Query psy3307
Match_columns 130
No_of_seqs 142 out of 1039
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 21:38:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3307.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3307hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00110 helicase; Provisional 99.9 3.6E-27 7.9E-32 184.2 14.1 118 2-130 121-238 (545)
2 KOG0330|consensus 99.9 1.6E-27 3.4E-32 175.3 10.5 106 9-130 59-164 (476)
3 PRK04837 ATP-dependent RNA hel 99.9 2E-26 4.3E-31 175.4 13.9 112 9-129 6-117 (423)
4 PLN00206 DEAD-box ATP-dependen 99.9 1.3E-26 2.8E-31 180.4 13.0 119 2-129 112-230 (518)
5 KOG0331|consensus 99.9 1.2E-26 2.7E-31 177.4 10.6 113 8-130 88-200 (519)
6 COG0513 SrmB Superfamily II DN 99.9 9.2E-26 2E-30 175.3 13.2 107 10-130 28-135 (513)
7 KOG0340|consensus 99.9 6.1E-26 1.3E-30 165.4 9.3 107 8-130 4-110 (442)
8 PRK04537 ATP-dependent RNA hel 99.9 3.2E-25 6.9E-30 174.1 13.8 113 9-130 7-119 (572)
9 PRK10590 ATP-dependent RNA hel 99.9 4.8E-25 1E-29 169.3 13.1 108 12-129 2-109 (456)
10 KOG0346|consensus 99.9 1.3E-25 2.9E-30 167.3 9.2 103 11-123 19-121 (569)
11 KOG0338|consensus 99.9 7.7E-26 1.7E-30 171.1 7.9 108 10-130 180-287 (691)
12 PRK11776 ATP-dependent RNA hel 99.9 1.2E-24 2.5E-29 167.2 13.3 104 10-129 3-107 (460)
13 KOG0334|consensus 99.9 4.5E-25 9.8E-30 177.0 9.3 118 2-130 356-473 (997)
14 PRK11192 ATP-dependent RNA hel 99.9 3.1E-24 6.7E-29 163.8 13.4 106 12-129 2-107 (434)
15 KOG0348|consensus 99.9 1.6E-24 3.4E-29 164.7 11.2 110 7-126 132-242 (708)
16 PRK11634 ATP-dependent RNA hel 99.9 3.9E-24 8.3E-29 169.4 13.4 105 9-129 4-109 (629)
17 PRK01297 ATP-dependent RNA hel 99.9 1.3E-23 2.7E-28 162.2 13.9 112 9-129 85-196 (475)
18 KOG0345|consensus 99.9 1.3E-23 2.8E-28 157.6 12.2 108 11-129 4-114 (567)
19 KOG0343|consensus 99.9 4E-24 8.8E-29 163.1 6.7 111 7-129 65-175 (758)
20 PTZ00424 helicase 45; Provisio 99.9 7.4E-23 1.6E-27 154.5 13.0 105 8-128 25-129 (401)
21 KOG0347|consensus 99.9 3.1E-24 6.7E-29 163.6 5.1 118 8-130 178-298 (731)
22 KOG0335|consensus 99.9 1.2E-23 2.6E-28 159.2 8.1 123 2-130 65-187 (482)
23 KOG0333|consensus 99.9 3.2E-23 6.9E-28 157.3 9.8 121 3-130 237-357 (673)
24 TIGR03817 DECH_helic helicase/ 99.9 2.8E-22 6.1E-27 161.3 13.8 109 2-128 3-113 (742)
25 KOG0342|consensus 99.9 5.5E-23 1.2E-27 154.8 9.1 108 10-129 81-189 (543)
26 KOG0339|consensus 99.9 7.1E-23 1.5E-27 155.2 7.7 118 2-130 214-331 (731)
27 KOG0326|consensus 99.9 1.2E-23 2.7E-28 152.1 2.6 110 3-128 77-186 (459)
28 cd00268 DEADc DEAD-box helicas 99.9 2.4E-21 5.2E-26 134.0 13.4 103 13-129 1-103 (203)
29 KOG0328|consensus 99.9 7.1E-23 1.5E-27 146.1 4.7 106 8-129 24-129 (400)
30 KOG0341|consensus 99.9 7.8E-23 1.7E-27 151.2 4.5 114 1-122 160-273 (610)
31 KOG0337|consensus 99.9 6.6E-22 1.4E-26 147.0 7.2 106 10-130 20-125 (529)
32 KOG0344|consensus 99.8 3.9E-21 8.5E-26 147.2 9.3 115 1-126 122-242 (593)
33 PRK02362 ski2-like helicase; P 99.8 7.3E-20 1.6E-24 147.6 12.1 97 12-128 2-99 (737)
34 KOG0350|consensus 99.8 3.6E-20 7.8E-25 140.1 8.1 112 3-129 119-249 (620)
35 PRK00254 ski2-like helicase; P 99.8 1.9E-19 4.2E-24 144.9 12.4 99 12-129 2-101 (720)
36 KOG0336|consensus 99.8 5.4E-20 1.2E-24 137.0 4.9 116 4-130 212-328 (629)
37 KOG0327|consensus 99.8 5.7E-20 1.2E-24 135.1 4.6 105 9-129 24-128 (397)
38 KOG0329|consensus 99.8 2.7E-19 5.7E-24 126.5 6.4 112 3-130 34-146 (387)
39 COG1201 Lhr Lhr-like helicases 99.8 3.7E-18 8.1E-23 137.0 11.8 98 18-127 8-105 (814)
40 PRK01172 ski2-like helicase; P 99.8 7.4E-18 1.6E-22 134.9 12.0 96 12-128 2-97 (674)
41 PRK13767 ATP-dependent helicas 99.7 3.1E-17 6.8E-22 134.3 12.2 88 18-116 18-105 (876)
42 PF00270 DEAD: DEAD/DEAH box h 99.7 4.7E-17 1E-21 109.1 10.8 78 35-129 1-78 (169)
43 KOG0332|consensus 99.7 5E-18 1.1E-22 125.0 6.4 103 10-128 89-193 (477)
44 KOG4284|consensus 99.7 4.7E-18 1E-22 132.3 3.2 110 4-129 18-128 (980)
45 PRK12899 secA preprotein trans 99.7 2.9E-16 6.4E-21 127.1 11.2 98 14-130 65-170 (970)
46 PRK10917 ATP-dependent DNA hel 99.7 6.1E-16 1.3E-20 124.0 11.7 90 20-129 248-344 (681)
47 TIGR00643 recG ATP-dependent D 99.7 7.8E-16 1.7E-20 122.5 11.2 90 20-129 223-318 (630)
48 TIGR00614 recQ_fam ATP-depende 99.7 4.4E-16 9.5E-21 120.3 9.2 69 28-118 6-74 (470)
49 TIGR01054 rgy reverse gyrase. 99.7 1E-15 2.2E-20 128.1 11.9 88 21-127 66-153 (1171)
50 PRK09401 reverse gyrase; Revie 99.7 1.5E-15 3.3E-20 127.0 12.1 81 29-129 77-157 (1176)
51 COG1205 Distinct helicase fami 99.6 1.7E-15 3.6E-20 123.5 11.8 89 18-123 55-143 (851)
52 TIGR00580 mfd transcription-re 99.6 2.3E-15 5.1E-20 123.5 12.4 93 17-129 435-534 (926)
53 PRK11057 ATP-dependent DNA hel 99.6 2.3E-15 5E-20 119.4 11.0 81 16-118 7-88 (607)
54 PRK14701 reverse gyrase; Provi 99.6 2.9E-15 6.3E-20 128.0 11.6 85 21-125 67-152 (1638)
55 PLN03137 ATP-dependent DNA hel 99.6 3.6E-15 7.8E-20 122.9 11.6 84 11-116 435-521 (1195)
56 TIGR01389 recQ ATP-dependent D 99.6 8.5E-15 1.8E-19 115.9 9.8 72 25-118 4-76 (591)
57 PRK12898 secA preprotein trans 99.6 1.3E-14 2.7E-19 115.0 10.2 81 28-130 99-179 (656)
58 TIGR02621 cas3_GSU0051 CRISPR- 99.6 8.6E-15 1.9E-19 118.3 9.0 76 29-122 12-89 (844)
59 PRK10689 transcription-repair 99.6 2.7E-14 5.9E-19 119.4 11.5 90 20-129 588-683 (1147)
60 COG1204 Superfamily II helicas 99.5 4E-13 8.6E-18 108.6 10.5 96 14-128 12-108 (766)
61 TIGR01407 dinG_rel DnaQ family 99.5 7.6E-13 1.6E-17 108.6 11.2 92 18-129 231-329 (850)
62 PHA02558 uvsW UvsW helicase; P 99.4 2E-12 4.4E-17 100.7 10.0 72 32-121 113-184 (501)
63 PRK09200 preprotein translocas 99.4 2.4E-12 5.3E-17 104.0 9.8 80 29-130 75-154 (790)
64 KOG0952|consensus 99.4 2.2E-12 4.7E-17 105.0 8.8 91 28-127 105-196 (1230)
65 COG1202 Superfamily II helicas 99.4 3.6E-12 7.9E-17 98.9 8.8 101 10-128 193-294 (830)
66 TIGR00963 secA preprotein tran 99.4 4.4E-12 9.5E-17 101.6 9.4 80 29-130 53-132 (745)
67 PRK07246 bifunctional ATP-depe 99.3 5.7E-12 1.2E-16 103.0 9.7 82 27-129 240-326 (820)
68 TIGR03714 secA2 accessory Sec 99.3 1.5E-11 3.1E-16 99.0 10.1 79 29-129 67-145 (762)
69 TIGR03117 cas_csf4 CRISPR-asso 99.3 1.7E-11 3.6E-16 97.4 9.8 69 43-128 11-82 (636)
70 PRK05580 primosome assembly pr 99.3 5.2E-11 1.1E-15 95.8 12.3 67 33-118 144-213 (679)
71 smart00487 DEXDc DEAD-like hel 99.3 4.2E-11 9.1E-16 81.0 9.7 78 28-122 3-81 (201)
72 smart00489 DEXDc3 DEAD-like he 99.3 4.7E-11 1E-15 87.3 9.9 77 29-119 5-85 (289)
73 smart00488 DEXDc2 DEAD-like he 99.3 4.7E-11 1E-15 87.3 9.9 77 29-119 5-85 (289)
74 TIGR03158 cas3_cyano CRISPR-as 99.2 4.3E-11 9.2E-16 89.8 8.4 64 37-122 1-66 (357)
75 PHA02653 RNA helicase NPH-II; 99.2 5.2E-11 1.1E-15 95.4 8.7 74 35-121 166-248 (675)
76 PRK13104 secA preprotein trans 99.2 2E-10 4.3E-15 93.6 9.3 80 29-130 79-158 (896)
77 TIGR01587 cas3_core CRISPR-ass 99.1 1.8E-10 3.8E-15 86.1 7.3 52 50-118 1-52 (358)
78 PRK13766 Hef nuclease; Provisi 99.1 5.9E-10 1.3E-14 90.9 10.5 71 32-121 14-84 (773)
79 PF04851 ResIII: Type III rest 99.1 6.5E-10 1.4E-14 75.0 8.0 66 33-120 3-75 (184)
80 KOG0349|consensus 99.1 3.1E-11 6.7E-16 91.4 1.4 66 10-75 1-66 (725)
81 KOG0353|consensus 99.0 6.5E-10 1.4E-14 83.2 6.8 85 14-120 74-159 (695)
82 PRK08074 bifunctional ATP-depe 99.0 2.2E-09 4.8E-14 89.1 10.2 80 30-128 255-341 (928)
83 PRK11747 dinG ATP-dependent DN 99.0 3.8E-09 8.3E-14 85.4 11.2 77 30-125 23-109 (697)
84 COG1200 RecG RecG-like helicas 99.0 3.4E-09 7.5E-14 83.8 9.2 94 16-129 245-345 (677)
85 PRK09751 putative ATP-dependen 99.0 1.3E-09 2.8E-14 93.1 7.2 59 53-117 1-59 (1490)
86 TIGR00604 rad3 DNA repair heli 99.0 5.6E-09 1.2E-13 84.6 9.6 75 29-119 6-84 (705)
87 PRK11664 ATP-dependent RNA hel 98.9 3.7E-09 8E-14 86.6 8.4 69 39-126 11-80 (812)
88 COG0514 RecQ Superfamily II DN 98.9 3.5E-09 7.6E-14 83.3 7.7 74 24-119 7-81 (590)
89 PRK12904 preprotein translocas 98.9 5E-09 1.1E-13 85.2 8.7 80 29-130 78-157 (830)
90 KOG0354|consensus 98.9 4.3E-09 9.4E-14 84.2 7.5 71 33-121 62-132 (746)
91 COG1110 Reverse gyrase [DNA re 98.9 2.7E-08 5.9E-13 81.7 11.4 74 30-123 80-153 (1187)
92 COG1061 SSL2 DNA or RNA helica 98.9 8.3E-09 1.8E-13 79.5 8.1 65 33-119 36-104 (442)
93 TIGR01970 DEAH_box_HrpB ATP-de 98.9 1.7E-08 3.6E-13 82.8 9.2 68 39-125 8-76 (819)
94 COG1199 DinG Rad3-related DNA 98.8 2.1E-08 4.5E-13 80.5 9.4 73 28-118 10-86 (654)
95 KOG0951|consensus 98.8 1.6E-08 3.5E-13 84.3 8.8 100 18-127 296-396 (1674)
96 PRK13107 preprotein translocas 98.8 1.5E-08 3.2E-13 82.9 8.0 80 29-130 79-158 (908)
97 cd00046 DEXDc DEAD-like helica 98.8 4.9E-08 1.1E-12 62.3 8.4 56 49-121 1-56 (144)
98 KOG0352|consensus 98.8 2.1E-08 4.5E-13 76.1 7.3 75 22-118 7-84 (641)
99 COG4581 Superfamily II RNA hel 98.7 4.3E-08 9.4E-13 81.2 8.4 75 25-119 112-186 (1041)
100 PRK09694 helicase Cas3; Provis 98.7 6.3E-08 1.4E-12 79.8 9.2 73 32-121 285-357 (878)
101 PRK11448 hsdR type I restricti 98.7 4.9E-08 1.1E-12 82.3 8.7 70 33-119 413-487 (1123)
102 TIGR00603 rad25 DNA repair hel 98.7 1.6E-07 3.4E-12 76.0 9.0 65 33-119 255-322 (732)
103 COG1111 MPH1 ERCC4-like helica 98.6 5.1E-07 1.1E-11 69.6 8.8 75 33-126 15-89 (542)
104 TIGR00595 priA primosomal prot 98.5 2.8E-07 6E-12 72.3 6.9 48 52-118 1-48 (505)
105 PRK12906 secA preprotein trans 98.5 9E-07 2E-11 72.1 8.9 79 29-129 77-155 (796)
106 PRK12326 preprotein translocas 98.5 2.1E-06 4.6E-11 69.2 10.2 79 29-129 75-153 (764)
107 COG1197 Mfd Transcription-repa 98.4 3.4E-06 7.3E-11 70.6 10.9 93 17-129 578-677 (1139)
108 PF13086 AAA_11: AAA domain; P 98.4 2.2E-06 4.7E-11 59.7 8.3 73 34-117 2-75 (236)
109 TIGR00348 hsdR type I site-spe 98.4 1.1E-06 2.3E-11 71.1 7.4 71 33-120 238-318 (667)
110 KOG0351|consensus 98.4 2.6E-07 5.7E-12 76.5 4.0 68 26-115 257-324 (941)
111 PF13245 AAA_19: Part of AAA d 98.4 4.4E-06 9.5E-11 49.4 7.4 60 41-115 2-62 (76)
112 PF00580 UvrD-helicase: UvrD/R 98.3 6.1E-06 1.3E-10 60.0 8.5 71 34-121 1-71 (315)
113 PRK13103 secA preprotein trans 98.2 1.5E-05 3.2E-10 65.8 9.3 79 29-129 79-157 (913)
114 COG1198 PriA Primosomal protei 98.2 1.7E-05 3.6E-10 64.5 9.2 67 33-118 198-268 (730)
115 COG1203 CRISPR-associated heli 98.1 1.8E-05 3.9E-10 64.7 8.7 77 33-124 195-275 (733)
116 KOG1132|consensus 98.1 2.1E-05 4.5E-10 64.3 8.7 95 29-124 18-139 (945)
117 PF07517 SecA_DEAD: SecA DEAD- 98.1 5.5E-05 1.2E-09 54.8 10.0 80 28-129 73-152 (266)
118 COG0556 UvrB Helicase subunit 98.1 8.7E-06 1.9E-10 63.6 5.9 70 33-124 12-86 (663)
119 PF13604 AAA_30: AAA domain; P 98.1 5.2E-05 1.1E-09 52.5 8.9 63 33-114 1-65 (196)
120 TIGR00376 DNA helicase, putati 98.0 5E-05 1.1E-09 61.3 9.7 66 33-117 157-223 (637)
121 CHL00122 secA preprotein trans 98.0 3.8E-05 8.3E-10 63.1 8.5 79 29-129 73-151 (870)
122 KOG0947|consensus 98.0 2.9E-05 6.2E-10 64.2 7.4 76 28-123 293-368 (1248)
123 KOG0948|consensus 97.9 3.6E-05 7.8E-10 62.3 6.6 77 28-124 125-201 (1041)
124 COG4096 HsdR Type I site-speci 97.8 6.6E-05 1.4E-09 61.2 6.9 72 33-121 165-241 (875)
125 KOG1802|consensus 97.8 0.0001 2.2E-09 59.1 7.7 82 25-128 402-483 (935)
126 PF02562 PhoH: PhoH-like prote 97.8 5.7E-05 1.2E-09 52.8 5.4 59 32-107 3-61 (205)
127 KOG0951|consensus 97.8 2.3E-05 5.1E-10 66.2 3.9 75 33-127 1143-1219(1674)
128 PRK15483 type III restriction- 97.7 0.00023 5E-09 59.5 8.9 51 49-116 60-110 (986)
129 KOG1803|consensus 97.7 0.00015 3.3E-09 57.4 6.9 64 33-115 185-249 (649)
130 PRK12902 secA preprotein trans 97.6 0.00049 1.1E-08 57.1 9.2 79 29-129 82-160 (939)
131 PF07652 Flavi_DEAD: Flaviviru 97.6 0.00013 2.7E-09 48.2 4.0 54 47-118 3-56 (148)
132 KOG0949|consensus 97.5 0.00029 6.3E-09 58.7 6.9 69 33-118 511-579 (1330)
133 PF00176 SNF2_N: SNF2 family N 97.5 0.00085 1.8E-08 48.5 8.4 66 47-127 24-89 (299)
134 KOG0950|consensus 97.5 0.00033 7.3E-09 57.9 6.6 95 15-127 205-301 (1008)
135 KOG1133|consensus 97.5 0.00026 5.6E-09 57.0 5.3 44 33-76 15-62 (821)
136 TIGR00631 uvrb excinuclease AB 97.4 0.00091 2E-08 54.3 8.4 67 33-121 9-80 (655)
137 PRK11131 ATP-dependent RNA hel 97.4 0.00057 1.2E-08 58.8 7.4 69 39-125 80-153 (1294)
138 PRK11054 helD DNA helicase IV; 97.4 0.0024 5.1E-08 52.2 10.6 80 30-126 193-272 (684)
139 PRK10919 ATP-dependent DNA hel 97.2 0.0019 4.2E-08 52.6 8.2 70 33-119 2-71 (672)
140 PRK10536 hypothetical protein; 97.2 0.0015 3.3E-08 47.2 6.6 47 29-75 55-101 (262)
141 PRK13894 conjugal transfer ATP 97.2 0.0026 5.6E-08 47.4 7.5 48 23-73 124-172 (319)
142 COG4889 Predicted helicase [Ge 97.1 0.00096 2.1E-08 55.5 5.5 75 21-117 149-228 (1518)
143 PRK12903 secA preprotein trans 97.1 0.004 8.6E-08 51.8 8.7 79 29-129 75-153 (925)
144 TIGR02785 addA_Gpos recombinat 97.1 0.0028 6.1E-08 54.9 8.2 66 34-117 2-67 (1232)
145 PRK10875 recD exonuclease V su 97.1 0.0051 1.1E-07 49.7 9.0 68 35-117 154-221 (615)
146 TIGR01075 uvrD DNA helicase II 97.1 0.0032 6.9E-08 51.6 8.0 72 32-120 3-74 (715)
147 TIGR01448 recD_rel helicase, p 97.1 0.0077 1.7E-07 49.5 10.1 67 29-113 320-386 (720)
148 TIGR01074 rep ATP-dependent DN 97.0 0.0041 8.9E-08 50.5 8.3 70 34-120 2-71 (664)
149 PRK13889 conjugal transfer rel 97.0 0.01 2.2E-07 50.4 10.0 64 29-112 343-407 (988)
150 TIGR02768 TraA_Ti Ti-type conj 96.9 0.012 2.6E-07 48.6 10.2 76 18-113 338-414 (744)
151 PRK13833 conjugal transfer pro 96.9 0.0039 8.5E-08 46.5 6.8 46 25-73 122-168 (323)
152 TIGR01447 recD exodeoxyribonuc 96.9 0.0078 1.7E-07 48.4 8.8 69 35-117 147-215 (586)
153 TIGR02782 TrbB_P P-type conjug 96.9 0.0049 1.1E-07 45.5 7.2 49 22-73 107-156 (299)
154 PRK11773 uvrD DNA-dependent he 96.9 0.0059 1.3E-07 50.1 8.0 71 33-120 9-79 (721)
155 PRK04914 ATP-dependent helicas 96.9 0.0076 1.7E-07 50.9 8.6 66 33-116 152-219 (956)
156 COG2805 PilT Tfp pilus assembl 96.8 0.0028 6.1E-08 46.8 5.2 55 4-77 99-153 (353)
157 COG4962 CpaF Flp pilus assembl 96.8 0.0033 7.1E-08 47.1 5.4 34 30-63 154-188 (355)
158 COG4098 comFA Superfamily II D 96.8 0.0089 1.9E-07 45.0 7.5 70 33-121 97-170 (441)
159 PRK05298 excinuclease ABC subu 96.8 0.0087 1.9E-07 48.7 8.2 66 33-120 12-82 (652)
160 PF01695 IstB_IS21: IstB-like 96.6 0.0073 1.6E-07 41.2 5.9 48 46-113 45-92 (178)
161 TIGR02525 plasmid_TraJ plasmid 96.6 0.01 2.3E-07 45.1 7.0 26 48-74 149-174 (372)
162 TIGR01073 pcrA ATP-dependent D 96.6 0.013 2.8E-07 48.2 7.9 72 32-120 3-74 (726)
163 PF05970 PIF1: PIF1-like helic 96.6 0.011 2.4E-07 44.8 6.8 59 34-111 2-66 (364)
164 PLN03142 Probable chromatin-re 96.5 0.027 5.8E-07 48.1 9.2 72 33-121 169-244 (1033)
165 COG3587 Restriction endonuclea 96.5 0.0056 1.2E-07 50.6 4.9 53 49-118 75-127 (985)
166 PF12340 DUF3638: Protein of u 96.4 0.1 2.2E-06 37.2 10.5 94 11-125 3-100 (229)
167 KOG1131|consensus 96.4 0.043 9.2E-07 43.6 9.1 77 29-120 12-92 (755)
168 COG1484 DnaC DNA replication p 96.3 0.015 3.3E-07 41.9 6.2 67 30-116 80-153 (254)
169 TIGR01967 DEAH_box_HrpA ATP-de 96.3 0.021 4.7E-07 49.6 7.9 41 30-72 61-104 (1283)
170 COG3973 Superfamily I DNA and 96.2 0.025 5.4E-07 45.5 7.3 93 15-121 186-286 (747)
171 cd01130 VirB11-like_ATPase Typ 96.2 0.01 2.2E-07 40.6 4.7 32 33-64 9-41 (186)
172 PF02534 T4SS-DNA_transf: Type 96.1 0.0063 1.4E-07 47.3 3.3 51 49-120 45-95 (469)
173 TIGR02524 dot_icm_DotB Dot/Icm 96.0 0.0088 1.9E-07 45.3 3.9 26 47-73 133-158 (358)
174 KOG2340|consensus 96.0 0.053 1.2E-06 43.1 8.0 91 32-122 215-320 (698)
175 COG1219 ClpX ATP-dependent pro 96.0 0.018 3.9E-07 43.1 5.1 26 48-75 97-122 (408)
176 PRK08181 transposase; Validate 96.0 0.049 1.1E-06 39.7 7.4 30 35-64 89-122 (269)
177 PRK13851 type IV secretion sys 96.0 0.016 3.5E-07 43.7 5.0 28 44-72 158-185 (344)
178 PRK12900 secA preprotein trans 95.9 0.029 6.4E-07 47.4 6.8 76 33-129 138-213 (1025)
179 PF02399 Herpes_ori_bp: Origin 95.9 0.02 4.4E-07 47.3 5.5 52 49-118 50-101 (824)
180 PRK05973 replicative DNA helic 95.9 0.035 7.7E-07 39.7 6.1 51 15-66 22-82 (237)
181 PRK13826 Dtr system oriT relax 95.8 0.14 3E-06 44.1 10.4 77 17-113 366-443 (1102)
182 COG2804 PulE Type II secretory 95.8 0.024 5.2E-07 44.5 5.5 41 35-76 243-285 (500)
183 PRK13764 ATPase; Provisional 95.8 0.03 6.6E-07 45.1 6.3 27 47-74 256-282 (602)
184 PF09848 DUF2075: Uncharacteri 95.8 0.028 6E-07 42.3 5.8 52 50-118 3-54 (352)
185 cd01126 TraG_VirD4 The TraG/Tr 95.8 0.0037 7.9E-08 47.5 1.1 48 50-118 1-48 (384)
186 PRK14873 primosome assembly pr 95.8 0.017 3.6E-07 47.2 4.7 48 53-119 165-212 (665)
187 COG0630 VirB11 Type IV secreto 95.7 0.014 3.1E-07 43.4 3.8 41 32-73 126-167 (312)
188 PRK14722 flhF flagellar biosyn 95.7 0.041 8.9E-07 42.0 6.3 19 47-65 136-154 (374)
189 PRK06921 hypothetical protein; 95.7 0.2 4.3E-06 36.4 9.6 28 47-75 116-143 (266)
190 PRK06526 transposase; Provisio 95.6 0.095 2.1E-06 37.9 7.7 21 45-65 95-115 (254)
191 KOG0952|consensus 95.6 0.0095 2.1E-07 50.3 2.7 77 33-126 927-1004(1230)
192 PRK12901 secA preprotein trans 95.5 0.042 9.1E-07 46.7 6.2 76 33-129 169-244 (1112)
193 PRK13897 type IV secretion sys 95.5 0.0096 2.1E-07 48.0 2.4 50 49-119 159-208 (606)
194 PF12846 AAA_10: AAA-like doma 95.5 0.029 6.4E-07 40.4 4.8 27 49-76 2-28 (304)
195 PRK06835 DNA replication prote 95.5 0.13 2.9E-06 38.5 8.1 27 47-74 182-208 (329)
196 PRK13900 type IV secretion sys 95.4 0.079 1.7E-06 39.8 6.9 29 44-73 156-184 (332)
197 PHA02533 17 large terminase pr 95.4 0.19 4.1E-06 40.2 9.2 72 33-121 59-130 (534)
198 cd01129 PulE-GspE PulE/GspE Th 95.4 0.077 1.7E-06 38.5 6.6 46 25-74 58-105 (264)
199 KOG0744|consensus 95.4 0.079 1.7E-06 39.9 6.5 66 49-129 178-255 (423)
200 PRK14712 conjugal transfer nic 95.3 0.12 2.6E-06 46.0 8.6 63 33-112 835-901 (1623)
201 smart00382 AAA ATPases associa 95.3 0.015 3.2E-07 36.4 2.3 18 48-65 2-19 (148)
202 cd01124 KaiC KaiC is a circadi 95.2 0.043 9.4E-07 37.0 4.7 48 51-118 2-49 (187)
203 COG1875 NYN ribonuclease and A 95.2 0.047 1E-06 41.6 5.1 49 29-77 224-274 (436)
204 PF00437 T2SE: Type II/IV secr 95.2 0.034 7.5E-07 40.1 4.3 31 45-76 124-154 (270)
205 TIGR02640 gas_vesic_GvpN gas v 95.2 0.023 5E-07 41.0 3.4 26 40-65 13-38 (262)
206 PTZ00454 26S protease regulato 95.2 0.019 4E-07 44.1 2.9 56 7-65 138-196 (398)
207 PRK12377 putative replication 95.1 0.17 3.8E-06 36.4 7.6 47 48-114 101-147 (248)
208 COG0610 Type I site-specific r 95.1 0.1 2.2E-06 44.5 7.3 58 49-123 274-331 (962)
209 TIGR03499 FlhF flagellar biosy 95.1 0.086 1.9E-06 38.6 6.1 18 48-65 194-211 (282)
210 PRK05707 DNA polymerase III su 95.0 0.093 2E-06 39.3 6.2 32 34-65 4-39 (328)
211 PRK13850 type IV secretion sys 95.0 0.017 3.7E-07 47.2 2.4 49 49-118 140-188 (670)
212 PF06745 KaiC: KaiC; InterPro 94.9 0.051 1.1E-06 38.1 4.4 29 47-75 18-46 (226)
213 TIGR03877 thermo_KaiC_1 KaiC d 94.9 0.054 1.2E-06 38.5 4.6 53 47-119 20-72 (237)
214 PRK10436 hypothetical protein; 94.9 0.11 2.4E-06 40.7 6.6 39 35-74 203-243 (462)
215 COG1222 RPT1 ATP-dependent 26S 94.8 0.042 9.1E-07 41.6 3.9 58 5-65 142-202 (406)
216 KOG0745|consensus 94.8 0.065 1.4E-06 41.7 4.9 58 47-125 225-286 (564)
217 TIGR02538 type_IV_pilB type IV 94.8 0.08 1.7E-06 42.5 5.6 45 26-74 295-341 (564)
218 PF10412 TrwB_AAD_bind: Type I 94.7 0.068 1.5E-06 40.8 4.9 52 43-113 10-61 (386)
219 TIGR02533 type_II_gspE general 94.7 0.06 1.3E-06 42.4 4.7 45 26-74 221-267 (486)
220 TIGR02760 TraI_TIGR conjugativ 94.7 0.2 4.3E-06 45.8 8.3 64 32-112 1018-1085(1960)
221 PRK09183 transposase/IS protei 94.7 0.13 2.8E-06 37.2 6.0 21 45-65 99-119 (259)
222 COG0467 RAD55 RecA-superfamily 94.6 0.069 1.5E-06 38.4 4.6 55 47-121 22-76 (260)
223 TIGR02788 VirB11 P-type DNA tr 94.6 0.078 1.7E-06 39.2 4.8 20 45-64 141-160 (308)
224 cd00009 AAA The AAA+ (ATPases 94.5 0.064 1.4E-06 33.8 3.8 17 48-64 19-35 (151)
225 KOG0953|consensus 94.5 0.076 1.7E-06 42.4 4.7 51 49-122 192-242 (700)
226 TIGR01547 phage_term_2 phage t 94.5 0.23 4.9E-06 37.9 7.3 59 50-124 3-62 (396)
227 TIGR02784 addA_alphas double-s 94.5 0.2 4.4E-06 43.4 7.6 55 48-118 10-64 (1141)
228 cd01127 TrwB Bacterial conjuga 94.5 0.056 1.2E-06 41.6 3.9 32 43-75 37-68 (410)
229 TIGR03819 heli_sec_ATPase heli 94.4 0.16 3.5E-06 38.2 6.3 40 23-64 154-194 (340)
230 COG1074 RecB ATP-dependent exo 94.4 0.12 2.7E-06 44.7 6.2 57 46-116 14-70 (1139)
231 PRK12723 flagellar biosynthesi 94.4 0.2 4.3E-06 38.5 6.7 18 48-65 174-191 (388)
232 PF13555 AAA_29: P-loop contai 94.4 0.078 1.7E-06 30.0 3.4 26 47-74 22-47 (62)
233 TIGR03881 KaiC_arch_4 KaiC dom 94.3 0.11 2.3E-06 36.5 4.9 19 47-65 19-37 (229)
234 cd01122 GP4d_helicase GP4d_hel 94.3 0.064 1.4E-06 38.6 3.8 46 20-65 2-47 (271)
235 PTZ00361 26 proteosome regulat 94.3 0.029 6.3E-07 43.6 2.1 56 7-65 176-234 (438)
236 PRK07952 DNA replication prote 94.3 0.37 8.1E-06 34.6 7.6 26 49-75 100-125 (244)
237 COG1419 FlhF Flagellar GTP-bin 94.2 0.33 7.1E-06 37.4 7.5 18 48-65 203-220 (407)
238 PF12775 AAA_7: P-loop contain 94.2 0.034 7.4E-07 40.5 2.2 20 45-64 30-49 (272)
239 PHA02535 P terminase ATPase su 94.2 0.42 9.1E-06 38.5 8.3 90 17-124 122-212 (581)
240 PF00448 SRP54: SRP54-type pro 94.2 0.054 1.2E-06 37.6 3.1 15 51-65 4-18 (196)
241 PRK13709 conjugal transfer nic 94.2 0.31 6.8E-06 44.0 8.2 66 33-113 967-1034(1747)
242 KOG0925|consensus 94.1 0.11 2.4E-06 41.1 4.8 54 10-63 24-77 (699)
243 PRK13822 conjugal transfer cou 94.1 0.038 8.2E-07 45.0 2.4 50 48-118 224-273 (641)
244 TIGR03420 DnaA_homol_Hda DnaA 94.1 0.35 7.5E-06 33.6 7.1 19 47-65 37-55 (226)
245 PRK13876 conjugal transfer cou 94.1 0.039 8.4E-07 45.1 2.5 49 49-118 145-193 (663)
246 TIGR03878 thermo_KaiC_2 KaiC d 94.1 0.16 3.5E-06 36.6 5.5 19 47-65 35-53 (259)
247 PF04665 Pox_A32: Poxvirus A32 94.0 0.1 2.2E-06 37.5 4.3 23 50-73 15-37 (241)
248 TIGR03743 SXT_TraD conjugative 94.0 0.2 4.3E-06 40.9 6.4 54 49-121 177-232 (634)
249 PRK12727 flagellar biosynthesi 94.0 0.48 1E-05 38.0 8.2 19 47-65 349-367 (559)
250 PF13401 AAA_22: AAA domain; P 94.0 0.042 9E-07 34.8 2.0 19 47-65 3-21 (131)
251 KOG1805|consensus 94.0 0.33 7.1E-06 41.2 7.5 79 17-118 657-736 (1100)
252 COG1643 HrpA HrpA-like helicas 93.9 0.41 8.9E-06 40.3 7.9 31 35-65 52-82 (845)
253 KOG0390|consensus 93.8 0.51 1.1E-05 39.3 8.4 76 33-121 238-323 (776)
254 PF01078 Mg_chelatase: Magnesi 93.8 0.074 1.6E-06 37.3 3.2 21 45-65 19-39 (206)
255 PF00004 AAA: ATPase family as 93.8 0.05 1.1E-06 34.3 2.1 14 51-64 1-14 (132)
256 TIGR02767 TraG-Ti Ti-type conj 93.7 0.058 1.3E-06 43.8 2.8 50 49-119 212-261 (623)
257 TIGR01420 pilT_fam pilus retra 93.7 0.15 3.3E-06 38.3 4.9 26 47-73 121-146 (343)
258 PRK05703 flhF flagellar biosyn 93.7 0.34 7.5E-06 37.6 6.9 19 48-66 221-239 (424)
259 PRK03992 proteasome-activating 93.7 0.04 8.6E-07 42.2 1.7 55 7-64 124-181 (389)
260 cd00984 DnaB_C DnaB helicase C 93.6 0.29 6.3E-06 34.5 6.1 28 46-74 11-38 (242)
261 KOG0989|consensus 93.6 1.2 2.7E-05 33.3 9.2 79 48-126 57-160 (346)
262 cd01131 PilT Pilus retraction 93.5 0.054 1.2E-06 37.5 2.1 23 51-74 4-26 (198)
263 PRK04328 hypothetical protein; 93.5 0.16 3.6E-06 36.4 4.5 53 47-119 22-74 (249)
264 COG0210 UvrD Superfamily I DNA 93.4 0.46 9.9E-06 38.7 7.5 71 33-120 2-72 (655)
265 PF13481 AAA_25: AAA domain; P 93.4 0.45 9.8E-06 32.2 6.5 64 47-120 31-94 (193)
266 PRK11331 5-methylcytosine-spec 93.4 0.13 2.7E-06 40.3 4.0 32 34-65 180-211 (459)
267 PF13671 AAA_33: AAA domain; P 93.3 0.063 1.4E-06 34.5 2.1 14 51-64 2-15 (143)
268 TIGR03754 conj_TOL_TraD conjug 93.3 0.41 8.8E-06 39.1 6.9 55 49-122 181-237 (643)
269 PRK08533 flagellar accessory p 93.3 0.23 4.9E-06 35.2 5.0 21 45-65 21-41 (230)
270 TIGR01242 26Sp45 26S proteasom 93.2 0.056 1.2E-06 40.8 1.9 56 7-65 115-173 (364)
271 COG1136 SalX ABC-type antimicr 93.2 0.062 1.3E-06 38.2 1.9 30 45-76 28-57 (226)
272 PRK08699 DNA polymerase III su 93.2 0.48 1E-05 35.5 6.8 31 35-65 3-38 (325)
273 TIGR02760 TraI_TIGR conjugativ 93.1 0.63 1.4E-05 42.7 8.4 63 33-114 429-493 (1960)
274 TIGR02655 circ_KaiC circadian 93.1 0.24 5.2E-06 39.0 5.3 54 47-119 20-73 (484)
275 PF07728 AAA_5: AAA domain (dy 93.1 0.068 1.5E-06 34.4 2.0 15 50-64 1-15 (139)
276 TIGR03880 KaiC_arch_3 KaiC dom 93.1 0.21 4.5E-06 35.0 4.5 18 47-64 15-32 (224)
277 PRK13880 conjugal transfer cou 93.0 0.059 1.3E-06 43.9 1.9 46 49-115 176-221 (636)
278 KOG0733|consensus 93.0 0.14 3E-06 41.6 3.8 58 4-64 180-239 (802)
279 PRK14721 flhF flagellar biosyn 93.0 0.59 1.3E-05 36.3 7.2 19 47-65 190-208 (420)
280 TIGR01243 CDC48 AAA family ATP 93.0 0.092 2E-06 43.4 3.0 56 6-64 445-503 (733)
281 COG5008 PilU Tfp pilus assembl 93.0 0.082 1.8E-06 38.9 2.3 21 50-71 129-149 (375)
282 PRK08769 DNA polymerase III su 93.0 0.92 2E-05 34.0 7.9 34 32-65 3-43 (319)
283 PF13207 AAA_17: AAA domain; P 93.0 0.08 1.7E-06 33.1 2.1 14 51-64 2-15 (121)
284 KOG0738|consensus 93.0 0.081 1.7E-06 40.7 2.4 56 9-64 181-261 (491)
285 COG1444 Predicted P-loop ATPas 92.9 1.4 3E-05 36.7 9.5 86 23-125 204-291 (758)
286 KOG0920|consensus 92.9 1.1 2.3E-05 38.1 9.0 66 34-115 174-239 (924)
287 PRK14723 flhF flagellar biosyn 92.9 0.36 7.9E-06 40.2 6.2 18 48-65 185-202 (767)
288 TIGR03689 pup_AAA proteasome A 92.9 0.089 1.9E-06 41.8 2.6 53 9-64 177-232 (512)
289 TIGR02759 TraD_Ftype type IV c 92.8 0.19 4.1E-06 40.5 4.4 30 46-76 174-203 (566)
290 KOG1533|consensus 92.8 0.12 2.7E-06 37.1 2.9 25 51-76 5-29 (290)
291 PRK13700 conjugal transfer pro 92.7 0.18 3.9E-06 41.6 4.1 55 20-77 157-213 (732)
292 PF09439 SRPRB: Signal recogni 92.6 0.1 2.2E-06 35.9 2.3 20 48-67 3-22 (181)
293 PRK08116 hypothetical protein; 92.6 0.56 1.2E-05 34.1 6.3 27 49-76 115-141 (268)
294 PF01580 FtsK_SpoIIIE: FtsK/Sp 92.5 0.36 7.8E-06 33.2 5.1 27 47-73 37-63 (205)
295 PRK06995 flhF flagellar biosyn 92.5 0.46 1E-05 37.5 6.1 18 48-65 256-273 (484)
296 PRK11889 flhF flagellar biosyn 92.4 0.94 2E-05 35.2 7.5 18 49-66 242-259 (436)
297 PRK13531 regulatory ATPase Rav 92.4 0.28 6.1E-06 38.8 4.7 27 39-65 30-56 (498)
298 KOG0730|consensus 92.3 0.19 4.1E-06 40.9 3.8 61 2-65 422-485 (693)
299 KOG0733|consensus 92.3 0.18 4E-06 40.9 3.6 60 3-65 500-562 (802)
300 PRK06871 DNA polymerase III su 92.2 1.2 2.5E-05 33.5 7.7 31 35-65 4-41 (325)
301 PRK12724 flagellar biosynthesi 92.2 0.97 2.1E-05 35.2 7.4 18 49-66 224-241 (432)
302 PRK08939 primosomal protein Dn 92.2 0.53 1.1E-05 35.0 5.8 27 47-74 155-181 (306)
303 KOG4150|consensus 92.2 0.12 2.7E-06 41.6 2.6 70 26-112 279-348 (1034)
304 KOG0387|consensus 92.1 0.36 7.8E-06 40.2 5.2 71 33-122 205-281 (923)
305 TIGR02880 cbbX_cfxQ probable R 92.1 0.12 2.5E-06 37.9 2.2 18 48-65 58-75 (284)
306 COG4133 CcmA ABC-type transpor 92.1 0.39 8.4E-06 33.5 4.6 63 45-126 25-88 (209)
307 PF13238 AAA_18: AAA domain; P 92.0 0.12 2.7E-06 32.3 2.1 14 51-64 1-14 (129)
308 PRK08903 DnaA regulatory inact 92.0 0.28 6.1E-06 34.3 4.1 18 47-64 41-58 (227)
309 KOG1123|consensus 92.0 0.064 1.4E-06 42.5 0.8 66 33-120 302-370 (776)
310 PRK06067 flagellar accessory p 91.9 0.43 9.3E-06 33.6 5.0 19 47-65 24-42 (234)
311 PRK08727 hypothetical protein; 91.9 0.61 1.3E-05 33.1 5.7 16 49-64 42-57 (233)
312 COG0606 Predicted ATPase with 91.9 0.17 3.8E-06 39.6 3.1 20 46-65 196-215 (490)
313 KOG0729|consensus 91.9 0.36 7.8E-06 35.7 4.5 58 6-65 169-228 (435)
314 KOG0926|consensus 91.9 0.24 5.2E-06 41.5 3.9 35 39-77 262-296 (1172)
315 TIGR03015 pepcterm_ATPase puta 91.9 0.29 6.2E-06 35.0 4.0 33 33-65 23-60 (269)
316 TIGR02881 spore_V_K stage V sp 91.8 0.13 2.8E-06 37.0 2.2 18 48-65 42-59 (261)
317 TIGR03744 traC_PFL_4706 conjug 91.8 0.35 7.6E-06 41.0 5.0 24 49-72 476-499 (893)
318 CHL00181 cbbX CbbX; Provisiona 91.7 0.13 2.9E-06 37.7 2.2 19 47-65 58-76 (287)
319 PHA02244 ATPase-like protein 91.7 0.28 6.1E-06 37.5 4.0 22 43-64 114-135 (383)
320 PRK04296 thymidine kinase; Pro 91.6 0.46 1E-05 32.6 4.7 26 48-74 2-27 (190)
321 KOG1807|consensus 91.5 0.58 1.3E-05 39.0 5.7 71 33-116 378-448 (1025)
322 PRK12402 replication factor C 91.5 0.29 6.4E-06 36.1 3.9 16 50-65 38-53 (337)
323 PRK05642 DNA replication initi 91.4 1 2.2E-05 32.0 6.4 16 49-64 46-61 (234)
324 PF13191 AAA_16: AAA ATPase do 91.4 0.12 2.6E-06 34.5 1.6 29 47-76 23-51 (185)
325 PF06309 Torsin: Torsin; Inte 91.4 1.1 2.3E-05 29.1 5.9 16 52-67 57-72 (127)
326 TIGR01241 FtsH_fam ATP-depende 91.4 0.14 3E-06 40.4 2.1 55 7-64 48-104 (495)
327 PF01935 DUF87: Domain of unkn 91.2 0.5 1.1E-05 33.1 4.7 26 48-74 23-48 (229)
328 TIGR02655 circ_KaiC circadian 91.2 0.47 1E-05 37.4 4.9 25 41-65 251-280 (484)
329 COG3598 RepA RecA-family ATPas 91.2 0.71 1.5E-05 34.9 5.5 40 35-74 75-115 (402)
330 PF14532 Sigma54_activ_2: Sigm 91.2 0.35 7.6E-06 31.3 3.6 21 44-64 17-37 (138)
331 COG4185 Uncharacterized protei 91.2 0.076 1.7E-06 36.0 0.4 17 51-67 5-21 (187)
332 PRK06090 DNA polymerase III su 91.1 2.7 6E-05 31.5 8.6 32 34-65 4-42 (319)
333 TIGR01650 PD_CobS cobaltochela 91.1 0.3 6.4E-06 36.7 3.5 23 42-64 58-80 (327)
334 PRK10078 ribose 1,5-bisphospho 91.1 0.18 4E-06 34.3 2.3 18 48-65 2-19 (186)
335 PRK11823 DNA repair protein Ra 90.9 0.63 1.4E-05 36.4 5.3 24 42-65 69-97 (446)
336 PRK14974 cell division protein 90.8 1.2 2.6E-05 33.6 6.5 17 49-65 141-157 (336)
337 PF03193 DUF258: Protein of un 90.8 0.41 8.9E-06 32.3 3.7 44 20-63 2-50 (161)
338 TIGR02688 conserved hypothetic 90.8 0.32 7E-06 37.9 3.5 24 43-66 204-227 (449)
339 cd00227 CPT Chloramphenicol (C 90.7 0.21 4.5E-06 33.6 2.3 18 48-65 2-19 (175)
340 KOG1806|consensus 90.7 0.62 1.3E-05 40.0 5.2 68 33-117 738-805 (1320)
341 PRK10867 signal recognition pa 90.7 1.5 3.2E-05 34.3 7.1 16 50-65 102-117 (433)
342 PRK12726 flagellar biosynthesi 90.6 0.91 2E-05 35.0 5.8 19 47-65 205-223 (407)
343 TIGR03238 dnd_assoc_3 dnd syst 90.6 0.33 7.1E-06 38.4 3.4 31 34-64 11-48 (504)
344 COG0714 MoxR-like ATPases [Gen 90.5 0.35 7.6E-06 36.0 3.5 24 41-64 36-59 (329)
345 PRK14530 adenylate kinase; Pro 90.5 0.18 4E-06 35.1 1.8 18 47-64 2-19 (215)
346 COG1120 FepC ABC-type cobalami 90.4 0.35 7.6E-06 35.1 3.3 29 45-75 25-53 (258)
347 PHA03333 putative ATPase subun 90.4 3.6 7.8E-05 34.2 9.2 73 33-123 169-244 (752)
348 TIGR02928 orc1/cdc6 family rep 90.3 0.34 7.3E-06 36.3 3.3 24 49-73 41-64 (365)
349 COG1224 TIP49 DNA helicase TIP 90.3 0.22 4.8E-06 38.0 2.2 19 46-64 63-81 (450)
350 TIGR00609 recB exodeoxyribonuc 90.3 0.97 2.1E-05 39.2 6.3 56 47-117 9-64 (1087)
351 TIGR02237 recomb_radB DNA repa 90.2 0.57 1.2E-05 32.3 4.1 20 47-66 11-30 (209)
352 KOG0060|consensus 90.1 0.15 3.2E-06 41.0 1.2 20 45-64 458-477 (659)
353 cd01120 RecA-like_NTPases RecA 90.1 1.1 2.4E-05 28.8 5.3 15 51-65 2-16 (165)
354 PRK08084 DNA replication initi 90.1 1.6 3.5E-05 31.0 6.4 18 47-64 44-61 (235)
355 PRK13909 putative recombinatio 90.1 0.92 2E-05 38.6 5.9 50 52-117 2-51 (910)
356 PLN02796 D-glycerate 3-kinase 90.0 1.1 2.3E-05 34.0 5.6 14 51-64 103-116 (347)
357 KOG0924|consensus 90.0 1.6 3.4E-05 36.3 6.8 61 35-115 358-420 (1042)
358 PRK00131 aroK shikimate kinase 90.0 0.23 5.1E-06 32.8 2.0 19 47-65 3-21 (175)
359 PRK05342 clpX ATP-dependent pr 89.9 0.24 5.2E-06 38.3 2.3 18 48-65 108-125 (412)
360 PF06068 TIP49: TIP49 C-termin 89.9 0.25 5.4E-06 37.8 2.2 18 47-64 49-66 (398)
361 PRK14729 miaA tRNA delta(2)-is 89.9 0.25 5.4E-06 36.7 2.2 17 49-65 5-21 (300)
362 TIGR01425 SRP54_euk signal rec 89.8 1.8 4E-05 33.7 6.9 16 50-65 102-117 (429)
363 PF00308 Bac_DnaA: Bacterial d 89.8 0.85 1.8E-05 32.1 4.8 26 50-76 36-61 (219)
364 PRK08118 topology modulation p 89.8 0.26 5.5E-06 33.2 2.1 15 50-64 3-17 (167)
365 PLN02165 adenylate isopentenyl 89.8 0.29 6.2E-06 36.9 2.5 19 47-65 42-60 (334)
366 PF07724 AAA_2: AAA domain (Cd 89.8 0.25 5.5E-06 33.5 2.0 24 50-75 5-28 (171)
367 KOG0731|consensus 89.6 0.56 1.2E-05 39.0 4.2 56 7-65 304-361 (774)
368 PF07088 GvpD: GvpD gas vesicl 89.5 0.27 5.9E-06 38.0 2.2 29 47-76 9-37 (484)
369 PRK00300 gmk guanylate kinase; 89.5 0.26 5.7E-06 33.8 2.0 17 47-63 4-20 (205)
370 PF13654 AAA_32: AAA domain; P 89.5 0.11 2.3E-06 41.3 0.0 81 37-119 12-101 (509)
371 COG1126 GlnQ ABC-type polar am 89.4 0.23 5E-06 35.3 1.6 19 45-63 25-43 (240)
372 cd03115 SRP The signal recogni 89.4 1.3 2.7E-05 29.6 5.2 15 51-65 3-17 (173)
373 TIGR00382 clpX endopeptidase C 89.3 0.28 6.1E-06 38.0 2.2 17 49-65 117-133 (413)
374 TIGR01313 therm_gnt_kin carboh 89.3 0.24 5.2E-06 32.8 1.6 14 51-64 1-14 (163)
375 PRK07261 topology modulation p 89.3 0.29 6.3E-06 33.0 2.1 16 50-65 2-17 (171)
376 PRK06620 hypothetical protein; 89.3 0.24 5.2E-06 34.8 1.7 16 49-64 45-60 (214)
377 COG1474 CDC6 Cdc6-related prot 89.3 0.45 9.7E-06 36.3 3.2 26 49-75 43-68 (366)
378 TIGR03263 guanyl_kin guanylate 89.2 0.28 6E-06 32.9 1.9 16 48-63 1-16 (180)
379 TIGR00959 ffh signal recogniti 89.2 2.6 5.7E-05 32.9 7.4 16 50-65 101-116 (428)
380 KOG0652|consensus 89.2 0.64 1.4E-05 34.3 3.8 59 6-65 163-222 (424)
381 TIGR01243 CDC48 AAA family ATP 89.2 0.23 5E-06 41.0 1.8 53 9-64 173-228 (733)
382 TIGR02322 phosphon_PhnN phosph 89.1 0.31 6.8E-06 32.7 2.1 18 48-65 1-18 (179)
383 PRK07993 DNA polymerase III su 89.0 2.1 4.6E-05 32.2 6.6 95 34-129 3-114 (334)
384 PF00005 ABC_tran: ABC transpo 89.0 0.35 7.7E-06 30.8 2.2 18 46-63 9-26 (137)
385 PF13872 AAA_34: P-loop contai 88.9 7.5 0.00016 29.0 9.2 83 15-121 25-117 (303)
386 KOG0736|consensus 88.9 0.13 2.8E-06 42.7 0.1 55 8-65 666-722 (953)
387 PRK14087 dnaA chromosomal repl 88.9 2 4.2E-05 33.7 6.6 26 49-75 142-167 (450)
388 PF03237 Terminase_6: Terminas 88.8 3 6.5E-05 30.7 7.3 26 52-77 1-26 (384)
389 PLN03025 replication factor C 88.7 0.73 1.6E-05 34.2 4.0 17 49-65 35-51 (319)
390 COG4604 CeuD ABC-type enteroch 88.6 0.95 2.1E-05 32.0 4.2 53 47-112 26-78 (252)
391 PRK00771 signal recognition pa 88.6 2.1 4.6E-05 33.5 6.6 17 49-65 96-112 (437)
392 COG3267 ExeA Type II secretory 88.6 3.6 7.8E-05 30.0 7.2 23 44-66 46-69 (269)
393 PF05729 NACHT: NACHT domain 88.6 0.35 7.5E-06 31.5 2.0 26 50-76 2-27 (166)
394 PF03354 Terminase_1: Phage Te 88.5 3.2 7E-05 32.6 7.6 72 36-122 1-81 (477)
395 TIGR02746 TraC-F-type type-IV 88.5 0.95 2.1E-05 37.7 4.9 18 49-66 431-448 (797)
396 PRK00411 cdc6 cell division co 88.5 0.38 8.2E-06 36.5 2.4 17 49-65 56-72 (394)
397 PRK14963 DNA polymerase III su 88.4 3.7 8E-05 32.7 7.9 16 50-65 38-53 (504)
398 PRK09302 circadian clock prote 88.4 1.1 2.3E-05 35.5 4.9 19 47-65 30-48 (509)
399 cd01394 radB RadB. The archaea 88.3 0.95 2.1E-05 31.4 4.2 24 42-65 8-36 (218)
400 cd00071 GMPK Guanosine monopho 88.3 0.4 8.6E-06 31.2 2.1 13 51-63 2-14 (137)
401 PF03029 ATP_bind_1: Conserved 88.2 0.68 1.5E-05 33.1 3.5 21 53-74 1-21 (238)
402 KOG0991|consensus 88.2 0.58 1.3E-05 33.9 3.0 18 49-66 49-66 (333)
403 COG1125 OpuBA ABC-type proline 88.2 0.58 1.3E-05 34.3 3.0 31 45-77 24-54 (309)
404 PRK09302 circadian clock prote 88.1 0.95 2.1E-05 35.8 4.5 19 47-65 272-290 (509)
405 PF13476 AAA_23: AAA domain; P 88.1 0.78 1.7E-05 30.9 3.6 25 50-76 21-45 (202)
406 COG3451 VirB4 Type IV secretor 88.0 1 2.2E-05 37.9 4.7 16 49-64 437-452 (796)
407 PF03205 MobB: Molybdopterin g 88.0 1.5 3.1E-05 28.7 4.7 24 51-75 3-26 (140)
408 PRK14088 dnaA chromosomal repl 87.9 2.1 4.6E-05 33.4 6.2 26 49-75 131-156 (440)
409 KOG0726|consensus 87.9 1 2.2E-05 33.8 4.2 56 6-64 177-235 (440)
410 cd00820 PEPCK_HprK Phosphoenol 87.9 0.49 1.1E-05 29.7 2.2 20 47-66 14-33 (107)
411 cd00544 CobU Adenosylcobinamid 87.8 1.3 2.8E-05 30.0 4.4 15 51-65 2-16 (169)
412 KOG0741|consensus 87.8 0.62 1.3E-05 37.5 3.2 101 7-127 212-328 (744)
413 PRK14531 adenylate kinase; Pro 87.7 0.36 7.9E-06 32.8 1.7 16 49-64 3-18 (183)
414 PF02374 ArsA_ATPase: Anion-tr 87.6 1.6 3.5E-05 32.4 5.2 25 50-74 3-27 (305)
415 TIGR00176 mobB molybdopterin-g 87.6 1.6 3.5E-05 29.0 4.8 14 51-64 2-15 (155)
416 PRK00149 dnaA chromosomal repl 87.5 2.1 4.5E-05 33.4 6.0 26 49-75 149-174 (450)
417 PRK00091 miaA tRNA delta(2)-is 87.5 0.45 9.8E-06 35.4 2.2 17 49-65 5-21 (307)
418 COG1855 ATPase (PilT family) [ 87.4 1.6 3.6E-05 34.5 5.2 48 10-76 243-290 (604)
419 PF00158 Sigma54_activat: Sigm 87.4 0.72 1.6E-05 31.2 3.0 19 46-64 20-38 (168)
420 PRK09361 radB DNA repair and r 87.2 1.2 2.7E-05 31.0 4.2 19 48-66 23-41 (225)
421 COG1223 Predicted ATPase (AAA+ 87.2 0.46 1E-05 35.0 2.0 16 49-64 152-167 (368)
422 PRK10876 recB exonuclease V su 87.2 2.9 6.2E-05 36.8 7.1 64 46-117 16-79 (1181)
423 COG1702 PhoH Phosphate starvat 87.1 1.3 2.8E-05 33.5 4.4 45 31-75 126-170 (348)
424 PRK06893 DNA replication initi 87.1 0.39 8.4E-06 34.0 1.6 15 49-63 40-54 (229)
425 TIGR02562 cas3_yersinia CRISPR 87.0 3 6.5E-05 36.2 6.9 69 33-118 408-484 (1110)
426 CHL00195 ycf46 Ycf46; Provisio 87.0 0.47 1E-05 37.5 2.2 18 48-65 259-276 (489)
427 PF14516 AAA_35: AAA-like doma 87.0 3 6.5E-05 31.2 6.4 39 36-75 18-57 (331)
428 COG0552 FtsY Signal recognitio 86.9 3.3 7.2E-05 31.3 6.4 26 50-77 141-166 (340)
429 PRK07399 DNA polymerase III su 86.9 11 0.00024 28.1 9.4 52 49-104 27-78 (314)
430 TIGR01359 UMP_CMP_kin_fam UMP- 86.8 0.45 9.7E-06 32.0 1.8 14 51-64 2-15 (183)
431 smart00763 AAA_PrkA PrkA AAA d 86.8 1.5 3.2E-05 33.5 4.6 16 49-64 79-94 (361)
432 cd03258 ABC_MetN_methionine_tr 86.7 0.48 1E-05 33.3 1.9 27 45-73 28-54 (233)
433 TIGR00362 DnaA chromosomal rep 86.7 2.5 5.5E-05 32.4 6.0 26 49-75 137-162 (405)
434 PRK04220 2-phosphoglycerate ki 86.7 1.1 2.3E-05 33.4 3.8 46 18-64 60-108 (301)
435 PRK08233 hypothetical protein; 86.7 0.47 1E-05 31.7 1.8 16 49-64 4-19 (182)
436 PRK06762 hypothetical protein; 86.6 0.55 1.2E-05 31.1 2.1 16 50-65 4-19 (166)
437 TIGR02012 tigrfam_recA protein 86.6 2.4 5.2E-05 31.8 5.6 19 48-66 55-73 (321)
438 cd02019 NK Nucleoside/nucleoti 86.6 0.54 1.2E-05 26.7 1.8 14 51-64 2-15 (69)
439 cd01918 HprK_C HprK/P, the bif 86.5 0.56 1.2E-05 31.2 2.0 19 47-65 13-31 (149)
440 PRK09825 idnK D-gluconate kina 86.5 0.57 1.2E-05 31.8 2.1 18 47-64 2-19 (176)
441 PRK10416 signal recognition pa 86.5 1.6 3.4E-05 32.7 4.6 18 48-65 114-131 (318)
442 TIGR00064 ftsY signal recognit 86.5 2.6 5.6E-05 30.7 5.7 17 49-65 73-89 (272)
443 PF00485 PRK: Phosphoribulokin 86.4 0.56 1.2E-05 32.1 2.1 23 51-75 2-24 (194)
444 PRK11608 pspF phage shock prot 86.4 0.87 1.9E-05 34.0 3.3 25 41-65 22-46 (326)
445 cd03238 ABC_UvrA The excision 86.4 0.53 1.1E-05 32.1 1.9 20 46-65 19-38 (176)
446 TIGR02974 phageshock_pspF psp 86.4 0.9 1.9E-05 34.0 3.3 26 40-65 14-39 (329)
447 TIGR01166 cbiO cobalt transpor 86.4 0.52 1.1E-05 32.0 1.9 19 45-63 15-33 (190)
448 KOG2373|consensus 86.3 0.24 5.1E-06 37.8 0.2 26 47-72 272-297 (514)
449 PRK05748 replicative DNA helic 86.3 1.4 2.9E-05 34.4 4.4 27 47-74 202-228 (448)
450 KOG0737|consensus 86.2 0.84 1.8E-05 34.8 3.0 56 7-65 85-144 (386)
451 cd03292 ABC_FtsE_transporter F 86.2 0.54 1.2E-05 32.5 1.9 19 45-63 24-42 (214)
452 PF00225 Kinesin: Kinesin moto 86.1 0.91 2E-05 33.8 3.3 23 43-65 68-92 (335)
453 TIGR01360 aden_kin_iso1 adenyl 86.1 0.51 1.1E-05 31.7 1.8 17 49-65 4-20 (188)
454 PF00625 Guanylate_kin: Guanyl 86.1 0.65 1.4E-05 31.5 2.3 17 48-64 2-18 (183)
455 PRK15177 Vi polysaccharide exp 86.1 0.54 1.2E-05 32.8 1.9 21 45-65 10-30 (213)
456 TIGR03608 L_ocin_972_ABC putat 86.1 0.52 1.1E-05 32.4 1.8 26 45-72 21-46 (206)
457 COG0464 SpoVK ATPases of the A 86.1 1 2.2E-05 35.4 3.6 59 4-65 232-293 (494)
458 PRK00080 ruvB Holliday junctio 86.0 0.59 1.3E-05 34.8 2.2 17 49-65 52-68 (328)
459 cd01428 ADK Adenylate kinase ( 86.0 0.62 1.3E-05 31.5 2.1 15 50-64 1-15 (194)
460 PRK13891 conjugal transfer pro 86.0 1.5 3.2E-05 37.2 4.7 17 50-66 490-506 (852)
461 cd03259 ABC_Carb_Solutes_like 86.0 0.55 1.2E-05 32.5 1.9 19 45-63 23-41 (213)
462 TIGR02673 FtsE cell division A 86.0 0.56 1.2E-05 32.4 2.0 20 45-64 25-44 (214)
463 cd02021 GntK Gluconate kinase 85.9 0.63 1.4E-05 30.3 2.1 15 51-65 2-16 (150)
464 KOG0349|consensus 85.9 1.8 3.9E-05 34.1 4.7 28 95-122 286-313 (725)
465 cd03247 ABCC_cytochrome_bd The 85.9 0.58 1.3E-05 31.5 1.9 19 45-63 25-43 (178)
466 PF02456 Adeno_IVa2: Adenoviru 85.8 1.7 3.8E-05 32.6 4.4 13 51-63 90-102 (369)
467 PRK05541 adenylylsulfate kinas 85.8 0.6 1.3E-05 31.3 2.0 19 47-65 6-24 (176)
468 cd00464 SK Shikimate kinase (S 85.8 0.67 1.5E-05 30.0 2.2 16 50-65 1-16 (154)
469 PRK13873 conjugal transfer ATP 85.7 1.5 3.2E-05 36.9 4.6 18 50-67 443-460 (811)
470 PRK14532 adenylate kinase; Pro 85.7 0.52 1.1E-05 31.9 1.7 15 50-64 2-16 (188)
471 PHA00729 NTP-binding motif con 85.7 0.65 1.4E-05 33.1 2.1 15 50-64 19-33 (226)
472 PF03796 DnaB_C: DnaB-like hel 85.7 4 8.7E-05 29.2 6.3 28 47-75 18-45 (259)
473 cd03255 ABC_MJ0796_Lo1CDE_FtsE 85.6 0.58 1.3E-05 32.5 1.9 19 45-63 27-45 (218)
474 PRK10247 putative ABC transpor 85.6 0.59 1.3E-05 32.8 1.9 19 45-63 30-48 (225)
475 cd03301 ABC_MalK_N The N-termi 85.6 0.59 1.3E-05 32.3 1.9 27 45-73 23-49 (213)
476 cd03269 ABC_putative_ATPase Th 85.6 0.52 1.1E-05 32.5 1.6 26 45-72 23-48 (210)
477 PF10609 ParA: ParA/MinD ATPas 85.5 3.2 7E-05 24.7 4.8 56 51-129 4-59 (81)
478 cd01363 Motor_domain Myosin an 85.5 0.43 9.4E-06 32.6 1.2 26 40-65 14-41 (186)
479 KOG0732|consensus 85.4 0.7 1.5E-05 39.7 2.5 55 9-64 260-315 (1080)
480 PRK14737 gmk guanylate kinase; 85.4 0.64 1.4E-05 31.9 1.9 17 48-64 4-20 (186)
481 KOG1942|consensus 85.4 0.67 1.5E-05 34.7 2.1 24 46-70 62-85 (456)
482 cd03229 ABC_Class3 This class 85.3 0.63 1.4E-05 31.4 1.9 19 46-64 24-42 (178)
483 TIGR02315 ABC_phnC phosphonate 85.3 0.61 1.3E-05 32.9 1.9 20 45-64 25-44 (243)
484 TIGR00635 ruvB Holliday juncti 85.3 0.68 1.5E-05 33.8 2.2 17 49-65 31-47 (305)
485 PRK08356 hypothetical protein; 85.2 0.69 1.5E-05 31.7 2.1 17 49-65 6-22 (195)
486 PF13177 DNA_pol3_delta2: DNA 85.2 8.9 0.00019 25.5 8.9 25 50-75 21-45 (162)
487 cd03293 ABC_NrtD_SsuB_transpor 85.2 0.59 1.3E-05 32.5 1.7 19 45-63 27-45 (220)
488 cd03262 ABC_HisP_GlnQ_permease 85.1 0.64 1.4E-05 32.1 1.9 19 45-63 23-41 (213)
489 PRK01184 hypothetical protein; 85.1 0.66 1.4E-05 31.3 1.9 16 50-65 3-18 (184)
490 PRK06547 hypothetical protein; 85.1 0.72 1.6E-05 31.3 2.1 16 50-65 17-32 (172)
491 cd03230 ABC_DR_subfamily_A Thi 85.1 0.66 1.4E-05 31.1 1.9 20 45-64 23-42 (173)
492 cd00983 recA RecA is a bacter 85.1 3.1 6.7E-05 31.3 5.6 27 40-66 41-73 (325)
493 cd02023 UMPK Uridine monophosp 85.1 0.67 1.4E-05 31.7 2.0 14 51-64 2-15 (198)
494 cd03226 ABC_cobalt_CbiO_domain 85.0 0.66 1.4E-05 31.9 1.9 19 45-63 23-41 (205)
495 cd03228 ABCC_MRP_Like The MRP 85.0 0.67 1.5E-05 31.0 1.9 27 45-73 25-51 (171)
496 PTZ00301 uridine kinase; Provi 85.0 0.7 1.5E-05 32.4 2.0 15 51-65 6-20 (210)
497 cd03114 ArgK-like The function 85.0 2.8 6E-05 27.6 4.8 14 51-64 2-15 (148)
498 cd02020 CMPK Cytidine monophos 85.0 0.75 1.6E-05 29.5 2.1 14 51-64 2-15 (147)
499 PF05496 RuvB_N: Holliday junc 84.9 0.82 1.8E-05 32.7 2.4 15 50-64 52-66 (233)
500 TIGR00960 3a0501s02 Type II (G 84.9 0.66 1.4E-05 32.2 1.9 19 45-63 26-44 (216)
No 1
>PTZ00110 helicase; Provisional
Probab=99.95 E-value=3.6e-27 Score=184.25 Aligned_cols=118 Identities=37% Similarity=0.539 Sum_probs=104.8
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~ 81 (130)
++..+|.|..+|+++++++.++++|.+.||+.||++|.++||.+++|+|++++||||||||++|++|++..+......
T Consensus 121 ~g~~~p~p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~-- 198 (545)
T PTZ00110 121 AGENVPKPVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLL-- 198 (545)
T ss_pred cCCCCCcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccc--
Confidence 456789999999999999999999999999999999999999999999999999999999999999999988653211
Q ss_pred CCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 82 ~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
....++++|||+||||||.|+.+.+++++...+++++++|
T Consensus 199 ---------~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~ 238 (545)
T PTZ00110 199 ---------RYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAY 238 (545)
T ss_pred ---------cCCCCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEe
Confidence 1122478999999999999999999999999888887764
No 2
>KOG0330|consensus
Probab=99.95 E-value=1.6e-27 Score=175.25 Aligned_cols=106 Identities=39% Similarity=0.579 Sum_probs=99.7
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
...+|.+|++++++++++.+++|+.||++|.++||.++.|+|+++.|.||||||.+|++|+++++......
T Consensus 59 ~~~sf~dLgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~--------- 129 (476)
T KOG0330|consen 59 SFKSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKL--------- 129 (476)
T ss_pred hhcchhhcCcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCC---------
Confidence 34579999999999999999999999999999999999999999999999999999999999999975432
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
++++|++||||||.|+...++.++..+|+++++++
T Consensus 130 -------~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lv 164 (476)
T KOG0330|consen 130 -------FFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLV 164 (476)
T ss_pred -------ceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEe
Confidence 89999999999999999999999999999999874
No 3
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.94 E-value=2e-26 Score=175.42 Aligned_cols=112 Identities=34% Similarity=0.523 Sum_probs=98.8
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
...+|++++|++.+++++.+.||+.|||+|.++||.+++|+|++++||||||||++|++|+++.+.......
T Consensus 6 ~~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~-------- 77 (423)
T PRK04837 6 TEQKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPE-------- 77 (423)
T ss_pred CCCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhccccc--------
Confidence 446899999999999999999999999999999999999999999999999999999999999987643211
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.....++++||++||++||.|+++.++.+.+..++++..+
T Consensus 78 -~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~ 117 (423)
T PRK04837 78 -DRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLA 117 (423)
T ss_pred -ccccCCceEEEECCcHHHHHHHHHHHHHHhccCCceEEEE
Confidence 0112347899999999999999999999999999887765
No 4
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.94 E-value=1.3e-26 Score=180.36 Aligned_cols=119 Identities=35% Similarity=0.517 Sum_probs=104.1
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~ 81 (130)
.+...|.|+.+|++++|++.++++|.+.||..|||+|.++||.+++|+|++++||||||||++|++|++.++.......
T Consensus 112 ~g~~~p~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~- 190 (518)
T PLN00206 112 KGEAVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGH- 190 (518)
T ss_pred cCCCCCchhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhcccc-
Confidence 3567899999999999999999999999999999999999999999999999999999999999999999887532110
Q ss_pred CCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 82 ~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.....++++||++|||+||.|+.+.++.+.+.++++++++
T Consensus 191 --------~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~ 230 (518)
T PLN00206 191 --------PSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALV 230 (518)
T ss_pred --------ccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEE
Confidence 0112348999999999999999999999999988887655
No 5
>KOG0331|consensus
Probab=99.94 E-value=1.2e-26 Score=177.38 Aligned_cols=113 Identities=35% Similarity=0.575 Sum_probs=101.5
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
.+...|+++++++++..+++..||..|||||.++||.+++|+|++..|.||||||++|++|++.++.....
T Consensus 88 ~~~~~f~~~~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~--------- 158 (519)
T KOG0331|consen 88 DSSAAFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQG--------- 158 (519)
T ss_pred CcchhhhcccccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccc---------
Confidence 34447999999999999999999999999999999999999999999999999999999999999987421
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
......+|.+||++||||||.|+.+++..+++.+++++.|+|
T Consensus 159 -~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvy 200 (519)
T KOG0331|consen 159 -KLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVY 200 (519)
T ss_pred -cccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEe
Confidence 122334599999999999999999999999999999999886
No 6
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=9.2e-26 Score=175.25 Aligned_cols=107 Identities=41% Similarity=0.647 Sum_probs=95.2
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
...|+++++++.+++++.+.||..|||+|.++||.++.|+|++++|+||||||++|++|+++++.....
T Consensus 28 ~~~F~~l~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~----------- 96 (513)
T COG0513 28 PPEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVE----------- 96 (513)
T ss_pred cCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccc-----------
Confidence 367999999999999999999999999999999999999999999999999999999999999764211
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC-CCceEEeC
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS-QLRPCVVL 130 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~-~~~~~~~~ 130 (130)
... ..+||++||||||.|+++.++.++++. +++++++|
T Consensus 97 --~~~-~~aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~ 135 (513)
T COG0513 97 --RKY-VSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVY 135 (513)
T ss_pred --cCC-CceEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEE
Confidence 000 119999999999999999999999999 78887764
No 7
>KOG0340|consensus
Probab=99.93 E-value=6.1e-26 Score=165.38 Aligned_cols=107 Identities=38% Similarity=0.582 Sum_probs=100.9
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
.....|++|||++|+.+.++.+|++.|||+|..+||.++.|+|++.+|.||||||.+|.+|+++++.+...
T Consensus 4 ~t~~~F~~LGl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~--------- 74 (442)
T KOG0340|consen 4 KTAKPFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPY--------- 74 (442)
T ss_pred cccCchhhcCccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCC---------
Confidence 46788999999999999999999999999999999999999999999999999999999999999987543
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
+..++|++||||||.|+.+.|..+++.++++++++|
T Consensus 75 -------giFalvlTPTrELA~QiaEQF~alGk~l~lK~~viv 110 (442)
T KOG0340|consen 75 -------GIFALVLTPTRELALQIAEQFIALGKLLNLKVSVIV 110 (442)
T ss_pred -------cceEEEecchHHHHHHHHHHHHHhcccccceEEEEE
Confidence 278999999999999999999999999999999875
No 8
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.93 E-value=3.2e-25 Score=174.14 Aligned_cols=113 Identities=39% Similarity=0.578 Sum_probs=97.9
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
...+|++|+|++.++++|.+.||..|||+|.++||.+++|+|++++||||||||++|++|+++++.......
T Consensus 7 ~~~~f~~l~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~-------- 78 (572)
T PRK04537 7 TDLTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALA-------- 78 (572)
T ss_pred CCCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhccccc--------
Confidence 345799999999999999999999999999999999999999999999999999999999999987542110
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
......+++|||+||++|+.|+++.+++++..+++++..++
T Consensus 79 -~~~~~~~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~ 119 (572)
T PRK04537 79 -DRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVY 119 (572)
T ss_pred -ccccCCceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEE
Confidence 01112378999999999999999999999999998887653
No 9
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.93 E-value=4.8e-25 Score=169.32 Aligned_cols=108 Identities=40% Similarity=0.672 Sum_probs=95.0
Q ss_pred CCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q psy3307 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSR 91 (130)
Q Consensus 12 ~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~ 91 (130)
+|++|+|+++++++|.+.||..||++|.++|+.+++|+|++++||||||||++|++|+++.+....... .
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~----------~ 71 (456)
T PRK10590 2 SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHA----------K 71 (456)
T ss_pred CHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhccccc----------c
Confidence 699999999999999999999999999999999999999999999999999999999999987543210 0
Q ss_pred CCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 92 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 92 ~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
....+++||++||++||.|+.+.++.+....++++..+
T Consensus 72 ~~~~~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~ 109 (456)
T PRK10590 72 GRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVV 109 (456)
T ss_pred cCCCceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEE
Confidence 11236899999999999999999999999888876654
No 10
>KOG0346|consensus
Probab=99.93 E-value=1.3e-25 Score=167.33 Aligned_cols=103 Identities=34% Similarity=0.582 Sum_probs=94.1
Q ss_pred CCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q psy3307 11 QGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 90 (130)
Q Consensus 11 ~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~ 90 (130)
.+|++++|++.+++++.++||+.||-+|..+||.++.|+|++..|.||||||.+|++|+++.+...+...
T Consensus 19 ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~---------- 88 (569)
T KOG0346|consen 19 KTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTN---------- 88 (569)
T ss_pred ccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcc----------
Confidence 6899999999999999999999999999999999999999999999999999999999999998766431
Q ss_pred CCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCC
Q psy3307 91 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQ 123 (130)
Q Consensus 91 ~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~ 123 (130)
....++.++|++||||||.|+++++.++....+
T Consensus 89 ~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~ 121 (569)
T KOG0346|consen 89 DGEQGPSAVILVPTKELAQQVYKVIEKLVEYCS 121 (569)
T ss_pred cccccceeEEEechHHHHHHHHHHHHHHHHHHH
Confidence 244468999999999999999999999887654
No 11
>KOG0338|consensus
Probab=99.93 E-value=7.7e-26 Score=171.12 Aligned_cols=108 Identities=37% Similarity=0.577 Sum_probs=99.2
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
..+|.+++|+-++++++..+||..|||+|..+||..+-|+|++.||.||||||.+|++|+|.++......
T Consensus 180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~---------- 249 (691)
T KOG0338|consen 180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKK---------- 249 (691)
T ss_pred hhhHHhcccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCccc----------
Confidence 3589999999999999999999999999999999999999999999999999999999999999876432
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
....|+||++|||||+.|++++.++++.++.+.|++++
T Consensus 250 ---~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~v 287 (691)
T KOG0338|consen 250 ---VAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAV 287 (691)
T ss_pred ---CcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeee
Confidence 22268999999999999999999999999999988763
No 12
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.92 E-value=1.2e-24 Score=167.24 Aligned_cols=104 Identities=34% Similarity=0.508 Sum_probs=93.1
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
+.+|++++|++.+++++.++||..|||+|.++|+.+++|+|++++||||||||++|++|+++++.....
T Consensus 3 ~~~f~~l~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~----------- 71 (460)
T PRK11776 3 MTAFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRF----------- 71 (460)
T ss_pred CCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccC-----------
Confidence 468999999999999999999999999999999999999999999999999999999999998864321
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC-CCceEEe
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS-QLRPCVV 129 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~-~~~~~~~ 129 (130)
.++++|++||++||.|+.+.++.+++.. ++++..+
T Consensus 72 -----~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~ 107 (460)
T PRK11776 72 -----RVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTL 107 (460)
T ss_pred -----CceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEE
Confidence 2679999999999999999999998764 5666554
No 13
>KOG0334|consensus
Probab=99.92 E-value=4.5e-25 Score=176.96 Aligned_cols=118 Identities=38% Similarity=0.583 Sum_probs=106.7
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~ 81 (130)
.+...|.|..+|.+.+++..+++.++++||..|++||.+|||+|++|+|+|.+|.||||||++|++|++.++.....
T Consensus 356 ~g~~~pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~--- 432 (997)
T KOG0334|consen 356 KGKECPKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRP--- 432 (997)
T ss_pred ccCCCCcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCC---
Confidence 35678999999999999999999999999999999999999999999999999999999999999999966654332
Q ss_pred CCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 82 ~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.....||-++|++|||+|+.|+++++++|.+.++++++++|
T Consensus 433 --------~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vy 473 (997)
T KOG0334|consen 433 --------LEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVY 473 (997)
T ss_pred --------hhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEec
Confidence 12333699999999999999999999999999999999987
No 14
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.92 E-value=3.1e-24 Score=163.76 Aligned_cols=106 Identities=38% Similarity=0.602 Sum_probs=95.1
Q ss_pred CCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q psy3307 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSR 91 (130)
Q Consensus 12 ~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~ 91 (130)
+|+++++++.+++++++.||..|+++|.++|+.+++|+|++++||||+|||++|++|+++.+......
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~------------ 69 (434)
T PRK11192 2 TFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRR------------ 69 (434)
T ss_pred CHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhcccc------------
Confidence 69999999999999999999999999999999999999999999999999999999999998753211
Q ss_pred CCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 92 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 92 ~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
....+++||++||++|+.|+.+.+..+++..++++..+
T Consensus 70 ~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~ 107 (434)
T PRK11192 70 KSGPPRILILTPTRELAMQVADQARELAKHTHLDIATI 107 (434)
T ss_pred CCCCceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEE
Confidence 11136899999999999999999999999998887765
No 15
>KOG0348|consensus
Probab=99.92 E-value=1.6e-24 Score=164.75 Aligned_cols=110 Identities=35% Similarity=0.562 Sum_probs=96.7
Q ss_pred ccccCCCcCCCCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCC
Q psy3307 7 SLKKQGFDDIQMTEIITNNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAG 85 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~ 85 (130)
|.....|..|||++.++..|++ +++..||.+|.++||.+++|+|+++.|+||||||++|++|+++.+......-
T Consensus 132 ~fts~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki----- 206 (708)
T KOG0348|consen 132 PFTSAAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKI----- 206 (708)
T ss_pred ccccccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccc-----
Confidence 4556779999999999999966 7999999999999999999999999999999999999999999998765331
Q ss_pred CCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCce
Q psy3307 86 RGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 126 (130)
Q Consensus 86 ~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~ 126 (130)
....|+.+|||+||||||.|+++.+.++.+..-+-|
T Consensus 207 -----~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIV 242 (708)
T KOG0348|consen 207 -----QRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIV 242 (708)
T ss_pred -----cccCCceEEEEechHHHHHHHHHHHHHHhcCceEEe
Confidence 244569999999999999999999999998865543
No 16
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.92 E-value=3.9e-24 Score=169.35 Aligned_cols=105 Identities=38% Similarity=0.582 Sum_probs=93.8
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
...+|++++|++.++++|.++||..|||+|.++|+.++.|+|++++||||||||++|++|+++.+.....
T Consensus 4 ~~~~f~~l~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~---------- 73 (629)
T PRK11634 4 FETTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELK---------- 73 (629)
T ss_pred ccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccC----------
Confidence 3457999999999999999999999999999999999999999999999999999999999998864322
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC-CCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS-QLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~-~~~~~~~ 129 (130)
.+++||++||++||.|+.+.++++...+ +++++.+
T Consensus 74 ------~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~ 109 (629)
T PRK11634 74 ------APQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVAL 109 (629)
T ss_pred ------CCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEE
Confidence 2789999999999999999999998765 6766654
No 17
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.91 E-value=1.3e-23 Score=162.15 Aligned_cols=112 Identities=33% Similarity=0.469 Sum_probs=97.0
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
....|.+++|++.++++|.+.||..+|++|.++|+.+++|+|+++.+|||||||++|++|+++.+........
T Consensus 85 ~~~~f~~~~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~------- 157 (475)
T PRK01297 85 GKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKE------- 157 (475)
T ss_pred CCCCHhHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccc-------
Confidence 3457999999999999999999999999999999999999999999999999999999999999876532110
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.....+++|||+||++|+.|+.+.++.+.+.+++++..+
T Consensus 158 --~~~~~~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~ 196 (475)
T PRK01297 158 --RYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTF 196 (475)
T ss_pred --cccCCceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEE
Confidence 011137899999999999999999999999888877654
No 18
>KOG0345|consensus
Probab=99.91 E-value=1.3e-23 Score=157.65 Aligned_cols=108 Identities=34% Similarity=0.545 Sum_probs=93.1
Q ss_pred CCCcCCCC--CHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 11 QGFDDIQM--TEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 11 ~~f~~l~l--~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
.+|++++. ++++++++.+.||+.+||+|..+||.+++++|+++.|+||||||+||++|+++.++.+....++.
T Consensus 4 ~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~----- 78 (567)
T KOG0345|consen 4 KSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPG----- 78 (567)
T ss_pred cchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCcc-----
Confidence 47888875 59999999999999999999999999999999999999999999999999999997665432211
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhc-CCCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYR-SQLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~-~~~~~~~~ 129 (130)
..-+|||+|||||+.|+.+++..|.++ .++++.++
T Consensus 79 ------~vgalIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~ 114 (567)
T KOG0345|consen 79 ------QVGALIISPTRELARQIREVAQPFLEHLPNLNCELL 114 (567)
T ss_pred ------ceeEEEecCcHHHHHHHHHHHHHHHHhhhccceEEE
Confidence 145999999999999999999999888 56666554
No 19
>KOG0343|consensus
Probab=99.90 E-value=4e-24 Score=163.09 Aligned_cols=111 Identities=32% Similarity=0.510 Sum_probs=100.7
Q ss_pred ccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCC
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGR 86 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~ 86 (130)
......|++|+|+..+.++|++.+|..+|++|..+||..+.|+|++..|.||||||++|++|+|++++......
T Consensus 65 ~~~~~kF~dlpls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~------ 138 (758)
T KOG0343|consen 65 STTIKKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSP------ 138 (758)
T ss_pred hhhhhhHHhCCCchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCC------
Confidence 44566899999999999999999999999999999999999999999999999999999999999999876542
Q ss_pred CCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 87 GYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 87 ~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
..|.-+|||+||||||.|++.++.+++++.++++-++
T Consensus 139 ------~DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLi 175 (758)
T KOG0343|consen 139 ------TDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLI 175 (758)
T ss_pred ------CCCceeEEecchHHHHHHHHHHHHHHhhcccccccee
Confidence 2235599999999999999999999999999887665
No 20
>PTZ00424 helicase 45; Provisional
Probab=99.90 E-value=7.4e-23 Score=154.46 Aligned_cols=105 Identities=30% Similarity=0.401 Sum_probs=93.2
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
....+|+++++++.+++++.+.||..|+++|.++|+.+++|+|++++||||||||++|++|++..+.....
T Consensus 25 ~~~~~~~~l~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~--------- 95 (401)
T PTZ00424 25 EIVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLN--------- 95 (401)
T ss_pred cccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCC---------
Confidence 34578999999999999999999999999999999999999999999999999999999999988753221
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
+.++||++|+++|+.|+.+.++.++...++.+..
T Consensus 96 -------~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~ 129 (401)
T PTZ00424 96 -------ACQALILAPTRELAQQIQKVVLALGDYLKVRCHA 129 (401)
T ss_pred -------CceEEEECCCHHHHHHHHHHHHHHhhhcCceEEE
Confidence 2679999999999999999999998877666543
No 21
>KOG0347|consensus
Probab=99.90 E-value=3.1e-24 Score=163.60 Aligned_cols=118 Identities=28% Similarity=0.474 Sum_probs=102.5
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCC
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGR 86 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~ 86 (130)
-.++.|.+|+++.+++++|.++||..||++|..++|++..| .|++..|.||||||+||-+|+++++...++.+.+....
T Consensus 178 ~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~ 257 (731)
T KOG0347|consen 178 VDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNT 257 (731)
T ss_pred cChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhH
Confidence 34567999999999999999999999999999999999999 79999999999999999999999887766544443331
Q ss_pred CCCCCCCCCce--EEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 87 GYPSRKKVFPL--GLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 87 ~~~~~~~~~~~--~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
...+++ +||++||||||.|+.++++.+.+.++++++.|+
T Consensus 258 -----~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~ 298 (731)
T KOG0347|consen 258 -----SAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASIT 298 (731)
T ss_pred -----HhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEee
Confidence 122344 999999999999999999999999999998874
No 22
>KOG0335|consensus
Probab=99.90 E-value=1.2e-23 Score=159.18 Aligned_cols=123 Identities=50% Similarity=0.826 Sum_probs=108.5
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~ 81 (130)
.+..+|.++.+|.+-.+.+.+..+++..++..|||+|+.+||.+.+|+|+++||+||||||.+|++|++.++........
T Consensus 65 ~G~~~p~~i~~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~ 144 (482)
T KOG0335|consen 65 SGRDVPPHIPTFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDR 144 (482)
T ss_pred cCCccCCCcccccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccC
Confidence 35678888999999999999999999999999999999999999999999999999999999999999999998765433
Q ss_pred CCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 82 ~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.... ....|+++|++||||||.|++++++++.-..+++++.+|
T Consensus 145 ~~~~------~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~y 187 (482)
T KOG0335|consen 145 GESG------GGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVY 187 (482)
T ss_pred cccC------CCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeee
Confidence 2222 113589999999999999999999999999999888765
No 23
>KOG0333|consensus
Probab=99.89 E-value=3.2e-23 Score=157.33 Aligned_cols=121 Identities=34% Similarity=0.505 Sum_probs=108.0
Q ss_pred ccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCC
Q psy3307 3 ECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 82 (130)
Q Consensus 3 ~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~ 82 (130)
+.-+|.|+.+|++.+++.++++.+.+.||..|+|+|..+||..+..+|+|..|.||||||.+|++|++.++.+.......
T Consensus 237 g~~lpnplrnwEE~~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~ 316 (673)
T KOG0333|consen 237 GGRLPNPLRNWEESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARL 316 (673)
T ss_pred CCCCCccccChhhcCCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchh
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999876432211
Q ss_pred CCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 83 ~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.+...+|+++|+.|||+|++|+..+-.+|++.++++++.++
T Consensus 317 -------en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvi 357 (673)
T KOG0333|consen 317 -------ENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVI 357 (673)
T ss_pred -------hhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEe
Confidence 12334699999999999999999999999999999988763
No 24
>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=99.89 E-value=2.8e-22 Score=161.29 Aligned_cols=109 Identities=21% Similarity=0.292 Sum_probs=95.8
Q ss_pred cccccccccCCCcCCC--CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCC
Q psy3307 2 QECLVSLKKQGFDDIQ--MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPL 79 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~--l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~ 79 (130)
+.+.+|.....|.+++ +++++.++|++.||+.||++|.++|+.+++|+|+++.+|||||||++|++|+++.+....
T Consensus 3 ~~~~~p~~~a~~~~~~~~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~-- 80 (742)
T TIGR03817 3 HVEHLPARAGRTAPWPAWAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDP-- 80 (742)
T ss_pred ceeecCCCCcccCCCCCcCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC--
Confidence 5566777777888775 899999999999999999999999999999999999999999999999999999987532
Q ss_pred CCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 80 PTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
++++|||+|||+|+.|+.+.+++++ ..++++..
T Consensus 81 ---------------~~~aL~l~PtraLa~q~~~~l~~l~-~~~i~v~~ 113 (742)
T TIGR03817 81 ---------------RATALYLAPTKALAADQLRAVRELT-LRGVRPAT 113 (742)
T ss_pred ---------------CcEEEEEcChHHHHHHHHHHHHHhc-cCCeEEEE
Confidence 1689999999999999999999997 44566543
No 25
>KOG0342|consensus
Probab=99.89 E-value=5.5e-23 Score=154.77 Aligned_cols=108 Identities=33% Similarity=0.513 Sum_probs=96.9
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
...|+++.|++..+++++++||..+|++|..+++.++.|+|+++.|.||||||++|++|.++.+.+....+
T Consensus 81 ~~~f~~~~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~--------- 151 (543)
T KOG0342|consen 81 TFRFEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKP--------- 151 (543)
T ss_pred hhHhhccccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCC---------
Confidence 45688999999999999999999999999999999999999999999999999999999999999876432
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC-CCceEEe
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS-QLRPCVV 129 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~-~~~~~~~ 129 (130)
..+..++|+|||||||.|++.+++++.++. ++.+..+
T Consensus 152 ---r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~v 189 (543)
T KOG0342|consen 152 ---RNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIV 189 (543)
T ss_pred ---CCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEE
Confidence 134679999999999999999999999988 6665544
No 26
>KOG0339|consensus
Probab=99.88 E-value=7.1e-23 Score=155.22 Aligned_cols=118 Identities=39% Similarity=0.628 Sum_probs=107.7
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~ 81 (130)
.|--+|+|..+|+.+++++.+..++++..|+.|||+|.+++|..+.|+|++..|.||||||-+|+.|++.++......
T Consensus 214 ~g~s~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL-- 291 (731)
T KOG0339|consen 214 SGSSPPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPEL-- 291 (731)
T ss_pred ccCCCCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhh--
Confidence 355689999999999999999999999999999999999999999999999999999999999999999998765432
Q ss_pred CCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 82 ~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
....+|-+||++||||||.|++.++++|++..+++++++|
T Consensus 292 ---------~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~y 331 (731)
T KOG0339|consen 292 ---------KPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVY 331 (731)
T ss_pred ---------cCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEee
Confidence 1223489999999999999999999999999999999987
No 27
>KOG0326|consensus
Probab=99.88 E-value=1.2e-23 Score=152.07 Aligned_cols=110 Identities=31% Similarity=0.547 Sum_probs=100.3
Q ss_pred ccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCC
Q psy3307 3 ECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 82 (130)
Q Consensus 3 ~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~ 82 (130)
|++..-....|+|+.|..+++..+.+.||+.|+|+|.++||.++.|+|+++.|.+|+|||-+|++|+|+++......
T Consensus 77 ~DVt~TkG~efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~--- 153 (459)
T KOG0326|consen 77 EDVTATKGNEFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNV--- 153 (459)
T ss_pred cccccccCccHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccc---
Confidence 44455556779999999999999999999999999999999999999999999999999999999999999765443
Q ss_pred CCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 83 ~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.+++|++||||||.|+.+.++++++++++++..
T Consensus 154 -------------IQ~~ilVPtrelALQtSqvc~~lskh~~i~vmv 186 (459)
T KOG0326|consen 154 -------------IQAIILVPTRELALQTSQVCKELSKHLGIKVMV 186 (459)
T ss_pred -------------eeEEEEeecchhhHHHHHHHHHHhcccCeEEEE
Confidence 789999999999999999999999999988754
No 28
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.88 E-value=2.4e-21 Score=134.01 Aligned_cols=103 Identities=46% Similarity=0.705 Sum_probs=92.6
Q ss_pred CcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q psy3307 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92 (130)
Q Consensus 13 f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
|+++++++.+.+.+.+.|++.|+++|.++++.+.+|+|+++.+|||+|||++|++|++..+.....
T Consensus 1 ~~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~-------------- 66 (203)
T cd00268 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPK-------------- 66 (203)
T ss_pred CCcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcc--------------
Confidence 789999999999999999999999999999999999999999999999999999999999887520
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 93 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 93 ~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
..+++++|++|+++|+.|+.+.++.+....++++..+
T Consensus 67 ~~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~ 103 (203)
T cd00268 67 KDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVI 103 (203)
T ss_pred cCCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEE
Confidence 1127899999999999999999999988777776543
No 29
>KOG0328|consensus
Probab=99.87 E-value=7.1e-23 Score=146.06 Aligned_cols=106 Identities=34% Similarity=0.470 Sum_probs=98.5
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
....+|++++|.+++++.+-..||+.|+.+|++|+++++.|+|++++|..|+|||.+|.+.+++.+......
T Consensus 24 ~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~-------- 95 (400)
T KOG0328|consen 24 KVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRE-------- 95 (400)
T ss_pred ccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccce--------
Confidence 567899999999999999999999999999999999999999999999999999999999999877654432
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.+++|++||||||.|+.+.+..++.++++.+..+
T Consensus 96 --------tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hac 129 (400)
T KOG0328|consen 96 --------TQALILSPTRELAVQIQKVILALGDYMNVQCHAC 129 (400)
T ss_pred --------eeEEEecChHHHHHHHHHHHHHhcccccceEEEE
Confidence 6899999999999999999999999999998876
No 30
>KOG0341|consensus
Probab=99.87 E-value=7.8e-23 Score=151.21 Aligned_cols=114 Identities=28% Similarity=0.480 Sum_probs=101.2
Q ss_pred CcccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCC
Q psy3307 1 MQECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLP 80 (130)
Q Consensus 1 ~~~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~ 80 (130)
|+++.+|+|+.+|.++.++..+++.|++.|+.+|||+|-+.+|.+++|||.+..|-||||||+.|.+|++-...+.....
T Consensus 160 veGd~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~l 239 (610)
T KOG0341|consen 160 VEGDDIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMML 239 (610)
T ss_pred eeCCCCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcC
Confidence 46788999999999999999999999999999999999999999999999999999999999999999999888765443
Q ss_pred CCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC
Q psy3307 81 TPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS 122 (130)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~ 122 (130)
+..+.. +|..||+||+||||.|.++.+..+...+
T Consensus 240 Pf~~~E--------GP~gLiicPSRELArQt~~iie~~~~~L 273 (610)
T KOG0341|consen 240 PFARGE--------GPYGLIICPSRELARQTHDIIEQYVAAL 273 (610)
T ss_pred ccccCC--------CCeeEEEcCcHHHHHHHHHHHHHHHHHH
Confidence 333333 4899999999999999999988876543
No 31
>KOG0337|consensus
Probab=99.86 E-value=6.6e-22 Score=147.01 Aligned_cols=106 Identities=36% Similarity=0.627 Sum_probs=99.0
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
.-+|..+||+..+++++.+.||+.|||+|+.+||.+++|+|++..|.||||||.||++|+++++.....
T Consensus 20 ~g~fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~----------- 88 (529)
T KOG0337|consen 20 SGGFQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQ----------- 88 (529)
T ss_pred CCCccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccc-----------
Confidence 467999999999999999999999999999999999999999999999999999999999999987652
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.+.+++|++|||+|+.|..+..+.+++.++++++++|
T Consensus 89 ----~g~RalilsptreLa~qtlkvvkdlgrgt~lr~s~~~ 125 (529)
T KOG0337|consen 89 ----TGLRALILSPTRELALQTLKVVKDLGRGTKLRQSLLV 125 (529)
T ss_pred ----cccceeeccCcHHHHHHHHHHHHHhccccchhhhhhc
Confidence 2478999999999999999999999999999988765
No 32
>KOG0344|consensus
Probab=99.85 E-value=3.9e-21 Score=147.20 Aligned_cols=115 Identities=42% Similarity=0.648 Sum_probs=100.8
Q ss_pred CcccccccccCCCcC----CCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 1 MQECLVSLKKQGFDD----IQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 1 ~~~~~~~~~~~~f~~----l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
+.+..+|++..+|++ ...+..+++.+...+|..|+|+|.+++|.++.++|++.|+|||||||++|++|+++++...
T Consensus 122 v~G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~ 201 (593)
T KOG0344|consen 122 VDGFHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDL 201 (593)
T ss_pred ccCCCCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHh
Confidence 346778999999998 5689999999999999999999999999999999999999999999999999999999876
Q ss_pred CCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH--hcCCCce
Q psy3307 77 GPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA--YRSQLRP 126 (130)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~--~~~~~~~ 126 (130)
... +...+.+++|+.|||+|+.|+++++.++. +.++.+.
T Consensus 202 ~~~-----------~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a 242 (593)
T KOG0344|consen 202 SQE-----------KHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRA 242 (593)
T ss_pred hcc-----------cCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhh
Confidence 531 23345899999999999999999999998 5555543
No 33
>PRK02362 ski2-like helicase; Provisional
Probab=99.83 E-value=7.3e-20 Score=147.59 Aligned_cols=97 Identities=21% Similarity=0.339 Sum_probs=87.2
Q ss_pred CCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q psy3307 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 90 (130)
Q Consensus 12 ~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~ 90 (130)
.|++++|++.+++++++.|+..++|+|.++++. +.+|+|++++||||||||++|.+|+++.+...
T Consensus 2 ~~~~l~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~~-------------- 67 (737)
T PRK02362 2 KIAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARG-------------- 67 (737)
T ss_pred ChhhcCCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhcC--------------
Confidence 589999999999999999999999999999998 77999999999999999999999999988531
Q ss_pred CCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 91 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 91 ~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.++||++|+++|+.|.++.++++.. .|+++..
T Consensus 68 -----~kal~i~P~raLa~q~~~~~~~~~~-~g~~v~~ 99 (737)
T PRK02362 68 -----GKALYIVPLRALASEKFEEFERFEE-LGVRVGI 99 (737)
T ss_pred -----CcEEEEeChHHHHHHHHHHHHHhhc-CCCEEEE
Confidence 4799999999999999999998754 4666654
No 34
>KOG0350|consensus
Probab=99.82 E-value=3.6e-20 Score=140.14 Aligned_cols=112 Identities=30% Similarity=0.427 Sum_probs=95.3
Q ss_pred ccccccccCCCcCCCCCHHHHHH----------HHHCCCCCCcHHHHHHHhHHh---------cCCcEEEEccCCchHHH
Q psy3307 3 ECLVSLKKQGFDDIQMTEIITNN----------IALARYDKPTPVQKYAIPVII---------SGRDVMACAQTGSGKTA 63 (130)
Q Consensus 3 ~~~~~~~~~~f~~l~l~~~i~~~----------l~~~~~~~~t~~Q~~~i~~~~---------~g~~~l~~aptGsGKT~ 63 (130)
+..-++..+.|+.+++++.+... +.++++....|+|..++|.++ .++|+++.||||||||+
T Consensus 119 ~t~~~nslq~~s~l~~se~k~~~d~lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTL 198 (620)
T KOG0350|consen 119 ETAQNNSLQIFSVLGKSEMKNLEDTLEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTL 198 (620)
T ss_pred eecCCCceeeeeccchhHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCcee
Confidence 34455666778888877766555 888999999999999999885 46899999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 64 AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 64 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
||.+|+++.+.++.. ...|+|||+||++|+.|+++.|+++..++|+.|+.+
T Consensus 199 aY~iPIVQ~L~~R~v---------------~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~ 249 (620)
T KOG0350|consen 199 AYVIPIVQLLSSRPV---------------KRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSL 249 (620)
T ss_pred eehhHHHHHHccCCc---------------cceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEec
Confidence 999999999876532 237899999999999999999999999999998764
No 35
>PRK00254 ski2-like helicase; Provisional
Probab=99.82 E-value=1.9e-19 Score=144.87 Aligned_cols=99 Identities=23% Similarity=0.387 Sum_probs=88.1
Q ss_pred CCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q psy3307 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 90 (130)
Q Consensus 12 ~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~ 90 (130)
.|+++++++.+.+.+++.||+.++|+|.++++. +.+|+|+++++|||||||++|.+|+++.+....
T Consensus 2 ~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~------------- 68 (720)
T PRK00254 2 KVDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREG------------- 68 (720)
T ss_pred cHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcC-------------
Confidence 688999999999999999999999999999986 789999999999999999999999999876432
Q ss_pred CCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 91 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 91 ~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.++|+++|+++|+.|.++.++.+. ..++++..+
T Consensus 69 -----~~~l~l~P~~aLa~q~~~~~~~~~-~~g~~v~~~ 101 (720)
T PRK00254 69 -----GKAVYLVPLKALAEEKYREFKDWE-KLGLRVAMT 101 (720)
T ss_pred -----CeEEEEeChHHHHHHHHHHHHHHh-hcCCEEEEE
Confidence 579999999999999999998864 457766543
No 36
>KOG0336|consensus
Probab=99.80 E-value=5.4e-20 Score=136.95 Aligned_cols=116 Identities=37% Similarity=0.516 Sum_probs=96.3
Q ss_pred cccccccCCCcCCC-CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCC
Q psy3307 4 CLVSLKKQGFDDIQ-MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 82 (130)
Q Consensus 4 ~~~~~~~~~f~~l~-l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~ 82 (130)
.-+|+|.-+|+|.. -.+++++++++.||..|||+|.++||.++.|.|++..|.||+|||++|++|.+.++......-
T Consensus 212 rpIPnP~ctFddAFq~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~-- 289 (629)
T KOG0336|consen 212 RPIPNPVCTFDDAFQCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRR-- 289 (629)
T ss_pred ccCCCCcCcHHHHHhhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhh--
Confidence 34788888898754 579999999999999999999999999999999999999999999999999988876543210
Q ss_pred CCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 83 ~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
....+|.+|+++|||||+.|+.-+++++..+ |.+..|+|
T Consensus 290 --------~qr~~p~~lvl~ptreLalqie~e~~kysyn-g~ksvc~y 328 (629)
T KOG0336|consen 290 --------EQRNGPGVLVLTPTRELALQIEGEVKKYSYN-GLKSVCVY 328 (629)
T ss_pred --------hccCCCceEEEeccHHHHHHHHhHHhHhhhc-CcceEEEe
Confidence 1233588999999999999999999888654 45555554
No 37
>KOG0327|consensus
Probab=99.79 E-value=5.7e-20 Score=135.09 Aligned_cols=105 Identities=37% Similarity=0.512 Sum_probs=96.4
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
-..+|+|++|.+.+++.+-..||+.|+.+|++||.++..|.|+.+++++|+|||.+|++++++.+.-....
T Consensus 24 vvdsfddm~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke--------- 94 (397)
T KOG0327|consen 24 VVDSFDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKE--------- 94 (397)
T ss_pred HhhhhhhcCCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHH---------
Confidence 34589999999999999999999999999999999999999999999999999999999999998543322
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.++++++|||+||.|.....+.++..+++++..+
T Consensus 95 -------~qalilaPtreLa~qi~~v~~~lg~~~~~~v~~~ 128 (397)
T KOG0327|consen 95 -------TQALILAPTRELAQQIQKVVRALGDHMDVSVHAC 128 (397)
T ss_pred -------HHHHHhcchHHHHHHHHHHHHhhhcccceeeeee
Confidence 6899999999999999999999999999988754
No 38
>KOG0329|consensus
Probab=99.78 E-value=2.7e-19 Score=126.55 Aligned_cols=112 Identities=32% Similarity=0.446 Sum_probs=100.7
Q ss_pred ccccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCC
Q psy3307 3 ECLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 82 (130)
Q Consensus 3 ~~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~ 82 (130)
+.++..+.+.|.|+-|.+++++++-+.||++|+++|+++||...-|.|++++|..|.|||..|.++.++.+..-...
T Consensus 34 gsyv~ihssgfrdfllkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~--- 110 (387)
T KOG0329|consen 34 GSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQ--- 110 (387)
T ss_pred CcEEEEeccchhhhhcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCe---
Confidence 56788889999999999999999999999999999999999999999999999999999999999999988654332
Q ss_pred CCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCC-CceEEeC
Q psy3307 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQ-LRPCVVL 130 (130)
Q Consensus 83 ~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~-~~~~~~~ 130 (130)
..++++|.|||||-|+.++..+++++++ +++++.|
T Consensus 111 -------------vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFf 146 (387)
T KOG0329|consen 111 -------------VSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFF 146 (387)
T ss_pred -------------EEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEE
Confidence 6799999999999999999999999865 5666543
No 39
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.77 E-value=3.7e-18 Score=137.00 Aligned_cols=98 Identities=27% Similarity=0.397 Sum_probs=88.1
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCce
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 97 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (130)
|++.+.+++++. |..|||.|.++||.+.+|+|+++.||||||||++.++|++..+.+... .....+..
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~-----------~~~~~~i~ 75 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGK-----------GKLEDGIY 75 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccC-----------CCCCCceE
Confidence 789999999888 899999999999999999999999999999999999999999998741 11233478
Q ss_pred EEEEcCcHHHHHHHHHHHHHHHhcCCCceE
Q psy3307 98 GLVLAPTRELATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 98 ~lil~Pt~~La~q~~~~~~~l~~~~~~~~~ 127 (130)
+|||+|.|+|..++.+.++..++.+|+.+.
T Consensus 76 ~lYIsPLkALn~Di~~rL~~~~~~~G~~v~ 105 (814)
T COG1201 76 ALYISPLKALNNDIRRRLEEPLRELGIEVA 105 (814)
T ss_pred EEEeCcHHHHHHHHHHHHHHHHHHcCCccc
Confidence 999999999999999999999999998763
No 40
>PRK01172 ski2-like helicase; Provisional
Probab=99.76 E-value=7.4e-18 Score=134.92 Aligned_cols=96 Identities=20% Similarity=0.293 Sum_probs=84.9
Q ss_pred CCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q psy3307 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSR 91 (130)
Q Consensus 12 ~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~ 91 (130)
.|++++|++.+++.+.+.+++ ++++|.++++.+.+|+|++++||||||||+++.++++..+...
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~--------------- 65 (674)
T PRK01172 2 KISDLGYDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG--------------- 65 (674)
T ss_pred cHhhcCCCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhC---------------
Confidence 588999999999999999985 9999999999999999999999999999999999999877542
Q ss_pred CCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 92 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 92 ~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.++|+++|+++||.|.++.++++. ..|+++..
T Consensus 66 ----~k~v~i~P~raLa~q~~~~~~~l~-~~g~~v~~ 97 (674)
T PRK01172 66 ----LKSIYIVPLRSLAMEKYEELSRLR-SLGMRVKI 97 (674)
T ss_pred ----CcEEEEechHHHHHHHHHHHHHHh-hcCCeEEE
Confidence 469999999999999999998864 45665543
No 41
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.74 E-value=3.1e-17 Score=134.33 Aligned_cols=88 Identities=27% Similarity=0.460 Sum_probs=73.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCce
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 97 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (130)
+++.+.+++++ +|..|||+|.++|+.+++|+|++++||||||||++|++|+++.+...... .....+++
T Consensus 18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~----------~~~~~~~~ 86 (876)
T PRK13767 18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGRE----------GELEDKVY 86 (876)
T ss_pred cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccc----------cCCCCCeE
Confidence 66777777665 78899999999999999999999999999999999999999988753211 00122478
Q ss_pred EEEEcCcHHHHHHHHHHHH
Q psy3307 98 GLVLAPTRELATQIYDEAK 116 (130)
Q Consensus 98 ~lil~Pt~~La~q~~~~~~ 116 (130)
+||++|+|+|+.|+++.+.
T Consensus 87 ~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 87 CLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred EEEEcCHHHHHHHHHHHHH
Confidence 9999999999999988665
No 42
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.73 E-value=4.7e-17 Score=109.14 Aligned_cols=78 Identities=41% Similarity=0.646 Sum_probs=69.7
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~ 114 (130)
||+|.++|+.+.+|+|+++.||||+|||++|+++++..+.+.. . .++++++|+++|+.|+.+.
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~-~----------------~~~lii~P~~~l~~q~~~~ 63 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGK-D----------------ARVLIIVPTRALAEQQFER 63 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTS-S----------------SEEEEEESSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCC-C----------------ceEEEEeeccccccccccc
Confidence 7999999999999999999999999999999999999888752 1 4799999999999999999
Q ss_pred HHHHHhcCCCceEEe
Q psy3307 115 AKKFAYRSQLRPCVV 129 (130)
Q Consensus 115 ~~~l~~~~~~~~~~~ 129 (130)
+.++....++++..+
T Consensus 64 ~~~~~~~~~~~~~~~ 78 (169)
T PF00270_consen 64 LRKFFSNTNVRVVLL 78 (169)
T ss_dssp HHHHTTTTTSSEEEE
T ss_pred ccccccccccccccc
Confidence 999998877777654
No 43
>KOG0332|consensus
Probab=99.73 E-value=5e-18 Score=124.99 Aligned_cols=103 Identities=26% Similarity=0.521 Sum_probs=94.2
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
..+|++|+|.+++++.+-.++|..|+.+|..++|.++.. ++++.++.+|+|||.||.+.+|.++.-....
T Consensus 89 ~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~-------- 160 (477)
T KOG0332|consen 89 AKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVV-------- 160 (477)
T ss_pred cccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccC--------
Confidence 568999999999999999999999999999999999977 7999999999999999999999998754432
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
|+++-|+||||||.|+.+.+.+.+++.+++...
T Consensus 161 --------PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~y 193 (477)
T KOG0332|consen 161 --------PQCICLAPTRELAPQTGEVVEEMGKFTELTASY 193 (477)
T ss_pred --------CCceeeCchHHHHHHHHHHHHHhcCceeeeEEE
Confidence 889999999999999999999999999877654
No 44
>KOG4284|consensus
Probab=99.71 E-value=4.7e-18 Score=132.26 Aligned_cols=110 Identities=28% Similarity=0.381 Sum_probs=98.2
Q ss_pred cccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCC
Q psy3307 4 CLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPP 83 (130)
Q Consensus 4 ~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~ 83 (130)
++.+.-..+|++|.|..+++..|+..+|..||++|..|||.++.+.|+|++|..|+|||+.|.+.+++.+..+...
T Consensus 18 DV~~~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~---- 93 (980)
T KOG4284|consen 18 DVQSNCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSH---- 93 (980)
T ss_pred ccccCCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCc----
Confidence 4556777889999999999999999999999999999999999999999999999999999999888877665433
Q ss_pred CCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHh-cCCCceEEe
Q psy3307 84 AGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAY-RSQLRPCVV 129 (130)
Q Consensus 84 ~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~-~~~~~~~~~ 129 (130)
++++|++||||+|.|+.+.+.+++. ..|.+|.+.
T Consensus 94 ------------~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvf 128 (980)
T KOG4284|consen 94 ------------IQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVF 128 (980)
T ss_pred ------------ceeEEEecchhhhhHHHHHHHHhcccccCcceEEE
Confidence 8899999999999999999999887 467777653
No 45
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.69 E-value=2.9e-16 Score=127.06 Aligned_cols=98 Identities=15% Similarity=0.181 Sum_probs=85.6
Q ss_pred cCCCCCHHHHHHHH-----HCCCCCC---cHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCC
Q psy3307 14 DDIQMTEIITNNIA-----LARYDKP---TPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAG 85 (130)
Q Consensus 14 ~~l~l~~~i~~~l~-----~~~~~~~---t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~ 85 (130)
+.|.+..++.+.+. ..||..| +|+|.++++.+..++|++++++||+|||++|++|++..+....
T Consensus 65 eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~-------- 136 (970)
T PRK12899 65 EAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK-------- 136 (970)
T ss_pred HHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC--------
Confidence 35667777777765 5788887 9999999999999999999999999999999999998876421
Q ss_pred CCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEeC
Q psy3307 86 RGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 86 ~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.++|++||++||.|..+++..+.+.+|+++.+++
T Consensus 137 -----------~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~ 170 (970)
T PRK12899 137 -----------PVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLV 170 (970)
T ss_pred -----------CeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEe
Confidence 2889999999999999999999999999988764
No 46
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.67 E-value=6.1e-16 Score=124.04 Aligned_cols=90 Identities=23% Similarity=0.285 Sum_probs=77.7
Q ss_pred HHHHHH-HHHCCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q psy3307 20 EIITNN-IALARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92 (130)
Q Consensus 20 ~~i~~~-l~~~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
..+.+. ...++| .||++|.++++.+.++ .+++++||||||||++|++|++..+...
T Consensus 248 ~~~~~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g---------------- 310 (681)
T PRK10917 248 GELLKKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG---------------- 310 (681)
T ss_pred hHHHHHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC----------------
Confidence 344444 466788 6999999999999877 4899999999999999999999877532
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 93 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 93 ~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.+++|++||++||.|+++.++++...+++++.++
T Consensus 311 ---~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll 344 (681)
T PRK10917 311 ---YQAALMAPTEILAEQHYENLKKLLEPLGIRVALL 344 (681)
T ss_pred ---CeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEE
Confidence 6799999999999999999999999999888765
No 47
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.66 E-value=7.8e-16 Score=122.53 Aligned_cols=90 Identities=23% Similarity=0.289 Sum_probs=78.0
Q ss_pred HHHHHHHHHCCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q psy3307 20 EIITNNIALARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKK 93 (130)
Q Consensus 20 ~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~ 93 (130)
+.+.+.++.++| .+|+.|.++|+.++++ .+.+++||||||||++|++|++..+...
T Consensus 223 ~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g----------------- 284 (630)
T TIGR00643 223 ELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG----------------- 284 (630)
T ss_pred HHHHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC-----------------
Confidence 334556688899 7999999999999876 3689999999999999999999887532
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 94 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 94 ~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.+++|++||++||.|+++.++++...++++++++
T Consensus 285 --~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~ll 318 (630)
T TIGR00643 285 --YQVALMAPTEILAEQHYNSLRNLLAPLGIEVALL 318 (630)
T ss_pred --CcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEE
Confidence 5799999999999999999999999888888765
No 48
>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=99.66 E-value=4.4e-16 Score=120.27 Aligned_cols=69 Identities=26% Similarity=0.367 Sum_probs=61.9
Q ss_pred HCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.+||+.++|+|.++|+.+++|+|+++.+|||||||++|++|++.. . ..+||++|+++|
T Consensus 6 ~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~----~------------------~~~lVi~P~~~L 63 (470)
T TIGR00614 6 VFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCS----D------------------GITLVISPLISL 63 (470)
T ss_pred hcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHc----C------------------CcEEEEecHHHH
Confidence 479999999999999999999999999999999999999998742 1 359999999999
Q ss_pred HHHHHHHHHHH
Q psy3307 108 ATQIYDEAKKF 118 (130)
Q Consensus 108 a~q~~~~~~~l 118 (130)
+.|..+.++.+
T Consensus 64 ~~dq~~~l~~~ 74 (470)
T TIGR00614 64 MEDQVLQLKAS 74 (470)
T ss_pred HHHHHHHHHHc
Confidence 99988887654
No 49
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.66 E-value=1e-15 Score=128.05 Aligned_cols=88 Identities=20% Similarity=0.250 Sum_probs=72.3
Q ss_pred HHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEE
Q psy3307 21 IITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLV 100 (130)
Q Consensus 21 ~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~li 100 (130)
++.+.+++.....|+++|..+++.++.|+|++++||||||||+ |.+|++..+.... ++++|
T Consensus 66 ~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~g------------------~~vLI 126 (1171)
T TIGR01054 66 EFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAKKG------------------KRCYI 126 (1171)
T ss_pred HHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHhcC------------------CeEEE
Confidence 3444455434448999999999999999999999999999997 6677776654321 68999
Q ss_pred EcCcHHHHHHHHHHHHHHHhcCCCceE
Q psy3307 101 LAPTRELATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 101 l~Pt~~La~q~~~~~~~l~~~~~~~~~ 127 (130)
++||++||.|+++.++.++..+++.+.
T Consensus 127 L~PTreLa~Qi~~~l~~l~~~~~i~~~ 153 (1171)
T TIGR01054 127 ILPTTLLVIQVAEKISSLAEKAGVGTV 153 (1171)
T ss_pred EeCHHHHHHHHHHHHHHHHHhcCCcee
Confidence 999999999999999999998887654
No 50
>PRK09401 reverse gyrase; Reviewed
Probab=99.65 E-value=1.5e-15 Score=127.00 Aligned_cols=81 Identities=22% Similarity=0.271 Sum_probs=69.0
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.|+ .|+++|..+++.++.|+|++++||||||||. |.++++..+... +.+++|++||++|+
T Consensus 77 ~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~~------------------g~~alIL~PTreLa 136 (1176)
T PRK09401 77 TGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAKK------------------GKKSYIIFPTRLLV 136 (1176)
T ss_pred cCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHhc------------------CCeEEEEeccHHHH
Confidence 476 8999999999999999999999999999996 556655554332 16899999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.|+.+.+++++...++.+.++
T Consensus 137 ~Qi~~~l~~l~~~~~~~~~~~ 157 (1176)
T PRK09401 137 EQVVEKLEKFGEKVGCGVKIL 157 (1176)
T ss_pred HHHHHHHHHHhhhcCceEEEE
Confidence 999999999999888876554
No 51
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.65 E-value=1.7e-15 Score=123.51 Aligned_cols=89 Identities=28% Similarity=0.411 Sum_probs=81.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCce
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 97 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (130)
..+.+..++.+.|...++..|.+|+..+.+|+|+++.++||||||.+|++|+++.+..... -+
T Consensus 55 ~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~-----------------a~ 117 (851)
T COG1205 55 RDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPS-----------------AR 117 (851)
T ss_pred hhhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcC-----------------cc
Confidence 3445677888889999999999999999999999999999999999999999999987654 36
Q ss_pred EEEEcCcHHHHHHHHHHHHHHHhcCC
Q psy3307 98 GLVLAPTRELATQIYDEAKKFAYRSQ 123 (130)
Q Consensus 98 ~lil~Pt~~La~q~~~~~~~l~~~~~ 123 (130)
+|+|.||++||++..+.++++...++
T Consensus 118 AL~lYPtnALa~DQ~~rl~~~~~~~~ 143 (851)
T COG1205 118 ALLLYPTNALANDQAERLRELISDLP 143 (851)
T ss_pred EEEEechhhhHhhHHHHHHHHHHhCC
Confidence 99999999999999999999999888
No 52
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.65 E-value=2.3e-15 Score=123.46 Aligned_cols=93 Identities=22% Similarity=0.198 Sum_probs=78.9
Q ss_pred CCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 17 QMTEIITNNIAL-ARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 17 ~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
..+...++.+.+ ++| .||+.|.++|+.+.++ +|++++|+||||||.+|++|++..+...
T Consensus 435 ~~~~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g------------- 500 (926)
T TIGR00580 435 PPDLEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG------------- 500 (926)
T ss_pred CCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-------------
Confidence 345566666544 688 5999999999999875 7999999999999999999999887542
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.+++|++||++||.|+++.++++...+++++..+
T Consensus 501 ------~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~L 534 (926)
T TIGR00580 501 ------KQVAVLVPTTLLAQQHFETFKERFANFPVTIELL 534 (926)
T ss_pred ------CeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEE
Confidence 5799999999999999999999888888887654
No 53
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.64 E-value=2.3e-15 Score=119.44 Aligned_cols=81 Identities=25% Similarity=0.391 Sum_probs=68.5
Q ss_pred CCCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q psy3307 16 IQMTEIITNNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 94 (130)
Q Consensus 16 l~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ 94 (130)
++.++...+.|++ +||+.++|+|.++|+.+++|+|+++.+|||+|||++|++|++.. .
T Consensus 7 ~~~~~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~----~----------------- 65 (607)
T PRK11057 7 LNLESLAKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL----D----------------- 65 (607)
T ss_pred CCchhHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc----C-----------------
Confidence 3445555556655 79999999999999999999999999999999999999999842 1
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 95 FPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 95 ~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
..+||++|+++|+.|..+.++.+
T Consensus 66 -g~tlVisPl~sL~~dqv~~l~~~ 88 (607)
T PRK11057 66 -GLTLVVSPLISLMKDQVDQLLAN 88 (607)
T ss_pred -CCEEEEecHHHHHHHHHHHHHHc
Confidence 35899999999999998888764
No 54
>PRK14701 reverse gyrase; Provisional
Probab=99.63 E-value=2.9e-15 Score=127.99 Aligned_cols=85 Identities=19% Similarity=0.174 Sum_probs=69.8
Q ss_pred HHHHHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEE
Q psy3307 21 IITNNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGL 99 (130)
Q Consensus 21 ~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 99 (130)
++.+.+++ .|| .|+++|..+|+.++.|+|+++.||||||||++++++.+.... . +.+++
T Consensus 67 ~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~-~------------------g~~aL 126 (1638)
T PRK14701 67 EFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL-K------------------GKKCY 126 (1638)
T ss_pred HHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh-c------------------CCeEE
Confidence 34445555 799 699999999999999999999999999999976665554321 1 15799
Q ss_pred EEcCcHHHHHHHHHHHHHHHhcCCCc
Q psy3307 100 VLAPTRELATQIYDEAKKFAYRSQLR 125 (130)
Q Consensus 100 il~Pt~~La~q~~~~~~~l~~~~~~~ 125 (130)
|++||++|+.|+.+.++.+++.+++.
T Consensus 127 Vl~PTreLa~Qi~~~l~~l~~~~~~~ 152 (1638)
T PRK14701 127 IILPTTLLVKQTVEKIESFCEKANLD 152 (1638)
T ss_pred EEECHHHHHHHHHHHHHHHHhhcCCc
Confidence 99999999999999999999886543
No 55
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.63 E-value=3.6e-15 Score=122.90 Aligned_cols=84 Identities=23% Similarity=0.268 Sum_probs=68.6
Q ss_pred CCCc--CCCCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 11 QGFD--DIQMTEIITNNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 11 ~~f~--~l~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
..|. +++....+...+++ +|+..++|+|.++|+.++.|+|+++.+|||+|||+||.+|++.. .
T Consensus 435 ~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~----~---------- 500 (1195)
T PLN03137 435 KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC----P---------- 500 (1195)
T ss_pred ccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc----C----------
Confidence 3466 45566667666654 79999999999999999999999999999999999999999852 1
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHH
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAK 116 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~ 116 (130)
..+|||+|+++|+.+....+.
T Consensus 501 --------GiTLVISPLiSLmqDQV~~L~ 521 (1195)
T PLN03137 501 --------GITLVISPLVSLIQDQIMNLL 521 (1195)
T ss_pred --------CcEEEEeCHHHHHHHHHHHHH
Confidence 359999999999985544443
No 56
>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=99.59 E-value=8.5e-15 Score=115.91 Aligned_cols=72 Identities=29% Similarity=0.426 Sum_probs=63.4
Q ss_pred HHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcC
Q psy3307 25 NIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 103 (130)
Q Consensus 25 ~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~P 103 (130)
.|++ +||..++|+|.++|+.+++|+|+++++|||+|||++|.+|++.. . ..++|++|
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~----~------------------g~~lVisP 61 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL----K------------------GLTVVISP 61 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc----C------------------CcEEEEcC
Confidence 4444 89999999999999999999999999999999999999998741 1 34899999
Q ss_pred cHHHHHHHHHHHHHH
Q psy3307 104 TRELATQIYDEAKKF 118 (130)
Q Consensus 104 t~~La~q~~~~~~~l 118 (130)
+++|+.|..+.++.+
T Consensus 62 l~sL~~dq~~~l~~~ 76 (591)
T TIGR01389 62 LISLMKDQVDQLRAA 76 (591)
T ss_pred CHHHHHHHHHHHHHc
Confidence 999999998888775
No 57
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.58 E-value=1.3e-14 Score=115.00 Aligned_cols=81 Identities=22% Similarity=0.134 Sum_probs=73.3
Q ss_pred HCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.+|. .|+++|..+++.++.|+ ++++.||+|||++|.+|++...... ++++|++||++|
T Consensus 99 ~lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-------------------~~v~VvTptreL 156 (656)
T PRK12898 99 VLGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-------------------LPVHVITVNDYL 156 (656)
T ss_pred HhCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-------------------CeEEEEcCcHHH
Confidence 3576 79999999999999999 9999999999999999999865432 579999999999
Q ss_pred HHHHHHHHHHHHhcCCCceEEeC
Q psy3307 108 ATQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 108 a~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
|.|.++++..+.+.+|+++.+++
T Consensus 157 A~qdae~~~~l~~~lGlsv~~i~ 179 (656)
T PRK12898 157 AERDAELMRPLYEALGLTVGCVV 179 (656)
T ss_pred HHHHHHHHHHHHhhcCCEEEEEe
Confidence 99999999999999999998874
No 58
>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=99.58 E-value=8.6e-15 Score=118.34 Aligned_cols=76 Identities=26% Similarity=0.312 Sum_probs=60.1
Q ss_pred CCCCCCcHHHHHHHhHHhcCC-cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEE-EcCcHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLV-LAPTRE 106 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~-~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~li-l~Pt~~ 106 (130)
.||+ |||+|.++++.++.|+ ++++++|||||||.++.++.+.. .... ..++.|| ++|||+
T Consensus 12 ~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~-~~~~----------------~~~~rLv~~vPtRe 73 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAV-EIGA----------------KVPRRLVYVVNRRT 73 (844)
T ss_pred hCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccc-cccc----------------cccceEEEeCchHH
Confidence 4886 9999999999999998 68888999999999765555422 1111 1255665 669999
Q ss_pred HHHHHHHHHHHHHhcC
Q psy3307 107 LATQIYDEAKKFAYRS 122 (130)
Q Consensus 107 La~q~~~~~~~l~~~~ 122 (130)
|+.|+++.++++++.+
T Consensus 74 La~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 74 VVDQVTEEAEKIGERL 89 (844)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999999999876
No 59
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.57 E-value=2.7e-14 Score=119.35 Aligned_cols=90 Identities=26% Similarity=0.254 Sum_probs=74.8
Q ss_pred HHHHHHHHHCCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q psy3307 20 EIITNNIALARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKK 93 (130)
Q Consensus 20 ~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~ 93 (130)
++..+....++| .+|+.|.++|+.++++ +|++++|+||+|||.+|+.++...+..
T Consensus 588 ~~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~------------------ 648 (1147)
T PRK10689 588 EQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN------------------ 648 (1147)
T ss_pred HHHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc------------------
Confidence 344455677888 7999999999999987 899999999999999998888766532
Q ss_pred CCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 94 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 94 ~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
+.+++|++||++||.|+++.+++.....++++.++
T Consensus 649 -g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l 683 (1147)
T PRK10689 649 -HKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEML 683 (1147)
T ss_pred -CCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEE
Confidence 16799999999999999999998777777766543
No 60
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.47 E-value=4e-13 Score=108.65 Aligned_cols=96 Identities=24% Similarity=0.345 Sum_probs=79.7
Q ss_pred cCCCCCHHHHHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q psy3307 14 DDIQMTEIITNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92 (130)
Q Consensus 14 ~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
+...+++.+.+.++..++.+..+-|+.++.. +.+|+|+++++|||||||+..++.+++.+.+..
T Consensus 12 ~~~~~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~--------------- 76 (766)
T COG1204 12 SKVKLDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGG--------------- 76 (766)
T ss_pred ccccccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcC---------------
Confidence 3445788889889888997777777776654 556799999999999999999999999998763
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 93 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 93 ~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.++|+++|+|+||.+.++.+.+ .+.+|++|..
T Consensus 77 ---~k~vYivPlkALa~Ek~~~~~~-~~~~GirV~~ 108 (766)
T COG1204 77 ---GKVVYIVPLKALAEEKYEEFSR-LEELGIRVGI 108 (766)
T ss_pred ---CcEEEEeChHHHHHHHHHHhhh-HHhcCCEEEE
Confidence 4699999999999999999994 4667777764
No 61
>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=99.45 E-value=7.6e-13 Score=108.60 Aligned_cols=92 Identities=17% Similarity=0.255 Sum_probs=73.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHh----HHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIP----VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKK 93 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~----~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~ 93 (130)
+++...+.+...|| ++++.|.+.+. .+.+|+++++.||||+|||++|++|++.... ..
T Consensus 231 ~~~~~~~~~~~~~~-~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~---------------- 292 (850)
T TIGR01407 231 LSSLFSKNIDRLGL-EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TE---------------- 292 (850)
T ss_pred ccHHHHHhhhhcCC-ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CC----------------
Confidence 34466777778888 48999998666 4558899999999999999999999988665 21
Q ss_pred CCceEEEEcCcHHHHHHHHH-HHHHHHhcCC--CceEEe
Q psy3307 94 VFPLGLVLAPTRELATQIYD-EAKKFAYRSQ--LRPCVV 129 (130)
Q Consensus 94 ~~~~~lil~Pt~~La~q~~~-~~~~l~~~~~--~~~~~~ 129 (130)
.+++|.+||++|+.|+.. .+..+.+.++ ++++++
T Consensus 293 --~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~ 329 (850)
T TIGR01407 293 --KPVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALI 329 (850)
T ss_pred --CeEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 369999999999999954 7888877766 666554
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.40 E-value=2e-12 Score=100.74 Aligned_cols=72 Identities=19% Similarity=0.152 Sum_probs=58.2
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
..|+++|.++++.++.+++.++++|||+|||+.+.. +...+..... .++||++||++|+.|+
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~-l~~~~~~~~~-----------------~~vLilvpt~eL~~Q~ 174 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYL-LSRYYLENYE-----------------GKVLIIVPTTSLVTQM 174 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHH-HHHHHHhcCC-----------------CeEEEEECcHHHHHHH
Confidence 489999999999999999999999999999997643 2222222211 4799999999999999
Q ss_pred HHHHHHHHhc
Q psy3307 112 YDEAKKFAYR 121 (130)
Q Consensus 112 ~~~~~~l~~~ 121 (130)
.+.++++...
T Consensus 175 ~~~l~~~~~~ 184 (501)
T PHA02558 175 IDDFVDYRLF 184 (501)
T ss_pred HHHHHHhccc
Confidence 9999987653
No 63
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.39 E-value=2.4e-12 Score=104.01 Aligned_cols=80 Identities=23% Similarity=0.165 Sum_probs=71.5
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|..+++.+.+|+ ++.+.||+|||+++++|++...... ..++|++||++||
T Consensus 75 ~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G-------------------~~v~VvTpt~~LA 132 (790)
T PRK09200 75 LGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALEG-------------------KGVHLITVNDYLA 132 (790)
T ss_pred hCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHcC-------------------CCeEEEeCCHHHH
Confidence 576 89999999999888887 9999999999999999998665532 5699999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEeC
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.|.+.++..+.+.+|+++.+++
T Consensus 133 ~qd~e~~~~l~~~lGl~v~~i~ 154 (790)
T PRK09200 133 KRDAEEMGQVYEFLGLTVGLNF 154 (790)
T ss_pred HHHHHHHHHHHhhcCCeEEEEe
Confidence 9999999999999999998763
No 64
>KOG0952|consensus
Probab=99.38 E-value=2.2e-12 Score=105.03 Aligned_cols=91 Identities=24% Similarity=0.253 Sum_probs=74.1
Q ss_pred HCCCCCCcHHHHHHHhHHh-cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHH
Q psy3307 28 LARYDKPTPVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRE 106 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~-~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 106 (130)
-++|++++.+|++++|.+. ...|.++|||||||||..++|.+|+.+.+.... ..-..+..++++|+|+++
T Consensus 105 ~f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~---------~~i~k~~fKiVYIaPmKA 175 (1230)
T KOG0952|consen 105 FFSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQ---------GDIAKDDFKIVYIAPMKA 175 (1230)
T ss_pred cccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccc---------cccccCCceEEEEechHH
Confidence 4577889999999999887 557999999999999999999999999873221 112333489999999999
Q ss_pred HHHHHHHHHHHHHhcCCCceE
Q psy3307 107 LATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 107 La~q~~~~~~~l~~~~~~~~~ 127 (130)
||.++.+.+.+-...+|++|.
T Consensus 176 La~Em~~~~~kkl~~~gi~v~ 196 (1230)
T KOG0952|consen 176 LAAEMVDKFSKKLAPLGISVR 196 (1230)
T ss_pred HHHHHHHHHhhhcccccceEE
Confidence 999999988776676777764
No 65
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.36 E-value=3.6e-12 Score=98.89 Aligned_cols=101 Identities=22% Similarity=0.324 Sum_probs=90.5
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
....++|++++++.+.++..|++++.|+|..++.. ++.|+|.++.++|+||||+.--++-+.++....
T Consensus 193 r~~vdeLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g----------- 261 (830)
T COG1202 193 RVPVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGG----------- 261 (830)
T ss_pred cccccccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCC-----------
Confidence 34577899999999999999999999999999976 679999999999999999999999999888754
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.+.|+++|..+||+|-++.|++--..+|+++++
T Consensus 262 -------~KmlfLvPLVALANQKy~dF~~rYs~Lglkvai 294 (830)
T COG1202 262 -------KKMLFLVPLVALANQKYEDFKERYSKLGLKVAI 294 (830)
T ss_pred -------CeEEEEehhHHhhcchHHHHHHHhhcccceEEE
Confidence 469999999999999999998766888888754
No 66
>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=99.36 E-value=4.4e-12 Score=101.58 Aligned_cols=80 Identities=20% Similarity=0.112 Sum_probs=69.6
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|..+...+..|+ +++++||+|||+++.+|++...... .++.|++||++||
T Consensus 53 lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~G-------------------~~V~VvTpt~~LA 110 (745)
T TIGR00963 53 LGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALTG-------------------KGVHVVTVNDYLA 110 (745)
T ss_pred hCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHhC-------------------CCEEEEcCCHHHH
Confidence 576 79999999998888887 8999999999999999996444432 3499999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEeC
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.|.++++..+.+.+|+++.+++
T Consensus 111 ~qdae~~~~l~~~LGLsv~~i~ 132 (745)
T TIGR00963 111 QRDAEWMGQVYRFLGLSVGLIL 132 (745)
T ss_pred HHHHHHHHHHhccCCCeEEEEe
Confidence 9999999999999999998763
No 67
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.35 E-value=5.7e-12 Score=102.99 Aligned_cols=82 Identities=29% Similarity=0.319 Sum_probs=66.7
Q ss_pred HHCCCCCCcHHHHHHHhHH----hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc
Q psy3307 27 ALARYDKPTPVQKYAIPVI----ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA 102 (130)
Q Consensus 27 ~~~~~~~~t~~Q~~~i~~~----~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~ 102 (130)
...|| +.++-|.+....+ .++..++++|+||+|||++|++|++.... . .++||++
T Consensus 240 ~~~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~--~------------------~~vvI~t 298 (820)
T PRK07246 240 ALLGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD--Q------------------RQIIVSV 298 (820)
T ss_pred ccCCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC--C------------------CcEEEEe
Confidence 33466 6899998855443 47789999999999999999999887431 1 5799999
Q ss_pred CcHHHHHHH-HHHHHHHHhcCCCceEEe
Q psy3307 103 PTRELATQI-YDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 103 Pt~~La~q~-~~~~~~l~~~~~~~~~~~ 129 (130)
||++|++|+ .+.+..+.+.++++++++
T Consensus 299 ~T~~Lq~Ql~~~~i~~l~~~~~~~~~~~ 326 (820)
T PRK07246 299 PTKILQDQIMAEEVKAIQEVFHIDCHSL 326 (820)
T ss_pred CcHHHHHHHHHHHHHHHHHhcCCcEEEE
Confidence 999999999 578899999898887654
No 68
>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=99.32 E-value=1.5e-11 Score=99.03 Aligned_cols=79 Identities=20% Similarity=0.148 Sum_probs=65.0
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|......+..| .+++++||+|||++|++|++...... ..++|++|+++||
T Consensus 67 lgl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~g-------------------~~V~VVTpn~yLA 124 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNALTG-------------------KGAMLVTTNDYLA 124 (762)
T ss_pred cCC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhhcC-------------------CceEEeCCCHHHH
Confidence 455 6677777666655555 69999999999999999987655432 3599999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.|..+++..+.+.+|+++.++
T Consensus 125 ~Rdae~m~~l~~~LGLsv~~~ 145 (762)
T TIGR03714 125 KRDAEEMGPVYEWLGLTVSLG 145 (762)
T ss_pred HHHHHHHHHHHhhcCCcEEEE
Confidence 999999999999999998765
No 69
>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=99.30 E-value=1.7e-11 Score=97.39 Aligned_cols=69 Identities=25% Similarity=0.267 Sum_probs=56.2
Q ss_pred hHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH-hc
Q psy3307 43 PVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA-YR 121 (130)
Q Consensus 43 ~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~-~~ 121 (130)
..+.+++.+++.|+||+|||++|++|++..+..... .++||++||++|+.|+.+.+..+. +.
T Consensus 11 ~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~-----------------~rvlIstpT~~Lq~Ql~~~l~~l~~~~ 73 (636)
T TIGR03117 11 TSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPD-----------------QKIAIAVPTLALMGQLWSELERLTAEG 73 (636)
T ss_pred HHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccC-----------------ceEEEECCcHHHHHHHHHHHHHHHHhh
Confidence 344578899999999999999999999988764321 579999999999999999999998 54
Q ss_pred C--CCceEE
Q psy3307 122 S--QLRPCV 128 (130)
Q Consensus 122 ~--~~~~~~ 128 (130)
+ ++++++
T Consensus 74 l~~~i~~~~ 82 (636)
T TIGR03117 74 LAGPVQAGF 82 (636)
T ss_pred cCCCeeEEE
Confidence 4 444444
No 70
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.30 E-value=5.2e-11 Score=95.82 Aligned_cols=67 Identities=27% Similarity=0.329 Sum_probs=58.1
Q ss_pred CCcHHHHHHHhHHhcC---CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 33 KPTPVQKYAIPVIISG---RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g---~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
.+|+.|.+++..+.++ +++++.++||||||.+|+.++...+... .++||++|+++|+.
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-------------------~~vLvLvPt~~L~~ 204 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-------------------KQALVLVPEIALTP 204 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcC-------------------CeEEEEeCcHHHHH
Confidence 5899999999999874 7999999999999999988776665432 46999999999999
Q ss_pred HHHHHHHHH
Q psy3307 110 QIYDEAKKF 118 (130)
Q Consensus 110 q~~~~~~~l 118 (130)
|+.+.+++.
T Consensus 205 Q~~~~l~~~ 213 (679)
T PRK05580 205 QMLARFRAR 213 (679)
T ss_pred HHHHHHHHH
Confidence 999998764
No 71
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.28 E-value=4.2e-11 Score=80.97 Aligned_cols=78 Identities=44% Similarity=0.517 Sum_probs=67.0
Q ss_pred HCCCCCCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRE 106 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 106 (130)
..++..+++.|.+++..+.++ +++++.+++|+|||.++..+++..+..... .++++++|+++
T Consensus 3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~-----------------~~~l~~~p~~~ 65 (201)
T smart00487 3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKG-----------------KRVLVLVPTRE 65 (201)
T ss_pred ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCC-----------------CcEEEEeCCHH
Confidence 346678999999999999999 999999999999999998888887765421 46999999999
Q ss_pred HHHHHHHHHHHHHhcC
Q psy3307 107 LATQIYDEAKKFAYRS 122 (130)
Q Consensus 107 La~q~~~~~~~l~~~~ 122 (130)
++.|+.+.+..+....
T Consensus 66 ~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 66 LAEQWAEELKKLGPSL 81 (201)
T ss_pred HHHHHHHHHHHHhccC
Confidence 9999999998877553
No 72
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.27 E-value=4.7e-11 Score=87.28 Aligned_cols=77 Identities=22% Similarity=0.188 Sum_probs=60.9
Q ss_pred CCCCCCcHHHHHHHh----HHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 29 ARYDKPTPVQKYAIP----VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~----~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
+.| .|+|.|.+.+. .+.+|.++++.||||+|||++|++|++.++...... ....+++|.++|
T Consensus 5 FPy-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~-------------~~~~kvi~~t~T 70 (289)
T smart00489 5 FPY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER-------------IQKIKLIYLSRT 70 (289)
T ss_pred CCC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc-------------ccccceeEEecc
Confidence 455 46999999554 445889999999999999999999999887654321 011479999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy3307 105 RELATQIYDEAKKFA 119 (130)
Q Consensus 105 ~~La~q~~~~~~~l~ 119 (130)
..+..|....++++.
T Consensus 71 ~~~~~q~i~~l~~~~ 85 (289)
T smart00489 71 VSEIEKRLEELRKLM 85 (289)
T ss_pred HHHHHHHHHHHHhcc
Confidence 999999988888764
No 73
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.27 E-value=4.7e-11 Score=87.28 Aligned_cols=77 Identities=22% Similarity=0.188 Sum_probs=60.9
Q ss_pred CCCCCCcHHHHHHHh----HHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 29 ARYDKPTPVQKYAIP----VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~----~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
+.| .|+|.|.+.+. .+.+|.++++.||||+|||++|++|++.++...... ....+++|.++|
T Consensus 5 FPy-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~-------------~~~~kvi~~t~T 70 (289)
T smart00488 5 FPY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER-------------IQKIKLIYLSRT 70 (289)
T ss_pred CCC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc-------------ccccceeEEecc
Confidence 455 46999999554 445889999999999999999999999887654321 011479999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy3307 105 RELATQIYDEAKKFA 119 (130)
Q Consensus 105 ~~La~q~~~~~~~l~ 119 (130)
..+..|....++++.
T Consensus 71 ~~~~~q~i~~l~~~~ 85 (289)
T smart00488 71 VSEIEKRLEELRKLM 85 (289)
T ss_pred HHHHHHHHHHHHhcc
Confidence 999999988888764
No 74
>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=99.24 E-value=4.3e-11 Score=89.82 Aligned_cols=64 Identities=28% Similarity=0.344 Sum_probs=54.8
Q ss_pred HHHHHHhHHhcCCc--EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHH
Q psy3307 37 VQKYAIPVIISGRD--VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114 (130)
Q Consensus 37 ~Q~~~i~~~~~g~~--~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~ 114 (130)
.|.++++.+.++.+ ++++||||||||++|++|++. .. .++++++|+++|+.|.++.
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~~------------------~~~~~~~P~~aL~~~~~~~ 58 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----GE------------------NDTIALYPTNALIEDQTEA 58 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----cC------------------CCEEEEeChHHHHHHHHHH
Confidence 48999999998875 788999999999999999884 11 3589999999999999999
Q ss_pred HHHHHhcC
Q psy3307 115 AKKFAYRS 122 (130)
Q Consensus 115 ~~~l~~~~ 122 (130)
++.+...+
T Consensus 59 ~~~~~~~~ 66 (357)
T TIGR03158 59 IKEFVDVF 66 (357)
T ss_pred HHHHHHhc
Confidence 98887543
No 75
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.22 E-value=5.2e-11 Score=95.41 Aligned_cols=74 Identities=20% Similarity=0.105 Sum_probs=56.6
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHH---------HHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAA---------FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 105 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~---------~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 105 (130)
..+|.++++.+.+|+|++++|+||||||.+ |++|.+..+..-.. .....++++++|+|
T Consensus 166 ~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~-------------~~~~~~ilvt~Prr 232 (675)
T PHA02653 166 PDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDP-------------NFIERPIVLSLPRV 232 (675)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhccc-------------ccCCcEEEEECcHH
Confidence 348999999999999999999999999987 55566665532110 00125799999999
Q ss_pred HHHHHHHHHHHHHHhc
Q psy3307 106 ELATQIYDEAKKFAYR 121 (130)
Q Consensus 106 ~La~q~~~~~~~l~~~ 121 (130)
+||.|+...+.+....
T Consensus 233 eLa~qi~~~i~~~vg~ 248 (675)
T PHA02653 233 ALVRLHSITLLKSLGF 248 (675)
T ss_pred HHHHHHHHHHHHHhCc
Confidence 9999999988765543
No 76
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.16 E-value=2e-10 Score=93.60 Aligned_cols=80 Identities=20% Similarity=0.069 Sum_probs=65.6
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .++++|...--.+..|+ ++.++||+|||++|.+|++...... ..++|++||++||
T Consensus 79 lg~-~~ydvQliGg~~Lh~G~--Iaem~TGeGKTL~a~Lpa~~~al~G-------------------~~V~VvTpn~yLA 136 (896)
T PRK13104 79 LGL-RHFDVQLIGGMVLHEGN--IAEMRTGEGKTLVATLPAYLNAISG-------------------RGVHIVTVNDYLA 136 (896)
T ss_pred cCC-CcchHHHhhhhhhccCc--cccccCCCCchHHHHHHHHHHHhcC-------------------CCEEEEcCCHHHH
Confidence 454 67778776554444554 7799999999999999999776542 2489999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEeC
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.|.++++..+.+.+|+++.+++
T Consensus 137 ~qd~e~m~~l~~~lGLtv~~i~ 158 (896)
T PRK13104 137 KRDSQWMKPIYEFLGLTVGVIY 158 (896)
T ss_pred HHHHHHHHHHhcccCceEEEEe
Confidence 9999999999999999998763
No 77
>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=99.13 E-value=1.8e-10 Score=86.10 Aligned_cols=52 Identities=29% Similarity=0.345 Sum_probs=45.4
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
|+++.||||||||.+|+++++..+..... .++++++|+++|+.|+++.++.+
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~-----------------~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKA-----------------DRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCC-----------------CeEEEEeehHHHHHHHHHHHHHH
Confidence 68999999999999999999987654321 57999999999999999999886
No 78
>PRK13766 Hef nuclease; Provisional
Probab=99.12 E-value=5.9e-10 Score=90.88 Aligned_cols=71 Identities=27% Similarity=0.310 Sum_probs=60.7
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
-+++++|..++..++.+ |.++++|||+|||+++++++...+.... .++||++||++|+.|.
T Consensus 14 ~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~------------------~~vLvl~Pt~~L~~Q~ 74 (773)
T PRK13766 14 IEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKG------------------GKVLILAPTKPLVEQH 74 (773)
T ss_pred CCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCC------------------CeEEEEeCcHHHHHHH
Confidence 37899999999888887 9999999999999999988887763221 5799999999999999
Q ss_pred HHHHHHHHhc
Q psy3307 112 YDEAKKFAYR 121 (130)
Q Consensus 112 ~~~~~~l~~~ 121 (130)
.+.++++...
T Consensus 75 ~~~~~~~~~~ 84 (773)
T PRK13766 75 AEFFRKFLNI 84 (773)
T ss_pred HHHHHHHhCC
Confidence 9999887644
No 79
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.09 E-value=6.5e-10 Score=74.98 Aligned_cols=66 Identities=42% Similarity=0.484 Sum_probs=53.1
Q ss_pred CCcHHHHHHHhHHhc-------CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH
Q psy3307 33 KPTPVQKYAIPVIIS-------GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 105 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~-------g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 105 (130)
.+++.|.+++..+.+ .+.+++.+|||||||..++..+.... . ++++++|+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~-~---------------------~~l~~~p~~ 60 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA-R---------------------KVLIVAPNI 60 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-C---------------------EEEEEESSH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-c---------------------ceeEecCHH
Confidence 578999999998873 68999999999999998864443333 1 499999999
Q ss_pred HHHHHHHHHHHHHHh
Q psy3307 106 ELATQIYDEAKKFAY 120 (130)
Q Consensus 106 ~La~q~~~~~~~l~~ 120 (130)
+|+.|..+.+..+..
T Consensus 61 ~l~~Q~~~~~~~~~~ 75 (184)
T PF04851_consen 61 SLLEQWYDEFDDFGS 75 (184)
T ss_dssp HHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHHhhh
Confidence 999999999966554
No 80
>KOG0349|consensus
Probab=99.08 E-value=3.1e-11 Score=91.37 Aligned_cols=66 Identities=38% Similarity=0.596 Sum_probs=62.9
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+..|++++.-+++-.+..++.|.-||.+|.++||.++.|-|++..|.||||||-+|++|+++.+.+
T Consensus 1 m~af~e~gv~pel~~a~~e~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~lpilqiv~e 66 (725)
T KOG0349|consen 1 MTAFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWE 66 (725)
T ss_pred CcchHhhCcchHhhhhhhhhccccccccccccccEEecCCcEEEEeccCCCCccceehhhHHHHHH
Confidence 457999999999999999999999999999999999999999999999999999999999999875
No 81
>KOG0353|consensus
Probab=99.04 E-value=6.5e-10 Score=83.22 Aligned_cols=85 Identities=24% Similarity=0.352 Sum_probs=74.0
Q ss_pred cCCCCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q psy3307 14 DDIQMTEIITNNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92 (130)
Q Consensus 14 ~~l~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
++++++.+..+.|++ +..+.++|.|..+|...+.|+|+++..|||.||++||-+|.|-. .
T Consensus 74 d~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~a---d---------------- 134 (695)
T KOG0353|consen 74 DDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCA---D---------------- 134 (695)
T ss_pred CCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHhc---C----------------
Confidence 477888888888865 57788999999999999999999999999999999999998741 1
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHHHh
Q psy3307 93 KVFPLGLVLAPTRELATQIYDEAKKFAY 120 (130)
Q Consensus 93 ~~~~~~lil~Pt~~La~q~~~~~~~l~~ 120 (130)
..+|+++|..+|.++..-.++.++-
T Consensus 135 ---g~alvi~plislmedqil~lkqlgi 159 (695)
T KOG0353|consen 135 ---GFALVICPLISLMEDQILQLKQLGI 159 (695)
T ss_pred ---CceEeechhHHHHHHHHHHHHHhCc
Confidence 3599999999999999888888754
No 82
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.03 E-value=2.2e-09 Score=89.10 Aligned_cols=80 Identities=16% Similarity=0.223 Sum_probs=61.1
Q ss_pred CCCCCcHHHHHHHhHH----hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH
Q psy3307 30 RYDKPTPVQKYAIPVI----ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 105 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~----~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 105 (130)
+| ++++-|.+.+..+ .+++.+++.||||+|||++|++|.+....... .+++|.++|+
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~------------------~~vvIsT~T~ 315 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKE------------------EPVVISTYTI 315 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccC------------------CeEEEEcCCH
Confidence 55 7899999866554 47789999999999999999999987665433 4699999999
Q ss_pred HHHHHHHH-HHHHHHhcCC--CceEE
Q psy3307 106 ELATQIYD-EAKKFAYRSQ--LRPCV 128 (130)
Q Consensus 106 ~La~q~~~-~~~~l~~~~~--~~~~~ 128 (130)
.|.+|+.. .+..+.+-++ +++++
T Consensus 316 ~LQ~Ql~~kDiP~L~~~~~~~~~~~~ 341 (928)
T PRK08074 316 QLQQQLLEKDIPLLQKIFPFPVEAAL 341 (928)
T ss_pred HHHHHHHHhhHHHHHHHcCCCceEEE
Confidence 99999855 4544544443 45544
No 83
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.02 E-value=3.8e-09 Score=85.38 Aligned_cols=77 Identities=22% Similarity=0.232 Sum_probs=60.5
Q ss_pred CCCCCcHHHHHHHhHHh---c------CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEE
Q psy3307 30 RYDKPTPVQKYAIPVII---S------GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLV 100 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~~---~------g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~li 100 (130)
|| +.++-|.+.+..+. + ++.+++.||||+|||++|++|.+....... -++||
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~------------------k~vVI 83 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEK------------------KKLVI 83 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcC------------------CeEEE
Confidence 56 78999998776553 3 367899999999999999999988766544 46999
Q ss_pred EcCcHHHHHHHH-HHHHHHHhcCCCc
Q psy3307 101 LAPTRELATQIY-DEAKKFAYRSQLR 125 (130)
Q Consensus 101 l~Pt~~La~q~~-~~~~~l~~~~~~~ 125 (130)
-+.|+.|.+|+. +.+-.+.+.++..
T Consensus 84 ST~T~~LQeQL~~kDlP~l~~~l~~~ 109 (697)
T PRK11747 84 STATVALQEQLVSKDLPLLLKISGLD 109 (697)
T ss_pred EcCCHHHHHHHHhhhhhHHHHHcCCC
Confidence 999999999994 5566666655543
No 84
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.98 E-value=3.4e-09 Score=83.83 Aligned_cols=94 Identities=24% Similarity=0.322 Sum_probs=80.7
Q ss_pred CCCCHHHHHH-HHHCCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q psy3307 16 IQMTEIITNN-IALARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88 (130)
Q Consensus 16 l~l~~~i~~~-l~~~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~ 88 (130)
+..+.++++. ++.+.| .+|..|.+++..|... .+-++++.-|||||+..+++++..+...
T Consensus 245 ~~~~~~l~~~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G------------ 311 (677)
T COG1200 245 LPANGELLAKFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG------------ 311 (677)
T ss_pred CCccHHHHHHHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC------------
Confidence 4455555554 577898 7999999999999855 4779999999999999999999888654
Q ss_pred CCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 89 ~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.++..++||--||+|.++.+.++...+|++++.+
T Consensus 312 -------~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lL 345 (677)
T COG1200 312 -------YQAALMAPTEILAEQHYESLRKWLEPLGIRVALL 345 (677)
T ss_pred -------CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEe
Confidence 5799999999999999999999999999998765
No 85
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.98 E-value=1.3e-09 Score=93.12 Aligned_cols=59 Identities=27% Similarity=0.366 Sum_probs=44.3
Q ss_pred EEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHH
Q psy3307 53 ACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKK 117 (130)
Q Consensus 53 ~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~ 117 (130)
++||||||||++|++|+|.++.......... .....+.++|||+|+++|+.|+.+.++.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~------~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTRE------AHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccc------cccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4799999999999999999998643110000 0011237899999999999999999875
No 86
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.95 E-value=5.6e-09 Score=84.56 Aligned_cols=75 Identities=23% Similarity=0.263 Sum_probs=63.6
Q ss_pred CCCCCCcHHHHHHHhHHh----cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 29 ARYDKPTPVQKYAIPVII----SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
+.|..++|.|.+.+..+. +|.++++.||||+|||++.+.|.|.+....... +++++.+.|
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~----------------~kIiy~sRT 69 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEV----------------RKIIYASRT 69 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcccc----------------ccEEEEccc
Confidence 456667999998886654 789999999999999999999999987654321 679999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy3307 105 RELATQIYDEAKKFA 119 (130)
Q Consensus 105 ~~La~q~~~~~~~l~ 119 (130)
+.-..|+.++++++.
T Consensus 70 hsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 70 HSQLEQATEELRKLM 84 (705)
T ss_pred chHHHHHHHHHHhhh
Confidence 999999999999965
No 87
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.94 E-value=3.7e-09 Score=86.57 Aligned_cols=69 Identities=16% Similarity=0.153 Sum_probs=53.5
Q ss_pred HHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHH-H
Q psy3307 39 KYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAK-K 117 (130)
Q Consensus 39 ~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~-~ 117 (130)
.+.+..+.++++++++|+||||||.+|.+++++.... ..+++++.|+|++|.|+.+.+. .
T Consensus 11 ~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~-------------------~~~ilvlqPrR~aA~qia~rva~~ 71 (812)
T PRK11664 11 PELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI-------------------NGKIIMLEPRRLAARNVAQRLAEQ 71 (812)
T ss_pred HHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc-------------------CCeEEEECChHHHHHHHHHHHHHH
Confidence 3445566688999999999999999999998864211 1479999999999999999874 5
Q ss_pred HHhcCCCce
Q psy3307 118 FAYRSQLRP 126 (130)
Q Consensus 118 l~~~~~~~~ 126 (130)
+++..|..+
T Consensus 72 l~~~~g~~V 80 (812)
T PRK11664 72 LGEKPGETV 80 (812)
T ss_pred hCcccCceE
Confidence 555555444
No 88
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.94 E-value=3.5e-09 Score=83.32 Aligned_cols=74 Identities=26% Similarity=0.385 Sum_probs=65.1
Q ss_pred HHHHH-CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc
Q psy3307 24 NNIAL-ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA 102 (130)
Q Consensus 24 ~~l~~-~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~ 102 (130)
..|++ +|+..+.+-|.++|..+++|+|+++..|||.||++||-+|.+-. . .-+|||+
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~----~------------------G~TLVVS 64 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL----E------------------GLTLVVS 64 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc----C------------------CCEEEEC
Confidence 44544 69999999999999999999999999999999999999999764 1 2489999
Q ss_pred CcHHHHHHHHHHHHHHH
Q psy3307 103 PTRELATQIYDEAKKFA 119 (130)
Q Consensus 103 Pt~~La~q~~~~~~~l~ 119 (130)
|..+|..+..+.+++.+
T Consensus 65 PLiSLM~DQV~~l~~~G 81 (590)
T COG0514 65 PLISLMKDQVDQLEAAG 81 (590)
T ss_pred chHHHHHHHHHHHHHcC
Confidence 99999999998888765
No 89
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.94 E-value=5e-09 Score=85.22 Aligned_cols=80 Identities=21% Similarity=0.091 Sum_probs=66.2
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|...--.+..|+ ++.++||+|||+++.+|++-..... ..+-|++||..||
T Consensus 78 lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL~G-------------------~~V~IvTpn~yLA 135 (830)
T PRK12904 78 LGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNALTG-------------------KGVHVVTVNDYLA 135 (830)
T ss_pred hCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHHcC-------------------CCEEEEecCHHHH
Confidence 566 78999988776666665 8899999999999999996433322 2377999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEeC
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.|.++++..+.+.+|+++.++.
T Consensus 136 ~rd~e~~~~l~~~LGlsv~~i~ 157 (830)
T PRK12904 136 KRDAEWMGPLYEFLGLSVGVIL 157 (830)
T ss_pred HHHHHHHHHHHhhcCCeEEEEc
Confidence 9999999999999999998763
No 90
>KOG0354|consensus
Probab=98.91 E-value=4.3e-09 Score=84.22 Aligned_cols=71 Identities=25% Similarity=0.224 Sum_probs=62.1
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.++.+|.+....++ |+|+++++|||+|||+....-+..++..... .++|+++|++-|+.|..
T Consensus 62 ~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-----------------~KiVF~aP~~pLv~QQ~ 123 (746)
T KOG0354|consen 62 ELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-----------------GKVVFLAPTRPLVNQQI 123 (746)
T ss_pred cccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCc-----------------ceEEEeeCCchHHHHHH
Confidence 67899999999999 9999999999999999988888888776543 57999999999999999
Q ss_pred HHHHHHHhc
Q psy3307 113 DEAKKFAYR 121 (130)
Q Consensus 113 ~~~~~l~~~ 121 (130)
..+..++..
T Consensus 124 a~~~~~~~~ 132 (746)
T KOG0354|consen 124 ACFSIYLIP 132 (746)
T ss_pred HHHhhccCc
Confidence 777777654
No 91
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.89 E-value=2.7e-08 Score=81.67 Aligned_cols=74 Identities=28% Similarity=0.428 Sum_probs=61.2
Q ss_pred CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 30 RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
|+ .|+..|.-....+..|++.-+.||||.|||..-++..+- +...+ -+++||+||..|+.
T Consensus 80 G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~-~a~kg------------------kr~yii~PT~~Lv~ 139 (1187)
T COG1110 80 GF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLY-LAKKG------------------KRVYIIVPTTTLVR 139 (1187)
T ss_pred CC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHH-HHhcC------------------CeEEEEecCHHHHH
Confidence 55 899999999999999999999999999999754433332 22111 47999999999999
Q ss_pred HHHHHHHHHHhcCC
Q psy3307 110 QIYDEAKKFAYRSQ 123 (130)
Q Consensus 110 q~~~~~~~l~~~~~ 123 (130)
|+++.++++++..+
T Consensus 140 Q~~~kl~~~~e~~~ 153 (1187)
T COG1110 140 QVYERLKKFAEDAG 153 (1187)
T ss_pred HHHHHHHHHHhhcC
Confidence 99999999998877
No 92
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.89 E-value=8.3e-09 Score=79.52 Aligned_cols=65 Identities=34% Similarity=0.393 Sum_probs=52.8
Q ss_pred CCcHHHHHHHhHHhc----CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVIIS----GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~----g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.++++|.+++..+.+ ++..++..|||+|||+.++..+- ... ..+|||+|+++|+
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~----~~~------------------~~~Lvlv~~~~L~ 93 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIA----ELK------------------RSTLVLVPTKELL 93 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHH----Hhc------------------CCEEEEECcHHHH
Confidence 689999999999988 89999999999999997744432 222 2499999999999
Q ss_pred HHHHHHHHHHH
Q psy3307 109 TQIYDEAKKFA 119 (130)
Q Consensus 109 ~q~~~~~~~l~ 119 (130)
.|..+.+.+..
T Consensus 94 ~Qw~~~~~~~~ 104 (442)
T COG1061 94 DQWAEALKKFL 104 (442)
T ss_pred HHHHHHHHHhc
Confidence 99986665543
No 93
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.86 E-value=1.7e-08 Score=82.77 Aligned_cols=68 Identities=16% Similarity=0.093 Sum_probs=53.5
Q ss_pred HHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHH-H
Q psy3307 39 KYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAK-K 117 (130)
Q Consensus 39 ~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~-~ 117 (130)
.+.+..+.++.+++++|+||||||.+|.+++++.... +.+++++.|+|++|.|+.+.+. .
T Consensus 8 ~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~-------------------~~~ilvlqPrR~aA~qiA~rva~~ 68 (819)
T TIGR01970 8 PALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGI-------------------GGKIIMLEPRRLAARSAAQRLASQ 68 (819)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhcc-------------------CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 3445566688999999999999999999999876521 1579999999999999999874 5
Q ss_pred HHhcCCCc
Q psy3307 118 FAYRSQLR 125 (130)
Q Consensus 118 l~~~~~~~ 125 (130)
++...|..
T Consensus 69 ~~~~~g~~ 76 (819)
T TIGR01970 69 LGEAVGQT 76 (819)
T ss_pred hCCCcCcE
Confidence 55555443
No 94
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.85 E-value=2.1e-08 Score=80.53 Aligned_cols=73 Identities=27% Similarity=0.375 Sum_probs=60.5
Q ss_pred HCCCCCCcHHHHHHHhHH----hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcC
Q psy3307 28 LARYDKPTPVQKYAIPVI----ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 103 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~----~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~P 103 (130)
.+....+++.|.+.+..+ .+|+.+++.||||+|||++|++|++....... .+++|.++
T Consensus 10 ~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~------------------~~viist~ 71 (654)
T COG1199 10 AFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG------------------KKVIISTR 71 (654)
T ss_pred hCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcC------------------CcEEEECC
Confidence 344458999999988654 35566999999999999999999999887654 45999999
Q ss_pred cHHHHHHHHHHHHHH
Q psy3307 104 TRELATQIYDEAKKF 118 (130)
Q Consensus 104 t~~La~q~~~~~~~l 118 (130)
|+.+..|+.+....+
T Consensus 72 t~~lq~q~~~~~~~~ 86 (654)
T COG1199 72 TKALQEQLLEEDLPI 86 (654)
T ss_pred CHHHHHHHHHhhcch
Confidence 999999998887654
No 95
>KOG0951|consensus
Probab=98.84 E-value=1.6e-08 Score=84.33 Aligned_cols=100 Identities=16% Similarity=0.150 Sum_probs=79.4
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCc
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFP 96 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (130)
++++-..++. |...++++|....+..+.+ .++++|||||+|||...++.+|+.+..+.... .+.+....
T Consensus 296 lP~Wnq~aF~--g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~d--------gs~nl~~f 365 (1674)
T KOG0951|consen 296 LPKWNQPAFF--GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLRED--------GSVNLAPF 365 (1674)
T ss_pred Ccchhhhhcc--cchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccc--------cceecccc
Confidence 4555555543 5556999999999988866 69999999999999999999999988765421 11223347
Q ss_pred eEEEEcCcHHHHHHHHHHHHHHHhcCCCceE
Q psy3307 97 LGLVLAPTRELATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 97 ~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~ 127 (130)
++++++|++.|++.+...+.+-...+|++|.
T Consensus 366 KIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ 396 (1674)
T KOG0951|consen 366 KIVYIAPMKALVQEMVGSFSKRLAPLGITVL 396 (1674)
T ss_pred eEEEEeeHHHHHHHHHHHHHhhccccCcEEE
Confidence 8999999999999999998887788888875
No 96
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.83 E-value=1.5e-08 Score=82.88 Aligned_cols=80 Identities=19% Similarity=0.063 Sum_probs=64.3
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|...--.+..| -++.++||.|||+++.+|++...... ..+.|++|++.||
T Consensus 79 lgm-~~ydVQliGgl~L~~G--~IaEm~TGEGKTL~a~lp~~l~al~g-------------------~~VhIvT~ndyLA 136 (908)
T PRK13107 79 FEM-RHFDVQLLGGMVLDSN--RIAEMRTGEGKTLTATLPAYLNALTG-------------------KGVHVITVNDYLA 136 (908)
T ss_pred hCC-CcCchHHhcchHhcCC--ccccccCCCCchHHHHHHHHHHHhcC-------------------CCEEEEeCCHHHH
Confidence 444 5677776544344444 47799999999999999998776543 2399999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEeC
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVVL 130 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~~ 130 (130)
.|..+++..+.+.+|++|.++.
T Consensus 137 ~RD~e~m~~l~~~lGlsv~~i~ 158 (908)
T PRK13107 137 RRDAENNRPLFEFLGLTVGINV 158 (908)
T ss_pred HHHHHHHHHHHHhcCCeEEEec
Confidence 9999999999999999998763
No 97
>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=98.80 E-value=4.9e-08 Score=62.27 Aligned_cols=56 Identities=48% Similarity=0.540 Sum_probs=45.5
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhc
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYR 121 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~ 121 (130)
+++++.+|||+|||..++..+........ ..+++|++|++.++.|..+.+......
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~-----------------~~~~lv~~p~~~l~~~~~~~~~~~~~~ 56 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLK-----------------GGQVLVLAPTRELANQVAERLKELFGE 56 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhccc-----------------CCCEEEEcCcHHHHHHHHHHHHHHhhC
Confidence 46899999999999998777777655421 157999999999999999998887763
No 98
>KOG0352|consensus
Probab=98.80 E-value=2.1e-08 Score=76.13 Aligned_cols=75 Identities=24% Similarity=0.366 Sum_probs=60.5
Q ss_pred HHHHHHH-CCCCCC-cHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceE
Q psy3307 22 ITNNIAL-ARYDKP-TPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLG 98 (130)
Q Consensus 22 i~~~l~~-~~~~~~-t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (130)
+-++|++ +|+..+ ++.|..++..+..+ .|+.++.|||+||++||-+|.|-. . .-.
T Consensus 7 VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~--~--------------------gIT 64 (641)
T KOG0352|consen 7 VREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH--G--------------------GIT 64 (641)
T ss_pred HHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh--C--------------------CeE
Confidence 4455655 466544 89999999887755 699999999999999999999742 1 247
Q ss_pred EEEcCcHHHHHHHHHHHHHH
Q psy3307 99 LVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 99 lil~Pt~~La~q~~~~~~~l 118 (130)
||++|..+|..+..+++.++
T Consensus 65 IV~SPLiALIkDQiDHL~~L 84 (641)
T KOG0352|consen 65 IVISPLIALIKDQIDHLKRL 84 (641)
T ss_pred EEehHHHHHHHHHHHHHHhc
Confidence 89999999999999998776
No 99
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.75 E-value=4.3e-08 Score=81.18 Aligned_cols=75 Identities=24% Similarity=0.307 Sum_probs=62.6
Q ss_pred HHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 25 NIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 25 ~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
.....+| .+.++|++++..+.+|.+++++||||+|||+..-.++-..+..+ -++++.+|.
T Consensus 112 ~~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~-------------------qrviYTsPI 171 (1041)
T COG4581 112 PAREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDG-------------------QRVIYTSPI 171 (1041)
T ss_pred HHHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcC-------------------CceEeccch
Confidence 4456788 78999999999999999999999999999998766665554433 359999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy3307 105 RELATQIYDEAKKFA 119 (130)
Q Consensus 105 ~~La~q~~~~~~~l~ 119 (130)
++|..|.++.+...-
T Consensus 172 KALsNQKyrdl~~~f 186 (1041)
T COG4581 172 KALSNQKYRDLLAKF 186 (1041)
T ss_pred hhhhhhHHHHHHHHh
Confidence 999999999986543
No 100
>PRK09694 helicase Cas3; Provisional
Probab=98.74 E-value=6.3e-08 Score=79.81 Aligned_cols=73 Identities=21% Similarity=0.167 Sum_probs=55.8
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
..|+|+|..+......+..+++.||||+|||.+.+..+......... .++++..||++.++|+
T Consensus 285 ~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~-----------------~gi~~aLPT~Atan~m 347 (878)
T PRK09694 285 YQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLA-----------------DSIIFALPTQATANAM 347 (878)
T ss_pred CCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCC-----------------CeEEEECcHHHHHHHH
Confidence 48999999886444456678999999999999987765543332211 4689999999999999
Q ss_pred HHHHHHHHhc
Q psy3307 112 YDEAKKFAYR 121 (130)
Q Consensus 112 ~~~~~~l~~~ 121 (130)
++.++++.+.
T Consensus 348 ~~Rl~~~~~~ 357 (878)
T PRK09694 348 LSRLEALASK 357 (878)
T ss_pred HHHHHHHHHH
Confidence 9999875543
No 101
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.74 E-value=4.9e-08 Score=82.30 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.2
Q ss_pred CCcHHHHHHHhHHh----cC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 33 KPTPVQKYAIPVII----SG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.++++|.+++..+. +| +..++.++||||||+.. +.++.++...... .++|+++++++|
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~ta-i~li~~L~~~~~~----------------~rVLfLvDR~~L 475 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTA-IALMYRLLKAKRF----------------RRILFLVDRSAL 475 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHH-HHHHHHHHhcCcc----------------CeEEEEecHHHH
Confidence 58999999998775 33 68999999999999874 4455555443221 579999999999
Q ss_pred HHHHHHHHHHHH
Q psy3307 108 ATQIYDEAKKFA 119 (130)
Q Consensus 108 a~q~~~~~~~l~ 119 (130)
+.|..+.|+.+.
T Consensus 476 ~~Qa~~~F~~~~ 487 (1123)
T PRK11448 476 GEQAEDAFKDTK 487 (1123)
T ss_pred HHHHHHHHHhcc
Confidence 999999998763
No 102
>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=98.66 E-value=1.6e-07 Score=75.97 Aligned_cols=65 Identities=18% Similarity=0.232 Sum_probs=52.8
Q ss_pred CCcHHHHHHHhHHh-cC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 33 KPTPVQKYAIPVII-SG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~-~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
.++|+|.+++..++ +| +..+++.|||+|||+..+..+ ..+ . .++|||||+.+|+.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa-~~l---~------------------k~tLILvps~~Lv~ 312 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAA-CTV---K------------------KSCLVLCTSAVSVE 312 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHH-HHh---C------------------CCEEEEeCcHHHHH
Confidence 68999999998887 44 478999999999999875443 222 1 24999999999999
Q ss_pred HHHHHHHHHH
Q psy3307 110 QIYDEAKKFA 119 (130)
Q Consensus 110 q~~~~~~~l~ 119 (130)
|+.+.+.++.
T Consensus 313 QW~~ef~~~~ 322 (732)
T TIGR00603 313 QWKQQFKMWS 322 (732)
T ss_pred HHHHHHHHhc
Confidence 9999999875
No 103
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.56 E-value=5.1e-07 Score=69.60 Aligned_cols=75 Identities=24% Similarity=0.163 Sum_probs=60.5
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
+++.+|......++.+ |.+++.|||-|||+..++-+..++.... .++|+++||+-|+.|..
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~------------------~kvlfLAPTKPLV~Qh~ 75 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFG------------------GKVLFLAPTKPLVLQHA 75 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcC------------------CeEEEecCCchHHHHHH
Confidence 6788888877777766 8999999999999988777777776543 36999999999999999
Q ss_pred HHHHHHHhcCCCce
Q psy3307 113 DEAKKFAYRSQLRP 126 (130)
Q Consensus 113 ~~~~~l~~~~~~~~ 126 (130)
..|+++..-..-.+
T Consensus 76 ~~~~~v~~ip~~~i 89 (542)
T COG1111 76 EFCRKVTGIPEDEI 89 (542)
T ss_pred HHHHHHhCCChhhe
Confidence 99998866543333
No 104
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.53 E-value=2.8e-07 Score=72.25 Aligned_cols=48 Identities=33% Similarity=0.389 Sum_probs=37.8
Q ss_pred EEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 52 MACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 52 l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
++.|+||||||.+|+..+...+ ... .+++|++|+++|+.|+.+.+++.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l-~~g------------------~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVL-ALG------------------KSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHH-HcC------------------CeEEEEeCcHHHHHHHHHHHHHH
Confidence 4689999999999965544333 322 46999999999999999998764
No 105
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.48 E-value=9e-07 Score=72.12 Aligned_cols=79 Identities=20% Similarity=0.133 Sum_probs=68.5
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|...--.+..|+ ++...||+|||++..+|+........ .+.+++||.-||
T Consensus 77 ~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~G~-------------------~v~vvT~neyLA 134 (796)
T PRK12906 77 LGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALTGK-------------------GVHVVTVNEYLS 134 (796)
T ss_pred hCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHcCC-------------------CeEEEeccHHHH
Confidence 565 78999988776666776 88999999999999998887776543 589999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.|-+..+..+.+.+|++|.++
T Consensus 135 ~Rd~e~~~~~~~~LGl~vg~i 155 (796)
T PRK12906 135 SRDATEMGELYRWLGLTVGLN 155 (796)
T ss_pred HhhHHHHHHHHHhcCCeEEEe
Confidence 999999999999999999876
No 106
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.46 E-value=2.1e-06 Score=69.25 Aligned_cols=79 Identities=18% Similarity=0.073 Sum_probs=69.0
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|....-.++.|+ ++...||+|||++..+|+....... ..+.+++|+--||
T Consensus 75 lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~G-------------------~~VhvvT~NdyLA 132 (764)
T PRK12326 75 LGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQG-------------------RRVHVITVNDYLA 132 (764)
T ss_pred cCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHcC-------------------CCeEEEcCCHHHH
Confidence 566 78999999998888875 5699999999999999888776554 3589999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.|-++++..+.+.+|+++.++
T Consensus 133 ~RDae~m~~ly~~LGLsvg~i 153 (764)
T PRK12326 133 RRDAEWMGPLYEALGLTVGWI 153 (764)
T ss_pred HHHHHHHHHHHHhcCCEEEEE
Confidence 999999999999999999876
No 107
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.42 E-value=3.4e-06 Score=70.60 Aligned_cols=93 Identities=25% Similarity=0.245 Sum_probs=76.8
Q ss_pred CCCHHHHHHHHH-CCCCCCcHHHHHHHhHHhcC------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q psy3307 17 QMTEIITNNIAL-ARYDKPTPVQKYAIPVIISG------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 89 (130)
Q Consensus 17 ~l~~~i~~~l~~-~~~~~~t~~Q~~~i~~~~~g------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~ 89 (130)
+.+.+..+.+.+ ++| .-|+-|..||..+.+. .|-++|+.-|=|||-..+=+++..+...
T Consensus 578 ~~d~~~q~~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G------------- 643 (1139)
T COG1197 578 PPDTEWQEEFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG------------- 643 (1139)
T ss_pred CCChHHHHHHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC-------------
Confidence 345555656544 677 5699999999999744 5999999999999999988888776544
Q ss_pred CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 90 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 90 ~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.++.++|||.-||+|.++.|+.-..++++++..+
T Consensus 644 ------KQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~L 677 (1139)
T COG1197 644 ------KQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVL 677 (1139)
T ss_pred ------CeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEe
Confidence 5799999999999999999999889999988764
No 108
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.41 E-value=2.2e-06 Score=59.68 Aligned_cols=73 Identities=23% Similarity=0.281 Sum_probs=49.4
Q ss_pred CcHHHHHHHhHHhcCCc-EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRD-VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~-~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
+++-|.+|+..+++..+ .++.||+|||||... ..++..+...... .....+.++|+++|+..-++++.
T Consensus 2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l-~~~i~~~~~~~~~----------~~~~~~~~il~~~~sN~avd~~~ 70 (236)
T PF13086_consen 2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTL-ASIIAQLLQRFKS----------RSADRGKKILVVSPSNAAVDNIL 70 (236)
T ss_dssp --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHH-HHHHHHH-----------------HCCCSS-EEEEESSHHHHHHHH
T ss_pred CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHH-HHHHHHhccchhh----------hhhhccccceeecCCchhHHHHH
Confidence 57899999999999998 999999999999543 3444444211000 00111267999999999999999
Q ss_pred HHHHH
Q psy3307 113 DEAKK 117 (130)
Q Consensus 113 ~~~~~ 117 (130)
..+.+
T Consensus 71 ~~l~~ 75 (236)
T PF13086_consen 71 ERLKK 75 (236)
T ss_dssp HHHHC
T ss_pred HHHHh
Confidence 88877
No 109
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=98.40 E-value=1.1e-06 Score=71.11 Aligned_cols=71 Identities=24% Similarity=0.236 Sum_probs=53.3
Q ss_pred CCcHHHHHHHhHHh----c------CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc
Q psy3307 33 KPTPVQKYAIPVII----S------GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA 102 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~------g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~ 102 (130)
.+...|.+++..+. + .+..++..+||||||+..+..+...+ .... .+++|+|+
T Consensus 238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~-~~~~----------------~~~vl~lv 300 (667)
T TIGR00348 238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL-ELLK----------------NPKVFFVV 300 (667)
T ss_pred ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH-hhcC----------------CCeEEEEE
Confidence 36778999987763 2 25789999999999987654443332 2111 16899999
Q ss_pred CcHHHHHHHHHHHHHHHh
Q psy3307 103 PTRELATQIYDEAKKFAY 120 (130)
Q Consensus 103 Pt~~La~q~~~~~~~l~~ 120 (130)
|.++|..|..+.+..+..
T Consensus 301 dR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 301 DRRELDYQLMKEFQSLQK 318 (667)
T ss_pred CcHHHHHHHHHHHHhhCC
Confidence 999999999999998863
No 110
>KOG0351|consensus
Probab=98.40 E-value=2.6e-07 Score=76.46 Aligned_cols=68 Identities=24% Similarity=0.293 Sum_probs=59.2
Q ss_pred HHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH
Q psy3307 26 IALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 105 (130)
Q Consensus 26 l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 105 (130)
...+|...+.+-|.++|...+.|+|.++..|||.||++||-+|.+-. . .-.|||+|..
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~---~-------------------gitvVISPL~ 314 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL---G-------------------GVTVVISPLI 314 (941)
T ss_pred HHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc---C-------------------CceEEeccHH
Confidence 35579999999999999999999999999999999999998887531 1 3589999999
Q ss_pred HHHHHHHHHH
Q psy3307 106 ELATQIYDEA 115 (130)
Q Consensus 106 ~La~q~~~~~ 115 (130)
+|.++....+
T Consensus 315 SLm~DQv~~L 324 (941)
T KOG0351|consen 315 SLMQDQVTHL 324 (941)
T ss_pred HHHHHHHHhh
Confidence 9999887776
No 111
>PF13245 AAA_19: Part of AAA domain
Probab=98.35 E-value=4.4e-06 Score=49.37 Aligned_cols=60 Identities=27% Similarity=0.349 Sum_probs=39.2
Q ss_pred HHhHHhcCCc-EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHH
Q psy3307 41 AIPVIISGRD-VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEA 115 (130)
Q Consensus 41 ~i~~~~~g~~-~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~ 115 (130)
++...+++.+ +++.+|+|||||...+--+...+..... . +.++++++||+..++++.+.+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~--------------~-~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARAD--------------P-GKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcC--------------C-CCeEEEECCCHHHHHHHHHHH
Confidence 3443334444 5559999999997654444443322111 0 156999999999999998887
No 112
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=98.28 E-value=6.1e-06 Score=60.05 Aligned_cols=71 Identities=27% Similarity=0.265 Sum_probs=51.8
Q ss_pred CcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
+|+-|.+++.. ...++++.|..|||||.+.+-=++..+..... ...++|+++.|+..+.++..
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~---------------~~~~Il~lTft~~aa~e~~~ 63 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGV---------------PPERILVLTFTNAAAQEMRE 63 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSS---------------TGGGEEEEESSHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccC---------------ChHHheecccCHHHHHHHHH
Confidence 47889998876 77899999999999999765555544443321 12579999999999999999
Q ss_pred HHHHHHhc
Q psy3307 114 EAKKFAYR 121 (130)
Q Consensus 114 ~~~~l~~~ 121 (130)
.+......
T Consensus 64 ri~~~l~~ 71 (315)
T PF00580_consen 64 RIRELLEE 71 (315)
T ss_dssp HHHHHHHH
T ss_pred HHHHhcCc
Confidence 98876543
No 113
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.18 E-value=1.5e-05 Score=65.77 Aligned_cols=79 Identities=18% Similarity=0.032 Sum_probs=64.5
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .++++|...--.+..| -++...||+|||++..+|++-..... ..+.|++|+.-||
T Consensus 79 lGm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al~G-------------------~~VhvvT~ndyLA 136 (913)
T PRK13103 79 MGM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNALSG-------------------KGVHVVTVNDYLA 136 (913)
T ss_pred hCC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHHcC-------------------CCEEEEeCCHHHH
Confidence 464 6788887655444444 46699999999999999998766554 3589999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.|-+.++..+.+.+|++|.++
T Consensus 137 ~RD~e~m~~l~~~lGl~v~~i 157 (913)
T PRK13103 137 RRDANWMRPLYEFLGLSVGIV 157 (913)
T ss_pred HHHHHHHHHHhcccCCEEEEE
Confidence 999999999999999999876
No 114
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.16 E-value=1.7e-05 Score=64.46 Aligned_cols=67 Identities=30% Similarity=0.365 Sum_probs=54.0
Q ss_pred CCcHHHHHHHhHHhcC----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVIISG----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
..++-|..+...+... ...++.+.||||||-.|+=.+ ......+ .++|+++|-.+|.
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i-~~~L~~G------------------kqvLvLVPEI~Lt 258 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAI-AKVLAQG------------------KQVLVLVPEIALT 258 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHH-HHHHHcC------------------CEEEEEeccccch
Confidence 5678999999888755 788999999999999995444 4444333 4699999999999
Q ss_pred HHHHHHHHHH
Q psy3307 109 TQIYDEAKKF 118 (130)
Q Consensus 109 ~q~~~~~~~l 118 (130)
.|+.+.++..
T Consensus 259 pq~~~rf~~r 268 (730)
T COG1198 259 PQLLARFKAR 268 (730)
T ss_pred HHHHHHHHHH
Confidence 9999998754
No 115
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.11 E-value=1.8e-05 Score=64.71 Aligned_cols=77 Identities=26% Similarity=0.244 Sum_probs=61.4
Q ss_pred CCcHHHHHHHhHHhcC---C-cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVIISG---R-DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g---~-~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
...+.|..++..+..+ . .+++.||||.|||.+.+.+......... ....+++++.|++.+.
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~---------------~~~~r~i~vlP~~t~i 259 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKI---------------KLKSRVIYVLPFRTII 259 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccc---------------cccceEEEEccHHHHH
Confidence 4488899998877643 3 7889999999999999998888776531 0127899999999999
Q ss_pred HHHHHHHHHHHhcCCC
Q psy3307 109 TQIYDEAKKFAYRSQL 124 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~ 124 (130)
+++++.++......++
T Consensus 260 e~~~~r~~~~~~~~~~ 275 (733)
T COG1203 260 EDMYRRAKEIFGLFSV 275 (733)
T ss_pred HHHHHHHHhhhccccc
Confidence 9999999987665443
No 116
>KOG1132|consensus
Probab=98.10 E-value=2.1e-05 Score=64.29 Aligned_cols=95 Identities=19% Similarity=0.253 Sum_probs=66.7
Q ss_pred CCCCCCcHHHHHHHhHHh----cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC-----C-C-------CC--C---
Q psy3307 29 ARYDKPTPVQKYAIPVII----SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT-----P-P-------AG--R--- 86 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~-----~-~-------~~--~--- 86 (130)
+.| .|++.|...+..++ ++.+.++.+|||+|||++.+...|.+....+.... . . .. .
T Consensus 18 fP~-qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~ 96 (945)
T KOG1132|consen 18 FPF-QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEK 96 (945)
T ss_pred ccC-CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCc
Confidence 344 78999999887776 45789999999999999999888888765431110 0 0 00 0
Q ss_pred ----CCC-CCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCC
Q psy3307 87 ----GYP-SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQL 124 (130)
Q Consensus 87 ----~~~-~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~ 124 (130)
..+ .....-|++.+-+.|+....|+.+++++.+.....
T Consensus 97 s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~vkm 139 (945)
T KOG1132|consen 97 SEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYRVKM 139 (945)
T ss_pred hhhhcCccccccCCceEEEecchHHHHHHHHHHHhhcCCCCce
Confidence 001 01123578888899999999999999998777433
No 117
>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=98.10 E-value=5.5e-05 Score=54.84 Aligned_cols=80 Identities=23% Similarity=0.198 Sum_probs=61.7
Q ss_pred HCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
..|+ .|++.|..++-.+..|+ +++..||-|||+...+|..-..... ..+-|++.+.-|
T Consensus 73 ~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G-------------------~~V~vvT~NdyL 130 (266)
T PF07517_consen 73 TLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQG-------------------KGVHVVTSNDYL 130 (266)
T ss_dssp HTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTS-------------------S-EEEEESSHHH
T ss_pred HcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhc-------------------CCcEEEeccHHH
Confidence 4565 79999999997776776 8899999999999877776555433 358899999999
Q ss_pred HHHHHHHHHHHHhcCCCceEEe
Q psy3307 108 ATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 108 a~q~~~~~~~l~~~~~~~~~~~ 129 (130)
|..=++++..+-+.+|+++.++
T Consensus 131 A~RD~~~~~~~y~~LGlsv~~~ 152 (266)
T PF07517_consen 131 AKRDAEEMRPFYEFLGLSVGII 152 (266)
T ss_dssp HHHHHHHHHHHHHHTT--EEEE
T ss_pred hhccHHHHHHHHHHhhhccccC
Confidence 9999999999999999998875
No 118
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.08 E-value=8.7e-06 Score=63.56 Aligned_cols=70 Identities=33% Similarity=0.445 Sum_probs=53.8
Q ss_pred CCcHHHHHHHhHHhcC-----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 33 KPTPVQKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g-----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.|+.-|-.||..+..| +.-.+.+.||||||++. .-++..+. .-+||++|.+.|
T Consensus 12 ~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~-AnVI~~~~---------------------rPtLV~AhNKTL 69 (663)
T COG0556 12 KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTM-ANVIAKVQ---------------------RPTLVLAHNKTL 69 (663)
T ss_pred CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHH-HHHHHHhC---------------------CCeEEEecchhH
Confidence 6788888888877644 57788899999999863 34444332 238999999999
Q ss_pred HHHHHHHHHHHHhcCCC
Q psy3307 108 ATQIYDEAKKFAYRSQL 124 (130)
Q Consensus 108 a~q~~~~~~~l~~~~~~ 124 (130)
|.|++.+++.|.-+-.+
T Consensus 70 AaQLy~Efk~fFP~NaV 86 (663)
T COG0556 70 AAQLYSEFKEFFPENAV 86 (663)
T ss_pred HHHHHHHHHHhCcCcce
Confidence 99999999998665433
No 119
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.05 E-value=5.2e-05 Score=52.54 Aligned_cols=63 Identities=22% Similarity=0.298 Sum_probs=44.9
Q ss_pred CCcHHHHHHHhHHhcCC--cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGR--DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQ 110 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~--~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q 110 (130)
++++-|.+++..++.+. -.++.++.|+|||.. +-.+...+.... .++++++||...+..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~~g------------------~~v~~~apT~~Aa~~ 61 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTL-LKALAEALEAAG------------------KRVIGLAPTNKAAKE 61 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHH-HHHHHHHHHHTT--------------------EEEEESSHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHH-HHHHHHHHHhCC------------------CeEEEECCcHHHHHH
Confidence 36889999999997543 577889999999974 333444444432 569999999999988
Q ss_pred HHHH
Q psy3307 111 IYDE 114 (130)
Q Consensus 111 ~~~~ 114 (130)
+.+.
T Consensus 62 L~~~ 65 (196)
T PF13604_consen 62 LREK 65 (196)
T ss_dssp HHHH
T ss_pred HHHh
Confidence 7766
No 120
>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=98.04 E-value=5e-05 Score=61.27 Aligned_cols=66 Identities=24% Similarity=0.332 Sum_probs=51.9
Q ss_pred CCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
.+++.|..++..++.. ...+++||+|||||... ..++..+.... .++++++||..-+.++
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~-~~ii~~~~~~g------------------~~VLv~a~sn~Avd~l 217 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTL-VELIRQLVKRG------------------LRVLVTAPSNIAVDNL 217 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHH-HHHHHHHHHcC------------------CCEEEEcCcHHHHHHH
Confidence 5689999999988876 67889999999999764 34444443322 4699999999999999
Q ss_pred HHHHHH
Q psy3307 112 YDEAKK 117 (130)
Q Consensus 112 ~~~~~~ 117 (130)
.+.+..
T Consensus 218 ~e~l~~ 223 (637)
T TIGR00376 218 LERLAL 223 (637)
T ss_pred HHHHHh
Confidence 888765
No 121
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.00 E-value=3.8e-05 Score=63.15 Aligned_cols=79 Identities=16% Similarity=0.029 Sum_probs=63.5
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|....-.+. ..-++...||.|||+++.+|+.-..... ..+.|++++..||
T Consensus 73 lG~-r~ydvQlig~l~L~--~G~IaEm~TGEGKTL~a~l~ayl~aL~G-------------------~~VhVvT~NdyLA 130 (870)
T CHL00122 73 LGL-RHFDVQLIGGLVLN--DGKIAEMKTGEGKTLVATLPAYLNALTG-------------------KGVHIVTVNDYLA 130 (870)
T ss_pred hCC-CCCchHhhhhHhhc--CCccccccCCCCchHHHHHHHHHHHhcC-------------------CceEEEeCCHHHH
Confidence 566 58888877653333 4567899999999999999985443332 3489999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
.+-..++..+-+.+|++|.++
T Consensus 131 ~RD~e~m~pvy~~LGLsvg~i 151 (870)
T CHL00122 131 KRDQEWMGQIYRFLGLTVGLI 151 (870)
T ss_pred HHHHHHHHHHHHHcCCceeee
Confidence 999999999999999999875
No 122
>KOG0947|consensus
Probab=97.99 E-value=2.9e-05 Score=64.19 Aligned_cols=76 Identities=21% Similarity=0.205 Sum_probs=61.6
Q ss_pred HCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
..+| ++...|++||-++.+|.++++.|+|.+|||+..-.++...-.. ..|+++-+|-++|
T Consensus 293 ~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq~h-------------------~TR~iYTSPIKAL 352 (1248)
T KOG0947|consen 293 IYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQKH-------------------MTRTIYTSPIKAL 352 (1248)
T ss_pred hCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHHhh-------------------ccceEecchhhhh
Confidence 4566 7899999999999999999999999999999865544322111 1579999999999
Q ss_pred HHHHHHHHHHHHhcCC
Q psy3307 108 ATQIYDEAKKFAYRSQ 123 (130)
Q Consensus 108 a~q~~~~~~~l~~~~~ 123 (130)
.+|-++.|+.-....|
T Consensus 353 SNQKfRDFk~tF~Dvg 368 (1248)
T KOG0947|consen 353 SNQKFRDFKETFGDVG 368 (1248)
T ss_pred ccchHHHHHHhccccc
Confidence 9999999987665554
No 123
>KOG0948|consensus
Probab=97.91 E-value=3.6e-05 Score=62.33 Aligned_cols=77 Identities=26% Similarity=0.275 Sum_probs=63.9
Q ss_pred HCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 28 ~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
...| .+.|.|..+|..+-++.++++.|-|.+|||.+.-.++-..+... -|+++-+|-++|
T Consensus 125 ~YPF-~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k-------------------QRVIYTSPIKAL 184 (1041)
T KOG0948|consen 125 TYPF-TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREK-------------------QRVIYTSPIKAL 184 (1041)
T ss_pred CCCc-ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhc-------------------CeEEeeChhhhh
Confidence 3444 68999999999999999999999999999999877776666544 479999999999
Q ss_pred HHHHHHHHHHHHhcCCC
Q psy3307 108 ATQIYDEAKKFAYRSQL 124 (130)
Q Consensus 108 a~q~~~~~~~l~~~~~~ 124 (130)
.+|-++++..=..+.|+
T Consensus 185 SNQKYREl~~EF~DVGL 201 (1041)
T KOG0948|consen 185 SNQKYRELLEEFKDVGL 201 (1041)
T ss_pred cchhHHHHHHHhcccce
Confidence 99999998754455443
No 124
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.82 E-value=6.6e-05 Score=61.23 Aligned_cols=72 Identities=28% Similarity=0.361 Sum_probs=57.2
Q ss_pred CCcHHHHHHHhHHh----cC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 33 KPTPVQKYAIPVII----SG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.++.+|..||..+. +| +.+++.+.||+|||... +.++.++.+.... -++|+|+-.+.|
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTA-iaii~rL~r~~~~----------------KRVLFLaDR~~L 227 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTA-IAIIDRLIKSGWV----------------KRVLFLADRNAL 227 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeH-HHHHHHHHhcchh----------------heeeEEechHHH
Confidence 67889999997664 44 46899999999999876 6677777655432 579999999999
Q ss_pred HHHHHHHHHHHHhc
Q psy3307 108 ATQIYDEAKKFAYR 121 (130)
Q Consensus 108 a~q~~~~~~~l~~~ 121 (130)
+.|.+..+..+.-.
T Consensus 228 v~QA~~af~~~~P~ 241 (875)
T COG4096 228 VDQAYGAFEDFLPF 241 (875)
T ss_pred HHHHHHHHHHhCCC
Confidence 99999888776443
No 125
>KOG1802|consensus
Probab=97.82 E-value=0.0001 Score=59.15 Aligned_cols=82 Identities=17% Similarity=0.174 Sum_probs=62.4
Q ss_pred HHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 25 NIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 25 ~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
.+...++..++.-|..|..+++...=.++++|+|+|||..-.--+.+.+.... ..+|+.+|+
T Consensus 402 ~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~------------------~~VLvcApS 463 (935)
T KOG1802|consen 402 RFSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHA------------------GPVLVCAPS 463 (935)
T ss_pred hhcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcC------------------CceEEEccc
Confidence 34456778889999999999999999999999999999876444444333322 469999999
Q ss_pred HHHHHHHHHHHHHHHhcCCCceEE
Q psy3307 105 RELATQIYDEAKKFAYRSQLRPCV 128 (130)
Q Consensus 105 ~~La~q~~~~~~~l~~~~~~~~~~ 128 (130)
.--++|+...+.+- |++++-
T Consensus 464 NiAVDqLaeKIh~t----gLKVvR 483 (935)
T KOG1802|consen 464 NIAVDQLAEKIHKT----GLKVVR 483 (935)
T ss_pred chhHHHHHHHHHhc----CceEee
Confidence 99999988776543 455543
No 126
>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=97.79 E-value=5.7e-05 Score=52.78 Aligned_cols=59 Identities=22% Similarity=0.257 Sum_probs=41.5
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
+..|+-|..++..+.+..-+++.||.|||||+..+...++.+....- -+.+|.-|..+.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~-----------------~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEY-----------------DKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS------------------SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCC-----------------cEEEEEecCCCC
Confidence 45688999999999999999999999999999998888888876321 457777677654
No 127
>KOG0951|consensus
Probab=97.79 E-value=2.3e-05 Score=66.21 Aligned_cols=75 Identities=28% Similarity=0.393 Sum_probs=59.8
Q ss_pred CCcHHHHHHHhHHh-cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 33 KPTPVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~-~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
..+|+|.++++.+. ..+++++.+|+|||||.+.-++++. ... ..+++++.|..+.+..+
T Consensus 1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~----------------~~~~vyi~p~~~i~~~~ 1202 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR----PDT----------------IGRAVYIAPLEEIADEQ 1202 (1674)
T ss_pred ccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC----Ccc----------------ceEEEEecchHHHHHHH
Confidence 45899999998776 4568999999999999999888876 111 15799999999999988
Q ss_pred HHHH-HHHHhcCCCceE
Q psy3307 112 YDEA-KKFAYRSQLRPC 127 (130)
Q Consensus 112 ~~~~-~~l~~~~~~~~~ 127 (130)
++.+ +++...+|..+.
T Consensus 1203 ~~~w~~~f~~~~G~~~~ 1219 (1674)
T KOG0951|consen 1203 YRDWEKKFSKLLGLRIV 1219 (1674)
T ss_pred HHHHHHhhccccCceEE
Confidence 7776 567777777654
No 128
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.74 E-value=0.00023 Score=59.52 Aligned_cols=51 Identities=16% Similarity=0.170 Sum_probs=40.4
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAK 116 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~ 116 (130)
.++.+..+||||||++|+-.++......+. .+.||+||+.+.-+.+.+.++
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~-----------------~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGL-----------------FKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCC-----------------cEEEEEeCCHHHHHHHHHHhh
Confidence 589999999999999997777665444332 579999999998888876654
No 129
>KOG1803|consensus
Probab=97.69 E-value=0.00015 Score=57.37 Aligned_cols=64 Identities=23% Similarity=0.319 Sum_probs=49.6
Q ss_pred CCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
.+.+-|..|+....+. .-.+++||+|+|||..... +++++.... -++|+..||.+-++-+
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvE-iI~qlvk~~------------------k~VLVcaPSn~AVdNi 245 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVE-IISQLVKQK------------------KRVLVCAPSNVAVDNI 245 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHH-HHHHHHHcC------------------CeEEEEcCchHHHHHH
Confidence 6688999999888877 5568899999999988644 444444433 4699999999988888
Q ss_pred HHHH
Q psy3307 112 YDEA 115 (130)
Q Consensus 112 ~~~~ 115 (130)
.+.+
T Consensus 246 verl 249 (649)
T KOG1803|consen 246 VERL 249 (649)
T ss_pred HHHh
Confidence 7753
No 130
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.63 E-value=0.00049 Score=57.06 Aligned_cols=79 Identities=19% Similarity=0.056 Sum_probs=63.9
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|...--.+..| -++...||-|||+++.+|+.-..... ..+.|++++.-||
T Consensus 82 lG~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL~G-------------------kgVhVVTvNdYLA 139 (939)
T PRK12902 82 LGM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNALTG-------------------KGVHVVTVNDYLA 139 (939)
T ss_pred hCC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhhcC-------------------CCeEEEeCCHHHH
Confidence 465 6788887655444444 46799999999999999887655543 3489999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
..-..++..+-+.+|++|.++
T Consensus 140 ~RDae~m~~vy~~LGLtvg~i 160 (939)
T PRK12902 140 RRDAEWMGQVHRFLGLSVGLI 160 (939)
T ss_pred HhHHHHHHHHHHHhCCeEEEE
Confidence 999999999999999999876
No 131
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.55 E-value=0.00013 Score=48.25 Aligned_cols=54 Identities=33% Similarity=0.451 Sum_probs=39.5
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
+|+--++-..+|+|||--.+--++......+ .++|||.|||-++..+.+.++..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~------------------~rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRR------------------LRVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--------------------EEEEESSHHHHHHHHHHTTTS
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHcc------------------CeEEEecccHHHHHHHHHHHhcC
Confidence 4555677889999999877666666665554 57999999999999999988643
No 132
>KOG0949|consensus
Probab=97.55 E-value=0.00029 Score=58.67 Aligned_cols=69 Identities=17% Similarity=0.193 Sum_probs=55.7
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.|..+|.+.+..+=.++.+++.|||.+|||+.- ...++...+..+. --+|+++||+.|+.|+.
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfis-fY~iEKVLResD~----------------~VVIyvaPtKaLVnQvs 573 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFIS-FYAIEKVLRESDS----------------DVVIYVAPTKALVNQVS 573 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceecc-HHHHHHHHhhcCC----------------CEEEEecchHHHhhhhh
Confidence 788999999999999999999999999999863 4455565554432 45889999999999997
Q ss_pred HHHHHH
Q psy3307 113 DEAKKF 118 (130)
Q Consensus 113 ~~~~~l 118 (130)
..++..
T Consensus 574 a~VyaR 579 (1330)
T KOG0949|consen 574 ANVYAR 579 (1330)
T ss_pred HHHHHh
Confidence 776543
No 133
>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=97.52 E-value=0.00085 Score=48.50 Aligned_cols=66 Identities=21% Similarity=0.282 Sum_probs=39.3
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCce
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 126 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~ 126 (130)
..+..++....|+|||+.. +.++..+...... .....+||++|. .+..|..+++.++.....+++
T Consensus 24 ~~~g~lL~de~GlGKT~~~-i~~~~~l~~~~~~-------------~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v 88 (299)
T PF00176_consen 24 PPRGGLLADEMGLGKTITA-IALISYLKNEFPQ-------------RGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRV 88 (299)
T ss_dssp TT-EEEE---TTSSHHHHH-HHHHHHHHHCCTT-------------SS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-E
T ss_pred CCCCEEEEECCCCCchhhh-hhhhhhhhhcccc-------------ccccceeEeecc-chhhhhhhhhccccccccccc
Confidence 4468899999999999875 4444444433221 000249999999 888999999999886544444
Q ss_pred E
Q psy3307 127 C 127 (130)
Q Consensus 127 ~ 127 (130)
.
T Consensus 89 ~ 89 (299)
T PF00176_consen 89 I 89 (299)
T ss_dssp E
T ss_pred c
Confidence 4
No 134
>KOG0950|consensus
Probab=97.50 E-value=0.00033 Score=57.93 Aligned_cols=95 Identities=14% Similarity=0.088 Sum_probs=76.2
Q ss_pred CCCCCHHHHHHHHHCCCCCCcHHHHHHH--hHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q psy3307 15 DIQMTEIITNNIALARYDKPTPVQKYAI--PVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92 (130)
Q Consensus 15 ~l~l~~~i~~~l~~~~~~~~t~~Q~~~i--~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~ 92 (130)
..+++....-..++.|...+..+|.+++ +.++.+++.+...||+.|||++.-+-++.......
T Consensus 205 ~~~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~r--------------- 269 (1008)
T KOG0950|consen 205 KRLPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRR--------------- 269 (1008)
T ss_pred hcCchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHh---------------
Confidence 3334444444557788889999999988 67889999999999999999999888888877655
Q ss_pred CCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceE
Q psy3307 93 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 93 ~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~ 127 (130)
..++.+.|..+.+..-...+..+...+|+.+.
T Consensus 270 ---r~~llilp~vsiv~Ek~~~l~~~~~~~G~~ve 301 (1008)
T KOG0950|consen 270 ---RNVLLILPYVSIVQEKISALSPFSIDLGFPVE 301 (1008)
T ss_pred ---hceeEecceeehhHHHHhhhhhhccccCCcch
Confidence 24888889988888888888888888887654
No 135
>KOG1133|consensus
Probab=97.46 E-value=0.00026 Score=56.97 Aligned_cols=44 Identities=18% Similarity=0.295 Sum_probs=38.7
Q ss_pred CCcHHHHHHHhHHh----cCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 33 KPTPVQKYAIPVII----SGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
+|+.+|...+..+. .|+=-|..+|||+|||++.+.+.+.++...
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~ 62 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDF 62 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHh
Confidence 78999999887654 889889999999999999999999998754
No 136
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=97.44 E-value=0.00091 Score=54.27 Aligned_cols=67 Identities=33% Similarity=0.461 Sum_probs=51.4
Q ss_pred CCcHHHHHHHhHHhcC-----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 33 KPTPVQKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g-----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.|+.-|..+|..+.+| ++.++.+.||||||+... .++... . ..+|||+|+..+
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a-~~~~~~---~------------------~p~Lvi~~n~~~ 66 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMA-NVIAQV---N------------------RPTLVIAHNKTL 66 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHH-HHHHHh---C------------------CCEEEEECCHHH
Confidence 6899999999887543 366789999999998642 233221 1 238999999999
Q ss_pred HHHHHHHHHHHHhc
Q psy3307 108 ATQIYDEAKKFAYR 121 (130)
Q Consensus 108 a~q~~~~~~~l~~~ 121 (130)
|.|+++.++.+...
T Consensus 67 A~ql~~el~~f~p~ 80 (655)
T TIGR00631 67 AAQLYNEFKEFFPE 80 (655)
T ss_pred HHHHHHHHHHhCCC
Confidence 99999999988643
No 137
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=97.43 E-value=0.00057 Score=58.78 Aligned_cols=69 Identities=25% Similarity=0.276 Sum_probs=42.9
Q ss_pred HHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcC----cHHHHHHHHHH
Q psy3307 39 KYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP----TRELATQIYDE 114 (130)
Q Consensus 39 ~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~P----t~~La~q~~~~ 114 (130)
.+.+..+.++..++++|+||||||. .+|.+........ . ..+++.-| ++++|.++.++
T Consensus 80 ~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~lle~g~g~---------------~-g~I~~TQPRRlAArsLA~RVA~E 141 (1294)
T PRK11131 80 QDILEAIRDHQVVIVAGETGSGKTT--QLPKICLELGRGV---------------K-GLIGHTQPRRLAARTVANRIAEE 141 (1294)
T ss_pred HHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHHHcCCCC---------------C-CceeeCCCcHHHHHHHHHHHHHH
Confidence 3445555666778899999999999 5775433221110 0 11222224 68999999999
Q ss_pred HHH-HHhcCCCc
Q psy3307 115 AKK-FAYRSQLR 125 (130)
Q Consensus 115 ~~~-l~~~~~~~ 125 (130)
+.. ++...|.+
T Consensus 142 l~~~lG~~VGY~ 153 (1294)
T PRK11131 142 LETELGGCVGYK 153 (1294)
T ss_pred Hhhhhcceecee
Confidence 874 66666554
No 138
>PRK11054 helD DNA helicase IV; Provisional
Probab=97.42 E-value=0.0024 Score=52.17 Aligned_cols=80 Identities=20% Similarity=0.208 Sum_probs=53.6
Q ss_pred CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 30 RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
.-..+++-|.+++- ....++++.|..|||||.+.+ .-+.++..... ..+.++++++.|+..|.
T Consensus 193 e~~~L~~~Q~~av~--~~~~~~lV~agaGSGKT~vl~-~r~ayLl~~~~--------------~~~~~IL~ltft~~AA~ 255 (684)
T PRK11054 193 ESSPLNPSQARAVV--NGEDSLLVLAGAGSGKTSVLV-ARAGWLLARGQ--------------AQPEQILLLAFGRQAAE 255 (684)
T ss_pred cCCCCCHHHHHHHh--CCCCCeEEEEeCCCCHHHHHH-HHHHHHHHhCC--------------CCHHHeEEEeccHHHHH
Confidence 33478999999874 334578999999999998753 33333332221 11147999999999999
Q ss_pred HHHHHHHHHHhcCCCce
Q psy3307 110 QIYDEAKKFAYRSQLRP 126 (130)
Q Consensus 110 q~~~~~~~l~~~~~~~~ 126 (130)
.+.+.+.......++.+
T Consensus 256 em~eRL~~~lg~~~v~v 272 (684)
T PRK11054 256 EMDERIRERLGTEDITA 272 (684)
T ss_pred HHHHHHHHhcCCCCcEE
Confidence 99988865443333433
No 139
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=97.24 E-value=0.0019 Score=52.57 Aligned_cols=70 Identities=19% Similarity=0.135 Sum_probs=50.2
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.+++-|.+++.. ....+++.|..|||||.+..-=+...+..... ..-++|+++-|+..|.++.
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v---------------~p~~IL~lTFT~kAA~em~ 64 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGY---------------QARHIAAVTFTNKAAREMK 64 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC---------------CHHHeeeEechHHHHHHHH
Confidence 378999998854 24578889999999998754444333332111 1146999999999999999
Q ss_pred HHHHHHH
Q psy3307 113 DEAKKFA 119 (130)
Q Consensus 113 ~~~~~l~ 119 (130)
+.+.++.
T Consensus 65 ~Rl~~~l 71 (672)
T PRK10919 65 ERVAQTL 71 (672)
T ss_pred HHHHHHh
Confidence 8887654
No 140
>PRK10536 hypothetical protein; Provisional
Probab=97.21 E-value=0.0015 Score=47.17 Aligned_cols=47 Identities=17% Similarity=0.109 Sum_probs=37.8
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.++..-+..|...+..+.++..+++.+|.|||||+..+...++.+..
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 34455688999999989888899999999999999877666665543
No 141
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=97.15 E-value=0.0026 Score=47.39 Aligned_cols=48 Identities=29% Similarity=0.400 Sum_probs=33.5
Q ss_pred HHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 23 TNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 23 ~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
++.+.+.|. +++.|...+.. +..++++++.++||||||. ++-.++..+
T Consensus 124 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTT-ll~aL~~~~ 172 (319)
T PRK13894 124 LDQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKTT-LVNAIINEM 172 (319)
T ss_pred HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHH-HHHHHHHhh
Confidence 445555555 56777777764 4577899999999999994 445555544
No 142
>COG4889 Predicted helicase [General function prediction only]
Probab=97.15 E-value=0.00096 Score=55.46 Aligned_cols=75 Identities=28% Similarity=0.355 Sum_probs=53.1
Q ss_pred HHHHHHHHCCCCCCcHHHHHHHhHHhcC-----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCC
Q psy3307 21 IITNNIALARYDKPTPVQKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95 (130)
Q Consensus 21 ~i~~~l~~~~~~~~t~~Q~~~i~~~~~g-----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (130)
++..++.-..-+.|+|.|+.|+...++| |.-++ ...|+|||+.. +-+.+.+..
T Consensus 149 e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLI-MAcGTGKTfTs-LkisEala~-------------------- 206 (1518)
T COG4889 149 ELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLI-MACGTGKTFTS-LKISEALAA-------------------- 206 (1518)
T ss_pred ccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEE-EecCCCccchH-HHHHHHHhh--------------------
Confidence 4444444444568999999999988754 33333 34699999886 444444443
Q ss_pred ceEEEEcCcHHHHHHHHHHHHH
Q psy3307 96 PLGLVLAPTRELATQIYDEAKK 117 (130)
Q Consensus 96 ~~~lil~Pt~~La~q~~~~~~~ 117 (130)
.++|+++|+.+|..|..+++..
T Consensus 207 ~~iL~LvPSIsLLsQTlrew~~ 228 (1518)
T COG4889 207 ARILFLVPSISLLSQTLREWTA 228 (1518)
T ss_pred hheEeecchHHHHHHHHHHHhh
Confidence 3699999999999999888754
No 143
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=97.11 E-value=0.004 Score=51.78 Aligned_cols=79 Identities=22% Similarity=0.127 Sum_probs=63.9
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
+|. .|+++|...--.+..|+ +....||-|||++..+|+.-..... ..+-|++.+--||
T Consensus 75 lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~G-------------------kgVhVVTvNdYLA 132 (925)
T PRK12903 75 LGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALTG-------------------KGVIVSTVNEYLA 132 (925)
T ss_pred hCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhcC-------------------CceEEEecchhhh
Confidence 465 78999988775655664 6899999999999988886544433 2378888999999
Q ss_pred HHHHHHHHHHHhcCCCceEEe
Q psy3307 109 TQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 109 ~q~~~~~~~l~~~~~~~~~~~ 129 (130)
..=..++..+-+.+|++|.++
T Consensus 133 ~RDae~mg~vy~fLGLsvG~i 153 (925)
T PRK12903 133 ERDAEEMGKVFNFLGLSVGIN 153 (925)
T ss_pred hhhHHHHHHHHHHhCCceeee
Confidence 999999999999999998765
No 144
>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=97.10 E-value=0.0028 Score=54.85 Aligned_cols=66 Identities=26% Similarity=0.295 Sum_probs=51.0
Q ss_pred CcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
.|+-|.++|. ..|+++++.|..|||||.+.+-=++..+...... -++++++=|+..|..+..
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~----------------~~il~~tFt~~aa~e~~~ 63 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDI----------------DRLLVVTFTNAAAREMKE 63 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCH----------------hhEEEEeccHHHHHHHHH
Confidence 5889999996 4789999999999999998765566555432110 359999999999988877
Q ss_pred HHHH
Q psy3307 114 EAKK 117 (130)
Q Consensus 114 ~~~~ 117 (130)
.+.+
T Consensus 64 ri~~ 67 (1232)
T TIGR02785 64 RIEE 67 (1232)
T ss_pred HHHH
Confidence 7654
No 145
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.08 E-value=0.0051 Score=49.67 Aligned_cols=68 Identities=22% Similarity=0.190 Sum_probs=48.6
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~ 114 (130)
.+.|..|+-..+..+-.++.+++|+|||... .-++..+...... ...++++.+||..-|..+.+.
T Consensus 154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v-~~ll~~l~~~~~~--------------~~~~i~l~APTgkAA~rL~e~ 218 (615)
T PRK10875 154 VDWQKVAAAVALTRRISVISGGPGTGKTTTV-AKLLAALIQLADG--------------ERCRIRLAAPTGKAAARLTES 218 (615)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHH-HHHHHHHHHhcCC--------------CCcEEEEECCcHHHHHHHHHH
Confidence 5899999999999999999999999999763 2223222221100 014688889999888888776
Q ss_pred HHH
Q psy3307 115 AKK 117 (130)
Q Consensus 115 ~~~ 117 (130)
+..
T Consensus 219 ~~~ 221 (615)
T PRK10875 219 LGK 221 (615)
T ss_pred HHh
Confidence 643
No 146
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=97.07 E-value=0.0032 Score=51.61 Aligned_cols=72 Identities=15% Similarity=0.101 Sum_probs=52.0
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
..+++-|.+++.. ....+++.|..|||||.+.. .-+.++...... ...++|+++-|+..|..+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~-~Ria~Li~~~~v--------------~p~~IL~lTFTnkAA~em 65 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLT-HRIAWLLSVENA--------------SPHSIMAVTFTNKAAAEM 65 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHH-HHHHHHHHcCCC--------------CHHHeEeeeccHHHHHHH
Confidence 3589999998854 34589999999999998753 333333332211 115699999999999999
Q ss_pred HHHHHHHHh
Q psy3307 112 YDEAKKFAY 120 (130)
Q Consensus 112 ~~~~~~l~~ 120 (130)
.+.+.++..
T Consensus 66 ~~Rl~~~~~ 74 (715)
T TIGR01075 66 RHRIGALLG 74 (715)
T ss_pred HHHHHHHhc
Confidence 999887754
No 147
>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=97.07 E-value=0.0077 Score=49.52 Aligned_cols=67 Identities=27% Similarity=0.227 Sum_probs=49.0
Q ss_pred CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.++ .+++-|.+++..+..++-+++.+++|||||... -.++..+...... ..+++.+||..-|
T Consensus 320 ~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~~~----------------~~v~l~ApTg~AA 381 (720)
T TIGR01448 320 LRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELGGL----------------LPVGLAAPTGRAA 381 (720)
T ss_pred cCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcCCC----------------ceEEEEeCchHHH
Confidence 454 789999999999999999999999999999743 3344433332110 3477889998887
Q ss_pred HHHHH
Q psy3307 109 TQIYD 113 (130)
Q Consensus 109 ~q~~~ 113 (130)
..+.+
T Consensus 382 ~~L~e 386 (720)
T TIGR01448 382 KRLGE 386 (720)
T ss_pred HHHHH
Confidence 76654
No 148
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=97.05 E-value=0.0041 Score=50.46 Aligned_cols=70 Identities=20% Similarity=0.099 Sum_probs=50.4
Q ss_pred CcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
+++-|.+++.. .+.++++.|..|||||.+.+-=+...+..... ...++++++-|+..+.++.+
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~---------------~p~~IL~vTFt~~Aa~em~~ 64 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGY---------------KARNIAAVTFTNKAAREMKE 64 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC---------------CHHHeEEEeccHHHHHHHHH
Confidence 68889988754 35689999999999998754444444432111 11468999999999999999
Q ss_pred HHHHHHh
Q psy3307 114 EAKKFAY 120 (130)
Q Consensus 114 ~~~~l~~ 120 (130)
.+.+...
T Consensus 65 Rl~~~l~ 71 (664)
T TIGR01074 65 RVAKTLG 71 (664)
T ss_pred HHHHHhC
Confidence 8876543
No 149
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.97 E-value=0.01 Score=50.35 Aligned_cols=64 Identities=20% Similarity=0.086 Sum_probs=47.0
Q ss_pred CCCCCCcHHHHHHHhHHhcCCc-EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 29 ARYDKPTPVQKYAIPVIISGRD-VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g~~-~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.|+ .+++-|..++..++.+++ +++.++.|+|||.. +-.+...+.... .+++.++||---
T Consensus 343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~G------------------~~V~~~ApTGkA 402 (988)
T PRK13889 343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEAAG------------------YEVRGAALSGIA 402 (988)
T ss_pred cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHcC------------------CeEEEecCcHHH
Confidence 454 689999999999998654 68999999999974 333333333222 568899999877
Q ss_pred HHHHH
Q psy3307 108 ATQIY 112 (130)
Q Consensus 108 a~q~~ 112 (130)
+..+.
T Consensus 403 A~~L~ 407 (988)
T PRK13889 403 AENLE 407 (988)
T ss_pred HHHHh
Confidence 76664
No 150
>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=96.94 E-value=0.012 Score=48.57 Aligned_cols=76 Identities=13% Similarity=0.119 Sum_probs=50.8
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcC-CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCc
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISG-RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFP 96 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g-~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (130)
.++..++..-..++ .+++-|..++..++.+ +-+++.++.|+|||.. +-.+....... +.
T Consensus 338 ~~~~~~~~~l~~~~-~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtl--l~~i~~~~~~~-----------------g~ 397 (744)
T TIGR02768 338 VSPPIVDAAIDQHY-RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTM--LKAAREAWEAA-----------------GY 397 (744)
T ss_pred CCHHHHHHHHhccC-CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHH--HHHHHHHHHhC-----------------CC
Confidence 34444333322344 6899999999998874 6779999999999864 33333333322 15
Q ss_pred eEEEEcCcHHHHHHHHH
Q psy3307 97 LGLVLAPTRELATQIYD 113 (130)
Q Consensus 97 ~~lil~Pt~~La~q~~~ 113 (130)
+++.++||.-.+..+.+
T Consensus 398 ~V~~~ApTg~Aa~~L~~ 414 (744)
T TIGR02768 398 RVIGAALSGKAAEGLQA 414 (744)
T ss_pred eEEEEeCcHHHHHHHHh
Confidence 68899999877776653
No 151
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.94 E-value=0.0039 Score=46.52 Aligned_cols=46 Identities=22% Similarity=0.259 Sum_probs=31.4
Q ss_pred HHHHCCCCCCcHHHHHHHhHH-hcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 25 NIALARYDKPTPVQKYAIPVI-ISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 25 ~l~~~~~~~~t~~Q~~~i~~~-~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.+.+.|. +++.|...+..+ ..+.+++++++||||||.. +-.++..+
T Consensus 122 ~lv~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTl-l~aL~~~i 168 (323)
T PRK13833 122 DYVTSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTL-ANAVIAEI 168 (323)
T ss_pred HHHHcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHH
Confidence 3444444 567777776544 4667999999999999974 34455544
No 152
>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=96.93 E-value=0.0078 Score=48.39 Aligned_cols=69 Identities=20% Similarity=0.251 Sum_probs=48.3
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~ 114 (130)
.+.|..++..++..+-.++.+++|||||... ..++..+...... ....++++.+||.--|..+.+.
T Consensus 147 ~~~Qk~A~~~al~~~~~vitGgpGTGKTt~v-~~ll~~l~~~~~~-------------~~~~~I~l~APTGkAA~rL~e~ 212 (586)
T TIGR01447 147 QNWQKVAVALALKSNFSLITGGPGTGKTTTV-ARLLLALVKQSPK-------------QGKLRIALAAPTGKAAARLAES 212 (586)
T ss_pred cHHHHHHHHHHhhCCeEEEEcCCCCCHHHHH-HHHHHHHHHhccc-------------cCCCcEEEECCcHHHHHHHHHH
Confidence 3789999999999999999999999999753 2333333222110 0014689999998888877665
Q ss_pred HHH
Q psy3307 115 AKK 117 (130)
Q Consensus 115 ~~~ 117 (130)
+..
T Consensus 213 ~~~ 215 (586)
T TIGR01447 213 LRK 215 (586)
T ss_pred HHh
Confidence 543
No 153
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=96.93 E-value=0.0049 Score=45.51 Aligned_cols=49 Identities=20% Similarity=0.342 Sum_probs=32.1
Q ss_pred HHHHHHHCCCCCCcHHHHHHHhH-HhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 22 ITNNIALARYDKPTPVQKYAIPV-IISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 22 i~~~l~~~~~~~~t~~Q~~~i~~-~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
-++.+.+.|. +++.|...+.. +..+.+++++++||||||.. +-.++..+
T Consensus 107 tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl-l~al~~~i 156 (299)
T TIGR02782 107 TLDDYVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTL-ANALLAEI 156 (299)
T ss_pred CHHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHh
Confidence 3445555554 55666666654 44667999999999999974 34454444
No 154
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.88 E-value=0.0059 Score=50.13 Aligned_cols=71 Identities=14% Similarity=0.099 Sum_probs=50.9
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.+++-|.+++.. ....+++.|..|||||.+..- -+.++...... ..-++|+++-|+..|.++.
T Consensus 9 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~-Ria~Li~~~~v--------------~p~~IL~lTFT~kAA~Em~ 71 (721)
T PRK11773 9 SLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVH-RIAWLMQVENA--------------SPYSIMAVTFTNKAAAEMR 71 (721)
T ss_pred hcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCC--------------ChhHeEeeeccHHHHHHHH
Confidence 589999998853 245889999999999987533 33333322111 1146999999999999999
Q ss_pred HHHHHHHh
Q psy3307 113 DEAKKFAY 120 (130)
Q Consensus 113 ~~~~~l~~ 120 (130)
+.+.++..
T Consensus 72 ~Rl~~~~~ 79 (721)
T PRK11773 72 HRIEQLLG 79 (721)
T ss_pred HHHHHHhc
Confidence 98887654
No 155
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.88 E-value=0.0076 Score=50.90 Aligned_cols=66 Identities=24% Similarity=0.208 Sum_probs=48.9
Q ss_pred CCcHHHHHHHhHHhc--CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHH
Q psy3307 33 KPTPVQKYAIPVIIS--GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQ 110 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~--g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q 110 (130)
.+.|+|..+...++. ...+++.-..|.|||.-..+-+-..+..... -++||+||. .|..|
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~-----------------~rvLIVvP~-sL~~Q 213 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRA-----------------ERVLILVPE-TLQHQ 213 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCC-----------------CcEEEEcCH-HHHHH
Confidence 589999998877653 3478999999999998774444333332221 369999998 89999
Q ss_pred HHHHHH
Q psy3307 111 IYDEAK 116 (130)
Q Consensus 111 ~~~~~~ 116 (130)
...++.
T Consensus 214 W~~El~ 219 (956)
T PRK04914 214 WLVEML 219 (956)
T ss_pred HHHHHH
Confidence 988884
No 156
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.84 E-value=0.0028 Score=46.83 Aligned_cols=55 Identities=18% Similarity=0.368 Sum_probs=38.2
Q ss_pred cccccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 4 CLVSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 4 ~~~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
+.+|....+|++|++++-+.+.+.. +. -=+++.+|||||||.. +.+++.++.++.
T Consensus 99 R~Ip~~i~~~e~LglP~i~~~~~~~-----~~-------------GLILVTGpTGSGKSTT-lAamId~iN~~~ 153 (353)
T COG2805 99 RLIPSKIPTLEELGLPPIVRELAES-----PR-------------GLILVTGPTGSGKSTT-LAAMIDYINKHK 153 (353)
T ss_pred eccCccCCCHHHcCCCHHHHHHHhC-----CC-------------ceEEEeCCCCCcHHHH-HHHHHHHHhccC
Confidence 3567777888888888777663321 11 1478999999999976 467777776654
No 157
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=96.80 E-value=0.0033 Score=47.10 Aligned_cols=34 Identities=21% Similarity=0.256 Sum_probs=29.8
Q ss_pred CCCCCcHHHHHHHhHHhcCC-cEEEEccCCchHHH
Q psy3307 30 RYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTA 63 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~~~g~-~~l~~aptGsGKT~ 63 (130)
.|..+++-|..++..+.+++ ++++++.||||||.
T Consensus 154 ~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTT 188 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTT 188 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHH
Confidence 45678999999998888776 99999999999997
No 158
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.79 E-value=0.0089 Score=44.99 Aligned_cols=70 Identities=23% Similarity=0.291 Sum_probs=55.8
Q ss_pred CCcHHHHHHHhHH----hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVI----ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~----~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.+++.|..+-..+ .+.+|.++.|.||+|||-- +.+.++.....+ .++.|.+|-.+.+
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~G------------------~~vciASPRvDVc 157 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQG------------------GRVCIASPRVDVC 157 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhcC------------------CeEEEecCcccch
Confidence 6889998766544 4778999999999999974 467777777654 5789999999999
Q ss_pred HHHHHHHHHHHhc
Q psy3307 109 TQIYDEAKKFAYR 121 (130)
Q Consensus 109 ~q~~~~~~~l~~~ 121 (130)
.+++..+++-..+
T Consensus 158 lEl~~Rlk~aF~~ 170 (441)
T COG4098 158 LELYPRLKQAFSN 170 (441)
T ss_pred HHHHHHHHHhhcc
Confidence 9999988765444
No 159
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=96.79 E-value=0.0087 Score=48.70 Aligned_cols=66 Identities=35% Similarity=0.436 Sum_probs=50.7
Q ss_pred CCcHHHHHHHhHHhcC-----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 33 KPTPVQKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g-----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
.|++.|..++..+.++ +..++.+.+||||++... .++.. .. ..+|||+|+...
T Consensus 12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia-~l~~~---~~------------------r~vLIVt~~~~~ 69 (652)
T PRK05298 12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA-NVIAR---LQ------------------RPTLVLAHNKTL 69 (652)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH-HHHHH---hC------------------CCEEEEECCHHH
Confidence 7999999999887533 256799999999998642 22221 11 249999999999
Q ss_pred HHHHHHHHHHHHh
Q psy3307 108 ATQIYDEAKKFAY 120 (130)
Q Consensus 108 a~q~~~~~~~l~~ 120 (130)
|.|+++.++.+..
T Consensus 70 A~~l~~dL~~~~~ 82 (652)
T PRK05298 70 AAQLYSEFKEFFP 82 (652)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999988854
No 160
>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=96.65 E-value=0.0073 Score=41.23 Aligned_cols=48 Identities=21% Similarity=0.427 Sum_probs=29.4
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
-+++++++.|++|+|||... ..+...+...+ ..+..++..+|...+..
T Consensus 45 ~~~~~l~l~G~~G~GKThLa-~ai~~~~~~~g-------------------~~v~f~~~~~L~~~l~~ 92 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLA-VAIANEAIRKG-------------------YSVLFITASDLLDELKQ 92 (178)
T ss_dssp SC--EEEEEESTTSSHHHHH-HHHHHHHHHTT---------------------EEEEEHHHHHHHHHC
T ss_pred ccCeEEEEEhhHhHHHHHHH-HHHHHHhccCC-------------------cceeEeecCceeccccc
Confidence 36789999999999999764 34444444422 23444566777776643
No 161
>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=96.60 E-value=0.01 Score=45.11 Aligned_cols=26 Identities=27% Similarity=0.388 Sum_probs=19.1
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
+..+++++|||||||.. +-.++..+.
T Consensus 149 ~GlilI~G~TGSGKTT~-l~al~~~i~ 174 (372)
T TIGR02525 149 AGLGLICGETGSGKSTL-AASIYQHCG 174 (372)
T ss_pred CCEEEEECCCCCCHHHH-HHHHHHHHH
Confidence 44689999999999975 345555554
No 162
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=96.57 E-value=0.013 Score=48.17 Aligned_cols=72 Identities=21% Similarity=0.190 Sum_probs=50.9
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
..+++-|.+++.. ...++++.|..|||||.+..-=+...+....- ..-++|.++-|+..|..+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i---------------~P~~IL~lTFT~kAA~em 65 (726)
T TIGR01073 3 AHLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNV---------------APWNILAITFTNKAAREM 65 (726)
T ss_pred cccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCC---------------CHHHeeeeeccHHHHHHH
Confidence 3589999998864 34679999999999998754433333322211 114689999999999999
Q ss_pred HHHHHHHHh
Q psy3307 112 YDEAKKFAY 120 (130)
Q Consensus 112 ~~~~~~l~~ 120 (130)
.+.+.++..
T Consensus 66 ~~Rl~~~~~ 74 (726)
T TIGR01073 66 KERVEKLLG 74 (726)
T ss_pred HHHHHHHhc
Confidence 888876643
No 163
>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=96.55 E-value=0.011 Score=44.78 Aligned_cols=59 Identities=20% Similarity=0.215 Sum_probs=42.9
Q ss_pred CcHHHHHHHhHH------hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 34 PTPVQKYAIPVI------ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 34 ~t~~Q~~~i~~~------~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
+++-|++++..+ ..+..+++.++-|+|||+. +-.+........ ..+++++||-.-
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l--~~~i~~~~~~~~-----------------~~~~~~a~tg~A 62 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFL--IKAIIDYLRSRG-----------------KKVLVTAPTGIA 62 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHH--HHHHHHHhcccc-----------------ceEEEecchHHH
Confidence 577899998888 6888999999999999874 444433332221 457888888777
Q ss_pred HHHH
Q psy3307 108 ATQI 111 (130)
Q Consensus 108 a~q~ 111 (130)
|..+
T Consensus 63 A~~i 66 (364)
T PF05970_consen 63 AFNI 66 (364)
T ss_pred HHhc
Confidence 7666
No 164
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.48 E-value=0.027 Score=48.06 Aligned_cols=72 Identities=21% Similarity=0.251 Sum_probs=51.9
Q ss_pred CCcHHHHHHHhHHh----cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVII----SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.+.++|.+.+..+. +|.+.|+.-..|.|||+-. +.++..+...... ....|||||. ++.
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQa-IalL~~L~~~~~~---------------~gp~LIVvP~-SlL 231 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQT-ISLLGYLHEYRGI---------------TGPHMVVAPK-STL 231 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHH-HHHHHHHHHhcCC---------------CCCEEEEeCh-HHH
Confidence 57899999987654 6788999999999999864 4444444432211 0248999996 677
Q ss_pred HHHHHHHHHHHhc
Q psy3307 109 TQIYDEAKKFAYR 121 (130)
Q Consensus 109 ~q~~~~~~~l~~~ 121 (130)
.++.++++++...
T Consensus 232 ~nW~~Ei~kw~p~ 244 (1033)
T PLN03142 232 GNWMNEIRRFCPV 244 (1033)
T ss_pred HHHHHHHHHHCCC
Confidence 8888888887643
No 165
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.45 E-value=0.0056 Score=50.62 Aligned_cols=53 Identities=17% Similarity=0.276 Sum_probs=36.2
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
-++=+.+.||+|||+||+--+...-..-+. .+-+|+|||.+.-+-+....+..
T Consensus 75 lNiDI~METGTGKTy~YlrtmfeLhk~YG~-----------------~KFIivVPs~AIkeGv~~~s~~~ 127 (985)
T COG3587 75 LNIDILMETGTGKTYTYLRTMFELHKKYGL-----------------FKFIIVVPSLAIKEGVFLTSKET 127 (985)
T ss_pred ceeeEEEecCCCceeeHHHHHHHHHHHhCc-----------------eeEEEEeccHHHHhhhHHHHHHH
Confidence 477789999999999996555443222221 57899999987766654444333
No 166
>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=96.39 E-value=0.1 Score=37.15 Aligned_cols=94 Identities=23% Similarity=0.349 Sum_probs=67.2
Q ss_pred CCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHh---cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q psy3307 11 QGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVII---SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87 (130)
Q Consensus 11 ~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~---~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~ 87 (130)
..|+-...+++++=.+. .++ -.++.|.+....+. +|.|.+.+.-.|.|||.+ ++|++......+.
T Consensus 3 ~~w~p~~~P~wLl~E~e-~~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsV-I~Pmla~~LAdg~--------- 70 (229)
T PF12340_consen 3 RNWDPMEYPDWLLFEIE-SNI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSV-IVPMLALALADGS--------- 70 (229)
T ss_pred CCCCchhChHHHHHHHH-cCc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccch-HHHHHHHHHcCCC---------
Confidence 35777777788776653 345 67999999888877 468999999999999976 5888887775442
Q ss_pred CCCCCCCCceEEEEcCcHHHHHHHHHHHH-HHHhcCCCc
Q psy3307 88 YPSRKKVFPLGLVLAPTRELATQIYDEAK-KFAYRSQLR 125 (130)
Q Consensus 88 ~~~~~~~~~~~lil~Pt~~La~q~~~~~~-~l~~~~~~~ 125 (130)
.-+.+++|. .|..|..+.+. +++.-++-+
T Consensus 71 --------~LvrviVpk-~Ll~q~~~~L~~~lg~l~~r~ 100 (229)
T PF12340_consen 71 --------RLVRVIVPK-ALLEQMRQMLRSRLGGLLNRR 100 (229)
T ss_pred --------cEEEEEcCH-HHHHHHHHHHHHHHHHHhCCe
Confidence 235555654 68999988886 454434433
No 167
>KOG1131|consensus
Probab=96.38 E-value=0.043 Score=43.61 Aligned_cols=77 Identities=17% Similarity=0.106 Sum_probs=53.1
Q ss_pred CCCCCCcHHHHHHHhHHh----cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 29 ARYDKPTPVQKYAIPVII----SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
+.|...+|-|-.-+..+. .+-+.++..|+|+|||.+.+--++..-...... ..+.++-+.|
T Consensus 12 FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~---------------~~KliYCSRT 76 (755)
T KOG1131|consen 12 FPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDE---------------HRKLIYCSRT 76 (755)
T ss_pred cCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcc---------------cceEEEecCc
Confidence 356677888887776654 345789999999999998755555544333211 1467777788
Q ss_pred HHHHHHHHHHHHHHHh
Q psy3307 105 RELATQIYDEAKKFAY 120 (130)
Q Consensus 105 ~~La~q~~~~~~~l~~ 120 (130)
..-.+....+++++..
T Consensus 77 vpEieK~l~El~~l~~ 92 (755)
T KOG1131|consen 77 VPEIEKALEELKRLMD 92 (755)
T ss_pred chHHHHHHHHHHHHHH
Confidence 8777777777777654
No 168
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.32 E-value=0.015 Score=41.92 Aligned_cols=67 Identities=15% Similarity=0.307 Sum_probs=44.2
Q ss_pred CCCCCcHHHHHHHhHHh-------cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc
Q psy3307 30 RYDKPTPVQKYAIPVII-------SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA 102 (130)
Q Consensus 30 ~~~~~t~~Q~~~i~~~~-------~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~ 102 (130)
.|......+..++..+. .+.++++.||+|+|||... .++-..+.. . ...++++
T Consensus 80 d~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa-~Ai~~~l~~-~------------------g~sv~f~ 139 (254)
T COG1484 80 DFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLA-IAIGNELLK-A------------------GISVLFI 139 (254)
T ss_pred cccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHH-HHHHHHHHH-c------------------CCeEEEE
Confidence 34444445555444332 6789999999999999754 344444442 2 2367778
Q ss_pred CcHHHHHHHHHHHH
Q psy3307 103 PTRELATQIYDEAK 116 (130)
Q Consensus 103 Pt~~La~q~~~~~~ 116 (130)
++.+++.++...+.
T Consensus 140 ~~~el~~~Lk~~~~ 153 (254)
T COG1484 140 TAPDLLSKLKAAFD 153 (254)
T ss_pred EHHHHHHHHHHHHh
Confidence 89999999887654
No 169
>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=96.32 E-value=0.021 Score=49.56 Aligned_cols=41 Identities=32% Similarity=0.453 Sum_probs=27.6
Q ss_pred CCCCCcHHHH---HHHhHHhcCCcEEEEccCCchHHHHHHHHHHHH
Q psy3307 30 RYDKPTPVQK---YAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 30 ~~~~~t~~Q~---~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
.|...-|+.. +.+..+.++..++++|+||||||. .+|.+..
T Consensus 61 ~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 61 RYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred cCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 4544455543 344555566788999999999998 4676543
No 170
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=96.25 E-value=0.025 Score=45.51 Aligned_cols=93 Identities=18% Similarity=0.118 Sum_probs=58.5
Q ss_pred CCCCCHHH-HHHHHHCCCCCCcH-------HHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCC
Q psy3307 15 DIQMTEII-TNNIALARYDKPTP-------VQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGR 86 (130)
Q Consensus 15 ~l~l~~~i-~~~l~~~~~~~~t~-------~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~ 86 (130)
+.+..+++ ...|.+.--..+.. -|-++| ..-.++-+++++..|||||.+.+-=+--.++..+..
T Consensus 186 d~~~~dEvL~~~Lek~ss~~mrdIV~TIQkEQneII-R~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~------- 257 (747)
T COG3973 186 DTGGRDEVLQRVLEKNSSAKMRDIVETIQKEQNEII-RFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGP------- 257 (747)
T ss_pred CCchHHHHHHHHHHhccchhHHHHHHHhhHhHHHHH-hccCCCeEEEecCCCCCchhHHHHHHHHHHhccccc-------
Confidence 44455554 55576654333333 333333 333667889999999999987644333333333221
Q ss_pred CCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhc
Q psy3307 87 GYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYR 121 (130)
Q Consensus 87 ~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~ 121 (130)
-. ...+||+.|.+-...-+.+++-.|++.
T Consensus 258 -----l~-~k~vlvl~PN~vFleYis~VLPeLGe~ 286 (747)
T COG3973 258 -----LQ-AKPVLVLGPNRVFLEYISRVLPELGEE 286 (747)
T ss_pred -----cc-cCceEEEcCcHHHHHHHHHhchhhccC
Confidence 00 123999999999999999999988875
No 171
>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=96.24 E-value=0.01 Score=40.62 Aligned_cols=32 Identities=25% Similarity=0.354 Sum_probs=25.4
Q ss_pred CCcHHHHHHHhHH-hcCCcEEEEccCCchHHHH
Q psy3307 33 KPTPVQKYAIPVI-ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 33 ~~t~~Q~~~i~~~-~~g~~~l~~aptGsGKT~~ 64 (130)
..++-|...+... ..|..+++.+|||||||..
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHH
Confidence 3567777777554 4788999999999999974
No 172
>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=96.06 E-value=0.0063 Score=47.30 Aligned_cols=51 Identities=33% Similarity=0.409 Sum_probs=37.9
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAY 120 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~ 120 (130)
.++++.||||||||..+++|.+-. .. .-++|.=|-.||........++.+.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~---~~------------------~s~iV~D~KgEl~~~t~~~r~~~G~ 95 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLN---YP------------------GSMIVTDPKGELYEKTAGYRKKRGY 95 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHh---cc------------------CCEEEEECCCcHHHHHHHHHHHCCC
Confidence 369999999999999999998732 11 1267777888888877776665543
No 173
>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=96.04 E-value=0.0088 Score=45.28 Aligned_cols=26 Identities=27% Similarity=0.445 Sum_probs=19.4
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.+.-+++++|||||||... -.++..+
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 5678999999999999753 4444444
No 174
>KOG2340|consensus
Probab=96.00 E-value=0.053 Score=43.07 Aligned_cols=91 Identities=18% Similarity=0.240 Sum_probs=63.0
Q ss_pred CCCcHHHHHHHhHHhcCCcEEEEccC-CchH--HHHHHHHHHHHHHhcCCCCC------------CCCCCCCCCCCCCCc
Q psy3307 32 DKPTPVQKYAIPVIISGRDVMACAQT-GSGK--TAAFLVPILNQMYERGPLPT------------PPAGRGYPSRKKVFP 96 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g~~~l~~apt-GsGK--T~~~~l~~l~~~~~~~~~~~------------~~~~~~~~~~~~~~~ 96 (130)
..+|+.|.+.+....+=+|++.--.+ +.|+ +-.|++-+|+++.+.+..-. .+....+...+-..|
T Consensus 215 ~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRp 294 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRP 294 (698)
T ss_pred CcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCc
Confidence 46799999999888888998643222 2344 45688999998876432111 112222233455579
Q ss_pred eEEEEcCcHHHHHHHHHHHHHHHhcC
Q psy3307 97 LGLVLAPTRELATQIYDEAKKFAYRS 122 (130)
Q Consensus 97 ~~lil~Pt~~La~q~~~~~~~l~~~~ 122 (130)
++||+||+|+-|..+.+.+..+..+.
T Consensus 295 kVLivvpfRe~A~riVn~lis~l~G~ 320 (698)
T KOG2340|consen 295 KVLIVVPFRESAYRIVNLLISLLSGD 320 (698)
T ss_pred eEEEEecchHHHHHHHHHHHHHhcCc
Confidence 99999999999999999999886554
No 175
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.018 Score=43.08 Aligned_cols=26 Identities=31% Similarity=0.502 Sum_probs=19.5
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
..|+++.+|||||||+ +.-.|.++..
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk~Ln 122 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAKILN 122 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHHHhC
Confidence 3589999999999997 4455555543
No 176
>PRK08181 transposase; Validated
Probab=95.97 E-value=0.049 Score=39.70 Aligned_cols=30 Identities=23% Similarity=0.396 Sum_probs=21.2
Q ss_pred cHHHHHHHh----HHhcCCcEEEEccCCchHHHH
Q psy3307 35 TPVQKYAIP----VIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 35 t~~Q~~~i~----~~~~g~~~l~~aptGsGKT~~ 64 (130)
...|..++. .+-.++++++.||+|+|||..
T Consensus 89 ~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHL 122 (269)
T PRK08181 89 SKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHL 122 (269)
T ss_pred CHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHH
Confidence 345544442 233778999999999999964
No 177
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.96 E-value=0.016 Score=43.66 Aligned_cols=28 Identities=25% Similarity=0.531 Sum_probs=20.7
Q ss_pred HHhcCCcEEEEccCCchHHHHHHHHHHHH
Q psy3307 44 VIISGRDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 44 ~~~~g~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
.+..+.+++++++||||||.. +-.++..
T Consensus 158 ~v~~~~nilI~G~tGSGKTTl-l~aLl~~ 185 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTM-SKTLISA 185 (344)
T ss_pred HHHcCCeEEEECCCCccHHHH-HHHHHcc
Confidence 445788999999999999964 3344443
No 178
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=95.94 E-value=0.029 Score=47.39 Aligned_cols=76 Identities=22% Similarity=0.118 Sum_probs=60.2
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.++++|...=-.+..|+ +....||-|||++..+|+.-...... -+-|++-+--||..=.
T Consensus 138 ~~ydVQLiGgivLh~G~--IAEM~TGEGKTLvatlp~yLnAL~G~-------------------gVHvVTvNDYLA~RDa 196 (1025)
T PRK12900 138 VPYDVQLIGGIVLHSGK--ISEMATGEGKTLVSTLPTFLNALTGR-------------------GVHVVTVNDYLAQRDK 196 (1025)
T ss_pred cccchHHhhhHHhhcCC--ccccCCCCCcchHhHHHHHHHHHcCC-------------------CcEEEeechHhhhhhH
Confidence 46777765544444444 56999999999999999876665543 2778888889999999
Q ss_pred HHHHHHHhcCCCceEEe
Q psy3307 113 DEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 113 ~~~~~l~~~~~~~~~~~ 129 (130)
.++..+-+.+|++|.|+
T Consensus 197 ewm~p~y~flGLtVg~i 213 (1025)
T PRK12900 197 EWMNPVFEFHGLSVGVI 213 (1025)
T ss_pred HHHHHHHHHhCCeeeee
Confidence 99999999999999876
No 179
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=95.88 E-value=0.02 Score=47.29 Aligned_cols=52 Identities=23% Similarity=0.287 Sum_probs=37.5
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
.-.++.||.|||||.+..- -+........ .++++++..++|+.++...++.-
T Consensus 50 ~V~vVRSpMGTGKTtaLi~-wLk~~l~~~~-----------------~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIR-WLKDALKNPD-----------------KSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CeEEEECCCCCCcHHHHHH-HHHHhccCCC-----------------CeEEEEEhHHHHHHHHHHHHhhc
Confidence 4558899999999987533 3332211111 56999999999999999998754
No 180
>PRK05973 replicative DNA helicase; Provisional
Probab=95.85 E-value=0.035 Score=39.70 Aligned_cols=51 Identities=25% Similarity=0.341 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHHHCCCC----------CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHH
Q psy3307 15 DIQMTEIITNNIALARYD----------KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 15 ~l~l~~~i~~~l~~~~~~----------~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~ 66 (130)
+.++++.+-+.-.+.||. .+||... ...-+..|.-+++.|++|+|||...+
T Consensus 22 ~~~~~~~~~~~a~~~g~~~w~~~~~~~~~~~p~~~-l~GGl~~Gsl~LIaG~PG~GKT~lal 82 (237)
T PRK05973 22 NIPLHEALDRIAAEEGFSSWSLLAAKAAATTPAEE-LFSQLKPGDLVLLGARPGHGKTLLGL 82 (237)
T ss_pred CCcHHHHHHHHHHHhccchHHHHHHhccCCCCHHH-hcCCCCCCCEEEEEeCCCCCHHHHHH
Confidence 344555555555555664 4455322 33445577889999999999997543
No 181
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=95.84 E-value=0.14 Score=44.14 Aligned_cols=77 Identities=17% Similarity=0.083 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHCCCCCCcHHHHHHHhHHhc-CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCC
Q psy3307 17 QMTEIITNNIALARYDKPTPVQKYAIPVIIS-GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95 (130)
Q Consensus 17 ~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~-g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (130)
++++..+++....++ .+++-|..++..+.. ++-.++.++.|+|||... -++...+....
T Consensus 366 ~v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l-~~~~~~~e~~G------------------ 425 (1102)
T PRK13826 366 GVREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMM-KAAREAWEAAG------------------ 425 (1102)
T ss_pred CCCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHH-HHHHHHHHHcC------------------
Confidence 445555555444444 789999999998864 567899999999999742 23333332222
Q ss_pred ceEEEEcCcHHHHHHHHH
Q psy3307 96 PLGLVLAPTRELATQIYD 113 (130)
Q Consensus 96 ~~~lil~Pt~~La~q~~~ 113 (130)
.+++.++||-.-+..+.+
T Consensus 426 ~~V~g~ApTgkAA~~L~e 443 (1102)
T PRK13826 426 YRVVGGALAGKAAEGLEK 443 (1102)
T ss_pred CeEEEEcCcHHHHHHHHH
Confidence 568899999887777654
No 182
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.84 E-value=0.024 Score=44.51 Aligned_cols=41 Identities=24% Similarity=0.376 Sum_probs=29.4
Q ss_pred cHHHHHHHhHHhcCC--cEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 35 TPVQKYAIPVIISGR--DVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~--~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
++.|...+..+++.. =+++.+|||||||.. +..+++.+...
T Consensus 243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~ 285 (500)
T COG2804 243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNTP 285 (500)
T ss_pred CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCC
Confidence 666777776666543 467899999999976 46777766644
No 183
>PRK13764 ATPase; Provisional
Probab=95.84 E-value=0.03 Score=45.14 Aligned_cols=27 Identities=11% Similarity=0.239 Sum_probs=20.4
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.++++++++|||||||.. +-.++..+.
T Consensus 256 ~~~~ILIsG~TGSGKTTl-l~AL~~~i~ 282 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTF-AQALAEFYA 282 (602)
T ss_pred cCCEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 467899999999999974 345555554
No 184
>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=95.83 E-value=0.028 Score=42.31 Aligned_cols=52 Identities=15% Similarity=0.176 Sum_probs=36.0
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
-+++.|.+|||||+.. +-++..+.... .+..+++++.+..|...+...+..-
T Consensus 3 v~~I~G~aGTGKTvla-~~l~~~l~~~~----------------~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 3 VILITGGAGTGKTVLA-LNLAKELQNSE----------------EGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred EEEEEecCCcCHHHHH-HHHHHHhhccc----------------cCCceEEEEecchHHHHHHHHHhhh
Confidence 4789999999999864 33343331111 1156899999999999888777543
No 185
>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=95.83 E-value=0.0037 Score=47.51 Aligned_cols=48 Identities=27% Similarity=0.319 Sum_probs=35.9
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
++++.|+||||||.++++|-+... . ..++|.=|--|+........++.
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~~---~------------------~s~vv~D~Kge~~~~t~~~r~~~ 48 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLTW---P------------------GSVVVLDPKGENFELTSEHRRAL 48 (384)
T ss_pred CeeEecCCCCCCccEEEccchhcC---C------------------CCEEEEccchhHHHHHHHHHHHc
Confidence 478999999999999988876532 1 23777778888887776666544
No 186
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.79 E-value=0.017 Score=47.18 Aligned_cols=48 Identities=13% Similarity=0.124 Sum_probs=35.6
Q ss_pred EEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 53 ACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 53 ~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
..+.+|||||-.|+-.+-..+.. . .++||++|...|..|+.+.++...
T Consensus 165 ~~~~~GSGKTevyl~~i~~~l~~-G------------------k~vLvLvPEi~lt~q~~~rl~~~f 212 (665)
T PRK14873 165 WQALPGEDWARRLAAAAAATLRA-G------------------RGALVVVPDQRDVDRLEAALRALL 212 (665)
T ss_pred hhcCCCCcHHHHHHHHHHHHHHc-C------------------CeEEEEecchhhHHHHHHHHHHHc
Confidence 33446999999995544444433 2 359999999999999999998544
No 187
>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=95.72 E-value=0.014 Score=43.36 Aligned_cols=41 Identities=27% Similarity=0.383 Sum_probs=28.7
Q ss_pred CCCcHHHHHH-HhHHhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 32 DKPTPVQKYA-IPVIISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 32 ~~~t~~Q~~~-i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
..+++.|..- |-.+..+++++++++||||||.. +.+++..+
T Consensus 126 gt~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~I 167 (312)
T COG0630 126 GTISPEQAAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFI 167 (312)
T ss_pred CCCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC
Confidence 3466666554 45566889999999999999963 44444443
No 188
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.72 E-value=0.041 Score=41.96 Aligned_cols=19 Identities=32% Similarity=0.344 Sum_probs=16.5
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
+|..+++.+|||+|||...
T Consensus 136 ~g~ii~lvGptGvGKTTti 154 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTT 154 (374)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4678999999999999865
No 189
>PRK06921 hypothetical protein; Provisional
Probab=95.71 E-value=0.2 Score=36.42 Aligned_cols=28 Identities=25% Similarity=0.363 Sum_probs=19.9
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.+.++++.|++|+|||... .++...+..
T Consensus 116 ~~~~l~l~G~~G~GKThLa-~aia~~l~~ 143 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL-TAAANELMR 143 (266)
T ss_pred CCCeEEEECCCCCcHHHHH-HHHHHHHhh
Confidence 3678999999999999643 344444443
No 190
>PRK06526 transposase; Provisional
Probab=95.64 E-value=0.095 Score=37.85 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=17.6
Q ss_pred HhcCCcEEEEccCCchHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~ 65 (130)
+-.+.++++.||+|+|||...
T Consensus 95 i~~~~nlll~Gp~GtGKThLa 115 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLA 115 (254)
T ss_pred hhcCceEEEEeCCCCchHHHH
Confidence 346789999999999999654
No 191
>KOG0952|consensus
Probab=95.62 E-value=0.0095 Score=50.31 Aligned_cols=77 Identities=19% Similarity=0.200 Sum_probs=57.4
Q ss_pred CCcHHHHHHHhHHh-cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHH
Q psy3307 33 KPTPVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~-~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~ 111 (130)
...|+|...+-... -..++++.+|||+|||++|.+++....+.... .++++++|.+.|+...
T Consensus 927 ~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~-----------------~kvvyIap~kalvker 989 (1230)
T KOG0952|consen 927 YFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPG-----------------SKVVYIAPDKALVKER 989 (1230)
T ss_pred ccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCCC-----------------ccEEEEcCCchhhccc
Confidence 55667766664433 33688999999999999999998877765432 5799999999999998
Q ss_pred HHHHHHHHhcCCCce
Q psy3307 112 YDEAKKFAYRSQLRP 126 (130)
Q Consensus 112 ~~~~~~l~~~~~~~~ 126 (130)
.+.+.+....-|+++
T Consensus 990 ~~Dw~~r~~~~g~k~ 1004 (1230)
T KOG0952|consen 990 SDDWSKRDELPGIKV 1004 (1230)
T ss_pred ccchhhhcccCCcee
Confidence 887765544446554
No 192
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=95.53 E-value=0.042 Score=46.72 Aligned_cols=76 Identities=18% Similarity=0.030 Sum_probs=59.4
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.++++|...=-.+.. .-+....||-|||++..+|+.-...... -+-|++.+--||..=.
T Consensus 169 ~~yDVQliGgivLh~--G~IAEM~TGEGKTLvAtlp~yLnAL~Gk-------------------gVHvVTVNDYLA~RDa 227 (1112)
T PRK12901 169 VHYDVQLIGGVVLHQ--GKIAEMATGEGKTLVATLPVYLNALTGN-------------------GVHVVTVNDYLAKRDS 227 (1112)
T ss_pred cccchHHhhhhhhcC--CceeeecCCCCchhHHHHHHHHHHHcCC-------------------CcEEEEechhhhhccH
Confidence 456676654433334 4467999999999999999877666543 2778888889999999
Q ss_pred HHHHHHHhcCCCceEEe
Q psy3307 113 DEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 113 ~~~~~l~~~~~~~~~~~ 129 (130)
.++..+-+.+|++|.++
T Consensus 228 ewmgply~fLGLsvg~i 244 (1112)
T PRK12901 228 EWMGPLYEFHGLSVDCI 244 (1112)
T ss_pred HHHHHHHHHhCCceeec
Confidence 99999999999998875
No 193
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=95.53 E-value=0.0096 Score=48.02 Aligned_cols=50 Identities=24% Similarity=0.154 Sum_probs=39.3
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
.++++.||||||||..+++|-+-.. . .-+||+=|--|+........++.+
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~---~------------------~S~VV~DpKGEl~~~Ta~~R~~~G 208 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW---E------------------DSVVVHDIKLENYELTSGWREKQG 208 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC---C------------------CCEEEEeCcHHHHHHHHHHHHHCC
Confidence 5889999999999999999988643 1 127777788898888877776643
No 194
>PF12846 AAA_10: AAA-like domain
Probab=95.51 E-value=0.029 Score=40.37 Aligned_cols=27 Identities=33% Similarity=0.514 Sum_probs=20.3
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
+++++.|+||||||.... .++......
T Consensus 2 ~h~~i~G~tGsGKT~~~~-~l~~~~~~~ 28 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLK-NLLEQLIRR 28 (304)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHHc
Confidence 578999999999997765 555555543
No 195
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.45 E-value=0.13 Score=38.52 Aligned_cols=27 Identities=22% Similarity=0.326 Sum_probs=19.5
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.+.++++.|++|+|||... ..+...+.
T Consensus 182 ~~~~Lll~G~~GtGKThLa-~aIa~~l~ 208 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLS-NCIAKELL 208 (329)
T ss_pred cCCcEEEECCCCCcHHHHH-HHHHHHHH
Confidence 4589999999999999732 34444444
No 196
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=95.43 E-value=0.079 Score=39.78 Aligned_cols=29 Identities=24% Similarity=0.428 Sum_probs=21.4
Q ss_pred HHhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 44 VIISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 44 ~~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.+..+.+++++++||||||.. +-.++..+
T Consensus 156 ~v~~~~nili~G~tgSGKTTl-l~aL~~~i 184 (332)
T PRK13900 156 AVISKKNIIISGGTSTGKTTF-TNAALREI 184 (332)
T ss_pred HHHcCCcEEEECCCCCCHHHH-HHHHHhhC
Confidence 345788999999999999964 34445444
No 197
>PHA02533 17 large terminase protein; Provisional
Probab=95.41 E-value=0.19 Score=40.18 Aligned_cols=72 Identities=17% Similarity=0.079 Sum_probs=54.3
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.+.|.|...+..+..++-.++..+-..|||.....-.+....... +..+++++|+++.|..+.
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~-----------------~~~v~i~A~~~~QA~~vF 121 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-----------------DKNVGILAHKASMAAEVL 121 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-----------------CCEEEEEeCCHHHHHHHH
Confidence 578899999887766777788889999999876544443333221 147999999999999999
Q ss_pred HHHHHHHhc
Q psy3307 113 DEAKKFAYR 121 (130)
Q Consensus 113 ~~~~~l~~~ 121 (130)
+.++.+.+.
T Consensus 122 ~~ik~~ie~ 130 (534)
T PHA02533 122 DRTKQAIEL 130 (534)
T ss_pred HHHHHHHHh
Confidence 888866554
No 198
>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=95.41 E-value=0.077 Score=38.49 Aligned_cols=46 Identities=17% Similarity=0.282 Sum_probs=29.2
Q ss_pred HHHHCCCCCCcHHHHHHHhHHhc--CCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 25 NIALARYDKPTPVQKYAIPVIIS--GRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 25 ~l~~~~~~~~t~~Q~~~i~~~~~--g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.+.++|+ .+.|.+.+..+.. +..+++.++||||||... -.++..+.
T Consensus 58 ~l~~lg~---~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~ 105 (264)
T cd01129 58 DLEKLGL---KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELN 105 (264)
T ss_pred CHHHcCC---CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhC
Confidence 3455554 4556666655543 346899999999999753 44555543
No 199
>KOG0744|consensus
Probab=95.37 E-value=0.079 Score=39.89 Aligned_cols=66 Identities=14% Similarity=0.248 Sum_probs=41.0
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEE------------cCcHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVL------------APTRELATQIYDEAK 116 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil------------~Pt~~La~q~~~~~~ 116 (130)
|-+++++|+|+|||- .+=++.+++.-+... .+.+..++ .-+--|+.++++.+.
T Consensus 178 RliLlhGPPGTGKTS-LCKaLaQkLSIR~~~--------------~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ 242 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS-LCKALAQKLSIRTND--------------RYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQ 242 (423)
T ss_pred eEEEEeCCCCCChhH-HHHHHHHhheeeecC--------------ccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHH
Confidence 678999999999994 345666665543211 01222222 234457788888888
Q ss_pred HHHhcCCCceEEe
Q psy3307 117 KFAYRSQLRPCVV 129 (130)
Q Consensus 117 ~l~~~~~~~~~~~ 129 (130)
.+.+.-|.=++++
T Consensus 243 ELv~d~~~lVfvL 255 (423)
T KOG0744|consen 243 ELVEDRGNLVFVL 255 (423)
T ss_pred HHHhCCCcEEEEE
Confidence 8888766555544
No 200
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.35 E-value=0.12 Score=46.03 Aligned_cols=63 Identities=27% Similarity=0.316 Sum_probs=45.6
Q ss_pred CCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHH--HHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHH
Q psy3307 33 KPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAF--LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELA 108 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~--~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 108 (130)
.+++-|..++..++.+ +-+++.+..|+|||... ++.++..+.+.. +..++.++||..-+
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~-----------------g~~V~glAPTgkAa 897 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESE-----------------RPRVVGLGPTHRAV 897 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhcc-----------------CceEEEEechHHHH
Confidence 6899999999999854 78999999999999753 233333222211 14688899998877
Q ss_pred HHHH
Q psy3307 109 TQIY 112 (130)
Q Consensus 109 ~q~~ 112 (130)
..+.
T Consensus 898 ~~L~ 901 (1623)
T PRK14712 898 GEMR 901 (1623)
T ss_pred HHHH
Confidence 7654
No 201
>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=95.28 E-value=0.015 Score=36.45 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=15.4
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
+..+++.+|+|+|||...
T Consensus 2 ~~~~~l~G~~G~GKTtl~ 19 (148)
T smart00382 2 GEVILIVGPPGSGKTTLA 19 (148)
T ss_pred CCEEEEECCCCCcHHHHH
Confidence 567899999999999753
No 202
>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=95.25 E-value=0.043 Score=36.99 Aligned_cols=48 Identities=25% Similarity=0.388 Sum_probs=28.6
Q ss_pred EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
+++.||+|+|||...+ -++....... .++++++ +.+-..++.+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~-~~~~~~~~~g------------------~~v~~~s-~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFAL-QFLYAGLARG------------------EPGLYVT-LEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHH-HHHHHHHHCC------------------CcEEEEE-CCCCHHHHHHHHHHc
Confidence 6889999999997543 2222222222 3466665 445566666666555
No 203
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=95.24 E-value=0.047 Score=41.58 Aligned_cols=49 Identities=24% Similarity=0.258 Sum_probs=39.4
Q ss_pred CCCCCCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 29 ARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 29 ~~~~~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
.|+..-+-.|..|+..+++. .-+.+.++-|||||+..+.+.+.+....+
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~ 274 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERK 274 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHh
Confidence 46655677899999988866 45678899999999999888888877654
No 204
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=95.23 E-value=0.034 Score=40.07 Aligned_cols=31 Identities=23% Similarity=0.416 Sum_probs=22.6
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
+..+.++++.|+||||||... -.++..+...
T Consensus 124 v~~~~~ili~G~tGSGKTT~l-~all~~i~~~ 154 (270)
T PF00437_consen 124 VRGRGNILISGPTGSGKTTLL-NALLEEIPPE 154 (270)
T ss_dssp HHTTEEEEEEESTTSSHHHHH-HHHHHHCHTT
T ss_pred cccceEEEEECCCccccchHH-HHHhhhcccc
Confidence 346789999999999999753 5555555443
No 205
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.23 E-value=0.023 Score=41.02 Aligned_cols=26 Identities=31% Similarity=0.328 Sum_probs=20.8
Q ss_pred HHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 40 YAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 40 ~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+++..+..|+++++.+|+|+|||...
T Consensus 13 ~~l~~l~~g~~vLL~G~~GtGKT~lA 38 (262)
T TIGR02640 13 RALRYLKSGYPVHLRGPAGTGKTTLA 38 (262)
T ss_pred HHHHHHhcCCeEEEEcCCCCCHHHHH
Confidence 33445568899999999999999754
No 206
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=95.18 E-value=0.019 Score=44.14 Aligned_cols=56 Identities=23% Similarity=0.250 Sum_probs=36.6
Q ss_pred ccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
..|..+|+|++--+...+.+++. .+..+.-++..- +...+.+++.||+|+|||+..
T Consensus 138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G---l~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG---IDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC---CCCCceEEEECCCCCCHHHHH
Confidence 46778899988777777766552 233332222211 224688999999999999753
No 207
>PRK12377 putative replication protein; Provisional
Probab=95.14 E-value=0.17 Score=36.42 Aligned_cols=47 Identities=13% Similarity=0.339 Sum_probs=29.5
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~ 114 (130)
..++++.|++|+|||... .++...+.... ..++.++..++..++...
T Consensus 101 ~~~l~l~G~~GtGKThLa-~AIa~~l~~~g-------------------~~v~~i~~~~l~~~l~~~ 147 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLA-AAIGNRLLAKG-------------------RSVIVVTVPDVMSRLHES 147 (248)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHHHHcC-------------------CCeEEEEHHHHHHHHHHH
Confidence 368999999999999642 34444444322 233445666777766543
No 208
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.13 E-value=0.1 Score=44.52 Aligned_cols=58 Identities=22% Similarity=0.208 Sum_probs=43.0
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCC
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQ 123 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~ 123 (130)
+.-++-=-+|||||++-+..+-. +..... .|.+++|+-.++|-.|..+.+..+.....
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~-l~~~~~----------------~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~ 331 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARL-LLELPK----------------NPKVLFVVDRKDLDDQTSDEFQSFGKVAF 331 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHH-HHhccC----------------CCeEEEEechHHHHHHHHHHHHHHHHhhh
Confidence 45778888999999885443322 222221 27899999999999999999999887644
No 209
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.10 E-value=0.086 Score=38.57 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=15.2
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
++.+++.+|||+|||...
T Consensus 194 ~~vi~~vGptGvGKTTt~ 211 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTL 211 (282)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 457889999999999764
No 210
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=95.02 E-value=0.093 Score=39.31 Aligned_cols=32 Identities=19% Similarity=0.140 Sum_probs=25.1
Q ss_pred CcHHHHHHHhHHhcC----CcEEEEccCCchHHHHH
Q psy3307 34 PTPVQKYAIPVIISG----RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g----~~~l~~aptGsGKT~~~ 65 (130)
.+|+|...|..+... ...+++||.|+||+...
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A 39 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALA 39 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHH
Confidence 478888888887744 26789999999999653
No 211
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=95.00 E-value=0.017 Score=47.17 Aligned_cols=49 Identities=20% Similarity=0.180 Sum_probs=35.4
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
.++++.||||||||.++++|-+-.. . ..+||+=|--|+........++.
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~---~------------------gS~VV~DpKGE~~~~Ta~~R~~~ 188 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF---K------------------GSVIALDVKGELFELTSRARKAS 188 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC---C------------------CCEEEEeCCchHHHHHHHHHHhC
Confidence 4899999999999999999986542 1 12666667777776666555543
No 212
>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=94.94 E-value=0.051 Score=38.08 Aligned_cols=29 Identities=31% Similarity=0.387 Sum_probs=20.2
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.|..+++.+++|+|||.-.+--+...+..
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~ 46 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKN 46 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhh
Confidence 45789999999999997543333344333
No 213
>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=94.92 E-value=0.054 Score=38.46 Aligned_cols=53 Identities=21% Similarity=0.266 Sum_probs=33.7
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
.|..+++.+++|+|||...+--+...+. .. -++++++ +.+-..|+.+.+..++
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~-~g------------------e~~lyvs-~ee~~~~i~~~~~~~g 72 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ-MG------------------EPGIYVA-LEEHPVQVRRNMAQFG 72 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHH-cC------------------CcEEEEE-eeCCHHHHHHHHHHhC
Confidence 4679999999999999754333333332 22 3477766 4556666666666554
No 214
>PRK10436 hypothetical protein; Provisional
Probab=94.90 E-value=0.11 Score=40.69 Aligned_cols=39 Identities=26% Similarity=0.344 Sum_probs=25.3
Q ss_pred cHHHHHHHhHHh--cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 35 TPVQKYAIPVII--SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 35 t~~Q~~~i~~~~--~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.+.|.+.|..+. .+--+++.+|||||||... ..++..+.
T Consensus 203 ~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 203 TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 444555554444 3346889999999999864 45565553
No 215
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.84 E-value=0.042 Score=41.64 Aligned_cols=58 Identities=17% Similarity=0.209 Sum_probs=37.9
Q ss_pred ccccccCCCcCCCCCHHHHHHHHH---CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 5 LVSLKKQGFDDIQMTEIITNNIAL---ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 5 ~~~~~~~~f~~l~l~~~i~~~l~~---~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+...|..+|++.|=-++.++.+++ +..++|--++.-.| ---+.+++.+|+|+|||+..
T Consensus 142 v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI---~PPKGVLLYGPPGTGKTLLA 202 (406)
T COG1222 142 VEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGI---DPPKGVLLYGPPGTGKTLLA 202 (406)
T ss_pred eccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCC---CCCCceEeeCCCCCcHHHHH
Confidence 345678899999855555555544 45555444433322 12378999999999999853
No 216
>KOG0745|consensus
Probab=94.82 E-value=0.065 Score=41.74 Aligned_cols=58 Identities=21% Similarity=0.306 Sum_probs=35.4
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH----HHHHHHHHHHHHhcC
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL----ATQIYDEAKKFAYRS 122 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L----a~q~~~~~~~l~~~~ 122 (130)
+..|+++.+|||||||+ +.-.|.++..- |.+|-=|.|-.. .+++...+.+|....
T Consensus 225 eKSNvLllGPtGsGKTl--laqTLAr~ldV-------------------PfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A 283 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTL--LAQTLARVLDV-------------------PFAICDCTTLTQAGYVGEDVESVIQKLLQEA 283 (564)
T ss_pred ecccEEEECCCCCchhH--HHHHHHHHhCC-------------------CeEEecccchhhcccccccHHHHHHHHHHHc
Confidence 44589999999999997 44555555432 333333333222 356677777777665
Q ss_pred CCc
Q psy3307 123 QLR 125 (130)
Q Consensus 123 ~~~ 125 (130)
+.+
T Consensus 284 ~~n 286 (564)
T KOG0745|consen 284 EYN 286 (564)
T ss_pred cCC
Confidence 544
No 217
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=94.79 E-value=0.08 Score=42.48 Aligned_cols=45 Identities=31% Similarity=0.333 Sum_probs=29.4
Q ss_pred HHHCCCCCCcHHHHHHHhHHhc--CCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 26 IALARYDKPTPVQKYAIPVIIS--GRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 26 l~~~~~~~~t~~Q~~~i~~~~~--g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
+.++|+ .+-|.+.|..+.. .--+++++|||||||.+. ..++..+.
T Consensus 295 l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 295 IDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 455554 4556666655543 346789999999999764 45666553
No 218
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=94.72 E-value=0.068 Score=40.84 Aligned_cols=52 Identities=29% Similarity=0.519 Sum_probs=32.6
Q ss_pred hHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 43 PVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 43 ~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
|.-...+++++.|.||||||. ++-.++..+.... -+++|.=|.-+.....++
T Consensus 10 ~~~~e~~~~li~G~~GsGKT~-~i~~ll~~~~~~g------------------~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 10 PKDSENRHILIIGATGSGKTQ-AIRHLLDQIRARG------------------DRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp -GGGGGG-EEEEE-TTSSHHH-HHHHHHHHHHHTT-------------------EEEEEEETTHHHHHH--
T ss_pred ccchhhCcEEEECCCCCCHHH-HHHHHHHHHHHcC------------------CEEEEEECCchHHHHhcC
Confidence 334566899999999999997 4567777776553 356666677666554443
No 219
>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=94.70 E-value=0.06 Score=42.43 Aligned_cols=45 Identities=20% Similarity=0.296 Sum_probs=28.3
Q ss_pred HHHCCCCCCcHHHHHHHhHHhcC-C-cEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 26 IALARYDKPTPVQKYAIPVIISG-R-DVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 26 l~~~~~~~~t~~Q~~~i~~~~~g-~-~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
+.++|+ .+-|.+.+..+... . -+++.+|||||||... ..++..+.
T Consensus 221 l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 221 LETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred HHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 445554 45566666655543 3 4689999999999753 33455543
No 220
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=94.69 E-value=0.2 Score=45.76 Aligned_cols=64 Identities=33% Similarity=0.280 Sum_probs=44.8
Q ss_pred CCCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHH--HHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHH
Q psy3307 32 DKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFL--VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL 107 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~--l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 107 (130)
..+++.|..++..++.+ +-+++.+..|+|||...- +-.+....+.. +.+++.++||..-
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~-----------------g~~v~glApT~~A 1080 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESE-----------------QLQVIGLAPTHEA 1080 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhc-----------------CCeEEEEeChHHH
Confidence 36899999999998865 567889999999997541 12222222211 1568889999888
Q ss_pred HHHHH
Q psy3307 108 ATQIY 112 (130)
Q Consensus 108 a~q~~ 112 (130)
+.++.
T Consensus 1081 a~~L~ 1085 (1960)
T TIGR02760 1081 VGELK 1085 (1960)
T ss_pred HHHHH
Confidence 87764
No 221
>PRK09183 transposase/IS protein; Provisional
Probab=94.67 E-value=0.13 Score=37.20 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=17.9
Q ss_pred HhcCCcEEEEccCCchHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~ 65 (130)
+..|.++++.||+|+|||...
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa 119 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLA 119 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHH
Confidence 457889999999999999643
No 222
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.63 E-value=0.069 Score=38.36 Aligned_cols=55 Identities=25% Similarity=0.370 Sum_probs=34.4
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhc
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYR 121 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~ 121 (130)
.|+.+++.+++|||||...+ -.+....... -++++ +.+.+...++.+.+..++..
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~-qfl~~~~~~g------------------e~vly-vs~~e~~~~l~~~~~~~g~d 76 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFAL-QFLYEGAREG------------------EPVLY-VSTEESPEELLENARSFGWD 76 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHH-HHHHHHHhcC------------------CcEEE-EEecCCHHHHHHHHHHcCCC
Confidence 46899999999999997542 2222222221 23454 45667777777777665444
No 223
>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=94.57 E-value=0.078 Score=39.25 Aligned_cols=20 Identities=40% Similarity=0.594 Sum_probs=17.5
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+..|.++++.++||||||..
T Consensus 141 v~~~~~ili~G~tGsGKTTl 160 (308)
T TIGR02788 141 IASRKNIIISGGTGSGKTTF 160 (308)
T ss_pred hhCCCEEEEECCCCCCHHHH
Confidence 45789999999999999974
No 224
>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=94.50 E-value=0.064 Score=33.82 Aligned_cols=17 Identities=24% Similarity=0.518 Sum_probs=15.3
Q ss_pred CCcEEEEccCCchHHHH
Q psy3307 48 GRDVMACAQTGSGKTAA 64 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~ 64 (130)
++.+++.||+|+|||..
T Consensus 19 ~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 19 PKNLLLYGPPGTGKTTL 35 (151)
T ss_pred CCeEEEECCCCCCHHHH
Confidence 68999999999999963
No 225
>KOG0953|consensus
Probab=94.50 E-value=0.076 Score=42.42 Aligned_cols=51 Identities=27% Similarity=0.393 Sum_probs=40.1
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcC
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS 122 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~ 122 (130)
+=++-++||-||||.-. |+++.+.+ .+++--|.|-||.++++.+++.+-..
T Consensus 192 kIi~H~GPTNSGKTy~A----Lqrl~~ak-------------------sGvycGPLrLLA~EV~~r~na~gipC 242 (700)
T KOG0953|consen 192 KIIMHVGPTNSGKTYRA----LQRLKSAK-------------------SGVYCGPLRLLAHEVYDRLNALGIPC 242 (700)
T ss_pred eEEEEeCCCCCchhHHH----HHHHhhhc-------------------cceecchHHHHHHHHHHHhhhcCCCc
Confidence 34566789999999755 77776654 37888899999999999998875443
No 226
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=94.48 E-value=0.23 Score=37.87 Aligned_cols=59 Identities=12% Similarity=0.186 Sum_probs=44.8
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHH-HHHHHHHHHHHHHhcCCC
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRE-LATQIYDEAKKFAYRSQL 124 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~-La~q~~~~~~~l~~~~~~ 124 (130)
-.++.+..|||||.+..+-++..+..... +.+++++-++.. +-.-+...++.....+++
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~----------------~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~ 62 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKK----------------QQNILAARKVQNSIRDSVFKDIENLLSIEGI 62 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCC----------------CcEEEEEehhhhHHHHHHHHHHHHHHHHcCC
Confidence 35788999999999988888877776411 156888888855 777778888877776665
No 227
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=94.47 E-value=0.2 Score=43.43 Aligned_cols=55 Identities=20% Similarity=0.209 Sum_probs=40.2
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
.+++++.|+.|||||....--++..+..... .-++++|+-|+.-|.++...+...
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~----------------~~~i~~~t~t~~aa~em~~Ri~~~ 64 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVP----------------PSKILCLTYTKAAAAEMQNRVFDR 64 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCCC----------------CCeEEEEecCHHHHHHHHHHHHHH
Confidence 4689999999999998766555555543211 136999999999999987666543
No 228
>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=94.46 E-value=0.056 Score=41.61 Aligned_cols=32 Identities=25% Similarity=0.360 Sum_probs=22.8
Q ss_pred hHHhcCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 43 PVIISGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 43 ~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.-...+++++.|+||||||.. +..++..+..
T Consensus 37 ~~~~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~ 68 (410)
T cd01127 37 PKDAEEAHTMIIGTTGTGKTTQ-IRELLASIRA 68 (410)
T ss_pred CcchhhccEEEEcCCCCCHHHH-HHHHHHHHHh
Confidence 4444568999999999999975 4445555444
No 229
>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=94.44 E-value=0.16 Score=38.21 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=28.6
Q ss_pred HHHHHHCCCCCCcHHHHHHHhHH-hcCCcEEEEccCCchHHHH
Q psy3307 23 TNNIALARYDKPTPVQKYAIPVI-ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 23 ~~~l~~~~~~~~t~~Q~~~i~~~-~~g~~~l~~aptGsGKT~~ 64 (130)
++.+.+.|+ +++.+...+..+ ..+.++++.++||||||..
T Consensus 154 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTl 194 (340)
T TIGR03819 154 LDELVASGT--FPPGVARLLRAIVAARLAFLISGGTGSGKTTL 194 (340)
T ss_pred HHHHHHcCC--CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHH
Confidence 455556665 456666666554 4667999999999999864
No 230
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=94.41 E-value=0.12 Score=44.75 Aligned_cols=57 Identities=28% Similarity=0.398 Sum_probs=43.4
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAK 116 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~ 116 (130)
-.+.++++.|..|||||.+..-=++..+...... .-.++|+++-|+.-+..+...+.
T Consensus 14 ~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~--------------~v~~ILvvTFT~aAa~Emk~RI~ 70 (1139)
T COG1074 14 PPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPL--------------DVDEILVVTFTKAAAAEMKERIR 70 (1139)
T ss_pred CCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCC--------------ChhHeeeeeccHHHHHHHHHHHH
Confidence 3567999999999999998777777777664300 01569999999988888877764
No 231
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.38 E-value=0.2 Score=38.46 Aligned_cols=18 Identities=33% Similarity=0.464 Sum_probs=15.4
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
++.+++.+|||+|||.+.
T Consensus 174 ~~vi~lvGptGvGKTTT~ 191 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTI 191 (388)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 357899999999999865
No 232
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=94.38 E-value=0.078 Score=29.96 Aligned_cols=26 Identities=23% Similarity=0.457 Sum_probs=18.9
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.|...++.+++|||||. ++-.++.+.
T Consensus 22 ~g~~tli~G~nGsGKST--llDAi~~~L 47 (62)
T PF13555_consen 22 RGDVTLITGPNGSGKST--LLDAIQTVL 47 (62)
T ss_pred CCcEEEEECCCCCCHHH--HHHHHHHHH
Confidence 35579999999999997 344444444
No 233
>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=94.32 E-value=0.11 Score=36.50 Aligned_cols=19 Identities=32% Similarity=0.349 Sum_probs=16.2
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|..+++.+++|+|||...
T Consensus 19 ~G~~~~i~G~~G~GKT~l~ 37 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFC 37 (229)
T ss_pred CCeEEEEECCCCCChHHHH
Confidence 4689999999999998754
No 234
>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=94.32 E-value=0.064 Score=38.58 Aligned_cols=46 Identities=26% Similarity=0.249 Sum_probs=26.7
Q ss_pred HHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 20 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 20 ~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+++.++|...++....+.--..+--+..|.-+++.|++|+|||...
T Consensus 2 ~~~~~~~~~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~ 47 (271)
T cd01122 2 EEIREALSNEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFL 47 (271)
T ss_pred chhhccccccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHH
Confidence 3455666544443222211111233456788999999999999644
No 235
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=94.30 E-value=0.029 Score=43.62 Aligned_cols=56 Identities=21% Similarity=0.210 Sum_probs=31.5
Q ss_pred ccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
..|..+|.|++=-+..++.+++. .+..+.-+... -+...+.+++.+|+|+|||+..
T Consensus 176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~---gi~~p~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDI---GIKPPKGVILYGPPGTGKTLLA 234 (438)
T ss_pred cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhc---CCCCCcEEEEECCCCCCHHHHH
Confidence 44567788876545555554432 11111111110 1234578999999999999753
No 236
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.28 E-value=0.37 Score=34.63 Aligned_cols=26 Identities=19% Similarity=0.321 Sum_probs=18.5
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
..+++.+++|+|||... ..+...+..
T Consensus 100 ~~~~l~G~~GtGKThLa-~aia~~l~~ 125 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLA-AAICNELLL 125 (244)
T ss_pred ceEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 47999999999999643 344444443
No 237
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.24 E-value=0.33 Score=37.42 Aligned_cols=18 Identities=33% Similarity=0.479 Sum_probs=16.3
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
++-+.+.||||.|||.+.
T Consensus 203 ~~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 203 KRVIALVGPTGVGKTTTL 220 (407)
T ss_pred CcEEEEECCCCCcHHHHH
Confidence 788999999999999864
No 238
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=94.22 E-value=0.034 Score=40.52 Aligned_cols=20 Identities=35% Similarity=0.660 Sum_probs=17.6
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+.+++.++++||+|+|||..
T Consensus 30 ~~~~~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSL 49 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHH
T ss_pred HHcCCcEEEECCCCCchhHH
Confidence 34889999999999999974
No 239
>PHA02535 P terminase ATPase subunit; Provisional
Probab=94.21 E-value=0.42 Score=38.53 Aligned_cols=90 Identities=17% Similarity=0.084 Sum_probs=65.8
Q ss_pred CCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCc
Q psy3307 17 QMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFP 96 (130)
Q Consensus 17 ~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (130)
.+++...+.|.+.-...+.++|...+..-.+.+.-++.-.--+|||++|..-.+......+ -
T Consensus 122 ~~s~~~~~~l~~~~~~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~~G------------------~ 183 (581)
T PHA02535 122 DISDEQTEKLIEAFLDSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALLTG------------------R 183 (581)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHhcC------------------C
Confidence 3777777787776667889999987644223455555666789999999887777666533 2
Q ss_pred eEEEEcCcHHHHHHHHHHHHHHHhc-CCC
Q psy3307 97 LGLVLAPTRELATQIYDEAKKFAYR-SQL 124 (130)
Q Consensus 97 ~~lil~Pt~~La~q~~~~~~~l~~~-~~~ 124 (130)
..++++++++.+.+....+..+++. .++
T Consensus 184 nqiflSas~~QA~~f~~yi~~~a~~~~~v 212 (581)
T PHA02535 184 NQIFLSASKAQAHVFKQYIIAFAREAADV 212 (581)
T ss_pred ceEEECCCHHHHHHHHHHHHHHHHhhcCc
Confidence 3788999999999988888888664 443
No 240
>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=94.21 E-value=0.054 Score=37.56 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=13.1
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+++.+|||+|||.+.
T Consensus 4 i~lvGptGvGKTTt~ 18 (196)
T PF00448_consen 4 IALVGPTGVGKTTTI 18 (196)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCchHhHH
Confidence 678999999999864
No 241
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=94.19 E-value=0.31 Score=43.98 Aligned_cols=66 Identities=21% Similarity=0.235 Sum_probs=45.4
Q ss_pred CCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQ 110 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q 110 (130)
.+++-|..++..++.+ +-+++.+..|+|||... -.++..+..... ..+.+++.++||..-+..
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l-~~v~~~~~~l~~--------------~~~~~V~glAPTgrAAk~ 1031 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQF-RAVMSAVNTLPE--------------SERPRVVGLGPTHRAVGE 1031 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHH-HHHHHHHHHhhc--------------ccCceEEEECCcHHHHHH
Confidence 6899999999999875 68899999999999752 233333221100 011468888999877776
Q ss_pred HHH
Q psy3307 111 IYD 113 (130)
Q Consensus 111 ~~~ 113 (130)
+.+
T Consensus 1032 L~e 1034 (1747)
T PRK13709 1032 MRS 1034 (1747)
T ss_pred HHh
Confidence 543
No 242
>KOG0925|consensus
Probab=94.12 E-value=0.11 Score=41.08 Aligned_cols=54 Identities=15% Similarity=0.171 Sum_probs=41.1
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHH
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.+.+.++.-.+.+++..--.....+.+.+..+.+..-+++.+.||||||.
T Consensus 24 ~Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKtt 77 (699)
T KOG0925|consen 24 INPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTT 77 (699)
T ss_pred cCCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccc
Confidence 567899999999998887764323344555555666678899999999999994
No 243
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=94.12 E-value=0.038 Score=44.99 Aligned_cols=50 Identities=24% Similarity=0.315 Sum_probs=37.0
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
..++++.||||+|||..+++|.+-. .. .-++++=|..|+........++.
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL~---~~------------------gS~VV~DpKgEl~~~Ta~~R~~~ 273 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTALK---WG------------------GPLVVLDPSTEVAPMVSEHRRDA 273 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhhc---CC------------------CCEEEEeCcHHHHHHHHHHHHHC
Confidence 3688999999999999999997642 11 12667778888887766655444
No 244
>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=94.11 E-value=0.35 Score=33.64 Aligned_cols=19 Identities=26% Similarity=0.420 Sum_probs=16.1
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.+..+++.||+|+|||...
T Consensus 37 ~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 4578999999999999653
No 245
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=94.09 E-value=0.039 Score=45.09 Aligned_cols=49 Identities=24% Similarity=0.201 Sum_probs=35.8
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l 118 (130)
.++++.||||||||..+++|-|-.. . ..+||.=|--|+........++.
T Consensus 145 ~hvLviApTrSGKgvg~VIPnLL~~---~------------------~S~VV~D~KGEl~~~Ta~~R~~~ 193 (663)
T PRK13876 145 EHVLCFAPTRSGKGVGLVVPTLLTW---P------------------GSAIVHDIKGENWQLTAGFRARF 193 (663)
T ss_pred ceEEEEecCCCCcceeEehhhHHhC---C------------------CCEEEEeCcchHHHHHHHHHHhC
Confidence 6899999999999999999987643 1 12666667777766665554443
No 246
>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=94.09 E-value=0.16 Score=36.65 Aligned_cols=19 Identities=11% Similarity=0.094 Sum_probs=16.2
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.-+++.+++|+|||...
T Consensus 35 ~gs~~lI~G~pGtGKT~l~ 53 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMV 53 (259)
T ss_pred CCcEEEEEcCCCCCHHHHH
Confidence 4678899999999999754
No 247
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=94.05 E-value=0.1 Score=37.46 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=17.3
Q ss_pred cEEEEccCCchHHHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.+++.|++|||||. +++.++..+
T Consensus 15 r~viIG~sGSGKT~-li~~lL~~~ 37 (241)
T PF04665_consen 15 RMVIIGKSGSGKTT-LIKSLLYYL 37 (241)
T ss_pred eEEEECCCCCCHHH-HHHHHHHhh
Confidence 78899999999996 445555443
No 248
>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=94.04 E-value=0.2 Score=40.88 Aligned_cols=54 Identities=26% Similarity=0.367 Sum_probs=36.2
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH--HHHHHHHHHHHHHHhc
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR--ELATQIYDEAKKFAYR 121 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~--~La~q~~~~~~~l~~~ 121 (130)
.++++.|+||+|||..+.+-+.+.+. .. ..++++=|-. ++...+...+++.+..
T Consensus 177 ~H~lv~G~TGsGKT~l~~~l~~q~i~-~g------------------~~viv~DpKgD~~l~~~~~~~~~~~G~~ 232 (634)
T TIGR03743 177 GHTLVLGTTGVGKTRLAELLITQDIR-RG------------------DVVIVIDPKGDADLKRRMRAEAKRAGRP 232 (634)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHH-cC------------------CeEEEEeCCCchHHHHHHHHHHHHhCCC
Confidence 68899999999999876444433333 22 2355555664 4778888888777654
No 249
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.98 E-value=0.48 Score=37.97 Aligned_cols=19 Identities=32% Similarity=0.504 Sum_probs=16.5
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|..+.+.+|+|+|||...
T Consensus 349 ~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred CCCEEEEECCCCCCHHHHH
Confidence 5678899999999999764
No 250
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=93.96 E-value=0.042 Score=34.80 Aligned_cols=19 Identities=37% Similarity=0.469 Sum_probs=12.5
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
+++.+++.|++|+|||...
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 4567899999999999753
No 251
>KOG1805|consensus
Probab=93.96 E-value=0.33 Score=41.23 Aligned_cols=79 Identities=18% Similarity=0.197 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCc-EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCC
Q psy3307 17 QMTEIITNNIALARYDKPTPVQKYAIPVIISGRD-VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95 (130)
Q Consensus 17 ~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~-~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (130)
.+.+.+.+. -...++.-|++|+-.++..+| .++.|=+|||||..... ++..+...+
T Consensus 657 ~~~p~~~~~----~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~-LIkiL~~~g------------------ 713 (1100)
T KOG1805|consen 657 VLIPKIKKI----ILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISL-LIKILVALG------------------ 713 (1100)
T ss_pred ccCchhhHH----HHhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHH-HHHHHHHcC------------------
Confidence 345555553 224678999999998887764 57889999999986433 233333322
Q ss_pred ceEEEEcCcHHHHHHHHHHHHHH
Q psy3307 96 PLGLVLAPTRELATQIYDEAKKF 118 (130)
Q Consensus 96 ~~~lil~Pt~~La~q~~~~~~~l 118 (130)
.++|+.+-|..-+.-+.-.++.+
T Consensus 714 kkVLLtsyThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 714 KKVLLTSYTHSAVDNILIKLKGF 736 (1100)
T ss_pred CeEEEEehhhHHHHHHHHHHhcc
Confidence 35888888888777776666554
No 252
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=93.85 E-value=0.41 Score=40.29 Aligned_cols=31 Identities=32% Similarity=0.440 Sum_probs=24.3
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+....+.+..+.+..-+++.|+||||||...
T Consensus 52 ~~~~~~i~~ai~~~~vvii~getGsGKTTql 82 (845)
T COG1643 52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQL 82 (845)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCChHHHH
Confidence 4445556667778889999999999999854
No 253
>KOG0390|consensus
Probab=93.83 E-value=0.51 Score=39.26 Aligned_cols=76 Identities=21% Similarity=0.316 Sum_probs=50.8
Q ss_pred CCcHHHHHHHhHHh---cC-------CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc
Q psy3307 33 KPTPVQKYAIPVII---SG-------RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA 102 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~---~g-------~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~ 102 (130)
.++|.|.+.+.-+. .| ...++.-..|+|||+- +++.+.-+........+ .-.+.||++
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq-~IsflwtlLrq~P~~~~-----------~~~k~lVV~ 305 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQ-CISFIWTLLRQFPQAKP-----------LINKPLVVA 305 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHH-HHHHHHHHHHhCcCccc-----------cccccEEEc
Confidence 68999999997654 22 2456666789999985 35666665554322111 114589999
Q ss_pred CcHHHHHHHHHHHHHHHhc
Q psy3307 103 PTRELATQIYDEAKKFAYR 121 (130)
Q Consensus 103 Pt~~La~q~~~~~~~l~~~ 121 (130)
|. .|+.-+.++|.+..-.
T Consensus 306 P~-sLv~nWkkEF~KWl~~ 323 (776)
T KOG0390|consen 306 PS-SLVNNWKKEFGKWLGN 323 (776)
T ss_pred cH-HHHHHHHHHHHHhccc
Confidence 97 7888888888776553
No 254
>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=93.83 E-value=0.074 Score=37.28 Aligned_cols=21 Identities=24% Similarity=0.403 Sum_probs=14.8
Q ss_pred HhcCCcEEEEccCCchHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~ 65 (130)
+..+.++++.+|+|+|||...
T Consensus 19 AaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 19 AAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp HHCC--EEEES-CCCTHHHHH
T ss_pred HcCCCCeEEECCCCCCHHHHH
Confidence 346789999999999999753
No 255
>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=93.79 E-value=0.05 Score=34.29 Aligned_cols=14 Identities=29% Similarity=0.563 Sum_probs=12.4
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+++.||+|+|||..
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 58899999999974
No 256
>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=93.70 E-value=0.058 Score=43.79 Aligned_cols=50 Identities=22% Similarity=0.323 Sum_probs=37.2
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
.++++.||||||||.++++|.+-. .. --++++=|..|+.......-++.+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL~---~~------------------gS~VV~DpKgE~~~~Ta~~R~~~G 261 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTALK---YG------------------GPLVCLDPSTEVAPMVCEHRRQAG 261 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhhc---CC------------------CCEEEEEChHHHHHHHHHHHHHcC
Confidence 689999999999999999997542 11 127777788888777766555554
No 257
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=93.70 E-value=0.15 Score=38.33 Aligned_cols=26 Identities=19% Similarity=0.447 Sum_probs=19.0
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.+..+++++|||||||... -.++..+
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i 146 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYI 146 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhh
Confidence 4568999999999999753 3444444
No 258
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.67 E-value=0.34 Score=37.59 Aligned_cols=19 Identities=37% Similarity=0.473 Sum_probs=15.9
Q ss_pred CCcEEEEccCCchHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~ 66 (130)
|+.+++.+|||+|||....
T Consensus 221 ~~~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLA 239 (424)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 5678999999999997643
No 259
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.65 E-value=0.04 Score=42.16 Aligned_cols=55 Identities=22% Similarity=0.247 Sum_probs=30.4
Q ss_pred ccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
..|..+|++++--+...+.+.+. .+..+..++.. -+..-+.+++.||+|+|||+.
T Consensus 124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~---g~~~p~gvLL~GppGtGKT~l 181 (389)
T PRK03992 124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEV---GIEPPKGVLLYGPPGTGKTLL 181 (389)
T ss_pred CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCCceEEECCCCCChHHH
Confidence 34556677776555555555432 12221111111 011236899999999999975
No 260
>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=93.65 E-value=0.29 Score=34.46 Aligned_cols=28 Identities=25% Similarity=0.297 Sum_probs=19.7
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
..|.-+++.|++|+|||... +-++....
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~-~~~~~~~~ 38 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFA-LNIAENIA 38 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHH-HHHHHHHH
Confidence 45678899999999999643 44443333
No 261
>KOG0989|consensus
Probab=93.64 E-value=1.2 Score=33.31 Aligned_cols=79 Identities=9% Similarity=-0.083 Sum_probs=43.8
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCC----CCCCC---------------------CCCCCCCCCceEEEEc
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT----PPAGR---------------------GYPSRKKVFPLGLVLA 102 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~----~~~~~---------------------~~~~~~~~~~~~lil~ 102 (130)
+-+.+..+|+|+|||-+.++..-+..-....... +.... ..-......++++|+=
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlD 136 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILD 136 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhcCHHHHhhccccccCCCCCcceEEEEe
Confidence 3588999999999998765443332211100000 00000 0001122234788887
Q ss_pred CcHHHHHHHHHHHHHHHhcCCCce
Q psy3307 103 PTRELATQIYDEAKKFAYRSQLRP 126 (130)
Q Consensus 103 Pt~~La~q~~~~~~~l~~~~~~~~ 126 (130)
-.-.+.......+.+..+...-.+
T Consensus 137 Ecdsmtsdaq~aLrr~mE~~s~~t 160 (346)
T KOG0989|consen 137 ECDSMTSDAQAALRRTMEDFSRTT 160 (346)
T ss_pred chhhhhHHHHHHHHHHHhccccce
Confidence 777788888888888777644433
No 262
>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=93.52 E-value=0.054 Score=37.45 Aligned_cols=23 Identities=26% Similarity=0.569 Sum_probs=16.6
Q ss_pred EEEEccCCchHHHHHHHHHHHHHH
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
+++.+|||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 688999999999763 34454444
No 263
>PRK04328 hypothetical protein; Provisional
Probab=93.45 E-value=0.16 Score=36.37 Aligned_cols=53 Identities=21% Similarity=0.278 Sum_probs=31.8
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
.|..+++.+++|+|||...+--+...+.. . -++++++ +.+-..++.+.++.++
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~-g------------------e~~lyis-~ee~~~~i~~~~~~~g 74 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM-G------------------EPGVYVA-LEEHPVQVRRNMRQFG 74 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhc-C------------------CcEEEEE-eeCCHHHHHHHHHHcC
Confidence 46789999999999986443223332222 1 2366665 5455556666655554
No 264
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=93.43 E-value=0.46 Score=38.67 Aligned_cols=71 Identities=23% Similarity=0.151 Sum_probs=50.7
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.+++-|.+++... ...+++.|..|||||-+..-=+...+....-. ..+++.++=|+..|.++.
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~---------------p~~Il~vTFTnkAA~em~ 64 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVD---------------PEQILAITFTNKAAAEMR 64 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcC---------------hHHeeeeechHHHHHHHH
Confidence 4788999888555 56778888999999987544444433332211 135888889999999998
Q ss_pred HHHHHHHh
Q psy3307 113 DEAKKFAY 120 (130)
Q Consensus 113 ~~~~~l~~ 120 (130)
..+.++..
T Consensus 65 ~Rl~~~~~ 72 (655)
T COG0210 65 ERLLKLLG 72 (655)
T ss_pred HHHHHHhC
Confidence 88887765
No 265
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=93.37 E-value=0.45 Score=32.20 Aligned_cols=64 Identities=16% Similarity=0.136 Sum_probs=32.7
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHh
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAY 120 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~ 120 (130)
.|.-.++.|++|+|||... +.+...+........ .......+++++..--. ..++.+.+.++..
T Consensus 31 ~g~l~~i~g~~g~GKT~~~-~~l~~~~~~g~~~~g--------~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~~ 94 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLA-LQLAAALATGRPFLG--------ELPPRPGRVLYISLEDS-ESQIARRLRALLQ 94 (193)
T ss_dssp TTSEEEEEECSTSSHHHHH-HHHHHHHHT---TT-----------------EEEEESSS--HHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHH-HHHHHHHHhCCccCC--------cccccCceEEEEeccCC-HHHHHHHHHHHhc
Confidence 5677899999999999754 444444443211100 00001246777764433 5566666665544
No 266
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=93.36 E-value=0.13 Score=40.31 Aligned_cols=32 Identities=16% Similarity=0.256 Sum_probs=24.8
Q ss_pred CcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+-......+..+..++++++.+|+|+|||...
T Consensus 180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 180 PETTIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 33444555667778999999999999999754
No 267
>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=93.34 E-value=0.063 Score=34.53 Aligned_cols=14 Identities=36% Similarity=0.852 Sum_probs=12.4
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
++++|++|||||..
T Consensus 2 ii~~G~pgsGKSt~ 15 (143)
T PF13671_consen 2 IILCGPPGSGKSTL 15 (143)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999975
No 268
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=93.30 E-value=0.41 Score=39.11 Aligned_cols=55 Identities=22% Similarity=0.290 Sum_probs=39.7
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc--HHHHHHHHHHHHHHHhcC
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT--RELATQIYDEAKKFAYRS 122 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt--~~La~q~~~~~~~l~~~~ 122 (130)
.+.++.++||+|||..+.+-+.+.+... ..++++=|- .++...+...+++.++.-
T Consensus 181 gHtlV~GtTGsGKT~l~~~li~q~i~~g-------------------~~vi~fDpkgD~el~~~~~~~~~~~GR~~ 237 (643)
T TIGR03754 181 GHTLVLGTTRVGKTRLAELLITQDIRRG-------------------DVVIVFDPKGDADLLKRMYAEAKRAGRLD 237 (643)
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHHcC-------------------CeEEEEeCCCCHHHHHHHHHHHHHhCCCC
Confidence 5789999999999988766555555322 345666565 478888888888887753
No 269
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.28 E-value=0.23 Score=35.25 Aligned_cols=21 Identities=19% Similarity=0.267 Sum_probs=17.4
Q ss_pred HhcCCcEEEEccCCchHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~ 65 (130)
+..|.-+++.+++|+|||...
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~ 41 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILS 41 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHH
Confidence 345789999999999999753
No 270
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.19 E-value=0.056 Score=40.84 Aligned_cols=56 Identities=21% Similarity=0.252 Sum_probs=30.6
Q ss_pred ccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
..|...|++++--+...+.+.+. .+..+.-... + -+...+.+++.||+|+|||...
T Consensus 115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~--~-g~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEE--V-GIEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHh--c-CCCCCceEEEECCCCCCHHHHH
Confidence 34555667776655555555442 1212111111 1 1123467999999999999653
No 271
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=93.17 E-value=0.062 Score=38.21 Aligned_cols=30 Identities=30% Similarity=0.453 Sum_probs=23.8
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
+..|.-+.+.+|+|||||. ++.++..+.+.
T Consensus 28 i~~Ge~vaI~GpSGSGKST--LLniig~ld~p 57 (226)
T COG1136 28 IEAGEFVAIVGPSGSGKST--LLNLLGGLDKP 57 (226)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHhcccCC
Confidence 4578899999999999997 66777666543
No 272
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=93.16 E-value=0.48 Score=35.48 Aligned_cols=31 Identities=26% Similarity=0.191 Sum_probs=23.6
Q ss_pred cHHHHHHHhHHh--cCC---cEEEEccCCchHHHHH
Q psy3307 35 TPVQKYAIPVII--SGR---DVMACAQTGSGKTAAF 65 (130)
Q Consensus 35 t~~Q~~~i~~~~--~g~---~~l~~aptGsGKT~~~ 65 (130)
+|+|...|..+. .|+ ..++.||.|.|||...
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la 38 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFA 38 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHH
Confidence 577777777766 333 6889999999999754
No 273
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=93.13 E-value=0.63 Score=42.70 Aligned_cols=63 Identities=14% Similarity=0.162 Sum_probs=46.6
Q ss_pred CCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQ 110 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q 110 (130)
.+++-|.+++..++.. +-.++.++.|+|||.. +-.+..+.+.. +.+++.++||..-+.+
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~--l~~l~~~~~~~-----------------G~~V~~lAPTgrAA~~ 489 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEI--AQLLLHLASEQ-----------------GYEIQIITAGSLSAQE 489 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHH--HHHHHHHHHhc-----------------CCeEEEEeCCHHHHHH
Confidence 5789999999988865 6789999999999964 33333333322 1569999999887777
Q ss_pred HHHH
Q psy3307 111 IYDE 114 (130)
Q Consensus 111 ~~~~ 114 (130)
+.+.
T Consensus 490 L~e~ 493 (1960)
T TIGR02760 490 LRQK 493 (1960)
T ss_pred HHHH
Confidence 6654
No 274
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.11 E-value=0.24 Score=39.01 Aligned_cols=54 Identities=22% Similarity=0.348 Sum_probs=32.7
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~ 119 (130)
.|+.+++.+++|+|||...+--+.+.+.... -++++++- .|-..++.+.+..++
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~g------------------e~~lyvs~-eE~~~~l~~~~~~~G 73 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFD------------------EPGVFVTF-EESPQDIIKNARSFG 73 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCC------------------CCEEEEEE-ecCHHHHHHHHHHcC
Confidence 4689999999999999765433333333311 23666663 355555555555544
No 275
>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=93.10 E-value=0.068 Score=34.42 Aligned_cols=15 Identities=33% Similarity=0.545 Sum_probs=13.3
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
++++.+|+|+|||..
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 579999999999974
No 276
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=93.08 E-value=0.21 Score=34.97 Aligned_cols=18 Identities=28% Similarity=0.505 Sum_probs=15.2
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.|.-+++.+++|+|||..
T Consensus 15 ~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred CCeEEEEECCCCCCHHHH
Confidence 357889999999999864
No 277
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=93.02 E-value=0.059 Score=43.85 Aligned_cols=46 Identities=26% Similarity=0.263 Sum_probs=33.9
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEA 115 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~ 115 (130)
.++++.||||||||..+++|.|-.. . ..+||+=|-.|+........
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~~---~------------------~S~VV~D~KGE~~~~Tag~R 221 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLSW---G------------------HSSVITDLKGELWALTAGWR 221 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhhC---C------------------CCEEEEeCcHHHHHHHHHHH
Confidence 5799999999999999999987531 1 23677778888765554443
No 278
>KOG0733|consensus
Probab=93.01 E-value=0.14 Score=41.63 Aligned_cols=58 Identities=17% Similarity=0.215 Sum_probs=36.3
Q ss_pred cccccccCCCcCCCCCHHHHHHHHHC--CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 4 CLVSLKKQGFDDIQMTEIITNNIALA--RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 4 ~~~~~~~~~f~~l~l~~~i~~~l~~~--~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
...+..-.+|+++|=-+..+..|-++ .+..|-.++...+ .--+.+++++|+|.|||..
T Consensus 180 ~~~~~snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv---~PprGvLlHGPPGCGKT~l 239 (802)
T KOG0733|consen 180 LEFPESNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGV---RPPRGVLLHGPPGCGKTSL 239 (802)
T ss_pred cCCCCCCcchhhccChHHHHHHHHHHHHHhcCchhHhhcCC---CCCCceeeeCCCCccHHHH
Confidence 34455566899998555555554332 2445554444321 2237899999999999964
No 279
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.00 E-value=0.59 Score=36.32 Aligned_cols=19 Identities=32% Similarity=0.326 Sum_probs=16.0
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.-+.+.+|||+|||...
T Consensus 190 ~g~vi~lvGpnG~GKTTtl 208 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTT 208 (420)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4567899999999999864
No 280
>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=92.99 E-value=0.092 Score=43.37 Aligned_cols=56 Identities=23% Similarity=0.299 Sum_probs=32.4
Q ss_pred cccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 6 VSLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 6 ~~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
...+...|++++..+.+.+.|++. .+..+.-++.. -+...+.+++.+|+|+|||+.
T Consensus 445 ~~~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~---g~~~~~giLL~GppGtGKT~l 503 (733)
T TIGR01243 445 VEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKM---GIRPPKGVLLFGPPGTGKTLL 503 (733)
T ss_pred ccccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhc---CCCCCceEEEECCCCCCHHHH
Confidence 334556777777777776666542 11111111111 011235799999999999974
No 281
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.96 E-value=0.082 Score=38.86 Aligned_cols=21 Identities=29% Similarity=0.523 Sum_probs=15.2
Q ss_pred cEEEEccCCchHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILN 71 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~ 71 (130)
-+++.++|||||+.+. .+++.
T Consensus 129 LviiVGaTGSGKSTtm-AaMi~ 149 (375)
T COG5008 129 LVIIVGATGSGKSTTM-AAMIG 149 (375)
T ss_pred eEEEECCCCCCchhhH-HHHhc
Confidence 4678999999998753 34444
No 282
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=92.96 E-value=0.92 Score=33.96 Aligned_cols=34 Identities=29% Similarity=0.486 Sum_probs=26.5
Q ss_pred CCCcHHHHHHHhHHh----cCC---cEEEEccCCchHHHHH
Q psy3307 32 DKPTPVQKYAIPVII----SGR---DVMACAQTGSGKTAAF 65 (130)
Q Consensus 32 ~~~t~~Q~~~i~~~~----~g~---~~l~~aptGsGKT~~~ 65 (130)
..++|+|..+|..+. .|+ -+++.||.|+||+...
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA 43 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVA 43 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHH
Confidence 457889999987765 444 5899999999998653
No 283
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=92.95 E-value=0.08 Score=33.11 Aligned_cols=14 Identities=29% Similarity=0.591 Sum_probs=12.3
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+++.|++|||||..
T Consensus 2 I~I~G~~gsGKST~ 15 (121)
T PF13207_consen 2 IIISGPPGSGKSTL 15 (121)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999974
No 284
>KOG0738|consensus
Probab=92.95 E-value=0.081 Score=40.70 Aligned_cols=56 Identities=18% Similarity=0.419 Sum_probs=34.6
Q ss_pred ccCCCcCCCCCHHHHHHHHHC--------CCCCCcH-------HHHHH-----HhHHhcC-----CcEEEEccCCchHHH
Q psy3307 9 KKQGFDDIQMTEIITNNIALA--------RYDKPTP-------VQKYA-----IPVIISG-----RDVMACAQTGSGKTA 63 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~--------~~~~~t~-------~Q~~~-----i~~~~~g-----~~~l~~aptGsGKT~ 63 (130)
....|+.++....+.+.+..- .|...-. ++..+ +|.++.| +.+++.+|+|+|||+
T Consensus 181 ~~~~f~~~~~d~~Lve~lerdIl~~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTl 260 (491)
T KOG0738|consen 181 EDKKFDSLGYDADLVEALERDILQRNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTL 260 (491)
T ss_pred ccCCCCcccchHHHHHHHHHHHhccCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHH
Confidence 445677778777777777431 1111111 22222 2455666 799999999999997
Q ss_pred H
Q psy3307 64 A 64 (130)
Q Consensus 64 ~ 64 (130)
.
T Consensus 261 L 261 (491)
T KOG0738|consen 261 L 261 (491)
T ss_pred H
Confidence 4
No 285
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=92.95 E-value=1.4 Score=36.71 Aligned_cols=86 Identities=16% Similarity=0.122 Sum_probs=57.8
Q ss_pred HHHHHHCCCCCCcHHHHHHHhHHhcC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEE
Q psy3307 23 TNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLV 100 (130)
Q Consensus 23 ~~~l~~~~~~~~t~~Q~~~i~~~~~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~li 100 (130)
-..+.+...+.+..-|.+.+..++++ +-+++.|.-|-|||.+.=+.+........ ..+++|
T Consensus 204 ~~~l~~l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~-----------------~~~iiV 266 (758)
T COG1444 204 PRELYELCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAG-----------------SVRIIV 266 (758)
T ss_pred CHHHhhhhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcC-----------------CceEEE
Confidence 33455544445555555555666644 36899999999999887666632222221 146999
Q ss_pred EcCcHHHHHHHHHHHHHHHhcCCCc
Q psy3307 101 LAPTRELATQIYDEAKKFAYRSQLR 125 (130)
Q Consensus 101 l~Pt~~La~q~~~~~~~l~~~~~~~ 125 (130)
.+|+.+-++.+...+.+-.+.+|.+
T Consensus 267 TAP~~~nv~~Lf~fa~~~l~~lg~~ 291 (758)
T COG1444 267 TAPTPANVQTLFEFAGKGLEFLGYK 291 (758)
T ss_pred eCCCHHHHHHHHHHHHHhHHHhCCc
Confidence 9999999999988887777776654
No 286
>KOG0920|consensus
Probab=92.92 E-value=1.1 Score=38.14 Aligned_cols=66 Identities=21% Similarity=0.229 Sum_probs=47.2
Q ss_pred CcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHH
Q psy3307 34 PTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113 (130)
Q Consensus 34 ~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~ 113 (130)
.+..+...+..+.+...+++.+.||+|||.=.---++....+.+. ..++++--|-|--|..+++
T Consensus 174 a~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~----------------~~~IicTQPRRIsAIsvAe 237 (924)
T KOG0920|consen 174 AYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGA----------------ACNIICTQPRRISAISVAE 237 (924)
T ss_pred cHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCC----------------CCeEEecCCchHHHHHHHH
Confidence 366778888889999999999999999998654445554444331 1455555688888887766
Q ss_pred HH
Q psy3307 114 EA 115 (130)
Q Consensus 114 ~~ 115 (130)
+.
T Consensus 238 RV 239 (924)
T KOG0920|consen 238 RV 239 (924)
T ss_pred HH
Confidence 65
No 287
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.89 E-value=0.36 Score=40.16 Aligned_cols=18 Identities=33% Similarity=0.414 Sum_probs=15.0
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
|+-+.+.+|||+|||.+.
T Consensus 185 g~Vi~lVGpnGvGKTTTi 202 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTT 202 (767)
T ss_pred CeEEEEECCCCCcHHHHH
Confidence 456789999999999865
No 288
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=92.88 E-value=0.089 Score=41.75 Aligned_cols=53 Identities=19% Similarity=0.269 Sum_probs=28.7
Q ss_pred ccCCCcCCCCCHHHHHHHHH---CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 9 KKQGFDDIQMTEIITNNIAL---ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~---~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
|..+|++++=-+..++.+++ ..+..+..+...- +...+.+++.+|+|+|||+.
T Consensus 177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~g---l~~p~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYD---LKPPKGVLLYGPPGCGKTLI 232 (512)
T ss_pred CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhcc---CCCCcceEEECCCCCcHHHH
Confidence 55678887733333333332 1222222222111 11346899999999999974
No 289
>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=92.79 E-value=0.19 Score=40.45 Aligned_cols=30 Identities=27% Similarity=0.449 Sum_probs=22.0
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
...+++++.|+||||||.. +-.++..+..+
T Consensus 174 ~e~~h~li~G~tGsGKs~~-i~~ll~~~~~~ 203 (566)
T TIGR02759 174 SETQHILIHGTTGSGKSVA-IRKLLRWIRQR 203 (566)
T ss_pred ccccceEEEcCCCCCHHHH-HHHHHHHHHhc
Confidence 3457999999999999964 45566665543
No 290
>KOG1533|consensus
Probab=92.76 E-value=0.12 Score=37.12 Aligned_cols=25 Identities=16% Similarity=0.228 Sum_probs=18.2
Q ss_pred EEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
-++.+|+||||| +|+....+.+...
T Consensus 5 qvVIGPPgSGKs-TYc~g~~~fls~~ 29 (290)
T KOG1533|consen 5 QVVIGPPGSGKS-TYCNGMSQFLSAI 29 (290)
T ss_pred eEEEcCCCCCcc-chhhhHHHHHHHh
Confidence 467899999998 4666666655543
No 291
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=92.66 E-value=0.18 Score=41.56 Aligned_cols=55 Identities=15% Similarity=0.187 Sum_probs=34.9
Q ss_pred HHHHHHHHHCCCCCCcHHHHHHHh--HHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 20 EIITNNIALARYDKPTPVQKYAIP--VIISGRDVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 20 ~~i~~~l~~~~~~~~t~~Q~~~i~--~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
+++.+.+++.+-. .++-..-+| .-...+++++.+-||||||.+. .-+|..+..+.
T Consensus 157 ~~l~k~lk~~~~~--s~i~I~gvPip~~~E~~H~li~GttGSGKS~~i-~~LL~~ir~RG 213 (732)
T PRK13700 157 KDVARMLKKDGKD--SDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVI-RRLANYARQRG 213 (732)
T ss_pred HHHHHHHHhcCCC--CCeeEccccCCcchhhcceEEeCCCCCCHHHHH-HHHHHHHHHcC
Confidence 4566667665532 333222333 2346689999999999999854 66666666544
No 292
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=92.59 E-value=0.1 Score=35.87 Aligned_cols=20 Identities=40% Similarity=0.511 Sum_probs=14.4
Q ss_pred CCcEEEEccCCchHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLV 67 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l 67 (130)
.+.+++.||.|||||.-|..
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~ 22 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQ 22 (181)
T ss_dssp --EEEEE-STTSSHHHHHHH
T ss_pred CceEEEEcCCCCCHHHHHHH
Confidence 46799999999999986643
No 293
>PRK08116 hypothetical protein; Validated
Probab=92.59 E-value=0.56 Score=34.11 Aligned_cols=27 Identities=26% Similarity=0.367 Sum_probs=19.2
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
..+++.|++|+|||... .++.+.+...
T Consensus 115 ~gl~l~G~~GtGKThLa-~aia~~l~~~ 141 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLA-ACIANELIEK 141 (268)
T ss_pred ceEEEECCCCCCHHHHH-HHHHHHHHHc
Confidence 45999999999999643 3555555443
No 294
>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=92.54 E-value=0.36 Score=33.24 Aligned_cols=27 Identities=22% Similarity=0.366 Sum_probs=16.9
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
...++++.+.||||||.+...-+.+.+
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~ 63 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLA 63 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHH
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHH
Confidence 345899999999999987544333333
No 295
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.53 E-value=0.46 Score=37.54 Aligned_cols=18 Identities=33% Similarity=0.366 Sum_probs=15.4
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
|.-+.+.||||+|||.+.
T Consensus 256 g~Vi~LvGpnGvGKTTTi 273 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTT 273 (484)
T ss_pred CcEEEEECCCCccHHHHH
Confidence 456889999999999865
No 296
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.42 E-value=0.94 Score=35.22 Aligned_cols=18 Identities=28% Similarity=0.451 Sum_probs=15.2
Q ss_pred CcEEEEccCCchHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~ 66 (130)
+.+.+.+|+|+|||....
T Consensus 242 ~vI~LVGptGvGKTTTia 259 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLA 259 (436)
T ss_pred cEEEEECCCCCcHHHHHH
Confidence 578999999999998643
No 297
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.37 E-value=0.28 Score=38.79 Aligned_cols=27 Identities=19% Similarity=0.297 Sum_probs=21.7
Q ss_pred HHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 39 KYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 39 ~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
..++-.++.|.++++.+|+|+|||...
T Consensus 30 ~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 30 RLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHHHHccCCCEEEECCCChhHHHHH
Confidence 334446679999999999999999754
No 298
>KOG0730|consensus
Probab=92.34 E-value=0.19 Score=40.87 Aligned_cols=61 Identities=25% Similarity=0.391 Sum_probs=41.9
Q ss_pred cccccccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 2 QECLVSLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 2 ~~~~~~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
-|..++.|..+|+|.|=-+++.+.|++. ..+.|-.+.... +.--+.+++.+|+|.|||+.+
T Consensus 422 Re~~ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~G---i~ppkGVLlyGPPGC~KT~lA 485 (693)
T KOG0730|consen 422 REILVEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFG---ISPPKGVLLYGPPGCGKTLLA 485 (693)
T ss_pred hheeccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhc---CCCCceEEEECCCCcchHHHH
Confidence 3667889999999999777777777642 222322222221 123479999999999999865
No 299
>KOG0733|consensus
Probab=92.29 E-value=0.18 Score=40.92 Aligned_cols=60 Identities=23% Similarity=0.391 Sum_probs=38.7
Q ss_pred ccccccccCCCcCCCCCHHHHHHHHH---CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 3 ECLVSLKKQGFDDIQMTEIITNNIAL---ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 3 ~~~~~~~~~~f~~l~l~~~i~~~l~~---~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
|.+.--|..+|.|.|--+++-..|.. ..+++|--++...+. .-..+++++|+|.|||+..
T Consensus 500 EGF~tVPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~---~PsGvLL~GPPGCGKTLlA 562 (802)
T KOG0733|consen 500 EGFATVPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGID---APSGVLLCGPPGCGKTLLA 562 (802)
T ss_pred ccceecCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCC---CCCceEEeCCCCccHHHHH
Confidence 55666688899999966666655543 233443333333221 1357999999999999843
No 300
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=92.24 E-value=1.2 Score=33.52 Aligned_cols=31 Identities=19% Similarity=0.225 Sum_probs=22.1
Q ss_pred cHHHHHHHhHHh----cCC---cEEEEccCCchHHHHH
Q psy3307 35 TPVQKYAIPVII----SGR---DVMACAQTGSGKTAAF 65 (130)
Q Consensus 35 t~~Q~~~i~~~~----~g~---~~l~~aptGsGKT~~~ 65 (130)
+|+|...|..+. +|+ -.++.||.|.||+...
T Consensus 4 yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA 41 (325)
T PRK06871 4 YPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLI 41 (325)
T ss_pred CcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHH
Confidence 566666665543 444 6789999999998654
No 301
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.21 E-value=0.97 Score=35.24 Aligned_cols=18 Identities=39% Similarity=0.517 Sum_probs=14.5
Q ss_pred CcEEEEccCCchHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~ 66 (130)
.-+++.+|+|+|||....
T Consensus 224 ~vi~lvGptGvGKTTtaa 241 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIA 241 (432)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 347899999999998643
No 302
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.20 E-value=0.53 Score=34.96 Aligned_cols=27 Identities=19% Similarity=0.292 Sum_probs=18.8
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.++.+++.|++|+|||... .++...+.
T Consensus 155 ~~~gl~L~G~~G~GKThLa-~Aia~~l~ 181 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLL-AAIANELA 181 (306)
T ss_pred CCCeEEEECCCCCCHHHHH-HHHHHHHH
Confidence 3568999999999999643 23444443
No 303
>KOG4150|consensus
Probab=92.15 E-value=0.12 Score=41.62 Aligned_cols=70 Identities=9% Similarity=-0.102 Sum_probs=51.7
Q ss_pred HHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcH
Q psy3307 26 IALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 105 (130)
Q Consensus 26 l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 105 (130)
+..+.-+....+|.+++..+-.|++.++.-.+.+||.++|-+..+.....-.. ...+++.|++
T Consensus 279 ~~~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~-----------------s~~~~~~~~~ 341 (1034)
T KOG4150|consen 279 LNKNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLCHA-----------------TNSLLPSEMV 341 (1034)
T ss_pred HhcccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcCcc-----------------cceecchhHH
Confidence 34455567789999999999999999999999999999998877765543221 2256666777
Q ss_pred HHHHHHH
Q psy3307 106 ELATQIY 112 (130)
Q Consensus 106 ~La~q~~ 112 (130)
++++.-.
T Consensus 342 ~~~~~~~ 348 (1034)
T KOG4150|consen 342 EHLRNGS 348 (1034)
T ss_pred HHhhccC
Confidence 7665543
No 304
>KOG0387|consensus
Probab=92.14 E-value=0.36 Score=40.16 Aligned_cols=71 Identities=17% Similarity=0.164 Sum_probs=46.9
Q ss_pred CCcHHHHHHHhHHh----cCCcEEEEccCCchHHHH--HHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHH
Q psy3307 33 KPTPVQKYAIPVII----SGRDVMACAQTGSGKTAA--FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRE 106 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g~~~l~~aptGsGKT~~--~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 106 (130)
.+.++|+....-+. ++..-|+.-.-|-|||.- .+|..|+...... -.+|||||. .
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~------------------~paLIVCP~-T 265 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLT------------------KPALIVCPA-T 265 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhccccc------------------CceEEEccH-H
Confidence 45778888776543 667788899999999943 2233333221111 349999998 5
Q ss_pred HHHHHHHHHHHHHhcC
Q psy3307 107 LATQIYDEAKKFAYRS 122 (130)
Q Consensus 107 La~q~~~~~~~l~~~~ 122 (130)
+..|+.+++....-.+
T Consensus 266 ii~qW~~E~~~w~p~~ 281 (923)
T KOG0387|consen 266 IIHQWMKEFQTWWPPF 281 (923)
T ss_pred HHHHHHHHHHHhCcce
Confidence 7778888887765543
No 305
>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=92.10 E-value=0.12 Score=37.95 Aligned_cols=18 Identities=22% Similarity=0.272 Sum_probs=15.5
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
+.++++.+|+|||||...
T Consensus 58 ~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 458999999999999764
No 306
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=92.09 E-value=0.39 Score=33.47 Aligned_cols=63 Identities=14% Similarity=0.220 Sum_probs=39.2
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEE-cCcHHHHHHHHHHHHHHHhcCC
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVL-APTRELATQIYDEAKKFAYRSQ 123 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil-~Pt~~La~q~~~~~~~l~~~~~ 123 (130)
+..|.-+.+.+|+|+|||. ++=++.-+..... ..+.+= .|...-.++....+.-+++..+
T Consensus 25 l~~Ge~~~i~G~NG~GKTt--LLRilaGLl~p~~-----------------G~v~~~~~~i~~~~~~~~~~l~yLGH~~g 85 (209)
T COG4133 25 LNAGEALQITGPNGAGKTT--LLRILAGLLRPDA-----------------GEVYWQGEPIQNVRESYHQALLYLGHQPG 85 (209)
T ss_pred EcCCCEEEEECCCCCcHHH--HHHHHHcccCCCC-----------------CeEEecCCCCccchhhHHHHHHHhhcccc
Confidence 4578889999999999997 4444444443221 123332 3444555556677777777777
Q ss_pred Cce
Q psy3307 124 LRP 126 (130)
Q Consensus 124 ~~~ 126 (130)
+|.
T Consensus 86 iK~ 88 (209)
T COG4133 86 IKT 88 (209)
T ss_pred ccc
Confidence 764
No 307
>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=92.05 E-value=0.12 Score=32.31 Aligned_cols=14 Identities=36% Similarity=0.441 Sum_probs=12.3
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
|++.|++|||||..
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 57899999999975
No 308
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=92.05 E-value=0.28 Score=34.33 Aligned_cols=18 Identities=22% Similarity=0.362 Sum_probs=15.2
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.++.+++.|++|+|||..
T Consensus 41 ~~~~~~l~G~~G~GKT~L 58 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHL 58 (227)
T ss_pred CCCeEEEECCCCCCHHHH
Confidence 356899999999999953
No 309
>KOG1123|consensus
Probab=92.02 E-value=0.064 Score=42.53 Aligned_cols=66 Identities=20% Similarity=0.247 Sum_probs=51.1
Q ss_pred CCcHHHHHHHhHHh-cC--CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 33 KPTPVQKYAIPVII-SG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~-~g--~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
.++|+|..++...+ +| |+-++.-|-|+|||+.-+-++.. + + .++|++|.+---++
T Consensus 302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t-i---k------------------K~clvLcts~VSVe 359 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT-I---K------------------KSCLVLCTSAVSVE 359 (776)
T ss_pred ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee-e---c------------------ccEEEEecCccCHH
Confidence 67899999999887 33 68899999999999865333211 1 1 35999999998999
Q ss_pred HHHHHHHHHHh
Q psy3307 110 QIYDEAKKFAY 120 (130)
Q Consensus 110 q~~~~~~~l~~ 120 (130)
|+...++.++-
T Consensus 360 QWkqQfk~wst 370 (776)
T KOG1123|consen 360 QWKQQFKQWST 370 (776)
T ss_pred HHHHHHHhhcc
Confidence 99998887654
No 310
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=91.93 E-value=0.43 Score=33.64 Aligned_cols=19 Identities=16% Similarity=0.179 Sum_probs=15.7
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.-+++.+++|+|||...
T Consensus 24 ~g~~~~i~G~~GsGKt~l~ 42 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLS 42 (234)
T ss_pred CCcEEEEECCCCCChHHHH
Confidence 3578899999999999754
No 311
>PRK08727 hypothetical protein; Validated
Probab=91.92 E-value=0.61 Score=33.05 Aligned_cols=16 Identities=25% Similarity=0.300 Sum_probs=13.7
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
..+++.|++|+|||-.
T Consensus 42 ~~l~l~G~~G~GKThL 57 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL 57 (233)
T ss_pred CeEEEECCCCCCHHHH
Confidence 4599999999999953
No 312
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=91.90 E-value=0.17 Score=39.65 Aligned_cols=20 Identities=25% Similarity=0.484 Sum_probs=17.5
Q ss_pred hcCCcEEEEccCCchHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~ 65 (130)
..|+++++.+|+|||||+..
T Consensus 196 AGgHnLl~~GpPGtGKTmla 215 (490)
T COG0606 196 AGGHNLLLVGPPGTGKTMLA 215 (490)
T ss_pred hcCCcEEEecCCCCchHHhh
Confidence 47799999999999999753
No 313
>KOG0729|consensus
Probab=91.89 E-value=0.36 Score=35.66 Aligned_cols=58 Identities=14% Similarity=0.135 Sum_probs=38.3
Q ss_pred cccccCCCcCCCCCHHHHHHHHHC-CCCCCcHHHHHHHhHHh-cCCcEEEEccCCchHHHHH
Q psy3307 6 VSLKKQGFDDIQMTEIITNNIALA-RYDKPTPVQKYAIPVII-SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 6 ~~~~~~~f~~l~l~~~i~~~l~~~-~~~~~t~~Q~~~i~~~~-~g~~~l~~aptGsGKT~~~ 65 (130)
-.+|..+++|.+=..+.++.+++- ...-+.|- +....-. --+.+++-+|+|+|||+|.
T Consensus 169 eekpdvty~dvggckeqieklrevve~pll~pe--rfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 169 EEKPDVTYSDVGGCKEQIEKLREVVELPLLHPE--RFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred ecCCCcccccccchHHHHHHHHHHHhccccCHH--HHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 356788999999888888777652 22223332 2111111 2378999999999999975
No 314
>KOG0926|consensus
Probab=91.87 E-value=0.24 Score=41.45 Aligned_cols=35 Identities=40% Similarity=0.677 Sum_probs=24.8
Q ss_pred HHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 39 KYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 39 ~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
++.+.+|.+..-+++|+.||||||.- +| +.+++.+
T Consensus 262 q~IMEaIn~n~vvIIcGeTGsGKTTQ--vP--QFLYEAG 296 (1172)
T KOG0926|consen 262 QRIMEAINENPVVIICGETGSGKTTQ--VP--QFLYEAG 296 (1172)
T ss_pred HHHHHHhhcCCeEEEecCCCCCcccc--ch--HHHHHcc
Confidence 34555667778889999999999973 34 4455544
No 315
>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=91.87 E-value=0.29 Score=35.01 Aligned_cols=33 Identities=21% Similarity=0.327 Sum_probs=23.6
Q ss_pred CCcHHHHHHHhHHh----cCC-cEEEEccCCchHHHHH
Q psy3307 33 KPTPVQKYAIPVII----SGR-DVMACAQTGSGKTAAF 65 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~----~g~-~~l~~aptGsGKT~~~ 65 (130)
.+++.+.+++..+. .+. .+++.||+|+|||...
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 46667777776553 233 6889999999999753
No 316
>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=91.81 E-value=0.13 Score=37.04 Aligned_cols=18 Identities=22% Similarity=0.261 Sum_probs=15.2
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
..++++.||+|+|||...
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 358899999999999754
No 317
>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=91.77 E-value=0.35 Score=40.97 Aligned_cols=24 Identities=21% Similarity=0.389 Sum_probs=17.8
Q ss_pred CcEEEEccCCchHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
.+.++.|+||||||+....-+.+.
T Consensus 476 ~n~~I~G~TGSGKS~l~~~li~q~ 499 (893)
T TIGR03744 476 AHLLILGPTGAGKSATLTNLLMQV 499 (893)
T ss_pred ccEEEECCCCCCHHHHHHHHHHHH
Confidence 488999999999998654333333
No 318
>CHL00181 cbbX CbbX; Provisional
Probab=91.75 E-value=0.13 Score=37.73 Aligned_cols=19 Identities=26% Similarity=0.391 Sum_probs=15.9
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.++++.+|+|+|||...
T Consensus 58 ~~~~ill~G~pGtGKT~lA 76 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVA 76 (287)
T ss_pred CCceEEEECCCCCCHHHHH
Confidence 3557999999999999764
No 319
>PHA02244 ATPase-like protein
Probab=91.73 E-value=0.28 Score=37.50 Aligned_cols=22 Identities=23% Similarity=0.302 Sum_probs=18.3
Q ss_pred hHHhcCCcEEEEccCCchHHHH
Q psy3307 43 PVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 43 ~~~~~g~~~l~~aptGsGKT~~ 64 (130)
..+..+.++++.+|+|+|||..
T Consensus 114 r~l~~~~PVLL~GppGtGKTtL 135 (383)
T PHA02244 114 KIVNANIPVFLKGGAGSGKNHI 135 (383)
T ss_pred HHHhcCCCEEEECCCCCCHHHH
Confidence 3445789999999999999964
No 320
>PRK04296 thymidine kinase; Provisional
Probab=91.64 E-value=0.46 Score=32.61 Aligned_cols=26 Identities=12% Similarity=0.107 Sum_probs=17.7
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
|.-.++.+|+|+|||... +-.+.+..
T Consensus 2 g~i~litG~~GsGKTT~~-l~~~~~~~ 27 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTEL-LQRAYNYE 27 (190)
T ss_pred cEEEEEECCCCCHHHHHH-HHHHHHHH
Confidence 345688999999999654 44444443
No 321
>KOG1807|consensus
Probab=91.54 E-value=0.58 Score=39.01 Aligned_cols=71 Identities=17% Similarity=0.052 Sum_probs=48.9
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
....-|..|..-.+.-+-.++++|+|+|||+.-+..+ ..+..+...... ....+++|-|..-++|..
T Consensus 378 ildsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav-~tLL~n~s~~~~------------~epIlvvC~Tnhavdq~l 444 (1025)
T KOG1807|consen 378 ILDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAV-DTLLLNSSGYTE------------PEPILVVCLTNHAVDQYL 444 (1025)
T ss_pred eecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHH-HHHHhccccccc------------ccceeeeehhhHHHHHHH
Confidence 3455788888888888888999999999998865444 444433321100 134889999988888876
Q ss_pred HHHH
Q psy3307 113 DEAK 116 (130)
Q Consensus 113 ~~~~ 116 (130)
..+.
T Consensus 445 igiy 448 (1025)
T KOG1807|consen 445 IGIY 448 (1025)
T ss_pred HHHH
Confidence 5544
No 322
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=91.51 E-value=0.29 Score=36.09 Aligned_cols=16 Identities=44% Similarity=0.607 Sum_probs=14.2
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
.+++.||+|+|||...
T Consensus 38 ~lll~Gp~GtGKT~la 53 (337)
T PRK12402 38 HLLVQGPPGSGKTAAV 53 (337)
T ss_pred eEEEECCCCCCHHHHH
Confidence 7999999999999753
No 323
>PRK05642 DNA replication initiation factor; Validated
Probab=91.43 E-value=1 Score=31.99 Aligned_cols=16 Identities=13% Similarity=0.270 Sum_probs=13.9
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
+.+++.|++|+|||--
T Consensus 46 ~~l~l~G~~G~GKTHL 61 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL 61 (234)
T ss_pred CeEEEECCCCCCHHHH
Confidence 5789999999999964
No 324
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=91.40 E-value=0.12 Score=34.55 Aligned_cols=29 Identities=38% Similarity=0.653 Sum_probs=16.2
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
.++.+++.|+.|+|||.. +-.++..+...
T Consensus 23 ~~~~~ll~G~~G~GKT~l-l~~~~~~~~~~ 51 (185)
T PF13191_consen 23 SPRNLLLTGESGSGKTSL-LRALLDRLAER 51 (185)
T ss_dssp ----EEE-B-TTSSHHHH-HHHHHHHHHHH
T ss_pred CCcEEEEECCCCCCHHHH-HHHHHHHHHhc
Confidence 457899999999999964 33455555544
No 325
>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=91.39 E-value=1.1 Score=29.08 Aligned_cols=16 Identities=25% Similarity=0.175 Sum_probs=12.8
Q ss_pred EEEccCCchHHHHHHH
Q psy3307 52 MACAQTGSGKTAAFLV 67 (130)
Q Consensus 52 l~~aptGsGKT~~~~l 67 (130)
.++++||+||++..-+
T Consensus 57 SfHG~tGtGKn~v~~l 72 (127)
T PF06309_consen 57 SFHGWTGTGKNFVSRL 72 (127)
T ss_pred EeecCCCCcHHHHHHH
Confidence 4899999999986533
No 326
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=91.35 E-value=0.14 Score=40.40 Aligned_cols=55 Identities=18% Similarity=0.245 Sum_probs=32.8
Q ss_pred ccccCCCcCCCCCHHHHHHHHHCC--CCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALAR--YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~~--~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
+.+..+|+|+.-.+...+.+.+.- +..+..++... ....+.+++.+|+|+|||..
T Consensus 48 ~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g---~~~~~giLL~GppGtGKT~l 104 (495)
T TIGR01241 48 EKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLG---AKIPKGVLLVGPPGTGKTLL 104 (495)
T ss_pred CCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcC---CCCCCcEEEECCCCCCHHHH
Confidence 356778888877776666554321 12222222111 11235799999999999975
No 327
>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=91.23 E-value=0.5 Score=33.09 Aligned_cols=26 Identities=27% Similarity=0.494 Sum_probs=19.6
Q ss_pred CCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
++++.+.|.||||||... --+++.+.
T Consensus 23 ~~H~~I~G~TGsGKS~~~-~~ll~~l~ 48 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTV-KVLLEELL 48 (229)
T ss_pred cceEEEECCCCCCHHHHH-HHHHHHHH
Confidence 578999999999999754 44455554
No 328
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=91.23 E-value=0.47 Score=37.40 Aligned_cols=25 Identities=24% Similarity=0.347 Sum_probs=19.0
Q ss_pred HHhHHh-----cCCcEEEEccCCchHHHHH
Q psy3307 41 AIPVII-----SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 41 ~i~~~~-----~g~~~l~~aptGsGKT~~~ 65 (130)
.++.++ .|.-+++.+|+|+|||...
T Consensus 251 ~lD~~lgGG~~~gs~~li~G~~G~GKt~l~ 280 (484)
T TIGR02655 251 RLDEMCGGGFFKDSIILATGATGTGKTLLV 280 (484)
T ss_pred hHHHHhcCCccCCcEEEEECCCCCCHHHHH
Confidence 345555 4478999999999999743
No 329
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=91.21 E-value=0.71 Score=34.86 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=27.7
Q ss_pred cHHHHHHHhHHh-cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 35 TPVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 35 t~~Q~~~i~~~~-~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
...|-+.|+.++ .|..+++-++.|.|||+..+.-.+....
T Consensus 75 rs~~P~lId~~fr~g~~~~~~gdsg~GKttllL~l~Ialaa 115 (402)
T COG3598 75 RSNSPQLIDEFFRKGYVSILYGDSGVGKTTLLLYLCIALAA 115 (402)
T ss_pred cccChhhhhHHhhcCeeEEEecCCcccHhHHHHHHHHHHHh
Confidence 445666676655 5667788899999999886655554443
No 330
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=91.18 E-value=0.35 Score=31.26 Aligned_cols=21 Identities=24% Similarity=0.395 Sum_probs=16.7
Q ss_pred HHhcCCcEEEEccCCchHHHH
Q psy3307 44 VIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 44 ~~~~g~~~l~~aptGsGKT~~ 64 (130)
....+..+++.+++||||+.+
T Consensus 17 ~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 17 LAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHCSSS-EEEECCTTSSHHHH
T ss_pred HhCCCCcEEEEcCCCCCHHHH
Confidence 345678999999999999974
No 331
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=91.16 E-value=0.076 Score=35.98 Aligned_cols=17 Identities=24% Similarity=0.485 Sum_probs=13.9
Q ss_pred EEEEccCCchHHHHHHH
Q psy3307 51 VMACAQTGSGKTAAFLV 67 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l 67 (130)
.++.+|+|||||..|..
T Consensus 5 ~IvaG~NGsGKstv~~~ 21 (187)
T COG4185 5 DIVAGPNGSGKSTVYAS 21 (187)
T ss_pred EEEecCCCCCceeeeec
Confidence 46789999999987744
No 332
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=91.14 E-value=2.7 Score=31.46 Aligned_cols=32 Identities=16% Similarity=0.130 Sum_probs=23.4
Q ss_pred CcHHHHHHHhHHh----cCC---cEEEEccCCchHHHHH
Q psy3307 34 PTPVQKYAIPVII----SGR---DVMACAQTGSGKTAAF 65 (130)
Q Consensus 34 ~t~~Q~~~i~~~~----~g~---~~l~~aptGsGKT~~~ 65 (130)
.+|+|...|..+. +|+ -.++.||.|.||+...
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA 42 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLV 42 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHH
Confidence 4677777776554 454 7899999999998543
No 333
>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=91.09 E-value=0.3 Score=36.68 Aligned_cols=23 Identities=26% Similarity=0.317 Sum_probs=18.9
Q ss_pred HhHHhcCCcEEEEccCCchHHHH
Q psy3307 42 IPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 42 i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
+-.+..++++++.+++|+|||..
T Consensus 58 l~~l~~~~~ilL~G~pGtGKTtl 80 (327)
T TIGR01650 58 CAGFAYDRRVMVQGYHGTGKSTH 80 (327)
T ss_pred HHHHhcCCcEEEEeCCCChHHHH
Confidence 33455789999999999999974
No 334
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=91.05 E-value=0.18 Score=34.30 Aligned_cols=18 Identities=28% Similarity=0.512 Sum_probs=15.3
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
|..+++.+|+|+|||...
T Consensus 2 g~~i~l~G~sGsGKsTl~ 19 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLL 19 (186)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 567899999999999743
No 335
>PRK11823 DNA repair protein RadA; Provisional
Probab=90.93 E-value=0.63 Score=36.37 Aligned_cols=24 Identities=21% Similarity=0.450 Sum_probs=18.2
Q ss_pred HhHHhc-----CCcEEEEccCCchHHHHH
Q psy3307 42 IPVIIS-----GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 42 i~~~~~-----g~~~l~~aptGsGKT~~~ 65 (130)
++.++. |.-+++.+++|+|||...
T Consensus 69 LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~ 97 (446)
T PRK11823 69 LDRVLGGGLVPGSVVLIGGDPGIGKSTLL 97 (446)
T ss_pred HHHHhcCCccCCEEEEEECCCCCCHHHHH
Confidence 455554 467899999999999743
No 336
>PRK14974 cell division protein FtsY; Provisional
Probab=90.85 E-value=1.2 Score=33.63 Aligned_cols=17 Identities=24% Similarity=0.386 Sum_probs=14.3
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.-+++.+++|+|||...
T Consensus 141 ~vi~~~G~~GvGKTTti 157 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTI 157 (336)
T ss_pred eEEEEEcCCCCCHHHHH
Confidence 45789999999999853
No 337
>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=90.78 E-value=0.41 Score=32.29 Aligned_cols=44 Identities=18% Similarity=0.261 Sum_probs=32.2
Q ss_pred HHHHHHHHHCCCC-----CCcHHHHHHHhHHhcCCcEEEEccCCchHHH
Q psy3307 20 EIITNNIALARYD-----KPTPVQKYAIPVIISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 20 ~~i~~~l~~~~~~-----~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~ 63 (130)
++.++..++.|+. .-+......+...+.++-+++.+++|.||+.
T Consensus 2 ~~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSS 50 (161)
T PF03193_consen 2 EELLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSS 50 (161)
T ss_dssp HHHHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHH
T ss_pred HHHHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 4556667777775 1234445666677888999999999999985
No 338
>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=90.76 E-value=0.32 Score=37.87 Aligned_cols=24 Identities=17% Similarity=0.455 Sum_probs=19.8
Q ss_pred hHHhcCCcEEEEccCCchHHHHHH
Q psy3307 43 PVIISGRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 43 ~~~~~g~~~l~~aptGsGKT~~~~ 66 (130)
+-+-++.|++..+|+|+|||..|.
T Consensus 204 ~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 204 PLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHhcCCcEEEECCCCCCHHHHHH
Confidence 445588999999999999996654
No 339
>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=90.74 E-value=0.21 Score=33.64 Aligned_cols=18 Identities=22% Similarity=0.407 Sum_probs=15.6
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
|+-++++|++|||||...
T Consensus 2 ~~~i~l~G~~gsGKst~a 19 (175)
T cd00227 2 GRIIILNGGSSAGKSSIA 19 (175)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 677899999999999754
No 340
>KOG1806|consensus
Probab=90.69 E-value=0.62 Score=39.97 Aligned_cols=68 Identities=26% Similarity=0.346 Sum_probs=48.4
Q ss_pred CCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
..|+-|-++|..-..-.+.++.+|+|+|||-.. .-++.-++.+.. .++++|++.+..-.+|..
T Consensus 738 ~ft~~qveai~sg~qpgltmvvgppgtgktd~a-vqil~~lyhn~p----------------~qrTlivthsnqaln~lf 800 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVA-VQILSVLYHNSP----------------NQRTLIVTHSNQALNQLF 800 (1320)
T ss_pred ccCHHHHHHHHhcCCCCceeeecCCCCCCcchh-hhhhhhhhhcCC----------------CcceEEEEecccchhHHH
Confidence 458888888876666679999999999999764 334444443332 278999998877777766
Q ss_pred HHHHH
Q psy3307 113 DEAKK 117 (130)
Q Consensus 113 ~~~~~ 117 (130)
..+.+
T Consensus 801 eKi~~ 805 (1320)
T KOG1806|consen 801 EKIMA 805 (1320)
T ss_pred HHHHh
Confidence 55543
No 341
>PRK10867 signal recognition particle protein; Provisional
Probab=90.68 E-value=1.5 Score=34.29 Aligned_cols=16 Identities=31% Similarity=0.451 Sum_probs=13.7
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.+++|+|||.+.
T Consensus 102 vI~~vG~~GsGKTTta 117 (433)
T PRK10867 102 VIMMVGLQGAGKTTTA 117 (433)
T ss_pred EEEEECCCCCcHHHHH
Confidence 4789999999999764
No 342
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.60 E-value=0.91 Score=35.03 Aligned_cols=19 Identities=37% Similarity=0.468 Sum_probs=16.0
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.++-+++.+|+|+|||...
T Consensus 205 ~~~ii~lvGptGvGKTTt~ 223 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTL 223 (407)
T ss_pred CCeEEEEECCCCCCHHHHH
Confidence 4578899999999999754
No 343
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=90.58 E-value=0.33 Score=38.38 Aligned_cols=31 Identities=19% Similarity=0.347 Sum_probs=24.8
Q ss_pred CcHHHHHHHhHH-------hcCCcEEEEccCCchHHHH
Q psy3307 34 PTPVQKYAIPVI-------ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 34 ~t~~Q~~~i~~~-------~~g~~~l~~aptGsGKT~~ 64 (130)
-+++|......+ ..|.-+.++||.|||||..
T Consensus 11 ~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTL 48 (504)
T TIGR03238 11 KRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEI 48 (504)
T ss_pred chHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHH
Confidence 478888776554 3678999999999999973
No 344
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=90.51 E-value=0.35 Score=36.02 Aligned_cols=24 Identities=29% Similarity=0.468 Sum_probs=20.1
Q ss_pred HHhHHhcCCcEEEEccCCchHHHH
Q psy3307 41 AIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 41 ~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
++-.++.|+.+++.+++|+|||..
T Consensus 36 ~l~a~~~~~~vll~G~PG~gKT~l 59 (329)
T COG0714 36 ALLALLAGGHVLLEGPPGVGKTLL 59 (329)
T ss_pred HHHHHHcCCCEEEECCCCccHHHH
Confidence 334567999999999999999974
No 345
>PRK14530 adenylate kinase; Provisional
Probab=90.46 E-value=0.18 Score=35.13 Aligned_cols=18 Identities=22% Similarity=0.379 Sum_probs=15.4
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.+..+++.+++|||||..
T Consensus 2 ~~~~I~i~G~pGsGKsT~ 19 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQ 19 (215)
T ss_pred CCCEEEEECCCCCCHHHH
Confidence 466899999999999964
No 346
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=90.44 E-value=0.35 Score=35.09 Aligned_cols=29 Identities=28% Similarity=0.360 Sum_probs=21.5
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+..|+-+.+.+|+|+|||. ++=.+..+..
T Consensus 25 i~~G~i~~iiGpNG~GKST--LLk~l~g~l~ 53 (258)
T COG1120 25 IPKGEITGILGPNGSGKST--LLKCLAGLLK 53 (258)
T ss_pred ecCCcEEEEECCCCCCHHH--HHHHHhccCC
Confidence 3467888999999999997 4555555443
No 347
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=90.37 E-value=3.6 Score=34.19 Aligned_cols=73 Identities=15% Similarity=0.100 Sum_probs=50.6
Q ss_pred CCcHHHHHHHhH---HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHH
Q psy3307 33 KPTPVQKYAIPV---IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELAT 109 (130)
Q Consensus 33 ~~t~~Q~~~i~~---~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 109 (130)
.|+|.=.+=|.. .+..+-.++.+|-|.|||++..+.+...+.... .+++|.+|...-+.
T Consensus 169 ~~~~~~~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~G------------------i~IlvTAH~~~ts~ 230 (752)
T PHA03333 169 APSPRTLREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLE------------------IDIVVQAQRKTMCL 230 (752)
T ss_pred CCChhhHHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcC------------------CeEEEECCChhhHH
Confidence 344433333443 346678888999999999876554443332121 57999999999999
Q ss_pred HHHHHHHHHHhcCC
Q psy3307 110 QIYDEAKKFAYRSQ 123 (130)
Q Consensus 110 q~~~~~~~l~~~~~ 123 (130)
++.+.+++..+.++
T Consensus 231 evF~rv~~~le~lg 244 (752)
T PHA03333 231 TLYNRVETVVHAYQ 244 (752)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999888877443
No 348
>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=90.34 E-value=0.34 Score=36.32 Aligned_cols=24 Identities=29% Similarity=0.519 Sum_probs=17.7
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
.++++.||+|+|||... -.++..+
T Consensus 41 ~~i~I~G~~GtGKT~l~-~~~~~~l 64 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVT-KYVMKEL 64 (365)
T ss_pred CcEEEECCCCCCHHHHH-HHHHHHH
Confidence 58999999999999653 3444433
No 349
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.33 E-value=0.22 Score=38.01 Aligned_cols=19 Identities=37% Similarity=0.739 Sum_probs=16.6
Q ss_pred hcCCcEEEEccCCchHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~ 64 (130)
+.|+-+++.+|+|||||..
T Consensus 63 ~aGrgiLi~GppgTGKTAl 81 (450)
T COG1224 63 MAGRGILIVGPPGTGKTAL 81 (450)
T ss_pred ccccEEEEECCCCCcHHHH
Confidence 3778999999999999953
No 350
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.33 E-value=0.97 Score=39.22 Aligned_cols=56 Identities=25% Similarity=0.323 Sum_probs=38.8
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKK 117 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~ 117 (130)
+| ..++.|..|||||++...-.+..+.+.... ...++|+|+=|+.-+.++...+++
T Consensus 9 ~G-~~lieAsAGtGKT~ti~~~~lrll~~~~~~--------------~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 9 NG-TFLIEASAGTGKTFTIAQLYLRLLLEGGPL--------------TVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred CC-CEEEEECCCCCHHHHHHHHHHHHHhcCCCC--------------ChhhEEEEehhHHHHHHHHHHHHH
Confidence 45 566789999999998766666666543210 114699999888877777777654
No 351
>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=90.19 E-value=0.57 Score=32.27 Aligned_cols=20 Identities=30% Similarity=0.376 Sum_probs=16.4
Q ss_pred cCCcEEEEccCCchHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~ 66 (130)
.|.-+.+.+++|+|||...+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~ 30 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICM 30 (209)
T ss_pred CCeEEEEECCCCCCHHHHHH
Confidence 45678999999999997654
No 352
>KOG0060|consensus
Probab=90.13 E-value=0.15 Score=41.04 Aligned_cols=20 Identities=30% Similarity=0.617 Sum_probs=17.6
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+.+|.++++++|+|+|||--
T Consensus 458 V~~g~~LLItG~sG~GKtSL 477 (659)
T KOG0060|consen 458 VPSGQNLLITGPSGCGKTSL 477 (659)
T ss_pred ecCCCeEEEECCCCCchhHH
Confidence 45899999999999999963
No 353
>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=90.11 E-value=1.1 Score=28.80 Aligned_cols=15 Identities=40% Similarity=0.583 Sum_probs=12.7
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+++.|++|+|||...
T Consensus 2 ~~i~G~~G~GKT~l~ 16 (165)
T cd01120 2 ILVFGPTGSGKTTLA 16 (165)
T ss_pred eeEeCCCCCCHHHHH
Confidence 578999999999754
No 354
>PRK08084 DNA replication initiation factor; Provisional
Probab=90.09 E-value=1.6 Score=30.97 Aligned_cols=18 Identities=11% Similarity=0.300 Sum_probs=15.1
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.+..+++.||+|+|||..
T Consensus 44 ~~~~l~l~Gp~G~GKThL 61 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHL 61 (235)
T ss_pred CCCeEEEECCCCCCHHHH
Confidence 346899999999999963
No 355
>PRK13909 putative recombination protein RecB; Provisional
Probab=90.06 E-value=0.92 Score=38.61 Aligned_cols=50 Identities=26% Similarity=0.265 Sum_probs=35.2
Q ss_pred EEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHH
Q psy3307 52 MACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKK 117 (130)
Q Consensus 52 l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~ 117 (130)
++.|+-|||||.+...-.+..+...... -.+|.++=|+.-+.++...+..
T Consensus 2 ~~~AsAGsGKT~~L~~~yl~ll~~~~~~----------------~~IlavTFT~kAa~Emk~Ri~~ 51 (910)
T PRK13909 2 ALKASAGSGKTFALSVRFLALLFKGANP----------------SEILALTFTKKAANEMKERIID 51 (910)
T ss_pred ceecCCCCchhHHHHHHHHHHHhcCCCc----------------ceEEEEeehHHHHHHHHHHHHH
Confidence 5789999999998766666665543211 3588888888888887666543
No 356
>PLN02796 D-glycerate 3-kinase
Probab=89.99 E-value=1.1 Score=34.02 Aligned_cols=14 Identities=36% Similarity=0.465 Sum_probs=12.5
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+.+.|++|||||..
T Consensus 103 IGI~G~sGSGKSTL 116 (347)
T PLN02796 103 IGISAPQGCGKTTL 116 (347)
T ss_pred EEEECCCCCcHHHH
Confidence 78899999999974
No 357
>KOG0924|consensus
Probab=89.96 E-value=1.6 Score=36.32 Aligned_cols=61 Identities=26% Similarity=0.377 Sum_probs=38.2
Q ss_pred cHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEc--CcHHHHHHHH
Q psy3307 35 TPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLA--PTRELATQIY 112 (130)
Q Consensus 35 t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~--Pt~~La~q~~ 112 (130)
...+.+.+..+-..+-+++.+.||||||.-. -+.++..+-. -..+|-| |-|--|..+.
T Consensus 358 f~~R~~ll~~ir~n~vvvivgETGSGKTTQl----~QyL~edGY~----------------~~GmIGcTQPRRvAAiSVA 417 (1042)
T KOG0924|consen 358 FACRDQLLSVIRENQVVVIVGETGSGKTTQL----AQYLYEDGYA----------------DNGMIGCTQPRRVAAISVA 417 (1042)
T ss_pred HHHHHHHHHHHhhCcEEEEEecCCCCchhhh----HHHHHhcccc----------------cCCeeeecCchHHHHHHHH
Confidence 3455556666667888999999999999742 3444443211 1123333 8888877776
Q ss_pred HHH
Q psy3307 113 DEA 115 (130)
Q Consensus 113 ~~~ 115 (130)
+..
T Consensus 418 krV 420 (1042)
T KOG0924|consen 418 KRV 420 (1042)
T ss_pred HHH
Confidence 554
No 358
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.96 E-value=0.23 Score=32.84 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=16.1
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.+..+++.+++|||||...
T Consensus 3 ~~~~i~l~G~~GsGKstla 21 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTIG 21 (175)
T ss_pred CCCeEEEEcCCCCCHHHHH
Confidence 5678999999999999753
No 359
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=89.93 E-value=0.24 Score=38.30 Aligned_cols=18 Identities=33% Similarity=0.440 Sum_probs=15.3
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
..++++.+|||+|||...
T Consensus 108 ~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLA 125 (412)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 367999999999999754
No 360
>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=89.93 E-value=0.25 Score=37.81 Aligned_cols=18 Identities=39% Similarity=0.735 Sum_probs=14.3
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.|+.+++.+|+|||||..
T Consensus 49 aGr~iLiaGppGtGKTAl 66 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTAL 66 (398)
T ss_dssp TT-EEEEEE-TTSSHHHH
T ss_pred cCcEEEEeCCCCCCchHH
Confidence 689999999999999953
No 361
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=89.85 E-value=0.25 Score=36.66 Aligned_cols=17 Identities=24% Similarity=0.331 Sum_probs=13.9
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
+-+++.||||||||-..
T Consensus 5 ~ii~I~GpTasGKS~LA 21 (300)
T PRK14729 5 KIVFIFGPTAVGKSNIL 21 (300)
T ss_pred cEEEEECCCccCHHHHH
Confidence 45889999999999643
No 362
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=89.84 E-value=1.8 Score=33.74 Aligned_cols=16 Identities=38% Similarity=0.472 Sum_probs=13.5
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.+++|+|||...
T Consensus 102 vi~lvG~~GvGKTTta 117 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTC 117 (429)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5789999999999754
No 363
>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=89.83 E-value=0.85 Score=32.09 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=19.0
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
.+++.||+|+|||- .+-++.+.+.+.
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~ 61 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQ 61 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhc
Confidence 58999999999997 345555555543
No 364
>PRK08118 topology modulation protein; Reviewed
Probab=89.82 E-value=0.26 Score=33.21 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=13.1
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
.+++.|++|||||..
T Consensus 3 rI~I~G~~GsGKSTl 17 (167)
T PRK08118 3 KIILIGSGGSGKSTL 17 (167)
T ss_pred EEEEECCCCCCHHHH
Confidence 578999999999963
No 365
>PLN02165 adenylate isopentenyltransferase
Probab=89.79 E-value=0.29 Score=36.87 Aligned_cols=19 Identities=32% Similarity=0.380 Sum_probs=16.0
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|+-+++.||||||||...
T Consensus 42 ~g~iivIiGPTGSGKStLA 60 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRLS 60 (334)
T ss_pred CCCEEEEECCCCCcHHHHH
Confidence 5567999999999999754
No 366
>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=89.75 E-value=0.25 Score=33.48 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=16.6
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
++++.+|+|+|||.. .-.+..+..
T Consensus 5 ~~ll~GpsGvGKT~l--a~~la~~l~ 28 (171)
T PF07724_consen 5 NFLLAGPSGVGKTEL--AKALAELLF 28 (171)
T ss_dssp EEEEESSTTSSHHHH--HHHHHHHHT
T ss_pred EEEEECCCCCCHHHH--HHHHHHHhc
Confidence 678999999999963 333444443
No 367
>KOG0731|consensus
Probab=89.63 E-value=0.56 Score=38.98 Aligned_cols=56 Identities=16% Similarity=0.214 Sum_probs=33.6
Q ss_pred ccccCCCcCCCCCHHHHHHHHHC-C-CCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALA-R-YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~-~-~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+++...|.|.---++..+.|.+. . .++|-.+|..-. .=-+-+++++|+|+|||+..
T Consensus 304 ~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGA---KiPkGvLL~GPPGTGKTLLA 361 (774)
T KOG0731|consen 304 GNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGA---KIPKGVLLVGPPGTGKTLLA 361 (774)
T ss_pred CCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCC---cCcCceEEECCCCCcHHHHH
Confidence 44556788876666655555442 1 233333333211 11268999999999999854
No 368
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=89.51 E-value=0.27 Score=38.00 Aligned_cols=29 Identities=24% Similarity=0.523 Sum_probs=22.0
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
.|+.+++.+.+|||||+. .+-++..+...
T Consensus 9 ~G~TLLIKG~PGTGKTtf-aLelL~~l~~~ 37 (484)
T PF07088_consen 9 PGQTLLIKGEPGTGKTTF-ALELLNSLKDH 37 (484)
T ss_pred CCcEEEEecCCCCCceee-ehhhHHHHhcc
Confidence 578999999999999964 45666655543
No 369
>PRK00300 gmk guanylate kinase; Provisional
Probab=89.46 E-value=0.26 Score=33.83 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=15.2
Q ss_pred cCCcEEEEccCCchHHH
Q psy3307 47 SGRDVMACAQTGSGKTA 63 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~ 63 (130)
.|+-+++.||+|||||.
T Consensus 4 ~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 4 RGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 57789999999999996
No 370
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=89.45 E-value=0.11 Score=41.32 Aligned_cols=81 Identities=14% Similarity=0.245 Sum_probs=0.0
Q ss_pred HHHHHHhHHh-------cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc--HHH
Q psy3307 37 VQKYAIPVII-------SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT--REL 107 (130)
Q Consensus 37 ~Q~~~i~~~~-------~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt--~~L 107 (130)
-|.+|..++- .|-|+.+.+++|+||+. ++.-.+.........+.....--.+. +-..|++|.+-|- +.+
T Consensus 12 GQ~RA~~Al~~gl~i~~~GYNIfv~G~~GtGr~t-~v~~~l~~~a~~~~~P~D~cYV~NF~-~p~~P~~l~LpaG~G~~f 89 (509)
T PF13654_consen 12 GQERAVEALEFGLGIRKPGYNIFVMGPPGTGRRT-YVRRFLEERAKKKPTPPDWCYVNNFD-DPRKPKALSLPAGQGKKF 89 (509)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccccccccccccc-cccccccccccccccccccccccccc-cccccccccccccccccc
Confidence 4667766653 56799999999999985 44555555554332222111111111 1123667776654 444
Q ss_pred HHHHHHHHHHHH
Q psy3307 108 ATQIYDEAKKFA 119 (130)
Q Consensus 108 a~q~~~~~~~l~ 119 (130)
...+.+.++.+.
T Consensus 90 ~~~m~~lie~l~ 101 (509)
T PF13654_consen 90 KKDMEELIEELK 101 (509)
T ss_dssp ------------
T ss_pred cccccccccccc
Confidence 444444444443
No 371
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=89.39 E-value=0.23 Score=35.31 Aligned_cols=19 Identities=32% Similarity=0.531 Sum_probs=16.5
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+++|.|||||.
T Consensus 25 v~~Gevv~iiGpSGSGKST 43 (240)
T COG1126 25 VEKGEVVVIIGPSGSGKST 43 (240)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3477889999999999997
No 372
>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=89.36 E-value=1.3 Score=29.62 Aligned_cols=15 Identities=27% Similarity=0.454 Sum_probs=12.8
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+++.+++|+|||...
T Consensus 3 ~~~~G~~G~GKTt~~ 17 (173)
T cd03115 3 ILLVGLQGVGKTTTA 17 (173)
T ss_pred EEEECCCCCCHHHHH
Confidence 578899999999764
No 373
>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=89.35 E-value=0.28 Score=37.96 Aligned_cols=17 Identities=35% Similarity=0.487 Sum_probs=14.8
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.++++.+|||+|||...
T Consensus 117 ~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLA 133 (413)
T ss_pred ceEEEECCCCcCHHHHH
Confidence 47999999999999754
No 374
>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=89.33 E-value=0.24 Score=32.78 Aligned_cols=14 Identities=29% Similarity=0.456 Sum_probs=11.7
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+++.+|+|||||..
T Consensus 1 i~l~G~~GsGKSTl 14 (163)
T TIGR01313 1 FVLMGVAGSGKSTI 14 (163)
T ss_pred CEEECCCCCCHHHH
Confidence 46889999999964
No 375
>PRK07261 topology modulation protein; Provisional
Probab=89.31 E-value=0.29 Score=33.01 Aligned_cols=16 Identities=25% Similarity=0.387 Sum_probs=13.5
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
.+++.|++|||||...
T Consensus 2 ri~i~G~~GsGKSTla 17 (171)
T PRK07261 2 KIAIIGYSGSGKSTLA 17 (171)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 4789999999999754
No 376
>PRK06620 hypothetical protein; Validated
Probab=89.27 E-value=0.24 Score=34.78 Aligned_cols=16 Identities=25% Similarity=0.233 Sum_probs=13.9
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
+.+++.||+|+|||..
T Consensus 45 ~~l~l~Gp~G~GKThL 60 (214)
T PRK06620 45 FTLLIKGPSSSGKTYL 60 (214)
T ss_pred ceEEEECCCCCCHHHH
Confidence 4589999999999963
No 377
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=89.26 E-value=0.45 Score=36.28 Aligned_cols=26 Identities=27% Similarity=0.505 Sum_probs=18.4
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.++++-|+||||||... --++..+..
T Consensus 43 ~n~~iyG~~GTGKT~~~-~~v~~~l~~ 68 (366)
T COG1474 43 SNIIIYGPTGTGKTATV-KFVMEELEE 68 (366)
T ss_pred ccEEEECCCCCCHhHHH-HHHHHHHHh
Confidence 47999999999999763 334444443
No 378
>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=89.22 E-value=0.28 Score=32.94 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=13.9
Q ss_pred CCcEEEEccCCchHHH
Q psy3307 48 GRDVMACAQTGSGKTA 63 (130)
Q Consensus 48 g~~~l~~aptGsGKT~ 63 (130)
|+-+++.+|+|||||.
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 4568899999999997
No 379
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=89.22 E-value=2.6 Score=32.89 Aligned_cols=16 Identities=31% Similarity=0.474 Sum_probs=14.0
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.+++|+|||...
T Consensus 101 vi~~vG~~GsGKTTta 116 (428)
T TIGR00959 101 VILMVGLQGSGKTTTC 116 (428)
T ss_pred EEEEECCCCCcHHHHH
Confidence 5789999999999864
No 380
>KOG0652|consensus
Probab=89.20 E-value=0.64 Score=34.27 Aligned_cols=59 Identities=17% Similarity=0.059 Sum_probs=30.7
Q ss_pred cccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHh-HHhcCCcEEEEccCCchHHHHH
Q psy3307 6 VSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIP-VIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 6 ~~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~-~~~~g~~~l~~aptGsGKT~~~ 65 (130)
..+|...++|.|=-+..++.|.+.=.-.+|-- .+.-. -+.--+.++.-+|+|+|||+-.
T Consensus 163 DekPtE~YsDiGGldkQIqELvEAiVLpmth~-ekF~~lgi~pPKGvLmYGPPGTGKTlmA 222 (424)
T KOG0652|consen 163 DEKPTEQYSDIGGLDKQIQELVEAIVLPMTHK-EKFENLGIRPPKGVLMYGPPGTGKTLMA 222 (424)
T ss_pred ccCCcccccccccHHHHHHHHHHHhccccccH-HHHHhcCCCCCCceEeeCCCCCcHHHHH
Confidence 45677788888743333333322111111110 00000 1122368999999999999743
No 381
>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=89.18 E-value=0.23 Score=41.05 Aligned_cols=53 Identities=21% Similarity=0.255 Sum_probs=31.9
Q ss_pred ccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 9 KKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
+..+|++++-.+..++.+.+. .+..+.-.+.. .+..++.+++.+|+|+|||..
T Consensus 173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~---gi~~~~giLL~GppGtGKT~l 228 (733)
T TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHL---GIEPPKGVLLYGPPGTGKTLL 228 (733)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCceEEEECCCCCChHHH
Confidence 456788887666666665442 12222211111 123567899999999999964
No 382
>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=89.13 E-value=0.31 Score=32.73 Aligned_cols=18 Identities=28% Similarity=0.575 Sum_probs=14.6
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
|+-+++.+|+|||||...
T Consensus 1 ~~~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 1 GRLIYVVGPSGAGKDTLL 18 (179)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 345789999999999754
No 383
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=89.03 E-value=2.1 Score=32.21 Aligned_cols=95 Identities=14% Similarity=0.114 Sum_probs=47.6
Q ss_pred CcHHHHHHHhHHh----cCC---cEEEEccCCchHHHHHHHHHHHHHHhc--CCCCCCCCCCCCC-CCCCCCceEEEEcC
Q psy3307 34 PTPVQKYAIPVII----SGR---DVMACAQTGSGKTAAFLVPILNQMYER--GPLPTPPAGRGYP-SRKKVFPLGLVLAP 103 (130)
Q Consensus 34 ~t~~Q~~~i~~~~----~g~---~~l~~aptGsGKT~~~~l~~l~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~lil~P 103 (130)
.+|+|...|..+. +|+ -.++.||.|+||+... ...-..+.-. .....|+.+.+.. -....+|-..++.|
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA-~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p 81 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALI-YALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTP 81 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHH-HHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEec
Confidence 4567777776654 444 7789999999998654 3333333322 2222344332110 01122355666666
Q ss_pred cH----HHHHHHHHHHHHHHh---cCCCceEEe
Q psy3307 104 TR----ELATQIYDEAKKFAY---RSQLRPCVV 129 (130)
Q Consensus 104 t~----~La~q~~~~~~~l~~---~~~~~~~~~ 129 (130)
.. --++|+.+..+.+.. .-+.+|++|
T Consensus 82 ~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI 114 (334)
T PRK07993 82 EKGKSSLGVDAVREVTEKLYEHARLGGAKVVWL 114 (334)
T ss_pred ccccccCCHHHHHHHHHHHhhccccCCceEEEE
Confidence 42 234455444444432 234455544
No 384
>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=89.01 E-value=0.35 Score=30.82 Aligned_cols=18 Identities=33% Similarity=0.462 Sum_probs=16.0
Q ss_pred hcCCcEEEEccCCchHHH
Q psy3307 46 ISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~ 63 (130)
..|.-+.+.+++|+|||.
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 467889999999999997
No 385
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=88.91 E-value=7.5 Score=29.00 Aligned_cols=83 Identities=13% Similarity=0.118 Sum_probs=58.4
Q ss_pred CCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHh----------cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCC
Q psy3307 15 DIQMTEIITNNIALARYDKPTPVQKYAIPVII----------SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPA 84 (130)
Q Consensus 15 ~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~----------~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~ 84 (130)
++.|++.+++. | .++..|.+++-... ...-.++--.||.||--...--++.......
T Consensus 25 ~~~lp~~~~~~----g--~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr------- 91 (303)
T PF13872_consen 25 RLHLPEEVIDS----G--LLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR------- 91 (303)
T ss_pred ccCCCHHHHhc----c--cccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCC-------
Confidence 44666665533 2 47889988886554 2357788888999887543334444444433
Q ss_pred CCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhc
Q psy3307 85 GRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYR 121 (130)
Q Consensus 85 ~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~ 121 (130)
.++|+++.+.+|-.+..+.++.++..
T Consensus 92 -----------~r~vwvS~s~dL~~Da~RDl~DIG~~ 117 (303)
T PF13872_consen 92 -----------KRAVWVSVSNDLKYDAERDLRDIGAD 117 (303)
T ss_pred -----------CceEEEECChhhhhHHHHHHHHhCCC
Confidence 46999999999999999999988765
No 386
>KOG0736|consensus
Probab=88.90 E-value=0.13 Score=42.68 Aligned_cols=55 Identities=16% Similarity=0.237 Sum_probs=31.1
Q ss_pred cccCCCcCCCCCHHHHHHHHHCCCCCCcHHHH-HHHhHHhc-CCcEEEEccCCchHHHHH
Q psy3307 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQK-YAIPVIIS-GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 8 ~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~-~~i~~~~~-g~~~l~~aptGsGKT~~~ 65 (130)
-|..+|+|.|=-+++...+.+- --.|.|+ +.+..-+. ...+++-+|+|+|||+..
T Consensus 666 IPnV~WdDVGGLeevK~eIldT---IqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlA 722 (953)
T KOG0736|consen 666 IPNVSWDDVGGLEEVKTEILDT---IQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLA 722 (953)
T ss_pred CCccchhcccCHHHHHHHHHHH---hcCcccChhhhhccccccceeEEECCCCCchHHHH
Confidence 4677899998555554444321 1122222 11111122 347899999999999753
No 387
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=88.89 E-value=2 Score=33.72 Aligned_cols=26 Identities=23% Similarity=0.293 Sum_probs=17.8
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.+++.|++|+|||.. +-.+.+.+..
T Consensus 142 npl~i~G~~G~GKTHL-l~Ai~~~l~~ 167 (450)
T PRK14087 142 NPLFIYGESGMGKTHL-LKAAKNYIES 167 (450)
T ss_pred CceEEECCCCCcHHHH-HHHHHHHHHH
Confidence 4689999999999942 2444444443
No 388
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=88.76 E-value=3 Score=30.65 Aligned_cols=26 Identities=27% Similarity=0.244 Sum_probs=18.1
Q ss_pred EEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 52 MACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 52 l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
++.++.|+|||.....-++..+....
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~ 26 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRP 26 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSS
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCC
Confidence 46789999999998877777766544
No 389
>PLN03025 replication factor C subunit; Provisional
Probab=88.72 E-value=0.73 Score=34.17 Aligned_cols=17 Identities=24% Similarity=0.550 Sum_probs=14.4
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.++++.||+|+|||...
T Consensus 35 ~~lll~Gp~G~GKTtla 51 (319)
T PLN03025 35 PNLILSGPPGTGKTTSI 51 (319)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 46899999999999653
No 390
>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=88.62 E-value=0.95 Score=32.04 Aligned_cols=53 Identities=21% Similarity=0.380 Sum_probs=34.9
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIY 112 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~ 112 (130)
.|.=.-+.+|+|.||+. +++++.++.......-... .+-+--.|+.+||..+.
T Consensus 26 ~g~iTs~IGPNGAGKST--LLS~~sRL~~~d~G~i~i~-----------g~~~~~~~s~~LAk~lS 78 (252)
T COG4604 26 KGGITSIIGPNGAGKST--LLSMMSRLLKKDSGEITID-----------GLELTSTPSKELAKKLS 78 (252)
T ss_pred CCceeEEECCCCccHHH--HHHHHHHhccccCceEEEe-----------eeecccCChHHHHHHHH
Confidence 56666778999999987 7788888876543211000 12344468899987663
No 391
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=88.61 E-value=2.1 Score=33.45 Aligned_cols=17 Identities=35% Similarity=0.522 Sum_probs=14.4
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
..+++.+++|+|||.+.
T Consensus 96 ~vI~lvG~~GsGKTTta 112 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTA 112 (437)
T ss_pred eEEEEECCCCCcHHHHH
Confidence 36789999999999764
No 392
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=88.61 E-value=3.6 Score=30.01 Aligned_cols=23 Identities=30% Similarity=0.372 Sum_probs=18.0
Q ss_pred HHhcCC-cEEEEccCCchHHHHHH
Q psy3307 44 VIISGR-DVMACAQTGSGKTAAFL 66 (130)
Q Consensus 44 ~~~~g~-~~l~~aptGsGKT~~~~ 66 (130)
.+-+|+ -+.++++-|||||+.--
T Consensus 46 ~i~d~qg~~~vtGevGsGKTv~~R 69 (269)
T COG3267 46 AIADGQGILAVTGEVGSGKTVLRR 69 (269)
T ss_pred HHhcCCceEEEEecCCCchhHHHH
Confidence 344665 78899999999998754
No 393
>PF05729 NACHT: NACHT domain
Probab=88.58 E-value=0.35 Score=31.51 Aligned_cols=26 Identities=23% Similarity=0.360 Sum_probs=17.8
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
-+++.|++|+|||... --+...+...
T Consensus 2 ~l~I~G~~G~GKStll-~~~~~~~~~~ 27 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLL-RKLAQQLAEE 27 (166)
T ss_pred EEEEECCCCCChHHHH-HHHHHHHHhc
Confidence 4789999999999743 4444444443
No 394
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=88.47 E-value=3.2 Score=32.64 Aligned_cols=72 Identities=29% Similarity=0.337 Sum_probs=48.0
Q ss_pred HHHHHHHhHHh-----cC----CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHH
Q psy3307 36 PVQKYAIPVII-----SG----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRE 106 (130)
Q Consensus 36 ~~Q~~~i~~~~-----~g----~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 106 (130)
|.|.-.+..++ .| +.+++.-|-+.|||.....-.+-.+.-.. ..+..+++.+++++
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g---------------~~~~~i~~~A~~~~ 65 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDG---------------EPGAEIYCAANTRD 65 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCC---------------ccCceEEEEeCCHH
Confidence 45666555554 22 47888889999999754322222222111 11267999999999
Q ss_pred HHHHHHHHHHHHHhcC
Q psy3307 107 LATQIYDEAKKFAYRS 122 (130)
Q Consensus 107 La~q~~~~~~~l~~~~ 122 (130)
.|..+++.++++.+..
T Consensus 66 QA~~~f~~~~~~i~~~ 81 (477)
T PF03354_consen 66 QAKIVFDEAKKMIEAS 81 (477)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 9999999998887653
No 395
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=88.47 E-value=0.95 Score=37.71 Aligned_cols=18 Identities=17% Similarity=0.340 Sum_probs=15.4
Q ss_pred CcEEEEccCCchHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~ 66 (130)
.++++.|+||||||+..-
T Consensus 431 ~n~~I~G~tGsGKS~~~~ 448 (797)
T TIGR02746 431 YNIAVVGGSGAGKSFFMQ 448 (797)
T ss_pred cceEEEcCCCCCHHHHHH
Confidence 479999999999998654
No 396
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=88.45 E-value=0.38 Score=36.48 Aligned_cols=17 Identities=29% Similarity=0.530 Sum_probs=15.0
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.++++.||+|+|||...
T Consensus 56 ~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 57999999999999753
No 397
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.39 E-value=3.7 Score=32.73 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=13.8
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.+|+|+|||...
T Consensus 38 a~Lf~GppGtGKTTlA 53 (504)
T PRK14963 38 AYLFSGPRGVGKTTTA 53 (504)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3599999999999875
No 398
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.35 E-value=1.1 Score=35.53 Aligned_cols=19 Identities=32% Similarity=0.517 Sum_probs=16.2
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.-+++.+++|+|||...
T Consensus 30 ~Gs~~li~G~pGsGKT~l~ 48 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFA 48 (509)
T ss_pred CCcEEEEEeCCCCCHHHHH
Confidence 4678999999999999754
No 399
>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=88.32 E-value=0.95 Score=31.42 Aligned_cols=24 Identities=21% Similarity=0.358 Sum_probs=18.2
Q ss_pred HhHHhc-----CCcEEEEccCCchHHHHH
Q psy3307 42 IPVIIS-----GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 42 i~~~~~-----g~~~l~~aptGsGKT~~~ 65 (130)
++.++. |.-+.+.+++|+|||...
T Consensus 8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (218)
T cd01394 8 LDELLGGGVERGTVTQVYGPPGTGKTNIA 36 (218)
T ss_pred HHHHhcCCccCCeEEEEECCCCCCHHHHH
Confidence 455554 466889999999999754
No 400
>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=88.27 E-value=0.4 Score=31.16 Aligned_cols=13 Identities=23% Similarity=0.588 Sum_probs=11.6
Q ss_pred EEEEccCCchHHH
Q psy3307 51 VMACAQTGSGKTA 63 (130)
Q Consensus 51 ~l~~aptGsGKT~ 63 (130)
+++.+|+|||||.
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 5789999999996
No 401
>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=88.25 E-value=0.68 Score=33.09 Aligned_cols=21 Identities=29% Similarity=0.363 Sum_probs=13.9
Q ss_pred EEccCCchHHHHHHHHHHHHHH
Q psy3307 53 ACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 53 ~~aptGsGKT~~~~l~~l~~~~ 74 (130)
+.||.|||||. |+-.+-+++.
T Consensus 1 ViGpaGSGKTT-~~~~~~~~~~ 21 (238)
T PF03029_consen 1 VIGPAGSGKTT-FCKGLSEWLE 21 (238)
T ss_dssp -EESTTSSHHH-HHHHHHHHHT
T ss_pred CCCCCCCCHHH-HHHHHHHHHH
Confidence 46899999995 5455555443
No 402
>KOG0991|consensus
Probab=88.23 E-value=0.58 Score=33.94 Aligned_cols=18 Identities=28% Similarity=0.601 Sum_probs=15.9
Q ss_pred CcEEEEccCCchHHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~ 66 (130)
.++++.+|+|+|||.+..
T Consensus 49 P~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSIL 66 (333)
T ss_pred CceEeeCCCCCchhhHHH
Confidence 499999999999998754
No 403
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=88.22 E-value=0.58 Score=34.27 Aligned_cols=31 Identities=29% Similarity=0.461 Sum_probs=24.4
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
+..|.-+++.+|+|||||. .+=+++++.+..
T Consensus 24 I~~gef~vliGpSGsGKTT--tLkMINrLiept 54 (309)
T COG1125 24 IEEGEFLVLIGPSGSGKTT--TLKMINRLIEPT 54 (309)
T ss_pred ecCCeEEEEECCCCCcHHH--HHHHHhcccCCC
Confidence 3478889999999999998 467777776543
No 404
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.09 E-value=0.95 Score=35.82 Aligned_cols=19 Identities=32% Similarity=0.475 Sum_probs=15.7
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|..+++.+++|+|||...
T Consensus 272 ~g~~~li~G~~G~GKT~l~ 290 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLA 290 (509)
T ss_pred CCcEEEEEcCCCCCHHHHH
Confidence 3578889999999999754
No 405
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=88.08 E-value=0.78 Score=30.85 Aligned_cols=25 Identities=16% Similarity=0.191 Sum_probs=17.0
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
-.++.|++|+|||.. +-++..+...
T Consensus 21 ~~vi~G~Ng~GKSti--l~ai~~~L~~ 45 (202)
T PF13476_consen 21 LNVIYGPNGSGKSTI--LEAIRYALGG 45 (202)
T ss_dssp EEEEEESTTSSHHHH--HHHHHHHHHS
T ss_pred cEEEECCCCCCHHHH--HHHHHHHHcC
Confidence 456789999999974 3455555533
No 406
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=88.04 E-value=1 Score=37.85 Aligned_cols=16 Identities=31% Similarity=0.459 Sum_probs=14.1
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
.+.+++||||+|||..
T Consensus 437 ghT~I~G~tGaGKTvL 452 (796)
T COG3451 437 GHTLIIGPTGAGKTVL 452 (796)
T ss_pred CCeEEECCCCCCHHHH
Confidence 4789999999999964
No 407
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=88.04 E-value=1.5 Score=28.73 Aligned_cols=24 Identities=25% Similarity=0.412 Sum_probs=17.1
Q ss_pred EEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.++++.+||||.. +--++..+.+
T Consensus 3 v~VvG~~~sGKTTl-~~~Li~~l~~ 26 (140)
T PF03205_consen 3 VQVVGPKNSGKTTL-IRKLINELKR 26 (140)
T ss_dssp EEEEESTTSSHHHH-HHHHHHHHHH
T ss_pred EEEECCCCCCHHHH-HHHHHHHHhH
Confidence 67899999999964 3455555554
No 408
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=87.92 E-value=2.1 Score=33.42 Aligned_cols=26 Identities=23% Similarity=0.268 Sum_probs=18.2
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
..+++.||+|+|||... -.+.+.+..
T Consensus 131 n~l~lyG~~G~GKTHLl-~ai~~~l~~ 156 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLL-QSIGNYVVQ 156 (440)
T ss_pred CeEEEEcCCCCcHHHHH-HHHHHHHHH
Confidence 46999999999999632 344444443
No 409
>KOG0726|consensus
Probab=87.91 E-value=1 Score=33.77 Aligned_cols=56 Identities=20% Similarity=0.245 Sum_probs=35.2
Q ss_pred cccccCCCcCCCCCHHHHHHHHH---CCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 6 VSLKKQGFDDIQMTEIITNNIAL---ARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 6 ~~~~~~~f~~l~l~~~i~~~l~~---~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
...|..+|.|.|=-+..++.+++ +..++|--++.-. +.--+.+++.+++|+|||+.
T Consensus 177 eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemG---ikpPKGVIlyG~PGTGKTLL 235 (440)
T KOG0726|consen 177 EKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMG---IKPPKGVILYGEPGTGKTLL 235 (440)
T ss_pred ccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcC---CCCCCeeEEeCCCCCchhHH
Confidence 34577889998855554445544 3444443333322 22347899999999999974
No 410
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=87.90 E-value=0.49 Score=29.70 Aligned_cols=20 Identities=30% Similarity=0.381 Sum_probs=16.5
Q ss_pred cCCcEEEEccCCchHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~ 66 (130)
.|+-+.+.+|+|+|||....
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~ 33 (107)
T cd00820 14 GKVGVLITGDSGIGKTELAL 33 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHH
Confidence 56778999999999998543
No 411
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=87.78 E-value=1.3 Score=29.99 Aligned_cols=15 Identities=20% Similarity=0.288 Sum_probs=12.5
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+++.+++|||||...
T Consensus 2 ~li~G~~~sGKS~~a 16 (169)
T cd00544 2 ILVTGGARSGKSRFA 16 (169)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999654
No 412
>KOG0741|consensus
Probab=87.78 E-value=0.62 Score=37.49 Aligned_cols=101 Identities=15% Similarity=0.178 Sum_probs=52.8
Q ss_pred ccccCCCcCCC---CCHHHHHHHHHCCCCCCcHHHHHHHh-HH------hcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 7 SLKKQGFDDIQ---MTEIITNNIALARYDKPTPVQKYAIP-VI------ISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 7 ~~~~~~f~~l~---l~~~i~~~l~~~~~~~~t~~Q~~~i~-~~------~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
..|.-.|+++| |+.+.-+.+++. .-.+++| .+ .+-+.+++-+|+|+|||+-. =-+-.+...
T Consensus 212 i~Pdf~Fe~mGIGGLd~EFs~IFRRA-------FAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiA--RqIGkMLNA 282 (744)
T KOG0741|consen 212 INPDFNFESMGIGGLDKEFSDIFRRA-------FASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIA--RQIGKMLNA 282 (744)
T ss_pred cCCCCChhhcccccchHHHHHHHHHH-------HHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHH--HHHHHHhcC
Confidence 45666788886 556655554331 1122222 12 24478999999999999843 223333333
Q ss_pred CCCCCCCCCCCCCCCCCCCceEE--EEcC----cHHHHHHHHHHHHHHHhcCCCceE
Q psy3307 77 GPLPTPPAGRGYPSRKKVFPLGL--VLAP----TRELATQIYDEAKKFAYRSQLRPC 127 (130)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~l--il~P----t~~La~q~~~~~~~l~~~~~~~~~ 127 (130)
+.. +-.+||.+| ++-- -|.|=.+..++.++++.+.++.+.
T Consensus 283 reP-----------KIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHII 328 (744)
T KOG0741|consen 283 REP-----------KIVNGPEILNKYVGESEENVRKLFADAEEEQRRLGANSGLHII 328 (744)
T ss_pred CCC-----------cccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEE
Confidence 221 011122222 2222 355555666667777777666543
No 413
>PRK14531 adenylate kinase; Provisional
Probab=87.72 E-value=0.36 Score=32.77 Aligned_cols=16 Identities=19% Similarity=0.401 Sum_probs=13.8
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
+.+++.+++|||||..
T Consensus 3 ~~i~i~G~pGsGKsT~ 18 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQ 18 (183)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4689999999999965
No 414
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=87.64 E-value=1.6 Score=32.36 Aligned_cols=25 Identities=20% Similarity=0.108 Sum_probs=19.0
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
-+++.++-|.|||.+...-.+....
T Consensus 3 ~~~~~GKGGVGKTT~aaA~A~~~A~ 27 (305)
T PF02374_consen 3 ILFFGGKGGVGKTTVAAALALALAR 27 (305)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred EEEEecCCCCCcHHHHHHHHHHHhh
Confidence 4688999999999987666665443
No 415
>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=87.63 E-value=1.6 Score=29.03 Aligned_cols=14 Identities=29% Similarity=0.351 Sum_probs=11.6
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+.+.+++|||||..
T Consensus 2 i~i~G~~gsGKTtl 15 (155)
T TIGR00176 2 LQIVGPKNSGKTTL 15 (155)
T ss_pred EEEECCCCCCHHHH
Confidence 46789999999963
No 416
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=87.52 E-value=2.1 Score=33.41 Aligned_cols=26 Identities=27% Similarity=0.310 Sum_probs=18.0
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.+++.||+|+|||... -.+...+..
T Consensus 149 ~~l~l~G~~G~GKThL~-~ai~~~~~~ 174 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL-HAIGNYILE 174 (450)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHH
Confidence 46899999999999642 344444443
No 417
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=87.48 E-value=0.45 Score=35.38 Aligned_cols=17 Identities=35% Similarity=0.401 Sum_probs=14.1
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
+-+++.||||||||...
T Consensus 5 ~~i~i~GptgsGKt~la 21 (307)
T PRK00091 5 KVIVIVGPTASGKTALA 21 (307)
T ss_pred eEEEEECCCCcCHHHHH
Confidence 45789999999999754
No 418
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=87.41 E-value=1.6 Score=34.49 Aligned_cols=48 Identities=13% Similarity=0.341 Sum_probs=33.0
Q ss_pred cCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHhc
Q psy3307 10 KQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYER 76 (130)
Q Consensus 10 ~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~ 76 (130)
..+.+|.+|++.+.+.|.+ +.+.+++.+|+|+|||. |.-++-..+...
T Consensus 243 k~~ledY~L~dkl~eRL~e------------------raeGILIAG~PGaGKsT-FaqAlAefy~~~ 290 (604)
T COG1855 243 KLSLEDYGLSDKLKERLEE------------------RAEGILIAGAPGAGKST-FAQALAEFYASQ 290 (604)
T ss_pred EechhhcCCCHHHHHHHHh------------------hhcceEEecCCCCChhH-HHHHHHHHHHhc
Confidence 3456677777777776653 24678999999999995 445555555543
No 419
>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=87.38 E-value=0.72 Score=31.16 Aligned_cols=19 Identities=32% Similarity=0.398 Sum_probs=15.4
Q ss_pred hcCCcEEEEccCCchHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~ 64 (130)
.....+++.+++||||++.
T Consensus 20 ~~~~pVlI~GE~GtGK~~l 38 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELL 38 (168)
T ss_dssp TSTS-EEEECSTTSSHHHH
T ss_pred CCCCCEEEEcCCCCcHHHH
Confidence 4557999999999999974
No 420
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=87.25 E-value=1.2 Score=31.03 Aligned_cols=19 Identities=37% Similarity=0.420 Sum_probs=15.7
Q ss_pred CCcEEEEccCCchHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~ 66 (130)
|.-+.+.+++|+|||...+
T Consensus 23 g~i~~i~G~~GsGKT~l~~ 41 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICL 41 (225)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 5688999999999997543
No 421
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=87.18 E-value=0.46 Score=34.96 Aligned_cols=16 Identities=31% Similarity=0.578 Sum_probs=14.8
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
++++..+|+|+|||..
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 7999999999999973
No 422
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=87.17 E-value=2.9 Score=36.80 Aligned_cols=64 Identities=19% Similarity=0.191 Sum_probs=39.9
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKK 117 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~ 117 (130)
++|. .++.|.-|||||++...-.+..+........ +.+.....++|+++=|+.-+.++...++.
T Consensus 16 L~G~-~LIEASAGTGKTyTIa~lyLrLlL~~g~~~~-------~~~~L~~~~ILvvTFT~aAt~Elr~RIr~ 79 (1181)
T PRK10876 16 LQGE-RLIEASAGTGKTFTIAALYLRLLLGLGGSAA-------FPRPLTVEEILVVTFTEAATEELRGRIRS 79 (1181)
T ss_pred CCCC-EEEEeCCCCcHHHHHHHHHHHHHccCCcccc-------ccCCCChhhEEEEechHHHHHHHHHHHHH
Confidence 4564 4569999999999876666666654321100 00011114699999888888877776653
No 423
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=87.14 E-value=1.3 Score=33.48 Aligned_cols=45 Identities=20% Similarity=0.138 Sum_probs=36.0
Q ss_pred CCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 31 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 31 ~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.--|+.|..-+..+.+..=++..+|-|+|||+.......+.+..
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~ 170 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGA 170 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhh
Confidence 445688999988888888888999999999998776666666554
No 424
>PRK06893 DNA replication initiation factor; Validated
Probab=87.08 E-value=0.39 Score=33.97 Aligned_cols=15 Identities=20% Similarity=0.122 Sum_probs=13.1
Q ss_pred CcEEEEccCCchHHH
Q psy3307 49 RDVMACAQTGSGKTA 63 (130)
Q Consensus 49 ~~~l~~aptGsGKT~ 63 (130)
..+++.||+|+|||.
T Consensus 40 ~~l~l~G~~G~GKTh 54 (229)
T PRK06893 40 PFFYIWGGKSSGKSH 54 (229)
T ss_pred CeEEEECCCCCCHHH
Confidence 457999999999995
No 425
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=86.98 E-value=3 Score=36.18 Aligned_cols=69 Identities=22% Similarity=0.055 Sum_probs=46.6
Q ss_pred CCcHHHHHHHhHHh--------cCCcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 33 KPTPVQKYAIPVII--------SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 33 ~~t~~Q~~~i~~~~--------~g~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
.-...|-.|+..+. .|--++=-|.||+|||++=. =++..+.. ...+.|..|-.-.
T Consensus 408 ~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA-RImyaLsd----------------~~~g~RfsiALGL 470 (1110)
T TIGR02562 408 PRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA-RAMYALRD----------------DKQGARFAIALGL 470 (1110)
T ss_pred CCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH-HHHHHhCC----------------CCCCceEEEEccc
Confidence 34568888887765 33466777999999998631 11212221 1223678888889
Q ss_pred HHHHHHHHHHHHHH
Q psy3307 105 RELATQIYDEAKKF 118 (130)
Q Consensus 105 ~~La~q~~~~~~~l 118 (130)
|.|..|..+.+++-
T Consensus 471 RTLTLQTGda~r~r 484 (1110)
T TIGR02562 471 RSLTLQTGHALKTR 484 (1110)
T ss_pred cceeccchHHHHHh
Confidence 99999999888763
No 426
>CHL00195 ycf46 Ycf46; Provisional
Probab=86.95 E-value=0.47 Score=37.55 Aligned_cols=18 Identities=22% Similarity=0.403 Sum_probs=15.4
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
.+.+++.||+|+|||+..
T Consensus 259 pkGILL~GPpGTGKTllA 276 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTA 276 (489)
T ss_pred CceEEEECCCCCcHHHHH
Confidence 367999999999999753
No 427
>PF14516 AAA_35: AAA-like domain
Probab=86.95 E-value=3 Score=31.24 Aligned_cols=39 Identities=23% Similarity=0.371 Sum_probs=31.2
Q ss_pred HHHHHHHhHHhc-CCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 36 PVQKYAIPVIIS-GRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 36 ~~Q~~~i~~~~~-g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
|+..+++..+.+ |..+.+.||-.+|||.. +.-+++++..
T Consensus 18 ~~e~~~~~~i~~~G~~~~I~apRq~GKTSl-l~~l~~~l~~ 57 (331)
T PF14516_consen 18 PAEQECYQEIVQPGSYIRIKAPRQMGKTSL-LLRLLERLQQ 57 (331)
T ss_pred HHHHHHHHHHhcCCCEEEEECcccCCHHHH-HHHHHHHHHH
Confidence 488888988887 99999999999999964 4555555554
No 428
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=86.93 E-value=3.3 Score=31.28 Aligned_cols=26 Identities=19% Similarity=0.351 Sum_probs=18.2
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHhcC
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYERG 77 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~~~ 77 (130)
-+++.+.+|+|||.+ +.=|.+.+...
T Consensus 141 Vil~vGVNG~GKTTT--IaKLA~~l~~~ 166 (340)
T COG0552 141 VILFVGVNGVGKTTT--IAKLAKYLKQQ 166 (340)
T ss_pred EEEEEecCCCchHhH--HHHHHHHHHHC
Confidence 568899999999986 34444445443
No 429
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=86.86 E-value=11 Score=28.13 Aligned_cols=52 Identities=17% Similarity=0.247 Sum_probs=28.9
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCc
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt 104 (130)
...++.||.|+||+... ......+.... .|..+....-....+|-..++.|+
T Consensus 27 ha~Lf~G~~G~Gk~~~A-~~~a~~llc~~---~c~~c~~~~~~~~~hPDl~~i~p~ 78 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAA-LCFIEGLLSQG---SPSKNIRRRLEEGNHPDLLWVEPT 78 (314)
T ss_pred ceEEEECCCCCCHHHHH-HHHHHHHcCCC---CCCCcHhcccccCCCCCEEEEecc
Confidence 37899999999998643 34444444332 121111111223344777888875
No 430
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=86.83 E-value=0.45 Score=32.02 Aligned_cols=14 Identities=36% Similarity=0.503 Sum_probs=12.3
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+++.|++|||||..
T Consensus 2 i~i~G~pGsGKst~ 15 (183)
T TIGR01359 2 VFVLGGPGSGKGTQ 15 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999974
No 431
>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=86.83 E-value=1.5 Score=33.48 Aligned_cols=16 Identities=19% Similarity=0.316 Sum_probs=13.8
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
+-+++.||+|+|||..
T Consensus 79 ~il~L~GPPGsGKStl 94 (361)
T smart00763 79 QILYLLGPVGGGKSSL 94 (361)
T ss_pred cEEEEECCCCCCHHHH
Confidence 5679999999999974
No 432
>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=86.71 E-value=0.48 Score=33.28 Aligned_cols=27 Identities=22% Similarity=0.434 Sum_probs=20.2
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
+..|.-+.+.+|+|||||. ++-++..+
T Consensus 28 i~~Ge~~~l~G~nGsGKST--Ll~~l~G~ 54 (233)
T cd03258 28 VPKGEIFGIIGRSGAGKST--LIRCINGL 54 (233)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHhCC
Confidence 4478899999999999997 34444433
No 433
>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=86.68 E-value=2.5 Score=32.37 Aligned_cols=26 Identities=27% Similarity=0.354 Sum_probs=18.1
Q ss_pred CcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 49 RDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
..+++.|++|+|||... -.+...+..
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~ 162 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILE 162 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHH
Confidence 46899999999999643 344444443
No 434
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=86.68 E-value=1.1 Score=33.38 Aligned_cols=46 Identities=9% Similarity=0.107 Sum_probs=28.4
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHHHhHHhcC---CcEEEEccCCchHHHH
Q psy3307 18 MTEIITNNIALARYDKPTPVQKYAIPVIISG---RDVMACAQTGSGKTAA 64 (130)
Q Consensus 18 l~~~i~~~l~~~~~~~~t~~Q~~~i~~~~~g---~~~l~~aptGsGKT~~ 64 (130)
+.+.+.+.|.+.++..+.+- -..|..+... --+++.|++|||||..
T Consensus 60 l~~~V~~~L~~~~~~~~~~~-y~~~~~i~~~~~p~iIlI~G~sgsGKStl 108 (301)
T PRK04220 60 LRRRVYYKLIEKDYEEVAEK-YLLWRRIRKSKEPIIILIGGASGVGTSTI 108 (301)
T ss_pred HHHHHHHHHHHhCcHhHHHH-HHHHHHHhcCCCCEEEEEECCCCCCHHHH
Confidence 34456666777666554432 3334344432 2689999999999973
No 435
>PRK08233 hypothetical protein; Provisional
Probab=86.66 E-value=0.47 Score=31.73 Aligned_cols=16 Identities=31% Similarity=0.464 Sum_probs=12.6
Q ss_pred CcEEEEccCCchHHHH
Q psy3307 49 RDVMACAQTGSGKTAA 64 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~ 64 (130)
.=+.+.|++|||||..
T Consensus 4 ~iI~I~G~~GsGKtTl 19 (182)
T PRK08233 4 KIITIAAVSGGGKTTL 19 (182)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3467789999999963
No 436
>PRK06762 hypothetical protein; Provisional
Probab=86.64 E-value=0.55 Score=31.13 Aligned_cols=16 Identities=31% Similarity=0.416 Sum_probs=13.2
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-++++|++|||||...
T Consensus 4 li~i~G~~GsGKST~A 19 (166)
T PRK06762 4 LIIIRGNSGSGKTTIA 19 (166)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4688999999999743
No 437
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=86.64 E-value=2.4 Score=31.81 Aligned_cols=19 Identities=37% Similarity=0.414 Sum_probs=15.6
Q ss_pred CCcEEEEccCCchHHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~~ 66 (130)
|+-+.+.+|+|||||...+
T Consensus 55 G~iteI~G~~GsGKTtLaL 73 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLAL 73 (321)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4678899999999997543
No 438
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=86.58 E-value=0.54 Score=26.69 Aligned_cols=14 Identities=29% Similarity=0.546 Sum_probs=11.8
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+.+.++.|||||..
T Consensus 2 i~i~G~~gsGKst~ 15 (69)
T cd02019 2 IAITGGSGSGKSTV 15 (69)
T ss_pred EEEECCCCCCHHHH
Confidence 56789999999964
No 439
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=86.52 E-value=0.56 Score=31.23 Aligned_cols=19 Identities=26% Similarity=0.422 Sum_probs=16.5
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|+-+++.++.|+|||...
T Consensus 13 ~g~gvLi~G~sG~GKStla 31 (149)
T cd01918 13 GGIGVLITGPSGIGKSELA 31 (149)
T ss_pred CCEEEEEEcCCCCCHHHHH
Confidence 5789999999999999654
No 440
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=86.46 E-value=0.57 Score=31.80 Aligned_cols=18 Identities=28% Similarity=0.492 Sum_probs=15.5
Q ss_pred cCCcEEEEccCCchHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~ 64 (130)
.|+-+.+.+++|+|||..
T Consensus 2 ~ge~i~l~G~sGsGKSTl 19 (176)
T PRK09825 2 AGESYILMGVSGSGKSLI 19 (176)
T ss_pred CCcEEEEECCCCCCHHHH
Confidence 477789999999999974
No 441
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=86.46 E-value=1.6 Score=32.66 Aligned_cols=18 Identities=22% Similarity=0.333 Sum_probs=14.6
Q ss_pred CCcEEEEccCCchHHHHH
Q psy3307 48 GRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~~ 65 (130)
+.-+.+.+|+|+|||...
T Consensus 114 ~~vi~lvGpnGsGKTTt~ 131 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTI 131 (318)
T ss_pred CeEEEEECCCCCcHHHHH
Confidence 456788999999999754
No 442
>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=86.45 E-value=2.6 Score=30.74 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=14.2
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
+-+++.+|+|+|||...
T Consensus 73 ~vi~l~G~~G~GKTTt~ 89 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTI 89 (272)
T ss_pred eEEEEECCCCCcHHHHH
Confidence 46778899999999764
No 443
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=86.43 E-value=0.56 Score=32.14 Aligned_cols=23 Identities=30% Similarity=0.379 Sum_probs=15.5
Q ss_pred EEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
+.+.|++|||||... -.|.....
T Consensus 2 IgI~G~sgSGKTTla--~~L~~~L~ 24 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLA--KRLAQILN 24 (194)
T ss_dssp EEEEESTTSSHHHHH--HHHHHHHT
T ss_pred EEEECCCCCCHHHHH--HHHHHHhC
Confidence 468999999999743 34444443
No 444
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=86.42 E-value=0.87 Score=34.01 Aligned_cols=25 Identities=16% Similarity=0.210 Sum_probs=19.4
Q ss_pred HHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 41 AIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 41 ~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
+-.....+..+++.|++||||+...
T Consensus 22 i~~~a~~~~pVlI~GE~GtGK~~lA 46 (326)
T PRK11608 22 VSRLAPLDKPVLIIGERGTGKELIA 46 (326)
T ss_pred HHHHhCCCCCEEEECCCCCcHHHHH
Confidence 3334457789999999999999753
No 445
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=86.40 E-value=0.53 Score=32.07 Aligned_cols=20 Identities=25% Similarity=0.242 Sum_probs=17.0
Q ss_pred hcCCcEEEEccCCchHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~ 65 (130)
..|.-+.+.+|+|+|||..+
T Consensus 19 ~~G~~~~l~G~nG~GKSTLl 38 (176)
T cd03238 19 PLNVLVVVTGVSGSGKSTLV 38 (176)
T ss_pred cCCCEEEEECCCCCCHHHHH
Confidence 46788899999999999754
No 446
>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=86.37 E-value=0.9 Score=34.05 Aligned_cols=26 Identities=19% Similarity=0.206 Sum_probs=19.6
Q ss_pred HHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 40 YAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 40 ~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
++-.....+..+++.|++||||+...
T Consensus 14 ~~~~~a~~~~pVLI~GE~GtGK~~lA 39 (329)
T TIGR02974 14 QVSRLAPLDRPVLIIGERGTGKELIA 39 (329)
T ss_pred HHHHHhCCCCCEEEECCCCChHHHHH
Confidence 33334456789999999999999743
No 447
>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=86.37 E-value=0.52 Score=32.04 Aligned_cols=19 Identities=21% Similarity=0.338 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 15 i~~Ge~~~i~G~nGsGKST 33 (190)
T TIGR01166 15 AERGEVLALLGANGAGKST 33 (190)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3478889999999999997
No 448
>KOG2373|consensus
Probab=86.32 E-value=0.24 Score=37.78 Aligned_cols=26 Identities=31% Similarity=0.299 Sum_probs=18.0
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
.|.-.++.+|||||||....=..+..
T Consensus 272 ~GElTvlTGpTGsGKTTFlsEYsLDL 297 (514)
T KOG2373|consen 272 PGELTVLTGPTGSGKTTFLSEYSLDL 297 (514)
T ss_pred CCceEEEecCCCCCceeEehHhhHHH
Confidence 34577899999999996543344433
No 449
>PRK05748 replicative DNA helicase; Provisional
Probab=86.31 E-value=1.4 Score=34.41 Aligned_cols=27 Identities=22% Similarity=0.271 Sum_probs=19.1
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMY 74 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~ 74 (130)
.|.-+++.|++|+|||.. .+-++....
T Consensus 202 ~G~livIaarpg~GKT~~-al~ia~~~a 228 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAF-ALNIAQNVA 228 (448)
T ss_pred CCceEEEEeCCCCCchHH-HHHHHHHHH
Confidence 446789999999999964 445544443
No 450
>KOG0737|consensus
Probab=86.24 E-value=0.84 Score=34.83 Aligned_cols=56 Identities=20% Similarity=0.285 Sum_probs=36.3
Q ss_pred ccccCCCcCCCCCHHHHHHHHHCCCCCCcHHHHHHH----hHHhcCCcEEEEccCCchHHHHH
Q psy3307 7 SLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAI----PVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 7 ~~~~~~f~~l~l~~~i~~~l~~~~~~~~t~~Q~~~i----~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
.....+|.|.+=-+.+.+++++.-. -|.|..-+ .....-+.+++.+|+|+|||.+.
T Consensus 85 ~~I~v~f~DIggLe~v~~~L~e~Vi---lPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlA 144 (386)
T KOG0737|consen 85 SEIGVSFDDIGGLEEVKDALQELVI---LPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLA 144 (386)
T ss_pred hhceeehhhccchHHHHHHHHHHHh---hcccchhhhcccccccCCccceecCCCCchHHHHH
Confidence 4456789999888888888876422 23322111 01113379999999999999854
No 451
>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=86.16 E-value=0.54 Score=32.49 Aligned_cols=19 Identities=32% Similarity=0.545 Sum_probs=16.5
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|||||.
T Consensus 24 i~~G~~~~i~G~nGsGKST 42 (214)
T cd03292 24 ISAGEFVFLVGPSGAGKST 42 (214)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3478889999999999997
No 452
>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=86.15 E-value=0.91 Score=33.79 Aligned_cols=23 Identities=39% Similarity=0.622 Sum_probs=16.9
Q ss_pred hHHhcCC--cEEEEccCCchHHHHH
Q psy3307 43 PVIISGR--DVMACAQTGSGKTAAF 65 (130)
Q Consensus 43 ~~~~~g~--~~l~~aptGsGKT~~~ 65 (130)
..+++|. .++.-|+||||||.+.
T Consensus 68 ~~~l~G~n~~i~ayG~tgSGKT~Tm 92 (335)
T PF00225_consen 68 DSVLDGYNATIFAYGQTGSGKTYTM 92 (335)
T ss_dssp HHHHTT-EEEEEEEESTTSSHHHHH
T ss_pred HHhhcCCceEEEeeccccccccccc
Confidence 4456886 4677889999999764
No 453
>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=86.11 E-value=0.51 Score=31.71 Aligned_cols=17 Identities=24% Similarity=0.384 Sum_probs=13.8
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.-+++.|++|||||...
T Consensus 4 ~ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQC 20 (188)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 35788999999999753
No 454
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=86.10 E-value=0.65 Score=31.47 Aligned_cols=17 Identities=29% Similarity=0.546 Sum_probs=14.8
Q ss_pred CCcEEEEccCCchHHHH
Q psy3307 48 GRDVMACAQTGSGKTAA 64 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~ 64 (130)
++-+++.||+||||+..
T Consensus 2 ~r~ivl~Gpsg~GK~~l 18 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTL 18 (183)
T ss_dssp SSEEEEESSTTSSHHHH
T ss_pred CCEEEEECCCCCCHHHH
Confidence 57789999999999963
No 455
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=86.09 E-value=0.54 Score=32.77 Aligned_cols=21 Identities=29% Similarity=0.214 Sum_probs=17.2
Q ss_pred HhcCCcEEEEccCCchHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~ 65 (130)
+..|.-+.+.+|+|+|||..+
T Consensus 10 i~~Ge~~~l~G~NGsGKSTLl 30 (213)
T PRK15177 10 MGYHEHIGILAAPGSGKTTLT 30 (213)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 346788899999999999743
No 456
>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=86.07 E-value=0.52 Score=32.35 Aligned_cols=26 Identities=31% Similarity=0.500 Sum_probs=19.4
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
+..|.-+.+.+|+|+|||. ++-++.-
T Consensus 21 i~~Ge~~~i~G~nGsGKST--Ll~~l~G 46 (206)
T TIGR03608 21 IEKGKMYAIIGESGSGKST--LLNIIGL 46 (206)
T ss_pred EeCCcEEEEECCCCCCHHH--HHHHHhc
Confidence 3478889999999999997 3444443
No 457
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=86.06 E-value=1 Score=35.45 Aligned_cols=59 Identities=22% Similarity=0.254 Sum_probs=32.6
Q ss_pred cccccccCCCcCCCCCHHHHHHHHHC---CCCCCcHHHHHHHhHHhcCCcEEEEccCCchHHHHH
Q psy3307 4 CLVSLKKQGFDDIQMTEIITNNIALA---RYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 4 ~~~~~~~~~f~~l~l~~~i~~~l~~~---~~~~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~~ 65 (130)
.....+..+|.+.+--+...+.+++. ....+.-.+.. -+-..+.+++.+|+|+|||+..
T Consensus 232 ~~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~---~~~~~~giLl~GpPGtGKT~lA 293 (494)
T COG0464 232 VLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKL---GLRPPKGVLLYGPPGTGKTLLA 293 (494)
T ss_pred cccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhc---CCCCCCeeEEECCCCCCHHHHH
Confidence 34556677788876444444444331 22222221110 1223358999999999999854
No 458
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=86.02 E-value=0.59 Score=34.78 Aligned_cols=17 Identities=29% Similarity=0.372 Sum_probs=14.8
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
..+++.||+|+|||...
T Consensus 52 ~~~ll~GppG~GKT~la 68 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLA 68 (328)
T ss_pred CcEEEECCCCccHHHHH
Confidence 57999999999999754
No 459
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=86.02 E-value=0.62 Score=31.50 Aligned_cols=15 Identities=27% Similarity=0.472 Sum_probs=12.8
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
.+++.|++|||||..
T Consensus 1 ~I~i~G~pGsGKst~ 15 (194)
T cd01428 1 RILLLGPPGSGKGTQ 15 (194)
T ss_pred CEEEECCCCCCHHHH
Confidence 378999999999954
No 460
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=85.98 E-value=1.5 Score=37.15 Aligned_cols=17 Identities=24% Similarity=0.388 Sum_probs=14.4
Q ss_pred cEEEEccCCchHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFL 66 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~ 66 (130)
+.++.||||+|||+..-
T Consensus 490 h~~I~G~tGsGKS~l~~ 506 (852)
T PRK13891 490 HTFMFGPTGAGKSTHLG 506 (852)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 57999999999997643
No 461
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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=85.98 E-value=0.55 Score=32.51 Aligned_cols=19 Identities=26% Similarity=0.406 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 23 i~~Ge~~~i~G~nGsGKST 41 (213)
T cd03259 23 VEPGEFLALLGPSGCGKTT 41 (213)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 3478889999999999997
No 462
>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=85.96 E-value=0.56 Score=32.42 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=17.1
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+..|.-+.+.+|+|+|||..
T Consensus 25 i~~G~~~~l~G~nGsGKSTL 44 (214)
T TIGR02673 25 IRKGEFLFLTGPSGAGKTTL 44 (214)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 45788899999999999973
No 463
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=85.95 E-value=0.63 Score=30.26 Aligned_cols=15 Identities=27% Similarity=0.445 Sum_probs=12.5
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+++.+++|||||...
T Consensus 2 i~l~G~~GsGKST~a 16 (150)
T cd02021 2 IVVMGVSGSGKSTVG 16 (150)
T ss_pred EEEEcCCCCCHHHHH
Confidence 578999999999753
No 464
>KOG0349|consensus
Probab=85.91 E-value=1.8 Score=34.10 Aligned_cols=28 Identities=29% Similarity=0.564 Sum_probs=24.1
Q ss_pred CceEEEEcCcHHHHHHHHHHHHHHHhcC
Q psy3307 95 FPLGLVLAPTRELATQIYDEAKKFAYRS 122 (130)
Q Consensus 95 ~~~~lil~Pt~~La~q~~~~~~~l~~~~ 122 (130)
-|+++|+-|+|+|++|.++.+++|-.++
T Consensus 286 ap~avivepsrelaEqt~N~i~~Fk~h~ 313 (725)
T KOG0349|consen 286 APEAVIVEPSRELAEQTHNQIEEFKMHT 313 (725)
T ss_pred CcceeEecCcHHHHHHHHhhHHHHHhhc
Confidence 4899999999999999999887776554
No 465
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=85.86 E-value=0.58 Score=31.53 Aligned_cols=19 Identities=26% Similarity=0.567 Sum_probs=16.7
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+++|+|||.
T Consensus 25 i~~Ge~~~i~G~nGsGKSt 43 (178)
T cd03247 25 LKQGEKIALLGRSGSGKST 43 (178)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3478899999999999997
No 466
>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=85.82 E-value=1.7 Score=32.64 Aligned_cols=13 Identities=38% Similarity=0.529 Sum_probs=11.1
Q ss_pred EEEEccCCchHHH
Q psy3307 51 VMACAQTGSGKTA 63 (130)
Q Consensus 51 ~l~~aptGsGKT~ 63 (130)
.++-||||+||+-
T Consensus 90 ~~VYGPTG~GKSq 102 (369)
T PF02456_consen 90 GVVYGPTGSGKSQ 102 (369)
T ss_pred EEEECCCCCCHHH
Confidence 4778999999985
No 467
>PRK05541 adenylylsulfate kinase; Provisional
Probab=85.80 E-value=0.6 Score=31.33 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=16.0
Q ss_pred cCCcEEEEccCCchHHHHH
Q psy3307 47 SGRDVMACAQTGSGKTAAF 65 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~ 65 (130)
.|.-+++.|++|||||...
T Consensus 6 ~~~~I~i~G~~GsGKst~a 24 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIA 24 (176)
T ss_pred CCCEEEEEcCCCCCHHHHH
Confidence 5678999999999999743
No 468
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=85.78 E-value=0.67 Score=30.03 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=13.5
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
++++.+++|+|||...
T Consensus 1 ~i~l~G~~GsGKstla 16 (154)
T cd00464 1 NIVLIGMMGAGKTTVG 16 (154)
T ss_pred CEEEEcCCCCCHHHHH
Confidence 4789999999999753
No 469
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=85.75 E-value=1.5 Score=36.89 Aligned_cols=18 Identities=22% Similarity=0.494 Sum_probs=15.1
Q ss_pred cEEEEccCCchHHHHHHH
Q psy3307 50 DVMACAQTGSGKTAAFLV 67 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l 67 (130)
+.++.|+||||||+..-.
T Consensus 443 n~~I~G~tGsGKS~l~~~ 460 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLAL 460 (811)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 789999999999976433
No 470
>PRK14532 adenylate kinase; Provisional
Probab=85.72 E-value=0.52 Score=31.93 Aligned_cols=15 Identities=13% Similarity=0.348 Sum_probs=13.1
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
++++.+++|||||..
T Consensus 2 ~i~~~G~pGsGKsT~ 16 (188)
T PRK14532 2 NLILFGPPAAGKGTQ 16 (188)
T ss_pred EEEEECCCCCCHHHH
Confidence 588999999999964
No 471
>PHA00729 NTP-binding motif containing protein
Probab=85.69 E-value=0.65 Score=33.07 Aligned_cols=15 Identities=33% Similarity=0.492 Sum_probs=13.6
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
++++.|++|+|||..
T Consensus 19 nIlItG~pGvGKT~L 33 (226)
T PHA00729 19 SAVIFGKQGSGKTTY 33 (226)
T ss_pred EEEEECCCCCCHHHH
Confidence 899999999999964
No 472
>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=85.66 E-value=4 Score=29.19 Aligned_cols=28 Identities=29% Similarity=0.249 Sum_probs=19.0
Q ss_pred cCCcEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 47 SGRDVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 47 ~g~~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.|.=+++.|.+|.|||... +-+...+..
T Consensus 18 ~g~L~vi~a~pg~GKT~~~-l~ia~~~a~ 45 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFA-LQIALNAAL 45 (259)
T ss_dssp TT-EEEEEESTTSSHHHHH-HHHHHHHHH
T ss_pred cCcEEEEEecccCCchHHH-HHHHHHHHH
Confidence 4467889999999999654 444444444
No 473
>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=85.64 E-value=0.58 Score=32.46 Aligned_cols=19 Identities=37% Similarity=0.497 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 27 i~~G~~~~l~G~nGsGKST 45 (218)
T cd03255 27 IEKGEFVAIVGPSGSGKST 45 (218)
T ss_pred EcCCCEEEEEcCCCCCHHH
Confidence 3478899999999999997
No 474
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=85.59 E-value=0.59 Score=32.75 Aligned_cols=19 Identities=21% Similarity=0.426 Sum_probs=16.7
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 30 i~~Ge~~~i~G~nGsGKST 48 (225)
T PRK10247 30 LRAGEFKLITGPSGCGKST 48 (225)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3478899999999999997
No 475
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=85.57 E-value=0.59 Score=32.32 Aligned_cols=27 Identities=26% Similarity=0.449 Sum_probs=19.9
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
+..|.-+.+.+|+|+|||. ++-++..+
T Consensus 23 i~~Ge~~~l~G~nGsGKST--Ll~~l~G~ 49 (213)
T cd03301 23 IADGEFVVLLGPSGCGKTT--TLRMIAGL 49 (213)
T ss_pred EcCCcEEEEECCCCCCHHH--HHHHHhCC
Confidence 3478889999999999997 34444433
No 476
>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=85.56 E-value=0.52 Score=32.55 Aligned_cols=26 Identities=19% Similarity=0.273 Sum_probs=19.3
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQ 72 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~ 72 (130)
+..|.-+.+.+|+|+|||. ++-++..
T Consensus 23 i~~G~~~~i~G~nGsGKST--Ll~~l~G 48 (210)
T cd03269 23 VEKGEIFGLLGPNGAGKTT--TIRMILG 48 (210)
T ss_pred EcCCcEEEEECCCCCCHHH--HHHHHhC
Confidence 3477888999999999997 3444443
No 477
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=85.53 E-value=3.2 Score=24.69 Aligned_cols=56 Identities=14% Similarity=0.137 Sum_probs=35.3
Q ss_pred EEEEccCCchHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCceEEEEcCcHHHHHHHHHHHHHHHhcCCCceEEe
Q psy3307 51 VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129 (130)
Q Consensus 51 ~l~~aptGsGKT~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~l~~~~~~~~~~~ 129 (130)
+++-.|+|+|--. +.+++.+.. ..+++++.-.+++.+..+..-.+.+.+++.+..+
T Consensus 4 LiiD~PPGTgD~~---l~~~~~~~~--------------------~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGv 59 (81)
T PF10609_consen 4 LIIDLPPGTGDEH---LTLMQYLPI--------------------DGAIVVTTPQELALADVRRAIDMFRKLNVPILGV 59 (81)
T ss_dssp EEEE--SCSSSHH---HHHHHHH----------------------SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEE
T ss_pred EEEeCCCCCCcHH---HHHHHhCCC--------------------CeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEE
Confidence 5678899999975 344444431 2366666667889999999889999999887654
No 478
>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=85.52 E-value=0.43 Score=32.60 Aligned_cols=26 Identities=35% Similarity=0.447 Sum_probs=20.0
Q ss_pred HHHhHHhcCC--cEEEEccCCchHHHHH
Q psy3307 40 YAIPVIISGR--DVMACAQTGSGKTAAF 65 (130)
Q Consensus 40 ~~i~~~~~g~--~~l~~aptGsGKT~~~ 65 (130)
.++..+++|. .++.-++||||||.+.
T Consensus 14 ~~v~~~~~G~n~~i~~yG~tGsGKT~Tm 41 (186)
T cd01363 14 PLLQSALDGYNVCIFAYGQTGSGKTYTM 41 (186)
T ss_pred HHHHHHhCCcceeEEEECCCCCcceEec
Confidence 5566777885 5688899999999653
No 479
>KOG0732|consensus
Probab=85.40 E-value=0.7 Score=39.72 Aligned_cols=55 Identities=24% Similarity=0.180 Sum_probs=35.7
Q ss_pred ccCCCcCCCCCHHHHHHHHHCCCC-CCcHHHHHHHhHHhcCCcEEEEccCCchHHHH
Q psy3307 9 KKQGFDDIQMTEIITNNIALARYD-KPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 9 ~~~~f~~l~l~~~i~~~l~~~~~~-~~t~~Q~~~i~~~~~g~~~l~~aptGsGKT~~ 64 (130)
....|.+.|..+..+..|++.-.. -.+|-+..-+ .+.--+.++.++|+|||||+-
T Consensus 260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~-~itpPrgvL~~GppGTGkTl~ 315 (1080)
T KOG0732|consen 260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNF-NITPPRGVLFHGPPGTGKTLM 315 (1080)
T ss_pred cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhc-ccCCCcceeecCCCCCchhHH
Confidence 356788999888888888876432 1122111100 223357899999999999974
No 480
>PRK14737 gmk guanylate kinase; Provisional
Probab=85.38 E-value=0.64 Score=31.91 Aligned_cols=17 Identities=18% Similarity=0.341 Sum_probs=14.5
Q ss_pred CCcEEEEccCCchHHHH
Q psy3307 48 GRDVMACAQTGSGKTAA 64 (130)
Q Consensus 48 g~~~l~~aptGsGKT~~ 64 (130)
++-++++||+|+||+..
T Consensus 4 ~~~ivl~GpsG~GK~tl 20 (186)
T PRK14737 4 PKLFIISSVAGGGKSTI 20 (186)
T ss_pred CeEEEEECCCCCCHHHH
Confidence 56689999999999964
No 481
>KOG1942|consensus
Probab=85.38 E-value=0.67 Score=34.72 Aligned_cols=24 Identities=38% Similarity=0.609 Sum_probs=18.9
Q ss_pred hcCCcEEEEccCCchHHHHHHHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAAFLVPIL 70 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~~~l~~l 70 (130)
+.|+-+++.+|+|+|||... +.+-
T Consensus 62 maGravLlaGppgtGKTAlA-lais 85 (456)
T KOG1942|consen 62 MAGRAVLLAGPPGTGKTALA-LAIS 85 (456)
T ss_pred ccCcEEEEecCCCCchhHHH-HHHH
Confidence 48899999999999999543 4443
No 482
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. 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=85.34 E-value=0.63 Score=31.39 Aligned_cols=19 Identities=32% Similarity=0.403 Sum_probs=16.4
Q ss_pred hcCCcEEEEccCCchHHHH
Q psy3307 46 ISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 46 ~~g~~~l~~aptGsGKT~~ 64 (130)
..|.-+.+.+|+|+|||..
T Consensus 24 ~~G~~~~i~G~nGsGKSTL 42 (178)
T cd03229 24 EAGEIVALLGPSGSGKSTL 42 (178)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 4778889999999999973
No 483
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=85.34 E-value=0.61 Score=32.91 Aligned_cols=20 Identities=30% Similarity=0.419 Sum_probs=17.1
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+..|.-+.+.+|+|+|||..
T Consensus 25 i~~Ge~~~l~G~nGsGKSTL 44 (243)
T TIGR02315 25 INPGEFVAIIGPSGAGKSTL 44 (243)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 34788999999999999973
No 484
>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=85.31 E-value=0.68 Score=33.84 Aligned_cols=17 Identities=24% Similarity=0.341 Sum_probs=14.4
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.++++.+|+|+|||...
T Consensus 31 ~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 46999999999999643
No 485
>PRK08356 hypothetical protein; Provisional
Probab=85.21 E-value=0.69 Score=31.73 Aligned_cols=17 Identities=24% Similarity=0.163 Sum_probs=13.8
Q ss_pred CcEEEEccCCchHHHHH
Q psy3307 49 RDVMACAQTGSGKTAAF 65 (130)
Q Consensus 49 ~~~l~~aptGsGKT~~~ 65 (130)
.-+++++|+|||||...
T Consensus 6 ~~i~~~G~~gsGK~t~a 22 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVA 22 (195)
T ss_pred EEEEEECCCCCCHHHHH
Confidence 35788999999999753
No 486
>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=85.17 E-value=8.9 Score=25.53 Aligned_cols=25 Identities=16% Similarity=0.270 Sum_probs=16.8
Q ss_pred cEEEEccCCchHHHHHHHHHHHHHHh
Q psy3307 50 DVMACAQTGSGKTAAFLVPILNQMYE 75 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~~l~~l~~~~~ 75 (130)
.+++.||.|+||+... ......+..
T Consensus 21 a~L~~G~~g~gk~~~a-~~~a~~ll~ 45 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLA-LAFARALLC 45 (162)
T ss_dssp EEEEECSTTSSHHHHH-HHHHHHHC-
T ss_pred eEEEECCCCCCHHHHH-HHHHHHHcC
Confidence 5799999999998654 344444443
No 487
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. 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=85.15 E-value=0.59 Score=32.54 Aligned_cols=19 Identities=26% Similarity=0.440 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 27 i~~G~~~~i~G~nGsGKST 45 (220)
T cd03293 27 VEEGEFVALVGPSGCGKST 45 (220)
T ss_pred EeCCcEEEEECCCCCCHHH
Confidence 3478889999999999997
No 488
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=85.14 E-value=0.64 Score=32.09 Aligned_cols=19 Identities=32% Similarity=0.541 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 23 i~~G~~~~l~G~nGsGKST 41 (213)
T cd03262 23 VKKGEVVVIIGPSGSGKST 41 (213)
T ss_pred ECCCCEEEEECCCCCCHHH
Confidence 3478889999999999996
No 489
>PRK01184 hypothetical protein; Provisional
Probab=85.14 E-value=0.66 Score=31.31 Aligned_cols=16 Identities=25% Similarity=0.167 Sum_probs=13.3
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.|++|||||...
T Consensus 3 ~i~l~G~~GsGKsT~a 18 (184)
T PRK01184 3 IIGVVGMPGSGKGEFS 18 (184)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3678999999999853
No 490
>PRK06547 hypothetical protein; Provisional
Probab=85.10 E-value=0.72 Score=31.29 Aligned_cols=16 Identities=38% Similarity=0.499 Sum_probs=12.5
Q ss_pred cEEEEccCCchHHHHH
Q psy3307 50 DVMACAQTGSGKTAAF 65 (130)
Q Consensus 50 ~~l~~aptGsGKT~~~ 65 (130)
-+++.+++|||||...
T Consensus 17 ~i~i~G~~GsGKTt~a 32 (172)
T PRK06547 17 TVLIDGRSGSGKTTLA 32 (172)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5566699999999743
No 491
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter 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=85.09 E-value=0.66 Score=31.11 Aligned_cols=20 Identities=25% Similarity=0.278 Sum_probs=16.9
Q ss_pred HhcCCcEEEEccCCchHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAA 64 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~ 64 (130)
+..|.-+.+.+++|+|||..
T Consensus 23 i~~Ge~~~i~G~nGsGKStL 42 (173)
T cd03230 23 VEKGEIYGLLGPNGAGKTTL 42 (173)
T ss_pred EcCCcEEEEECCCCCCHHHH
Confidence 34788899999999999973
No 492
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=85.08 E-value=3.1 Score=31.28 Aligned_cols=27 Identities=26% Similarity=0.399 Sum_probs=19.7
Q ss_pred HHHhHHhc------CCcEEEEccCCchHHHHHH
Q psy3307 40 YAIPVIIS------GRDVMACAQTGSGKTAAFL 66 (130)
Q Consensus 40 ~~i~~~~~------g~~~l~~aptGsGKT~~~~ 66 (130)
..++.++. |+-+.+.+|+|||||...+
T Consensus 41 ~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal 73 (325)
T cd00983 41 LSLDIALGIGGYPKGRIIEIYGPESSGKTTLAL 73 (325)
T ss_pred HHHHHHhcCCCccCCeEEEEECCCCCCHHHHHH
Confidence 34556665 4678899999999996543
No 493
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=85.08 E-value=0.67 Score=31.72 Aligned_cols=14 Identities=36% Similarity=0.527 Sum_probs=11.9
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+.+.|++|||||..
T Consensus 2 igi~G~~GsGKSTl 15 (198)
T cd02023 2 IGIAGGSGSGKTTV 15 (198)
T ss_pred EEEECCCCCCHHHH
Confidence 46889999999974
No 494
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=85.04 E-value=0.66 Score=31.92 Aligned_cols=19 Identities=26% Similarity=0.531 Sum_probs=16.7
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 23 i~~Ge~~~i~G~nGsGKST 41 (205)
T cd03226 23 LYAGEIIALTGKNGAGKTT 41 (205)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 4478889999999999997
No 495
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). 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=85.04 E-value=0.67 Score=31.03 Aligned_cols=27 Identities=33% Similarity=0.587 Sum_probs=20.0
Q ss_pred HhcCCcEEEEccCCchHHHHHHHHHHHHH
Q psy3307 45 IISGRDVMACAQTGSGKTAAFLVPILNQM 73 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~~~~l~~l~~~ 73 (130)
+..|.-+.+.+|+|+|||. ++-++.-+
T Consensus 25 i~~G~~~~l~G~nGsGKst--Ll~~i~G~ 51 (171)
T cd03228 25 IKPGEKVAIVGPSGSGKST--LLKLLLRL 51 (171)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHHcC
Confidence 4478899999999999996 34444333
No 496
>PTZ00301 uridine kinase; Provisional
Probab=85.01 E-value=0.7 Score=32.43 Aligned_cols=15 Identities=27% Similarity=0.399 Sum_probs=12.4
Q ss_pred EEEEccCCchHHHHH
Q psy3307 51 VMACAQTGSGKTAAF 65 (130)
Q Consensus 51 ~l~~aptGsGKT~~~ 65 (130)
+.+.|++|||||...
T Consensus 6 IgIaG~SgSGKTTla 20 (210)
T PTZ00301 6 IGISGASGSGKSSLS 20 (210)
T ss_pred EEEECCCcCCHHHHH
Confidence 568899999999743
No 497
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=85.00 E-value=2.8 Score=27.62 Aligned_cols=14 Identities=21% Similarity=0.378 Sum_probs=11.8
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+.+.++.|+|||..
T Consensus 2 i~~~G~~GsGKTt~ 15 (148)
T cd03114 2 IGITGVPGAGKSTL 15 (148)
T ss_pred EEEECCCCCcHHHH
Confidence 56789999999974
No 498
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=84.96 E-value=0.75 Score=29.48 Aligned_cols=14 Identities=29% Similarity=0.480 Sum_probs=12.1
Q ss_pred EEEEccCCchHHHH
Q psy3307 51 VMACAQTGSGKTAA 64 (130)
Q Consensus 51 ~l~~aptGsGKT~~ 64 (130)
+++.+++|||||..
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999974
No 499
>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=84.95 E-value=0.82 Score=32.66 Aligned_cols=15 Identities=27% Similarity=0.414 Sum_probs=13.5
Q ss_pred cEEEEccCCchHHHH
Q psy3307 50 DVMACAQTGSGKTAA 64 (130)
Q Consensus 50 ~~l~~aptGsGKT~~ 64 (130)
++++.+|+|.|||..
T Consensus 52 h~lf~GPPG~GKTTL 66 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTL 66 (233)
T ss_dssp EEEEESSTTSSHHHH
T ss_pred eEEEECCCccchhHH
Confidence 789999999999973
No 500
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=84.95 E-value=0.66 Score=32.16 Aligned_cols=19 Identities=32% Similarity=0.599 Sum_probs=16.6
Q ss_pred HhcCCcEEEEccCCchHHH
Q psy3307 45 IISGRDVMACAQTGSGKTA 63 (130)
Q Consensus 45 ~~~g~~~l~~aptGsGKT~ 63 (130)
+..|.-+.+.+|+|+|||.
T Consensus 26 i~~Ge~~~i~G~nGsGKST 44 (216)
T TIGR00960 26 ITKGEMVFLVGHSGAGKST 44 (216)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 3478889999999999997
Done!