr 94.3 0.036 7.7E-07 46.4 2.8 42 24-65 11-54 (350)
197 TIGR01420 pilT_fam pilus retra 94.3 0.036 7.8E-07 45.4 2.8 28 48-76 121-148 (343)
198 PRK14963 DNA polymerase III su 94.3 0.058 1.3E-06 46.9 4.2 37 33-69 17-56 (504)
199 PRK14969 DNA polymerase III su 94.3 0.062 1.3E-06 46.8 4.3 37 33-69 19-58 (527)
200 PF14532 Sigma54_activ_2: Sigm 94.2 0.096 2.1E-06 36.9 4.5 33 33-65 5-37 (138)
201 TIGR00382 clpX endopeptidase C 94.2 0.059 1.3E-06 46.0 3.9 34 33-66 80-133 (413)
202 TIGR00390 hslU ATP-dependent p 94.2 0.067 1.4E-06 46.3 4.2 33 33-65 15-63 (441)
203 PF07728 AAA_5: AAA domain (dy 94.2 0.029 6.4E-07 39.0 1.8 15 51-65 1-15 (139)
204 TIGR00764 lon_rel lon-related 94.2 0.076 1.7E-06 47.1 4.7 38 29-66 17-54 (608)
205 PRK09111 DNA polymerase III su 94.2 0.065 1.4E-06 47.6 4.2 41 33-73 27-70 (598)
206 PRK14954 DNA polymerase III su 94.1 0.063 1.4E-06 48.0 4.1 42 29-70 15-59 (620)
207 COG1200 RecG RecG-like helicas 94.1 0.069 1.5E-06 48.4 4.3 52 25-76 257-310 (677)
208 TIGR02902 spore_lonB ATP-depen 94.1 0.057 1.2E-06 46.9 3.7 35 32-66 67-103 (531)
209 PRK08903 DnaA regulatory inact 94.1 0.1 2.2E-06 39.4 4.6 29 37-65 27-58 (227)
210 PRK05703 flhF flagellar biosyn 94.0 0.049 1.1E-06 46.3 3.1 33 49-81 221-254 (424)
211 PRK14950 DNA polymerase III su 94.0 0.065 1.4E-06 47.0 3.9 41 29-69 15-58 (585)
212 PF06309 Torsin: Torsin; Inte 94.0 0.094 2E-06 38.4 4.1 32 34-65 33-69 (127)
213 PRK14948 DNA polymerase III su 93.9 0.064 1.4E-06 47.8 3.7 39 33-71 19-60 (620)
214 PF00004 AAA: ATPase family as 93.9 0.058 1.2E-06 36.2 2.7 14 52-65 1-14 (132)
215 PF13476 AAA_23: AAA domain; P 93.9 0.054 1.2E-06 38.7 2.7 26 50-77 20-45 (202)
216 PRK14949 DNA polymerase III su 93.8 0.075 1.6E-06 49.8 4.1 38 33-70 19-59 (944)
217 TIGR02397 dnaX_nterm DNA polym 93.8 0.088 1.9E-06 41.9 4.0 38 32-69 16-56 (355)
218 cd01368 KISc_KIF23_like Kinesi 93.8 0.034 7.3E-07 45.6 1.6 45 23-67 55-107 (345)
219 PRK04195 replication factor C 93.8 0.079 1.7E-06 45.1 3.9 34 34-67 18-57 (482)
220 cd01373 KISc_KLP2_like Kinesin 93.7 0.031 6.8E-07 45.6 1.4 46 23-68 41-94 (337)
221 PF13177 DNA_pol3_delta2: DNA 93.7 0.13 2.9E-06 37.7 4.6 41 34-74 1-44 (162)
222 cd01122 GP4d_helicase GP4d_hel 93.7 0.058 1.3E-06 41.6 2.8 37 45-81 26-62 (271)
223 cd01375 KISc_KIF9_like Kinesin 93.7 0.044 9.5E-07 44.6 2.2 44 24-68 49-100 (334)
224 PRK14957 DNA polymerase III su 93.7 0.097 2.1E-06 46.2 4.4 42 29-70 15-59 (546)
225 COG0470 HolB ATPase involved i 93.7 0.12 2.7E-06 40.1 4.6 26 49-74 23-49 (325)
226 PF07517 SecA_DEAD: SecA DEAD- 93.7 0.13 2.7E-06 41.6 4.7 49 26-81 73-121 (266)
227 PF03215 Rad17: Rad17 cell cyc 93.6 0.088 1.9E-06 46.1 4.0 33 36-68 25-64 (519)
228 COG0606 Predicted ATPase with 93.6 0.073 1.6E-06 46.6 3.5 37 29-65 178-214 (490)
229 cd01370 KISc_KIP3_like Kinesin 93.6 0.032 6.9E-07 45.6 1.2 45 23-67 54-106 (338)
230 PF13481 AAA_25: AAA domain; P 93.6 0.072 1.6E-06 38.7 3.0 28 48-75 31-58 (193)
231 PRK07764 DNA polymerase III su 93.6 0.097 2.1E-06 48.2 4.4 42 33-74 18-62 (824)
232 PRK05201 hslU ATP-dependent pr 93.6 0.081 1.8E-06 45.9 3.7 32 33-64 18-65 (443)
233 COG4962 CpaF Flp pilus assembl 93.5 0.091 2E-06 44.4 3.8 46 33-83 160-205 (355)
234 PRK14960 DNA polymerase III su 93.5 0.11 2.3E-06 47.4 4.4 41 33-73 18-61 (702)
235 PRK14970 DNA polymerase III su 93.5 0.11 2.4E-06 42.2 4.2 41 29-69 16-59 (367)
236 TIGR02881 spore_V_K stage V sp 93.5 0.063 1.4E-06 41.9 2.6 20 50-69 43-62 (261)
237 TIGR01448 recD_rel helicase, p 93.5 0.17 3.8E-06 45.6 5.7 47 27-78 320-366 (720)
238 PHA02544 44 clamp loader, smal 93.4 0.13 2.9E-06 40.4 4.5 33 34-66 25-60 (316)
239 KOG0947|consensus 93.4 0.14 3E-06 48.6 5.1 59 18-81 285-343 (1248)
240 PF00176 SNF2_N: SNF2 family N 93.4 0.2 4.4E-06 38.1 5.3 38 34-71 1-47 (299)
241 TIGR03819 heli_sec_ATPase heli 93.4 0.14 3.1E-06 42.3 4.7 37 39-76 168-204 (340)
242 TIGR02688 conserved hypothetic 93.4 0.21 4.5E-06 43.5 5.9 36 33-68 193-228 (449)
243 PRK13765 ATP-dependent proteas 93.3 0.12 2.5E-06 46.4 4.4 39 29-67 30-68 (637)
244 COG1419 FlhF Flagellar GTP-bin 93.3 0.13 2.9E-06 44.1 4.5 33 49-81 203-236 (407)
245 cd01124 KaiC KaiC is a circadi 93.3 0.1 2.2E-06 37.5 3.3 29 52-81 2-30 (187)
246 cd01376 KISc_KID_like Kinesin 93.3 0.05 1.1E-06 43.9 1.9 45 23-67 47-99 (319)
247 PRK06305 DNA polymerase III su 93.3 0.12 2.6E-06 44.2 4.2 42 29-70 16-60 (451)
248 cd01120 RecA-like_NTPases RecA 93.3 0.11 2.4E-06 35.4 3.4 23 51-73 1-23 (165)
249 TIGR02639 ClpA ATP-dependent C 93.2 0.1 2.2E-06 46.9 3.8 32 34-65 458-500 (731)
250 PRK08727 hypothetical protein; 93.2 0.19 4.2E-06 38.8 5.0 16 50-65 42-57 (233)
251 TIGR02768 TraA_Ti Ti-type conj 93.2 0.17 3.8E-06 45.8 5.4 50 28-81 350-399 (744)
252 COG1219 ClpX ATP-dependent pro 93.2 0.082 1.8E-06 45.0 3.0 25 50-76 98-122 (408)
253 PRK13850 type IV secretion sys 93.2 0.037 8E-07 49.8 1.0 23 49-71 139-161 (670)
254 PRK08691 DNA polymerase III su 93.2 0.13 2.7E-06 47.0 4.3 39 33-71 19-60 (709)
255 PRK14951 DNA polymerase III su 93.2 0.12 2.6E-06 46.2 4.2 42 29-70 15-59 (618)
256 TIGR02880 cbbX_cfxQ probable R 93.1 0.098 2.1E-06 41.8 3.3 17 50-66 59-75 (284)
257 KOG0341|consensus 93.1 0.015 3.3E-07 50.6 -1.5 47 31-81 193-239 (610)
258 PF05729 NACHT: NACHT domain 93.0 0.13 2.9E-06 35.5 3.5 26 51-76 2-27 (166)
259 PRK13897 type IV secretion sys 93.0 0.032 7E-07 49.7 0.5 25 49-73 158-182 (606)
260 TIGR03346 chaperone_ClpB ATP-d 93.0 0.1 2.2E-06 47.7 3.6 34 33-66 568-612 (852)
261 PRK12723 flagellar biosynthesi 93.0 0.24 5.1E-06 42.0 5.6 25 50-74 175-199 (388)
262 TIGR00750 lao LAO/AO transport 93.0 0.094 2E-06 42.0 3.0 44 37-81 22-65 (300)
263 KOG0243|consensus 93.0 0.091 2E-06 49.6 3.3 42 25-66 95-146 (1041)
264 PRK11034 clpA ATP-dependent Cl 93.0 0.13 2.8E-06 47.0 4.2 34 33-66 461-505 (758)
265 PRK06620 hypothetical protein; 93.0 0.21 4.7E-06 38.4 4.9 34 33-66 22-61 (214)
266 PRK14965 DNA polymerase III su 93.0 0.14 3.1E-06 45.0 4.3 41 29-69 15-58 (576)
267 PF06745 KaiC: KaiC; InterPro 92.9 0.098 2.1E-06 39.4 2.9 34 48-81 18-51 (226)
268 PRK05563 DNA polymerase III su 92.9 0.15 3.2E-06 44.8 4.3 45 29-73 15-62 (559)
269 PRK10865 protein disaggregatio 92.9 0.098 2.1E-06 48.1 3.4 36 33-68 571-617 (857)
270 PRK11608 pspF phage shock prot 92.9 0.18 3.8E-06 41.1 4.5 42 31-74 11-52 (326)
271 PRK07994 DNA polymerase III su 92.9 0.17 3.6E-06 45.6 4.7 38 33-70 19-59 (647)
272 TIGR02442 Cob-chelat-sub cobal 92.9 0.12 2.7E-06 45.8 3.8 39 27-65 1-41 (633)
273 PF13555 AAA_29: P-loop contai 92.8 0.16 3.5E-06 32.7 3.4 29 49-79 23-51 (62)
274 PRK05896 DNA polymerase III su 92.8 0.14 3.1E-06 45.8 4.2 44 29-72 15-61 (605)
275 PF00308 Bac_DnaA: Bacterial d 92.8 0.25 5.5E-06 38.0 5.1 25 51-76 36-60 (219)
276 PRK13103 secA preprotein trans 92.7 0.14 3.1E-06 47.8 4.1 42 27-74 79-120 (913)
277 CHL00095 clpC Clp protease ATP 92.7 0.12 2.7E-06 47.0 3.7 33 33-65 512-555 (821)
278 PRK07003 DNA polymerase III su 92.7 0.13 2.9E-06 47.6 3.8 37 33-69 19-58 (830)
279 PRK12323 DNA polymerase III su 92.7 0.16 3.5E-06 46.2 4.4 39 33-71 19-60 (700)
280 cd01367 KISc_KIF2_like Kinesin 92.7 0.052 1.1E-06 44.0 1.2 37 31-67 61-103 (322)
281 TIGR03263 guanyl_kin guanylate 92.7 0.072 1.6E-06 38.5 1.8 16 49-64 1-16 (180)
282 PRK14953 DNA polymerase III su 92.6 0.18 3.8E-06 43.7 4.3 37 33-69 19-58 (486)
283 PRK13341 recombination factor 92.6 0.16 3.5E-06 46.1 4.2 36 32-67 30-70 (725)
284 cd01365 KISc_KIF1A_KIF1B Kines 92.6 0.055 1.2E-06 44.4 1.2 35 33-67 67-107 (356)
285 PRK08769 DNA polymerase III su 92.6 0.28 6.2E-06 40.4 5.3 43 31-73 5-50 (319)
286 PF10236 DAP3: Mitochondrial r 92.5 0.3 6.5E-06 39.7 5.4 49 32-81 4-54 (309)
287 KOG0349|consensus 92.5 0.04 8.8E-07 48.7 0.3 43 31-77 25-67 (725)
288 PRK12727 flagellar biosynthesi 92.4 0.25 5.5E-06 44.0 5.2 30 46-75 347-376 (559)
289 PF13238 AAA_18: AAA domain; P 92.4 0.089 1.9E-06 35.1 1.8 14 52-65 1-14 (129)
290 PRK13876 conjugal transfer cou 92.4 0.051 1.1E-06 48.9 0.8 25 48-72 143-167 (663)
291 CHL00181 cbbX CbbX; Provisiona 92.3 0.12 2.6E-06 41.5 2.9 20 50-69 60-79 (287)
292 PRK13880 conjugal transfer cou 92.3 0.033 7.1E-07 49.7 -0.5 24 49-72 175-198 (636)
293 cd01366 KISc_C_terminal Kinesi 92.3 0.084 1.8E-06 42.5 1.9 38 31-68 55-97 (329)
294 KOG1802|consensus 92.3 0.13 2.8E-06 47.4 3.2 48 31-82 411-458 (935)
295 TIGR03238 dnd_assoc_3 dnd syst 92.3 0.099 2.1E-06 46.0 2.4 36 30-65 10-48 (504)
296 PRK13889 conjugal transfer rel 92.3 0.28 6E-06 46.2 5.4 49 29-81 345-393 (988)
297 TIGR02759 TraD_Ftype type IV c 92.3 0.13 2.7E-06 45.4 3.1 32 49-81 176-207 (566)
298 cd01372 KISc_KIF4 Kinesin moto 92.2 0.082 1.8E-06 42.8 1.8 46 23-68 40-93 (341)
299 cd01369 KISc_KHC_KIF5 Kinesin 92.2 0.069 1.5E-06 43.0 1.4 44 23-66 43-94 (325)
300 TIGR02974 phageshock_pspF psp 92.2 0.23 5E-06 40.6 4.4 39 33-73 6-44 (329)
301 cd01127 TrwB Bacterial conjuga 92.2 0.14 3E-06 42.8 3.2 31 49-80 42-72 (410)
302 TIGR01817 nifA Nif-specific re 92.2 0.21 4.6E-06 42.9 4.4 35 31-65 201-235 (534)
303 PF01637 Arch_ATPase: Archaeal 92.2 0.12 2.6E-06 37.5 2.4 35 39-74 8-44 (234)
304 PRK15429 formate hydrogenlyase 92.2 0.22 4.7E-06 44.3 4.4 41 31-73 381-421 (686)
305 COG1198 PriA Primosomal protei 92.1 0.31 6.6E-06 44.6 5.4 49 31-80 199-247 (730)
306 COG4098 comFA Superfamily II D 92.1 0.27 5.8E-06 42.3 4.8 50 31-81 98-147 (441)
307 KOG1805|consensus 92.1 0.13 2.8E-06 48.6 3.1 46 33-82 672-717 (1100)
308 KOG0922|consensus 92.0 0.16 3.5E-06 46.0 3.5 29 37-65 54-82 (674)
309 cd01364 KISc_BimC_Eg5 Kinesin 92.0 0.079 1.7E-06 43.2 1.5 46 23-68 48-101 (352)
310 PRK14729 miaA tRNA delta(2)-is 92.0 0.12 2.6E-06 42.4 2.5 24 49-76 4-27 (300)
311 PF13207 AAA_17: AAA domain; P 92.0 0.11 2.3E-06 35.0 1.8 14 51-64 1-14 (121)
312 CHL00122 secA preprotein trans 92.0 0.19 4E-06 46.9 3.9 40 26-71 72-111 (870)
313 PRK08084 DNA replication initi 91.9 0.45 9.7E-06 36.8 5.5 33 34-66 28-62 (235)
314 PRK07471 DNA polymerase III su 91.9 0.4 8.8E-06 40.0 5.6 42 33-74 22-66 (365)
315 PRK07940 DNA polymerase III su 91.9 0.28 6.1E-06 41.4 4.6 36 34-69 9-56 (394)
316 TIGR00763 lon ATP-dependent pr 91.9 0.25 5.4E-06 44.7 4.6 33 35-67 325-365 (775)
317 KOG0239|consensus 91.8 0.14 3.1E-06 46.3 3.0 45 25-69 362-413 (670)
318 PRK09112 DNA polymerase III su 91.8 0.38 8.2E-06 40.0 5.2 37 33-69 26-65 (351)
319 PRK00300 gmk guanylate kinase; 91.8 0.11 2.4E-06 38.3 1.9 17 48-64 4-20 (205)
320 cd01374 KISc_CENP_E Kinesin mo 91.7 0.095 2.1E-06 42.3 1.6 45 23-67 40-92 (321)
321 PF05496 RuvB_N: Holliday junc 91.7 0.38 8.2E-06 38.6 5.0 37 28-64 22-65 (233)
322 PRK06893 DNA replication initi 91.7 0.49 1.1E-05 36.4 5.5 21 50-70 40-60 (229)
323 PRK06995 flhF flagellar biosyn 91.7 0.18 4E-06 43.9 3.4 30 49-78 256-285 (484)
324 TIGR03345 VI_ClpV1 type VI sec 91.7 0.2 4.4E-06 46.1 3.9 34 33-66 569-613 (852)
325 COG0324 MiaA tRNA delta(2)-iso 91.7 0.12 2.7E-06 42.7 2.3 29 50-82 4-32 (308)
326 PRK04296 thymidine kinase; Pro 91.7 0.17 3.6E-06 38.0 2.8 32 49-81 2-33 (190)
327 PRK07133 DNA polymerase III su 91.7 0.23 5E-06 45.4 4.2 38 33-70 21-61 (725)
328 PF01745 IPT: Isopentenyl tran 91.6 0.13 2.8E-06 41.3 2.2 27 51-81 3-29 (233)
329 smart00763 AAA_PrkA PrkA AAA d 91.6 0.31 6.7E-06 41.2 4.6 35 31-65 56-94 (361)
330 PRK10919 ATP-dependent DNA hel 91.6 0.3 6.5E-06 43.6 4.8 39 31-75 3-41 (672)
331 PRK06647 DNA polymerase III su 91.6 0.23 4.9E-06 43.8 4.0 39 33-71 19-60 (563)
332 COG1110 Reverse gyrase [DNA re 91.6 0.37 8.1E-06 46.0 5.4 49 27-80 79-127 (1187)
333 COG1223 Predicted ATPase (AAA+ 91.6 0.12 2.5E-06 43.3 2.0 16 50-65 152-167 (368)
334 PLN03188 kinesin-12 family pro 91.5 0.062 1.4E-06 51.6 0.4 51 19-69 128-186 (1320)
335 TIGR02767 TraG-Ti Ti-type conj 91.5 0.078 1.7E-06 47.4 0.9 22 50-71 212-233 (623)
336 TIGR00176 mobB molybdopterin-g 91.5 0.21 4.5E-06 36.6 3.1 29 52-81 2-30 (155)
337 TIGR01074 rep ATP-dependent DN 91.4 0.34 7.3E-06 42.5 4.8 39 32-76 3-41 (664)
338 cd01371 KISc_KIF3 Kinesin moto 91.4 0.11 2.4E-06 42.2 1.7 39 29-67 56-100 (333)
339 PRK03992 proteasome-activating 91.4 0.34 7.3E-06 40.4 4.6 16 50-65 166-181 (389)
340 TIGR02903 spore_lon_C ATP-depe 91.4 0.15 3.2E-06 45.2 2.6 39 27-65 151-191 (615)
341 PF13671 AAA_33: AAA domain; P 91.3 0.11 2.3E-06 35.8 1.3 13 52-64 2-14 (143)
342 TIGR00150 HI0065_YjeE ATPase, 91.3 0.24 5.1E-06 36.2 3.1 28 37-64 10-37 (133)
343 KOG0339|consensus 91.2 0.074 1.6E-06 47.7 0.5 32 48-79 259-290 (731)
344 KOG0332|consensus 91.2 0.09 2E-06 45.5 1.0 48 27-76 108-156 (477)
345 PRK13822 conjugal transfer cou 91.2 0.081 1.7E-06 47.4 0.7 23 49-71 224-246 (641)
346 PF05673 DUF815: Protein of un 91.1 0.63 1.4E-05 37.6 5.7 59 31-90 31-92 (249)
347 PTZ00361 26 proteosome regulat 91.1 0.38 8.3E-06 41.3 4.7 17 50-66 218-234 (438)
348 KOG0743|consensus 91.1 0.31 6.8E-06 42.4 4.2 41 33-74 208-259 (457)
349 TIGR01242 26Sp45 26S proteasom 91.1 0.39 8.4E-06 39.3 4.5 17 50-66 157-173 (364)
350 PRK10416 signal recognition pa 91.1 0.53 1.2E-05 38.6 5.4 31 50-81 115-145 (318)
351 TIGR00631 uvrb excinuclease AB 91.0 0.36 7.9E-06 43.3 4.7 41 25-65 4-45 (655)
352 TIGR03881 KaiC_arch_4 KaiC dom 91.0 0.26 5.5E-06 37.2 3.2 30 46-75 17-46 (229)
353 KOG1970|consensus 91.0 0.24 5.3E-06 44.5 3.5 31 37-67 89-128 (634)
354 PTZ00112 origin recognition co 91.0 0.57 1.2E-05 44.6 6.0 39 31-69 759-801 (1164)
355 PRK07399 DNA polymerase III su 91.0 0.46 1E-05 38.8 4.9 38 33-70 7-47 (314)
356 PRK14974 cell division protein 90.9 0.53 1.1E-05 39.1 5.3 31 50-81 141-171 (336)
357 PF03796 DnaB_C: DnaB-like hel 90.9 0.22 4.8E-06 38.5 2.9 41 41-81 11-51 (259)
358 TIGR02639 ClpA ATP-dependent C 90.9 0.43 9.4E-06 42.9 5.0 41 29-69 181-223 (731)
359 PF07724 AAA_2: AAA domain (Cd 90.8 0.22 4.9E-06 37.1 2.7 14 51-64 5-18 (171)
360 PRK00698 tmk thymidylate kinas 90.8 0.15 3.1E-06 37.3 1.6 16 49-64 3-18 (205)
361 TIGR00368 Mg chelatase-related 90.8 0.15 3.3E-06 44.3 2.0 40 27-66 189-228 (499)
362 PF07726 AAA_3: ATPase family 90.7 0.12 2.5E-06 38.2 1.1 19 51-69 1-19 (131)
363 PF00225 Kinesin: Kinesin moto 90.7 0.092 2E-06 42.1 0.6 39 31-69 51-95 (335)
364 COG0542 clpA ATP-binding subun 90.7 0.31 6.7E-06 45.0 4.0 34 33-66 494-538 (786)
365 PF02367 UPF0079: Uncharacteri 90.6 0.25 5.5E-06 35.6 2.8 28 37-64 3-30 (123)
366 PF00931 NB-ARC: NB-ARC domain 90.6 0.45 9.6E-06 36.5 4.3 30 37-66 3-36 (287)
367 PRK10875 recD exonuclease V su 90.6 0.68 1.5E-05 41.4 6.0 31 32-66 154-184 (615)
368 PRK14959 DNA polymerase III su 90.6 0.34 7.4E-06 43.6 4.1 38 33-70 19-59 (624)
369 TIGR00602 rad24 checkpoint pro 90.6 0.37 7.9E-06 43.4 4.3 38 32-69 86-130 (637)
370 PLN03142 Probable chromatin-re 90.6 0.91 2E-05 43.1 7.0 46 30-76 169-214 (1033)
371 PF00005 ABC_tran: ABC transpo 90.5 0.13 2.7E-06 35.4 1.1 18 47-64 9-26 (137)
372 PF13173 AAA_14: AAA domain 90.5 0.24 5.3E-06 34.4 2.5 20 48-67 1-20 (128)
373 PF05872 DUF853: Bacterial pro 90.5 0.18 4E-06 44.3 2.2 33 48-81 18-50 (502)
374 KOG0926|consensus 90.5 0.22 4.8E-06 46.8 2.9 27 41-69 263-289 (1172)
375 PRK05541 adenylylsulfate kinas 90.4 0.12 2.6E-06 37.5 1.0 19 47-65 5-23 (176)
376 PRK12902 secA preprotein trans 90.4 0.4 8.6E-06 45.0 4.4 43 26-74 81-123 (939)
377 PRK08058 DNA polymerase III su 90.3 0.67 1.5E-05 37.7 5.3 36 33-68 9-47 (329)
378 cd03115 SRP The signal recogni 90.3 0.36 7.9E-06 34.8 3.3 30 51-81 2-31 (173)
379 PRK05022 anaerobic nitric oxid 90.2 0.44 9.5E-06 41.0 4.4 42 31-74 192-233 (509)
380 COG1221 PspF Transcriptional r 90.2 0.42 9.2E-06 40.9 4.1 34 36-69 88-121 (403)
381 TIGR00665 DnaB replicative DNA 90.2 0.24 5.2E-06 41.3 2.6 41 41-81 187-227 (434)
382 TIGR03600 phage_DnaB phage rep 90.1 0.29 6.4E-06 40.7 3.1 38 44-81 189-226 (421)
383 TIGR01241 FtsH_fam ATP-depende 90.1 0.4 8.6E-06 41.0 4.0 16 50-65 89-104 (495)
384 PRK11773 uvrD DNA-dependent he 90.0 0.49 1.1E-05 42.4 4.6 39 31-76 10-48 (721)
385 PF02463 SMC_N: RecF/RecN/SMC 90.0 0.34 7.4E-06 36.2 3.1 26 49-76 24-49 (220)
386 PF10412 TrwB_AAD_bind: Type I 90.0 0.26 5.6E-06 41.1 2.7 32 49-81 15-46 (386)
387 PRK09361 radB DNA repair and r 90.0 0.33 7.1E-06 36.6 3.0 30 47-76 21-50 (225)
388 TIGR03744 traC_PFL_4706 conjug 90.0 0.3 6.6E-06 45.0 3.3 32 49-80 475-506 (893)
389 PRK12724 flagellar biosynthesi 89.9 0.32 7E-06 42.0 3.3 32 50-81 224-255 (432)
390 TIGR02237 recomb_radB DNA repa 89.9 0.35 7.6E-06 35.8 3.1 27 48-74 11-37 (209)
391 cd03241 ABC_RecN RecN ATPase i 89.9 0.37 8E-06 38.0 3.4 27 49-77 21-47 (276)
392 COG5008 PilU Tfp pilus assembl 89.9 0.27 5.8E-06 41.3 2.6 20 47-66 125-144 (375)
393 cd00071 GMPK Guanosine monopho 89.9 0.19 4.2E-06 35.8 1.6 13 52-64 2-14 (137)
394 TIGR01447 recD exodeoxyribonuc 89.9 0.69 1.5E-05 41.0 5.4 33 33-69 148-180 (586)
395 PF06068 TIP49: TIP49 C-termin 89.8 0.68 1.5E-05 39.8 5.1 46 32-81 29-78 (398)
396 TIGR00064 ftsY signal recognit 89.8 0.34 7.5E-06 38.7 3.2 31 50-81 73-103 (272)
397 KOG0744|consensus 89.8 0.26 5.6E-06 42.2 2.6 20 50-71 178-197 (423)
398 PRK05973 replicative DNA helic 89.8 0.3 6.5E-06 38.7 2.8 39 42-81 57-95 (237)
399 KOG0923|consensus 89.6 0.28 6.1E-06 45.2 2.8 33 41-77 272-304 (902)
400 TIGR00041 DTMP_kinase thymidyl 89.6 0.21 4.5E-06 36.5 1.6 16 49-64 3-18 (195)
401 KOG4284|consensus 89.6 0.078 1.7E-06 48.8 -0.7 47 28-78 44-91 (980)
402 PF09848 DUF2075: Uncharacteri 89.6 0.26 5.7E-06 40.1 2.4 24 50-73 2-25 (352)
403 TIGR01075 uvrD DNA helicase II 89.4 0.56 1.2E-05 41.9 4.5 39 31-76 5-43 (715)
404 PRK00771 signal recognition pa 89.4 0.72 1.6E-05 39.6 5.0 30 51-81 97-126 (437)
405 COG3973 Superfamily I DNA and 89.4 0.48 1E-05 43.2 4.1 40 31-76 213-252 (747)
406 CHL00176 ftsH cell division pr 89.4 0.45 9.8E-06 42.7 3.9 34 32-65 188-232 (638)
407 cd00106 KISc Kinesin motor dom 89.4 0.21 4.5E-06 40.0 1.6 38 31-68 55-98 (328)
408 PLN02165 adenylate isopentenyl 89.4 0.32 7E-06 40.6 2.8 19 49-67 43-61 (334)
409 PRK10869 recombination and rep 89.4 0.39 8.5E-06 42.1 3.4 26 49-76 22-47 (553)
410 PRK14723 flhF flagellar biosyn 89.3 0.31 6.8E-06 44.8 2.9 30 49-78 185-214 (767)
411 cd01394 radB RadB. The archaea 89.3 0.4 8.6E-06 35.8 3.0 28 47-74 17-44 (218)
412 smart00129 KISc Kinesin motor, 89.2 0.18 4E-06 40.5 1.2 38 30-67 55-98 (335)
413 PRK08451 DNA polymerase III su 89.2 0.49 1.1E-05 41.7 3.9 39 32-70 16-57 (535)
414 KOG0390|consensus 89.2 0.34 7.5E-06 44.6 3.0 49 31-79 239-293 (776)
415 PRK00131 aroK shikimate kinase 89.1 0.28 6E-06 34.6 2.0 18 48-65 3-20 (175)
416 PRK10820 DNA-binding transcrip 89.1 0.61 1.3E-05 40.4 4.4 33 33-65 211-243 (520)
417 TIGR00618 sbcc exonuclease Sbc 89.1 0.35 7.7E-06 44.9 3.1 26 50-77 27-52 (1042)
418 TIGR02322 phosphon_PhnN phosph 89.1 0.3 6.4E-06 35.3 2.1 17 50-66 2-18 (179)
419 KOG1533|consensus 89.1 0.29 6.3E-06 40.2 2.3 29 52-81 5-33 (290)
420 PRK05298 excinuclease ABC subu 89.0 0.85 1.9E-05 40.7 5.4 42 25-66 7-49 (652)
421 COG2256 MGS1 ATPase related to 89.0 0.52 1.1E-05 40.9 3.8 36 29-64 23-63 (436)
422 PF03193 DUF258: Protein of un 89.0 0.45 9.7E-06 35.8 3.1 26 38-64 25-50 (161)
423 TIGR01360 aden_kin_iso1 adenyl 89.0 0.25 5.3E-06 35.5 1.6 16 50-65 4-19 (188)
424 COG1202 Superfamily II helicas 88.9 0.34 7.3E-06 44.2 2.7 50 28-80 213-263 (830)
425 COG1222 RPT1 ATP-dependent 26S 88.9 0.47 1E-05 40.7 3.5 16 50-65 186-201 (406)
426 COG1122 CbiO ABC-type cobalt t 88.9 0.051 1.1E-06 42.9 -2.2 38 25-65 9-46 (235)
427 PRK06871 DNA polymerase III su 88.8 0.86 1.9E-05 37.7 4.9 44 31-74 3-49 (325)
428 PRK11388 DNA-binding transcrip 88.7 0.67 1.5E-05 40.6 4.5 34 32-65 331-364 (638)
429 TIGR00678 holB DNA polymerase 88.7 0.61 1.3E-05 34.2 3.6 28 41-68 3-33 (188)
430 PF03205 MobB: Molybdopterin g 88.7 0.51 1.1E-05 34.1 3.1 31 51-82 2-32 (140)
431 TIGR03877 thermo_KaiC_1 KaiC d 88.7 0.44 9.6E-06 36.6 3.0 35 46-81 18-52 (237)
432 PRK14721 flhF flagellar biosyn 88.7 0.49 1.1E-05 40.6 3.5 26 49-74 191-216 (420)
433 PRK08533 flagellar accessory p 88.6 0.51 1.1E-05 36.6 3.3 28 46-73 21-48 (230)
434 COG3839 MalK ABC-type sugar tr 88.6 0.28 6E-06 41.1 1.9 21 45-65 25-45 (338)
435 PRK13973 thymidylate kinase; P 88.6 0.48 1E-05 36.0 3.0 29 49-78 3-31 (213)
436 TIGR02785 addA_Gpos recombinat 88.5 0.74 1.6E-05 43.9 4.9 38 32-75 3-40 (1232)
437 PRK12726 flagellar biosynthesi 88.5 0.46 9.9E-06 40.9 3.2 32 49-81 206-237 (407)
438 PRK14971 DNA polymerase III su 88.5 0.64 1.4E-05 41.4 4.2 40 29-68 16-58 (614)
439 PRK08233 hypothetical protein; 88.4 0.31 6.7E-06 34.8 1.8 15 50-64 4-18 (182)
440 PRK10867 signal recognition pa 88.4 0.48 1E-05 40.7 3.2 31 51-81 102-132 (433)
441 PRK10078 ribose 1,5-bisphospho 88.3 0.36 7.8E-06 35.6 2.2 17 49-65 2-18 (186)
442 KOG2373|consensus 88.3 0.28 6.1E-06 42.5 1.8 19 46-64 270-288 (514)
443 PHA00729 NTP-binding motif con 88.3 0.78 1.7E-05 36.4 4.2 25 41-65 7-33 (226)
444 COG1875 NYN ribonuclease and A 88.2 1.1 2.4E-05 38.8 5.3 50 26-78 223-274 (436)
445 COG0419 SbcC ATPase involved i 88.2 0.46 1E-05 43.6 3.2 32 47-80 23-54 (908)
446 TIGR01073 pcrA ATP-dependent D 88.2 0.81 1.7E-05 40.9 4.7 39 31-75 5-43 (726)
447 PF02456 Adeno_IVa2: Adenoviru 88.1 0.62 1.3E-05 39.5 3.7 14 51-64 89-102 (369)
448 PRK05564 DNA polymerase III su 88.1 0.92 2E-05 36.2 4.5 37 33-69 7-46 (313)
449 PRK15424 propionate catabolism 88.0 0.82 1.8E-05 40.3 4.5 33 33-65 226-258 (538)
450 PRK13975 thymidylate kinase; P 88.0 0.32 7E-06 35.5 1.7 16 49-64 2-17 (196)
451 PF01935 DUF87: Domain of unkn 88.0 0.39 8.4E-06 36.2 2.2 20 49-68 23-42 (229)
452 PRK05595 replicative DNA helic 88.0 0.52 1.1E-05 39.8 3.2 41 41-81 193-233 (444)
453 PRK06547 hypothetical protein; 88.0 0.58 1.3E-05 34.9 3.1 24 42-65 6-31 (172)
454 KOG0731|consensus 88.0 0.7 1.5E-05 42.7 4.2 18 50-67 345-362 (774)
455 PRK00091 miaA tRNA delta(2)-is 87.9 0.43 9.4E-06 39.1 2.6 16 50-65 5-20 (307)
456 PRK13768 GTPase; Provisional 87.9 0.52 1.1E-05 37.0 3.0 30 51-81 4-33 (253)
457 KOG0060|consensus 87.9 0.29 6.2E-06 44.2 1.6 20 46-65 458-477 (659)
458 COG3587 Restriction endonuclea 87.8 0.31 6.7E-06 45.7 1.9 30 51-80 76-105 (985)
459 cd03292 ABC_FtsE_transporter F 87.8 0.31 6.8E-06 36.1 1.6 20 45-64 23-42 (214)
460 TIGR00362 DnaA chromosomal rep 87.8 1.4 3.1E-05 36.4 5.6 34 33-66 116-153 (405)
461 PRK14088 dnaA chromosomal repl 87.8 1.4 3E-05 37.5 5.6 35 33-67 111-148 (440)
462 COG1136 SalX ABC-type antimicr 87.7 0.3 6.4E-06 38.8 1.5 32 42-75 24-55 (226)
463 cd00227 CPT Chloramphenicol (C 87.7 0.44 9.6E-06 34.7 2.3 17 49-65 2-18 (175)
464 PRK11054 helD DNA helicase IV; 87.7 1.1 2.4E-05 40.4 5.3 40 29-74 195-234 (684)
465 PRK12901 secA preprotein trans 87.6 0.88 1.9E-05 43.5 4.7 52 14-71 153-204 (1112)
466 cd03258 ABC_MetN_methionine_tr 87.6 0.32 7E-06 36.7 1.6 20 45-64 27-46 (233)
467 TIGR01313 therm_gnt_kin carboh 87.6 0.28 6.1E-06 34.9 1.2 13 52-64 1-13 (163)
468 cd01393 recA_like RecA is a b 87.5 0.58 1.3E-05 34.9 2.9 31 46-76 16-46 (226)
469 TIGR01243 CDC48 AAA family ATP 87.5 0.69 1.5E-05 41.5 3.8 16 50-65 213-228 (733)
470 PRK00149 dnaA chromosomal repl 87.5 1.2 2.7E-05 37.5 5.1 35 33-67 128-166 (450)
471 TIGR00634 recN DNA repair prot 87.5 0.61 1.3E-05 40.6 3.4 27 49-77 22-48 (563)
472 PRK13826 Dtr system oriT relax 87.4 1.2 2.7E-05 42.5 5.5 50 28-81 379-428 (1102)
473 PRK06067 flagellar accessory p 87.4 0.65 1.4E-05 35.3 3.2 34 47-81 23-56 (234)
474 TIGR01166 cbiO cobalt transpor 87.3 0.35 7.5E-06 35.5 1.6 20 45-64 14-33 (190)
475 PTZ00454 26S protease regulato 87.3 0.48 1E-05 40.0 2.6 17 50-66 180-196 (398)
476 cd03255 ABC_MJ0796_Lo1CDE_FtsE 87.3 0.34 7.4E-06 36.1 1.5 20 45-64 26-45 (218)
477 TIGR03608 L_ocin_972_ABC putat 87.2 0.34 7.4E-06 35.7 1.5 19 46-64 21-39 (206)
478 cd03242 ABC_RecF RecF is a rec 87.1 0.71 1.5E-05 36.2 3.3 25 50-76 22-46 (270)
479 PRK06090 DNA polymerase III su 87.1 1.3 2.9E-05 36.5 5.0 39 31-69 4-45 (319)
480 PRK11889 flhF flagellar biosyn 87.1 0.66 1.4E-05 40.3 3.3 31 50-81 242-272 (436)
481 cd01672 TMPK Thymidine monopho 87.0 0.42 9.1E-06 34.2 1.8 14 51-64 2-15 (200)
482 TIGR03878 thermo_KaiC_2 KaiC d 87.0 0.63 1.4E-05 36.6 3.0 33 48-81 35-67 (259)
483 TIGR03346 chaperone_ClpB ATP-d 87.0 0.69 1.5E-05 42.4 3.6 38 30-67 173-212 (852)
484 KOG0745|consensus 87.0 0.38 8.2E-06 42.5 1.8 25 49-75 226-250 (564)
485 TIGR03743 SXT_TraD conjugative 87.0 0.71 1.5E-05 41.3 3.6 30 49-79 176-205 (634)
486 PRK14738 gmk guanylate kinase; 87.0 0.38 8.3E-06 36.4 1.7 17 48-64 12-28 (206)
487 PF12774 AAA_6: Hydrolytic ATP 87.0 1.2 2.7E-05 34.9 4.6 33 33-65 16-48 (231)
488 PRK05748 replicative DNA helic 86.9 0.65 1.4E-05 39.2 3.1 37 45-81 199-235 (448)
489 PF03029 ATP_bind_1: Conserved 86.8 0.46 1E-05 37.3 2.1 26 54-80 1-26 (238)
490 cd01363 Motor_domain Myosin an 86.8 0.69 1.5E-05 34.4 2.9 18 50-67 25-42 (186)
491 TIGR02329 propionate_PrpR prop 86.8 1.1 2.3E-05 39.4 4.5 33 33-65 219-251 (526)
492 PRK14737 gmk guanylate kinase; 86.7 0.41 8.9E-06 36.0 1.7 16 49-64 4-19 (186)
493 PRK10246 exonuclease subunit S 86.7 0.61 1.3E-05 43.7 3.1 29 46-76 27-55 (1047)
494 PRK05986 cob(I)alamin adenolsy 86.7 1.7 3.7E-05 33.7 5.1 34 47-81 20-53 (191)
495 TIGR02673 FtsE cell division A 86.7 0.4 8.7E-06 35.6 1.6 24 41-64 20-43 (214)
496 PHA02562 46 endonuclease subun 86.6 0.6 1.3E-05 39.7 2.8 26 49-76 27-52 (562)
497 PRK08760 replicative DNA helic 86.6 0.67 1.5E-05 39.9 3.2 38 44-81 224-261 (476)
498 COG4133 CcmA ABC-type transpor 86.6 0.3 6.5E-06 38.7 0.9 20 45-64 24-43 (209)
499 CHL00195 ycf46 Ycf46; Provisio 86.6 0.68 1.5E-05 40.3 3.2 17 50-66 260-276 (489)
500 cd03269 ABC_putative_ATPase Th 86.5 0.41 8.9E-06 35.6 1.6 19 46-64 23-41 (210)
No 1
>KOG1133|consensus
Probab=99.81 E-value=3.7e-20 Score=163.63 Aligned_cols=95 Identities=41% Similarity=0.707 Sum_probs=81.7
Q ss_pred CCccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhhHHHHHHHHHH-hhhhcCCC
Q psy14273 21 VPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAGLEKIEAEIKD-LEISKNET 99 (115)
Q Consensus 21 ~~~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~~~~~~~~~~-~~~~~~~~ 99 (115)
..+.|+|||.||++|.++|++++++|++|+++|||+|||||||||+||+++.|+..++.++.+.+.+++.. +.-.....
T Consensus 6 ~~~~F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~k 85 (821)
T KOG1133|consen 6 GAIEFPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDEK 85 (821)
T ss_pred cccccCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCcccccc
Confidence 55789999999999999999999999999999999999999999999999999999999998887777766 11124455
Q ss_pred CCcc----hHHHhhcccccC
Q psy14273 100 VSED----WIEQQSFEPTIR 115 (115)
Q Consensus 100 ~~pd----W~~e~~~~~~~~ 115 (115)
++|| |+.++.+++..|
T Consensus 86 de~d~~s~wl~~~~~~~~er 105 (821)
T KOG1133|consen 86 DESDSSSAWLTQFVQKKEER 105 (821)
T ss_pred ccccchhHHHHHHHHHHHhh
Confidence 5677 999998876543
No 2
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.73 E-value=5.3e-18 Score=135.49 Aligned_cols=56 Identities=50% Similarity=0.876 Sum_probs=53.4
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
.|.|||+|||.|.+||+.|++++.+++++|+|||||||||++||+|++.|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 57899999999999999999999999999999999999999999999999987665
No 3
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.73 E-value=5.3e-18 Score=135.49 Aligned_cols=56 Identities=50% Similarity=0.876 Sum_probs=53.4
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
.|.|||+|||.|.+||+.|++++.+++++|+|||||||||++||+|++.|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 57899999999999999999999999999999999999999999999999987665
No 4
>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=99.61 E-value=7.5e-16 Score=135.22 Aligned_cols=56 Identities=34% Similarity=0.610 Sum_probs=52.9
Q ss_pred ccccCCCCC-CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 23 SEFPFPFDA-YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 23 ~~~~fpf~~-r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
..++|||++ ||.|.++|+.|++++.+++++++|||||||||+|+|||+|.|+..++
T Consensus 2 ~~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~ 58 (705)
T TIGR00604 2 LLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP 58 (705)
T ss_pred CceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc
Confidence 468999995 99999999999999999999999999999999999999999998766
No 5
>KOG1132|consensus
Probab=99.48 E-value=2.9e-14 Score=128.65 Aligned_cols=60 Identities=43% Similarity=0.733 Sum_probs=57.4
Q ss_pred CccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 22 PSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 22 ~~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
|+.+.|||+||+.|+.||..|.++|.+..++++|+||||||||++||++++|.+.+..+.
T Consensus 13 Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~ 72 (945)
T KOG1132|consen 13 GVPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRK 72 (945)
T ss_pred CceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccc
Confidence 899999999999999999999999999999999999999999999999999999987443
No 6
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.46 E-value=7.7e-14 Score=123.12 Aligned_cols=57 Identities=23% Similarity=0.233 Sum_probs=51.7
Q ss_pred ccCC-CCCCHHHHHHHHHHHHHHhc-----CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 25 FPFP-FDAYDIQSNFMKNLYYTLDN-----SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 25 ~~fp-f~~r~~Q~e~m~~I~~~l~~-----~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+| |++|++|.+||..|.+++.+ ++++++|||||||||++||+|++.|+...+++|
T Consensus 19 ~~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~v 81 (697)
T PRK11747 19 EQLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKL 81 (697)
T ss_pred HhCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeE
Confidence 3445 99999999999999999988 488999999999999999999999999887776
No 7
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.45 E-value=1e-13 Score=119.52 Aligned_cols=59 Identities=24% Similarity=0.350 Sum_probs=53.4
Q ss_pred ccccCC-CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 23 SEFPFP-FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 23 ~~~~fp-f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
....|| |++|+.|.+||..|..++.++.++++|||||||||++||+|++.|....++++
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~v 66 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKV 66 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcE
Confidence 344566 66999999999999999999999999999999999999999999998887765
No 8
>KOG1131|consensus
Probab=99.38 E-value=6e-13 Score=116.26 Aligned_cols=63 Identities=29% Similarity=0.417 Sum_probs=59.5
Q ss_pred CCCCCccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 18 LAEVPSEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 18 ~~~~~~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+.++++.++|||+ .||.|.++|.+++++|++++|+++|+|+|||||.|+|..+++|...++..
T Consensus 3 ~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~ 66 (755)
T KOG1131|consen 3 FYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDE 66 (755)
T ss_pred eeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcc
Confidence 4578999999999 99999999999999999999999999999999999999999999998843
No 9
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.38 E-value=6e-13 Score=120.55 Aligned_cols=53 Identities=26% Similarity=0.409 Sum_probs=50.1
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
|++|++|.+||..|.+++.++.++++|||||||||++||+|++.|+...+++|
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~v 308 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPV 308 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeE
Confidence 89999999999999999999999999999999999999999999998776665
No 10
>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=99.24 E-value=8.2e-12 Score=111.97 Aligned_cols=49 Identities=24% Similarity=0.325 Sum_probs=46.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
..|++|+.|.+||+.|.+++.+++++++|||||||||++||+|++.++.
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~ 290 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI 290 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc
Confidence 4588999999999999999999999999999999999999999999987
No 11
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.09 E-value=1.5e-10 Score=104.15 Aligned_cols=47 Identities=19% Similarity=0.247 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.|++|++|.+||..|.+++.++.++++|||||||||++||+|++.++
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~ 289 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS 289 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc
Confidence 39999999999999999999999999999999999999999988765
No 12
>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=98.90 E-value=1.7e-09 Score=95.57 Aligned_cols=43 Identities=30% Similarity=0.513 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 34 IQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.|.+||..|++++.+++++++|||||||||++||+|++.|+..
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~ 43 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKE 43 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 4999999999999999999999999999999999999999874
No 13
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.78 E-value=1.2e-08 Score=72.30 Aligned_cols=47 Identities=21% Similarity=0.393 Sum_probs=38.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
|.+|+.|.+.+..+.+.+... .++++.+|||+|||..++..+.....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~ 51 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR 51 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence 568999999999999999876 89999999999999998865555443
No 14
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.74 E-value=1.7e-08 Score=83.16 Aligned_cols=48 Identities=17% Similarity=0.141 Sum_probs=41.3
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..++|. |++.|.+.+..+ .+|+.+|+.||||||||++|++|++..+..
T Consensus 24 ~~~g~~~pt~iQ~~aip~i----l~g~dvi~~ApTGsGKTla~llp~l~~l~~ 72 (423)
T PRK04837 24 EKKGFHNCTPIQALALPLT----LAGRDVAGQAQTGTGKTMAFLTATFHYLLS 72 (423)
T ss_pred HHCCCCCCCHHHHHHHHHH----hCCCcEEEECCCCchHHHHHHHHHHHHHHh
Confidence 346787 999999988764 578999999999999999999999987754
No 15
>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=98.72 E-value=2.9e-08 Score=72.98 Aligned_cols=47 Identities=23% Similarity=0.323 Sum_probs=40.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
++|. +++.|.+.+..+. +++++++++|||+|||++|+.|++..+...
T Consensus 17 ~~~~~~~~~Q~~~~~~~~----~~~~~li~~~TG~GKT~~~~~~~l~~~~~~ 64 (203)
T cd00268 17 LGFEKPTPIQARAIPPLL----SGRDVIGQAQTGSGKTAAFLIPILEKLDPS 64 (203)
T ss_pred cCCCCCCHHHHHHHHHHh----cCCcEEEECCCCCcHHHHHHHHHHHHHHhh
Confidence 4566 8999999888765 388999999999999999999999888775
No 16
>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=98.68 E-value=2.7e-08 Score=83.63 Aligned_cols=45 Identities=22% Similarity=0.182 Sum_probs=39.0
Q ss_pred cccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 24 EFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 24 ~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
...|+|. +||.|.+.+..+ .+++.+++.||||+|||++|++|++.
T Consensus 4 ~~~~g~~~~r~~Q~~ai~~~----l~g~dvlv~apTGsGKTl~y~lp~l~ 49 (470)
T TIGR00614 4 KTVFGLSSFRPVQLEVINAV----LLGRDCFVVMPTGGGKSLCYQLPALC 49 (470)
T ss_pred HhhcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHhHHHHHHHHH
Confidence 4578998 999999988765 46779999999999999999999874
No 17
>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=98.68 E-value=4.5e-08 Score=69.20 Aligned_cols=41 Identities=24% Similarity=0.421 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
|.|.++++.+. +++++++.||||+|||++|+.+++..+...
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~ 42 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG 42 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC
Confidence 78999888764 678899999999999999999999888775
No 18
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.67 E-value=3.8e-08 Score=84.01 Aligned_cols=46 Identities=17% Similarity=0.241 Sum_probs=39.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+|. |+|.|.+.+..+ .+|+++|+.||||||||++|++|++..+..
T Consensus 139 ~g~~~ptpiQ~~aip~i----l~g~dviv~ApTGSGKTlayllPil~~l~~ 185 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAA----LSGRSLLVSADTGSGKTASFLVPIISRCCT 185 (518)
T ss_pred cCCCCCCHHHHHHHHHH----hcCCCEEEEecCCCCccHHHHHHHHHHHHh
Confidence 4676 999999988765 478899999999999999999999987653
No 19
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.66 E-value=4.3e-08 Score=82.03 Aligned_cols=48 Identities=17% Similarity=0.180 Sum_probs=41.3
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.+.|. |++.|.+.+..+ .+++.+|+.||||||||++|++|++..+...
T Consensus 18 ~~g~~~pt~iQ~~ai~~i----l~g~dvlv~apTGsGKTla~~lpil~~l~~~ 66 (456)
T PRK10590 18 EQGYREPTPIQQQAIPAV----LEGRDLMASAQTGTGKTAGFTLPLLQHLITR 66 (456)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCCEEEECCCCCcHHHHHHHHHHHHhhhc
Confidence 45676 999999988865 4688999999999999999999999888653
No 20
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.65 E-value=4.9e-08 Score=80.51 Aligned_cols=47 Identities=21% Similarity=0.281 Sum_probs=40.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.+|. |++.|.+.+..+. +++.+++.||||+|||++|++|++..+...
T Consensus 19 ~g~~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~ 66 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDF 66 (434)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhc
Confidence 5677 9999999887753 678899999999999999999999988653
No 21
>PTZ00424 helicase 45; Provisional
Probab=98.63 E-value=5.5e-08 Score=78.56 Aligned_cols=48 Identities=21% Similarity=0.324 Sum_probs=41.1
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..++|. |++.|.+.+..+ .++..+++.||||+|||++|++|++..+..
T Consensus 44 ~~~~~~~~~~~Q~~ai~~i----~~~~d~ii~apTGsGKT~~~~l~~l~~~~~ 92 (401)
T PTZ00424 44 YSYGFEKPSAIQQRGIKPI----LDGYDTIGQAQSGTGKTATFVIAALQLIDY 92 (401)
T ss_pred HHcCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHhcC
Confidence 346777 999999988875 478889999999999999999999988753
No 22
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.58 E-value=9.5e-08 Score=79.58 Aligned_cols=48 Identities=21% Similarity=0.244 Sum_probs=41.3
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
..+|. |+|.|.+.+..+ .+++.+|+.||||||||++|++|++..+...
T Consensus 21 ~~g~~~~t~iQ~~ai~~~----l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~ 69 (460)
T PRK11776 21 ELGYTEMTPIQAQSLPAI----LAGKDVIAQAKTGSGKTAAFGLGLLQKLDVK 69 (460)
T ss_pred HCCCCCCCHHHHHHHHHH----hcCCCEEEECCCCCcHHHHHHHHHHHHhhhc
Confidence 36777 999999988865 4788999999999999999999999888654
No 23
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.58 E-value=1e-07 Score=79.97 Aligned_cols=47 Identities=21% Similarity=0.252 Sum_probs=40.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
++|. +++.|.+.+..+ .+|+++|+.+|||||||++|++|++.-+...
T Consensus 105 ~g~~~~~~iQ~~ai~~~----~~G~dvi~~apTGSGKTlay~lpil~~l~~~ 152 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYT----LAGHDAIGRAQTGTGKTAAFLISIINQLLQT 152 (475)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHHhc
Confidence 6677 899999987754 5789999999999999999999999877654
No 24
>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=98.58 E-value=7.5e-08 Score=82.98 Aligned_cols=45 Identities=24% Similarity=0.274 Sum_probs=39.1
Q ss_pred cccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 24 EFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 24 ~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
.-.|+|+ +||.|.+.+..+ .+|+.+++.||||+|||++|++|++.
T Consensus 6 ~~~fg~~~fr~~Q~~~i~~i----l~g~dvlv~~PTG~GKTl~y~lpal~ 51 (591)
T TIGR01389 6 KRTFGYDDFRPGQEEIISHV----LDGRDVLVVMPTGGGKSLCYQVPALL 51 (591)
T ss_pred HHhcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCccHhHHHHHHHHH
Confidence 3469999 899999988765 46789999999999999999999873
No 25
>PTZ00110 helicase; Provisional
Probab=98.55 E-value=1.2e-07 Score=81.69 Aligned_cols=46 Identities=20% Similarity=0.098 Sum_probs=39.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..|. |++.|.+.+..+ .+|+.+|+.||||||||++|++|++..+..
T Consensus 148 ~g~~~pt~iQ~~aip~~----l~G~dvI~~ApTGSGKTlaylLP~l~~i~~ 194 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPIA----LSGRDMIGIAETGSGKTLAFLLPAIVHINA 194 (545)
T ss_pred CCCCCCCHHHHHHHHHH----hcCCCEEEEeCCCChHHHHHHHHHHHHHHh
Confidence 4577 999999987764 578899999999999999999999887754
No 26
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=98.54 E-value=1e-07 Score=82.97 Aligned_cols=46 Identities=22% Similarity=0.211 Sum_probs=39.3
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
..-.|+|+ +||.|.+.++.+ .+++.+++.+|||+|||++|++|++.
T Consensus 17 l~~~fG~~~~r~~Q~~ai~~i----l~g~dvlv~apTGsGKTl~y~lpal~ 63 (607)
T PRK11057 17 LQETFGYQQFRPGQQEIIDAV----LSGRDCLVVMPTGGGKSLCYQIPALV 63 (607)
T ss_pred HHHHcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCchHHHHHHHHHHH
Confidence 33468998 999999988865 47889999999999999999999773
No 27
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.54 E-value=1.4e-07 Score=81.80 Aligned_cols=47 Identities=19% Similarity=0.164 Sum_probs=41.0
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+.|. |+|+|.+.+..+ .+++.+|+.||||||||++|++|++..+..
T Consensus 26 ~~g~~~ptpiQ~~~ip~~----l~G~Dvi~~ApTGSGKTlafllpil~~l~~ 73 (572)
T PRK04537 26 SAGFTRCTPIQALTLPVA----LPGGDVAGQAQTGTGKTLAFLVAVMNRLLS 73 (572)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCCEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 46777 999999988864 578999999999999999999999987754
No 28
>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=98.52 E-value=1.7e-07 Score=83.84 Aligned_cols=47 Identities=17% Similarity=0.200 Sum_probs=40.9
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
..|. ||+.|.+.+..+ .+|+++|+.+|||||||++|++|++..+...
T Consensus 32 ~g~~~p~~~Q~~ai~~i----l~G~nvvv~apTGSGKTla~~LPiL~~l~~~ 79 (742)
T TIGR03817 32 AGIHRPWQHQARAAELA----HAGRHVVVATGTASGKSLAYQLPVLSALADD 79 (742)
T ss_pred cCCCcCCHHHHHHHHHH----HCCCCEEEECCCCCcHHHHHHHHHHHHHhhC
Confidence 4565 999999988764 6889999999999999999999999988654
No 29
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.45 E-value=3.6e-07 Score=80.71 Aligned_cols=52 Identities=15% Similarity=0.263 Sum_probs=45.8
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
-.|||++++.|.+.+..|..-+.++ ...++.||||||||++|++|++..+..
T Consensus 256 ~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~ 309 (681)
T PRK10917 256 ASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA 309 (681)
T ss_pred HhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 4589999999999999998887655 478999999999999999999887754
No 30
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.38 E-value=6e-07 Score=79.03 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=40.9
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.++|. |+|.|.+.+..+ .+++.+|+.||||||||++|++|++..+...
T Consensus 23 ~~G~~~ptpiQ~~ai~~l----l~g~dvl~~ApTGsGKT~af~lpll~~l~~~ 71 (629)
T PRK11634 23 DLGYEKPSPIQAECIPHL----LNGRDVLGMAQTGSGKTAAFSLPLLHNLDPE 71 (629)
T ss_pred HCCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHHHHHHHHHHHHhhhc
Confidence 35777 999999988765 4678999999999999999999999877543
No 31
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.37 E-value=4.7e-07 Score=84.79 Aligned_cols=46 Identities=22% Similarity=0.094 Sum_probs=39.7
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
....|+|. +||.|.+.+..+ .+|+.+|+.+|||+|||++|++|++.
T Consensus 452 lk~~FG~~sFRp~Q~eaI~ai----L~GrDVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 452 NKKVFGNHSFRPNQREIINAT----MSGYDVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred HHHHcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCccHHHHHHHHHHH
Confidence 44578888 999999987764 57899999999999999999999864
No 32
>KOG0348|consensus
Probab=98.36 E-value=1.3e-07 Score=83.30 Aligned_cols=55 Identities=15% Similarity=0.199 Sum_probs=47.4
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.-.+.+. |..+|.+.|..|. +|+.+++.|+||||||||||+|+++.++....++
T Consensus 151 L~~~m~i~~pTsVQkq~IP~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki 206 (708)
T KOG0348|consen 151 LNTKMKISAPTSVQKQAIPVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKI 206 (708)
T ss_pred HHHHhccCccchHhhcchhhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCccc
Confidence 33445666 8899999999864 5999999999999999999999999999988776
No 33
>KOG0345|consensus
Probab=98.36 E-value=6e-07 Score=78.01 Aligned_cols=49 Identities=22% Similarity=0.284 Sum_probs=42.0
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.++|+ ..|+|...+..+ .+++.++++|||||||||||++|++.-+....
T Consensus 23 ~~GF~~mTpVQa~tIPll----l~~KDVvveavTGSGKTlAFllP~le~i~rr~ 72 (567)
T KOG0345|consen 23 ESGFEKMTPVQAATIPLL----LKNKDVVVEAVTGSGKTLAFLLPMLEIIYRRE 72 (567)
T ss_pred hcCCcccCHHHHhhhHHH----hcCCceEEEcCCCCCchhhHHHHHHHHHHhhc
Confidence 35677 889999999874 67889999999999999999999999884443
No 34
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.36 E-value=8.8e-07 Score=77.49 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=44.9
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..+||.+++.|.+.+..|..-+... .+.++.||||||||++|+.|++..+..
T Consensus 230 ~~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~ 283 (630)
T TIGR00643 230 ASLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA 283 (630)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 3689999999999999998877554 468999999999999999998877654
No 35
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.34 E-value=8.2e-07 Score=80.60 Aligned_cols=44 Identities=25% Similarity=0.290 Sum_probs=38.5
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 29 f~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
|. ++|.|.+.+..+ .+|+++++.||||||||++|++|++..+..
T Consensus 30 ~~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~ 74 (876)
T PRK13767 30 FGTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFR 74 (876)
T ss_pred cCCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 44 999999988765 578899999999999999999999987764
No 36
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.31 E-value=1e-06 Score=80.11 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=41.4
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 29 f~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
|. |+|.|.+++..| .+|.++++.||||+|||+|+++|++.-+...
T Consensus 20 ~~~~t~~Q~~a~~~i----~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~ 65 (814)
T COG1201 20 FTSLTPPQRYAIPEI----HSGENVLIIAPTGSGKTEAAFLPVINELLSL 65 (814)
T ss_pred cCCCCHHHHHHHHHH----hCCCceEEEcCCCCChHHHHHHHHHHHHHhc
Confidence 55 999999999886 4899999999999999999999999998887
No 37
>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=98.30 E-value=1.3e-06 Score=80.21 Aligned_cols=52 Identities=17% Similarity=0.209 Sum_probs=45.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.|||++++.|.+.++.|.+-+.++ ..++++||||+|||.+++.|++..+...
T Consensus 447 ~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g 500 (926)
T TIGR00580 447 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG 500 (926)
T ss_pred hCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC
Confidence 589999999999999998888765 5789999999999999999988777553
No 38
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.30 E-value=1.3e-06 Score=61.18 Aligned_cols=46 Identities=22% Similarity=0.231 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
++.+++.|.+++..+. +. +.+++.+|||+|||.+++.+++..+...
T Consensus 6 ~~~~~~~Q~~~~~~~~----~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~ 52 (201)
T smart00487 6 FEPLRPYQKEAIEALL----SGLRDVILAAPTGSGKTLAALLPALEALKRG 52 (201)
T ss_pred CCCCCHHHHHHHHHHH----cCCCcEEEECCCCCchhHHHHHHHHHHhccc
Confidence 4559999999888764 44 7899999999999999999888777664
No 39
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.29 E-value=1.2e-06 Score=75.21 Aligned_cols=46 Identities=20% Similarity=0.217 Sum_probs=40.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..|. |.|+|...+..+ ..|+.++..|+||||||+||++|++..+..
T Consensus 47 ~gf~~pt~IQ~~~IP~~----l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~ 93 (513)
T COG0513 47 LGFEEPTPIQLAAIPLI----LAGRDVLGQAQTGTGKTAAFLLPLLQKILK 93 (513)
T ss_pred cCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHhc
Confidence 4677 999999998875 467999999999999999999999999873
No 40
>PRK01172 ski2-like helicase; Provisional
Probab=98.28 E-value=1.3e-06 Score=76.44 Aligned_cols=48 Identities=25% Similarity=0.312 Sum_probs=40.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.+|++|+.|.+.++.+ .+++++++.||||+|||++++.+++..+...+
T Consensus 19 ~~~~l~~~Q~~ai~~l----~~~~nvlv~apTGSGKTl~a~lail~~l~~~~ 66 (674)
T PRK01172 19 NDFELYDHQRMAIEQL----RKGENVIVSVPTAAGKTLIAYSAIYETFLAGL 66 (674)
T ss_pred CCCCCCHHHHHHHHHH----hcCCcEEEECCCCchHHHHHHHHHHHHHHhCC
Confidence 4678999999988764 67889999999999999999999887765543
No 41
>PRK02362 ski2-like helicase; Provisional
Probab=98.20 E-value=2.1e-06 Score=76.09 Aligned_cols=49 Identities=22% Similarity=0.196 Sum_probs=40.2
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
+|. +||.|.+.+.. .+.+++++|+.||||+|||++|++|++..+...++
T Consensus 20 g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~~~~k 69 (737)
T PRK02362 20 GIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIARGGK 69 (737)
T ss_pred CCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHhcCCc
Confidence 455 99999998765 35678999999999999999999998887754333
No 42
>PRK00254 ski2-like helicase; Provisional
Probab=98.16 E-value=3.1e-06 Score=74.83 Aligned_cols=49 Identities=18% Similarity=0.173 Sum_probs=40.3
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.+|. ++|.|.+.+.. .+.+++++++.||||+|||+++.+|++..+...+
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~ 68 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREG 68 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcC
Confidence 4565 89999997764 3568899999999999999999999887765444
No 43
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.09 E-value=5.1e-06 Score=75.76 Aligned_cols=47 Identities=21% Similarity=0.289 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+|..|.+.++.+ .+|+++|+..|||||||.+|++|++.-+...+..
T Consensus 70 ~lY~HQ~~A~~~~----~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a 116 (851)
T COG1205 70 RLYSHQVDALRLI----REGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA 116 (851)
T ss_pred cccHHHHHHHHHH----HCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc
Confidence 3899999987764 6889999999999999999999999888776665
No 44
>KOG0335|consensus
Probab=97.96 E-value=2.7e-06 Score=73.58 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=39.3
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 29 f~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
|. |.|+|+..+..| ..|..++.+|+||+|||.+||+|++.++.+.+.
T Consensus 94 ~~~ptpvQk~sip~i----~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~ 141 (482)
T KOG0335|consen 94 YTKPTPVQKYSIPII----SGGRDLMACAQTGSGKTAAFLIPIISYLLDEGP 141 (482)
T ss_pred ccCCCcceeecccee----ecCCceEEEccCCCcchHHHHHHHHHHHHhcCc
Confidence 44 777787776653 678889999999999999999999999988744
No 45
>KOG0331|consensus
Probab=97.96 E-value=4.5e-06 Score=72.82 Aligned_cols=46 Identities=17% Similarity=0.123 Sum_probs=40.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
-.|+ |.|+|.+....+ ..|+.+|.-|-|||||||||++|++.++..
T Consensus 109 ~g~~~PtpIQaq~wp~~----l~GrD~v~iA~TGSGKTLay~lP~i~~l~~ 155 (519)
T KOG0331|consen 109 QGFEKPTPIQAQGWPIA----LSGRDLVGIARTGSGKTLAYLLPAIVHLNN 155 (519)
T ss_pred cCCCCCchhhhccccee----ccCCceEEEeccCCcchhhhhhHHHHHHHh
Confidence 4567 889999977754 588999999999999999999999999987
No 46
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.95 E-value=1.7e-05 Score=74.28 Aligned_cols=51 Identities=14% Similarity=0.126 Sum_probs=43.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
-.|||++.+.|.+.++.|..-+.+. ..++++||||+|||..++.++...+.
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~ 647 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE 647 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH
Confidence 4699999999999999988777654 67999999999999999888766554
No 47
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.93 E-value=1.4e-05 Score=73.80 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=38.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+..||+.+|.|.+.+..+ ..+..+|.+|+||+|||++|++|++.-+..
T Consensus 87 ~~~p~~~tp~qvQ~I~~i----~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~ 134 (970)
T PRK12899 87 YHQQWDMVPYDVQILGAI----AMHKGFITEMQTGEGKTLTAVMPLYLNALT 134 (970)
T ss_pred ccCCCCCChHHHHHhhhh----hcCCCeEEEeCCCCChHHHHHHHHHHHHhh
Confidence 455666689999988765 346679999999999999999999866643
No 48
>KOG0344|consensus
Probab=97.93 E-value=9.3e-06 Score=71.59 Aligned_cols=47 Identities=28% Similarity=0.339 Sum_probs=39.4
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
+|. |.|.|.+.+.. +..+..++.+||||+||||+|++|++.-+....
T Consensus 155 ~F~~Pt~iq~~aipv----fl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~ 202 (593)
T KOG0344|consen 155 GFDEPTPIQKQAIPV----FLEKRDVLACAPTGSGKTLAFNLPILQHLKDLS 202 (593)
T ss_pred CCCCCCcccchhhhh----hhcccceEEeccCCCcchhhhhhHHHHHHHHhh
Confidence 466 77888876553 457789999999999999999999999998876
No 49
>KOG0350|consensus
Probab=97.89 E-value=9e-06 Score=71.34 Aligned_cols=50 Identities=20% Similarity=0.379 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHHHHHhc-----CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDN-----SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~-----~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+|+|...+.-+...+.. .+.+++.|||||||||||.+|+++.+-...-+
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~ 214 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVK 214 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCcc
Confidence 457888888887777752 36789999999999999999999999776433
No 50
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.87 E-value=3.1e-05 Score=72.53 Aligned_cols=50 Identities=14% Similarity=0.187 Sum_probs=39.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+.+.+|+.|.+.++.+.+++.++ +.+++.+|||||||++.+..+..++..
T Consensus 410 ~~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~ 460 (1123)
T PRK11448 410 YGLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKA 460 (1123)
T ss_pred cCCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhc
Confidence 34569999999999999998765 578999999999999866655454443
No 51
>KOG0330|consensus
Probab=97.80 E-value=1.7e-05 Score=67.89 Aligned_cols=49 Identities=20% Similarity=0.108 Sum_probs=43.5
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+. |.++|.+.|..+ ..|+++|.-|.||||||.+|++|+++.+..+++.
T Consensus 80 ~~~~PT~IQ~~aiP~~----L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~ 129 (476)
T KOG0330|consen 80 GWKKPTKIQSEAIPVA----LGGRDVIGLAETGSGKTGAFALPILQRLLQEPKL 129 (476)
T ss_pred CcCCCchhhhhhcchh----hCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCC
Confidence 355 899999999875 5889999999999999999999999999887765
No 52
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=97.79 E-value=2e-05 Score=69.78 Aligned_cols=47 Identities=26% Similarity=0.208 Sum_probs=40.5
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
....|+|+ .|++|.+.++. +.+++++++-+|||.|||++|.+|++-.
T Consensus 9 L~~~fGy~~FR~gQ~evI~~----~l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 9 LKQVFGYASFRPGQQEIIDA----LLSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred HHHHhCccccCCCHHHHHHH----HHcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 45679999 89999986665 4678999999999999999999998866
No 53
>PRK09694 helicase Cas3; Provisional
Probab=97.79 E-value=3.2e-05 Score=70.97 Aligned_cols=45 Identities=18% Similarity=0.245 Sum_probs=35.1
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.|.|||.|..+... ..+.+..||+||||+|||.++|..+...+..
T Consensus 284 ~~~p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~~l~~~ 328 (878)
T PRK09694 284 GYQPRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQ 328 (878)
T ss_pred CCCChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 46799999987432 1356789999999999999999887765543
No 54
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.77 E-value=4.3e-05 Score=64.56 Aligned_cols=45 Identities=22% Similarity=0.352 Sum_probs=38.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~ 69 (115)
+.+.+.+|+.|.+.++.+.+...++..+++.+|||+|||+..+..
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~ 75 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEA 75 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHH
Confidence 667788999999999988877776889999999999999876554
No 55
>PRK09401 reverse gyrase; Reviewed
Probab=97.71 E-value=5.6e-05 Score=71.10 Aligned_cols=48 Identities=17% Similarity=0.158 Sum_probs=36.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.++|+|++.|...+..+ ..|.++++.||||+|||+ ++++++.++...+
T Consensus 76 ~~G~~pt~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~-f~l~~~~~l~~~g 123 (1176)
T PRK09401 76 KTGSKPWSLQRTWAKRL----LLGESFAIIAPTGVGKTT-FGLVMSLYLAKKG 123 (1176)
T ss_pred hcCCCCcHHHHHHHHHH----HCCCcEEEEcCCCCCHHH-HHHHHHHHHHhcC
Confidence 46788999999977764 478899999999999996 4455555554433
No 56
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.70 E-value=3.6e-05 Score=69.68 Aligned_cols=48 Identities=21% Similarity=0.259 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+.++.|++ +|+..+..++++|+++|||+|||+.++++++.-+.+.+.+
T Consensus 31 el~~~qq~---av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k 78 (766)
T COG1204 31 ELFNPQQE---AVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGK 78 (766)
T ss_pred HhhHHHHH---HhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCc
Confidence 57888888 5555666789999999999999999999999999886444
No 57
>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=97.67 E-value=4.9e-05 Score=69.59 Aligned_cols=41 Identities=17% Similarity=0.281 Sum_probs=31.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCC-cEEEecCCCCCchHHHHHHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSK-FGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~-~~iiEaPTGtGKTls~L~~al 71 (115)
.+|+|+|+|.+.+..+ .+|+ .+++.+|||||||.++.+..+
T Consensus 12 ~G~~PtpiQ~~~i~~i----l~G~~~v~~~apTGSGKTaa~aafll 53 (844)
T TIGR02621 12 HGYSPFPWQLSLAERF----VAGQPPESCSTPTGLGKTSIIAAWLL 53 (844)
T ss_pred hCCCCCHHHHHHHHHH----HcCCCcceEecCCCCcccHHHHHhhc
Confidence 3577999999988875 3565 688899999999987654444
No 58
>KOG0346|consensus
Probab=97.67 E-value=4.3e-05 Score=66.48 Aligned_cols=50 Identities=20% Similarity=0.181 Sum_probs=41.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+|+ |.-+|...|..+ .+|+.+|.-|-||||||++||+|.++.+...++.
T Consensus 37 lG~ekpTlIQs~aIpla----LEgKDvvarArTGSGKT~AYliPllqkll~~k~t 87 (569)
T KOG0346|consen 37 LGWEKPTLIQSSAIPLA----LEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKT 87 (569)
T ss_pred hCcCCcchhhhcccchh----hcCcceeeeeccCCCchHHHHHHHHHHHHHhhhc
Confidence 4566 777888877753 4678999999999999999999999999887766
No 59
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.65 E-value=8.9e-05 Score=65.88 Aligned_cols=50 Identities=14% Similarity=0.064 Sum_probs=40.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..|+.+++.|.+.++.|...+ .....++.||||+|||.+|+.++...+..
T Consensus 140 ~~~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~ 189 (679)
T PRK05580 140 FEPPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ 189 (679)
T ss_pred cCCCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc
Confidence 456778999999888876544 45679999999999999999887766654
No 60
>PRK14701 reverse gyrase; Provisional
Probab=97.61 E-value=8.2e-05 Score=72.02 Aligned_cols=45 Identities=27% Similarity=0.172 Sum_probs=37.1
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.++|+|++.|.+.+..+ .+|+.+++.||||+|||+.++.+++..+
T Consensus 75 ~~G~~pt~iQ~~~i~~i----l~G~d~li~APTGsGKTl~~~~~al~~~ 119 (1638)
T PRK14701 75 ITGFEFWSIQKTWAKRI----LRGKSFSIVAPTGMGKSTFGAFIALFLA 119 (1638)
T ss_pred hhCCCCCHHHHHHHHHH----HcCCCEEEEEcCCCCHHHHHHHHHHHHH
Confidence 47889999999988765 4688999999999999997676666543
No 61
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.58 E-value=0.00012 Score=65.56 Aligned_cols=45 Identities=16% Similarity=0.201 Sum_probs=38.3
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH---------HHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS---------LICGILKWYS 75 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls---------~L~~al~~l~ 75 (115)
.++.|.++-+.+...+.+++.+|+.|+||||||.+ |+.|++..+.
T Consensus 161 l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~ 214 (675)
T PHA02653 161 LASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLD 214 (675)
T ss_pred CCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhh
Confidence 66888888888888899999999999999999997 5667777664
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=97.57 E-value=0.00013 Score=62.27 Aligned_cols=38 Identities=21% Similarity=0.134 Sum_probs=29.4
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHH
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~ 69 (115)
.+.||+.|.+.+..+ + .+..+++.+|||+|||+.++..
T Consensus 112 ~~~~r~~Q~~av~~~---l-~~~~~il~apTGsGKT~i~~~l 149 (501)
T PHA02558 112 KIEPHWYQYDAVYEG---L-KNNRRLLNLPTSAGKSLIQYLL 149 (501)
T ss_pred cCCCCHHHHHHHHHH---H-hcCceEEEeCCCCCHHHHHHHH
Confidence 367999999966543 4 3567899999999999976543
No 63
>KOG0338|consensus
Probab=97.57 E-value=3.7e-05 Score=67.96 Aligned_cols=51 Identities=18% Similarity=0.034 Sum_probs=43.9
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+|. |.|+|...|... .-|+.++.+|.||||||.+|.+|+|.-+...++++
T Consensus 199 lGy~~PTpIQ~a~IPva----llgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~ 250 (691)
T KOG0338|consen 199 LGYKKPTPIQVATIPVA----LLGKDICACAATGSGKTAAFALPILERLLYRPKKV 250 (691)
T ss_pred cCCCCCCchhhhcccHH----hhcchhhheecccCCchhhhHHHHHHHHhcCcccC
Confidence 5677 889999988843 24788999999999999999999999999888875
No 64
>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=97.53 E-value=0.00014 Score=64.43 Aligned_cols=45 Identities=18% Similarity=0.271 Sum_probs=38.1
Q ss_pred CCHHHHHHHHHHHHHHhc------CCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDN------SKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~------~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
+|..|...++.+...+.+ ++.+++.+|||||||++.+..+...+.
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~ 289 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALE 289 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHh
Confidence 889999999999999876 357999999999999998877665553
No 65
>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=97.52 E-value=0.00011 Score=60.14 Aligned_cols=34 Identities=26% Similarity=0.438 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHH
Q psy14273 35 QSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 35 Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~ 72 (115)
|.+.++.+ .++ ..+++.||||+|||+++++|++.
T Consensus 2 Q~~~~~~~----~~~~~~~~~i~apTGsGKT~~~~~~~l~ 37 (357)
T TIGR03158 2 QVATFEAL----QSKDADIIFNTAPTGAGKTLAWLTPLLH 37 (357)
T ss_pred HHHHHHHH----HcCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 56655554 444 35889999999999999998774
No 66
>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=97.52 E-value=0.00015 Score=68.21 Aligned_cols=49 Identities=16% Similarity=0.188 Sum_probs=37.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
..+.|++.|...+..+ ..|+.+++.||||+|||+ +++|++.++...+.+
T Consensus 75 ~g~~p~~iQ~~~i~~i----l~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~g~~ 123 (1171)
T TIGR01054 75 VGSEPWSIQKMWAKRV----LRGDSFAIIAPTGVGKTT-FGLAMSLFLAKKGKR 123 (1171)
T ss_pred cCCCCcHHHHHHHHHH----hCCCeEEEECCCCCCHHH-HHHHHHHHHHhcCCe
Confidence 4567999999977754 478899999999999997 556666666544433
No 67
>KOG0354|consensus
Probab=97.46 E-value=0.00017 Score=65.38 Aligned_cols=48 Identities=19% Similarity=0.241 Sum_probs=41.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
-++..|.+|.++.. .+| ++++|+.+|||+|||+.+..-++.|+...++
T Consensus 59 ~~~~lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~ 106 (746)
T KOG0354|consen 59 TNLELRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK 106 (746)
T ss_pred CcccccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc
Confidence 34669999999655 466 9999999999999999999999999988766
No 68
>KOG0342|consensus
Probab=97.46 E-value=5.6e-05 Score=65.98 Aligned_cols=50 Identities=22% Similarity=0.295 Sum_probs=40.6
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
..+|+ ..++|...+..+ ..|+.++.-|-||||||+|+|+|++.++...+.
T Consensus 99 ~~GF~~MT~VQ~~ti~pl----l~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~ 149 (543)
T KOG0342|consen 99 EMGFETMTPVQQKTIPPL----LEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKF 149 (543)
T ss_pred hcCccchhHHHHhhcCcc----CCCccceeeeccCCCceeeehhHHHHHHHhccc
Confidence 45676 778888766653 567899999999999999999999999987543
No 69
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=97.44 E-value=0.00016 Score=47.55 Aligned_cols=27 Identities=30% Similarity=0.536 Sum_probs=22.8
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+++++.+|||+|||..++..+...+..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~ 27 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS 27 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc
Confidence 368999999999999999887776654
No 70
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.43 E-value=0.00024 Score=66.34 Aligned_cols=70 Identities=16% Similarity=0.221 Sum_probs=50.1
Q ss_pred CCchHHHhhcCCCCCCccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 7 NEDKEFKEQRPLAEVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|...--++..........|||++.+.|++.+. +|.++..++++||||+|||+..-++ +.++..++.++
T Consensus 96 ~~~~~~~a~~~~~~~~~~~~~~F~LD~fQ~~a~~----~Ler~esVlV~ApTssGKTvVaeyA-i~~al~~~qrv 165 (1041)
T COG4581 96 DYDMVPDAESPFDLAPPAREYPFELDPFQQEAIA----ILERGESVLVCAPTSSGKTVVAEYA-IALALRDGQRV 165 (1041)
T ss_pred hhcccchhhcccccCcHHHhCCCCcCHHHHHHHH----HHhCCCcEEEEccCCCCcchHHHHH-HHHHHHcCCce
Confidence 3333333343333555666799999999999655 5689999999999999999988777 45555555555
No 71
>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=97.43 E-value=0.00026 Score=55.12 Aligned_cols=42 Identities=24% Similarity=0.398 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
..|..+++.+. +...+++.||.|||||+-.++.++..+....
T Consensus 7 ~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~ 48 (205)
T PF02562_consen 7 EEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGE 48 (205)
T ss_dssp HHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCC
Confidence 78999988875 6779999999999999999999999887743
No 72
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.41 E-value=0.00022 Score=64.91 Aligned_cols=38 Identities=26% Similarity=0.347 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..+..|.+++.+++.+|+.||||||||.+|..+++...
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~ 45 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHG 45 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcC
Confidence 35668888899999999999999999999998887643
No 73
>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=97.40 E-value=0.00014 Score=58.25 Aligned_cols=25 Identities=28% Similarity=0.339 Sum_probs=22.0
Q ss_pred EEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 52 GIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 52 ~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+|+.||||+|||++++.+++..+..
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~ 26 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKS 26 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhh
Confidence 7899999999999999999876643
No 74
>PRK13766 Hef nuclease; Provisional
Probab=97.40 E-value=0.00025 Score=62.78 Aligned_cols=50 Identities=20% Similarity=0.149 Sum_probs=37.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+-.+++|+.|.++...+ +.. ++++.+|||+|||+.+++++...+...+.+
T Consensus 11 ~~~~~~r~yQ~~~~~~~---l~~--n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~ 60 (773)
T PRK13766 11 PNTIEARLYQQLLAATA---LKK--NTLVVLPTGLGKTAIALLVIAERLHKKGGK 60 (773)
T ss_pred cCcCCccHHHHHHHHHH---hcC--CeEEEcCCCccHHHHHHHHHHHHHHhCCCe
Confidence 34577999999977654 433 799999999999999998877776433333
No 75
>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=97.37 E-value=0.00021 Score=64.94 Aligned_cols=41 Identities=20% Similarity=0.263 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
||.|.+++..+ .+.+| .|++++||+|||+++++|++..+..
T Consensus 70 rpydVQlig~l--~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~ 110 (762)
T TIGR03714 70 FPYDVQVLGAI--VLHQG--NIAEMKTGEGKTLTATMPLYLNALT 110 (762)
T ss_pred CccHHHHHHHH--HhcCC--ceeEecCCcchHHHHHHHHHHHhhc
Confidence 44444455544 23334 6999999999999999997654443
No 76
>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=97.35 E-value=0.00045 Score=62.55 Aligned_cols=45 Identities=22% Similarity=0.287 Sum_probs=34.3
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHH
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al 71 (115)
.+.+.+.+||.|.+.++. ++.++ ..+|+.+|||+|||+..+..+.
T Consensus 249 ~L~~~~~LRpYQ~eAl~~---~~~~gr~r~GIIvLPtGaGKTlvai~aa~ 295 (732)
T TIGR00603 249 DLKPTTQIRPYQEKSLSK---MFGNGRARSGIIVLPCGAGKSLVGVTAAC 295 (732)
T ss_pred ccccCCCcCHHHHHHHHH---HHhcCCCCCcEEEeCCCCChHHHHHHHHH
Confidence 334457799999996654 45555 4799999999999999886643
No 77
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.35 E-value=0.00021 Score=52.13 Aligned_cols=38 Identities=24% Similarity=0.434 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+.|.+.+ ..++.+....+|.||.|||||.++ +.++..+
T Consensus 4 ~~Q~~Ai---~~~~~~~~~~~i~GpPGTGKT~~l-~~~i~~~ 41 (236)
T PF13086_consen 4 ESQREAI---QSALSSNGITLIQGPPGTGKTTTL-ASIIAQL 41 (236)
T ss_dssp HHHHHHH---HHHCTSSE-EEEE-STTSSHHHHH-HHHHHHH
T ss_pred HHHHHHH---HHHHcCCCCEEEECCCCCChHHHH-HHHHHHh
Confidence 5777754 445555555999999999999544 4445444
No 78
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=97.33 E-value=0.00032 Score=62.84 Aligned_cols=48 Identities=21% Similarity=0.054 Sum_probs=38.4
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 23 ~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
....++..||++|......+ .+|. |.+|.||+|||+++++|++..+..
T Consensus 96 ~~R~lg~~p~~VQ~~~~~~l----l~G~--Iae~~TGeGKTla~~lp~~~~al~ 143 (656)
T PRK12898 96 SGRVLGQRHFDVQLMGGLAL----LSGR--LAEMQTGEGKTLTATLPAGTAALA 143 (656)
T ss_pred HHHHhCCCCChHHHHHHHHH----hCCC--eeeeeCCCCcHHHHHHHHHHHhhc
Confidence 34456788999999977765 3555 899999999999999998876643
No 79
>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=97.29 E-value=0.00061 Score=53.54 Aligned_cols=38 Identities=18% Similarity=0.141 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHH
Q psy14273 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L 67 (115)
-..+.+.++.+.+..++..+.+++++||+|||||....
T Consensus 2 ~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~ 39 (262)
T TIGR02640 2 IETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAM 39 (262)
T ss_pred CCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHH
Confidence 35678889999999999999999999999999997644
No 80
>PF13245 AAA_19: Part of AAA domain
Probab=97.27 E-value=0.00045 Score=45.57 Aligned_cols=35 Identities=26% Similarity=0.398 Sum_probs=25.5
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.|..++..+..+++.||.|||||..++--+..++.
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~ 36 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLA 36 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 35556764566778999999999877666666553
No 81
>KOG0334|consensus
Probab=97.26 E-value=0.00015 Score=67.27 Aligned_cols=48 Identities=19% Similarity=0.301 Sum_probs=41.4
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
-.+.|. |+++|.+++..| ..|..+|..|-||+|||++|++|.+.....
T Consensus 381 kkl~y~k~~~IQ~qAiP~I----msGrdvIgvakTgSGKT~af~LPmirhi~d 429 (997)
T KOG0334|consen 381 KKLGYEKPTPIQAQAIPAI----MSGRDVIGVAKTGSGKTLAFLLPMIRHIKD 429 (997)
T ss_pred HHhcCCCCcchhhhhcchh----ccCcceEEeeccCCccchhhhcchhhhhhc
Confidence 457788 999999999976 689999999999999999999998854443
No 82
>KOG0340|consensus
Probab=97.26 E-value=0.0002 Score=61.00 Aligned_cols=49 Identities=20% Similarity=0.159 Sum_probs=43.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|.|+|..++..| .+|..||-+|-||||||.+|-+|.+.-+.+.+.-+
T Consensus 28 ~~pTpiQ~~cIpkI----LeGrdcig~AkTGsGKT~AFaLPil~rLsedP~gi 76 (442)
T KOG0340|consen 28 KKPTPIQQACIPKI----LEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGI 76 (442)
T ss_pred CCCCchHhhhhHHH----hcccccccccccCCCcchhhhHHHHHhhccCCCcc
Confidence 34899999999986 58999999999999999999999999888776554
No 83
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.25 E-value=0.00044 Score=63.12 Aligned_cols=38 Identities=24% Similarity=0.297 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.+...|.+++.++..+|+.||||||||..+..+++...
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~ 42 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP 42 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh
Confidence 35567888899999999999999999999999988654
No 84
>KOG0952|consensus
Probab=97.17 E-value=0.00041 Score=65.08 Aligned_cols=53 Identities=26% Similarity=0.329 Sum_probs=44.1
Q ss_pred CCccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 21 VPSEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 21 ~~~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+.+-+|+|. .-..|.+..+.++ ..+.+++|+||||+|||.-+++.+|..+..
T Consensus 100 ~~rk~~f~f~~fN~iQS~vFp~aY---~SneNMLIcAPTGsGKT~la~L~ILr~ik~ 153 (1230)
T KOG0952|consen 100 VGRKGFFSFEEFNRIQSEVFPVAY---KSNENMLICAPTGSGKTVLAELCILRTIKE 153 (1230)
T ss_pred hhhhhcccHHHHHHHHHHhhhhhh---cCCCCEEEECCCCCCchHHHHHHHHHHHHh
Confidence 3345678888 5689999888654 678899999999999999999999988876
No 85
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.08 E-value=0.0011 Score=43.95 Aligned_cols=32 Identities=28% Similarity=0.288 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEecCCCCCchHH
Q psy14273 34 IQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLS 65 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~--~~~~iiEaPTGtGKTls 65 (115)
.|...+..+...+.. +.++++.||+|+|||..
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 355667777777776 67899999999999953
No 86
>KOG0352|consensus
Probab=97.08 E-value=0.00062 Score=59.59 Aligned_cols=45 Identities=22% Similarity=0.203 Sum_probs=35.7
Q ss_pred cccCCCC--CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHH
Q psy14273 24 EFPFPFD--AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 24 ~~~fpf~--~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al 71 (115)
+-.|+|. -.+-|.+ ++.-++..++.+.+++|||+||||+|-+|+|
T Consensus 12 KK~FGh~kFKs~LQE~---A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL 58 (641)
T KOG0352|consen 12 KKLFGHKKFKSRLQEQ---AINCIVKRKCDVYVSMPTGAGKSLCYQLPAL 58 (641)
T ss_pred HHHhCchhhcChHHHH---HHHHHHhccCcEEEeccCCCchhhhhhchHH
Confidence 4457777 4488888 4445567788999999999999999998875
No 87
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=97.05 E-value=0.00091 Score=61.08 Aligned_cols=44 Identities=25% Similarity=0.213 Sum_probs=32.3
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.++..||++|.-..-. +.+|. |.||.||+|||+++++|++..+.
T Consensus 74 ~~g~~p~~vQl~~~~~----l~~G~--Iaem~TGeGKTL~a~lp~~l~al 117 (790)
T PRK09200 74 VLGMRPYDVQLIGALV----LHEGN--IAEMQTGEGKTLTATMPLYLNAL 117 (790)
T ss_pred HhCCCCchHHHHhHHH----HcCCc--eeeecCCCcchHHHHHHHHHHHH
Confidence 4566688888765433 33454 99999999999999999874443
No 88
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.02 E-value=0.001 Score=61.18 Aligned_cols=47 Identities=17% Similarity=0.147 Sum_probs=40.1
Q ss_pred CCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+|..|...++.|.+++.+| ..+++.|.||||||.+++.-+-..++..
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~ 213 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSG 213 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcc
Confidence 8999999999999999988 4599999999999999877655555444
No 89
>KOG0333|consensus
Probab=97.01 E-value=0.0005 Score=61.03 Aligned_cols=48 Identities=21% Similarity=0.219 Sum_probs=41.3
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
..|. |.|+|+..+.. ..+...+|.-|-||||||+++++|++.|+...+
T Consensus 263 ~~y~eptpIqR~aipl----~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP 311 (673)
T KOG0333|consen 263 PGYKEPTPIQRQAIPL----GLQNRDPIGVAETGSGKTAAFLIPLLIWISSLP 311 (673)
T ss_pred cCCCCCchHHHhhccc----hhccCCeeeEEeccCCccccchhhHHHHHHcCC
Confidence 4566 89999998884 457778888999999999999999999998877
No 90
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.93 E-value=0.0013 Score=49.41 Aligned_cols=48 Identities=19% Similarity=0.160 Sum_probs=24.5
Q ss_pred HHHHHHHHHH--HHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNL--YYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I--~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+...+..+ ..++.++..+++.||+|+|||.-+.+-+-..+. ++..+
T Consensus 29 ~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~-~g~~v 78 (178)
T PF01695_consen 29 GIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEAIR-KGYSV 78 (178)
T ss_dssp -----HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHHHH-TT--E
T ss_pred hHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHhcc-CCcce
Confidence 3334444433 334566788999999999999765555444444 55554
No 91
>KOG0343|consensus
Probab=96.86 E-value=0.00042 Score=61.90 Aligned_cols=43 Identities=19% Similarity=0.187 Sum_probs=34.6
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+.++|.+.|... ..|..++--|-||||||||||+|+|..+...
T Consensus 92 ~teiQ~~~Ip~a----L~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~ 134 (758)
T KOG0343|consen 92 MTEIQRDTIPMA----LQGHDVLGAAKTGSGKTLAFLVPVLEALYRL 134 (758)
T ss_pred HHHHHHhhcchh----ccCcccccccccCCCceeeehHHHHHHHHHc
Confidence 557777765542 3678899999999999999999999877654
No 92
>PHA02244 ATPase-like protein
Probab=96.85 E-value=0.004 Score=52.87 Aligned_cols=43 Identities=9% Similarity=-0.028 Sum_probs=33.0
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
..+.++|. .-+.+......+.+++..+..++|.||||||||..
T Consensus 92 ~~~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtL 135 (383)
T PHA02244 92 SGIDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHI 135 (383)
T ss_pred hhCCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHH
Confidence 44556665 44555555667789999999999999999999954
No 93
>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=96.82 E-value=0.0014 Score=59.65 Aligned_cols=45 Identities=24% Similarity=0.205 Sum_probs=32.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHH-HHHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL-KWYS 75 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al-~~l~ 75 (115)
..++..||+.|.-..-. +..|. |.+++||+|||+++++|++ ..+.
T Consensus 51 R~lg~~p~~vQlig~~~----l~~G~--Iaem~TGeGKTLva~lpa~l~aL~ 96 (745)
T TIGR00963 51 RVLGMRPFDVQLIGGIA----LHKGK--IAEMKTGEGKTLTATLPAYLNALT 96 (745)
T ss_pred HHhCCCccchHHhhhhh----hcCCc--eeeecCCCccHHHHHHHHHHHHHh
Confidence 34566788888765443 33443 8999999999999999984 4443
No 94
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=96.81 E-value=0.0019 Score=53.13 Aligned_cols=40 Identities=20% Similarity=0.074 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 36 SNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 36 ~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..+...+..++..+.+++|.||||||||.. |-+.+.++..
T Consensus 147 ~~~~~~L~~~v~~~~nili~G~tgSGKTTl-l~aL~~~ip~ 186 (332)
T PRK13900 147 KKIKEFLEHAVISKKNIIISGGTSTGKTTF-TNAALREIPA 186 (332)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHhhCCC
Confidence 345566777888899999999999999964 4555666644
No 95
>PRK10536 hypothetical protein; Provisional
Probab=96.79 E-value=0.0033 Score=50.93 Aligned_cols=42 Identities=14% Similarity=0.228 Sum_probs=32.7
Q ss_pred CC-HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 31 AY-DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 31 ~r-~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
|+ ..|..++..+ .++..+++.||+|||||+-.++.++..+..
T Consensus 59 p~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 59 ARNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred CCCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 44 7788877754 557799999999999999888887765533
No 96
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.76 E-value=0.0021 Score=50.60 Aligned_cols=36 Identities=19% Similarity=0.328 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--cEEEecCCCCCchHHHHHH
Q psy14273 34 IQSNFMKNLYYTLDNSK--FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~~--~~iiEaPTGtGKTls~L~~ 69 (115)
+|.+..+.+.+++.++. +++|.||+|||||..+..-
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~ 56 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRAL 56 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHH
Confidence 56778888888888876 8999999999999765443
No 97
>KOG0989|consensus
Probab=96.76 E-value=0.0026 Score=53.30 Aligned_cols=46 Identities=24% Similarity=0.255 Sum_probs=37.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
|+---+|......+.+++... .+.+|.||.|||||.++++-+-+..
T Consensus 35 ~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 35 FDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred HHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 445578999999999999773 7899999999999999887765544
No 98
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.75 E-value=0.0031 Score=58.86 Aligned_cols=54 Identities=11% Similarity=0.061 Sum_probs=41.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhc----------------------------------CCcEEEecCCCCCchHHHHHHHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDN----------------------------------SKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~----------------------------------~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
|-|+--|.|.+++.+|..++.. ...+.|+|+||||||.+||..++.
T Consensus 3 ~~~e~l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~~ 82 (986)
T PRK15483 3 ILLEELPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMYE 82 (986)
T ss_pred cccccChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHHH
Confidence 3455458888888888877742 136789999999999999999888
Q ss_pred HHHhhhhh
Q psy14273 73 WYSDHKIA 80 (115)
Q Consensus 73 ~l~~~~~~ 80 (115)
....++..
T Consensus 83 l~~~~~~~ 90 (986)
T PRK15483 83 LHQKYGLF 90 (986)
T ss_pred HHHHcCCc
Confidence 87776544
No 99
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.75 E-value=0.0032 Score=51.89 Aligned_cols=51 Identities=20% Similarity=0.173 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHHHHHh----cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 30 DAYDIQSNFMKNLYYTLD----NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~----~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.||..+..++..+...+. .+..++|.||||+|||.-..+- ...+...+..|
T Consensus 160 ~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aI-a~~l~~~g~~V 214 (329)
T PRK06835 160 SPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCI-AKELLDRGKSV 214 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHH-HHHHHHCCCeE
Confidence 355666666665555555 4578999999999999744443 33344444444
No 100
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=96.74 E-value=0.0026 Score=57.14 Aligned_cols=47 Identities=21% Similarity=0.342 Sum_probs=38.1
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.++.|...++.+.+--..+..++++||||.|||.+.+.+++.-+...
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~ 242 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEK 242 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcc
Confidence 57888888877665544444899999999999999999998888773
No 101
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.72 E-value=0.0029 Score=51.91 Aligned_cols=34 Identities=18% Similarity=0.284 Sum_probs=25.8
Q ss_pred HHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 40 ~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+.+..++..+.++++.||||+||| +++-+++.++
T Consensus 139 ~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 139 EAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 345567778899999999999999 5555555554
No 102
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=96.66 E-value=0.0037 Score=50.56 Aligned_cols=37 Identities=19% Similarity=0.082 Sum_probs=26.9
Q ss_pred HHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 39 m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
...+..++..++.+++.||||+|||.. +-+++.++..
T Consensus 122 ~~~L~~~v~~~~~ilI~G~tGSGKTTl-l~al~~~i~~ 158 (299)
T TIGR02782 122 RDVLREAVLARKNILVVGGTGSGKTTL-ANALLAEIAK 158 (299)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHhhc
Confidence 345666777888999999999999964 3444555543
No 103
>KOG0351|consensus
Probab=96.65 E-value=0.00074 Score=62.66 Aligned_cols=47 Identities=23% Similarity=0.083 Sum_probs=39.2
Q ss_pred ccccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 23 SEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 23 ~~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
....|.+. .|+.|.+++. +...|+.+++.+|||.||+|+|-+||+-+
T Consensus 256 l~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~ 303 (941)
T KOG0351|consen 256 LKEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL 303 (941)
T ss_pred HHHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc
Confidence 45578888 8999999665 45689999999999999999999987643
No 104
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.64 E-value=0.0037 Score=51.57 Aligned_cols=34 Identities=15% Similarity=0.160 Sum_probs=25.5
Q ss_pred HHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 40 ~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+.+..++..+.++||.||||||||.. |-+.+.++
T Consensus 135 ~~L~~~v~~~~nilI~G~tGSGKTTl-l~aL~~~i 168 (323)
T PRK13833 135 SVIRSAIDSRLNIVISGGTGSGKTTL-ANAVIAEI 168 (323)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHH
Confidence 34556778889999999999999964 34455555
No 105
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.63 E-value=0.0023 Score=55.94 Aligned_cols=48 Identities=17% Similarity=0.203 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHHHHHhc-CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhhH
Q psy14273 31 AYDIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYSDHKIAGL 82 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~-~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~ 82 (115)
..+.|...+.. .+.. .+.+++.||||||||.+ |.+++.++.....++.
T Consensus 242 ~~~~~~~~~~~---~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~~~nI~ 290 (500)
T COG2804 242 MSPFQLARLLR---LLNRPQGLILVTGPTGSGKTTT-LYAALSELNTPERNII 290 (500)
T ss_pred CCHHHHHHHHH---HHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCCCceEE
Confidence 34666654443 3333 36788999999999987 5566888887777653
No 106
>KOG0336|consensus
Probab=96.62 E-value=0.0004 Score=60.49 Aligned_cols=49 Identities=24% Similarity=0.114 Sum_probs=36.6
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+|. |.|.|.++-.. +.+|..++.-|.||+||||+||.|.+..+......
T Consensus 239 GFqKPtPIqSQaWPI----~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~ 288 (629)
T KOG0336|consen 239 GFQKPTPIQSQAWPI----LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKR 288 (629)
T ss_pred cCCCCCcchhcccce----eecCcceEEEEecCCCcCHHHhccceeeeeccchh
Confidence 444 66666665443 45788899999999999999999988777665443
No 107
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.61 E-value=0.0047 Score=46.65 Aligned_cols=46 Identities=15% Similarity=0.285 Sum_probs=31.8
Q ss_pred CHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 32 YDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-+.|.++++.+ +.++ +..++.||.|||||.+ |..+...+...+.+|
T Consensus 3 ~~~Q~~a~~~~---l~~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~~g~~v 49 (196)
T PF13604_consen 3 NEEQREAVRAI---LTSGDRVSVLQGPAGTGKTTL-LKALAEALEAAGKRV 49 (196)
T ss_dssp -HHHHHHHHHH---HHCTCSEEEEEESTTSTHHHH-HHHHHHHHHHTT--E
T ss_pred CHHHHHHHHHH---HhcCCeEEEEEECCCCCHHHH-HHHHHHHHHhCCCeE
Confidence 37899987775 3444 6788999999999975 455666666666554
No 108
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=96.48 E-value=0.0024 Score=52.84 Aligned_cols=42 Identities=31% Similarity=0.351 Sum_probs=33.2
Q ss_pred cccCCCCCCHHHHHHHHHHHHHH-hcC-CcEEEecCCCCCchHH
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTL-DNS-KFGIFESPTGTGKSLS 65 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l-~~~-~~~iiEaPTGtGKTls 65 (115)
+.+|||...-+|.+..+.+.-++ ..+ .+++++||.|+|||..
T Consensus 2 ~~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~l 45 (334)
T PRK13407 2 KKPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTA 45 (334)
T ss_pred CCCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHH
Confidence 46778886678999988777544 355 7999999999999954
No 109
>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=96.45 E-value=0.0046 Score=47.28 Aligned_cols=39 Identities=18% Similarity=0.250 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+.|.++++. .++.++|.|+.|||||.+++.=++..+...
T Consensus 3 ~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~ 41 (315)
T PF00580_consen 3 DEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERIAYLLYEG 41 (315)
T ss_dssp HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHHHHhhccc
Confidence 567776552 467899999999999998877766666554
No 110
>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=96.43 E-value=0.0035 Score=48.65 Aligned_cols=41 Identities=20% Similarity=0.204 Sum_probs=29.3
Q ss_pred HHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 39 m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+.+..++..++.++|.||||||||..+ ..++.++.....+
T Consensus 117 ~~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~~~~~ 157 (270)
T PF00437_consen 117 AEFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPPEDER 157 (270)
T ss_dssp HHHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHTTTSE
T ss_pred HHHHhhccccceEEEEECCCccccchHH-HHHhhhccccccc
Confidence 3344455567889999999999999654 6667777666333
No 111
>PRK08181 transposase; Validated
Probab=96.42 E-value=0.013 Score=47.14 Aligned_cols=48 Identities=15% Similarity=-0.103 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|...+..+.+++..+.+++|.||+|+|||.-+.+- ...+...+..+
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Ai-a~~a~~~g~~v 137 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAI-GLALIENGWRV 137 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHH-HHHHHHcCCce
Confidence 5666666666578888899999999999999543322 22333444443
No 112
>PLN03025 replication factor C subunit; Provisional
Probab=96.38 E-value=0.0049 Score=49.50 Aligned_cols=36 Identities=22% Similarity=0.272 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHH
Q psy14273 34 IQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~ 69 (115)
+|.+.+..+..++.++ .+++|.||.|+|||..+.+-
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~l 54 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILAL 54 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHH
Confidence 5677777887777765 57999999999999765554
No 113
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.37 E-value=0.0035 Score=40.80 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=16.7
Q ss_pred CCcEEEecCCCCCchHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~ 69 (115)
+.+++|.||+|||||.....-
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l 22 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARAL 22 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHH
Confidence 467899999999999765443
No 114
>PRK13531 regulatory ATPase RavA; Provisional
Probab=96.36 E-value=0.003 Score=55.19 Aligned_cols=34 Identities=18% Similarity=0.108 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~ 66 (115)
-+|.+.++.+..++..+.+++++||+|||||+.+
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 4677889999999999999999999999999754
No 115
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.26 E-value=0.0058 Score=51.27 Aligned_cols=54 Identities=17% Similarity=0.264 Sum_probs=34.7
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhc-CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~-~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
-.|.. |.-.|..+=+.+...+.. .+.+++.||||||||.+ |++.+.|+..+...
T Consensus 100 ~Ip~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~~~~ 155 (353)
T COG2805 100 LIPSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKHKAK 155 (353)
T ss_pred ccCccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhccCCc
Confidence 34544 444454444444443333 36788999999999976 56678888776544
No 116
>KOG0326|consensus
Probab=96.20 E-value=0.00035 Score=59.23 Aligned_cols=52 Identities=17% Similarity=0.095 Sum_probs=43.6
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.-+|+ |.|.|.+.+..+ ..|+.++.-|-+|||||.||++|.|.-+......+
T Consensus 102 e~G~ekPSPiQeesIPia----LtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~I 154 (459)
T KOG0326|consen 102 EKGFEKPSPIQEESIPIA----LTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVI 154 (459)
T ss_pred HhccCCCCCcccccccee----ecchhhhhhccCCCCCccceechhhhhcCccccce
Confidence 44677 889999977753 47889999999999999999999999988776664
No 117
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=96.20 E-value=0.007 Score=44.95 Aligned_cols=30 Identities=23% Similarity=0.449 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.|.++ +..++..+..++|.||||+|||..
T Consensus 12 ~~~~~~---l~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 12 PLQAAY---LWLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHHH---HHHHHhCCCEEEEECCCCCCHHHH
Confidence 455554 445678899999999999999964
No 118
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.18 E-value=0.0058 Score=56.68 Aligned_cols=45 Identities=22% Similarity=0.237 Sum_probs=30.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..+..||++|.- -.+ +|.+| -|.+|+||+|||+++++|++..+..
T Consensus 78 ~lg~~~ydvQli--Gg~--~Lh~G--~Iaem~TGeGKTL~a~Lpa~~~al~ 122 (896)
T PRK13104 78 TLGLRHFDVQLI--GGM--VLHEG--NIAEMRTGEGKTLVATLPAYLNAIS 122 (896)
T ss_pred HcCCCcchHHHh--hhh--hhccC--ccccccCCCCchHHHHHHHHHHHhc
Confidence 345557777654 222 23333 4679999999999999998865543
No 119
>KOG0327|consensus
Probab=96.16 E-value=0.0035 Score=53.37 Aligned_cols=49 Identities=20% Similarity=0.348 Sum_probs=40.0
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+.|+|+ |..+|...+-- ++ .|.++++.+++|||||.+++++++.-+.-.
T Consensus 42 y~yGFekPSaIQqraI~p---~i-~G~dv~~qaqsgTgKt~af~i~iLq~iD~~ 91 (397)
T KOG0327|consen 42 YAYGFEKPSAIQQRAILP---CI-KGHDVIAQAQSGTGKTAAFLISILQQIDMS 91 (397)
T ss_pred HhhccCCchHHHhccccc---cc-cCCceeEeeeccccchhhhHHHHHhhcCcc
Confidence 468899 99999885443 33 678999999999999999999999886443
No 120
>KOG0337|consensus
Probab=96.16 E-value=0.0025 Score=55.42 Aligned_cols=47 Identities=17% Similarity=0.243 Sum_probs=40.1
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.|. |.|+|+.-|..| .++..++--|-||+|||.||++|+++.+..+.
T Consensus 40 g~~~ptpiqRKTipli----Le~~dvv~martgsgktaaf~ipm~e~Lk~~s 87 (529)
T KOG0337|consen 40 GFNTPTPIQRKTIPLI----LEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS 87 (529)
T ss_pred hcCCCCchhcccccce----eeccccceeeecCCcchhhHHHHHHHHHhhcc
Confidence 355 778888877754 57788899999999999999999999998877
No 121
>PRK10436 hypothetical protein; Provisional
Probab=96.15 E-value=0.0075 Score=51.92 Aligned_cols=33 Identities=24% Similarity=0.381 Sum_probs=25.4
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.++.+++.||||||||.++ .+++.++.....++
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~~~~~~~i 249 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTLNTAQINI 249 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhhCCCCCEE
Confidence 4578999999999999876 55677776555554
No 122
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=96.15 E-value=0.006 Score=49.17 Aligned_cols=42 Identities=19% Similarity=0.225 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
-++.+.+..+..++..+.+++++||+|+|||+ |+-.++....
T Consensus 27 ~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~ 68 (329)
T COG0714 27 VGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALG 68 (329)
T ss_pred eccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhC
Confidence 33888888999999999999999999999995 3444444433
No 123
>PRK06526 transposase; Provisional
Probab=96.07 E-value=0.013 Score=46.39 Aligned_cols=37 Identities=19% Similarity=0.111 Sum_probs=25.5
Q ss_pred HHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 44 YTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 44 ~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.++..+.++++.||+|+|||....+-+.. +...+.++
T Consensus 93 ~fi~~~~nlll~Gp~GtGKThLa~al~~~-a~~~g~~v 129 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTHLAIGLGIR-ACQAGHRV 129 (254)
T ss_pred chhhcCceEEEEeCCCCchHHHHHHHHHH-HHHCCCch
Confidence 46677789999999999999755444333 33344454
No 124
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.02 E-value=0.024 Score=44.85 Aligned_cols=47 Identities=15% Similarity=0.065 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 34 IQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+.........++.++..++|.||+|+|||.-+.+-+...+ ..+..|
T Consensus 90 ~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv 136 (254)
T COG1484 90 KALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISV 136 (254)
T ss_pred HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeE
Confidence 33334444455677788999999999999965444444444 444444
No 125
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=96.02 E-value=0.0034 Score=60.75 Aligned_cols=23 Identities=30% Similarity=0.384 Sum_probs=20.4
Q ss_pred EecCCCCCchHHHHHHHHHHHHh
Q psy14273 54 FESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 54 iEaPTGtGKTls~L~~al~~l~~ 76 (115)
|.||||||||++|++|+|.-+..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~ 23 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFR 23 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHh
Confidence 47999999999999999987764
No 126
>KOG0991|consensus
Probab=96.01 E-value=0.014 Score=48.04 Aligned_cols=40 Identities=23% Similarity=0.346 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 36 SNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 36 ~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.+.++.+.-...+| +++|+.||.|+|||.|.+|-|-..+=
T Consensus 33 e~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 33 EDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred HHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 35566666556666 78999999999999999998877664
No 127
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=96.01 E-value=0.0098 Score=51.99 Aligned_cols=46 Identities=20% Similarity=0.266 Sum_probs=30.2
Q ss_pred CHHHHHHHHHHHHHHh-cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 32 YDIQSNFMKNLYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~-~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+.|.+.+. +.+. .++.+++.||||||||.++ .+++.++.....++
T Consensus 301 ~~~~~~~l~---~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~~~~~~i 347 (564)
T TIGR02538 301 EPDQKALFL---EAIHKPQGMVLVTGPTGSGKTVSL-YTALNILNTEEVNI 347 (564)
T ss_pred CHHHHHHHH---HHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhCCCCceE
Confidence 355555443 3343 4578899999999999875 56677775444444
No 128
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=96.00 E-value=0.0059 Score=56.67 Aligned_cols=44 Identities=25% Similarity=0.240 Sum_probs=30.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.+...||++|.- -.+ +| +.--|.|++||.||||++.+|++..+.
T Consensus 78 ~lgm~~ydVQli--Ggl--~L--~~G~IaEm~TGEGKTL~a~lp~~l~al 121 (908)
T PRK13107 78 VFEMRHFDVQLL--GGM--VL--DSNRIAEMRTGEGKTLTATLPAYLNAL 121 (908)
T ss_pred HhCCCcCchHHh--cch--Hh--cCCccccccCCCCchHHHHHHHHHHHh
Confidence 456667788763 222 12 233577999999999999999875554
No 129
>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=95.95 E-value=0.011 Score=46.86 Aligned_cols=45 Identities=18% Similarity=0.183 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHh-cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~-~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|.+.+ .+.+. .+..++|.||||+|||..+ ..++.++.....++
T Consensus 66 ~~~~~~l---~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~~~~~~i 111 (264)
T cd01129 66 PENLEIF---RKLLEKPHGIILVTGPTGSGKTTTL-YSALSELNTPEKNI 111 (264)
T ss_pred HHHHHHH---HHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhCCCCCeE
Confidence 4555544 34444 3467999999999999764 44566665433333
No 130
>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=95.87 E-value=0.013 Score=46.74 Aligned_cols=35 Identities=23% Similarity=0.215 Sum_probs=26.6
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
|...-..+...+...+.++..+++.||+|||||..
T Consensus 15 pT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 15 PTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSL 49 (272)
T ss_dssp --HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHH
T ss_pred CcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHH
Confidence 55555555666667788899999999999999975
No 131
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.85 E-value=0.014 Score=45.54 Aligned_cols=36 Identities=22% Similarity=0.344 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~ 68 (115)
-+|.+.++.+..++..+ .+++|.||.|+|||..+.+
T Consensus 20 ~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~ 57 (319)
T PRK00440 20 VGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALA 57 (319)
T ss_pred cCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHH
Confidence 36778888998888776 4689999999999976544
No 132
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.84 E-value=0.011 Score=49.17 Aligned_cols=38 Identities=16% Similarity=0.101 Sum_probs=27.7
Q ss_pred HHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 38 ~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+...+..++..+++++|.||||||||.. +-+++.++..
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl-l~aLl~~i~~ 188 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM-SKTLISAIPP 188 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH-HHHHHcccCC
Confidence 4456667788899999999999999954 4444555433
No 133
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.82 E-value=0.013 Score=51.02 Aligned_cols=39 Identities=26% Similarity=0.170 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~al 71 (115)
-+|..+++.+..++.+++ ..+|.||.|+|||.++.+-+-
T Consensus 24 iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk 65 (507)
T PRK06645 24 QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAK 65 (507)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 489999999999888875 688999999999977655433
No 134
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=95.78 E-value=0.0082 Score=55.30 Aligned_cols=45 Identities=22% Similarity=0.239 Sum_probs=31.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHH-HHHHh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL-KWYSD 76 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al-~~l~~ 76 (115)
..+..||++|.-- .+ +|.+| -|.|+.||+|||+++.+|++ ..+..
T Consensus 77 ~lg~~~~dvQlig--~l--~L~~G--~Iaem~TGeGKTLva~lpa~l~aL~G 122 (830)
T PRK12904 77 VLGMRHFDVQLIG--GM--VLHEG--KIAEMKTGEGKTLVATLPAYLNALTG 122 (830)
T ss_pred HhCCCCCccHHHh--hH--HhcCC--chhhhhcCCCcHHHHHHHHHHHHHcC
Confidence 3566677777543 33 34444 48899999999999999985 55543
No 135
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.76 E-value=0.017 Score=47.10 Aligned_cols=40 Identities=20% Similarity=0.285 Sum_probs=30.1
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-++.++.+++.+++.||||+|||. +|-+++.++-...+-+
T Consensus 135 yL~~~ie~~~siii~G~t~sGKTt-~lnall~~Ip~~~riv 174 (312)
T COG0630 135 YLWLAIEARKSIIICGGTASGKTT-LLNALLDFIPPEERIV 174 (312)
T ss_pred HHHHHHHcCCcEEEECCCCCCHHH-HHHHHHHhCCchhcEE
Confidence 477889999999999999999995 4555566664444433
No 136
>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=95.73 E-value=0.024 Score=50.38 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.-+.|.+.+. .++.+....+|.||+|||||.++..-+..++ ..+.+|
T Consensus 158 ln~~Q~~Av~---~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~-~~g~~V 204 (637)
T TIGR00376 158 LNESQKEAVS---FALSSKDLFLIHGPPGTGKTRTLVELIRQLV-KRGLRV 204 (637)
T ss_pred CCHHHHHHHH---HHhcCCCeEEEEcCCCCCHHHHHHHHHHHHH-HcCCCE
Confidence 4688998554 4566667899999999999976655444444 334444
No 137
>KOG1803|consensus
Probab=95.73 E-value=0.015 Score=52.12 Aligned_cols=55 Identities=22% Similarity=0.244 Sum_probs=38.7
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 23 ~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..-+||...-+.|...+. -++.+....++.||+|||||.++.--+.+.++ .+++|
T Consensus 178 ~~~~~~~~ln~SQk~Av~---~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk-~~k~V 232 (649)
T KOG1803|consen 178 KITFFNKNLNSSQKAAVS---FAINNKDLLIIHGPPGTGKTRTLVEIISQLVK-QKKRV 232 (649)
T ss_pred ccccCCccccHHHHHHHH---HHhccCCceEeeCCCCCCceeeHHHHHHHHHH-cCCeE
Confidence 344677777788988544 45556678999999999999986655555554 44554
No 138
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.024 Score=47.41 Aligned_cols=42 Identities=19% Similarity=0.181 Sum_probs=29.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L~~a 70 (115)
+.-|+.|.+-+..+......+ .++++.||||||||.+.-.-+
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~ 63 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVM 63 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHH
Confidence 346788877655555444444 459999999999998755543
No 139
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.62 E-value=0.018 Score=47.32 Aligned_cols=37 Identities=14% Similarity=0.071 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
-+|.+.++.+.+++..++ | .+|.||.|+|||..+.+-
T Consensus 19 iGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~l 58 (363)
T PRK14961 19 IGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLL 58 (363)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHH
Confidence 489999999999998873 4 489999999999765544
No 140
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.58 E-value=0.04 Score=44.85 Aligned_cols=46 Identities=15% Similarity=0.018 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhc------CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 34 IQSNFMKNLYYTLDN------SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~------~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+..++..+..++.+ ++.++|.||+|+|||.-+.+.+ ..+...+..
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia-~~l~~~g~~ 186 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIA-NELAKKGVS 186 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHH-HHHHHcCCC
Confidence 566666666666663 3578899999999996433333 333343443
No 141
>KOG0353|consensus
Probab=95.57 E-value=0.01 Score=51.68 Aligned_cols=45 Identities=22% Similarity=0.187 Sum_probs=35.9
Q ss_pred cccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 24 EFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 24 ~~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
+..|-.+ .||-|...+..+ ..+..+++-.|||-||+|+|-+|+|+
T Consensus 87 k~~f~lekfrplq~~ain~~----ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 87 KEQFHLEKFRPLQLAAINAT----MAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred HHHhhHHhcChhHHHHhhhh----hccCceEEEEeCCCccchhhhhhHHh
Confidence 3445556 789998866653 57888999999999999999999875
No 142
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.56 E-value=0.018 Score=47.88 Aligned_cols=42 Identities=19% Similarity=0.222 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~a 70 (115)
|+---+|....+.+.+++.++ .| .||+||.|+|||..+.+-+
T Consensus 15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a 59 (397)
T PRK14955 15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFA 59 (397)
T ss_pred HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHH
Confidence 443348999999999999887 34 7899999999997765543
No 143
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=95.53 E-value=0.022 Score=47.88 Aligned_cols=29 Identities=24% Similarity=0.398 Sum_probs=21.8
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..++.+++.||||||||..+ .+++.++..
T Consensus 147 ~~~GlilI~G~TGSGKTT~l-~al~~~i~~ 175 (372)
T TIGR02525 147 PAAGLGLICGETGSGKSTLA-ASIYQHCGE 175 (372)
T ss_pred hcCCEEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 34578899999999999764 556676653
No 144
>COG4889 Predicted helicase [General function prediction only]
Probab=95.52 E-value=0.011 Score=55.65 Aligned_cols=46 Identities=15% Similarity=0.143 Sum_probs=39.1
Q ss_pred ccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHH
Q psy14273 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 23 ~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~ 68 (115)
+...-|+.|||.|...++...+.+..+..+=+-+.+|||||++.|=
T Consensus 154 l~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLk 199 (1518)
T COG4889 154 LPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLK 199 (1518)
T ss_pred cccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHH
Confidence 4455688899999999999999998887777788999999998654
No 145
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=95.51 E-value=0.029 Score=42.87 Aligned_cols=37 Identities=22% Similarity=0.290 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHHHHHhcCC-cEEEecCCCCCchHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSK-FGIFESPTGTGKSLSLI 67 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~-~~iiEaPTGtGKTls~L 67 (115)
+.+.+.+.+..+...+..+. .+++.||+|+|||...-
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 34666777777777776654 68899999999996543
No 146
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=95.50 E-value=0.021 Score=54.74 Aligned_cols=33 Identities=15% Similarity=0.199 Sum_probs=27.1
Q ss_pred HHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 40 ~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..|..+|.+++.+||.|+||||||. .+|.+.+-
T Consensus 73 ~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~lle 105 (1283)
T TIGR01967 73 EDIAEAIAENQVVIIAGETGSGKTT--QLPKICLE 105 (1283)
T ss_pred HHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHHH
Confidence 5777888889999999999999998 46866554
No 147
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.47 E-value=0.028 Score=54.05 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=26.4
Q ss_pred HHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 40 ~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+.|..++.+++.+|+.|+||||||. .+|.+.+.
T Consensus 80 ~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle 112 (1294)
T PRK11131 80 QDILEAIRDHQVVIVAGETGSGKTT--QLPKICLE 112 (1294)
T ss_pred HHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHH
Confidence 3666777889999999999999998 47855554
No 148
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=95.47 E-value=0.015 Score=45.48 Aligned_cols=33 Identities=21% Similarity=0.234 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
.+|.+.-+++.-+...+.++++.||.|||||+.
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 467788888888888888999999999999965
No 149
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=95.40 E-value=0.028 Score=41.88 Aligned_cols=35 Identities=20% Similarity=0.220 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhc--CCcEEEecCCCCCchHHHH
Q psy14273 33 DIQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~--~~~~iiEaPTGtGKTls~L 67 (115)
+.+.+.++.+.+++.. +..++|.||+|||||..+.
T Consensus 20 ~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~ 56 (226)
T TIGR03420 20 GGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQ 56 (226)
T ss_pred CCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHH
Confidence 3567788888877533 3679999999999996543
No 150
>KOG0347|consensus
Probab=95.40 E-value=0.0072 Score=54.22 Aligned_cols=47 Identities=21% Similarity=0.217 Sum_probs=36.8
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 26 ~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
..+|. |.++|.-.+..+ +.....++--|-|||||||||=+|++.-+.
T Consensus 198 ~~gFs~Pt~IQsl~lp~a---i~gk~DIlGaAeTGSGKTLAFGIPiv~~l~ 245 (731)
T KOG0347|consen 198 NLGFSRPTEIQSLVLPAA---IRGKVDILGAAETGSGKTLAFGIPIVERLL 245 (731)
T ss_pred hcCCCCCccchhhcccHh---hccchhcccccccCCCceeeecchhhhhhh
Confidence 35677 889998876654 444477888999999999999999998443
No 151
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=95.38 E-value=0.021 Score=50.33 Aligned_cols=48 Identities=21% Similarity=0.061 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+++|.+|..+... ++. ++.++..|||-|||+.+.+-+..++..++.++
T Consensus 14 ie~R~YQ~~i~a~---al~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kv 61 (542)
T COG1111 14 IEPRLYQLNIAAK---ALF--KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKV 61 (542)
T ss_pred ccHHHHHHHHHHH---Hhh--cCeEEEecCCccHHHHHHHHHHHHHHhcCCeE
Confidence 5699999996554 453 47888999999999998888888998887743
No 152
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=95.36 E-value=0.018 Score=45.86 Aligned_cols=51 Identities=14% Similarity=0.137 Sum_probs=42.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+-.|+.|.++..++.+. .++.+.|...-.|-|||. .++|+++++.+.+.++
T Consensus 22 iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTs-VI~Pmla~~LAdg~~L 72 (229)
T PF12340_consen 22 ILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTS-VIVPMLALALADGSRL 72 (229)
T ss_pred ceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccc-hHHHHHHHHHcCCCcE
Confidence 33899999999888753 467889999999999995 6889999998888764
No 153
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=95.36 E-value=0.032 Score=46.23 Aligned_cols=40 Identities=28% Similarity=0.284 Sum_probs=33.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhc--CCcEEEecCCCCCchHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~--~~~~iiEaPTGtGKTls~ 66 (115)
|||..--+|.++...+.-++-+ ..+++|+|++|+|||..+
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 7888667999999887666666 578999999999999653
No 154
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=95.32 E-value=0.02 Score=49.42 Aligned_cols=45 Identities=16% Similarity=0.155 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhc-CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~-~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|.+.+. +.+.. ++.+++.||||||||.++ .+++..+.....++
T Consensus 228 ~~~~~~l~---~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~~~~~~i 273 (486)
T TIGR02533 228 PELLSRFE---RLIRRPHGIILVTGPTGSGKTTTL-YAALSRLNTPERNI 273 (486)
T ss_pred HHHHHHHH---HHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccCCCCCcE
Confidence 55555433 34443 357889999999999775 44566665444443
No 155
>PRK08116 hypothetical protein; Validated
Probab=95.32 E-value=0.054 Score=43.09 Aligned_cols=51 Identities=16% Similarity=0.074 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHHHHHHhc-------CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDN-------SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~-------~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
|...+.|..++..+.+.+.+ +..++|.|++|||||.-+.+ +...+...+..
T Consensus 87 f~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~a-ia~~l~~~~~~ 144 (268)
T PRK08116 87 FLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAAC-IANELIEKGVP 144 (268)
T ss_pred ccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHH-HHHHHHHcCCe
Confidence 33557777666665544442 23488999999999964332 33444433443
No 156
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=95.31 E-value=0.024 Score=52.04 Aligned_cols=46 Identities=22% Similarity=0.221 Sum_probs=32.5
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..+++.||+.|.-- .+ +|.+|. |.|+.||.|||++..+|++..+..
T Consensus 75 R~~g~~~~dvQlig--~l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~ 120 (796)
T PRK12906 75 RVLGLRPFDVQIIG--GI--VLHEGN--IAEMKTGEGKTLTATLPVYLNALT 120 (796)
T ss_pred HHhCCCCchhHHHH--HH--HHhcCC--cccccCCCCCcHHHHHHHHHHHHc
Confidence 34667788888653 33 344453 889999999999988886655543
No 157
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=95.29 E-value=0.032 Score=43.77 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhc-----C--CcEEEecCCCCCchHHHH
Q psy14273 34 IQSNFMKNLYYTLDN-----S--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~-----~--~~~iiEaPTGtGKTls~L 67 (115)
+|.+..+.+..++.. + .+++|.||.|+|||....
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 566666667666652 2 469999999999996543
No 158
>PF12846 AAA_10: AAA-like domain
Probab=95.28 E-value=0.021 Score=43.34 Aligned_cols=32 Identities=19% Similarity=0.178 Sum_probs=22.7
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|+++-|+||+|||..+. .++..+...+..+
T Consensus 1 n~h~~i~G~tGsGKT~~~~-~l~~~~~~~g~~~ 32 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK-NLLEQLIRRGPRV 32 (304)
T ss_pred CCeEEEECCCCCcHHHHHH-HHHHHHHHcCCCE
Confidence 3689999999999998777 4444444555443
No 159
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.28 E-value=0.011 Score=40.22 Aligned_cols=19 Identities=21% Similarity=0.555 Sum_probs=12.4
Q ss_pred cCCcEEEecCCCCCchHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~ 66 (115)
++.++++.||+|+|||...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ----EEEEE-TTSSHHHHH
T ss_pred CCcccEEEcCCCCCHHHHH
Confidence 4578999999999999653
No 160
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=95.27 E-value=0.029 Score=46.72 Aligned_cols=32 Identities=22% Similarity=0.316 Sum_probs=23.1
Q ss_pred HHHHh-cCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 43 YYTLD-NSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 43 ~~~l~-~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.+.+. .++.++|.||||||||.++ .+++.++.
T Consensus 127 ~~~~~~~~glilI~GpTGSGKTTtL-~aLl~~i~ 159 (358)
T TIGR02524 127 IDAIAPQEGIVFITGATGSGKSTLL-AAIIRELA 159 (358)
T ss_pred HHHHhccCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 33443 5688999999999999764 55566664
No 161
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.23 E-value=0.043 Score=43.50 Aligned_cols=48 Identities=19% Similarity=0.068 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhc---C-CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLDN---S-KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~---~-~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|...+..+.+...+ + ..+++.||+|||||.-+.+ +..++...+..+
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~a-ia~~l~~~g~~v 130 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAA-ICNELLLRGKSV 130 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHH-HHHHHHhcCCeE
Confidence 5777777777766643 1 4689999999999964433 334444444443
No 162
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.21 E-value=0.025 Score=50.12 Aligned_cols=40 Identities=25% Similarity=0.219 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al~ 72 (115)
-+|....+.+.+++.++ .| .+|+||.|+|||.++.+-+-.
T Consensus 16 vGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 16 VGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999987 45 589999999999876665433
No 163
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=95.18 E-value=0.023 Score=42.29 Aligned_cols=30 Identities=23% Similarity=0.217 Sum_probs=21.3
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
....|+++.|+||+|||..+..-+..++..
T Consensus 36 ~~~~h~li~G~tgsGKS~~l~~ll~~l~~~ 65 (205)
T PF01580_consen 36 KKNPHLLIAGATGSGKSTLLRTLLLSLALT 65 (205)
T ss_dssp GGS-SEEEE--TTSSHHHHHHHHHHHHHTT
T ss_pred CCCceEEEEcCCCCCccHHHHHHHHHHHHH
Confidence 345699999999999999887766666653
No 164
>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=95.14 E-value=0.037 Score=41.22 Aligned_cols=33 Identities=18% Similarity=0.146 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.-.++++.+.++......++|+|++||||++.
T Consensus 6 ~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~l 38 (168)
T PF00158_consen 6 PAMKRLREQAKRAASSDLPVLITGETGTGKELL 38 (168)
T ss_dssp HHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHH
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHH
Confidence 455677778888888889999999999999964
No 165
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=95.13 E-value=0.011 Score=42.00 Aligned_cols=47 Identities=15% Similarity=0.280 Sum_probs=22.5
Q ss_pred CCCCHHHHHHHHHHHHHHh--cCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 29 FDAYDIQSNFMKNLYYTLD--NSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~--~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
|--|..|.+.+.....+.. .+..++|.|+.|+|||.-+ -.++..+..
T Consensus 2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll-~~~~~~~~~ 50 (185)
T PF13191_consen 2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLL-RALLDRLAE 50 (185)
T ss_dssp -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHH-HHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 3346666664444433222 2367999999999999542 223444433
No 166
>KOG0328|consensus
Probab=95.13 E-value=0.0031 Score=52.87 Aligned_cols=51 Identities=18% Similarity=0.281 Sum_probs=42.4
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
..++|+ |...|...+..| .+|..+|..|..|||||.+|-|++++-+.-..+
T Consensus 43 Y~yGfekPS~IQqrAi~~I----lkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r 94 (400)
T KOG0328|consen 43 YAYGFEKPSAIQQRAIPQI----LKGRDVIAQAQSGTGKTATFSISVLQSLDISVR 94 (400)
T ss_pred HHhccCCchHHHhhhhhhh----hcccceEEEecCCCCceEEEEeeeeeecccccc
Confidence 457888 999999977765 478899999999999999999998877765544
No 167
>PRK09183 transposase/IS protein; Provisional
Probab=95.13 E-value=0.027 Score=44.55 Aligned_cols=23 Identities=22% Similarity=0.387 Sum_probs=18.8
Q ss_pred HHhcCCcEEEecCCCCCchHHHH
Q psy14273 45 TLDNSKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTls~L 67 (115)
++.++.+++|-||+|+|||.-..
T Consensus 98 ~i~~~~~v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 98 FIERNENIVLLGPSGVGKTHLAI 120 (259)
T ss_pred chhcCCeEEEEeCCCCCHHHHHH
Confidence 36778899999999999995433
No 168
>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=95.09 E-value=0.032 Score=45.92 Aligned_cols=48 Identities=17% Similarity=0.261 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHh--cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLD--NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~--~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|++.++.|.+++. .+.++++.||-|||||.-+ =.+..++...++.+
T Consensus 4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~-~~i~~~~~~~~~~~ 53 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI-KAIIDYLRSRGKKV 53 (364)
T ss_pred HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH-HHHHHHhccccceE
Confidence 679999999988885 4467889999999999643 22345555544554
No 169
>PRK06921 hypothetical protein; Provisional
Probab=95.07 E-value=0.073 Score=42.36 Aligned_cols=21 Identities=19% Similarity=0.191 Sum_probs=16.5
Q ss_pred cCCcEEEecCCCCCchHHHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~ 68 (115)
.+..++|.||+|+|||.-+.+
T Consensus 116 ~~~~l~l~G~~G~GKThLa~a 136 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTA 136 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHH
Confidence 356799999999999964433
No 170
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.07 E-value=0.057 Score=43.11 Aligned_cols=32 Identities=22% Similarity=0.224 Sum_probs=20.8
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhh-hhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHK-IAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~-~~v 81 (115)
..++|.||||+|||.+..--+..+...++ .+|
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V 227 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKV 227 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeE
Confidence 46788999999999875544444443323 444
No 171
>PRK13764 ATPase; Provisional
Probab=95.06 E-value=0.03 Score=49.94 Aligned_cols=34 Identities=18% Similarity=0.237 Sum_probs=24.6
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..++.+++.||||||||.. +.+++.++...+..+
T Consensus 255 ~~~~~ILIsG~TGSGKTTl-l~AL~~~i~~~~riV 288 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTF-AQALAEFYADMGKIV 288 (602)
T ss_pred hcCCEEEEECCCCCCHHHH-HHHHHHHHhhCCCEE
Confidence 4567899999999999974 455666766554444
No 172
>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=95.04 E-value=0.042 Score=43.99 Aligned_cols=36 Identities=25% Similarity=0.116 Sum_probs=23.1
Q ss_pred CCHHHHHHHHHH-HHHHhcC--CcEEEecCCCCCchHHH
Q psy14273 31 AYDIQSNFMKNL-YYTLDNS--KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 31 ~r~~Q~e~m~~I-~~~l~~~--~~~iiEaPTGtGKTls~ 66 (115)
-|..|.+-+... ..++..+ ..++|.||+|||||...
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 466666543333 3333322 57999999999999664
No 173
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.02 E-value=0.034 Score=47.91 Aligned_cols=41 Identities=27% Similarity=0.284 Sum_probs=31.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCc---EEEecCCCCCchHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~---~iiEaPTGtGKTls~L~~ 69 (115)
|+-.-+|.+....+.+++.++.. .+|.||.|+|||..+.+-
T Consensus 13 ~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~l 56 (472)
T PRK14962 13 FSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARIL 56 (472)
T ss_pred HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 33335788888899999988743 689999999999765443
No 174
>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=95.01 E-value=0.031 Score=45.03 Aligned_cols=36 Identities=22% Similarity=0.213 Sum_probs=25.4
Q ss_pred HHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 38 ~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+.+.+.-++..+.++++.||||+|||..+ ..++.++
T Consensus 133 ~~~~l~~~v~~~~~ili~G~tGsGKTTll-~al~~~~ 168 (308)
T TIGR02788 133 IKEFLRLAIASRKNIIISGGTGSGKTTFL-KSLVDEI 168 (308)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCHHHHH-HHHHccC
Confidence 33445567788899999999999999643 3334444
No 175
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.99 E-value=0.033 Score=48.32 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=24.0
Q ss_pred HHHHHHHHHhcCCcEEEecCCCCCchHHH
Q psy14273 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 38 ~m~~I~~~l~~~~~~iiEaPTGtGKTls~ 66 (115)
..+.+..++..++++++.||+|||||..+
T Consensus 183 ~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 183 TIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 44566777888999999999999999654
No 176
>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=94.95 E-value=0.022 Score=43.44 Aligned_cols=30 Identities=17% Similarity=0.088 Sum_probs=19.9
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++-||||+|||.+..=-|..+... +++|
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v 32 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK-GKKV 32 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT-T--E
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc-cccc
Confidence 57889999999998855444444444 6665
No 177
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=94.93 E-value=0.038 Score=50.59 Aligned_cols=46 Identities=22% Similarity=0.211 Sum_probs=34.9
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
...++..||+.|.--+-.+ .+| -|.|+.||.|||++..+|+...+.
T Consensus 72 ~R~lg~r~ydvQlig~l~L----l~G--~VaEM~TGEGKTLvA~l~a~l~AL 117 (764)
T PRK12326 72 ERTLGLRPFDVQLLGALRL----LAG--DVIEMATGEGKTLAGAIAAAGYAL 117 (764)
T ss_pred HHHcCCCcchHHHHHHHHH----hCC--CcccccCCCCHHHHHHHHHHHHHH
Confidence 3456777899998877654 344 477999999999999999776553
No 178
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.91 E-value=0.024 Score=47.79 Aligned_cols=32 Identities=16% Similarity=0.121 Sum_probs=23.3
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.++..++|-||||+|||.+..--+..+...++
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G 166 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFG 166 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcC
Confidence 34678999999999999886655555554443
No 179
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.88 E-value=0.034 Score=48.32 Aligned_cols=40 Identities=20% Similarity=0.143 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al 71 (115)
--+|...++.+.+++.++ .| .+|.||.|+|||..+.+-+-
T Consensus 18 ivGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk 60 (509)
T PRK14958 18 VIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAK 60 (509)
T ss_pred hcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHH
Confidence 348999999999999887 34 58999999999976555433
No 180
>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=94.86 E-value=0.024 Score=42.84 Aligned_cols=37 Identities=11% Similarity=-0.017 Sum_probs=27.6
Q ss_pred HHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-+..|...+|.|++|+|||.-.+--+..++...+.++
T Consensus 9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~v 45 (242)
T cd00984 9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPV 45 (242)
T ss_pred CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCce
Confidence 4556778999999999999766656667776645554
No 181
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=94.79 E-value=0.011 Score=49.30 Aligned_cols=22 Identities=32% Similarity=0.475 Sum_probs=20.2
Q ss_pred CcEEEecCCCCCchHHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al 71 (115)
.|+++-||||+|||.++++|.+
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l 66 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL 66 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH
Confidence 4899999999999999999965
No 182
>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=94.74 E-value=0.057 Score=44.92 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=23.7
Q ss_pred HHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 38 FMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 38 ~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
....|..++..+++++++||+|+|||..
T Consensus 53 ~~~~vl~~l~~~~~ilL~G~pGtGKTtl 80 (327)
T TIGR01650 53 TTKAICAGFAYDRRVMVQGYHGTGKSTH 80 (327)
T ss_pred HHHHHHHHHhcCCcEEEEeCCCChHHHH
Confidence 4456778888899999999999999964
No 183
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=94.73 E-value=0.028 Score=42.33 Aligned_cols=26 Identities=27% Similarity=0.600 Sum_probs=19.0
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+.++|.||||+|||..+ ..++.++..
T Consensus 2 GlilI~GptGSGKTTll-~~ll~~~~~ 27 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL-AAMIDYINK 27 (198)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHHhhh
Confidence 46889999999999775 334555543
No 184
>PRK13342 recombination factor protein RarA; Reviewed
Probab=94.71 E-value=0.03 Score=46.69 Aligned_cols=36 Identities=22% Similarity=0.194 Sum_probs=27.5
Q ss_pred CHHHHHHHHH---HHHHHhcC--CcEEEecCCCCCchHHHH
Q psy14273 32 YDIQSNFMKN---LYYTLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 32 r~~Q~e~m~~---I~~~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
.-+|.+++.. +.+++.++ .+++|.||+|||||..+-
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHH
Confidence 4467777665 77888776 479999999999996543
No 185
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.69 E-value=0.049 Score=50.40 Aligned_cols=33 Identities=15% Similarity=0.248 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 39 m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
..+|..++.+++.+||.||||+|||.- +|-..+
T Consensus 55 ~~~i~~ai~~~~vvii~getGsGKTTq--lP~~ll 87 (845)
T COG1643 55 RDEILKAIEQNQVVIIVGETGSGKTTQ--LPQFLL 87 (845)
T ss_pred HHHHHHHHHhCCEEEEeCCCCCChHHH--HHHHHH
Confidence 346777889999999999999999965 564433
No 186
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.68 E-value=0.016 Score=50.05 Aligned_cols=27 Identities=22% Similarity=0.199 Sum_probs=19.6
Q ss_pred EEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 53 IFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 53 iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
++.||||+|||..|+..+...+ ..++.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l-~~g~~ 27 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVL-ALGKS 27 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHH-HcCCe
Confidence 4689999999999987754444 33444
No 187
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.67 E-value=0.046 Score=47.73 Aligned_cols=39 Identities=26% Similarity=0.166 Sum_probs=31.7
Q ss_pred CHHHHHHHHHHHHHHhcCCc---EEEecCCCCCchHHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~---~iiEaPTGtGKTls~L~~a 70 (115)
--+|...+..+..++.+++. .+|.||.|+|||..+.+-+
T Consensus 20 vVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLA 61 (484)
T PRK14956 20 VIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILA 61 (484)
T ss_pred HhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 35899999999999998853 6999999999997655443
No 188
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=94.57 E-value=0.032 Score=47.34 Aligned_cols=33 Identities=27% Similarity=0.204 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHh------------------cCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLD------------------NSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~------------------~~~~~iiEaPTGtGKTls 65 (115)
-+|.+..+.+..++. ...+++|.||||||||+.
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLL 124 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHH
Confidence 467777776654442 135799999999999965
No 189
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=94.54 E-value=0.0083 Score=49.16 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=19.2
Q ss_pred cEEEecCCCCCchHHHHHHHHH
Q psy14273 51 FGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~ 72 (115)
|+++.||||+|||.++++|.+-
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 5789999999999999988553
No 190
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.50 E-value=0.049 Score=43.82 Aligned_cols=38 Identities=21% Similarity=0.265 Sum_probs=25.8
Q ss_pred CCCHHHHHHHHHHHHHHhc----C---CcEEEecCCCCCchHHHH
Q psy14273 30 DAYDIQSNFMKNLYYTLDN----S---KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~----~---~~~iiEaPTGtGKTls~L 67 (115)
+-+-+|.+.++.+...+.. + .+++|.||+|+|||..+.
T Consensus 25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 3344666666666555542 2 579999999999997654
No 191
>KOG0951|consensus
Probab=94.49 E-value=0.053 Score=52.53 Aligned_cols=53 Identities=25% Similarity=0.251 Sum_probs=38.6
Q ss_pred ccCCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 25 ~~fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+|.+. .-++|-.+-.. ++....+++++||||+|||-..+..+|.-+..+.+.
T Consensus 303 aF~g~~sLNrIQS~v~da---Al~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~ 356 (1674)
T KOG0951|consen 303 AFFGKQSLNRIQSKVYDA---ALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLRE 356 (1674)
T ss_pred hcccchhhhHHHHHHHHH---HhcCcCcEEEeccCCCCchHHHHHHHHHHHhccccc
Confidence 344454 34566654443 455668999999999999999999999988776653
No 192
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.38 E-value=0.065 Score=46.70 Aligned_cols=39 Identities=15% Similarity=0.065 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L~~al 71 (115)
-+|..+.+.+.+++..+ ...+|.||.|+|||.++.+-+.
T Consensus 16 iGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 16 VGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence 47889999999999887 3588999999999976655443
No 193
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.37 E-value=0.07 Score=43.23 Aligned_cols=39 Identities=23% Similarity=0.154 Sum_probs=24.7
Q ss_pred CCHHHHH-HHHHHHHHHhcC--CcEEEecCCCCCchHHHHHH
Q psy14273 31 AYDIQSN-FMKNLYYTLDNS--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 31 ~r~~Q~e-~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~ 69 (115)
-|..|.+ +...+..++..+ ..++|.||+|+|||..+-.-
T Consensus 34 ~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v 75 (394)
T PRK00411 34 HREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKV 75 (394)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHH
Confidence 3555544 344444545432 57999999999999865444
No 194
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=94.35 E-value=0.038 Score=49.49 Aligned_cols=42 Identities=24% Similarity=0.374 Sum_probs=36.3
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHH
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLS 65 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls 65 (115)
.+.-+|.|---|-+.|+.+...+.+| ++-++-|-||||||++
T Consensus 6 ~l~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT 48 (663)
T COG0556 6 KLHSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFT 48 (663)
T ss_pred EeccCCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhH
Confidence 34567889889999999999999988 6778889999999987
No 195
>PRK12377 putative replication protein; Provisional
Probab=94.31 E-value=0.14 Score=40.73 Aligned_cols=48 Identities=17% Similarity=0.003 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHh---c-CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 33 DIQSNFMKNLYYTLD---N-SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~---~-~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|..++..+..... . ...++|.||+|||||.-+.+- ...+...+..+
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AI-a~~l~~~g~~v 132 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAI-GNRLLAKGRSV 132 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHH-HHHHHHcCCCe
Confidence 677766665554433 2 357899999999999643333 33444444443
No 196
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=94.31 E-value=0.036 Score=46.36 Aligned_cols=42 Identities=26% Similarity=0.235 Sum_probs=34.5
Q ss_pred cccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHH
Q psy14273 24 EFPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (115)
Q Consensus 24 ~~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls 65 (115)
...|||..--+|.++...+..++.+. ..++|.||+|||||..
T Consensus 11 ~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ 54 (350)
T CHL00081 11 RPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTT 54 (350)
T ss_pred CCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHH
Confidence 55799997789999999888777664 4688999999999954
No 197
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=94.30 E-value=0.036 Score=45.36 Aligned_cols=28 Identities=25% Similarity=0.529 Sum_probs=20.9
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.++.++|.||||+|||..+ ..++.++..
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i~~ 148 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYINK 148 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhhCc
Confidence 4678999999999999765 344555543
No 198
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.30 E-value=0.058 Score=46.86 Aligned_cols=37 Identities=22% Similarity=0.281 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhcCC--cE-EEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--FG-IFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~~-iiEaPTGtGKTls~L~~ 69 (115)
-+|.+..+.+.+++.++. |. +|.||.|+|||..+.+-
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~l 56 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLI 56 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 578888999999998874 44 99999999999876544
No 199
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.29 E-value=0.062 Score=46.78 Aligned_cols=37 Identities=19% Similarity=0.215 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
-+|...++.+.+++.+++ | .||.||.|+|||..+.+-
T Consensus 19 vGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~l 58 (527)
T PRK14969 19 VGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARIL 58 (527)
T ss_pred cCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHH
Confidence 378899999999998873 4 489999999999765544
No 200
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=94.23 E-value=0.096 Score=36.88 Aligned_cols=33 Identities=24% Similarity=0.220 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.-.++.+.+.+....+..++|.|+.||||++.
T Consensus 5 ~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 5 PAMRRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 344556666666667778999999999999964
No 201
>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=94.18 E-value=0.059 Score=45.99 Aligned_cols=34 Identities=26% Similarity=0.153 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHh-------c-------------CCcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLD-------N-------------SKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~-------~-------------~~~~iiEaPTGtGKTls~ 66 (115)
-+|.+..+.+..++. . +.+++|.||||+|||...
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLA 133 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHH
Confidence 578888777766551 1 247999999999999653
No 202
>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=94.18 E-value=0.067 Score=46.33 Aligned_cols=33 Identities=33% Similarity=0.274 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhcC----------------CcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNS----------------KFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~----------------~~~iiEaPTGtGKTls 65 (115)
-+|.+..+.+.-++.++ .++++.||||+|||..
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~l 63 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEI 63 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHH
Confidence 56778777777777653 6899999999999954
No 203
>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=94.18 E-value=0.029 Score=38.95 Aligned_cols=15 Identities=33% Similarity=0.465 Sum_probs=12.9
Q ss_pred cEEEecCCCCCchHH
Q psy14273 51 FGIFESPTGTGKSLS 65 (115)
Q Consensus 51 ~~iiEaPTGtGKTls 65 (115)
++++.||+|+|||..
T Consensus 1 ~vlL~G~~G~GKt~l 15 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTL 15 (139)
T ss_dssp EEEEEESSSSSHHHH
T ss_pred CEEEECCCCCCHHHH
Confidence 478999999999954
No 204
>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=94.18 E-value=0.076 Score=47.09 Aligned_cols=38 Identities=16% Similarity=0.120 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~ 66 (115)
++.--+|.+++..+..++.++.++++.||+|+|||...
T Consensus 17 ~~~viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la 54 (608)
T TIGR00764 17 IDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLA 54 (608)
T ss_pred HhhccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHH
Confidence 33446889999999999999999999999999999653
No 205
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=94.16 E-value=0.065 Score=47.61 Aligned_cols=41 Identities=12% Similarity=0.088 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~al~~ 73 (115)
-+|..+++.+.+++.+++ ..||.||.|+|||.+..+-+-..
T Consensus 27 iGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L 70 (598)
T PRK09111 27 IGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL 70 (598)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence 479999999999999884 48899999999998766554433
No 206
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.15 E-value=0.063 Score=47.96 Aligned_cols=42 Identities=19% Similarity=0.236 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~a 70 (115)
|+---+|..++..+.+++.++. | .||+||.|+|||..+.+-+
T Consensus 15 f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lA 59 (620)
T PRK14954 15 FADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFA 59 (620)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHH
Confidence 4433489999999999998873 3 7899999999997765543
No 207
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=94.10 E-value=0.069 Score=48.42 Aligned_cols=52 Identities=17% Similarity=0.335 Sum_probs=45.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
-..||+....|...+++|..=+.+. .+=++.|--|||||+.++++++..+..
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~ 310 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA 310 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc
Confidence 4689999999999999999888777 456789999999999999998877755
No 208
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=94.07 E-value=0.057 Score=46.94 Aligned_cols=35 Identities=26% Similarity=0.211 Sum_probs=28.3
Q ss_pred CHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~ 66 (115)
--+|...|+.+..++... .+++|.||+|||||..+
T Consensus 67 iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 67 IIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 457888888888777554 78999999999999653
No 209
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.07 E-value=0.1 Score=39.39 Aligned_cols=29 Identities=17% Similarity=0.219 Sum_probs=20.4
Q ss_pred HHHHHHHHHHh---cCCcEEEecCCCCCchHH
Q psy14273 37 NFMKNLYYTLD---NSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 37 e~m~~I~~~l~---~~~~~iiEaPTGtGKTls 65 (115)
..+..+..+.. .+..++|.||+|||||.-
T Consensus 27 ~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~L 58 (227)
T PRK08903 27 ELVARLRELAAGPVADRFFYLWGEAGSGRSHL 58 (227)
T ss_pred HHHHHHHHHHhccCCCCeEEEECCCCCCHHHH
Confidence 34555555544 346799999999999953
No 210
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.01 E-value=0.049 Score=46.25 Aligned_cols=33 Identities=21% Similarity=0.140 Sum_probs=22.2
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHH-Hhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWY-SDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l-~~~~~~v 81 (115)
+..++|-||||+|||.+...-+..+. ...+.+|
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V 254 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKV 254 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeE
Confidence 45678899999999987665554444 3334444
No 211
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.01 E-value=0.065 Score=47.02 Aligned_cols=41 Identities=20% Similarity=0.299 Sum_probs=31.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
|+-.-+|...+..+.+++.++. + .||.||.|+|||..+.+-
T Consensus 15 ~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~l 58 (585)
T PRK14950 15 FAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARIL 58 (585)
T ss_pred HHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHH
Confidence 3333578999999999998873 3 489999999999776554
No 212
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.98 E-value=0.094 Score=38.39 Aligned_cols=32 Identities=28% Similarity=0.277 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHhcC---CcEE--EecCCCCCchHH
Q psy14273 34 IQSNFMKNLYYTLDNS---KFGI--FESPTGTGKSLS 65 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~---~~~i--iEaPTGtGKTls 65 (115)
.+..++++|...+.+. +.+| +.||||||||..
T Consensus 33 a~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 33 AVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred HHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHH
Confidence 3445556666665543 3344 799999999965
No 213
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.92 E-value=0.064 Score=47.77 Aligned_cols=39 Identities=26% Similarity=0.187 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~al 71 (115)
-+|.++...+.+++..++ ..+|.||.|+|||..+.+-+-
T Consensus 19 iGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk 60 (620)
T PRK14948 19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAK 60 (620)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHH
Confidence 478888999999998874 468999999999977655433
No 214
>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=93.92 E-value=0.058 Score=36.18 Aligned_cols=14 Identities=36% Similarity=0.615 Sum_probs=12.3
Q ss_pred EEEecCCCCCchHH
Q psy14273 52 GIFESPTGTGKSLS 65 (115)
Q Consensus 52 ~iiEaPTGtGKTls 65 (115)
+++.||.|+|||..
T Consensus 1 ill~G~~G~GKT~l 14 (132)
T PF00004_consen 1 ILLHGPPGTGKTTL 14 (132)
T ss_dssp EEEESSTTSSHHHH
T ss_pred CEEECcCCCCeeHH
Confidence 57899999999965
No 215
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=93.89 E-value=0.054 Score=38.72 Aligned_cols=26 Identities=19% Similarity=0.374 Sum_probs=19.5
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+..||.||+|+|||.. +-++.|+...
T Consensus 20 g~~vi~G~Ng~GKSti--l~ai~~~L~~ 45 (202)
T PF13476_consen 20 GLNVIYGPNGSGKSTI--LEAIRYALGG 45 (202)
T ss_dssp EEEEEEESTTSSHHHH--HHHHHHHHHS
T ss_pred CcEEEECCCCCCHHHH--HHHHHHHHcC
Confidence 5678899999999954 4666777643
No 216
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.82 E-value=0.075 Score=49.75 Aligned_cols=38 Identities=21% Similarity=0.192 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--CcE-EEecCCCCCchHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KFG-IFESPTGTGKSLSLICGI 70 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~~-iiEaPTGtGKTls~L~~a 70 (115)
=+|..+++.+.+++.++ .|+ ||.||.|+|||..+.+-+
T Consensus 19 IGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLA 59 (944)
T PRK14949 19 VGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFA 59 (944)
T ss_pred cCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 38899999999999887 455 899999999997655543
No 217
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=93.78 E-value=0.088 Score=41.89 Aligned_cols=38 Identities=24% Similarity=0.253 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~ 69 (115)
.-+|.+.++.+.+++.++. ..+|.||.|+|||....+-
T Consensus 16 iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~l 56 (355)
T TIGR02397 16 VIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIF 56 (355)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3578888889999998874 3689999999999665433
No 218
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=93.76 E-value=0.034 Score=45.63 Aligned_cols=45 Identities=20% Similarity=0.335 Sum_probs=29.5
Q ss_pred ccccCC--CCCCHHHHHHHHHHHHH----HhcC--CcEEEecCCCCCchHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYYT----LDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~~----l~~~--~~~iiEaPTGtGKTls~L 67 (115)
..|.|. |.+-..|.++.+.+..- +-+| ..++..|+||||||.+.+
T Consensus 55 ~~f~Fd~vf~~~~tq~~vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~ 107 (345)
T cd01368 55 TKFSFSKVFGPNTTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQ 107 (345)
T ss_pred eEeecCeEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEec
Confidence 344444 33556787777765432 2344 457779999999999974
No 219
>PRK04195 replication factor C large subunit; Provisional
Probab=93.75 E-value=0.079 Score=45.15 Aligned_cols=34 Identities=18% Similarity=0.148 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHhc------CCcEEEecCCCCCchHHHH
Q psy14273 34 IQSNFMKNLYYTLDN------SKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~------~~~~iiEaPTGtGKTls~L 67 (115)
+|.+..+.+..++.+ ...++|.||+|+|||..+-
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ 57 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAH 57 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 445555566666543 3679999999999996543
No 220
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=93.74 E-value=0.031 Score=45.61 Aligned_cols=46 Identities=17% Similarity=0.188 Sum_probs=31.1
Q ss_pred ccccCC--CCCCHHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~L~ 68 (115)
..|.|. |.+...|.++.+.+.. .+-+| ..++..|+||||||.+.+-
T Consensus 41 ~~f~FD~vf~~~~~q~~vy~~~~~p~v~~~~~G~n~ti~aYGqTGSGKTyTm~G 94 (337)
T cd01373 41 RMFTFDHVADSNTNQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTYTMMG 94 (337)
T ss_pred cEEeCCeEeCCCCCHHHHHHHHHHHHHHHHhCCCceeEEEeCCCCCCceEEecC
Confidence 445555 4466778887776643 23344 4577799999999988754
No 221
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=93.74 E-value=0.13 Score=37.67 Aligned_cols=41 Identities=17% Similarity=0.220 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHHHHH
Q psy14273 34 IQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al~~l 74 (115)
+|.+..+.+.+.+.++ .+ .+|+||.|+||+..++.-+-..+
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHc
Confidence 4788889999999888 34 69999999999866555443333
No 222
>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=93.73 E-value=0.058 Score=41.59 Aligned_cols=37 Identities=24% Similarity=0.250 Sum_probs=26.5
Q ss_pred HHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-+..+..++|.||+|+|||.-.+--+..++..++..|
T Consensus 26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~v 62 (271)
T cd01122 26 GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRV 62 (271)
T ss_pred EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceE
Confidence 4556788999999999999765555556655545454
No 223
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=93.71 E-value=0.044 Score=44.64 Aligned_cols=44 Identities=18% Similarity=0.240 Sum_probs=29.9
Q ss_pred cccCC--CCCCHHHHHHHHHHHHH----HhcC--CcEEEecCCCCCchHHHHH
Q psy14273 24 EFPFP--FDAYDIQSNFMKNLYYT----LDNS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 24 ~~~fp--f~~r~~Q~e~m~~I~~~----l~~~--~~~iiEaPTGtGKTls~L~ 68 (115)
.|.|. |++ ..|.++.+.+..- +-+| ..++..|+||||||.+.+-
T Consensus 49 ~f~FD~vf~~-~~q~~vy~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~G 100 (334)
T cd01375 49 SFKFDGVFHN-ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTG 100 (334)
T ss_pred EEEcCcccCC-CCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCeEEccC
Confidence 34454 446 7888887765432 2344 4677899999999988754
No 224
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.70 E-value=0.097 Score=46.15 Aligned_cols=42 Identities=21% Similarity=0.207 Sum_probs=32.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~a 70 (115)
|+-.-+|...+..+.+++.+++ + .||.||.|+|||..+.+-+
T Consensus 15 f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lA 59 (546)
T PRK14957 15 FAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLA 59 (546)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 3333488999999999998864 3 6899999999997655443
No 225
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=93.68 E-value=0.12 Score=40.09 Aligned_cols=26 Identities=19% Similarity=0.271 Sum_probs=20.5
Q ss_pred CCc-EEEecCCCCCchHHHHHHHHHHH
Q psy14273 49 SKF-GIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 49 ~~~-~iiEaPTGtGKTls~L~~al~~l 74 (115)
..+ .+|.||.|+|||.++++-+-...
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALALAKELL 49 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHHHHHHh
Confidence 367 99999999999988777655444
No 226
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=93.66 E-value=0.13 Score=41.61 Aligned_cols=49 Identities=20% Similarity=0.125 Sum_probs=30.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.||+.|.-..-. |..|. |+|+.||=|||++..+|+...+.. ++.|
T Consensus 73 ~~g~~p~~vQll~~l~----L~~G~--laEm~TGEGKTli~~l~a~~~AL~-G~~V 121 (266)
T PF07517_consen 73 TLGLRPYDVQLLGALA----LHKGR--LAEMKTGEGKTLIAALPAALNALQ-GKGV 121 (266)
T ss_dssp HTS----HHHHHHHHH----HHTTS--EEEESTTSHHHHHHHHHHHHHHTT-SS-E
T ss_pred HcCCcccHHHHhhhhh----cccce--eEEecCCCCcHHHHHHHHHHHHHh-cCCc
Confidence 5677788888764432 34443 889999999999988886655543 4443
No 227
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=93.62 E-value=0.088 Score=46.07 Aligned_cols=33 Identities=15% Similarity=0.349 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhc-------CCcEEEecCCCCCchHHHHH
Q psy14273 36 SNFMKNLYYTLDN-------SKFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 36 ~e~m~~I~~~l~~-------~~~~iiEaPTGtGKTls~L~ 68 (115)
..=+++|..||.+ .+.+|+.||+|+|||.+.-+
T Consensus 25 kkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~ 64 (519)
T PF03215_consen 25 KKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKV 64 (519)
T ss_pred HHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHH
Confidence 4445678888865 24688999999999976544
No 228
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=93.61 E-value=0.073 Score=46.64 Aligned_cols=37 Identities=22% Similarity=0.273 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
|.--.+|.+.=+.+.-+...+.++++.||.|||||+.
T Consensus 178 ~~DV~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 178 FKDVKGQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred hhhhcCcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 3333678888888888887889999999999999964
No 229
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=93.60 E-value=0.032 Score=45.60 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=29.6
Q ss_pred ccccCC--CCCCHHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
..|.|. |.+...|.++.+.+.. .+-+| ..++..|+||||||.+.+
T Consensus 54 ~~f~Fd~vf~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 106 (338)
T cd01370 54 LKYSFDRVFDETSTQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTML 106 (338)
T ss_pred eEEEeccccCCCCCHHHHHHHHHHHHHHHHHCCCCceEEeeCCCCCCCeEEEc
Confidence 344444 3355668887776653 22345 457779999999999973
No 230
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=93.59 E-value=0.072 Score=38.69 Aligned_cols=28 Identities=14% Similarity=0.260 Sum_probs=24.1
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.|...+|.||+|+|||...+--+..++.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 5678999999999999988887777775
No 231
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=93.58 E-value=0.097 Score=48.19 Aligned_cols=42 Identities=24% Similarity=0.195 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al~~l 74 (115)
-+|...++.|.+++.++ .| .||+||.|+|||.+.++-+-.++
T Consensus 18 iGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 18 IGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred cCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence 47888999999999887 35 68999999999988777654443
No 232
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=93.57 E-value=0.081 Score=45.85 Aligned_cols=32 Identities=28% Similarity=0.274 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHhc----------------CCcEEEecCCCCCchH
Q psy14273 33 DIQSNFMKNLYYTLDN----------------SKFGIFESPTGTGKSL 64 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~----------------~~~~iiEaPTGtGKTl 64 (115)
-+|.+..+.+..++.+ ..++++.||||+|||.
T Consensus 18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 5788888888877754 3689999999999993
No 233
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=93.51 E-value=0.091 Score=44.41 Aligned_cols=46 Identities=11% Similarity=0.090 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhhHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAGLE 83 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~~ 83 (115)
+.|.. .+..++....++++.|+||||||.. |-+...+..... ++..
T Consensus 160 ~~~a~---~L~~av~~r~NILisGGTGSGKTTl-LNal~~~i~~~e-RvIt 205 (355)
T COG4962 160 RRAAK---FLRRAVGIRCNILISGGTGSGKTTL-LNALSGFIDSDE-RVIT 205 (355)
T ss_pred HHHHH---HHHHHHhhceeEEEeCCCCCCHHHH-HHHHHhcCCCcc-cEEE
Confidence 45555 4445566668999999999999953 444445554434 5543
No 234
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.50 E-value=0.11 Score=47.41 Aligned_cols=41 Identities=17% Similarity=0.121 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~al~~ 73 (115)
-+|....+.+.+++.+++ + .||.||.|+|||..+.+-|-..
T Consensus 18 IGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L 61 (702)
T PRK14960 18 VGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL 61 (702)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 478889999999998884 3 4999999999997765554443
No 235
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.50 E-value=0.11 Score=42.20 Aligned_cols=41 Identities=27% Similarity=0.328 Sum_probs=31.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~ 69 (115)
|+..-+|...++.+.+.+.++. +.+|.||.|+|||.....-
T Consensus 16 ~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~l 59 (367)
T PRK14970 16 FDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARIL 59 (367)
T ss_pred HHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 4434588888999999998873 6889999999999654433
No 236
>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=93.47 E-value=0.063 Score=41.86 Aligned_cols=20 Identities=30% Similarity=0.253 Sum_probs=15.9
Q ss_pred CcEEEecCCCCCchHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~ 69 (115)
.+++|.||+|||||..+-+-
T Consensus 43 ~~vll~GppGtGKTtlA~~i 62 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARIL 62 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHH
Confidence 47899999999999765333
No 237
>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=93.46 E-value=0.17 Score=45.62 Aligned_cols=47 Identities=17% Similarity=0.140 Sum_probs=33.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
+++...+.|.+.++.+ .+++..++.|+.|||||..+ ..++..+...+
T Consensus 320 ~~~~l~~~Q~~Ai~~~----~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~ 366 (720)
T TIGR01448 320 LRKGLSEEQKQALDTA----IQHKVVILTGGPGTGKTTIT-RAIIELAEELG 366 (720)
T ss_pred cCCCCCHHHHHHHHHH----HhCCeEEEECCCCCCHHHHH-HHHHHHHHHcC
Confidence 4566779999977765 35679999999999999643 34444444443
No 238
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.43 E-value=0.13 Score=40.44 Aligned_cols=33 Identities=12% Similarity=0.194 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHhcCC--cEEE-ecCCCCCchHHH
Q psy14273 34 IQSNFMKNLYYTLDNSK--FGIF-ESPTGTGKSLSL 66 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~~--~~ii-EaPTGtGKTls~ 66 (115)
+|.+....+..++.++. ++++ .||+|+|||...
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 67777778888887773 4554 999999999654
No 239
>KOG0947|consensus
Probab=93.43 E-value=0.14 Score=48.64 Aligned_cols=59 Identities=14% Similarity=0.166 Sum_probs=47.2
Q ss_pred CCCCCccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 18 LAEVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 18 ~~~~~~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.++...+.|||++-.-|++.+- +|..|..+++-|+|-+|||+.+=++ ++.++.|..+.
T Consensus 285 ~lVpe~a~~~pFelD~FQk~Ai~----~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h~TR~ 343 (1248)
T KOG0947|consen 285 QLVPEMALIYPFELDTFQKEAIY----HLERGDSVFVAAHTSAGKTVVAEYA-IALAQKHMTRT 343 (1248)
T ss_pred HhchhHHhhCCCCccHHHHHHHH----HHHcCCeEEEEecCCCCcchHHHHH-HHHHHhhccce
Confidence 35666788999999999999655 5688999999999999999987665 56666666554
No 240
>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=93.40 E-value=0.2 Score=38.12 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHH---------hcCCcEEEecCCCCCchHHHHHHHH
Q psy14273 34 IQSNFMKNLYYTL---------DNSKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 34 ~Q~e~m~~I~~~l---------~~~~~~iiEaPTGtGKTls~L~~al 71 (115)
.|.+.+.-+.... .....+|+....|+|||+..+.-+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~ 47 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALIS 47 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhh
Confidence 4777777777666 4557799999999999988776654
No 241
>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=93.40 E-value=0.14 Score=42.27 Aligned_cols=37 Identities=16% Similarity=0.178 Sum_probs=25.4
Q ss_pred HHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 39 m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+.+..++..+.++++.|+||+|||.. |..++.++..
T Consensus 168 ~~~L~~~v~~~~~ili~G~tGsGKTTl-l~al~~~i~~ 204 (340)
T TIGR03819 168 ARLLRAIVAARLAFLISGGTGSGKTTL-LSALLALVAP 204 (340)
T ss_pred HHHHHHHHhCCCeEEEECCCCCCHHHH-HHHHHccCCC
Confidence 344555677789999999999999853 3334445443
No 242
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=93.39 E-value=0.21 Score=43.46 Aligned_cols=36 Identities=22% Similarity=0.127 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~ 68 (115)
..+...+..+..++.++.++|+-||+|||||..+..
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~ 228 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNN 228 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHH
Confidence 455555566667888999999999999999955443
No 243
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=93.34 E-value=0.12 Score=46.42 Aligned_cols=39 Identities=18% Similarity=0.152 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L 67 (115)
++...+|.+.+..+..++.++.++++.+|+|+|||...-
T Consensus 30 ~~~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~ 68 (637)
T PRK13765 30 IDQVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAK 68 (637)
T ss_pred HHHcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHH
Confidence 445578999999999999999999999999999996543
No 244
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.31 E-value=0.13 Score=44.08 Aligned_cols=33 Identities=21% Similarity=0.228 Sum_probs=22.6
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHH-Hhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWY-SDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l-~~~~~~v 81 (115)
++.+++-||||.|||.++-=-|..|. ....++|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kV 236 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKV 236 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcce
Confidence 67889999999999877544444454 3444444
No 245
>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=93.30 E-value=0.1 Score=37.54 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=19.0
Q ss_pred EEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 52 GIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 52 ~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.++.||+|+|||.-.+--+...+ ..+.++
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~~g~~v 30 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-ARGEPG 30 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HCCCcE
Confidence 68899999999975444344444 344443
No 246
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=93.30 E-value=0.05 Score=43.94 Aligned_cols=45 Identities=16% Similarity=0.231 Sum_probs=29.3
Q ss_pred ccccCC--CCCCHHHHHHHHHHH----HHHhcC--CcEEEecCCCCCchHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~----~~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
..|.|. |.+...|.++.+.+. ..+-+| ..++..|+||||||.+++
T Consensus 47 ~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~ 99 (319)
T cd01376 47 KKYQFDAFYGTECTQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTML 99 (319)
T ss_pred cEEecCeEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEEECCCCCCCcEEEe
Confidence 344455 446677888777632 223345 346678999999999873
No 247
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=93.28 E-value=0.12 Score=44.18 Aligned_cols=42 Identities=21% Similarity=0.107 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~a 70 (115)
|+-.-+|...+..+.+++..+. ..+|.||.|+|||..+.+-+
T Consensus 16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lA 60 (451)
T PRK06305 16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFA 60 (451)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHH
Confidence 4434588999999999998873 36899999999997655543
No 248
>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=93.25 E-value=0.11 Score=35.44 Aligned_cols=23 Identities=26% Similarity=0.291 Sum_probs=16.4
Q ss_pred cEEEecCCCCCchHHHHHHHHHH
Q psy14273 51 FGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~ 73 (115)
+++|.||+|+|||.-...-+...
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~ 23 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNI 23 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHH
Confidence 36789999999997654443333
No 249
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=93.24 E-value=0.1 Score=46.92 Aligned_cols=32 Identities=28% Similarity=0.351 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHH
Q psy14273 34 IQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLS 65 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls 65 (115)
+|.+.++.|.+++... ...+|.||||+|||..
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~l 500 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTEL 500 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHH
Confidence 6777778777777631 2468999999999954
No 250
>PRK08727 hypothetical protein; Validated
Probab=93.23 E-value=0.19 Score=38.77 Aligned_cols=16 Identities=31% Similarity=0.547 Sum_probs=13.6
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
..+++.||+|+|||.-
T Consensus 42 ~~l~l~G~~G~GKThL 57 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL 57 (233)
T ss_pred CeEEEECCCCCCHHHH
Confidence 4589999999999953
No 251
>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=93.21 E-value=0.17 Score=45.77 Aligned_cols=50 Identities=12% Similarity=0.147 Sum_probs=34.6
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
++...+.|.+.+..+ +..++..+|.|+.|||||.. +-.++..+...+.+|
T Consensus 350 ~~~Ls~~Q~~Av~~i---~~s~~~~il~G~aGTGKTtl-l~~i~~~~~~~g~~V 399 (744)
T TIGR02768 350 HYRLSEEQYEAVRHV---TGSGDIAVVVGRAGTGKSTM-LKAAREAWEAAGYRV 399 (744)
T ss_pred cCCCCHHHHHHHHHH---hcCCCEEEEEecCCCCHHHH-HHHHHHHHHhCCCeE
Confidence 455679999977665 44467899999999999864 344455555545544
No 252
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.19 E-value=0.082 Score=45.03 Aligned_cols=25 Identities=28% Similarity=0.397 Sum_probs=18.0
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.++++-||||||||| |+-.|+-+..
T Consensus 98 SNILLiGPTGsGKTl--LAqTLAk~Ln 122 (408)
T COG1219 98 SNILLIGPTGSGKTL--LAQTLAKILN 122 (408)
T ss_pred ccEEEECCCCCcHHH--HHHHHHHHhC
Confidence 578999999999995 4444544433
No 253
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=93.17 E-value=0.037 Score=49.82 Aligned_cols=23 Identities=22% Similarity=0.431 Sum_probs=20.6
Q ss_pred CCcEEEecCCCCCchHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al 71 (115)
..|+++-||||+|||.++++|.+
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnL 161 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTL 161 (670)
T ss_pred CceEEEEecCCCCceeeehHhHH
Confidence 46899999999999999999954
No 254
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=93.15 E-value=0.13 Score=46.99 Aligned_cols=39 Identities=21% Similarity=0.166 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~al 71 (115)
-+|..+++.+.+++.+++ + +||.||.|+|||....+-+-
T Consensus 19 IGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk 60 (709)
T PRK08691 19 VGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAK 60 (709)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHH
Confidence 579999999999998874 3 69999999999976655433
No 255
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.15 E-value=0.12 Score=46.20 Aligned_cols=42 Identities=19% Similarity=0.212 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~a 70 (115)
|+-.-+|..+++.+.+++.+++ | .+|.||.|+|||....+-+
T Consensus 15 f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lA 59 (618)
T PRK14951 15 FSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILA 59 (618)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 4433479999999999998873 4 4899999999997765543
No 256
>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=93.13 E-value=0.098 Score=41.82 Aligned_cols=17 Identities=29% Similarity=0.313 Sum_probs=14.6
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
.+++|.||+|||||..+
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999754
No 257
>KOG0341|consensus
Probab=93.07 E-value=0.015 Score=50.65 Aligned_cols=47 Identities=17% Similarity=0.139 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
|.|.|.+-+..+ .+|...|--|-||||||+.|.+|.+-++.+....+
T Consensus 193 PTpIQvQGlPvv----LsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~l 239 (610)
T KOG0341|consen 193 PTPIQVQGLPVV----LSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMML 239 (610)
T ss_pred CCceeecCcceE----eecCceeeEEeecCCceEEEeHHHHHHHHHHHhcC
Confidence 455555555543 35677888899999999999999988877655443
No 258
>PF05729 NACHT: NACHT domain
Probab=93.04 E-value=0.13 Score=35.49 Aligned_cols=26 Identities=19% Similarity=0.070 Sum_probs=17.6
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.++|.|+.|+|||..+---+..|...
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~ 27 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEE 27 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhc
Confidence 57899999999997543333344433
No 259
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=93.04 E-value=0.032 Score=49.66 Aligned_cols=25 Identities=24% Similarity=0.491 Sum_probs=21.7
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
..|+++-||||+|||.++++|.+..
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~ 182 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLF 182 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHh
Confidence 4689999999999999999996543
No 260
>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=93.03 E-value=0.1 Score=47.74 Aligned_cols=34 Identities=24% Similarity=0.196 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls~ 66 (115)
-+|.+.|+.|.+++... ...+|.||||+|||..+
T Consensus 568 ~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA 612 (852)
T TIGR03346 568 VGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELA 612 (852)
T ss_pred CCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHH
Confidence 57888888888888652 24789999999999653
No 261
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.03 E-value=0.24 Score=41.96 Aligned_cols=25 Identities=24% Similarity=0.283 Sum_probs=18.8
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..+++-||||+|||.+..--|..+.
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH
Confidence 5688999999999988654444444
No 262
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=93.00 E-value=0.094 Score=42.04 Aligned_cols=44 Identities=11% Similarity=0.045 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.+.........+.|.||+|+|||.- +.....++...+.++
T Consensus 22 ~~~~~~~~~~~~~~~i~i~G~~G~GKttl-~~~l~~~~~~~~~~v 65 (300)
T TIGR00750 22 QLLDRIMPYTGNAHRVGITGTPGAGKSTL-LEALGMELRRRGLKV 65 (300)
T ss_pred HHHHhCCcccCCceEEEEECCCCCCHHHH-HHHHHHHHHHCCCeE
Confidence 34555544444567788899999999953 333344444444444
No 263
>KOG0243|consensus
Probab=93.00 E-value=0.091 Score=49.60 Aligned_cols=42 Identities=21% Similarity=0.240 Sum_probs=28.3
Q ss_pred ccCCCC----CCHHHHHHHHHHHHHHh----cC--CcEEEecCCCCCchHHH
Q psy14273 25 FPFPFD----AYDIQSNFMKNLYYTLD----NS--KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 25 ~~fpf~----~r~~Q~e~m~~I~~~l~----~~--~~~iiEaPTGtGKTls~ 66 (115)
..|+|+ |-..|.++.+.+..-+- .| .-++..|+||||||.+.
T Consensus 95 k~ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIFAYGQTGTGKTyTM 146 (1041)
T KOG0243|consen 95 KTFTFDKVFGPESQQEDLYDQAVSPIIKEVLEGYNCTIFAYGQTGTGKTYTM 146 (1041)
T ss_pred ceeecceeeCcchhHHHHHHHHHHHHHHHHhccCCceEEEecCCCCCceeee
Confidence 335555 66778877766544332 34 45778999999999874
No 264
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=92.98 E-value=0.13 Score=46.97 Aligned_cols=34 Identities=24% Similarity=0.208 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHhc--------C---CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDN--------S---KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~--------~---~~~iiEaPTGtGKTls~ 66 (115)
-+|.+.++.|..++.. + ..++|.||||+|||...
T Consensus 461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 3678888888888762 1 35789999999999654
No 265
>PRK06620 hypothetical protein; Validated
Probab=92.97 E-value=0.21 Score=38.35 Aligned_cols=34 Identities=9% Similarity=0.025 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHhc-C-----CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDN-S-----KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~-~-----~~~iiEaPTGtGKTls~ 66 (115)
+........+.++... + ..++|.||+|+|||.-+
T Consensus 22 ~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl 61 (214)
T PRK06620 22 SSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLT 61 (214)
T ss_pred ccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHH
Confidence 4344455666655542 1 44899999999999643
No 266
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.96 E-value=0.14 Score=44.99 Aligned_cols=41 Identities=20% Similarity=0.281 Sum_probs=32.4
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
|+---+|.+..+.+.+++.+++ | .||.||.|+|||....+-
T Consensus 15 f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~l 58 (576)
T PRK14965 15 FSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARIL 58 (576)
T ss_pred HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 4433588999999999998873 4 489999999999876554
No 267
>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=92.94 E-value=0.098 Score=39.45 Aligned_cols=34 Identities=12% Similarity=0.144 Sum_probs=21.3
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+..+++.||+|||||+=.+--+...+...+.++
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~v 51 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKV 51 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--E
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcE
Confidence 3568999999999999654433444444424443
No 268
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.94 E-value=0.15 Score=44.80 Aligned_cols=45 Identities=22% Similarity=0.241 Sum_probs=33.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al~~ 73 (115)
|+---+|.+..+.+.+++.++ .| .+|.||.|+|||..+-+-+-.+
T Consensus 15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal 62 (559)
T PRK05563 15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAV 62 (559)
T ss_pred HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 333358999999999999877 34 6789999999997765554443
No 269
>PRK10865 protein disaggregation chaperone; Provisional
Probab=92.90 E-value=0.098 Score=48.06 Aligned_cols=36 Identities=22% Similarity=0.176 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls~L~ 68 (115)
-+|...|..|..++... ..++|.||||+|||..+-+
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~a 617 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKA 617 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHH
Confidence 47888888888887632 2578999999999976533
No 270
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=92.90 E-value=0.18 Score=41.07 Aligned_cols=42 Identities=17% Similarity=0.137 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.-+...++.+.+.++...+..++|.|.+||||++. +-++...
T Consensus 11 ~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~l--A~~iH~~ 52 (326)
T PRK11608 11 EANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELI--ASRLHYL 52 (326)
T ss_pred CCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHH--HHHHHHh
Confidence 34667778888888888889999999999999954 4444433
No 271
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=92.89 E-value=0.17 Score=45.63 Aligned_cols=38 Identities=21% Similarity=0.195 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHhcCCc---EEEecCCCCCchHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~---~iiEaPTGtGKTls~L~~a 70 (115)
-+|...+..+.+++.+++. .||.||.|+|||....+-+
T Consensus 19 vGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lA 59 (647)
T PRK07994 19 VGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLA 59 (647)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 4899999999999998853 5899999999997655443
No 272
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=92.88 E-value=0.12 Score=45.78 Aligned_cols=39 Identities=26% Similarity=0.272 Sum_probs=31.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls 65 (115)
|||..--+|..+...+..++.+. ..++|.|+.|||||..
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHH
Confidence 78886678888888887777653 4699999999999965
No 273
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=92.83 E-value=0.16 Score=32.75 Aligned_cols=29 Identities=17% Similarity=0.290 Sum_probs=21.1
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
+...+|.+|+|+|||. |+=|++|+.--..
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L~~~~ 51 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVLYGNT 51 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHHcCCc
Confidence 3478999999999995 4666777655433
No 274
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=92.83 E-value=0.14 Score=45.84 Aligned_cols=44 Identities=25% Similarity=0.132 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--C-cEEEecCCCCCchHHHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--K-FGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~-~~iiEaPTGtGKTls~L~~al~ 72 (115)
|+-.-+|...++.+.+++.++ . ..+|.||.|+|||..+.+-+-.
T Consensus 15 F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 15 FKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 333348888999999999776 3 3779999999999776655433
No 275
>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=92.80 E-value=0.25 Score=37.96 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=18.5
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.++|.||+|+|||- +|.++...+..
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~ 60 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQK 60 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHh
Confidence 48999999999998 55555554444
No 276
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=92.75 E-value=0.14 Score=47.85 Aligned_cols=42 Identities=26% Similarity=0.245 Sum_probs=28.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.+..||++|.- -.+ +|. .--|.|+.||.|||+++.+|++..+
T Consensus 79 lGm~~ydVQli--Gg~--~Lh--~G~iaEM~TGEGKTLvA~l~a~l~a 120 (913)
T PRK13103 79 MGMRHFDVQLI--GGM--TLH--EGKIAEMRTGEGKTLVGTLAVYLNA 120 (913)
T ss_pred hCCCcchhHHH--hhh--Hhc--cCccccccCCCCChHHHHHHHHHHH
Confidence 35567788764 222 232 3367799999999999988876444
No 277
>CHL00095 clpC Clp protease ATP binding subunit
Probab=92.70 E-value=0.12 Score=47.00 Aligned_cols=33 Identities=21% Similarity=0.209 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls 65 (115)
-+|.+.++.|.+++... ...+|.||||+|||..
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~l 555 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTEL 555 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHH
Confidence 48999999998888632 1368999999999954
No 278
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=92.69 E-value=0.13 Score=47.57 Aligned_cols=37 Identities=22% Similarity=0.210 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
=+|.++++.+.+++.+++ | .||.||.|+|||....+-
T Consensus 19 IGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriL 58 (830)
T PRK07003 19 VGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIF 58 (830)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 479999999999998873 4 589999999999765543
No 279
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.69 E-value=0.16 Score=46.22 Aligned_cols=39 Identities=18% Similarity=0.165 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~al 71 (115)
=+|.++++.+.+++.+++ | .||.||.|+|||....+-+-
T Consensus 19 IGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAk 60 (700)
T PRK12323 19 VGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAK 60 (700)
T ss_pred cCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHH
Confidence 479999999999999884 4 58999999999976555433
No 280
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=92.68 E-value=0.052 Score=44.00 Aligned_cols=37 Identities=11% Similarity=0.123 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHH----HHHHhcC--CcEEEecCCCCCchHHHH
Q psy14273 31 AYDIQSNFMKNL----YYTLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 31 ~r~~Q~e~m~~I----~~~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
+..-|.++.+.+ ...+-+| ..++..|+||||||.+..
T Consensus 61 ~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 61 EAVTNEEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCceEEEeccCCCCCCceEec
Confidence 555677777763 3333345 456679999999999875
No 281
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=92.66 E-value=0.072 Score=38.46 Aligned_cols=16 Identities=31% Similarity=0.561 Sum_probs=13.9
Q ss_pred CCcEEEecCCCCCchH
Q psy14273 49 SKFGIFESPTGTGKSL 64 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTl 64 (115)
|+.++|.||+|+|||.
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 4578999999999995
No 282
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.58 E-value=0.18 Score=43.68 Aligned_cols=37 Identities=24% Similarity=0.178 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~ 69 (115)
-+|...+..+.+++.++. + .+|.||.|+|||....+-
T Consensus 19 iGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~l 58 (486)
T PRK14953 19 IGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARIL 58 (486)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 489999999999998873 4 478999999998765544
No 283
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=92.58 E-value=0.16 Score=46.12 Aligned_cols=36 Identities=19% Similarity=0.190 Sum_probs=26.6
Q ss_pred CHHHHHHHH---HHHHHHhcC--CcEEEecCCCCCchHHHH
Q psy14273 32 YDIQSNFMK---NLYYTLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 32 r~~Q~e~m~---~I~~~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
.-+|...+. .+.+.+.++ .+++|.||+|||||..+-
T Consensus 30 ~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~ 70 (725)
T PRK13341 30 FVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLAR 70 (725)
T ss_pred hcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 357777773 566667665 579999999999996543
No 284
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=92.57 E-value=0.055 Score=44.37 Aligned_cols=35 Identities=20% Similarity=0.195 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHHH
Q psy14273 33 DIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 33 ~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
--|.++.+.+.. .+-+| ..++..|+||||||.+++
T Consensus 67 ~tq~~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~ 107 (356)
T cd01365 67 ASQEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMM 107 (356)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEec
Confidence 458887766533 33345 457779999999999875
No 285
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=92.56 E-value=0.28 Score=40.37 Aligned_cols=43 Identities=16% Similarity=0.093 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~al~~ 73 (115)
.||-|....+.+.+.+.+++ | .+|.||.|+||+..++.-+-..
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~L 50 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHV 50 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHH
Confidence 78899999999999998874 4 7899999999987655543333
No 286
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=92.51 E-value=0.3 Score=39.65 Aligned_cols=49 Identities=14% Similarity=0.153 Sum_probs=33.4
Q ss_pred CHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 32 YDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
|+.=.++++.+.++-.+. ...|+.|+.|||||.++ +-++.|+..++=-|
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L-~q~~~~A~~~~wiV 54 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLL-AQAVHYARENGWIV 54 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHH-HHHHHHHHhCCEEE
Confidence 444456666666663333 56899999999999864 45578887765444
No 287
>KOG0349|consensus
Probab=92.49 E-value=0.04 Score=48.73 Aligned_cols=43 Identities=19% Similarity=0.198 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
|.++|.+.|..| ..|..+++-|-||||||=++.+|+++-..+.
T Consensus 25 ptdvqaeaipli----lgggdvlmaaetgsgktgaf~lpilqiv~et 67 (725)
T KOG0349|consen 25 PTDVQAEAIPLI----LGGGDVLMAAETGSGKTGAFCLPILQIVWET 67 (725)
T ss_pred ccccccccccEE----ecCCcEEEEeccCCCCccceehhhHHHHHHH
Confidence 678899988865 4678999999999999999999999876553
No 288
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.43 E-value=0.25 Score=43.97 Aligned_cols=30 Identities=20% Similarity=0.313 Sum_probs=20.7
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
+..++.++|.||||+|||.....-+..+..
T Consensus 347 l~~G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 445678889999999999765443333333
No 289
>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=92.39 E-value=0.089 Score=35.09 Aligned_cols=14 Identities=21% Similarity=0.154 Sum_probs=11.9
Q ss_pred EEEecCCCCCchHH
Q psy14273 52 GIFESPTGTGKSLS 65 (115)
Q Consensus 52 ~iiEaPTGtGKTls 65 (115)
++|.|++|||||..
T Consensus 1 I~i~G~~GsGKtTi 14 (129)
T PF13238_consen 1 IGISGIPGSGKTTI 14 (129)
T ss_dssp EEEEESTTSSHHHH
T ss_pred CEEECCCCCCHHHH
Confidence 57899999999953
No 290
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=92.37 E-value=0.051 Score=48.91 Aligned_cols=25 Identities=24% Similarity=0.369 Sum_probs=21.8
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
...|+++-||||+|||.++++|.|.
T Consensus 143 g~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 143 GPEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CCceEEEEecCCCCcceeEehhhHH
Confidence 3479999999999999999999653
No 291
>CHL00181 cbbX CbbX; Provisional
Probab=92.35 E-value=0.12 Score=41.51 Aligned_cols=20 Identities=25% Similarity=0.230 Sum_probs=16.1
Q ss_pred CcEEEecCCCCCchHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~ 69 (115)
.+++|.||+|||||..+-+-
T Consensus 60 ~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 46899999999999765444
No 292
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=92.33 E-value=0.033 Score=49.68 Aligned_cols=24 Identities=25% Similarity=0.376 Sum_probs=21.2
Q ss_pred CCcEEEecCCCCCchHHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILK 72 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~ 72 (115)
..|+++.||||+|||.++++|.|.
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnLL 198 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTLL 198 (636)
T ss_pred CceEEEEecCCCCCceEEEccchh
Confidence 368999999999999999999653
No 293
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=92.31 E-value=0.084 Score=42.55 Aligned_cols=38 Identities=13% Similarity=0.141 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHHHHHHh---cC--CcEEEecCCCCCchHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLD---NS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~---~~--~~~iiEaPTGtGKTls~L~ 68 (115)
+...|.++.+.|...+. +| ..++..|+||||||.+++-
T Consensus 55 ~~~~q~~v~~~v~p~v~~~~~G~~~~i~ayG~tgSGKT~tl~G 97 (329)
T cd01366 55 PDASQEDVFEEVSPLVQSALDGYNVCIFAYGQTGSGKTYTMEG 97 (329)
T ss_pred CCCCHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCcEEecC
Confidence 44456666555544333 34 3567799999999998744
No 294
>KOG1802|consensus
Probab=92.29 E-value=0.13 Score=47.37 Aligned_cols=48 Identities=23% Similarity=0.285 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhhH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAGL 82 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~ 82 (115)
.-..|....+.| .+...-+|.||.|||||++--.-+...+..+..+|+
T Consensus 411 LN~SQ~~AV~~V----L~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VL 458 (935)
T KOG1802|consen 411 LNASQSNAVKHV----LQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVL 458 (935)
T ss_pred hchHHHHHHHHH----HcCCceeeecCCCCCceehhHHHHHHHHHhcCCceE
Confidence 446777755543 467789999999999999854445555666666653
No 295
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=92.28 E-value=0.099 Score=45.99 Aligned_cols=36 Identities=25% Similarity=0.250 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHH---HHhcCCcEEEecCCCCCchHH
Q psy14273 30 DAYDIQSNFMKNLYY---TLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~---~l~~~~~~iiEaPTGtGKTls 65 (115)
--|++|.++...+.. .+..|..+++.||.|+|||.-
T Consensus 10 i~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTL 48 (504)
T TIGR03238 10 VKRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEI 48 (504)
T ss_pred echHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHH
Confidence 367999998777654 245688999999999999953
No 296
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=92.27 E-value=0.28 Score=46.23 Aligned_cols=49 Identities=16% Similarity=0.159 Sum_probs=35.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+...+.|.+.+..| +..+..++|.|+.|||||.. |-.++..+...+.+|
T Consensus 345 ~~Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~G~~V 393 (988)
T PRK13889 345 LVLSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEAAGYEV 393 (988)
T ss_pred CCCCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHcCCeE
Confidence 45678999976654 45456889999999999975 455555555555554
No 297
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=92.26 E-value=0.13 Score=45.41 Aligned_cols=32 Identities=25% Similarity=0.483 Sum_probs=24.4
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+|+++.|+||||||. ++-..+.++..++.++
T Consensus 176 ~~h~li~G~tGsGKs~-~i~~ll~~~~~~g~~~ 207 (566)
T TIGR02759 176 TQHILIHGTTGSGKSV-AIRKLLRWIRQRGDRA 207 (566)
T ss_pred ccceEEEcCCCCCHHH-HHHHHHHHHHhcCCeE
Confidence 4689999999999996 4455778876666554
No 298
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=92.25 E-value=0.082 Score=42.81 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=29.7
Q ss_pred ccccCC--CCCCHHHHHHHHHHHHH----HhcC--CcEEEecCCCCCchHHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYYT----LDNS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~~----l~~~--~~~iiEaPTGtGKTls~L~ 68 (115)
..|.|. |.+-..|.++.+.+..- +-+| ..++..|+||||||.++.-
T Consensus 40 ~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKT~Tm~G 93 (341)
T cd01372 40 KSFTFDYVFDPSTSQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGSGKTYTMGT 93 (341)
T ss_pred cEEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCcEEecC
Confidence 445555 33546677776665532 2344 4577899999999999643
No 299
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=92.24 E-value=0.069 Score=43.04 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=28.0
Q ss_pred ccccCC--CCCCHHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~ 66 (115)
..|.|. |.+-.-|.++.+.+.. .+-.| ..++..|+||||||.++
T Consensus 43 ~~f~FD~vf~~~~~q~~vy~~~~~~~v~~~~~G~n~~i~ayG~tgSGKT~Tm 94 (325)
T cd01369 43 KTFSFDRVFPPNTTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTM 94 (325)
T ss_pred eEEEcCeEECCCCCHHHHHHHHHHHHHHHHHcCccceEEEeCCCCCCceEEe
Confidence 344444 3355567777666532 22344 45778999999999985
No 300
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=92.24 E-value=0.23 Score=40.60 Aligned_cols=39 Identities=15% Similarity=0.171 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
+.-.++.+.+.++...+..++|.|++||||++. +-++..
T Consensus 6 ~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~l--Ar~iH~ 44 (329)
T TIGR02974 6 NAFLEVLEQVSRLAPLDRPVLIIGERGTGKELI--AARLHY 44 (329)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCChHHHH--HHHHHH
Confidence 445566777777777788999999999999963 444443
No 301
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=92.22 E-value=0.14 Score=42.83 Aligned_cols=31 Identities=23% Similarity=0.214 Sum_probs=22.5
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.+|+++-|+||+|||.. +-.++.++...+..
T Consensus 42 ~~h~~i~g~tGsGKt~~-i~~l~~~~~~~~~~ 72 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQ-IRELLASIRARGDR 72 (410)
T ss_pred hccEEEEcCCCCCHHHH-HHHHHHHHHhcCCC
Confidence 46899999999999975 44456666555544
No 302
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=92.21 E-value=0.21 Score=42.88 Aligned_cols=35 Identities=14% Similarity=0.167 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
.-+.-.++++.+.++...+..++|.|++||||++.
T Consensus 201 ~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 201 KSPAMRQVVDQARVVARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred CCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHH
Confidence 44666677777777777788999999999999964
No 303
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=92.17 E-value=0.12 Score=37.55 Aligned_cols=35 Identities=20% Similarity=0.366 Sum_probs=23.6
Q ss_pred HHHHHHHHhcC--CcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 39 MKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 39 m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
++.|.+++.++ .++++.||.|+|||. +|--++..+
T Consensus 8 l~~l~~~l~~~~~~~~~l~G~rg~GKTs-Ll~~~~~~~ 44 (234)
T PF01637_consen 8 LEKLKELLESGPSQHILLYGPRGSGKTS-LLKEFINEL 44 (234)
T ss_dssp HHHHHHCHHH--SSEEEEEESTTSSHHH-HHHHHHHHC
T ss_pred HHHHHHHHHhhcCcEEEEEcCCcCCHHH-HHHHHHHHh
Confidence 34556666664 789999999999996 333444444
No 304
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=92.16 E-value=0.22 Score=44.26 Aligned_cols=41 Identities=17% Similarity=0.181 Sum_probs=29.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
..+.-..+.+.+..+...+..++|.|++|||||+. +-++..
T Consensus 381 ~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~l--A~~ih~ 421 (686)
T PRK15429 381 RSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELI--ARAIHN 421 (686)
T ss_pred cCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHH--HHHHHH
Confidence 34556666666776667778999999999999963 444443
No 305
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=92.13 E-value=0.31 Score=44.63 Aligned_cols=49 Identities=16% Similarity=0.135 Sum_probs=38.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
.-+.|....+.|...+......++.+.||+|||-.||-.+-..+.+ ++.
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~-Gkq 247 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ-GKQ 247 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHc-CCE
Confidence 4589999999888777333678899999999999998887666655 444
No 306
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=92.12 E-value=0.27 Score=42.29 Aligned_cols=50 Identities=14% Similarity=-0.028 Sum_probs=44.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..++|......+...++++...++-|-||+|||=. +..++.++...+.+|
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~G~~v 147 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQGGRV 147 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhcCCeE
Confidence 56899999999999999999999999999999975 567788888887775
No 307
>KOG1805|consensus
Probab=92.11 E-value=0.13 Score=48.57 Aligned_cols=46 Identities=22% Similarity=0.247 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhhH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAGL 82 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~ 82 (115)
..|++ ++.+++......+|.|-+|||||.+ ++.++.-+...+++|+
T Consensus 672 ~dQr~---A~~k~L~aedy~LI~GMPGTGKTTt-I~~LIkiL~~~gkkVL 717 (1100)
T KOG1805|consen 672 NDQRQ---ALLKALAAEDYALILGMPGTGKTTT-ISLLIKILVALGKKVL 717 (1100)
T ss_pred HHHHH---HHHHHHhccchheeecCCCCCchhh-HHHHHHHHHHcCCeEE
Confidence 57888 5566788888999999999999965 5666777778888874
No 308
>KOG0922|consensus
Probab=92.04 E-value=0.16 Score=46.00 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
++.+.|..++.+++.+|+-|.||+|||.=
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQ 82 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKSTQ 82 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCcccc
Confidence 45677888889999999999999999954
No 309
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=92.03 E-value=0.079 Score=43.24 Aligned_cols=46 Identities=17% Similarity=0.143 Sum_probs=29.5
Q ss_pred ccccCC--CCCCHHHHHHHHHHHHH----HhcCC--cEEEecCCCCCchHHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYYT----LDNSK--FGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~~----l~~~~--~~iiEaPTGtGKTls~L~ 68 (115)
..|.|. |.+-..|.++.+.+..- +-+|. .++..|+||||||.++.-
T Consensus 48 ~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTl~G 101 (352)
T cd01364 48 KTYTFDKVFGPEADQIEVYSQVVSPILDEVLMGYNCTIFAYGQTGTGKTYTMEG 101 (352)
T ss_pred eeEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEECCCCCCCCcEEecC
Confidence 345555 44556787777665433 23453 466789999999988643
No 310
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=91.98 E-value=0.12 Score=42.37 Aligned_cols=24 Identities=25% Similarity=0.337 Sum_probs=17.8
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
++.++|.||||||||.- ++.+++.
T Consensus 4 ~~ii~I~GpTasGKS~L----Al~LA~~ 27 (300)
T PRK14729 4 NKIVFIFGPTAVGKSNI----LFHFPKG 27 (300)
T ss_pred CcEEEEECCCccCHHHH----HHHHHHh
Confidence 45789999999999953 3455555
No 311
>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=91.97 E-value=0.11 Score=35.02 Aligned_cols=14 Identities=43% Similarity=0.660 Sum_probs=12.1
Q ss_pred cEEEecCCCCCchH
Q psy14273 51 FGIFESPTGTGKSL 64 (115)
Q Consensus 51 ~~iiEaPTGtGKTl 64 (115)
.++|.||+|+|||.
T Consensus 1 vI~I~G~~gsGKST 14 (121)
T PF13207_consen 1 VIIISGPPGSGKST 14 (121)
T ss_dssp EEEEEESTTSSHHH
T ss_pred CEEEECCCCCCHHH
Confidence 36889999999994
No 312
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=91.96 E-value=0.19 Score=46.85 Aligned_cols=40 Identities=28% Similarity=0.230 Sum_probs=28.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHH
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al 71 (115)
..++.||+.|.--. + ++ ..--|.|+.||-||||++.+|+.
T Consensus 72 ~lG~r~ydvQlig~--l--~L--~~G~IaEm~TGEGKTL~a~l~ay 111 (870)
T CHL00122 72 TLGLRHFDVQLIGG--L--VL--NDGKIAEMKTGEGKTLVATLPAY 111 (870)
T ss_pred HhCCCCCchHhhhh--H--hh--cCCccccccCCCCchHHHHHHHH
Confidence 45566777775532 2 12 33477899999999999998874
No 313
>PRK08084 DNA replication initiation factor; Provisional
Probab=91.93 E-value=0.45 Score=36.78 Aligned_cols=33 Identities=24% Similarity=0.273 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEecCCCCCchHHH
Q psy14273 34 IQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~--~~~~iiEaPTGtGKTls~ 66 (115)
.+...+..+.++... +..+++.||+|+|||.-+
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl 62 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLL 62 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHH
Confidence 455566666665543 367999999999999543
No 314
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=91.91 E-value=0.4 Score=39.98 Aligned_cols=42 Identities=12% Similarity=-0.020 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~al~~l 74 (115)
-+|.+..+.+.+++.++ .| .+|.||.|+||+..++.-+-.++
T Consensus 22 iGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll 66 (365)
T PRK07471 22 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLL 66 (365)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 58999999999999988 34 78999999999976655544443
No 315
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=91.87 E-value=0.28 Score=41.40 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhcCC-----------c-EEEecCCCCCchHHHHHH
Q psy14273 34 IQSNFMKNLYYTLDNSK-----------F-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 34 ~Q~e~m~~I~~~l~~~~-----------~-~iiEaPTGtGKTls~L~~ 69 (115)
+|....+.+.+++.++. + .+|.||.|+|||.....-
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~l 56 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAF 56 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHH
Confidence 78888888888888753 3 779999999998665544
No 316
>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=91.86 E-value=0.25 Score=44.74 Aligned_cols=33 Identities=15% Similarity=0.132 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHh--------cCCcEEEecCCCCCchHHHH
Q psy14273 35 QSNFMKNLYYTLD--------NSKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 35 Q~e~m~~I~~~l~--------~~~~~iiEaPTGtGKTls~L 67 (115)
|.+..+.|...+. ++.+++|.||+|+|||..+-
T Consensus 325 ~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk 365 (775)
T TIGR00763 325 LKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGK 365 (775)
T ss_pred hHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHH
Confidence 4555555555332 24579999999999996533
No 317
>KOG0239|consensus
Probab=91.84 E-value=0.14 Score=46.25 Aligned_cols=45 Identities=18% Similarity=0.273 Sum_probs=33.0
Q ss_pred ccCC--CCCCHHHHHHHHHHHHHHhc---C--CcEEEecCCCCCchHHHHHH
Q psy14273 25 FPFP--FDAYDIQSNFMKNLYYTLDN---S--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 25 ~~fp--f~~r~~Q~e~m~~I~~~l~~---~--~~~iiEaPTGtGKTls~L~~ 69 (115)
|.|. |.|-..|.+.+..+...+.. | .+++..|.||+|||++.--|
T Consensus 362 f~fdkVf~p~~sQ~~VF~e~~~lv~S~lDGYnVCIFAYGQTGSGKTyTM~G~ 413 (670)
T KOG0239|consen 362 FKFDKVFGPLASQDDVFEEVSPLVQSALDGYNVCIFAYGQTGSGKTYTMSGP 413 (670)
T ss_pred ceeeeecCCcccHHHHHHHHHHHHHHHhcCcceeEEEecccCCCccccccCC
Confidence 4444 56888999988877665543 4 34556999999999987664
No 318
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=91.79 E-value=0.38 Score=39.96 Aligned_cols=37 Identities=22% Similarity=0.116 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~ 69 (115)
-+|.+....+..++.++. ..+|.||.|+|||.....-
T Consensus 26 ~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~l 65 (351)
T PRK09112 26 FGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHL 65 (351)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHH
Confidence 578888899999998885 4889999999999665544
No 319
>PRK00300 gmk guanylate kinase; Provisional
Probab=91.79 E-value=0.11 Score=38.33 Aligned_cols=17 Identities=29% Similarity=0.565 Sum_probs=15.0
Q ss_pred cCCcEEEecCCCCCchH
Q psy14273 48 NSKFGIFESPTGTGKSL 64 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTl 64 (115)
.+..++|.||+|+|||.
T Consensus 4 ~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 4 RGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 56789999999999994
No 320
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=91.75 E-value=0.095 Score=42.26 Aligned_cols=45 Identities=13% Similarity=0.195 Sum_probs=28.4
Q ss_pred ccccCC--CCCCHHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHHH
Q psy14273 23 SEFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 23 ~~~~fp--f~~r~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
..|.|. |.+-..|.++.+.+.. .+-+| ..++..|+||||||.++.
T Consensus 40 ~~f~fd~vf~~~~~q~~vy~~~~~p~v~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 40 QSFTFDRVFGGESTNREVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred eEEecCeEECCCCCHHHHHHHHHHHHHHHHHCCCceeEEeecCCCCCCceecc
Confidence 344444 3354567777665433 22345 356779999999999875
No 321
>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=91.73 E-value=0.38 Score=38.58 Aligned_cols=37 Identities=24% Similarity=0.382 Sum_probs=25.8
Q ss_pred CCCCCHHHHHHHHHHHHHHh---c-C---CcEEEecCCCCCchH
Q psy14273 28 PFDAYDIQSNFMKNLYYTLD---N-S---KFGIFESPTGTGKSL 64 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~---~-~---~~~iiEaPTGtGKTl 64 (115)
-++-+-+|.++...+.-.+. . + .+++|.||.|+|||.
T Consensus 22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 46677899998887654443 1 2 489999999999984
No 322
>PRK06893 DNA replication initiation factor; Validated
Probab=91.73 E-value=0.49 Score=36.36 Aligned_cols=21 Identities=24% Similarity=0.055 Sum_probs=15.5
Q ss_pred CcEEEecCCCCCchHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~a 70 (115)
..+++.||+|+|||.-+.+-+
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~ 60 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVS 60 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 457899999999996444333
No 323
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.72 E-value=0.18 Score=43.91 Aligned_cols=30 Identities=20% Similarity=0.163 Sum_probs=22.3
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
+..++|-||||+|||.+...-+..+...++
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G 285 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHG 285 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcC
Confidence 457889999999999887666555554543
No 324
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=91.71 E-value=0.2 Score=46.10 Aligned_cols=34 Identities=15% Similarity=0.200 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHhc---C--------CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDN---S--------KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~---~--------~~~iiEaPTGtGKTls~ 66 (115)
-+|.+.+..|.+++.. | ...+|.||||+|||...
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETA 613 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHH
Confidence 4788888888887743 1 24789999999999653
No 325
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=91.71 E-value=0.12 Score=42.69 Aligned_cols=29 Identities=17% Similarity=0.163 Sum_probs=22.3
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhhH
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAGL 82 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~ 82 (115)
..+||.|||++||| .-+++.++..+-.|.
T Consensus 4 ~~i~I~GPTAsGKT----~lai~LAk~~~~eII 32 (308)
T COG0324 4 KLIVIAGPTASGKT----ALAIALAKRLGGEII 32 (308)
T ss_pred cEEEEECCCCcCHH----HHHHHHHHHcCCcEE
Confidence 46889999999999 445677777776653
No 326
>PRK04296 thymidine kinase; Provisional
Probab=91.69 E-value=0.17 Score=37.97 Aligned_cols=32 Identities=16% Similarity=0.247 Sum_probs=22.0
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
|...++.||.|+|||..++--+..+. ..+.++
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~-~~g~~v 33 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYE-ERGMKV 33 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHH-HcCCeE
Confidence 34678999999999976665554444 345554
No 327
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=91.67 E-value=0.23 Score=45.35 Aligned_cols=38 Identities=21% Similarity=0.241 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~a 70 (115)
-+|....+.+.+++.++ .| .+|.||.|+|||.++.+-|
T Consensus 21 iGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLA 61 (725)
T PRK07133 21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFA 61 (725)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHH
Confidence 48899999999999887 34 4899999999997765543
No 328
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=91.65 E-value=0.13 Score=41.32 Aligned_cols=27 Identities=22% Similarity=0.218 Sum_probs=17.9
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+|-||||||||- -++..++.++-.|
T Consensus 3 v~~i~GpT~tGKt~----~ai~lA~~~g~pv 29 (233)
T PF01745_consen 3 VYLIVGPTGTGKTA----LAIALAQKTGAPV 29 (233)
T ss_dssp EEEEE-STTSSHHH----HHHHHHHHH--EE
T ss_pred EEEEECCCCCChhH----HHHHHHHHhCCCE
Confidence 46789999999994 4566677766655
No 329
>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=91.64 E-value=0.31 Score=41.20 Aligned_cols=35 Identities=17% Similarity=0.208 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHHHHHHh----cCCcEEEecCCCCCchHH
Q psy14273 31 AYDIQSNFMKNLYYTLD----NSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~----~~~~~iiEaPTGtGKTls 65 (115)
..+...+++..+..+.. ..+.++|.||+|+|||..
T Consensus 56 ~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStl 94 (361)
T smart00763 56 MEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSL 94 (361)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHH
Confidence 33445555555554443 136788999999999964
No 330
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=91.64 E-value=0.3 Score=43.57 Aligned_cols=39 Identities=13% Similarity=0.029 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.-+.|.+.+.. .+++++|-|+.|||||.++..=+...+.
T Consensus 3 Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~Ria~Li~ 41 (672)
T PRK10919 3 LNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNKIAHLIR 41 (672)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHH
Confidence 34678775442 3567888899999999986666444443
No 331
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=91.62 E-value=0.23 Score=43.82 Aligned_cols=39 Identities=26% Similarity=0.282 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~al 71 (115)
-+|...+..+.+++.++. ..+|.||.|+|||.++.+-+-
T Consensus 19 iGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk 60 (563)
T PRK06647 19 EGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFAR 60 (563)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 479999999999998873 368999999999987665433
No 332
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=91.57 E-value=0.37 Score=45.96 Aligned_cols=49 Identities=22% Similarity=0.142 Sum_probs=35.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
++|+|...|+--.+.+ -.|+.--+-||||+|||.--++.++-++.. +++
T Consensus 79 ~G~~~ws~QR~WakR~----~rg~SFaiiAPTGvGKTTfg~~~sl~~a~k-gkr 127 (1187)
T COG1110 79 TGFRPWSAQRVWAKRL----VRGKSFAIIAPTGVGKTTFGLLMSLYLAKK-GKR 127 (1187)
T ss_pred hCCCchHHHHHHHHHH----HcCCceEEEcCCCCchhHHHHHHHHHHHhc-CCe
Confidence 5678999999866654 467777778999999997766666655543 344
No 333
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=91.56 E-value=0.12 Score=43.32 Aligned_cols=16 Identities=44% Similarity=0.704 Sum_probs=14.6
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
++++|.||+|||||+.
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 6899999999999964
No 334
>PLN03188 kinesin-12 family protein; Provisional
Probab=91.53 E-value=0.062 Score=51.60 Aligned_cols=51 Identities=18% Similarity=0.136 Sum_probs=34.7
Q ss_pred CCCCccccCC--CCCCHHHHHHHHHHHHHH----hcC--CcEEEecCCCCCchHHHHHH
Q psy14273 19 AEVPSEFPFP--FDAYDIQSNFMKNLYYTL----DNS--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 19 ~~~~~~~~fp--f~~r~~Q~e~m~~I~~~l----~~~--~~~iiEaPTGtGKTls~L~~ 69 (115)
.+.+..|.|. |.+...|.++.+.+..-+ -+| ..++..|.||||||.+..-+
T Consensus 128 ~I~~qtFtFD~VFdp~aTQedVFe~vv~PLV~svLdGyNaTIFAYGQTGSGKTYTM~G~ 186 (1320)
T PLN03188 128 TINGQTFTFDSIADPESTQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGSGKTYTMWGP 186 (1320)
T ss_pred EEeCcEEeCCeeeCCCCCHHHHHHHHHHHHHHHHhcCCcceeecCCCCCCCCCEeeCCC
Confidence 3344556666 446677888887764432 344 45777999999999987653
No 335
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=91.48 E-value=0.078 Score=47.42 Aligned_cols=22 Identities=23% Similarity=0.184 Sum_probs=20.3
Q ss_pred CcEEEecCCCCCchHHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al 71 (115)
.|+++-||||+|||.++.+|.+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnL 233 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTA 233 (623)
T ss_pred ceEEEEeCCCCCccceeehhhh
Confidence 6999999999999999999953
No 336
>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=91.47 E-value=0.21 Score=36.65 Aligned_cols=29 Identities=21% Similarity=0.182 Sum_probs=19.5
Q ss_pred EEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 52 GIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 52 ~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+.|.|++|+|||. ++..++..+...+.++
T Consensus 2 i~i~G~~gsGKTt-l~~~l~~~l~~~G~~V 30 (155)
T TIGR00176 2 LQIVGPKNSGKTT-LIERLVKALKARGYRV 30 (155)
T ss_pred EEEECCCCCCHHH-HHHHHHHHHHhcCCeE
Confidence 5678999999995 3444555555555454
No 337
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=91.42 E-value=0.34 Score=42.50 Aligned_cols=39 Identities=13% Similarity=0.065 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+.|.+.+. ...+++++-|+.|||||.+++.=+...+..
T Consensus 3 n~~Q~~av~------~~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~ 41 (664)
T TIGR01074 3 NPQQQEAVE------YVTGPCLVLAGAGSGKTRVITNKIAYLIQN 41 (664)
T ss_pred CHHHHHHHh------CCCCCEEEEecCCCCHHHHHHHHHHHHHHh
Confidence 467777443 235789999999999999887776666643
No 338
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=91.39 E-value=0.11 Score=42.18 Aligned_cols=39 Identities=18% Similarity=0.220 Sum_probs=25.9
Q ss_pred CCCCHHHHHHHHHHHH----HHhcC--CcEEEecCCCCCchHHHH
Q psy14273 29 FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~----~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
|.+-..|.++.+.+.. .+-+| ..++..|+||||||.+++
T Consensus 56 f~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~ 100 (333)
T cd01371 56 YDPNSTQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTME 100 (333)
T ss_pred cCCCccHHHHHHHHHHHHHHHHhCCCceeEEecCCCCCCCcEeec
Confidence 4455667777665432 33344 457779999999998853
No 339
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=91.39 E-value=0.34 Score=40.40 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.9
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
..+++.||+|||||+.
T Consensus 166 ~gvLL~GppGtGKT~l 181 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL 181 (389)
T ss_pred CceEEECCCCCChHHH
Confidence 4589999999999965
No 340
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=91.37 E-value=0.15 Score=45.23 Aligned_cols=39 Identities=23% Similarity=0.288 Sum_probs=28.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls 65 (115)
-.|+.--+|...|..+.+.+... .+++|.||+|||||..
T Consensus 151 ~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTL 191 (615)
T TIGR02903 151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTA 191 (615)
T ss_pred CcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 33443347777777777766544 5799999999999964
No 341
>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=91.32 E-value=0.11 Score=35.78 Aligned_cols=13 Identities=46% Similarity=0.652 Sum_probs=11.7
Q ss_pred EEEecCCCCCchH
Q psy14273 52 GIFESPTGTGKSL 64 (115)
Q Consensus 52 ~iiEaPTGtGKTl 64 (115)
+++.||+|+|||.
T Consensus 2 ii~~G~pgsGKSt 14 (143)
T PF13671_consen 2 IILCGPPGSGKST 14 (143)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6899999999994
No 342
>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=91.26 E-value=0.24 Score=36.18 Aligned_cols=28 Identities=25% Similarity=0.353 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchH
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTl 64 (115)
++-+.+.+.+..+..+++.|+-|+|||.
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKTt 37 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKTT 37 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHHH
Confidence 3455666677778899999999999984
No 343
>KOG0339|consensus
Probab=91.22 E-value=0.074 Score=47.68 Aligned_cols=32 Identities=22% Similarity=0.224 Sum_probs=26.5
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
.+..++--|-||||||.+|+-|.+-.+.+.+.
T Consensus 259 sgrdvigIAktgSgktaAfi~pm~~himdq~e 290 (731)
T KOG0339|consen 259 SGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPE 290 (731)
T ss_pred ccccchheeeccCcchhHHHHHHHHHhcchhh
Confidence 35677888999999999999999988776553
No 344
>KOG0332|consensus
Probab=91.21 E-value=0.09 Score=45.48 Aligned_cols=48 Identities=23% Similarity=0.284 Sum_probs=35.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 27 fpf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+.|+ |..+|...+..+..- -.+++|..+..|||||.+|.+..|+-...
T Consensus 108 M~F~kPskIQe~aLPlll~~--Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~ 156 (477)
T KOG0332|consen 108 MKFQKPSKIQETALPLLLAE--PPQNLIAQSQSGTGKTAAFVLTMLSRVDP 156 (477)
T ss_pred hccCCcchHHHhhcchhhcC--CchhhhhhhcCCCchhHHHHHHHHHhcCc
Confidence 5566 778888877765311 13689999999999999999888866543
No 345
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=91.20 E-value=0.081 Score=47.41 Aligned_cols=23 Identities=22% Similarity=0.236 Sum_probs=20.8
Q ss_pred CCcEEEecCCCCCchHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al 71 (115)
..|+++-||||+|||.++++|.+
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnL 246 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTA 246 (641)
T ss_pred CceEEEEeCCCCCccceEehhhh
Confidence 36899999999999999999964
No 346
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=91.13 E-value=0.63 Score=37.60 Aligned_cols=59 Identities=17% Similarity=0.174 Sum_probs=38.1
Q ss_pred CCHHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGILKWYSDHKIAGLEKIEAEIK 90 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~~~~~~~~~ 90 (115)
-++.|++.+..-...+.+| .++++.|+-|||||...-. ++......+.++.+..+..+.
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVka-ll~~y~~~GLRlIev~k~~L~ 92 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKA-LLNEYADQGLRLIEVSKEDLG 92 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHH-HHHHHhhcCceEEEECHHHhc
Confidence 3567777666555566566 6899999999999866555 344444556666444444443
No 347
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=91.13 E-value=0.38 Score=41.32 Aligned_cols=17 Identities=47% Similarity=0.534 Sum_probs=14.6
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
..++|.||+|||||+.+
T Consensus 218 ~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLA 234 (438)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46889999999999764
No 348
>KOG0743|consensus
Probab=91.11 E-value=0.31 Score=42.45 Aligned_cols=41 Identities=22% Similarity=0.421 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..=.++|+.+.+.++.+ +-=++.||+|||||. +++++..++
T Consensus 208 ~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS-~IaAmAn~L 259 (457)
T KOG0743|consen 208 DLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSS-FIAAMANYL 259 (457)
T ss_pred hHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHH-HHHHHHhhc
Confidence 34567788888777664 246789999999994 455544554
No 349
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=91.07 E-value=0.39 Score=39.26 Aligned_cols=17 Identities=41% Similarity=0.511 Sum_probs=14.1
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
..+++.||+|||||+..
T Consensus 157 ~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLA 173 (364)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 35899999999999654
No 350
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=91.07 E-value=0.53 Score=38.57 Aligned_cols=31 Identities=16% Similarity=0.045 Sum_probs=20.5
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+++.||+|+|||.+...-+.. +...+.+|
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~-l~~~g~~V 145 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHK-YKAQGKKV 145 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHH-HHhcCCeE
Confidence 46778899999999775544433 33444444
No 351
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=91.03 E-value=0.36 Score=43.30 Aligned_cols=41 Identities=24% Similarity=0.350 Sum_probs=35.2
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLS 65 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls 65 (115)
+.-||.|.-.|-..+..+.+.+.++ +..++.|.||||||+.
T Consensus 4 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~ 45 (655)
T TIGR00631 4 LHSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFT 45 (655)
T ss_pred eccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHH
Confidence 3568999999999999999999776 3567899999999976
No 352
>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=91.01 E-value=0.26 Score=37.16 Aligned_cols=30 Identities=20% Similarity=0.177 Sum_probs=20.8
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
+..|..+++.||+|+|||.-.+.-+...+.
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~ 46 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLR 46 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHh
Confidence 345678999999999998655443344443
No 353
>KOG1970|consensus
Probab=91.00 E-value=0.24 Score=44.46 Aligned_cols=31 Identities=23% Similarity=0.369 Sum_probs=24.1
Q ss_pred HHHHHHHHHHh-----c----CCcEEEecCCCCCchHHHH
Q psy14273 37 NFMKNLYYTLD-----N----SKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 37 e~m~~I~~~l~-----~----~~~~iiEaPTGtGKTls~L 67 (115)
.=+.+|..||. . +..+++.||+|+|||.++=
T Consensus 89 kKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvk 128 (634)
T KOG1970|consen 89 KKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVK 128 (634)
T ss_pred HhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHH
Confidence 34678888887 2 3578999999999998753
No 354
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=90.99 E-value=0.57 Score=44.64 Aligned_cols=39 Identities=15% Similarity=0.094 Sum_probs=25.2
Q ss_pred CCHHHHHHHH-HHHHHHhcC--Cc-EEEecCCCCCchHHHHHH
Q psy14273 31 AYDIQSNFMK-NLYYTLDNS--KF-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 31 ~r~~Q~e~m~-~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~ 69 (115)
-|+.|.+-+. .|..++... .. +.|.|+||||||++...-
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~V 801 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSV 801 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHH
Confidence 4666655444 444455432 23 459999999999987654
No 355
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=90.98 E-value=0.46 Score=38.77 Aligned_cols=38 Identities=24% Similarity=0.347 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L~~a 70 (115)
-+|.+..+.+.+++.++ ...+|.||.|+||+..+++-+
T Consensus 7 iGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a 47 (314)
T PRK07399 7 IGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFI 47 (314)
T ss_pred CCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 47888889999999888 458899999999997655443
No 356
>PRK14974 cell division protein FtsY; Provisional
Probab=90.94 E-value=0.53 Score=39.10 Aligned_cols=31 Identities=16% Similarity=0.188 Sum_probs=21.5
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..++|.||+|+|||.+.---+ .++...+.++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~~g~~V 171 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKKNGFSV 171 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHHcCCeE
Confidence 468899999999998754444 4455555454
No 357
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=90.89 E-value=0.22 Score=38.50 Aligned_cols=41 Identities=15% Similarity=0.080 Sum_probs=30.2
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+..-+..+...+|-|+||.|||.-.+--+..++...+..|
T Consensus 11 ~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~v 51 (259)
T PF03796_consen 11 RLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNGGYPV 51 (259)
T ss_dssp HHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEE
T ss_pred HHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeE
Confidence 33334456678999999999999988888888887765554
No 358
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.87 E-value=0.43 Score=42.90 Aligned_cols=41 Identities=12% Similarity=0.025 Sum_probs=29.8
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L~~ 69 (115)
++|--+|.+.++.+...|..+ .++|+.||+|+|||...-.-
T Consensus 181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~l 223 (731)
T TIGR02639 181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGL 223 (731)
T ss_pred CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHH
Confidence 344456777777788777654 68999999999999764333
No 359
>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=90.81 E-value=0.22 Score=37.10 Aligned_cols=14 Identities=29% Similarity=0.503 Sum_probs=12.5
Q ss_pred cEEEecCCCCCchH
Q psy14273 51 FGIFESPTGTGKSL 64 (115)
Q Consensus 51 ~~iiEaPTGtGKTl 64 (115)
.+++-||||+|||.
T Consensus 5 ~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 5 NFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEESSTTSSHHH
T ss_pred EEEEECCCCCCHHH
Confidence 57899999999994
No 360
>PRK00698 tmk thymidylate kinase; Validated
Probab=90.76 E-value=0.15 Score=37.33 Aligned_cols=16 Identities=38% Similarity=0.443 Sum_probs=14.3
Q ss_pred CCcEEEecCCCCCchH
Q psy14273 49 SKFGIFESPTGTGKSL 64 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTl 64 (115)
+..++||||.|+|||.
T Consensus 3 ~~~I~ieG~~gsGKsT 18 (205)
T PRK00698 3 GMFITIEGIDGAGKST 18 (205)
T ss_pred ceEEEEECCCCCCHHH
Confidence 5679999999999995
No 361
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=90.76 E-value=0.15 Score=44.29 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=32.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHH
Q psy14273 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 27 fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~ 66 (115)
+.|.-..+|....+.+.-++..+.++++.+|+|+|||..+
T Consensus 189 ~d~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 189 LDLKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred CCHHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 3455456788888888888888899999999999999753
No 362
>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=90.74 E-value=0.12 Score=38.17 Aligned_cols=19 Identities=21% Similarity=0.195 Sum_probs=12.1
Q ss_pred cEEEecCCCCCchHHHHHH
Q psy14273 51 FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~ 69 (115)
|+++|++.|+|||...-.-
T Consensus 1 HvLleg~PG~GKT~la~~l 19 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKAL 19 (131)
T ss_dssp -EEEES---HHHHHHHHHH
T ss_pred CEeeECCCccHHHHHHHHH
Confidence 6899999999999765543
No 363
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=90.70 E-value=0.092 Score=42.11 Aligned_cols=39 Identities=13% Similarity=0.155 Sum_probs=26.7
Q ss_pred CCHHHHHHHHHHH----HHHhcC--CcEEEecCCCCCchHHHHHH
Q psy14273 31 AYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 31 ~r~~Q~e~m~~I~----~~l~~~--~~~iiEaPTGtGKTls~L~~ 69 (115)
+-..|.++.+.+. ..+-+| ..++..|+||+|||.+++-+
T Consensus 51 ~~~~q~~vy~~~~~~~v~~~l~G~n~~i~ayG~tgSGKT~Tm~G~ 95 (335)
T PF00225_consen 51 EDATQEDVYEEVVSPLVDSVLDGYNATIFAYGQTGSGKTYTMFGS 95 (335)
T ss_dssp TTSTHHHHHHHHTHHHHHHHHTT-EEEEEEEESTTSSHHHHHTBS
T ss_pred CCCCHHHHHHHHHHHHHHHhhcCCceEEEeecccccccccccccc
Confidence 5556777766642 222345 35777999999999987776
No 364
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=90.67 E-value=0.31 Score=44.98 Aligned_cols=34 Identities=21% Similarity=0.176 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls~ 66 (115)
-+|.+.+..|.+++... ..-+|-||||+|||-..
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELA 538 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELA 538 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHH
Confidence 47889999999888652 35778999999999643
No 365
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=90.64 E-value=0.25 Score=35.59 Aligned_cols=28 Identities=21% Similarity=0.309 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCCCchH
Q psy14273 37 NFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 37 e~m~~I~~~l~~~~~~iiEaPTGtGKTl 64 (115)
++-+.+.+.+..+..+++.|+-|+|||.
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaGKTt 30 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAGKTT 30 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSSHHH
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCCHHH
Confidence 4556777888888899999999999994
No 366
>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=90.64 E-value=0.45 Score=36.47 Aligned_cols=30 Identities=17% Similarity=0.065 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhc----CCcEEEecCCCCCchHHH
Q psy14273 37 NFMKNLYYTLDN----SKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 37 e~m~~I~~~l~~----~~~~iiEaPTGtGKTls~ 66 (115)
..+++|.+.|.. ...+.|.|+.|+|||.-+
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA 36 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLA 36 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceee
Confidence 345677777876 256889999999999543
No 367
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=90.63 E-value=0.68 Score=41.40 Aligned_cols=31 Identities=23% Similarity=0.332 Sum_probs=23.6
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~ 66 (115)
-+.|+..+ ..++ .+...||.|+.|||||.+.
T Consensus 154 ~d~Qk~Av---~~a~-~~~~~vItGgpGTGKTt~v 184 (615)
T PRK10875 154 VDWQKVAA---AVAL-TRRISVISGGPGTGKTTTV 184 (615)
T ss_pred CHHHHHHH---HHHh-cCCeEEEEeCCCCCHHHHH
Confidence 47888844 3444 4678999999999999764
No 368
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.62 E-value=0.34 Score=43.58 Aligned_cols=38 Identities=16% Similarity=0.066 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~a 70 (115)
-+|......+.+++.+++ ..||.||.|+|||....+-+
T Consensus 19 iGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilA 59 (624)
T PRK14959 19 AGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFA 59 (624)
T ss_pred cCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHH
Confidence 378888889999998874 47789999999998765543
No 369
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.60 E-value=0.37 Score=43.39 Aligned_cols=38 Identities=16% Similarity=0.267 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHhcC-------CcEEEecCCCCCchHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNS-------KFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~-------~~~iiEaPTGtGKTls~L~~ 69 (115)
.-+|.+.+..|..++... ..++|.||+|+|||.++-+-
T Consensus 86 l~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~l 130 (637)
T TIGR00602 86 LAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKIL 130 (637)
T ss_pred hcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHH
Confidence 356777777888887642 34899999999999864443
No 370
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=90.59 E-value=0.91 Score=43.07 Aligned_cols=46 Identities=26% Similarity=0.289 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..|+.|.+.+.-+.....++..+||.-..|.|||+..|+- +.++..
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~ 214 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHE 214 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHH
Confidence 4799999999998888888889999999999999986554 455543
No 371
>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=90.52 E-value=0.13 Score=35.37 Aligned_cols=18 Identities=28% Similarity=0.455 Sum_probs=15.7
Q ss_pred hcCCcEEEecCCCCCchH
Q psy14273 47 DNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTl 64 (115)
..|.+++|.||+|+|||.
T Consensus 9 ~~g~~~~i~G~nGsGKSt 26 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKST 26 (137)
T ss_dssp ETTSEEEEEESTTSSHHH
T ss_pred cCCCEEEEEccCCCcccc
Confidence 457889999999999995
No 372
>PF13173 AAA_14: AAA domain
Probab=90.49 E-value=0.24 Score=34.35 Aligned_cols=20 Identities=40% Similarity=0.557 Sum_probs=16.3
Q ss_pred cCCcEEEecCCCCCchHHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L 67 (115)
+++.+++.||.|+|||..+.
T Consensus 1 n~~~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLK 20 (128)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 45789999999999996543
No 373
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=90.47 E-value=0.18 Score=44.28 Aligned_cols=33 Identities=21% Similarity=0.370 Sum_probs=25.0
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.++|++|-+.||||||.++-+-|=.+.. .+-.|
T Consensus 18 ~NRHGLIaGATGTGKTvTLqvlAE~fS~-~GVPV 50 (502)
T PF05872_consen 18 ANRHGLIAGATGTGKTVTLQVLAEQFSD-AGVPV 50 (502)
T ss_pred ccccceeeccCCCCceehHHHHHHHhhh-cCCcE
Confidence 3679999999999999998777655553 34444
No 374
>KOG0926|consensus
Probab=90.47 E-value=0.22 Score=46.78 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=22.4
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHH
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~ 69 (115)
.|..++..+..+||+|.||+|||.- +|
T Consensus 263 ~IMEaIn~n~vvIIcGeTGsGKTTQ--vP 289 (1172)
T KOG0926|consen 263 RIMEAINENPVVIICGETGSGKTTQ--VP 289 (1172)
T ss_pred HHHHHhhcCCeEEEecCCCCCcccc--ch
Confidence 4666778889999999999999964 55
No 375
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.45 E-value=0.12 Score=37.49 Aligned_cols=19 Identities=21% Similarity=0.197 Sum_probs=16.0
Q ss_pred hcCCcEEEecCCCCCchHH
Q psy14273 47 DNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls 65 (115)
..+..++++|+.|+|||.-
T Consensus 5 ~~~~~I~i~G~~GsGKst~ 23 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTI 23 (176)
T ss_pred CCCCEEEEEcCCCCCHHHH
Confidence 4567899999999999854
No 376
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=90.37 E-value=0.4 Score=45.04 Aligned_cols=43 Identities=23% Similarity=0.146 Sum_probs=28.6
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 26 ~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..+..||++|.-- .+ +| +.--|.|+.||-||||++.+|+.-.+
T Consensus 81 ~lG~r~ydVQliG--gl--~L--h~G~IAEM~TGEGKTL~atlpaylnA 123 (939)
T PRK12902 81 VLGMRHFDVQLIG--GM--VL--HEGQIAEMKTGEGKTLVATLPSYLNA 123 (939)
T ss_pred HhCCCcchhHHHh--hh--hh--cCCceeeecCCCChhHHHHHHHHHHh
Confidence 3455677777542 22 12 33467899999999999988865433
No 377
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=90.27 E-value=0.67 Score=37.71 Aligned_cols=36 Identities=25% Similarity=0.439 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhcC--CcE-EEecCCCCCchHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KFG-IFESPTGTGKSLSLIC 68 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~~-iiEaPTGtGKTls~L~ 68 (115)
-+|...++.+.+.+.++ .|+ +|.||.|+||+..+..
T Consensus 9 ~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~ 47 (329)
T PRK08058 9 ALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALW 47 (329)
T ss_pred hhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 35889999999999887 454 8999999999865433
No 378
>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=90.25 E-value=0.36 Score=34.77 Aligned_cols=30 Identities=13% Similarity=-0.020 Sum_probs=19.9
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.||+|+|||.....-+..+. ..+.++
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~-~~g~~v 31 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLK-KKGKKV 31 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH-HCCCcE
Confidence 468899999999987554444443 334444
No 379
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=90.23 E-value=0.44 Score=40.96 Aligned_cols=42 Identities=14% Similarity=0.087 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
--+.-.++++.|.++...+..++|.|++||||++. +-++...
T Consensus 192 ~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~--A~~ih~~ 233 (509)
T PRK05022 192 QSPAMQQLKKEIEVVAASDLNVLILGETGVGKELV--ARAIHAA 233 (509)
T ss_pred cCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHH--HHHHHHh
Confidence 34566666777777777788999999999999964 4444433
No 380
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=90.17 E-value=0.42 Score=40.94 Aligned_cols=34 Identities=18% Similarity=0.045 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHH
Q psy14273 36 SNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 36 ~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~ 69 (115)
.++.+.|......+.++++.|+|||||++.+-..
T Consensus 88 ~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~i 121 (403)
T COG1221 88 QELREQIKAYAPSGLPVLIIGETGTGKELFARLI 121 (403)
T ss_pred HHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHH
Confidence 4455666665567789999999999999764433
No 381
>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=90.16 E-value=0.24 Score=41.28 Aligned_cols=41 Identities=15% Similarity=-0.021 Sum_probs=28.2
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+..-+..|..+||.|++|+|||.-.+--+...+...+..|
T Consensus 187 ~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~v 227 (434)
T TIGR00665 187 KLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPV 227 (434)
T ss_pred hhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeE
Confidence 33334556678999999999999766655555565555554
No 382
>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=90.13 E-value=0.29 Score=40.71 Aligned_cols=38 Identities=8% Similarity=-0.097 Sum_probs=28.2
Q ss_pred HHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 44 YTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 44 ~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.-+..|..+|+-|++|+|||.-.+--+...+...+.+|
T Consensus 189 ~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v 226 (421)
T TIGR03600 189 NGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPV 226 (421)
T ss_pred cCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcE
Confidence 34555678999999999999877776666665556554
No 383
>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=90.10 E-value=0.4 Score=40.96 Aligned_cols=16 Identities=44% Similarity=0.584 Sum_probs=13.8
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
+.+++.||+|||||+.
T Consensus 89 ~giLL~GppGtGKT~l 104 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLL 104 (495)
T ss_pred CcEEEECCCCCCHHHH
Confidence 3689999999999965
No 384
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=90.04 E-value=0.49 Score=42.36 Aligned_cols=39 Identities=18% Similarity=0.246 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.-+.|++.+. ...++++|-|+.|||||.++..= +.|+..
T Consensus 10 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~vl~~R-ia~Li~ 48 (721)
T PRK11773 10 LNDKQREAVA------APLGNMLVLAGAGSGKTRVLVHR-IAWLMQ 48 (721)
T ss_pred cCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 5578888544 23568899999999999886655 445443
No 385
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=90.01 E-value=0.34 Score=36.17 Aligned_cols=26 Identities=23% Similarity=0.448 Sum_probs=19.6
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
....+|.||+|+|||. |+-|+.|+..
T Consensus 24 ~~~~~i~G~NGsGKS~--ileAi~~~l~ 49 (220)
T PF02463_consen 24 PGLNVIVGPNGSGKSN--ILEAIEFVLG 49 (220)
T ss_dssp SSEEEEEESTTSSHHH--HHHHHHHHTT
T ss_pred CCCEEEEcCCCCCHHH--HHHHHHHHHH
Confidence 3478899999999995 4566766654
No 386
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=89.99 E-value=0.26 Score=41.07 Aligned_cols=32 Identities=19% Similarity=0.203 Sum_probs=22.3
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+|+++-|.||||||. +|-.++..+...+.+.
T Consensus 15 ~~~~li~G~~GsGKT~-~i~~ll~~~~~~g~~~ 46 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQ-AIRHLLDQIRARGDRA 46 (386)
T ss_dssp GG-EEEEE-TTSSHHH-HHHHHHHHHHHTT-EE
T ss_pred hCcEEEECCCCCCHHH-HHHHHHHHHHHcCCEE
Confidence 4689999999999996 6677777776666553
No 387
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=89.98 E-value=0.33 Score=36.57 Aligned_cols=30 Identities=13% Similarity=0.176 Sum_probs=21.6
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
..|....+.||+|+|||.-.+--+...+..
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~~~ 50 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAAKN 50 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 345678999999999997666555555543
No 388
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=89.97 E-value=0.3 Score=45.00 Aligned_cols=32 Identities=25% Similarity=0.337 Sum_probs=24.0
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
..|++|-||||+|||...-.-+.+++...+.+
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~~~~ 506 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVHRPR 506 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhcCCE
Confidence 57899999999999987766666666544443
No 389
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.91 E-value=0.32 Score=42.01 Aligned_cols=32 Identities=28% Similarity=0.352 Sum_probs=21.5
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..++|.||||+|||....--+..+....+.+|
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V 255 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSV 255 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeE
Confidence 45778999999999875555545544444444
No 390
>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=89.91 E-value=0.35 Score=35.83 Aligned_cols=27 Identities=15% Similarity=0.142 Sum_probs=19.7
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
.+....+.||+|+|||.-.+--+...+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~ 37 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAA 37 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 356788999999999976655444443
No 391
>cd03241 ABC_RecN RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.91 E-value=0.37 Score=37.99 Aligned_cols=27 Identities=22% Similarity=0.372 Sum_probs=20.5
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
...-+|.||||+|||. |+-|+.|+...
T Consensus 21 ~~~~~i~G~nGsGKS~--il~ai~~~~~~ 47 (276)
T cd03241 21 EGLTVLTGETGAGKSI--LLDALSLLLGG 47 (276)
T ss_pred CCeEEEEcCCCCCHHH--HHHHHHHHhcC
Confidence 3567889999999985 46678887543
No 392
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.89 E-value=0.27 Score=41.33 Aligned_cols=20 Identities=30% Similarity=0.456 Sum_probs=16.4
Q ss_pred hcCCcEEEecCCCCCchHHH
Q psy14273 47 DNSKFGIFESPTGTGKSLSL 66 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~ 66 (115)
...+.+|+-|+||||||.+.
T Consensus 125 ~kRGLviiVGaTGSGKSTtm 144 (375)
T COG5008 125 AKRGLVIIVGATGSGKSTTM 144 (375)
T ss_pred ccCceEEEECCCCCCchhhH
Confidence 34568999999999999874
No 393
>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=89.86 E-value=0.19 Score=35.78 Aligned_cols=13 Identities=38% Similarity=0.708 Sum_probs=11.6
Q ss_pred EEEecCCCCCchH
Q psy14273 52 GIFESPTGTGKSL 64 (115)
Q Consensus 52 ~iiEaPTGtGKTl 64 (115)
++|.||||+|||.
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 6789999999995
No 394
>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=89.86 E-value=0.69 Score=41.02 Aligned_cols=33 Identities=24% Similarity=0.322 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~ 69 (115)
+.|+.. +..++ .+...+|.|+.|||||.+.-.-
T Consensus 148 ~~Qk~A---~~~al-~~~~~vitGgpGTGKTt~v~~l 180 (586)
T TIGR01447 148 NWQKVA---VALAL-KSNFSLITGGPGTGKTTTVARL 180 (586)
T ss_pred HHHHHH---HHHHh-hCCeEEEEcCCCCCHHHHHHHH
Confidence 677764 33344 4678999999999999764433
No 395
>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=89.84 E-value=0.68 Score=39.79 Aligned_cols=46 Identities=11% Similarity=0.085 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHHHHHhcC----CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 32 YDIQSNFMKNLYYTLDNS----KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~----~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
....++..-.|.+-+.++ +.+++-+|+|||||.- |+..+++.+..+
T Consensus 29 Q~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAl----A~~ia~eLG~~~ 78 (398)
T PF06068_consen 29 QEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTAL----AMAIAKELGEDV 78 (398)
T ss_dssp -HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHH----HHHHHHHCTTTS
T ss_pred hHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHH----HHHHHHHhCCCC
Confidence 345566666777777765 5788999999999943 334455555443
No 396
>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=89.83 E-value=0.34 Score=38.69 Aligned_cols=31 Identities=16% Similarity=0.125 Sum_probs=21.4
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+++.||+|+|||.+..--+..+ ...+.+|
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l-~~~g~~V 103 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKL-KKQGKSV 103 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHH-HhcCCEE
Confidence 356678999999998766665444 4445554
No 397
>KOG0744|consensus
Probab=89.82 E-value=0.26 Score=42.20 Aligned_cols=20 Identities=35% Similarity=0.803 Sum_probs=16.0
Q ss_pred CcEEEecCCCCCchHHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al 71 (115)
+.+++.||+|||||. ||-|+
T Consensus 178 RliLlhGPPGTGKTS--LCKaL 197 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKAL 197 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHH
Confidence 568899999999994 46554
No 398
>PRK05973 replicative DNA helicase; Provisional
Probab=89.76 E-value=0.3 Score=38.72 Aligned_cols=39 Identities=18% Similarity=0.234 Sum_probs=25.5
Q ss_pred HHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 42 LYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 42 I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+..-+..|..++|.|++|+|||.-.+--+...+. ++.++
T Consensus 57 l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-~Ge~v 95 (237)
T PRK05973 57 LFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK-SGRTG 95 (237)
T ss_pred hcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeE
Confidence 3334455678999999999999765544444443 35443
No 399
>KOG0923|consensus
Probab=89.64 E-value=0.28 Score=45.22 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=25.7
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.+..++..++.+||+|-||||||.- +| +||.+-
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTTQ--iP--QyL~Ea 304 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTTQ--IP--QYLYEA 304 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCcccc--cc--HHHHhc
Confidence 4556678899999999999999965 55 666553
No 400
>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=89.62 E-value=0.21 Score=36.50 Aligned_cols=16 Identities=31% Similarity=0.505 Sum_probs=14.2
Q ss_pred CCcEEEecCCCCCchH
Q psy14273 49 SKFGIFESPTGTGKSL 64 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTl 64 (115)
|..++|||+.|+|||.
T Consensus 3 g~~IvieG~~GsGKsT 18 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTT 18 (195)
T ss_pred ceEEEEECCCCCCHHH
Confidence 5679999999999994
No 401
>KOG4284|consensus
Probab=89.59 E-value=0.078 Score=48.77 Aligned_cols=47 Identities=19% Similarity=0.210 Sum_probs=36.1
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.|. |.++|...|..+ ..+..+|+.|-.|||||+.|-+.++.-+..+.
T Consensus 44 ~f~~ptkiQaaAIP~~----~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~ 91 (980)
T KOG4284|consen 44 AFALPTKIQAAAIPAI----FSKMDLIVQAKSGTGKTLVFSVLAVESLDSRS 91 (980)
T ss_pred cccCCCchhhhhhhhh----hcccceEEEecCCCCceEEEEeeeehhcCccc
Confidence 355 667777766654 34568999999999999999988887776544
No 402
>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=89.59 E-value=0.26 Score=40.14 Aligned_cols=24 Identities=17% Similarity=0.187 Sum_probs=18.7
Q ss_pred CcEEEecCCCCCchHHHHHHHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
..+||+|..|||||+-++.-+-.+
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHh
Confidence 468899999999998766555544
No 403
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=89.44 E-value=0.56 Score=41.87 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.-+.|.+.+. ...+.++|-|+.|||||.++..= +.|+..
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~L~~R-ia~Li~ 43 (715)
T TIGR01075 5 LNDKQREAVA------APPGNLLVLAGAGSGKTRVLTHR-IAWLLS 43 (715)
T ss_pred cCHHHHHHHc------CCCCCEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 4578888544 23568899999999999986555 445443
No 404
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=89.44 E-value=0.72 Score=39.65 Aligned_cols=30 Identities=10% Similarity=0.111 Sum_probs=20.9
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.|++|+|||.+..--+. ++...+.++
T Consensus 97 vI~lvG~~GsGKTTtaakLA~-~L~~~g~kV 126 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLAR-YFKKKGLKV 126 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHH-HHHHcCCeE
Confidence 577899999999987655554 444445444
No 405
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.41 E-value=0.48 Score=43.21 Aligned_cols=40 Identities=13% Similarity=0.248 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.-+.|.++|+. ..++.+|+.|..|||||...|-= ++|+..
T Consensus 213 IQkEQneIIR~-----ek~~ilVVQGaAGSGKTtiALHR-vAyLlY 252 (747)
T COG3973 213 IQKEQNEIIRF-----EKNKILVVQGAAGSGKTTIALHR-VAYLLY 252 (747)
T ss_pred hhHhHHHHHhc-----cCCCeEEEecCCCCCchhHHHHH-HHHHHh
Confidence 34667776663 45688999999999999988877 455544
No 406
>CHL00176 ftsH cell division protein; Validated
Probab=89.40 E-value=0.45 Score=42.67 Aligned_cols=34 Identities=24% Similarity=0.298 Sum_probs=23.4
Q ss_pred CHHHHHHHHHHHHHHhcC-----------CcEEEecCCCCCchHH
Q psy14273 32 YDIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLS 65 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~-----------~~~iiEaPTGtGKTls 65 (115)
.+.+.+-+..+...+.+. +.+++.||+|||||+.
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~L 232 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLL 232 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHH
Confidence 355555556666555543 3589999999999964
No 407
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=89.39 E-value=0.21 Score=39.99 Aligned_cols=38 Identities=13% Similarity=0.121 Sum_probs=24.0
Q ss_pred CCHHHHHHHHHHH----HHHhcC--CcEEEecCCCCCchHHHHH
Q psy14273 31 AYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 31 ~r~~Q~e~m~~I~----~~l~~~--~~~iiEaPTGtGKTls~L~ 68 (115)
+-..|.++.+.+. ..+-.| ..++..|+||||||.+++-
T Consensus 55 ~~~~q~~v~~~~~~~~v~~~~~G~~~~i~~yG~tgSGKT~tl~G 98 (328)
T cd00106 55 PNSTQEDVYETTAKPLVESVLEGYNGTIFAYGQTGSGKTYTMFG 98 (328)
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCceeEEEecCCCCCCeEEecC
Confidence 3345666655554 222334 3466799999999987544
No 408
>PLN02165 adenylate isopentenyltransferase
Probab=89.38 E-value=0.32 Score=40.64 Aligned_cols=19 Identities=32% Similarity=0.398 Sum_probs=15.3
Q ss_pred CCcEEEecCCCCCchHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L 67 (115)
+..++|-||||+|||.-.+
T Consensus 43 g~iivIiGPTGSGKStLA~ 61 (334)
T PLN02165 43 DKVVVIMGATGSGKSRLSV 61 (334)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 4678999999999996443
No 409
>PRK10869 recombination and repair protein; Provisional
Probab=89.36 E-value=0.39 Score=42.12 Aligned_cols=26 Identities=27% Similarity=0.349 Sum_probs=20.6
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+.-||.||||+||| .|+-||.++.-
T Consensus 22 ~glnvitGetGaGKS--~ildAi~~llG 47 (553)
T PRK10869 22 SGMTVITGETGAGKS--IAIDALGLCLG 47 (553)
T ss_pred CCcEEEECCCCCChH--HHHHHHHHHhC
Confidence 357889999999997 46777888763
No 410
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.31 E-value=0.31 Score=44.79 Aligned_cols=30 Identities=17% Similarity=0.139 Sum_probs=21.4
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
+..++|-||||+|||.++..-+..+...++
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G 214 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREG 214 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcC
Confidence 356789999999999876665555544443
No 411
>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=89.29 E-value=0.4 Score=35.84 Aligned_cols=28 Identities=21% Similarity=0.171 Sum_probs=20.2
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
..+...++.|++|+|||.-.+.-+...+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~ 44 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVETA 44 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 3456788999999999976555544443
No 412
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=89.22 E-value=0.18 Score=40.54 Aligned_cols=38 Identities=16% Similarity=0.128 Sum_probs=24.7
Q ss_pred CCCHHHHHHHHHHHHH----HhcC--CcEEEecCCCCCchHHHH
Q psy14273 30 DAYDIQSNFMKNLYYT----LDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~----l~~~--~~~iiEaPTGtGKTls~L 67 (115)
.+...|.++.+.+..- +-.| ..++..|+||||||.++.
T Consensus 55 ~~~~~q~~v~~~~~~p~v~~~~~G~~~~i~~yG~tgSGKT~tl~ 98 (335)
T smart00129 55 GATASQEDVFEETAAPLVDSVLEGYNATIFAYGQTGSGKTYTMS 98 (335)
T ss_pred CCCCChHHHHHHHHHHHHHHHhcCCceeEEEeCCCCCCCceEec
Confidence 3555666666655422 2344 346679999999998775
No 413
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=89.19 E-value=0.49 Score=41.75 Aligned_cols=39 Identities=28% Similarity=0.252 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~a 70 (115)
--+|......+..++.++. + .+|.||.|+|||.++.+-+
T Consensus 16 iiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LA 57 (535)
T PRK08451 16 LIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFA 57 (535)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHH
Confidence 3578888899999998884 3 3899999999997765543
No 414
>KOG0390|consensus
Probab=89.16 E-value=0.34 Score=44.64 Aligned_cols=49 Identities=22% Similarity=0.142 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHHHHhcC------CcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 31 AYDIQSNFMKNLYYTLDNS------KFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~------~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
.||.|++..+.+++++... .-||+---.|+|||+-.+.-+..|+...+.
T Consensus 239 LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~ 293 (776)
T KOG0390|consen 239 LRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQ 293 (776)
T ss_pred cCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcC
Confidence 8999999999999999643 236777778999999777777788877665
No 415
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.14 E-value=0.28 Score=34.60 Aligned_cols=18 Identities=22% Similarity=0.141 Sum_probs=15.2
Q ss_pred cCCcEEEecCCCCCchHH
Q psy14273 48 NSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls 65 (115)
.+..+++.||+|||||..
T Consensus 3 ~~~~i~l~G~~GsGKstl 20 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTI 20 (175)
T ss_pred CCCeEEEEcCCCCCHHHH
Confidence 456799999999999954
No 416
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=89.13 E-value=0.61 Score=40.37 Aligned_cols=33 Identities=18% Similarity=0.061 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.-.++++.+.++...+..++|.|.|||||++.
T Consensus 211 ~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~l 243 (520)
T PRK10820 211 PKMRQVVEQARKLAMLDAPLLITGDTGTGKDLL 243 (520)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCccHHHH
Confidence 444566677777777788999999999999964
No 417
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.11 E-value=0.35 Score=44.94 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=20.9
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
+..+|.||||+|||. |+-||+|+...
T Consensus 27 gl~~I~G~nGaGKST--ildAI~~aL~G 52 (1042)
T TIGR00618 27 PIFLICGKTGAGKTT--LLDAITYALYG 52 (1042)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHhcC
Confidence 678899999999995 46778888643
No 418
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=89.10 E-value=0.3 Score=35.35 Aligned_cols=17 Identities=29% Similarity=0.497 Sum_probs=14.3
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
..++|.||+|+|||...
T Consensus 2 ~~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLL 18 (179)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46889999999999654
No 419
>KOG1533|consensus
Probab=89.09 E-value=0.29 Score=40.16 Aligned_cols=29 Identities=24% Similarity=0.365 Sum_probs=24.1
Q ss_pred EEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 52 GIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 52 ~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-++-||.|+||| +|+....+++.+.++.+
T Consensus 5 qvVIGPPgSGKs-TYc~g~~~fls~~gr~~ 33 (290)
T KOG1533|consen 5 QVVIGPPGSGKS-TYCNGMSQFLSAIGRPV 33 (290)
T ss_pred eEEEcCCCCCcc-chhhhHHHHHHHhCCce
Confidence 467899999999 58888889998888754
No 420
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=89.05 E-value=0.85 Score=40.70 Aligned_cols=42 Identities=19% Similarity=0.345 Sum_probs=35.6
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~ 66 (115)
..-||.|++.|...+..+.+.+.++ ...++.|.+|+|||+.+
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~li 49 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTM 49 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHH
Confidence 4567999999999999999999766 35678999999999763
No 421
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=89.03 E-value=0.52 Score=40.88 Aligned_cols=36 Identities=28% Similarity=0.355 Sum_probs=27.6
Q ss_pred CCCCHHHHHHH---HHHHHHHhcC--CcEEEecCCCCCchH
Q psy14273 29 FDAYDIQSNFM---KNLYYTLDNS--KFGIFESPTGTGKSL 64 (115)
Q Consensus 29 f~~r~~Q~e~m---~~I~~~l~~~--~~~iiEaPTGtGKTl 64 (115)
++-+=+|.+++ .-+.+.+.++ .+.||-||.|+|||.
T Consensus 23 lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT 63 (436)
T COG2256 23 LDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT 63 (436)
T ss_pred HHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH
Confidence 34556788877 4566777777 579999999999995
No 422
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=88.98 E-value=0.45 Score=35.84 Aligned_cols=26 Identities=27% Similarity=0.310 Sum_probs=20.4
Q ss_pred HHHHHHHHHhcCCcEEEecCCCCCchH
Q psy14273 38 FMKNLYYTLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 38 ~m~~I~~~l~~~~~~iiEaPTGtGKTl 64 (115)
-++.+...+.. +..+|.|++|.|||.
T Consensus 25 g~~~l~~~l~~-k~~vl~G~SGvGKSS 50 (161)
T PF03193_consen 25 GIEELKELLKG-KTSVLLGQSGVGKSS 50 (161)
T ss_dssp THHHHHHHHTT-SEEEEECSTTSSHHH
T ss_pred CHHHHHHHhcC-CEEEEECCCCCCHHH
Confidence 34566666655 899999999999994
No 423
>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=88.97 E-value=0.25 Score=35.53 Aligned_cols=16 Identities=25% Similarity=0.333 Sum_probs=13.8
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
..+++.||.|||||.-
T Consensus 4 ~ii~i~G~~GsGKsTl 19 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQ 19 (188)
T ss_pred cEEEEECCCCCCHHHH
Confidence 5688999999999964
No 424
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=88.90 E-value=0.34 Score=44.23 Aligned_cols=50 Identities=14% Similarity=-0.028 Sum_probs=38.4
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 28 pf~-~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+++ ..|+|.- .|.+-|.+|.+.++-++|+|||||.-=++.+.-+...+++
T Consensus 213 G~~eLlPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~K 263 (830)
T COG1202 213 GIEELLPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKK 263 (830)
T ss_pred Ccceecchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCe
Confidence 355 6788887 5667888999999999999999998766666666664444
No 425
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=88.90 E-value=0.47 Score=40.73 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.7
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
+-+++.||.||||||-
T Consensus 186 KGVLLYGPPGTGKTLL 201 (406)
T COG1222 186 KGVLLYGPPGTGKTLL 201 (406)
T ss_pred CceEeeCCCCCcHHHH
Confidence 4588999999999964
No 426
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=88.88 E-value=0.051 Score=42.91 Aligned_cols=38 Identities=18% Similarity=0.403 Sum_probs=27.0
Q ss_pred ccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 25 ~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.|.|..+ ...+..+.-.+..|..+++-+|||+|||.-
T Consensus 9 l~~~y~~~---~~~l~~v~~~i~~Ge~~~i~G~nGsGKSTL 46 (235)
T COG1122 9 LSFRYPGR---KAALKDVSLEIEKGERVLLIGPNGSGKSTL 46 (235)
T ss_pred EEEEcCCC---ceeeeeeEEEECCCCEEEEECCCCCCHHHH
Confidence 35556554 344555555667788999999999999853
No 427
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=88.83 E-value=0.86 Score=37.70 Aligned_cols=44 Identities=9% Similarity=0.077 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHHHHhcCC--c-EEEecCCCCCchHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~--~-~iiEaPTGtGKTls~L~~al~~l 74 (115)
.||-|....+.+.+++.+++ | .+|+||.|+||+..+..-+-..+
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~ll 49 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLM 49 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence 36777888888888998873 4 55899999999876555443333
No 428
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=88.73 E-value=0.67 Score=40.63 Aligned_cols=34 Identities=15% Similarity=0.025 Sum_probs=27.3
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
.+.-.++.+.+.++...+..++|.|+|||||++.
T Consensus 331 s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~ 364 (638)
T PRK11388 331 SPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALL 364 (638)
T ss_pred CHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHH
Confidence 4556667777777777788899999999999964
No 429
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=88.72 E-value=0.61 Score=34.19 Aligned_cols=28 Identities=29% Similarity=0.500 Sum_probs=19.8
Q ss_pred HHHHHHhcC---CcEEEecCCCCCchHHHHH
Q psy14273 41 NLYYTLDNS---KFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 41 ~I~~~l~~~---~~~iiEaPTGtGKTls~L~ 68 (115)
.+.+.+.++ ...+|.||.|+|||.....
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~ 33 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELLALA 33 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 445566666 3488999999999865433
No 430
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=88.72 E-value=0.51 Score=34.07 Aligned_cols=31 Identities=16% Similarity=0.146 Sum_probs=22.5
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhhH
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAGL 82 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v~ 82 (115)
.+.+.||.|+|||. ++.-++.++...+.++.
T Consensus 2 vv~VvG~~~sGKTT-l~~~Li~~l~~~g~~v~ 32 (140)
T PF03205_consen 2 VVQVVGPKNSGKTT-LIRKLINELKRRGYRVA 32 (140)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHTT--EE
T ss_pred EEEEECCCCCCHHH-HHHHHHHHHhHcCCceE
Confidence 46789999999994 56667788877776653
No 431
>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=88.69 E-value=0.44 Score=36.64 Aligned_cols=35 Identities=17% Similarity=0.149 Sum_probs=21.7
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+..+..+++.||+|+|||.-.+--+...+ ..+.++
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~ 52 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPG 52 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcE
Confidence 33457899999999999964333233334 334443
No 432
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.67 E-value=0.49 Score=40.56 Aligned_cols=26 Identities=19% Similarity=0.120 Sum_probs=18.8
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+..+.|-||||+|||.++..-+-.++
T Consensus 191 g~vi~lvGpnG~GKTTtlakLA~~~~ 216 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTAKLAARAV 216 (420)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46788999999999987654433343
No 433
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=88.63 E-value=0.51 Score=36.55 Aligned_cols=28 Identities=18% Similarity=0.163 Sum_probs=19.8
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHH
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKW 73 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~ 73 (115)
+..+..+++.||+|+|||.-.+--+...
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~ 48 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGF 48 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 4456789999999999997643333333
No 434
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=88.60 E-value=0.28 Score=41.05 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.9
Q ss_pred HHhcCCcEEEecCCCCCchHH
Q psy14273 45 TLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTls 65 (115)
.+..|.++++-||+|+|||..
T Consensus 25 ~i~~Gef~vllGPSGcGKSTl 45 (338)
T COG3839 25 DIEDGEFVVLLGPSGCGKSTL 45 (338)
T ss_pred EEcCCCEEEEECCCCCCHHHH
Confidence 356788999999999999964
No 435
>PRK13973 thymidylate kinase; Provisional
Probab=88.57 E-value=0.48 Score=35.95 Aligned_cols=29 Identities=28% Similarity=0.330 Sum_probs=19.6
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
|..++|||+-|+|||.- +-.+..++...+
T Consensus 3 g~~IviEG~dGsGKtTq-~~~l~~~l~~~g 31 (213)
T PRK13973 3 GRFITFEGGEGAGKSTQ-IRLLAERLRAAG 31 (213)
T ss_pred ceEEEEEcCCCCCHHHH-HHHHHHHHHHCC
Confidence 67889999999999853 223345554443
No 436
>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=88.53 E-value=0.74 Score=43.94 Aligned_cols=38 Identities=21% Similarity=0.196 Sum_probs=30.5
Q ss_pred CHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 32 r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.+.|.+.+. ..+.++++.|+-|||||.++..=++..+.
T Consensus 3 t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~ 40 (1232)
T TIGR02785 3 TDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKIL 40 (1232)
T ss_pred CHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHh
Confidence 467888655 35788999999999999998777777664
No 437
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=88.52 E-value=0.46 Score=40.90 Aligned_cols=32 Identities=16% Similarity=0.094 Sum_probs=21.9
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
+..++|-||||+|||.+..--+.. +...+.+|
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~-l~~~g~~V 237 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQ-LLKQNRTV 237 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH-HHHcCCeE
Confidence 457889999999999876555543 33444444
No 438
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.51 E-value=0.64 Score=41.41 Aligned_cols=40 Identities=20% Similarity=0.285 Sum_probs=31.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLIC 68 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~ 68 (115)
|+.--+|....+.+.+++.++ .+ .||+||.|+|||....+
T Consensus 16 f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~ 58 (614)
T PRK14971 16 FESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARI 58 (614)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHH
Confidence 333347899999999999887 34 78999999999975444
No 439
>PRK08233 hypothetical protein; Provisional
Probab=88.37 E-value=0.31 Score=34.84 Aligned_cols=15 Identities=27% Similarity=0.366 Sum_probs=12.6
Q ss_pred CcEEEecCCCCCchH
Q psy14273 50 KFGIFESPTGTGKSL 64 (115)
Q Consensus 50 ~~~iiEaPTGtGKTl 64 (115)
..+.|.|++|+|||.
T Consensus 4 ~iI~I~G~~GsGKtT 18 (182)
T PRK08233 4 KIITIAAVSGGGKTT 18 (182)
T ss_pred eEEEEECCCCCCHHH
Confidence 457789999999994
No 440
>PRK10867 signal recognition particle protein; Provisional
Probab=88.35 E-value=0.48 Score=40.68 Aligned_cols=31 Identities=13% Similarity=-0.078 Sum_probs=21.0
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.||+|+|||.+..--|..+....+.+|
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV 132 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKV 132 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcE
Confidence 4778999999999875555444443325555
No 441
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=88.35 E-value=0.36 Score=35.58 Aligned_cols=17 Identities=29% Similarity=0.452 Sum_probs=14.2
Q ss_pred CCcEEEecCCCCCchHH
Q psy14273 49 SKFGIFESPTGTGKSLS 65 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls 65 (115)
+..++|-||+|+|||.-
T Consensus 2 g~~i~l~G~sGsGKsTl 18 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSL 18 (186)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 45789999999999953
No 442
>KOG2373|consensus
Probab=88.31 E-value=0.28 Score=42.50 Aligned_cols=19 Identities=26% Similarity=0.580 Sum_probs=15.5
Q ss_pred HhcCCcEEEecCCCCCchH
Q psy14273 46 LDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTl 64 (115)
...|..-|+.||||+|||.
T Consensus 270 hR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 270 HRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred CCCCceEEEecCCCCCcee
Confidence 3445678999999999995
No 443
>PHA00729 NTP-binding motif containing protein
Probab=88.29 E-value=0.78 Score=36.36 Aligned_cols=25 Identities=16% Similarity=0.272 Sum_probs=17.6
Q ss_pred HHHHHHhcC--CcEEEecCCCCCchHH
Q psy14273 41 NLYYTLDNS--KFGIFESPTGTGKSLS 65 (115)
Q Consensus 41 ~I~~~l~~~--~~~iiEaPTGtGKTls 65 (115)
.+.+.+..+ .+++|.|++|+|||.-
T Consensus 7 ~~~~~l~~~~f~nIlItG~pGvGKT~L 33 (226)
T PHA00729 7 KIVSAYNNNGFVSAVIFGKQGSGKTTY 33 (226)
T ss_pred HHHHHHhcCCeEEEEEECCCCCCHHHH
Confidence 344444444 4689999999999943
No 444
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=88.23 E-value=1.1 Score=38.80 Aligned_cols=50 Identities=22% Similarity=0.254 Sum_probs=33.9
Q ss_pred cCCCCCCH-HHHHHHHHHHHHHhcC-CcEEEecCCCCCchHHHHHHHHHHHHhhh
Q psy14273 26 PFPFDAYD-IQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYSDHK 78 (115)
Q Consensus 26 ~fpf~~r~-~Q~e~m~~I~~~l~~~-~~~iiEaPTGtGKTls~L~~al~~l~~~~ 78 (115)
.|+..||. .|.-.++.+ ++.. ..+.+-|+-|||||+-+||+++.-....+
T Consensus 223 vwGi~prn~eQ~~ALdlL---ld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~ 274 (436)
T COG1875 223 VWGIRPRNAEQRVALDLL---LDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERK 274 (436)
T ss_pred hhccCcccHHHHHHHHHh---cCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHh
Confidence 45566774 444444432 3333 56778999999999999999887665543
No 445
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=88.22 E-value=0.46 Score=43.60 Aligned_cols=32 Identities=22% Similarity=0.200 Sum_probs=23.1
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
...+.-+|.||||+|||.- +=|+.|+......
T Consensus 23 f~~gi~lI~G~nGsGKSSI--ldAI~~ALyG~~~ 54 (908)
T COG0419 23 FDSGIFLIVGPNGAGKSSI--LDAITFALYGKTP 54 (908)
T ss_pred CCCCeEEEECCCCCcHHHH--HHHHHHHHcCCCC
Confidence 3457788999999999953 5567777654444
No 446
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=88.21 E-value=0.81 Score=40.89 Aligned_cols=39 Identities=18% Similarity=0.118 Sum_probs=28.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
.-+.|.+.+. ...+.++|-|+.|||||.+++.=+...+.
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~l~~ria~Li~ 43 (726)
T TIGR01073 5 LNPEQREAVK------TTEGPLLIMAGAGSGKTRVLTHRIAHLIA 43 (726)
T ss_pred cCHHHHHHHh------CCCCCEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 4578888554 23567899999999999987776555554
No 447
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=88.14 E-value=0.62 Score=39.51 Aligned_cols=14 Identities=50% Similarity=0.883 Sum_probs=12.3
Q ss_pred cEEEecCCCCCchH
Q psy14273 51 FGIFESPTGTGKSL 64 (115)
Q Consensus 51 ~~iiEaPTGtGKTl 64 (115)
++++.||||+|||-
T Consensus 89 I~~VYGPTG~GKSq 102 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ 102 (369)
T ss_pred EEEEECCCCCCHHH
Confidence 58899999999993
No 448
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=88.11 E-value=0.92 Score=36.22 Aligned_cols=37 Identities=19% Similarity=0.091 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-EEEecCCCCCchHHHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS--KF-GIFESPTGTGKSLSLICG 69 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~--~~-~iiEaPTGtGKTls~L~~ 69 (115)
-+|...++.+.+++.++ .| .+|.||-|+|||..+..-
T Consensus 7 ~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~ 46 (313)
T PRK05564 7 IGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEI 46 (313)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHH
Confidence 36888888999999887 34 489999999999765444
No 449
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=88.05 E-value=0.82 Score=40.28 Aligned_cols=33 Identities=21% Similarity=0.267 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.-.++.+.+.+....+..++|.|++||||++.
T Consensus 226 ~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~ 258 (538)
T PRK15424 226 PQMEQVRQTILLYARSSAAVLIQGETGTGKELA 258 (538)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHH
Confidence 444445555555556678999999999999964
No 450
>PRK13975 thymidylate kinase; Provisional
Probab=88.03 E-value=0.32 Score=35.49 Aligned_cols=16 Identities=44% Similarity=0.754 Sum_probs=13.7
Q ss_pred CCcEEEecCCCCCchH
Q psy14273 49 SKFGIFESPTGTGKSL 64 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTl 64 (115)
+..++|+|+-|+|||.
T Consensus 2 ~~~I~ieG~~GsGKtT 17 (196)
T PRK13975 2 NKFIVFEGIDGSGKTT 17 (196)
T ss_pred CeEEEEECCCCCCHHH
Confidence 3578999999999985
No 451
>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=88.00 E-value=0.39 Score=36.16 Aligned_cols=20 Identities=25% Similarity=0.278 Sum_probs=16.0
Q ss_pred CCcEEEecCCCCCchHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLIC 68 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~ 68 (115)
.+|+.+-|-||||||.+.-.
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ 42 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKV 42 (229)
T ss_pred cceEEEECCCCCCHHHHHHH
Confidence 46888999999999976433
No 452
>PRK05595 replicative DNA helicase; Provisional
Probab=87.99 E-value=0.52 Score=39.82 Aligned_cols=41 Identities=5% Similarity=-0.144 Sum_probs=28.8
Q ss_pred HHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+..-+..|..+|+-|.||.|||.-.+--+..++..++.+|
T Consensus 193 ~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~v 233 (444)
T PRK05595 193 AKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSV 233 (444)
T ss_pred HhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcE
Confidence 33344556778999999999999876666555555556554
No 453
>PRK06547 hypothetical protein; Provisional
Probab=87.98 E-value=0.58 Score=34.91 Aligned_cols=24 Identities=17% Similarity=0.220 Sum_probs=16.1
Q ss_pred HHHHHhcC--CcEEEecCCCCCchHH
Q psy14273 42 LYYTLDNS--KFGIFESPTGTGKSLS 65 (115)
Q Consensus 42 I~~~l~~~--~~~iiEaPTGtGKTls 65 (115)
+...+..+ ..++|.||+|||||.-
T Consensus 6 ~~~~~~~~~~~~i~i~G~~GsGKTt~ 31 (172)
T PRK06547 6 IAARLCGGGMITVLIDGRSGSGKTTL 31 (172)
T ss_pred HHHHhhcCCCEEEEEECCCCCCHHHH
Confidence 33444444 3567789999999953
No 454
>KOG0731|consensus
Probab=87.96 E-value=0.7 Score=42.69 Aligned_cols=18 Identities=39% Similarity=0.458 Sum_probs=14.6
Q ss_pred CcEEEecCCCCCchHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L 67 (115)
+-+++.||.||||||-+-
T Consensus 345 kGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CceEEECCCCCcHHHHHH
Confidence 358899999999997533
No 455
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=87.93 E-value=0.43 Score=39.05 Aligned_cols=16 Identities=31% Similarity=0.449 Sum_probs=13.8
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
..++|.||||+|||.-
T Consensus 5 ~~i~i~GptgsGKt~l 20 (307)
T PRK00091 5 KVIVIVGPTASGKTAL 20 (307)
T ss_pred eEEEEECCCCcCHHHH
Confidence 5688999999999954
No 456
>PRK13768 GTPase; Provisional
Probab=87.90 E-value=0.52 Score=36.98 Aligned_cols=30 Identities=17% Similarity=0.340 Sum_probs=20.1
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+++.||.|+|||... ..+..++...+.++
T Consensus 4 ~i~v~G~~G~GKTt~~-~~~~~~l~~~g~~v 33 (253)
T PRK13768 4 IVFFLGTAGSGKTTLT-KALSDWLEEQGYDV 33 (253)
T ss_pred EEEEECCCCccHHHHH-HHHHHHHHhcCCce
Confidence 5788999999999643 33344555555554
No 457
>KOG0060|consensus
Probab=87.87 E-value=0.29 Score=44.23 Aligned_cols=20 Identities=20% Similarity=0.381 Sum_probs=17.2
Q ss_pred HhcCCcEEEecCCCCCchHH
Q psy14273 46 LDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls 65 (115)
+.+|++++|+||+|+|||.-
T Consensus 458 V~~g~~LLItG~sG~GKtSL 477 (659)
T KOG0060|consen 458 VPSGQNLLITGPSGCGKTSL 477 (659)
T ss_pred ecCCCeEEEECCCCCchhHH
Confidence 35689999999999999953
No 458
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=87.82 E-value=0.31 Score=45.67 Aligned_cols=30 Identities=17% Similarity=0.107 Sum_probs=24.7
Q ss_pred cEEEecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 51 FGIFESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 51 ~~iiEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
++=|+|-||||||.+||=.+...=+.++..
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~YG~~ 105 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKYGLF 105 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHhCce
Confidence 466899999999999998888777777644
No 459
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=87.81 E-value=0.31 Score=36.14 Aligned_cols=20 Identities=30% Similarity=0.639 Sum_probs=16.7
Q ss_pred HHhcCCcEEEecCCCCCchH
Q psy14273 45 TLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTl 64 (115)
.+..|..+.|.||+|+|||.
T Consensus 23 ~i~~G~~~~i~G~nGsGKST 42 (214)
T cd03292 23 SISAGEFVFLVGPSGAGKST 42 (214)
T ss_pred EEcCCCEEEEECCCCCCHHH
Confidence 34568889999999999984
No 460
>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=87.79 E-value=1.4 Score=36.43 Aligned_cols=34 Identities=15% Similarity=0.017 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHhcC----CcEEEecCCCCCchHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS----KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~----~~~iiEaPTGtGKTls~ 66 (115)
+........+.....+. ..++|.||+|+|||.-+
T Consensus 116 ~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~ 153 (405)
T TIGR00362 116 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLL 153 (405)
T ss_pred CcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHH
Confidence 44444444444444431 35789999999999654
No 461
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=87.78 E-value=1.4 Score=37.52 Aligned_cols=35 Identities=17% Similarity=-0.022 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhcC---CcEEEecCCCCCchHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~---~~~iiEaPTGtGKTls~L 67 (115)
+........+.+...+. ..+++.||+|+|||.-+.
T Consensus 111 ~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ 148 (440)
T PRK14088 111 PGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQ 148 (440)
T ss_pred CchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHH
Confidence 44444444554444432 358999999999996443
No 462
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=87.72 E-value=0.3 Score=38.79 Aligned_cols=32 Identities=22% Similarity=0.431 Sum_probs=22.1
Q ss_pred HHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 42 LYYTLDNSKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 42 I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
|.=.+..|..+.|-||+|||||. |+-++..+.
T Consensus 24 v~l~i~~Ge~vaI~GpSGSGKST--LLniig~ld 55 (226)
T COG1136 24 VNLEIEAGEFVAIVGPSGSGKST--LLNLLGGLD 55 (226)
T ss_pred ceEEEcCCCEEEEECCCCCCHHH--HHHHHhccc
Confidence 33345678899999999999984 344444443
No 463
>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=87.71 E-value=0.44 Score=34.70 Aligned_cols=17 Identities=24% Similarity=0.313 Sum_probs=14.6
Q ss_pred CCcEEEecCCCCCchHH
Q psy14273 49 SKFGIFESPTGTGKSLS 65 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls 65 (115)
++.+++.||.|+|||..
T Consensus 2 ~~~i~l~G~~gsGKst~ 18 (175)
T cd00227 2 GRIIILNGGSSAGKSSI 18 (175)
T ss_pred CCEEEEECCCCCCHHHH
Confidence 56799999999999953
No 464
>PRK11054 helD DNA helicase IV; Provisional
Probab=87.70 E-value=1.1 Score=40.43 Aligned_cols=40 Identities=13% Similarity=0.027 Sum_probs=27.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHH
Q psy14273 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (115)
Q Consensus 29 f~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l 74 (115)
+...+.|++.+. ....+++|-|+.|||||.+++.-+...+
T Consensus 195 ~~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r~ayLl 234 (684)
T PRK11054 195 SPLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVARAGWLL 234 (684)
T ss_pred CCCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHHHHHHH
Confidence 335688887443 2345788999999999988766543333
No 465
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=87.64 E-value=0.88 Score=43.48 Aligned_cols=52 Identities=23% Similarity=0.207 Sum_probs=37.1
Q ss_pred hhcCCCCCCccccCCCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHH
Q psy14273 14 EQRPLAEVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL 71 (115)
Q Consensus 14 ~~~~~~~~~~~~~fpf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al 71 (115)
|+-.-+..|..+.....+|++|.-- -+ +| +.--|.||.||=||||+.-+|+.
T Consensus 153 ~~~~w~~~g~~~~W~m~~yDVQliG--gi--vL--h~G~IAEM~TGEGKTLvAtlp~y 204 (1112)
T PRK12901 153 WKNHWDAGGNEITWDMVHYDVQLIG--GV--VL--HQGKIAEMATGEGKTLVATLPVY 204 (1112)
T ss_pred hhcccccccccccCCCcccchHHhh--hh--hh--cCCceeeecCCCCchhHHHHHHH
Confidence 4445566777777788888988642 22 23 33467899999999999888854
No 466
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=87.61 E-value=0.32 Score=36.71 Aligned_cols=20 Identities=20% Similarity=0.227 Sum_probs=17.0
Q ss_pred HHhcCCcEEEecCCCCCchH
Q psy14273 45 TLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTl 64 (115)
.+..|..+.|.||+|+|||.
T Consensus 27 ~i~~Ge~~~l~G~nGsGKST 46 (233)
T cd03258 27 SVPKGEIFGIIGRSGAGKST 46 (233)
T ss_pred EEcCCCEEEEECCCCCCHHH
Confidence 34578899999999999994
No 467
>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=87.56 E-value=0.28 Score=34.94 Aligned_cols=13 Identities=31% Similarity=0.409 Sum_probs=10.9
Q ss_pred EEEecCCCCCchH
Q psy14273 52 GIFESPTGTGKSL 64 (115)
Q Consensus 52 ~iiEaPTGtGKTl 64 (115)
+++.||+|+|||.
T Consensus 1 i~l~G~~GsGKST 13 (163)
T TIGR01313 1 FVLMGVAGSGKST 13 (163)
T ss_pred CEEECCCCCCHHH
Confidence 4678999999984
No 468
>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=87.53 E-value=0.58 Score=34.90 Aligned_cols=31 Identities=10% Similarity=0.024 Sum_probs=21.9
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+..+....|.||+|+|||.-.+.-+...+..
T Consensus 16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~ 46 (226)
T cd01393 16 IPTGRITEIFGEFGSGKTQLCLQLAVEAQLP 46 (226)
T ss_pred CcCCcEEEEeCCCCCChhHHHHHHHHHhhcc
Confidence 3445788999999999998666554444433
No 469
>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=87.47 E-value=0.69 Score=41.45 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.9
Q ss_pred CcEEEecCCCCCchHH
Q psy14273 50 KFGIFESPTGTGKSLS 65 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls 65 (115)
..++|.||+|||||+.
T Consensus 213 ~giLL~GppGtGKT~l 228 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLL 228 (733)
T ss_pred ceEEEECCCCCChHHH
Confidence 5689999999999954
No 470
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=87.47 E-value=1.2 Score=37.47 Aligned_cols=35 Identities=14% Similarity=-0.004 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHhcC----CcEEEecCCCCCchHHHH
Q psy14273 33 DIQSNFMKNLYYTLDNS----KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~----~~~iiEaPTGtGKTls~L 67 (115)
+........+.+...+. ..++|.||+|+|||.-+-
T Consensus 128 ~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ 166 (450)
T PRK00149 128 KSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLH 166 (450)
T ss_pred CCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHH
Confidence 44444555555444331 458999999999996543
No 471
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=87.45 E-value=0.61 Score=40.65 Aligned_cols=27 Identities=26% Similarity=0.449 Sum_probs=20.8
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDH 77 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~ 77 (115)
.+.-+|.||||+|||. |+-++.|+.-.
T Consensus 22 ~g~~vitG~nGaGKS~--ll~al~~~~g~ 48 (563)
T TIGR00634 22 RGLTVLTGETGAGKSM--IIDALSLLGGQ 48 (563)
T ss_pred CCeEEEECCCCCCHHH--HHHHHHHHhCc
Confidence 3578899999999985 46678887543
No 472
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=87.43 E-value=1.2 Score=42.52 Aligned_cols=50 Identities=10% Similarity=0.088 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 28 pf~~r~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
++...+.|.+.+..| ...+..+++.|+-|||||..+- ++...+...+.+|
T Consensus 379 ~~~Ls~eQ~~Av~~i---~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~~G~~V 428 (1102)
T PRK13826 379 HARLSDEQKTAIEHV---AGPARIAAVVGRAGAGKTTMMK-AAREAWEAAGYRV 428 (1102)
T ss_pred CCCCCHHHHHHHHHH---hccCCeEEEEeCCCCCHHHHHH-HHHHHHHHcCCeE
Confidence 466789999987765 3557889999999999997644 4455555556554
No 473
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=87.42 E-value=0.65 Score=35.29 Aligned_cols=34 Identities=18% Similarity=0.032 Sum_probs=21.0
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..+..+++.||+|+|||.-.+.-+...+. ++.++
T Consensus 23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~~-~g~~~ 56 (234)
T PRK06067 23 PFPSLILIEGDHGTGKSVLSQQFVYGALK-QGKKV 56 (234)
T ss_pred cCCcEEEEECCCCCChHHHHHHHHHHHHh-CCCEE
Confidence 34567899999999999543333333333 34443
No 474
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=87.35 E-value=0.35 Score=35.49 Aligned_cols=20 Identities=20% Similarity=0.288 Sum_probs=17.0
Q ss_pred HHhcCCcEEEecCCCCCchH
Q psy14273 45 TLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTl 64 (115)
.+..|.++.|-||+|+|||.
T Consensus 14 ~i~~Ge~~~i~G~nGsGKST 33 (190)
T TIGR01166 14 AAERGEVLALLGANGAGKST 33 (190)
T ss_pred EEcCCCEEEEECCCCCCHHH
Confidence 35678899999999999994
No 475
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=87.31 E-value=0.48 Score=40.00 Aligned_cols=17 Identities=29% Similarity=0.477 Sum_probs=14.6
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
+.+++.||+|||||+..
T Consensus 180 kgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLA 196 (398)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 56899999999999754
No 476
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=87.28 E-value=0.34 Score=36.12 Aligned_cols=20 Identities=30% Similarity=0.662 Sum_probs=16.9
Q ss_pred HHhcCCcEEEecCCCCCchH
Q psy14273 45 TLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTl 64 (115)
.+..|..+.|.||+|+|||.
T Consensus 26 ~i~~G~~~~l~G~nGsGKST 45 (218)
T cd03255 26 SIEKGEFVAIVGPSGSGKST 45 (218)
T ss_pred EEcCCCEEEEEcCCCCCHHH
Confidence 34568899999999999994
No 477
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=87.17 E-value=0.34 Score=35.71 Aligned_cols=19 Identities=26% Similarity=0.443 Sum_probs=16.3
Q ss_pred HhcCCcEEEecCCCCCchH
Q psy14273 46 LDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTl 64 (115)
+..|..+.|.||+|+|||.
T Consensus 21 i~~Ge~~~i~G~nGsGKST 39 (206)
T TIGR03608 21 IEKGKMYAIIGESGSGKST 39 (206)
T ss_pred EeCCcEEEEECCCCCCHHH
Confidence 4567889999999999994
No 478
>cd03242 ABC_RecF RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases with a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=87.11 E-value=0.71 Score=36.24 Aligned_cols=25 Identities=8% Similarity=0.179 Sum_probs=18.9
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+..+|.||+|+|||. |+-|+.++..
T Consensus 22 ~~~~i~G~NGsGKS~--ll~Ai~~~~~ 46 (270)
T cd03242 22 GVTVLVGENAQGKTN--LLEAISLLAT 46 (270)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHhcc
Confidence 467899999999985 3566666653
No 479
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=87.06 E-value=1.3 Score=36.48 Aligned_cols=39 Identities=18% Similarity=0.097 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHHHhcCC---cEEEecCCCCCchHHHHHH
Q psy14273 31 AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (115)
Q Consensus 31 ~r~~Q~e~m~~I~~~l~~~~---~~iiEaPTGtGKTls~L~~ 69 (115)
.||-|...-+.+.+.+.+++ ..+|.||.|+||+..+..-
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~ 45 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELF 45 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHH
Confidence 57888888888888888874 4789999999998654433
No 480
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=87.05 E-value=0.66 Score=40.27 Aligned_cols=31 Identities=23% Similarity=0.209 Sum_probs=21.4
Q ss_pred CcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 50 KFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
..++|-||||+|||.++..-+..+. ..+.++
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkV 272 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFH-GKKKTV 272 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHH-HcCCcE
Confidence 4678999999999987665554443 444444
No 481
>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=87.02 E-value=0.42 Score=34.20 Aligned_cols=14 Identities=43% Similarity=0.743 Sum_probs=12.5
Q ss_pred cEEEecCCCCCchH
Q psy14273 51 FGIFESPTGTGKSL 64 (115)
Q Consensus 51 ~~iiEaPTGtGKTl 64 (115)
.++|+||.|+|||.
T Consensus 2 ~I~ieG~~GsGKtT 15 (200)
T cd01672 2 FIVFEGIDGAGKTT 15 (200)
T ss_pred EEEEECCCCCCHHH
Confidence 57899999999985
No 482
>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=87.01 E-value=0.63 Score=36.58 Aligned_cols=33 Identities=18% Similarity=-0.073 Sum_probs=20.8
Q ss_pred cCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 48 NSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.+...++.||+|+|||.-.+--+...+. .+.++
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~v 67 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQAS-RGNPV 67 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcE
Confidence 4567899999999999644333333333 34443
No 483
>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=86.99 E-value=0.69 Score=42.43 Aligned_cols=38 Identities=13% Similarity=0.121 Sum_probs=28.0
Q ss_pred CCCHHHHHHHHHHHHHHhcC--CcEEEecCCCCCchHHHH
Q psy14273 30 DAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 30 ~~r~~Q~e~m~~I~~~l~~~--~~~iiEaPTGtGKTls~L 67 (115)
+|-=+|.+-++.+...|.++ .+.|+.||+|+|||..+-
T Consensus 173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~ 212 (852)
T TIGR03346 173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVE 212 (852)
T ss_pred CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHH
Confidence 34445666677888877654 689999999999996543
No 484
>KOG0745|consensus
Probab=86.99 E-value=0.38 Score=42.53 Aligned_cols=25 Identities=28% Similarity=0.339 Sum_probs=17.7
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHH
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYS 75 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~ 75 (115)
+.++++-+|||+||||- +-.|+-..
T Consensus 226 KSNvLllGPtGsGKTll--aqTLAr~l 250 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTLL--AQTLARVL 250 (564)
T ss_pred cccEEEECCCCCchhHH--HHHHHHHh
Confidence 35799999999999963 44444433
No 485
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=86.98 E-value=0.71 Score=41.35 Aligned_cols=30 Identities=13% Similarity=-0.013 Sum_probs=20.4
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHhhhh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSDHKI 79 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~~~~ 79 (115)
.+|.++-|+||+|||..+ ...+..+..++.
T Consensus 176 ~~H~lv~G~TGsGKT~l~-~~l~~q~i~~g~ 205 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLA-ELLITQDIRRGD 205 (634)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHHHHcCC
Confidence 368999999999999765 333433334333
No 486
>PRK14738 gmk guanylate kinase; Provisional
Probab=86.96 E-value=0.38 Score=36.36 Aligned_cols=17 Identities=24% Similarity=0.536 Sum_probs=14.5
Q ss_pred cCCcEEEecCCCCCchH
Q psy14273 48 NSKFGIFESPTGTGKSL 64 (115)
Q Consensus 48 ~~~~~iiEaPTGtGKTl 64 (115)
.+..+||.||.|+|||.
T Consensus 12 ~~~~ivi~GpsG~GK~t 28 (206)
T PRK14738 12 KPLLVVISGPSGVGKDA 28 (206)
T ss_pred CCeEEEEECcCCCCHHH
Confidence 34678999999999995
No 487
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=86.95 E-value=1.2 Score=34.89 Aligned_cols=33 Identities=24% Similarity=0.344 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
|-=..+...+..++..+..+.+.||+|||||-+
T Consensus 16 plt~r~~~~l~~al~~~~~~~~~GpagtGKtet 48 (231)
T PF12774_consen 16 PLTDRCFLTLTQALSLNLGGALSGPAGTGKTET 48 (231)
T ss_dssp HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHH
T ss_pred hHHHHHHHHHHHHhccCCCCCCcCCCCCCchhH
Confidence 444556666777787778899999999999976
No 488
>PRK05748 replicative DNA helicase; Provisional
Probab=86.88 E-value=0.65 Score=39.19 Aligned_cols=37 Identities=11% Similarity=-0.004 Sum_probs=26.1
Q ss_pred HHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
-+..|..+||-|+||+|||.-.+--+...+..++..+
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v 235 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNV 235 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeE
Confidence 3445678999999999999766655555555555554
No 489
>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=86.83 E-value=0.46 Score=37.26 Aligned_cols=26 Identities=23% Similarity=0.588 Sum_probs=18.4
Q ss_pred EecCCCCCchHHHHHHHHHHHHhhhhh
Q psy14273 54 FESPTGTGKSLSLICGILKWYSDHKIA 80 (115)
Q Consensus 54 iEaPTGtGKTls~L~~al~~l~~~~~~ 80 (115)
+-||-||||| +|+...-.|+...++.
T Consensus 1 ViGpaGSGKT-T~~~~~~~~~~~~~~~ 26 (238)
T PF03029_consen 1 VIGPAGSGKT-TFCKGLSEWLESNGRD 26 (238)
T ss_dssp -EESTTSSHH-HHHHHHHHHHTTT-S-
T ss_pred CCCCCCCCHH-HHHHHHHHHHHhccCC
Confidence 3589999998 4667777888777544
No 490
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=86.80 E-value=0.69 Score=34.41 Aligned_cols=18 Identities=22% Similarity=0.237 Sum_probs=15.0
Q ss_pred CcEEEecCCCCCchHHHH
Q psy14273 50 KFGIFESPTGTGKSLSLI 67 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~L 67 (115)
..++..|+||+|||.+..
T Consensus 25 ~~i~~yG~tGsGKT~Tm~ 42 (186)
T cd01363 25 VCIFAYGQTGSGKTYTME 42 (186)
T ss_pred eeEEEECCCCCcceEecC
Confidence 557789999999998764
No 491
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=86.76 E-value=1.1 Score=39.38 Aligned_cols=33 Identities=15% Similarity=0.089 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEecCCCCCchHH
Q psy14273 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (115)
Q Consensus 33 ~~Q~e~m~~I~~~l~~~~~~iiEaPTGtGKTls 65 (115)
+.-.++.+.+.+....+..++|.|.+||||++.
T Consensus 219 ~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~l 251 (526)
T TIGR02329 219 APMEQVRALVRLYARSDATVLILGESGTGKELV 251 (526)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHH
Confidence 444455555555566678999999999999964
No 492
>PRK14737 gmk guanylate kinase; Provisional
Probab=86.67 E-value=0.41 Score=36.02 Aligned_cols=16 Identities=44% Similarity=0.476 Sum_probs=13.9
Q ss_pred CCcEEEecCCCCCchH
Q psy14273 49 SKFGIFESPTGTGKSL 64 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTl 64 (115)
+..+||.||+|+|||.
T Consensus 4 ~~~ivl~GpsG~GK~t 19 (186)
T PRK14737 4 PKLFIISSVAGGGKST 19 (186)
T ss_pred CeEEEEECCCCCCHHH
Confidence 4678999999999994
No 493
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=86.67 E-value=0.61 Score=43.72 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=21.7
Q ss_pred HhcCCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 46 LDNSKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
+..++..+|.||||+|||.. +=+|+|+..
T Consensus 27 l~~~~l~~I~G~tGaGKSti--ldai~~aLy 55 (1047)
T PRK10246 27 FASNGLFAITGPTGAGKTTL--LDAICLALY 55 (1047)
T ss_pred CCCCCEEEEECCCCCCHHHH--HHHHHHHhc
Confidence 34567889999999999964 456677654
No 494
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=86.66 E-value=1.7 Score=33.69 Aligned_cols=34 Identities=21% Similarity=0.184 Sum_probs=26.6
Q ss_pred hcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 47 DNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 47 ~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.....+++..++|.|||.+.+.-++..+- ++.+|
T Consensus 20 ~~~g~v~v~~g~GkGKtt~a~g~a~ra~g-~G~~V 53 (191)
T PRK05986 20 EEKGLLIVHTGNGKGKSTAAFGMALRAVG-HGKKV 53 (191)
T ss_pred ccCCeEEEECCCCCChHHHHHHHHHHHHH-CCCeE
Confidence 35678999999999999999988887664 34444
No 495
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=86.65 E-value=0.4 Score=35.64 Aligned_cols=24 Identities=21% Similarity=0.541 Sum_probs=18.6
Q ss_pred HHHHHHhcCCcEEEecCCCCCchH
Q psy14273 41 NLYYTLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 41 ~I~~~l~~~~~~iiEaPTGtGKTl 64 (115)
.+.=.+..|..+.|.||+|+|||.
T Consensus 20 ~is~~i~~G~~~~l~G~nGsGKST 43 (214)
T TIGR02673 20 DVSLHIRKGEFLFLTGPSGAGKTT 43 (214)
T ss_pred ceeEEEcCCCEEEEECCCCCCHHH
Confidence 333345678899999999999985
No 496
>PHA02562 46 endonuclease subunit; Provisional
Probab=86.65 E-value=0.6 Score=39.68 Aligned_cols=26 Identities=23% Similarity=0.183 Sum_probs=20.1
Q ss_pred CCcEEEecCCCCCchHHHHHHHHHHHHh
Q psy14273 49 SKFGIFESPTGTGKSLSLICGILKWYSD 76 (115)
Q Consensus 49 ~~~~iiEaPTGtGKTls~L~~al~~l~~ 76 (115)
.+..+|.||||+|||.. +-|++|+..
T Consensus 27 ~g~~~i~G~NG~GKStl--l~aI~~~l~ 52 (562)
T PHA02562 27 VKKTLITGKNGAGKSTM--LEALTFALF 52 (562)
T ss_pred CCEEEEECCCCCCHHHH--HHHHHHHHc
Confidence 46788899999999853 566777764
No 497
>PRK08760 replicative DNA helicase; Provisional
Probab=86.64 E-value=0.67 Score=39.93 Aligned_cols=38 Identities=13% Similarity=-0.048 Sum_probs=28.0
Q ss_pred HHHhcCCcEEEecCCCCCchHHHHHHHHHHHHhhhhhh
Q psy14273 44 YTLDNSKFGIFESPTGTGKSLSLICGILKWYSDHKIAG 81 (115)
Q Consensus 44 ~~l~~~~~~iiEaPTGtGKTls~L~~al~~l~~~~~~v 81 (115)
.-+..|..+||-|.+|+|||.-.|--+...+..++..|
T Consensus 224 ~G~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V 261 (476)
T PRK08760 224 AGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGV 261 (476)
T ss_pred cCCCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCce
Confidence 34556778999999999999877766666655555554
No 498
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=86.62 E-value=0.3 Score=38.65 Aligned_cols=20 Identities=30% Similarity=0.468 Sum_probs=17.0
Q ss_pred HHhcCCcEEEecCCCCCchH
Q psy14273 45 TLDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 45 ~l~~~~~~iiEaPTGtGKTl 64 (115)
++..|..++|++|+|+|||.
T Consensus 24 ~l~~Ge~~~i~G~NG~GKTt 43 (209)
T COG4133 24 TLNAGEALQITGPNGAGKTT 43 (209)
T ss_pred EEcCCCEEEEECCCCCcHHH
Confidence 35668899999999999994
No 499
>CHL00195 ycf46 Ycf46; Provisional
Probab=86.57 E-value=0.68 Score=40.30 Aligned_cols=17 Identities=35% Similarity=0.378 Sum_probs=14.4
Q ss_pred CcEEEecCCCCCchHHH
Q psy14273 50 KFGIFESPTGTGKSLSL 66 (115)
Q Consensus 50 ~~~iiEaPTGtGKTls~ 66 (115)
+.+++.||.|||||+..
T Consensus 260 kGILL~GPpGTGKTllA 276 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA 276 (489)
T ss_pred ceEEEECCCCCcHHHHH
Confidence 45899999999999654
No 500
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=86.48 E-value=0.41 Score=35.56 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=16.3
Q ss_pred HhcCCcEEEecCCCCCchH
Q psy14273 46 LDNSKFGIFESPTGTGKSL 64 (115)
Q Consensus 46 l~~~~~~iiEaPTGtGKTl 64 (115)
+..|..+.|-||+|+|||.
T Consensus 23 i~~G~~~~i~G~nGsGKST 41 (210)
T cd03269 23 VEKGEIFGLLGPNGAGKTT 41 (210)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 4567889999999999994
Done!