Query psy2029
Match_columns 138
No_of_seqs 151 out of 1830
Neff 9.4
Searched_HMMs 46136
Date Fri Aug 16 22:23:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2029.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2029hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK04837 ATP-dependent RNA hel 99.6 4.6E-15 1E-19 113.8 8.8 92 45-136 15-116 (423)
2 COG1204 Superfamily II helicas 99.6 5.2E-15 1.1E-19 119.9 9.0 81 57-138 28-110 (766)
3 TIGR03817 DECH_helic helicase/ 99.6 5.3E-15 1.1E-19 120.1 9.0 93 44-137 20-114 (742)
4 PRK01297 ATP-dependent RNA hel 99.6 6.5E-15 1.4E-19 114.5 8.8 93 45-137 94-196 (475)
5 KOG0952|consensus 99.6 5.5E-15 1.2E-19 120.1 8.5 82 57-138 107-199 (1230)
6 PRK04537 ATP-dependent RNA hel 99.6 1.1E-14 2.4E-19 115.3 9.0 92 45-136 16-117 (572)
7 PRK02362 ski2-like helicase; P 99.6 9.2E-15 2E-19 118.9 8.3 91 45-137 8-100 (737)
8 PRK10590 ATP-dependent RNA hel 99.5 2.4E-14 5.2E-19 110.8 8.9 90 45-134 8-106 (456)
9 PRK00254 ski2-like helicase; P 99.5 1.9E-14 4.2E-19 116.7 8.7 92 45-137 8-101 (720)
10 PLN00206 DEAD-box ATP-dependen 99.5 2.6E-14 5.7E-19 112.2 9.1 90 45-134 128-227 (518)
11 PRK11192 ATP-dependent RNA hel 99.5 2.9E-14 6.3E-19 109.6 9.0 93 44-136 7-106 (434)
12 COG1204 Superfamily II helicas 99.5 1.6E-14 3.5E-19 117.1 6.6 54 2-55 45-98 (766)
13 KOG0330|consensus 99.5 4.5E-14 9.8E-19 104.9 8.3 93 45-137 68-163 (476)
14 COG1205 Distinct helicase fami 99.5 5.6E-14 1.2E-18 115.2 9.7 89 50-138 60-152 (851)
15 PTZ00110 helicase; Provisional 99.5 5.2E-14 1.1E-18 111.1 8.8 90 45-134 137-234 (545)
16 COG1201 Lhr Lhr-like helicases 99.5 6.1E-14 1.3E-18 113.4 8.7 111 1-116 34-162 (814)
17 PRK11776 ATP-dependent RNA hel 99.5 8.7E-14 1.9E-18 107.8 9.0 91 45-135 11-105 (460)
18 PTZ00424 helicase 45; Provisio 99.5 1.4E-13 3E-18 104.7 8.7 90 45-134 35-127 (401)
19 cd00268 DEADc DEAD-box helicas 99.5 2.2E-13 4.8E-18 94.6 8.9 91 46-136 7-102 (203)
20 PRK11634 ATP-dependent RNA hel 99.5 1.9E-13 4.1E-18 109.3 9.2 91 45-135 13-107 (629)
21 PRK01172 ski2-like helicase; P 99.5 2.4E-13 5.2E-18 109.7 8.5 89 45-136 8-97 (674)
22 COG1201 Lhr Lhr-like helicases 99.4 4.8E-13 1E-17 108.3 9.2 87 48-135 11-105 (814)
23 COG0513 SrmB Superfamily II DN 99.4 5.4E-13 1.2E-17 104.7 8.6 91 45-135 36-132 (513)
24 KOG0952|consensus 99.4 1.1E-12 2.5E-17 106.9 8.6 56 3-58 125-189 (1230)
25 COG1202 Superfamily II helicas 99.4 9.5E-13 2.1E-17 102.3 6.4 82 53-134 209-292 (830)
26 KOG0348|consensus 99.4 2.1E-12 4.6E-17 99.4 8.2 88 47-134 145-242 (708)
27 PF00270 DEAD: DEAD/DEAH box h 99.4 4.5E-12 9.8E-17 85.3 9.0 75 62-136 1-77 (169)
28 KOG0350|consensus 99.4 1.6E-12 3.5E-17 99.3 7.3 86 51-136 150-248 (620)
29 KOG0345|consensus 99.4 5.1E-12 1.1E-16 96.0 9.0 85 45-129 13-105 (567)
30 PRK04837 ATP-dependent RNA hel 99.4 1.3E-12 2.9E-17 100.3 5.9 59 1-59 42-109 (423)
31 KOG0338|consensus 99.3 1.8E-12 3.9E-17 99.4 6.4 91 44-134 187-283 (691)
32 PRK13767 ATP-dependent helicas 99.3 3.4E-12 7.5E-17 105.5 8.3 75 51-125 23-106 (876)
33 TIGR03817 DECH_helic helicase/ 99.3 2E-12 4.4E-17 105.2 5.9 56 2-57 49-105 (742)
34 PRK04537 ATP-dependent RNA hel 99.3 2.3E-12 5E-17 102.3 6.0 60 1-60 43-111 (572)
35 KOG0331|consensus 99.3 3.7E-12 8.1E-17 98.6 7.0 89 45-133 98-195 (519)
36 KOG0340|consensus 99.3 5.3E-12 1.2E-16 93.1 6.8 89 48-136 17-108 (442)
37 PRK01297 ATP-dependent RNA hel 99.3 3.3E-12 7.1E-17 99.4 5.6 57 2-58 122-187 (475)
38 PRK10590 ATP-dependent RNA hel 99.3 4.2E-12 9.1E-17 98.4 5.9 58 1-58 35-100 (456)
39 PRK13767 ATP-dependent helicas 99.3 7.7E-11 1.7E-15 97.6 13.5 55 2-56 45-107 (876)
40 PRK11192 ATP-dependent RNA hel 99.3 4.6E-12 1E-16 97.5 5.9 58 2-59 36-99 (434)
41 PTZ00110 helicase; Provisional 99.3 5.1E-12 1.1E-16 99.8 6.2 58 1-58 164-228 (545)
42 PLN00206 DEAD-box ATP-dependen 99.3 3.7E-12 7.9E-17 100.1 5.2 57 2-58 156-221 (518)
43 PRK02362 ski2-like helicase; P 99.3 6.1E-12 1.3E-16 102.5 6.6 54 2-56 37-90 (737)
44 PRK00254 ski2-like helicase; P 99.3 8.4E-12 1.8E-16 101.5 7.0 55 2-56 37-91 (720)
45 PRK10917 ATP-dependent DNA hel 99.3 2.3E-11 5.1E-16 98.3 9.4 89 48-137 249-344 (681)
46 PRK09401 reverse gyrase; Revie 99.3 4.4E-11 9.6E-16 101.1 11.1 86 48-134 64-154 (1176)
47 PRK11776 ATP-dependent RNA hel 99.3 2.2E-11 4.9E-16 94.4 8.6 58 1-58 38-97 (460)
48 KOG0330|consensus 99.3 2.2E-11 4.7E-16 90.8 7.9 82 2-83 96-188 (476)
49 TIGR01054 rgy reverse gyrase. 99.2 5E-11 1.1E-15 100.8 10.3 86 48-134 62-152 (1171)
50 COG1205 Distinct helicase fami 99.2 1.1E-11 2.4E-16 101.9 6.2 60 2-61 83-143 (851)
51 PF00270 DEAD: DEAD/DEAH box h 99.2 2E-11 4.4E-16 82.1 6.4 58 2-59 12-70 (169)
52 TIGR00580 mfd transcription-re 99.2 4.9E-11 1.1E-15 98.8 9.5 88 48-136 439-533 (926)
53 PTZ00424 helicase 45; Provisio 99.2 4.1E-11 8.9E-16 91.2 8.2 57 2-58 63-121 (401)
54 KOG0951|consensus 99.2 3.8E-11 8.1E-16 99.7 8.4 81 58-138 307-399 (1674)
55 KOG0348|consensus 99.2 1.6E-11 3.5E-16 94.7 5.8 58 1-58 171-236 (708)
56 KOG0354|consensus 99.2 1.1E-11 2.3E-16 99.1 4.9 57 2-59 75-132 (746)
57 KOG0350|consensus 99.2 2.3E-11 5E-16 93.1 6.4 114 3-126 182-318 (620)
58 KOG0343|consensus 99.2 2.2E-11 4.9E-16 94.3 6.1 89 47-135 78-173 (758)
59 KOG0346|consensus 99.2 3.2E-11 7E-16 91.2 6.7 87 45-131 26-121 (569)
60 KOG0342|consensus 99.2 4E-11 8.6E-16 91.5 7.0 90 45-134 89-186 (543)
61 TIGR00643 recG ATP-dependent D 99.2 7.4E-11 1.6E-15 94.7 8.8 77 60-137 235-318 (630)
62 COG4581 Superfamily II RNA hel 99.2 2.2E-11 4.9E-16 100.4 5.7 56 2-58 132-187 (1041)
63 KOG0344|consensus 99.2 2.7E-11 5.9E-16 93.9 5.7 88 48-135 146-243 (593)
64 TIGR00614 recQ_fam ATP-depende 99.2 4.7E-11 1E-15 92.9 6.8 67 56-126 7-74 (470)
65 COG0513 SrmB Superfamily II DN 99.2 1E-10 2.2E-15 91.9 8.5 60 1-60 63-126 (513)
66 KOG0343|consensus 99.2 4.9E-11 1.1E-15 92.4 6.5 82 1-82 103-198 (758)
67 PRK11057 ATP-dependent DNA hel 99.2 8.3E-11 1.8E-15 94.1 8.2 80 41-126 8-88 (607)
68 KOG0331|consensus 99.2 7E-11 1.5E-15 91.6 7.4 60 1-60 125-192 (519)
69 KOG0346|consensus 99.2 1.7E-10 3.7E-15 87.3 8.9 82 1-82 53-153 (569)
70 PRK01172 ski2-like helicase; P 99.2 5E-11 1.1E-15 96.4 6.5 54 2-56 35-88 (674)
71 PRK11634 ATP-dependent RNA hel 99.2 1.3E-10 2.9E-15 93.1 8.5 57 2-58 41-99 (629)
72 PRK11057 ATP-dependent DNA hel 99.2 3.4E-10 7.3E-15 90.7 10.2 52 2-57 38-89 (607)
73 KOG0335|consensus 99.1 5.1E-11 1.1E-15 91.3 5.1 90 45-134 81-183 (482)
74 TIGR00614 recQ_fam ATP-depende 99.1 2.3E-10 5E-15 89.1 8.9 52 2-57 24-75 (470)
75 cd00268 DEADc DEAD-box helicas 99.1 1.5E-10 3.3E-15 80.3 7.1 57 2-58 34-94 (203)
76 PRK14701 reverse gyrase; Provi 99.1 3.2E-10 7E-15 98.2 10.3 72 60-132 79-151 (1638)
77 TIGR01389 recQ ATP-dependent D 99.1 4.7E-10 1E-14 89.6 10.2 52 2-57 26-77 (591)
78 TIGR01389 recQ ATP-dependent D 99.1 1.5E-10 3.3E-15 92.3 7.1 67 56-126 9-76 (591)
79 KOG0347|consensus 99.1 6.4E-11 1.4E-15 91.7 4.2 92 46-137 189-297 (731)
80 TIGR03158 cas3_cyano CRISPR-as 99.1 3.5E-10 7.7E-15 85.3 8.2 63 64-130 1-66 (357)
81 KOG0345|consensus 99.1 7.7E-10 1.7E-14 84.3 8.5 58 2-59 41-105 (567)
82 TIGR01587 cas3_core CRISPR-ass 99.1 4.3E-10 9.4E-15 84.5 7.1 51 6-56 1-52 (358)
83 PLN03137 ATP-dependent DNA hel 99.1 1.6E-09 3.4E-14 90.6 10.9 51 2-56 473-523 (1195)
84 PRK10689 transcription-repair 99.1 8.5E-10 1.8E-14 93.3 9.3 88 48-136 588-682 (1147)
85 KOG0333|consensus 99.1 3.9E-10 8.4E-15 87.0 6.6 92 45-136 252-355 (673)
86 KOG0948|consensus 99.1 2.4E-10 5.1E-15 91.2 5.3 56 2-58 142-197 (1041)
87 COG1111 MPH1 ERCC4-like helica 99.1 5.3E-10 1.1E-14 85.9 6.9 52 5-56 30-81 (542)
88 PRK09401 reverse gyrase; Revie 99.0 7.7E-10 1.7E-14 93.7 8.0 58 2-60 93-150 (1176)
89 KOG0334|consensus 99.0 6.9E-10 1.5E-14 90.9 7.3 91 45-135 372-470 (997)
90 COG4581 Superfamily II RNA hel 99.0 7.4E-10 1.6E-14 91.7 7.2 69 61-130 120-189 (1041)
91 KOG0950|consensus 99.0 9.1E-10 2E-14 89.6 6.8 83 55-137 218-303 (1008)
92 PRK12898 secA preprotein trans 99.0 6.1E-09 1.3E-13 83.4 11.2 75 60-136 103-177 (656)
93 KOG0342|consensus 99.0 5.4E-10 1.2E-14 85.4 5.0 83 1-83 116-214 (543)
94 COG1202 Superfamily II helicas 99.0 3.1E-10 6.8E-15 88.5 3.8 64 1-64 229-292 (830)
95 PHA02558 uvsW UvsW helicase; P 99.0 1.7E-09 3.6E-14 84.9 7.9 69 60-128 114-183 (501)
96 KOG0335|consensus 99.0 9.4E-10 2E-14 84.4 6.2 57 1-57 108-176 (482)
97 PRK12899 secA preprotein trans 99.0 2.3E-09 5E-14 88.0 8.7 74 62-136 94-168 (970)
98 PLN03137 ATP-dependent DNA hel 99.0 1.1E-09 2.4E-14 91.5 6.9 67 56-126 456-523 (1195)
99 TIGR01054 rgy reverse gyrase. 99.0 1.9E-09 4.1E-14 91.4 8.3 57 2-59 91-147 (1171)
100 KOG0344|consensus 98.9 1.2E-09 2.7E-14 84.9 5.2 59 1-59 170-235 (593)
101 TIGR01587 cas3_core CRISPR-ass 98.9 3.2E-09 6.9E-14 79.8 6.9 52 77-128 2-54 (358)
102 KOG0947|consensus 98.9 9.5E-10 2E-14 89.7 4.1 57 2-59 310-366 (1248)
103 KOG0354|consensus 98.9 4.6E-09 1E-13 84.3 7.5 72 60-131 62-134 (746)
104 PRK10917 ATP-dependent DNA hel 98.9 2.9E-09 6.3E-14 86.3 6.5 53 5-58 283-335 (681)
105 KOG0337|consensus 98.9 2.8E-09 6.2E-14 80.4 5.9 96 40-135 23-122 (529)
106 TIGR00580 mfd transcription-re 98.9 2.8E-09 6.1E-14 88.6 6.4 52 5-57 473-524 (926)
107 TIGR03158 cas3_cyano CRISPR-as 98.9 3.3E-09 7.1E-14 80.0 6.2 48 6-57 16-63 (357)
108 PRK14701 reverse gyrase; Provi 98.9 9E-09 1.9E-13 89.5 9.5 57 2-59 92-148 (1638)
109 KOG0951|consensus 98.9 2.6E-09 5.6E-14 89.1 5.4 80 4-83 325-420 (1674)
110 TIGR00643 recG ATP-dependent D 98.9 3.8E-09 8.1E-14 85.0 6.1 52 6-58 258-309 (630)
111 COG0514 RecQ Superfamily II DN 98.9 1.5E-08 3.2E-13 80.1 9.2 53 2-58 30-82 (590)
112 PRK13766 Hef nuclease; Provisi 98.9 1.1E-08 2.3E-13 84.1 8.7 69 61-129 16-84 (773)
113 KOG0947|consensus 98.9 6.4E-09 1.4E-13 85.0 7.2 72 61-133 298-370 (1248)
114 PRK09200 preprotein translocas 98.9 3.5E-08 7.5E-13 80.6 11.2 76 60-137 78-153 (790)
115 COG1111 MPH1 ERCC4-like helica 98.9 1.5E-08 3.2E-13 78.0 8.3 65 64-128 19-83 (542)
116 PHA02558 uvsW UvsW helicase; P 98.8 7E-09 1.5E-13 81.4 6.2 56 2-57 127-182 (501)
117 KOG0340|consensus 98.8 2.2E-09 4.8E-14 79.5 3.1 60 1-60 41-102 (442)
118 PRK10689 transcription-repair 98.8 1.3E-08 2.8E-13 86.3 8.1 53 5-58 622-674 (1147)
119 TIGR02621 cas3_GSU0051 CRISPR- 98.8 1.5E-08 3.2E-13 83.0 8.0 70 61-130 16-89 (844)
120 TIGR03714 secA2 accessory Sec 98.8 4.7E-08 1E-12 79.4 10.4 74 62-136 70-144 (762)
121 KOG0326|consensus 98.8 2.6E-09 5.7E-14 78.3 2.9 92 45-136 92-186 (459)
122 KOG0948|consensus 98.8 1.4E-08 3E-13 81.4 6.6 74 61-135 130-204 (1041)
123 PRK09751 putative ATP-dependen 98.8 9.5E-09 2.1E-13 88.4 5.6 47 9-55 1-59 (1490)
124 COG1110 Reverse gyrase [DNA re 98.8 5.4E-08 1.2E-12 80.2 9.6 81 50-131 68-153 (1187)
125 PF04851 ResIII: Type III rest 98.8 3.8E-08 8.2E-13 66.7 7.5 64 61-128 4-75 (184)
126 TIGR00963 secA preprotein tran 98.8 1.1E-07 2.4E-12 77.0 10.8 75 60-136 56-130 (745)
127 KOG0338|consensus 98.8 1.1E-08 2.4E-13 79.0 4.9 78 2-82 216-310 (691)
128 PF04851 ResIII: Type III rest 98.8 3.5E-08 7.7E-13 66.8 6.9 50 4-57 25-74 (184)
129 cd00046 DEXDc DEAD-like helica 98.8 4.2E-08 9.1E-13 63.0 6.9 54 5-58 1-55 (144)
130 KOG0328|consensus 98.7 8E-09 1.7E-13 74.7 3.5 93 44-136 33-128 (400)
131 COG1110 Reverse gyrase [DNA re 98.7 2.3E-07 5E-12 76.6 12.2 59 2-61 95-153 (1187)
132 KOG4284|consensus 98.7 9.2E-09 2E-13 81.4 3.8 94 44-137 31-128 (980)
133 PRK13766 Hef nuclease; Provisi 98.7 3.1E-08 6.7E-13 81.4 6.9 53 5-57 30-82 (773)
134 PRK09751 putative ATP-dependen 98.7 2.3E-08 4.9E-13 86.1 6.0 48 79-126 1-60 (1490)
135 TIGR03117 cas_csf4 CRISPR-asso 98.7 4.1E-08 9E-13 78.6 7.0 55 3-57 15-70 (636)
136 KOG0334|consensus 98.7 9.6E-08 2.1E-12 78.6 8.9 59 1-59 399-464 (997)
137 KOG0341|consensus 98.7 1.6E-08 3.5E-13 76.0 4.0 83 48-130 180-273 (610)
138 PRK05580 primosome assembly pr 98.7 1.1E-07 2.4E-12 77.2 8.2 66 61-127 145-214 (679)
139 PRK12899 secA preprotein trans 98.7 4.6E-08 1E-12 80.6 5.9 82 2-84 105-193 (970)
140 PRK05580 primosome assembly pr 98.6 1E-07 2.2E-12 77.4 7.3 52 4-56 162-213 (679)
141 smart00488 DEXDc2 DEAD-like he 98.6 9.5E-08 2.1E-12 70.2 6.5 55 2-56 25-84 (289)
142 smart00489 DEXDc3 DEAD-like he 98.6 9.5E-08 2.1E-12 70.2 6.5 55 2-56 25-84 (289)
143 KOG0327|consensus 98.6 2.6E-08 5.6E-13 74.3 3.3 93 44-136 32-127 (397)
144 cd00046 DEXDc DEAD-like helica 98.6 2.5E-07 5.5E-12 59.3 7.4 55 75-129 1-56 (144)
145 TIGR00595 priA primosomal prot 98.6 7.4E-08 1.6E-12 75.7 5.7 49 8-57 1-49 (505)
146 KOG0347|consensus 98.6 8.9E-08 1.9E-12 74.7 5.6 124 3-131 217-369 (731)
147 KOG0339|consensus 98.6 1.5E-07 3.2E-12 73.0 6.7 90 46-135 231-328 (731)
148 TIGR03117 cas_csf4 CRISPR-asso 98.6 2.7E-07 5.8E-12 74.1 8.4 56 72-127 13-70 (636)
149 TIGR00603 rad25 DNA repair hel 98.6 2.9E-07 6.4E-12 74.7 7.9 63 61-127 256-322 (732)
150 smart00487 DEXDc DEAD-like hel 98.6 6E-07 1.3E-11 60.9 8.4 71 59-129 7-80 (201)
151 KOG0949|consensus 98.6 1.6E-07 3.6E-12 77.2 6.2 55 3-57 525-580 (1330)
152 TIGR01407 dinG_rel DnaQ family 98.5 1.5E-07 3.2E-12 78.2 6.1 49 2-51 262-310 (850)
153 PRK12898 secA preprotein trans 98.5 1.4E-07 3.1E-12 75.7 5.7 56 2-60 116-171 (656)
154 KOG0329|consensus 98.5 1.4E-07 3.1E-12 67.6 5.1 92 45-136 49-144 (387)
155 KOG0337|consensus 98.5 2.9E-07 6.2E-12 69.8 6.8 58 1-58 55-115 (529)
156 KOG0352|consensus 98.5 4.7E-07 1E-11 69.0 7.8 49 4-56 36-84 (641)
157 KOG0339|consensus 98.5 7.7E-07 1.7E-11 69.1 8.6 58 2-59 258-322 (731)
158 KOG0950|consensus 98.5 2E-07 4.4E-12 76.3 5.5 68 2-69 238-305 (1008)
159 PRK09694 helicase Cas3; Provis 98.5 5.8E-07 1.3E-11 74.6 8.3 70 60-129 286-357 (878)
160 TIGR01407 dinG_rel DnaQ family 98.5 8.3E-07 1.8E-11 73.8 8.8 70 61-131 246-321 (850)
161 PRK13104 secA preprotein trans 98.5 1.3E-06 2.9E-11 72.0 9.7 74 61-136 83-156 (896)
162 smart00487 DEXDc DEAD-like hel 98.5 5.5E-07 1.2E-11 61.1 6.3 53 5-57 25-78 (201)
163 smart00488 DEXDc2 DEAD-like he 98.5 7.2E-07 1.6E-11 65.6 7.2 67 61-127 9-85 (289)
164 smart00489 DEXDc3 DEAD-like he 98.5 7.2E-07 1.6E-11 65.6 7.2 67 61-127 9-85 (289)
165 COG1061 SSL2 DNA or RNA helica 98.5 6.6E-07 1.4E-11 69.4 7.3 66 60-129 36-106 (442)
166 PRK09694 helicase Cas3; Provis 98.5 7.2E-07 1.6E-11 74.0 7.9 52 4-56 301-354 (878)
167 KOG0332|consensus 98.4 3.5E-07 7.6E-12 68.5 5.0 90 45-134 97-191 (477)
168 TIGR02621 cas3_GSU0051 CRISPR- 98.4 3.1E-07 6.7E-12 75.5 5.0 59 2-60 28-89 (844)
169 PRK09200 preprotein translocas 98.4 5.1E-07 1.1E-11 74.0 5.9 55 8-63 95-149 (790)
170 COG0514 RecQ Superfamily II DN 98.4 6.6E-07 1.4E-11 71.0 6.2 67 57-127 14-81 (590)
171 KOG0336|consensus 98.4 2.5E-07 5.5E-12 70.2 3.5 80 48-127 230-318 (629)
172 TIGR03714 secA2 accessory Sec 98.4 7.3E-07 1.6E-11 72.7 6.3 79 7-86 86-176 (762)
173 PRK07246 bifunctional ATP-depe 98.4 7.1E-07 1.5E-11 73.9 6.3 52 3-56 263-315 (820)
174 PRK08074 bifunctional ATP-depe 98.4 7.4E-07 1.6E-11 74.7 6.4 49 3-51 275-323 (928)
175 KOG0351|consensus 98.4 3.2E-07 7E-12 76.2 4.2 52 2-57 277-328 (941)
176 TIGR00595 priA primosomal prot 98.4 8.2E-07 1.8E-11 69.9 6.1 49 79-128 2-50 (505)
177 PRK11747 dinG ATP-dependent DN 98.4 9.1E-07 2E-11 72.2 6.4 48 4-51 49-96 (697)
178 TIGR00963 secA preprotein tran 98.3 1.1E-06 2.3E-11 71.5 5.8 55 7-62 72-126 (745)
179 COG1199 DinG Rad3-related DNA 98.3 1.2E-06 2.6E-11 70.9 6.1 54 3-56 33-86 (654)
180 COG1061 SSL2 DNA or RNA helica 98.3 1.5E-06 3.2E-11 67.5 6.2 49 4-56 55-103 (442)
181 PHA02653 RNA helicase NPH-II; 98.3 9.7E-07 2.1E-11 71.5 5.0 54 2-55 177-244 (675)
182 COG1203 CRISPR-associated heli 98.3 2E-06 4.3E-11 70.5 6.8 52 6-57 216-270 (733)
183 PHA02653 RNA helicase NPH-II; 98.3 2E-06 4.2E-11 69.8 6.6 66 62-127 166-246 (675)
184 COG1203 CRISPR-associated heli 98.3 2.2E-06 4.8E-11 70.3 7.0 75 59-133 194-276 (733)
185 PRK11448 hsdR type I restricti 98.3 2.6E-06 5.6E-11 72.5 7.5 66 61-127 414-487 (1123)
186 KOG0341|consensus 98.3 2.1E-06 4.4E-11 65.0 6.1 57 1-57 204-270 (610)
187 PRK11664 ATP-dependent RNA hel 98.3 1.6E-06 3.5E-11 71.7 5.7 52 3-55 19-70 (812)
188 PRK11448 hsdR type I restricti 98.3 2.7E-06 5.8E-11 72.4 6.9 53 5-57 434-487 (1123)
189 TIGR00348 hsdR type I site-spe 98.2 2.5E-06 5.5E-11 69.3 6.4 53 5-57 264-317 (667)
190 PRK07246 bifunctional ATP-depe 98.2 6.1E-06 1.3E-10 68.4 8.5 72 62-135 247-324 (820)
191 TIGR01970 DEAH_box_HrpB ATP-de 98.2 3.1E-06 6.7E-11 70.0 6.3 52 3-55 16-67 (819)
192 COG1200 RecG RecG-like helicas 98.2 6E-06 1.3E-10 66.1 7.4 77 60-137 262-345 (677)
193 PRK12904 preprotein translocas 98.2 1.5E-05 3.2E-10 65.7 9.8 74 61-136 82-155 (830)
194 TIGR00603 rad25 DNA repair hel 98.2 3.5E-06 7.6E-11 68.6 6.0 49 5-57 274-322 (732)
195 KOG0336|consensus 98.2 1E-06 2.2E-11 66.9 2.5 58 1-58 254-319 (629)
196 PRK13104 secA preprotein trans 98.2 2.4E-06 5.3E-11 70.5 4.8 54 8-62 99-152 (896)
197 PRK11664 ATP-dependent RNA hel 98.1 9E-06 1.9E-10 67.4 7.6 64 71-135 16-81 (812)
198 PRK12906 secA preprotein trans 98.1 3.2E-05 7E-10 63.5 10.4 75 61-137 81-155 (796)
199 PF13245 AAA_19: Part of AAA d 98.1 1.8E-05 3.8E-10 46.8 6.5 49 5-53 11-62 (76)
200 PRK13107 preprotein translocas 98.1 2.4E-05 5.1E-10 64.8 9.3 61 75-136 96-156 (908)
201 KOG0352|consensus 98.1 7.3E-06 1.6E-10 62.7 5.8 64 60-127 20-85 (641)
202 KOG0333|consensus 98.1 3.6E-06 7.8E-11 65.6 4.0 57 2-58 280-347 (673)
203 TIGR00604 rad3 DNA repair heli 98.1 8.1E-06 1.8E-10 66.8 6.3 55 2-56 27-83 (705)
204 TIGR01970 DEAH_box_HrpB ATP-de 98.1 1.9E-05 4.1E-10 65.5 8.4 64 70-134 12-77 (819)
205 COG1197 Mfd Transcription-repa 98.1 1.9E-05 4E-10 66.6 8.3 89 48-137 582-677 (1139)
206 KOG0328|consensus 98.1 1.6E-06 3.4E-11 63.1 1.7 61 1-61 61-123 (400)
207 COG1197 Mfd Transcription-repa 98.1 0.00014 3.1E-09 61.5 12.8 52 6-58 617-668 (1139)
208 TIGR03877 thermo_KaiC_1 KaiC d 98.0 0.0004 8.6E-09 49.6 13.1 53 2-56 19-71 (237)
209 PF06745 KaiC: KaiC; InterPro 98.0 0.0003 6.6E-09 49.7 12.2 121 3-132 18-152 (226)
210 TIGR03878 thermo_KaiC_2 KaiC d 98.0 0.00054 1.2E-08 49.7 13.4 106 3-116 35-144 (259)
211 TIGR00348 hsdR type I site-spe 98.0 4.5E-05 9.8E-10 62.1 8.2 54 75-128 264-318 (667)
212 KOG0332|consensus 97.9 1E-05 2.2E-10 60.8 3.8 56 5-60 130-187 (477)
213 TIGR00604 rad3 DNA repair heli 97.9 3.7E-05 8E-10 63.0 7.3 66 62-127 12-84 (705)
214 KOG0353|consensus 97.9 3.8E-05 8.1E-10 58.2 6.7 53 2-58 107-159 (695)
215 KOG0353|consensus 97.9 3.9E-05 8.4E-10 58.1 6.7 65 61-129 95-160 (695)
216 PRK13103 secA preprotein trans 97.9 0.00011 2.5E-09 60.9 9.8 75 61-137 83-157 (913)
217 PRK12326 preprotein translocas 97.9 0.00014 2.9E-09 59.3 9.8 74 61-136 79-152 (764)
218 KOG0949|consensus 97.9 4.4E-05 9.5E-10 63.5 6.7 67 61-127 512-580 (1330)
219 COG1199 DinG Rad3-related DNA 97.9 3.7E-05 8E-10 62.4 6.3 67 60-126 15-86 (654)
220 COG4096 HsdR Type I site-speci 97.8 6.4E-05 1.4E-09 61.5 6.9 67 61-128 166-240 (875)
221 PRK04328 hypothetical protein; 97.8 0.0013 2.9E-08 47.3 13.1 52 3-56 22-73 (249)
222 COG1198 PriA Primosomal protei 97.8 6.1E-05 1.3E-09 61.5 6.6 52 5-57 218-269 (730)
223 PRK08074 bifunctional ATP-depe 97.8 7.7E-05 1.7E-09 62.9 7.3 61 61-121 258-323 (928)
224 cd01122 GP4d_helicase GP4d_hel 97.8 0.002 4.2E-08 46.7 13.7 131 2-134 28-184 (271)
225 TIGR02237 recomb_radB DNA repa 97.8 0.0019 4.1E-08 45.0 13.2 40 2-42 10-49 (209)
226 TIGR02655 circ_KaiC circadian 97.8 0.0011 2.3E-08 52.3 13.0 104 2-116 261-366 (484)
227 cd00984 DnaB_C DnaB helicase C 97.7 0.0014 2.9E-08 46.7 12.1 39 2-40 11-49 (242)
228 PRK11747 dinG ATP-dependent DN 97.7 0.00039 8.6E-09 57.0 10.1 57 75-131 50-107 (697)
229 KOG0327|consensus 97.7 1.2E-05 2.7E-10 60.2 1.2 65 1-65 60-126 (397)
230 PRK12904 preprotein translocas 97.7 5.1E-05 1.1E-09 62.7 4.7 55 8-63 98-152 (830)
231 PRK13107 preprotein translocas 97.7 6.4E-05 1.4E-09 62.4 5.1 57 7-64 98-154 (908)
232 TIGR02655 circ_KaiC circadian 97.7 0.00073 1.6E-08 53.2 10.8 60 2-66 19-78 (484)
233 PF07652 Flavi_DEAD: Flaviviru 97.6 9.3E-05 2E-09 48.9 4.4 54 3-56 3-56 (148)
234 cd01124 KaiC KaiC is a circadi 97.6 0.0022 4.7E-08 43.7 11.1 49 6-56 1-49 (187)
235 TIGR03880 KaiC_arch_3 KaiC dom 97.6 0.0028 6E-08 44.7 11.9 52 3-56 15-66 (224)
236 PF01695 IstB_IS21: IstB-like 97.6 0.00018 3.9E-09 49.3 5.5 45 3-49 46-90 (178)
237 KOG0326|consensus 97.6 2E-05 4.4E-10 58.3 0.7 60 2-61 120-181 (459)
238 PF13245 AAA_19: Part of AAA d 97.6 0.00039 8.5E-09 41.0 5.9 49 75-123 11-62 (76)
239 TIGR03881 KaiC_arch_4 KaiC dom 97.6 0.0067 1.5E-07 42.8 13.3 38 3-41 19-56 (229)
240 KOG0351|consensus 97.6 8.8E-05 1.9E-09 62.2 4.1 67 56-126 260-327 (941)
241 PRK12906 secA preprotein trans 97.6 0.00013 2.7E-09 60.2 4.9 54 8-62 97-150 (796)
242 PF07652 Flavi_DEAD: Flaviviru 97.5 0.00023 5.1E-09 47.1 4.9 51 76-126 6-56 (148)
243 PRK14722 flhF flagellar biosyn 97.5 0.0041 8.8E-08 47.5 12.2 38 3-40 136-174 (374)
244 COG1200 RecG RecG-like helicas 97.5 0.00018 3.8E-09 57.9 5.0 51 8-59 287-337 (677)
245 PRK06835 DNA replication prote 97.5 0.0033 7.3E-08 47.2 11.4 41 4-46 183-223 (329)
246 cd01394 radB RadB. The archaea 97.5 0.012 2.5E-07 41.3 13.5 37 3-40 18-54 (218)
247 PF07517 SecA_DEAD: SecA DEAD- 97.4 0.002 4.4E-08 46.9 9.4 74 61-136 78-151 (266)
248 cd01393 recA_like RecA is a b 97.4 0.0085 1.8E-07 42.1 12.3 43 3-45 18-65 (226)
249 PRK09361 radB DNA repair and r 97.4 0.011 2.3E-07 41.7 12.8 38 3-41 22-59 (225)
250 PF13086 AAA_11: AAA domain; P 97.4 0.00043 9.2E-09 48.4 5.6 53 3-55 15-75 (236)
251 PF13481 AAA_25: AAA domain; P 97.4 0.01 2.2E-07 40.6 12.3 130 3-134 31-182 (193)
252 PRK13103 secA preprotein trans 97.4 0.00024 5.3E-09 59.1 4.6 52 7-59 98-149 (913)
253 PRK15483 type III restriction- 97.4 0.00062 1.4E-08 57.2 7.0 50 5-54 60-110 (986)
254 CHL00122 secA preprotein trans 97.4 0.0016 3.6E-08 54.1 9.3 74 61-136 77-150 (870)
255 PRK08181 transposase; Validate 97.4 0.00056 1.2E-08 49.9 5.8 45 3-49 105-149 (269)
256 COG1484 DnaC DNA replication p 97.3 0.00073 1.6E-08 48.9 6.2 50 3-54 104-153 (254)
257 PF00580 UvrD-helicase: UvrD/R 97.3 0.0013 2.9E-08 48.0 7.7 67 63-130 3-72 (315)
258 PRK08116 hypothetical protein; 97.3 0.025 5.3E-07 41.3 13.8 43 6-50 116-158 (268)
259 KOG4284|consensus 97.3 6.9E-05 1.5E-09 60.1 0.5 57 2-58 60-118 (980)
260 PF00580 UvrD-helicase: UvrD/R 97.3 0.00088 1.9E-08 49.0 6.3 53 4-56 13-68 (315)
261 PRK12326 preprotein translocas 97.3 0.00051 1.1E-08 56.1 5.3 50 8-58 95-144 (764)
262 cd01123 Rad51_DMC1_radA Rad51_ 97.3 0.012 2.6E-07 41.7 11.8 40 3-42 18-62 (235)
263 PRK09302 circadian clock prote 97.3 0.01 2.3E-07 47.0 12.6 52 3-56 272-323 (509)
264 COG4096 HsdR Type I site-speci 97.3 0.00051 1.1E-08 56.4 5.3 51 5-56 186-238 (875)
265 KOG0329|consensus 97.3 0.00019 4.1E-09 51.9 2.5 58 2-59 77-136 (387)
266 PRK08533 flagellar accessory p 97.3 0.015 3.2E-07 41.5 12.0 53 2-56 22-74 (230)
267 TIGR00665 DnaB replicative DNA 97.2 0.033 7.1E-07 43.3 14.3 130 3-135 194-349 (434)
268 PRK06921 hypothetical protein; 97.2 0.0017 3.6E-08 47.4 6.7 44 3-48 116-160 (266)
269 PF13086 AAA_11: AAA domain; P 97.2 0.0017 3.7E-08 45.3 6.6 63 62-125 3-75 (236)
270 PRK06067 flagellar accessory p 97.2 0.0065 1.4E-07 43.2 9.6 52 3-56 24-75 (234)
271 PF00176 SNF2_N: SNF2 family N 97.2 0.0029 6.2E-08 46.0 7.9 61 75-137 26-91 (299)
272 PF13401 AAA_22: AAA domain; P 97.1 0.013 2.8E-07 37.4 10.0 26 3-28 3-28 (131)
273 COG4098 comFA Superfamily II D 97.1 0.031 6.8E-07 42.2 12.8 55 3-58 115-169 (441)
274 PRK09354 recA recombinase A; P 97.1 0.018 3.8E-07 43.6 11.5 92 3-116 59-151 (349)
275 PRK09302 circadian clock prote 97.1 0.025 5.3E-07 44.9 12.8 53 3-56 30-82 (509)
276 PF00448 SRP54: SRP54-type pro 97.1 0.051 1.1E-06 37.8 14.7 49 6-55 3-53 (196)
277 COG0467 RAD55 RecA-superfamily 97.1 0.0014 3.1E-08 47.3 5.4 52 3-56 22-73 (260)
278 PRK12902 secA preprotein trans 97.1 0.0077 1.7E-07 50.4 9.9 74 61-136 86-159 (939)
279 PLN03187 meiotic recombination 97.1 0.024 5.2E-07 42.9 11.9 50 3-52 125-179 (344)
280 PRK05973 replicative DNA helic 97.1 0.0017 3.7E-08 46.5 5.5 53 2-56 62-114 (237)
281 PRK06526 transposase; Provisio 97.1 0.0012 2.5E-08 47.9 4.7 44 3-48 97-140 (254)
282 TIGR02238 recomb_DMC1 meiotic 97.0 0.022 4.7E-07 42.6 11.5 50 3-52 95-149 (313)
283 COG0556 UvrB Helicase subunit 97.0 0.0032 7E-08 49.8 7.3 53 75-131 33-85 (663)
284 PRK04301 radA DNA repair and r 97.0 0.029 6.4E-07 41.8 12.1 40 3-42 101-145 (317)
285 PRK12377 putative replication 97.0 0.0024 5.3E-08 46.1 6.0 45 5-51 102-146 (248)
286 PF02562 PhoH: PhoH-like prote 97.0 0.0011 2.3E-08 46.6 4.0 41 4-44 19-60 (205)
287 COG1219 ClpX ATP-dependent pro 97.0 0.0006 1.3E-08 50.8 2.8 25 2-26 95-119 (408)
288 PRK08760 replicative DNA helic 97.0 0.082 1.8E-06 41.8 14.7 131 3-136 228-384 (476)
289 PRK10867 signal recognition pa 96.9 0.059 1.3E-06 42.1 13.5 44 6-50 102-148 (433)
290 TIGR02236 recomb_radA DNA repa 96.9 0.053 1.2E-06 40.2 12.6 43 3-45 94-141 (310)
291 PRK14873 primosome assembly pr 96.9 0.0014 3.1E-08 53.4 4.5 49 8-57 164-212 (665)
292 PRK05748 replicative DNA helic 96.9 0.12 2.5E-06 40.5 14.7 131 3-136 202-360 (448)
293 PRK15483 type III restriction- 96.8 0.0036 7.8E-08 52.8 6.5 50 75-124 60-110 (986)
294 PRK11823 DNA repair protein Ra 96.8 0.046 9.9E-07 42.8 12.3 39 2-41 78-116 (446)
295 TIGR00416 sms DNA repair prote 96.8 0.036 7.7E-07 43.5 11.6 40 2-42 92-131 (454)
296 COG1198 PriA Primosomal protei 96.8 0.0034 7.4E-08 51.6 6.1 67 61-128 199-270 (730)
297 PRK10536 hypothetical protein; 96.8 0.0023 5.1E-08 46.4 4.6 42 3-44 73-115 (262)
298 PRK09183 transposase/IS protei 96.8 0.0047 1E-07 44.8 6.2 38 2-40 100-137 (259)
299 PRK05703 flhF flagellar biosyn 96.8 0.043 9.3E-07 42.7 11.7 38 3-40 220-258 (424)
300 PHA02542 41 41 helicase; Provi 96.8 0.081 1.7E-06 41.8 13.2 130 4-136 190-349 (473)
301 TIGR00376 DNA helicase, putati 96.7 0.0056 1.2E-07 49.9 6.6 50 5-55 174-223 (637)
302 TIGR03600 phage_DnaB phage rep 96.7 0.062 1.3E-06 41.6 12.1 130 3-135 193-348 (421)
303 PF12846 AAA_10: AAA-like doma 96.7 0.0039 8.4E-08 45.3 5.2 40 5-45 2-41 (304)
304 PF02562 PhoH: PhoH-like prote 96.7 0.0053 1.2E-07 43.1 5.6 52 63-114 7-60 (205)
305 KOG1802|consensus 96.7 0.0064 1.4E-07 49.4 6.5 74 59-136 409-483 (935)
306 smart00382 AAA ATPases associa 96.7 0.0031 6.8E-08 39.9 4.1 40 4-44 2-41 (148)
307 cd01121 Sms Sms (bacterial rad 96.7 0.13 2.8E-06 39.4 13.2 38 3-41 81-118 (372)
308 TIGR00959 ffh signal recogniti 96.6 0.16 3.5E-06 39.7 13.8 45 6-50 101-147 (428)
309 PRK12903 secA preprotein trans 96.6 0.028 6.1E-07 47.1 10.0 74 61-136 79-152 (925)
310 PRK08727 hypothetical protein; 96.6 0.0092 2E-07 42.6 6.3 39 6-46 43-81 (233)
311 PRK12724 flagellar biosynthesi 96.6 0.12 2.6E-06 40.2 12.6 48 5-52 224-273 (432)
312 cd01120 RecA-like_NTPases RecA 96.5 0.11 2.3E-06 33.9 13.7 37 7-44 2-38 (165)
313 PF09848 DUF2075: Uncharacteri 96.5 0.0071 1.5E-07 45.7 5.8 50 6-56 3-54 (352)
314 cd01125 repA Hexameric Replica 96.5 0.098 2.1E-06 37.3 11.2 36 5-40 2-48 (239)
315 PRK12727 flagellar biosynthesi 96.5 0.044 9.5E-07 43.8 10.1 37 3-39 349-386 (559)
316 PTZ00035 Rad51 protein; Provis 96.5 0.13 2.8E-06 38.9 12.0 39 3-41 117-160 (337)
317 PRK07773 replicative DNA helic 96.5 0.22 4.7E-06 42.4 14.5 131 3-136 216-372 (886)
318 PRK08506 replicative DNA helic 96.5 0.18 3.8E-06 39.9 13.2 129 3-135 191-346 (472)
319 PRK14723 flhF flagellar biosyn 96.5 0.11 2.3E-06 43.4 12.3 37 4-40 185-222 (767)
320 TIGR00376 DNA helicase, putati 96.5 0.018 3.8E-07 47.0 7.9 65 61-126 158-224 (637)
321 PRK05636 replicative DNA helic 96.4 0.28 6.2E-06 39.1 14.3 129 4-136 265-420 (505)
322 cd00544 CobU Adenosylcobinamid 96.4 0.008 1.7E-07 40.9 4.9 45 7-55 2-46 (169)
323 PRK07952 DNA replication prote 96.4 0.015 3.2E-07 42.0 6.4 40 5-46 100-139 (244)
324 COG4889 Predicted helicase [Ge 96.4 0.0084 1.8E-07 50.3 5.6 64 60-126 161-229 (1518)
325 COG1419 FlhF Flagellar GTP-bin 96.4 0.15 3.2E-06 39.4 11.9 108 3-113 202-322 (407)
326 CHL00122 secA preprotein trans 96.4 0.0075 1.6E-07 50.3 5.3 54 6-60 91-144 (870)
327 TIGR03499 FlhF flagellar biosy 96.4 0.012 2.6E-07 43.3 5.9 38 3-40 193-231 (282)
328 PF03796 DnaB_C: DnaB-like hel 96.4 0.19 4E-06 36.3 12.1 131 3-136 18-175 (259)
329 TIGR02012 tigrfam_recA protein 96.4 0.013 2.8E-07 43.9 6.2 43 3-46 54-96 (321)
330 PRK08939 primosomal protein Dn 96.4 0.013 2.8E-07 43.7 6.1 36 3-39 155-190 (306)
331 PRK13851 type IV secretion sys 96.4 0.0038 8.2E-08 47.2 3.3 42 3-46 161-202 (344)
332 PF13604 AAA_30: AAA domain; P 96.3 0.018 3.9E-07 40.0 6.5 45 6-51 20-64 (196)
333 PLN03186 DNA repair protein RA 96.3 0.14 3E-06 38.8 11.6 51 3-53 122-177 (342)
334 PRK05595 replicative DNA helic 96.3 0.19 4.2E-06 39.3 12.7 130 3-136 200-356 (444)
335 PRK07004 replicative DNA helic 96.3 0.28 6E-06 38.7 13.6 130 3-136 212-369 (460)
336 PRK08084 DNA replication initi 96.3 0.0095 2.1E-07 42.5 5.1 36 4-40 45-80 (235)
337 cd00009 AAA The AAA+ (ATPases 96.3 0.017 3.7E-07 36.8 5.9 37 4-41 19-55 (151)
338 PRK12723 flagellar biosynthesi 96.3 0.12 2.6E-06 39.8 11.0 50 4-53 174-228 (388)
339 TIGR02782 TrbB_P P-type conjug 96.3 0.0084 1.8E-07 44.4 4.7 42 3-45 131-174 (299)
340 cd00983 recA RecA is a bacter 96.2 0.016 3.5E-07 43.5 6.1 44 3-47 54-97 (325)
341 PRK09165 replicative DNA helic 96.2 0.23 4.9E-06 39.5 12.8 130 3-136 216-388 (497)
342 PRK05642 DNA replication initi 96.2 0.0096 2.1E-07 42.5 4.7 40 5-46 46-85 (234)
343 PRK04914 ATP-dependent helicas 96.2 0.03 6.6E-07 47.6 8.2 66 61-127 153-222 (956)
344 COG2804 PulE Type II secretory 96.2 0.0067 1.4E-07 47.7 4.0 28 6-34 260-287 (500)
345 PF00437 T2SE: Type II/IV secr 96.2 0.009 2E-07 43.3 4.4 117 3-127 126-245 (270)
346 COG0556 UvrB Helicase subunit 96.2 0.011 2.3E-07 47.0 4.9 49 6-58 34-82 (663)
347 PRK14873 primosome assembly pr 96.2 0.015 3.2E-07 47.7 5.9 45 83-128 169-213 (665)
348 PRK09519 recA DNA recombinatio 96.1 0.14 3.1E-06 42.8 11.3 92 3-116 59-151 (790)
349 PRK13900 type IV secretion sys 96.1 0.008 1.7E-07 45.2 3.8 41 3-45 159-199 (332)
350 PF10412 TrwB_AAD_bind: Type I 96.0 0.017 3.7E-07 44.3 5.5 48 3-51 14-61 (386)
351 cd01131 PilT Pilus retraction 96.0 0.014 3.1E-07 40.5 4.7 33 6-39 3-36 (198)
352 PRK00771 signal recognition pa 96.0 0.55 1.2E-05 36.8 14.0 35 5-40 96-130 (437)
353 PLN02199 shikimate kinase 96.0 0.16 3.5E-06 37.7 10.2 77 2-87 100-183 (303)
354 PRK13894 conjugal transfer ATP 96.0 0.011 2.3E-07 44.3 4.1 42 3-45 147-190 (319)
355 KOG0745|consensus 96.0 0.0065 1.4E-07 47.2 2.9 25 2-26 224-248 (564)
356 TIGR03743 SXT_TraD conjugative 96.0 0.024 5.3E-07 46.2 6.3 52 4-56 176-229 (634)
357 PF07517 SecA_DEAD: SecA DEAD- 96.0 0.034 7.4E-07 40.6 6.5 56 7-63 93-148 (266)
358 PRK13833 conjugal transfer pro 95.9 0.013 2.8E-07 44.0 4.3 42 3-45 143-186 (323)
359 TIGR01420 pilT_fam pilus retra 95.9 0.015 3.2E-07 44.0 4.6 37 3-40 121-158 (343)
360 COG2256 MGS1 ATPase related to 95.9 0.099 2.1E-06 40.3 8.9 99 5-112 49-163 (436)
361 PRK06893 DNA replication initi 95.9 0.017 3.7E-07 41.0 4.7 35 6-41 41-75 (229)
362 TIGR03420 DnaA_homol_Hda DnaA 95.9 0.02 4.3E-07 40.2 4.9 40 4-45 38-77 (226)
363 cd01127 TrwB Bacterial conjuga 95.9 0.014 3E-07 45.1 4.4 43 4-47 42-84 (410)
364 TIGR01425 SRP54_euk signal rec 95.9 0.55 1.2E-05 36.7 13.0 38 6-44 102-141 (429)
365 PF02456 Adeno_IVa2: Adenoviru 95.8 0.013 2.7E-07 43.7 3.7 49 7-55 90-139 (369)
366 COG3587 Restriction endonuclea 95.8 0.021 4.7E-07 47.5 5.3 46 5-50 75-121 (985)
367 COG4098 comFA Superfamily II D 95.8 0.078 1.7E-06 40.2 7.8 73 61-134 98-175 (441)
368 PF00176 SNF2_N: SNF2 family N 95.8 0.04 8.6E-07 40.0 6.4 52 4-57 25-81 (299)
369 COG2805 PilT Tfp pilus assembl 95.7 0.36 7.8E-06 36.1 10.9 23 6-29 127-149 (353)
370 TIGR02788 VirB11 P-type DNA tr 95.7 0.014 3E-07 43.4 3.7 38 3-42 143-180 (308)
371 PRK14974 cell division protein 95.7 0.63 1.4E-05 35.2 13.6 35 6-41 142-176 (336)
372 PRK12902 secA preprotein trans 95.7 0.028 6.1E-07 47.3 5.7 51 7-58 101-151 (939)
373 PRK05800 cobU adenosylcobinami 95.7 0.027 5.8E-07 38.4 4.8 45 5-53 2-46 (170)
374 PRK08903 DnaA regulatory inact 95.7 0.026 5.6E-07 39.8 4.9 37 4-41 42-78 (227)
375 cd01124 KaiC KaiC is a circadi 95.7 0.023 5.1E-07 38.5 4.5 48 77-126 2-49 (187)
376 TIGR03744 traC_PFL_4706 conjug 95.7 0.026 5.7E-07 47.8 5.5 41 4-44 475-515 (893)
377 TIGR02239 recomb_RAD51 DNA rep 95.6 0.65 1.4E-05 34.8 12.3 39 3-41 95-138 (316)
378 PRK06321 replicative DNA helic 95.6 0.66 1.4E-05 36.7 12.8 128 4-135 226-383 (472)
379 PRK04296 thymidine kinase; Pro 95.6 0.029 6.4E-07 38.7 4.8 37 4-41 2-38 (190)
380 KOG1803|consensus 95.6 0.025 5.4E-07 45.4 4.8 45 7-52 204-248 (649)
381 PF13555 AAA_29: P-loop contai 95.6 0.021 4.6E-07 32.3 3.3 20 4-23 23-42 (62)
382 PRK11889 flhF flagellar biosyn 95.6 0.83 1.8E-05 35.6 12.9 35 5-40 242-276 (436)
383 PRK13764 ATPase; Provisional 95.5 0.028 6.1E-07 45.5 5.1 33 3-36 256-288 (602)
384 PRK14087 dnaA chromosomal repl 95.5 0.9 2E-05 35.7 13.4 47 5-53 142-190 (450)
385 TIGR03754 conj_TOL_TraD conjug 95.5 0.05 1.1E-06 44.4 6.4 52 5-57 181-234 (643)
386 PRK10436 hypothetical protein; 95.5 0.026 5.6E-07 44.4 4.7 35 4-39 218-252 (462)
387 PRK06995 flhF flagellar biosyn 95.5 0.41 8.9E-06 38.0 11.2 36 4-39 256-292 (484)
388 PRK14729 miaA tRNA delta(2)-is 95.5 0.016 3.4E-07 43.1 3.3 25 2-26 2-26 (300)
389 PF06745 KaiC: KaiC; InterPro 95.5 0.027 5.9E-07 39.7 4.4 49 75-124 20-68 (226)
390 TIGR02759 TraD_Ftype type IV c 95.5 0.022 4.8E-07 45.9 4.3 43 4-47 176-218 (566)
391 cd01129 PulE-GspE PulE/GspE Th 95.4 0.031 6.8E-07 40.7 4.6 36 4-40 80-115 (264)
392 PRK11054 helD DNA helicase IV; 95.4 0.13 2.8E-06 42.5 8.5 75 61-136 197-274 (684)
393 KOG4150|consensus 95.4 0.034 7.4E-07 44.8 4.9 127 2-130 299-446 (1034)
394 PF12340 DUF3638: Protein of u 95.4 0.2 4.4E-06 35.7 8.4 69 61-130 24-96 (229)
395 PRK11131 ATP-dependent RNA hel 95.4 0.029 6.4E-07 49.0 4.9 49 5-55 90-144 (1294)
396 PF01935 DUF87: Domain of unkn 95.3 0.04 8.8E-07 38.9 4.9 38 4-42 23-61 (229)
397 cd03115 SRP The signal recogni 95.3 0.51 1.1E-05 31.7 12.4 33 7-40 3-35 (173)
398 PHA02535 P terminase ATPase su 95.3 0.36 7.7E-06 39.1 10.5 85 45-129 123-208 (581)
399 PF07728 AAA_5: AAA domain (dy 95.3 0.022 4.8E-07 36.9 3.2 22 6-27 1-22 (139)
400 PF02534 T4SS-DNA_transf: Type 95.3 0.016 3.5E-07 45.3 3.0 48 6-56 46-93 (469)
401 KOG0953|consensus 95.3 0.025 5.3E-07 45.2 3.9 58 70-132 184-244 (700)
402 cd01130 VirB11-like_ATPase Typ 95.3 0.017 3.8E-07 39.6 2.8 20 2-21 23-42 (186)
403 PRK08006 replicative DNA helic 95.2 1.2 2.6E-05 35.3 14.2 130 3-136 223-381 (471)
404 TIGR03877 thermo_KaiC_1 KaiC d 95.2 0.046 9.9E-07 39.0 4.9 53 72-126 18-71 (237)
405 PRK14721 flhF flagellar biosyn 95.2 0.54 1.2E-05 36.7 10.9 23 3-25 190-212 (420)
406 COG0610 Type I site-specific r 95.2 0.088 1.9E-06 45.1 7.2 56 4-60 273-330 (962)
407 TIGR02538 type_IV_pilB type IV 95.2 0.034 7.4E-07 44.8 4.6 31 5-36 317-347 (564)
408 KOG1131|consensus 95.2 0.09 2E-06 41.9 6.6 53 3-55 34-89 (755)
409 KOG1802|consensus 95.2 0.044 9.5E-07 44.8 5.0 54 3-57 424-478 (935)
410 PF13604 AAA_30: AAA domain; P 95.1 0.14 3.1E-06 35.5 7.1 59 63-122 4-65 (196)
411 PRK00131 aroK shikimate kinase 95.1 0.028 6E-07 37.6 3.4 26 1-26 1-26 (175)
412 PRK12422 chromosomal replicati 95.1 0.072 1.6E-06 41.7 6.0 36 5-41 142-177 (445)
413 PRK06749 replicative DNA helic 95.1 0.97 2.1E-05 35.3 12.1 131 3-136 185-345 (428)
414 PRK10536 hypothetical protein; 95.1 0.041 8.8E-07 40.0 4.3 53 62-114 61-115 (262)
415 cd01126 TraG_VirD4 The TraG/Tr 95.1 0.012 2.7E-07 44.9 1.6 47 6-55 1-47 (384)
416 PF07724 AAA_2: AAA domain (Cd 95.0 0.025 5.5E-07 38.5 2.9 39 5-44 4-42 (171)
417 PRK12900 secA preprotein trans 95.0 0.17 3.7E-06 43.2 8.1 61 75-136 152-212 (1025)
418 PF13207 AAA_17: AAA domain; P 95.0 0.028 6.2E-07 35.4 2.9 20 7-26 2-21 (121)
419 KOG0953|consensus 94.9 0.04 8.6E-07 44.1 4.1 51 4-59 191-241 (700)
420 PF08423 Rad51: Rad51; InterP 94.9 0.067 1.5E-06 38.8 5.0 50 6-55 40-94 (256)
421 PF05496 RuvB_N: Holliday junc 94.9 0.21 4.6E-06 35.7 7.3 23 5-27 51-73 (233)
422 TIGR02640 gas_vesic_GvpN gas v 94.9 0.023 5E-07 41.2 2.6 25 2-26 19-43 (262)
423 PRK00149 dnaA chromosomal repl 94.9 0.11 2.4E-06 40.6 6.5 42 5-48 149-192 (450)
424 PRK11054 helD DNA helicase IV; 94.9 0.082 1.8E-06 43.6 5.9 53 4-56 209-264 (684)
425 PF09848 DUF2075: Uncharacteri 94.8 0.087 1.9E-06 39.9 5.7 50 77-127 4-55 (352)
426 TIGR02746 TraC-F-type type-IV 94.8 0.061 1.3E-06 44.9 5.2 37 4-41 430-466 (797)
427 KOG1123|consensus 94.8 0.023 4.9E-07 45.0 2.4 64 61-128 303-370 (776)
428 TIGR02785 addA_Gpos recombinat 94.8 0.086 1.9E-06 46.3 6.1 54 3-56 13-68 (1232)
429 PRK12726 flagellar biosynthesi 94.8 0.13 2.8E-06 39.7 6.3 37 3-40 205-241 (407)
430 PRK12901 secA preprotein trans 94.8 0.078 1.7E-06 45.3 5.6 61 75-136 183-243 (1112)
431 PRK10919 ATP-dependent DNA hel 94.8 0.12 2.6E-06 42.6 6.6 53 4-56 15-70 (672)
432 COG3451 VirB4 Type IV secretor 94.7 0.057 1.2E-06 45.3 4.7 25 5-29 437-461 (796)
433 COG3587 Restriction endonuclea 94.7 0.087 1.9E-06 44.1 5.6 60 61-121 55-122 (985)
434 PLN02165 adenylate isopentenyl 94.7 0.034 7.4E-07 41.8 3.1 22 3-24 42-63 (334)
435 PRK10919 ATP-dependent DNA hel 94.7 0.16 3.5E-06 41.8 7.3 66 62-128 4-72 (672)
436 KOG0390|consensus 94.7 0.14 3E-06 42.6 6.8 68 60-129 238-323 (776)
437 TIGR00631 uvrb excinuclease AB 94.7 0.17 3.7E-06 41.6 7.3 50 76-129 31-80 (655)
438 PLN03142 Probable chromatin-re 94.7 0.22 4.7E-06 43.0 8.1 67 61-129 170-244 (1033)
439 PRK14722 flhF flagellar biosyn 94.6 0.39 8.5E-06 36.8 8.8 60 75-135 138-198 (374)
440 TIGR00064 ftsY signal recognit 94.6 1.2 2.7E-05 32.6 13.0 35 5-40 73-107 (272)
441 TIGR02881 spore_V_K stage V sp 94.6 0.033 7.2E-07 40.3 2.8 22 5-26 43-64 (261)
442 PF12775 AAA_7: P-loop contain 94.6 0.038 8.2E-07 40.5 3.1 22 3-24 32-53 (272)
443 PRK05342 clpX ATP-dependent pr 94.6 0.038 8.3E-07 42.8 3.2 23 4-26 108-130 (412)
444 TIGR02524 dot_icm_DotB Dot/Icm 94.6 0.038 8.1E-07 42.1 3.1 26 3-29 133-158 (358)
445 TIGR02525 plasmid_TraJ plasmid 94.6 0.076 1.7E-06 40.7 4.8 35 4-39 149-185 (372)
446 PF12846 AAA_10: AAA-like doma 94.5 0.13 2.8E-06 37.3 5.9 41 75-116 2-42 (304)
447 PF02399 Herpes_ori_bp: Origin 94.5 0.11 2.4E-06 43.3 5.9 51 6-56 51-101 (824)
448 TIGR03878 thermo_KaiC_2 KaiC d 94.5 0.091 2E-06 38.1 5.0 56 75-132 37-92 (259)
449 PF00004 AAA: ATPase family as 94.5 0.05 1.1E-06 34.5 3.3 31 7-41 1-31 (132)
450 TIGR00362 DnaA chromosomal rep 94.5 0.14 3.1E-06 39.4 6.3 36 5-41 137-174 (405)
451 PRK10416 signal recognition pa 94.5 0.093 2E-06 39.3 5.0 36 4-40 114-149 (318)
452 PRK14088 dnaA chromosomal repl 94.5 0.15 3.3E-06 39.9 6.3 36 5-41 131-168 (440)
453 TIGR02880 cbbX_cfxQ probable R 94.5 0.046 1E-06 40.2 3.3 22 4-25 58-79 (284)
454 PRK13700 conjugal transfer pro 94.4 0.072 1.6E-06 44.0 4.6 48 3-51 184-231 (732)
455 COG0593 DnaA ATPase involved i 94.4 0.15 3.3E-06 39.5 6.2 35 6-41 115-151 (408)
456 CHL00181 cbbX CbbX; Provisiona 94.4 0.042 9.1E-07 40.5 3.1 24 4-27 59-82 (287)
457 PF02534 T4SS-DNA_transf: Type 94.4 0.077 1.7E-06 41.5 4.7 56 75-137 45-100 (469)
458 PF13238 AAA_18: AAA domain; P 94.4 0.055 1.2E-06 34.1 3.2 21 7-27 1-21 (129)
459 TIGR00382 clpX endopeptidase C 94.4 0.043 9.4E-07 42.5 3.2 22 4-25 116-137 (413)
460 PRK13850 type IV secretion sys 94.4 0.039 8.4E-07 45.3 3.0 50 5-57 140-189 (670)
461 PRK00300 gmk guanylate kinase; 94.4 0.053 1.2E-06 37.5 3.4 23 2-24 3-25 (205)
462 TIGR02533 type_II_gspE general 94.3 0.059 1.3E-06 42.7 3.9 33 6-39 244-276 (486)
463 PRK13897 type IV secretion sys 94.3 0.037 8E-07 45.0 2.7 23 5-27 159-181 (606)
464 PRK13891 conjugal transfer pro 94.3 0.092 2E-06 44.4 5.1 36 5-40 489-524 (852)
465 PF00308 Bac_DnaA: Bacterial d 94.3 0.21 4.5E-06 35.3 6.2 35 6-41 36-72 (219)
466 TIGR01967 DEAH_box_HrpA ATP-de 94.2 0.08 1.7E-06 46.4 4.7 41 4-44 82-122 (1283)
467 KOG2028|consensus 94.2 0.62 1.3E-05 36.0 8.8 19 6-24 164-182 (554)
468 COG1484 DnaC DNA replication p 94.2 0.14 3.1E-06 37.1 5.3 49 75-125 106-154 (254)
469 PF13671 AAA_33: AAA domain; P 94.1 0.039 8.5E-07 35.7 2.2 18 7-24 2-19 (143)
470 cd01126 TraG_VirD4 The TraG/Tr 94.1 0.059 1.3E-06 41.2 3.5 47 76-125 1-47 (384)
471 PHA00729 NTP-binding motif con 94.1 0.18 3.9E-06 36.0 5.7 22 5-26 18-39 (226)
472 PHA02244 ATPase-like protein 94.1 0.055 1.2E-06 41.4 3.1 24 3-26 118-141 (383)
473 COG0630 VirB11 Type IV secreto 94.1 0.084 1.8E-06 39.4 4.1 37 2-40 141-177 (312)
474 TIGR00631 uvrb excinuclease AB 94.1 0.18 3.8E-06 41.5 6.2 48 6-57 31-78 (655)
475 TIGR01074 rep ATP-dependent DN 94.1 0.17 3.8E-06 41.4 6.2 53 4-56 14-69 (664)
476 KOG1803|consensus 94.1 0.2 4.3E-06 40.5 6.2 64 60-124 185-250 (649)
477 PRK11773 uvrD DNA-dependent he 94.0 0.21 4.6E-06 41.4 6.7 52 4-56 22-77 (721)
478 PRK13873 conjugal transfer ATP 94.0 0.096 2.1E-06 44.0 4.8 22 6-27 443-464 (811)
479 PF04665 Pox_A32: Poxvirus A32 94.0 0.11 2.5E-06 37.3 4.5 36 5-41 14-49 (241)
480 PF12340 DUF3638: Protein of u 94.0 0.22 4.7E-06 35.6 5.8 53 3-56 40-92 (229)
481 PRK14086 dnaA chromosomal repl 94.0 0.24 5.2E-06 40.3 6.7 43 6-50 316-360 (617)
482 PF01745 IPT: Isopentenyl tran 94.0 0.075 1.6E-06 37.7 3.4 22 7-28 4-25 (233)
483 PRK00091 miaA tRNA delta(2)-is 93.9 0.054 1.2E-06 40.4 2.8 22 5-26 5-26 (307)
484 PF06309 Torsin: Torsin; Inte 93.9 0.29 6.2E-06 31.8 5.8 20 8-27 57-76 (127)
485 COG1875 NYN ribonuclease and A 93.9 0.075 1.6E-06 40.6 3.5 40 7-46 248-289 (436)
486 PF01695 IstB_IS21: IstB-like 93.9 0.17 3.6E-06 34.7 5.0 44 75-120 48-91 (178)
487 COG1074 RecB ATP-dependent exo 93.9 0.16 3.5E-06 44.3 6.0 54 3-56 15-72 (1139)
488 TIGR01075 uvrD DNA helicase II 93.9 0.22 4.7E-06 41.3 6.5 54 3-56 16-72 (715)
489 PF13173 AAA_14: AAA domain 93.9 0.12 2.7E-06 33.1 4.1 35 3-39 1-35 (128)
490 TIGR00176 mobB molybdopterin-g 93.9 0.16 3.6E-06 33.9 4.8 34 7-41 2-35 (155)
491 PF05970 PIF1: PIF1-like helic 93.8 0.13 2.9E-06 39.1 4.7 41 2-43 20-60 (364)
492 PRK11131 ATP-dependent RNA hel 93.7 0.2 4.3E-06 44.1 6.1 63 70-134 84-154 (1294)
493 PF09439 SRPRB: Signal recogni 93.7 0.072 1.6E-06 36.7 2.9 25 3-27 2-26 (181)
494 COG3973 Superfamily I DNA and 93.7 0.21 4.5E-06 40.6 5.7 56 3-58 225-285 (747)
495 PF01580 FtsK_SpoIIIE: FtsK/Sp 93.7 0.17 3.6E-06 35.1 4.8 28 3-30 37-64 (205)
496 PHA03333 putative ATPase subun 93.7 1.2 2.5E-05 37.1 10.0 57 75-131 188-244 (752)
497 TIGR03574 selen_PSTK L-seryl-t 93.7 1.9 4E-05 30.9 13.1 32 7-39 2-33 (249)
498 PRK10078 ribose 1,5-bisphospho 93.6 0.077 1.7E-06 36.4 3.0 21 4-24 2-22 (186)
499 TIGR03819 heli_sec_ATPase heli 93.6 0.091 2E-06 39.7 3.6 41 3-45 177-217 (340)
500 PRK13897 type IV secretion sys 93.6 0.14 2.9E-06 41.8 4.7 56 75-137 159-214 (606)
No 1
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.60 E-value=4.6e-15 Score=113.77 Aligned_cols=92 Identities=16% Similarity=0.091 Sum_probs=81.4
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh---------CCCeEEEEccchh
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYIS 114 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~---------~~~~~~~i~P~~~ 114 (138)
|.....+.+.+.++..+.++|.+++|.+.+ +|+++.+|||+|||+++++++++.+.. .+.++++++|+++
T Consensus 15 l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~Ptre 94 (423)
T PRK04837 15 LHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRE 94 (423)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHH
Confidence 456778888888899999999999998888 999999999999999999999998864 1357999999999
Q ss_pred HHHHHHHHHHHHhhhcCceeee
Q psy2029 115 LVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 115 l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
|+.|+++.+..+....|+++..
T Consensus 95 La~Qi~~~~~~l~~~~~~~v~~ 116 (423)
T PRK04837 95 LAVQIHADAEPLAQATGLKLGL 116 (423)
T ss_pred HHHHHHHHHHHHhccCCceEEE
Confidence 9999999999999888887654
No 2
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.59 E-value=5.2e-15 Score=119.89 Aligned_cols=81 Identities=23% Similarity=0.402 Sum_probs=70.2
Q ss_pred HHhhhhhhhhHHH-hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCcee
Q psy2029 57 AEEFKFYLEGKCL-EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 57 ~~~~~~~~Q~~~~-~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v 134 (138)
+....++.|..+. +...+ +|+++++|||+|||++|++++++++.+.+.|++||+|++||++|++++|+ .++.+|++|
T Consensus 28 ~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~-~~~~~GirV 106 (766)
T COG1204 28 GIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS-RLEELGIRV 106 (766)
T ss_pred ChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh-hHHhcCCEE
Confidence 4445667777676 55555 99999999999999999999999999878899999999999999999999 778899999
Q ss_pred eecC
Q psy2029 135 EVLE 138 (138)
Q Consensus 135 ~~~~ 138 (138)
.+++
T Consensus 107 ~~~T 110 (766)
T COG1204 107 GIST 110 (766)
T ss_pred EEec
Confidence 8753
No 3
>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=99.59 E-value=5.3e-15 Score=120.07 Aligned_cols=93 Identities=13% Similarity=0.199 Sum_probs=81.9
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~ 121 (138)
.|..+..+.+.+.++..++++|.++++.+.+ +|+++.+|||+|||+++.+++++.+.. .+.+++|++|++||++|+.+
T Consensus 20 ~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~ 99 (742)
T TIGR03817 20 WAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLR 99 (742)
T ss_pred cCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHH
Confidence 4667778888888888999999999999888 999999999999999999999999875 45799999999999999999
Q ss_pred HHHHHhhhcCceeeec
Q psy2029 122 SLAKAAEEFKFYLEVL 137 (138)
Q Consensus 122 ~~~~~~~~~~~~v~~~ 137 (138)
.++++. ..++++..|
T Consensus 100 ~l~~l~-~~~i~v~~~ 114 (742)
T TIGR03817 100 AVRELT-LRGVRPATY 114 (742)
T ss_pred HHHHhc-cCCeEEEEE
Confidence 999986 446666555
No 4
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.58 E-value=6.5e-15 Score=114.48 Aligned_cols=93 Identities=17% Similarity=0.148 Sum_probs=81.9
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC---------CCeEEEEccchh
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK---------QKSAIFILPYIS 114 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~---------~~~~~~i~P~~~ 114 (138)
|.....+.+.+.++..++++|.++++.+.+ +|+++.+|||+|||+++.+++++.+... ..+++|++|+++
T Consensus 94 l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~Ptre 173 (475)
T PRK01297 94 LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRE 173 (475)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHH
Confidence 556777888888888999999999998888 9999999999999999999999988752 358999999999
Q ss_pred HHHHHHHHHHHHhhhcCceeeec
Q psy2029 115 LVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 115 l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
|+.|+++.++++....++.+..+
T Consensus 174 La~Q~~~~~~~l~~~~~~~v~~~ 196 (475)
T PRK01297 174 LVVQIAKDAAALTKYTGLNVMTF 196 (475)
T ss_pred HHHHHHHHHHHhhccCCCEEEEE
Confidence 99999999999988887776543
No 5
>KOG0952|consensus
Probab=99.58 E-value=5.5e-15 Score=120.06 Aligned_cols=82 Identities=20% Similarity=0.317 Sum_probs=74.4
Q ss_pred HHhhhhhhhhHHHhhhhc--cceEEEeecCCCchHhHHHHHHHHHHh---------CCCeEEEEccchhHHHHHHHHHHH
Q psy2029 57 AEEFKFYLEGKCLEMIQN--KNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYISLVHEKYQSLAK 125 (138)
Q Consensus 57 ~~~~~~~~Q~~~~~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~---------~~~~~~~i~P~~~l~~q~~~~~~~ 125 (138)
++..+..+|..+.|...+ .|+++|+|||+|||.+|++.+++.+.+ ..-|++||+|++|||.|+++.|.+
T Consensus 107 ~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 107 SFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred cHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 355688899999987765 999999999999999999999999985 345999999999999999999999
Q ss_pred HhhhcCceeeecC
Q psy2029 126 AAEEFKFYLEVLE 138 (138)
Q Consensus 126 ~~~~~~~~v~~~~ 138 (138)
-+.++|++|.||+
T Consensus 187 kl~~~gi~v~ELT 199 (1230)
T KOG0952|consen 187 KLAPLGISVRELT 199 (1230)
T ss_pred hcccccceEEEec
Confidence 9999999999985
No 6
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.57 E-value=1.1e-14 Score=115.34 Aligned_cols=92 Identities=16% Similarity=0.129 Sum_probs=81.6
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC---------CCeEEEEccchh
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK---------QKSAIFILPYIS 114 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~---------~~~~~~i~P~~~ 114 (138)
|...+.+.+.+.++..++++|.+++|.+.+ +|+++.+|||+|||+++++++++.+... ..++||++|+++
T Consensus 16 l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTre 95 (572)
T PRK04537 16 LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRE 95 (572)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHH
Confidence 456778888888899999999999998888 9999999999999999999999988641 368999999999
Q ss_pred HHHHHHHHHHHHhhhcCceeee
Q psy2029 115 LVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 115 l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
|+.|+++.+.+++...++++..
T Consensus 96 La~Qi~~~~~~l~~~~~i~v~~ 117 (572)
T PRK04537 96 LAIQIHKDAVKFGADLGLRFAL 117 (572)
T ss_pred HHHHHHHHHHHHhccCCceEEE
Confidence 9999999999999888877653
No 7
>PRK02362 ski2-like helicase; Provisional
Probab=99.56 E-value=9.2e-15 Score=118.86 Aligned_cols=91 Identities=24% Similarity=0.424 Sum_probs=76.6
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhh-hhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEM-IQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 122 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~-~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~ 122 (138)
|.....+.+.+.+...++++|.++++. +.+ +|+++++|||+|||+++++++++.+. .+.+++|++|+++|+.|++++
T Consensus 8 lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~-~~~kal~i~P~raLa~q~~~~ 86 (737)
T PRK02362 8 LPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIA-RGGKALYIVPLRALASEKFEE 86 (737)
T ss_pred CCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHh-cCCcEEEEeChHHHHHHHHHH
Confidence 445666777777788899999999975 555 99999999999999999999999886 478999999999999999999
Q ss_pred HHHHhhhcCceeeec
Q psy2029 123 LAKAAEEFKFYLEVL 137 (138)
Q Consensus 123 ~~~~~~~~~~~v~~~ 137 (138)
|+++ .+.|++|..+
T Consensus 87 ~~~~-~~~g~~v~~~ 100 (737)
T PRK02362 87 FERF-EELGVRVGIS 100 (737)
T ss_pred HHHh-hcCCCEEEEE
Confidence 9975 3457776543
No 8
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.55 E-value=2.4e-14 Score=110.81 Aligned_cols=90 Identities=12% Similarity=0.147 Sum_probs=79.0
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--------CCeEEEEccchhH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--------QKSAIFILPYISL 115 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--------~~~~~~i~P~~~l 115 (138)
|...+.+.+.+.++..++++|.++++.+.+ +|+++.+|||+|||+++.+++++.+... ..++++++|+++|
T Consensus 8 l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreL 87 (456)
T PRK10590 8 LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTREL 87 (456)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHH
Confidence 456778888888899999999999998888 9999999999999999999999988642 2379999999999
Q ss_pred HHHHHHHHHHHhhhcCcee
Q psy2029 116 VHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 116 ~~q~~~~~~~~~~~~~~~v 134 (138)
+.|+.+.+++++...++.+
T Consensus 88 a~Qi~~~~~~~~~~~~~~~ 106 (456)
T PRK10590 88 AAQIGENVRDYSKYLNIRS 106 (456)
T ss_pred HHHHHHHHHHHhccCCCEE
Confidence 9999999999987766654
No 9
>PRK00254 ski2-like helicase; Provisional
Probab=99.55 E-value=1.9e-14 Score=116.73 Aligned_cols=92 Identities=27% Similarity=0.430 Sum_probs=78.9
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhh-hhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEM-IQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 122 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~-~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~ 122 (138)
+.+...+.+.+.+...++++|.++++. ..+ +|+++++|||+|||+++++++++.+...+.+++|++|+++|++|++++
T Consensus 8 l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~ 87 (720)
T PRK00254 8 VDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYRE 87 (720)
T ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHH
Confidence 345667777888888899999999964 555 999999999999999999999998887778999999999999999999
Q ss_pred HHHHhhhcCceeeec
Q psy2029 123 LAKAAEEFKFYLEVL 137 (138)
Q Consensus 123 ~~~~~~~~~~~v~~~ 137 (138)
|.++ ...|++|..+
T Consensus 88 ~~~~-~~~g~~v~~~ 101 (720)
T PRK00254 88 FKDW-EKLGLRVAMT 101 (720)
T ss_pred HHHH-hhcCCEEEEE
Confidence 9985 4567777543
No 10
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.55 E-value=2.6e-14 Score=112.18 Aligned_cols=90 Identities=17% Similarity=0.146 Sum_probs=78.1
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh---------CCCeEEEEccchh
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYIS 114 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~---------~~~~~~~i~P~~~ 114 (138)
|.....+.+.+.++..++++|.++++.+.. +|+++.+|||+|||++++++++..+.. .+.+++|++|+++
T Consensus 128 l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTre 207 (518)
T PLN00206 128 LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRE 207 (518)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHH
Confidence 556777888888888999999999998888 999999999999999999999987753 3468999999999
Q ss_pred HHHHHHHHHHHHhhhcCcee
Q psy2029 115 LVHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 115 l~~q~~~~~~~~~~~~~~~v 134 (138)
|+.|..+.++.+....++++
T Consensus 208 La~Qi~~~~~~l~~~~~~~~ 227 (518)
T PLN00206 208 LCVQVEDQAKVLGKGLPFKT 227 (518)
T ss_pred HHHHHHHHHHHHhCCCCceE
Confidence 99999999998887766554
No 11
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.54 E-value=2.9e-14 Score=109.62 Aligned_cols=93 Identities=13% Similarity=0.115 Sum_probs=81.4
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh------CCCeEEEEccchhHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLV 116 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~------~~~~~~~i~P~~~l~ 116 (138)
.|..+..+.+.+.++..++++|.++++.+.+ +++++.+|||+|||+++++++++.+.. ...+++|++|+++|+
T Consensus 7 ~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa 86 (434)
T PRK11192 7 ELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELA 86 (434)
T ss_pred CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHH
Confidence 3456778888888888999999999988888 999999999999999999999998864 135899999999999
Q ss_pred HHHHHHHHHHhhhcCceeee
Q psy2029 117 HEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 117 ~q~~~~~~~~~~~~~~~v~~ 136 (138)
.|.++.++.+....++++..
T Consensus 87 ~Q~~~~~~~l~~~~~~~v~~ 106 (434)
T PRK11192 87 MQVADQARELAKHTHLDIAT 106 (434)
T ss_pred HHHHHHHHHHHccCCcEEEE
Confidence 99999999998888777654
No 12
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.53 E-value=1.6e-14 Score=117.06 Aligned_cols=54 Identities=30% Similarity=0.588 Sum_probs=50.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
.+|+|+++|+|||||||++|++++++++.+.+++++|++|+++|+.|+++++.+
T Consensus 45 ~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~ 98 (766)
T COG1204 45 LSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSR 98 (766)
T ss_pred cCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhh
Confidence 457899999999999999999999999988778999999999999999999993
No 13
>KOG0330|consensus
Probab=99.53 E-value=4.5e-14 Score=104.89 Aligned_cols=93 Identities=13% Similarity=0.119 Sum_probs=84.1
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l~~q~~~ 121 (138)
+.++..+.+++.++..+.++|.+++|.+.. ++++..+-||+|||..+.+|+++++... ...+++++|+|+|+.|+.+
T Consensus 68 v~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e 147 (476)
T KOG0330|consen 68 VHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAE 147 (476)
T ss_pred cCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHH
Confidence 345778888888899999999999999988 9999999999999999999999999973 3689999999999999999
Q ss_pred HHHHHhhhcCceeeec
Q psy2029 122 SLAKAAEEFKFYLEVL 137 (138)
Q Consensus 122 ~~~~~~~~~~~~v~~~ 137 (138)
.|+.++...|++|..+
T Consensus 148 ~fe~Lg~~iglr~~~l 163 (476)
T KOG0330|consen 148 QFEALGSGIGLRVAVL 163 (476)
T ss_pred HHHHhccccCeEEEEE
Confidence 9999999999987653
No 14
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.53 E-value=5.6e-14 Score=115.19 Aligned_cols=89 Identities=20% Similarity=0.256 Sum_probs=80.3
Q ss_pred HHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 50 YQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 50 ~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
...+.+.+...++++|.++...+++ +|+++++|||||||.++++|+++++.. ...+++|+.||+||+++|.+.|+++.
T Consensus 60 ~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~ 139 (851)
T COG1205 60 KSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELI 139 (851)
T ss_pred HHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHH
Confidence 6677777777799999999999998 999999999999999999999999987 45689999999999999999999999
Q ss_pred hhcC--ceeeecC
Q psy2029 128 EEFK--FYLEVLE 138 (138)
Q Consensus 128 ~~~~--~~v~~~~ 138 (138)
..++ +.+..||
T Consensus 140 ~~~~~~v~~~~y~ 152 (851)
T COG1205 140 SDLPGKVTFGRYT 152 (851)
T ss_pred HhCCCcceeeeec
Confidence 9997 7777665
No 15
>PTZ00110 helicase; Provisional
Probab=99.52 E-value=5.2e-14 Score=111.08 Aligned_cols=90 Identities=13% Similarity=0.059 Sum_probs=78.6
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-------CCeEEEEccchhHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-------QKSAIFILPYISLV 116 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-------~~~~~~i~P~~~l~ 116 (138)
|.+.+.+.+.+.++..++++|.+++|.+.. +++++.+|||+|||++++++++..+... ++.+++++|+++|+
T Consensus 137 l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa 216 (545)
T PTZ00110 137 FPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELA 216 (545)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHH
Confidence 456677888888888999999999998888 9999999999999999999999887642 45799999999999
Q ss_pred HHHHHHHHHHhhhcCcee
Q psy2029 117 HEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 117 ~q~~~~~~~~~~~~~~~v 134 (138)
.|+.+.++++....++++
T Consensus 217 ~Qi~~~~~~~~~~~~i~~ 234 (545)
T PTZ00110 217 EQIREQCNKFGASSKIRN 234 (545)
T ss_pred HHHHHHHHHHhcccCccE
Confidence 999999999987766654
No 16
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.51 E-value=6.1e-14 Score=113.43 Aligned_cols=111 Identities=17% Similarity=0.255 Sum_probs=81.6
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhcC-------CeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH----
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIKQ-------KSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL---- 69 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-------~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~---- 69 (138)
|.+|+|+++.||||||||++|.+|++..+.+.+ -.++|+.|++||.+++.+++..++...+.+++...+
T Consensus 34 i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~~~G~~v~vRhGDT~~ 113 (814)
T COG1201 34 IHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQ 113 (814)
T ss_pred HhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHHHcCCccceecCCCCh
Confidence 468999999999999999999999999887752 378999999999999999999999888888765555
Q ss_pred ----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHH
Q psy2029 70 ----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLV 116 (138)
Q Consensus 70 ----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~ 116 (138)
.+..+ .++++++| -|+..++.- ..+.+ .+-+.++|.=-.+|+
T Consensus 114 ~er~r~~~~PPdILiTTP----EsL~lll~~-~~~r~~l~~vr~VIVDEiHel~ 162 (814)
T COG1201 114 SEKQKMLKNPPHILITTP----ESLAILLNS-PKFRELLRDVRYVIVDEIHALA 162 (814)
T ss_pred HHhhhccCCCCcEEEeCh----hHHHHHhcC-HHHHHHhcCCcEEEeehhhhhh
Confidence 23344 78899999 344433222 11111 234555555555554
No 17
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.51 E-value=8.7e-14 Score=107.78 Aligned_cols=91 Identities=16% Similarity=0.187 Sum_probs=78.2
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l~~q~~~ 121 (138)
|.....+.+.+.++..++++|.++++.+.+ +++++.+|||+|||+++.+++++.+... ..++++++|+++|+.|+++
T Consensus 11 l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~ 90 (460)
T PRK11776 11 LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAK 90 (460)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHH
Confidence 456777888888888999999999998888 9999999999999999999999988652 3579999999999999999
Q ss_pred HHHHHhhhc-Cceee
Q psy2029 122 SLAKAAEEF-KFYLE 135 (138)
Q Consensus 122 ~~~~~~~~~-~~~v~ 135 (138)
+++.++... ++++.
T Consensus 91 ~~~~~~~~~~~~~v~ 105 (460)
T PRK11776 91 EIRRLARFIPNIKVL 105 (460)
T ss_pred HHHHHHhhCCCcEEE
Confidence 999887654 45543
No 18
>PTZ00424 helicase 45; Provisional
Probab=99.49 E-value=1.4e-13 Score=104.69 Aligned_cols=90 Identities=12% Similarity=0.105 Sum_probs=78.0
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~ 121 (138)
|.+...+.+.+.++..+.++|.++++.+.+ ++.++.+|||+|||+++.+++++.+.. .+.+++|++|+++|+.|..+
T Consensus 35 l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~ 114 (401)
T PTZ00424 35 LNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQK 114 (401)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHH
Confidence 556778888888888899999999988888 999999999999999999999987754 35689999999999999999
Q ss_pred HHHHHhhhcCcee
Q psy2029 122 SLAKAAEEFKFYL 134 (138)
Q Consensus 122 ~~~~~~~~~~~~v 134 (138)
.+..++...++.+
T Consensus 115 ~~~~~~~~~~~~~ 127 (401)
T PTZ00424 115 VVLALGDYLKVRC 127 (401)
T ss_pred HHHHHhhhcCceE
Confidence 9998876655543
No 19
>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=99.49 E-value=2.2e-13 Score=94.60 Aligned_cols=91 Identities=15% Similarity=0.141 Sum_probs=78.1
Q ss_pred HHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC----CCeEEEEccchhHHHHHH
Q psy2029 46 VHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK----QKSAIFILPYISLVHEKY 120 (138)
Q Consensus 46 ~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~----~~~~~~i~P~~~l~~q~~ 120 (138)
...+.+.+.+.+...++++|.++.+.+.+ +++++.+|||+|||+++.+++++.+... +.+++|++|+++|+.|..
T Consensus 7 ~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~ 86 (203)
T cd00268 7 SPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIA 86 (203)
T ss_pred CHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHH
Confidence 35667788877777899999999988777 9999999999999999999999888763 468999999999999999
Q ss_pred HHHHHHhhhcCceeee
Q psy2029 121 QSLAKAAEEFKFYLEV 136 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~ 136 (138)
+.++++....++.+..
T Consensus 87 ~~~~~~~~~~~~~~~~ 102 (203)
T cd00268 87 EVARKLGKHTNLKVVV 102 (203)
T ss_pred HHHHHHhccCCceEEE
Confidence 9999998766666554
No 20
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.48 E-value=1.9e-13 Score=109.34 Aligned_cols=91 Identities=14% Similarity=0.203 Sum_probs=79.5
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~ 121 (138)
|...+.+.+.+.++..++++|.++++.+.+ +++++.+|||+|||+++.+++++.+.. ...+++|++|+++|+.|+++
T Consensus 13 L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~ 92 (629)
T PRK11634 13 LKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAE 92 (629)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHH
Confidence 567788888888999999999999998888 999999999999999999999988765 34689999999999999999
Q ss_pred HHHHHhhhc-Cceee
Q psy2029 122 SLAKAAEEF-KFYLE 135 (138)
Q Consensus 122 ~~~~~~~~~-~~~v~ 135 (138)
.+.++.... ++.+.
T Consensus 93 ~l~~~~~~~~~i~v~ 107 (629)
T PRK11634 93 AMTDFSKHMRGVNVV 107 (629)
T ss_pred HHHHHHhhcCCceEE
Confidence 999987665 55543
No 21
>PRK01172 ski2-like helicase; Provisional
Probab=99.46 E-value=2.4e-13 Score=109.69 Aligned_cols=89 Identities=24% Similarity=0.392 Sum_probs=73.2
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 123 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~ 123 (138)
|.++..+.+.+.++. ++++|.++++.+.+ +|+++++|||+|||+++++++++.+.. +.+++|++|+++|+.|+++++
T Consensus 8 l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~-~~k~v~i~P~raLa~q~~~~~ 85 (674)
T PRK01172 8 YDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLA-GLKSIYIVPLRSLAMEKYEEL 85 (674)
T ss_pred CCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHh-CCcEEEEechHHHHHHHHHHH
Confidence 445666666665554 89999999988877 999999999999999999999887765 678999999999999999999
Q ss_pred HHHhhhcCceeee
Q psy2029 124 AKAAEEFKFYLEV 136 (138)
Q Consensus 124 ~~~~~~~~~~v~~ 136 (138)
+++ ...|.+|..
T Consensus 86 ~~l-~~~g~~v~~ 97 (674)
T PRK01172 86 SRL-RSLGMRVKI 97 (674)
T ss_pred HHH-hhcCCeEEE
Confidence 985 345666543
No 22
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.44 E-value=4.8e-13 Score=108.30 Aligned_cols=87 Identities=17% Similarity=0.182 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC-------CeEEEEccchhHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ-------KSAIFILPYISLVHEK 119 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~-------~~~~~i~P~~~l~~q~ 119 (138)
...+.|.+. +..+.+.|..++|.+.+ +|+++.+|||+|||+.|.++++.++...+ -.++||.|++||.+++
T Consensus 11 ~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di 89 (814)
T COG1201 11 RVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDI 89 (814)
T ss_pred HHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHH
Confidence 334444444 67799999999999999 99999999999999999999999998741 3699999999999999
Q ss_pred HHHHHHHhhhcCceee
Q psy2029 120 YQSLAKAAEEFKFYLE 135 (138)
Q Consensus 120 ~~~~~~~~~~~~~~v~ 135 (138)
.+.+..++..+|+.|.
T Consensus 90 ~~rL~~~~~~~G~~v~ 105 (814)
T COG1201 90 RRRLEEPLRELGIEVA 105 (814)
T ss_pred HHHHHHHHHHcCCccc
Confidence 9999999999998873
No 23
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.43 E-value=5.4e-13 Score=104.65 Aligned_cols=91 Identities=18% Similarity=0.186 Sum_probs=80.6
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCC-e-EEEEccchhHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQK-S-AIFILPYISLVHEK 119 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~-~-~~~i~P~~~l~~q~ 119 (138)
|.....+.+.+.++..+.++|..++|.+.. ++++..++||+|||+++.+|+++.+.. ... . +++++||++|+.|+
T Consensus 36 l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi 115 (513)
T COG0513 36 LSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQI 115 (513)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHH
Confidence 567888999999999999999999999988 999999999999999999999999873 222 2 99999999999999
Q ss_pred HHHHHHHhhhc-Cceee
Q psy2029 120 YQSLAKAAEEF-KFYLE 135 (138)
Q Consensus 120 ~~~~~~~~~~~-~~~v~ 135 (138)
++.++++.... ++++.
T Consensus 116 ~~~~~~~~~~~~~~~~~ 132 (513)
T COG0513 116 AEELRKLGKNLGGLRVA 132 (513)
T ss_pred HHHHHHHHhhcCCccEE
Confidence 99999999987 56643
No 24
>KOG0952|consensus
Probab=99.40 E-value=1.1e-12 Score=106.88 Aligned_cols=56 Identities=27% Similarity=0.488 Sum_probs=49.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh---------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~---------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
..+|++||||||||||.+|++++++.+.+ .+-|++|++|++||+.++++.+.+...
T Consensus 125 SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~ 189 (1230)
T KOG0952|consen 125 SNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLA 189 (1230)
T ss_pred CCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcc
Confidence 46799999999999999999999998775 345999999999999999998777644
No 25
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.38 E-value=9.5e-13 Score=102.25 Aligned_cols=82 Identities=21% Similarity=0.360 Sum_probs=74.7
Q ss_pred HHHHHHhhhhhhhhHHH-hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 53 LAKAAEEFKFYLEGKCL-EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 53 l~~~~~~~~~~~Q~~~~-~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
+...|...+.|+|..+. ..+.+ +|.++.++|++|||++++++-+.++...++|.+|++|+.||++|++++|++...++
T Consensus 209 lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rYs~L 288 (830)
T COG1202 209 LKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKL 288 (830)
T ss_pred HHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHhhcc
Confidence 33346788999999998 66777 99999999999999999999999999989999999999999999999999999999
Q ss_pred Ccee
Q psy2029 131 KFYL 134 (138)
Q Consensus 131 ~~~v 134 (138)
|+.+
T Consensus 289 glkv 292 (830)
T COG1202 289 GLKV 292 (830)
T ss_pred cceE
Confidence 8876
No 26
>KOG0348|consensus
Probab=99.37 E-value=2.1e-12 Score=99.43 Aligned_cols=88 Identities=17% Similarity=0.278 Sum_probs=75.6
Q ss_pred HHHHHHHHHH-HHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--------CCCeEEEEccchhHH
Q psy2029 47 HEKYQSLAKA-AEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLV 116 (138)
Q Consensus 47 ~q~~~~l~~~-~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--------~~~~~~~i~P~~~l~ 116 (138)
......++.. ..+.+..+|.+++|.+.+ ++.++.++||+|||+++.+|+.+.+.. .+.-+++|+|||+|+
T Consensus 145 ~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~ 224 (708)
T KOG0348|consen 145 PHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELA 224 (708)
T ss_pred HHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHH
Confidence 3445556554 566789999999999998 999999999999999999999999976 245799999999999
Q ss_pred HHHHHHHHHHhhhcCcee
Q psy2029 117 HEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 117 ~q~~~~~~~~~~~~~~~v 134 (138)
.|.++.++++..++.|-|
T Consensus 225 ~Q~y~~~qKLl~~~hWIV 242 (708)
T KOG0348|consen 225 LQIYETVQKLLKPFHWIV 242 (708)
T ss_pred HHHHHHHHHHhcCceEEe
Confidence 999999999998876654
No 27
>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=99.37 E-value=4.5e-12 Score=85.29 Aligned_cols=75 Identities=24% Similarity=0.353 Sum_probs=64.3
Q ss_pred hhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-CCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 62 FYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
.++|.++++.+.+ +++++.+|||+|||.++.++++..+.+. ..++++++|+++|++|.++++++++...+.++..
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~ 77 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVL 77 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEE
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccccccccccc
Confidence 3689999977766 9999999999999999999999888774 3599999999999999999999998875555443
No 28
>KOG0350|consensus
Probab=99.37 E-value=1.6e-12 Score=99.32 Aligned_cols=86 Identities=23% Similarity=0.278 Sum_probs=72.4
Q ss_pred HHHHHHHHhhhhhhhhHHHhhh---------hc-cceEEEeecCCCchHhHHHHHHHHHHhC---CCeEEEEccchhHHH
Q psy2029 51 QSLAKAAEEFKFYLEGKCLEMI---------QN-KNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVH 117 (138)
Q Consensus 51 ~~l~~~~~~~~~~~Q~~~~~~~---------~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~---~~~~~~i~P~~~l~~ 117 (138)
+.+.+.+.+.++|+|..++|-+ .. +++.+.+|||+|||+++.+|+++.+.++ .-|+++|+|++.|+.
T Consensus 150 q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~ 229 (620)
T KOG0350|consen 150 QLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELAL 229 (620)
T ss_pred HHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHH
Confidence 3455566778999998887322 23 7889999999999999999999988763 358999999999999
Q ss_pred HHHHHHHHHhhhcCceeee
Q psy2029 118 EKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 118 q~~~~~~~~~~~~~~~v~~ 136 (138)
|++..|.++..+.|+.|..
T Consensus 230 QV~~~f~~~~~~tgL~V~~ 248 (620)
T KOG0350|consen 230 QVYDTFKRLNSGTGLAVCS 248 (620)
T ss_pred HHHHHHHHhccCCceEEEe
Confidence 9999999999999988754
No 29
>KOG0345|consensus
Probab=99.35 E-value=5.1e-12 Score=95.98 Aligned_cols=85 Identities=18% Similarity=0.168 Sum_probs=75.7
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-----CC--eEEEEccchhHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-----QK--SAIFILPYISLV 116 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-----~~--~~~~i~P~~~l~ 116 (138)
|..++...+.+.|+...+|+|..++|.+.. +++++.+|||+|||+++++|+++-+..+ +. -+++|+|||+|+
T Consensus 13 L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa 92 (567)
T KOG0345|consen 13 LSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELA 92 (567)
T ss_pred ccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHH
Confidence 557888999999999999999999999988 9999999999999999999999988441 22 589999999999
Q ss_pred HHHHHHHHHHhhh
Q psy2029 117 HEKYQSLAKAAEE 129 (138)
Q Consensus 117 ~q~~~~~~~~~~~ 129 (138)
.|+.+....+.+.
T Consensus 93 ~QI~~V~~~F~~~ 105 (567)
T KOG0345|consen 93 RQIREVAQPFLEH 105 (567)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999888777
No 30
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.35 E-value=1.3e-12 Score=100.26 Aligned_cols=59 Identities=17% Similarity=0.126 Sum_probs=50.9
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh---------cCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~---------~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
+++|+|++++||||||||++|.++++..+.. .+.++++++|+++|+.|+++.+..+...
T Consensus 42 il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~ 109 (423)
T PRK04837 42 TLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQA 109 (423)
T ss_pred HhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHHhcc
Confidence 3789999999999999999999999987754 1357999999999999999988877543
No 31
>KOG0338|consensus
Probab=99.35 E-value=1.8e-12 Score=99.39 Aligned_cols=91 Identities=12% Similarity=0.090 Sum_probs=79.4
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-----CCeEEEEccchhHHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-----QKSAIFILPYISLVH 117 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-----~~~~~~i~P~~~l~~ 117 (138)
.|..++++.+...|+..+.|+|..++|...- +++..++-||+|||.++.+|++++++.+ ..|+++++||++|+.
T Consensus 187 NLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELai 266 (691)
T KOG0338|consen 187 NLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAI 266 (691)
T ss_pred ccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHH
Confidence 3556778888888888999999999997777 9999999999999999999999999873 248999999999999
Q ss_pred HHHHHHHHHhhhcCcee
Q psy2029 118 EKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 118 q~~~~~~~~~~~~~~~v 134 (138)
|.+...++++...++.|
T Consensus 267 Qv~sV~~qlaqFt~I~~ 283 (691)
T KOG0338|consen 267 QVHSVTKQLAQFTDITV 283 (691)
T ss_pred HHHHHHHHHHhhcccee
Confidence 99999999987765443
No 32
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.34 E-value=3.4e-12 Score=105.49 Aligned_cols=75 Identities=23% Similarity=0.284 Sum_probs=62.6
Q ss_pred HHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--------CCCeEEEEccchhHHHHHHH
Q psy2029 51 QSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 51 ~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--------~~~~~~~i~P~~~l~~q~~~ 121 (138)
+++.+.++..++++|.++++.+.+ +|+++++|||+|||+++.+++++.+.. .+.+++|++|++||++|+++
T Consensus 23 ~~~~~~~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~ 102 (876)
T PRK13767 23 REWFKEKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHR 102 (876)
T ss_pred HHHHHHccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHH
Confidence 333333456699999999988887 999999999999999999999998864 13469999999999999998
Q ss_pred HHHH
Q psy2029 122 SLAK 125 (138)
Q Consensus 122 ~~~~ 125 (138)
.+.+
T Consensus 103 ~L~~ 106 (876)
T PRK13767 103 NLEE 106 (876)
T ss_pred HHHH
Confidence 7664
No 33
>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=99.33 E-value=2e-12 Score=105.18 Aligned_cols=56 Identities=16% Similarity=0.359 Sum_probs=51.3
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++|+|+++++|||||||++|.+|+++.+.+ .+.+++|++|+++|.+|+++.+.+++
T Consensus 49 l~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 49 HAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred HCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 689999999999999999999999998866 45699999999999999999999875
No 34
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.33 E-value=2.3e-12 Score=102.27 Aligned_cols=60 Identities=18% Similarity=0.216 Sum_probs=52.0
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc---------CCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK---------QKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---------~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
+++|+|++++||||||||++|+++++.++..+ ..+++|++|+++|+.|+++.+..++...
T Consensus 43 ~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l~~~~ 111 (572)
T PRK04537 43 ALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADL 111 (572)
T ss_pred HhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHHhccC
Confidence 47899999999999999999999999877541 3589999999999999999998876543
No 35
>KOG0331|consensus
Probab=99.32 E-value=3.7e-12 Score=98.60 Aligned_cols=89 Identities=15% Similarity=0.122 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--------CCeEEEEccchhH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--------QKSAIFILPYISL 115 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--------~~~~~~i~P~~~l 115 (138)
|..+....+...++..++++|++.+|.+.+ ++++..+-||+|||+.+++|++.++... ++++++++|||+|
T Consensus 98 ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTREL 177 (519)
T KOG0331|consen 98 LSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTREL 177 (519)
T ss_pred ccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHH
Confidence 344556666777888999999999999998 9999999999999999999999999862 5689999999999
Q ss_pred HHHHHHHHHHHhhhcCce
Q psy2029 116 VHEKYQSLAKAAEEFKFY 133 (138)
Q Consensus 116 ~~q~~~~~~~~~~~~~~~ 133 (138)
+.|+.+++.++...++++
T Consensus 178 A~QV~~~~~~~~~~~~~~ 195 (519)
T KOG0331|consen 178 AVQVQAEAREFGKSLRLR 195 (519)
T ss_pred HHHHHHHHHHHcCCCCcc
Confidence 999999999999888754
No 36
>KOG0340|consensus
Probab=99.31 E-value=5.3e-12 Score=93.10 Aligned_cols=89 Identities=16% Similarity=0.183 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLA 124 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~~~~ 124 (138)
=..+.+...+.+.+.|+|..|+|.+.+ ++++-++-||+|||..+.+++++++.+ .+.-++++.||++|+.|++++|.
T Consensus 17 Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~ 96 (442)
T KOG0340|consen 17 WLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFI 96 (442)
T ss_pred HHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHH
Confidence 345667777888999999999999999 999999999999999999999999987 35689999999999999999999
Q ss_pred HHhhhcCceeee
Q psy2029 125 KAAEEFKFYLEV 136 (138)
Q Consensus 125 ~~~~~~~~~v~~ 136 (138)
..++..++++..
T Consensus 97 alGk~l~lK~~v 108 (442)
T KOG0340|consen 97 ALGKLLNLKVSV 108 (442)
T ss_pred HhcccccceEEE
Confidence 999998887654
No 37
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.30 E-value=3.3e-12 Score=99.43 Aligned_cols=57 Identities=23% Similarity=0.226 Sum_probs=50.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc---------CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK---------QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---------~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++|+|+++++|||||||++|.++++..+.+. +.+++|++|+++|+.|+++.+..+..
T Consensus 122 ~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~~ 187 (475)
T PRK01297 122 LAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTK 187 (475)
T ss_pred hCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhhc
Confidence 6899999999999999999999999887653 35899999999999999999888753
No 38
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.30 E-value=4.2e-12 Score=98.40 Aligned_cols=58 Identities=16% Similarity=0.227 Sum_probs=50.2
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc--------CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK--------QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--------~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+++|+|++++||||||||++|.++++..+... ..++++++|+++|+.|+.+.+..+..
T Consensus 35 il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~~ 100 (456)
T PRK10590 35 VLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYSK 100 (456)
T ss_pred HhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHhc
Confidence 36899999999999999999999999887542 13799999999999999999988754
No 39
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.29 E-value=7.7e-11 Score=97.59 Aligned_cols=55 Identities=27% Similarity=0.425 Sum_probs=47.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh--------cCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++|+|++++||||||||++|.+++++++.. ++.+++|++|+++|.+|+++++...
T Consensus 45 l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~~ 107 (876)
T PRK13767 45 HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEEP 107 (876)
T ss_pred HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHHH
Confidence 679999999999999999999999988764 1347999999999999999887654
No 40
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.29 E-value=4.6e-12 Score=97.49 Aligned_cols=58 Identities=17% Similarity=0.184 Sum_probs=50.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh------cCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~------~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++|+|++++||||+|||++|++++++++.+ ...++++++|+++|+.|.++.+..++..
T Consensus 36 ~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~ 99 (434)
T PRK11192 36 LDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKH 99 (434)
T ss_pred hCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHcc
Confidence 578999999999999999999999998764 1358999999999999999998887543
No 41
>PTZ00110 helicase; Provisional
Probab=99.29 E-value=5.1e-12 Score=99.84 Aligned_cols=58 Identities=14% Similarity=0.150 Sum_probs=50.7
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh-------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI-------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+++|+|++++||||||||++|.+|++.++.. .+..+++++|+++|+.|+.+++..++.
T Consensus 164 ~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~ 228 (545)
T PTZ00110 164 ALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGA 228 (545)
T ss_pred HhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhc
Confidence 3689999999999999999999999987754 245789999999999999999988754
No 42
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.29 E-value=3.7e-12 Score=100.15 Aligned_cols=57 Identities=16% Similarity=0.151 Sum_probs=49.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh---------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~---------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++|+|++++||||||||++|+++++.++.+ .+.++++++|+++|+.|+.+.+..++.
T Consensus 156 l~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~ 221 (518)
T PLN00206 156 LSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGK 221 (518)
T ss_pred hcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhC
Confidence 689999999999999999999999987653 345899999999999999888877643
No 43
>PRK02362 ski2-like helicase; Provisional
Probab=99.29 E-value=6.1e-12 Score=102.50 Aligned_cols=54 Identities=31% Similarity=0.649 Sum_probs=49.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++|+|++++||||||||++|++++++++. ++++++|++|+++|++|+++.+.++
T Consensus 37 ~~g~nvlv~APTGSGKTlia~lail~~l~-~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 37 LDGKNLLAAIPTASGKTLIAELAMLKAIA-RGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred hCCCcEEEECCCcchHHHHHHHHHHHHHh-cCCcEEEEeChHHHHHHHHHHHHHh
Confidence 57899999999999999999999998875 5889999999999999999999876
No 44
>PRK00254 ski2-like helicase; Provisional
Probab=99.28 E-value=8.4e-12 Score=101.49 Aligned_cols=55 Identities=38% Similarity=0.661 Sum_probs=50.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++|+|++++||||||||++|++++++++.+.+++++|++|+++|++|+++.+.++
T Consensus 37 ~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 37 LEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred hCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHHH
Confidence 5789999999999999999999999988777889999999999999999988764
No 45
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.28 E-value=2.3e-11 Score=98.33 Aligned_cols=89 Identities=18% Similarity=0.200 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-------cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-------KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-------~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~ 120 (138)
...+++.+.....+++.|..+++.+.+ .+.++.+|||+|||+++.++++..+. .+.++++++|+++|+.|.+
T Consensus 249 ~~~~~~~~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~-~g~q~lilaPT~~LA~Q~~ 327 (681)
T PRK10917 249 ELLKKFLASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE-AGYQAALMAPTEILAEQHY 327 (681)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEEeccHHHHHHHH
Confidence 334444444344588999999965543 37899999999999999999988765 4789999999999999999
Q ss_pred HHHHHHhhhcCceeeec
Q psy2029 121 QSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~~ 137 (138)
+.+++++.++|+++..+
T Consensus 328 ~~l~~l~~~~~i~v~ll 344 (681)
T PRK10917 328 ENLKKLLEPLGIRVALL 344 (681)
T ss_pred HHHHHHHhhcCcEEEEE
Confidence 99999999988887654
No 46
>PRK09401 reverse gyrase; Reviewed
Probab=99.27 E-value=4.4e-11 Score=101.07 Aligned_cols=86 Identities=23% Similarity=0.268 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHh----hhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHH
Q psy2029 48 EKYQSLAKAAEE----FKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 122 (138)
Q Consensus 48 q~~~~l~~~~~~----~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~ 122 (138)
+.++++++++.. .++++|..+++.+.. +++++.+|||+|||..++. +...+...+.++++++||++|+.|+++.
T Consensus 64 ~~~~~~~~~f~~~~G~~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~-~~~~l~~~g~~alIL~PTreLa~Qi~~~ 142 (1176)
T PRK09401 64 EEYKEFEKFFKKKTGSKPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLV-MSLYLAKKGKKSYIIFPTRLLVEQVVEK 142 (1176)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHH-HHHHHHhcCCeEEEEeccHHHHHHHHHH
Confidence 455666655432 479999999988887 9999999999999976544 4444555678999999999999999999
Q ss_pred HHHHhhhcCcee
Q psy2029 123 LAKAAEEFKFYL 134 (138)
Q Consensus 123 ~~~~~~~~~~~v 134 (138)
+++++...++.+
T Consensus 143 l~~l~~~~~~~~ 154 (1176)
T PRK09401 143 LEKFGEKVGCGV 154 (1176)
T ss_pred HHHHhhhcCceE
Confidence 999998877664
No 47
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.27 E-value=2.2e-11 Score=94.39 Aligned_cols=58 Identities=19% Similarity=0.330 Sum_probs=50.3
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+++|+|++++||||||||++|.++++.++... ..++++++|+++|+.|..+++..++.
T Consensus 38 ~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~ 97 (460)
T PRK11776 38 ILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLAR 97 (460)
T ss_pred HhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHh
Confidence 36899999999999999999999999887542 34799999999999999999888753
No 48
>KOG0330|consensus
Probab=99.26 E-value=2.2e-11 Score=90.80 Aligned_cols=82 Identities=12% Similarity=0.148 Sum_probs=67.3
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHHHHhhhhh---------hhhHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAEEFKFY---------LEGKCLE 70 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~---------~Q~~~~~ 70 (138)
+.|+++|..|.||||||.+|.+|++++|+++ ...+++++|+++|..|+.+.++..+...+.. .+.+..+
T Consensus 96 L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~ 175 (476)
T KOG0330|consen 96 LGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQ 175 (476)
T ss_pred hCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHH
Confidence 7899999999999999999999999999884 3489999999999999999999987665444 4444444
Q ss_pred hhhccceEEEeec
Q psy2029 71 MIQNKNCVLSIPT 83 (138)
Q Consensus 71 ~~~~~~~ii~~pt 83 (138)
..++.++++.+|.
T Consensus 176 L~kkPhilVaTPG 188 (476)
T KOG0330|consen 176 LSKKPHILVATPG 188 (476)
T ss_pred hhcCCCEEEeCcH
Confidence 4445888888884
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=99.25 E-value=5e-11 Score=100.81 Aligned_cols=86 Identities=20% Similarity=0.203 Sum_probs=69.6
Q ss_pred HHHHHHHHHHH----hhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHH
Q psy2029 48 EKYQSLAKAAE----EFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 122 (138)
Q Consensus 48 q~~~~l~~~~~----~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~ 122 (138)
+.++++.+++. ..++++|..+++.+.. +++++.+|||+|||..+ +++...+...+.++++++||++|+.|+++.
T Consensus 62 ~~~~~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~-l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~ 140 (1171)
T TIGR01054 62 EELKEFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFG-LAMSLFLAKKGKRCYIILPTTLLVIQVAEK 140 (1171)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHH-HHHHHHHHhcCCeEEEEeCHHHHHHHHHHH
Confidence 35556666543 2589999999988887 99999999999999855 555555555678999999999999999999
Q ss_pred HHHHhhhcCcee
Q psy2029 123 LAKAAEEFKFYL 134 (138)
Q Consensus 123 ~~~~~~~~~~~v 134 (138)
+++++...|+.+
T Consensus 141 l~~l~~~~~i~~ 152 (1171)
T TIGR01054 141 ISSLAEKAGVGT 152 (1171)
T ss_pred HHHHHHhcCCce
Confidence 999998777653
No 50
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.25 E-value=1.1e-11 Score=101.89 Aligned_cols=60 Identities=20% Similarity=0.287 Sum_probs=53.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHHHhhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAEEFK 61 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~ 61 (138)
.+|+|++|+.|||||||.+|++|++.+++. ...++||+.|++||.+++.++++++....+
T Consensus 83 ~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~ 143 (851)
T COG1205 83 REGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLP 143 (851)
T ss_pred HCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCC
Confidence 578999999999999999999999999887 455889999999999999999999866544
No 51
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.25 E-value=2e-11 Score=82.10 Aligned_cols=58 Identities=26% Similarity=0.429 Sum_probs=51.0
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
.+|+|+++++|||+|||+++..+++..+.+. ..++++++|+++|.+|..+++.+++..
T Consensus 12 ~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 12 ISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp HTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred HcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc
Confidence 3688999999999999999999999877664 349999999999999999999888653
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=99.24 E-value=4.9e-11 Score=98.80 Aligned_cols=88 Identities=17% Similarity=0.137 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-------cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-------KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-------~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~ 120 (138)
+..+.+.+.+...+++.|..+++.+.+ .+.++++|||+|||.++++++++.+.. +.++++++||++|+.|.+
T Consensus 439 ~~~~~~~~~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~-g~qvlvLvPT~~LA~Q~~ 517 (926)
T TIGR00580 439 EWQQEFEDSFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD-GKQVAVLVPTTLLAQQHF 517 (926)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh-CCeEEEEeCcHHHHHHHH
Confidence 445556554333588999999965543 578999999999999999999887764 689999999999999999
Q ss_pred HHHHHHhhhcCceeee
Q psy2029 121 QSLAKAAEEFKFYLEV 136 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~ 136 (138)
+.|++++.+.++++..
T Consensus 518 ~~f~~~~~~~~i~v~~ 533 (926)
T TIGR00580 518 ETFKERFANFPVTIEL 533 (926)
T ss_pred HHHHHHhccCCcEEEE
Confidence 9999999888877654
No 53
>PTZ00424 helicase 45; Provisional
Probab=99.23 E-value=4.1e-11 Score=91.17 Aligned_cols=57 Identities=12% Similarity=0.158 Sum_probs=49.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++|+|++++||||||||++|.++++..+.. ++.++++++|+++|+.|..+.+...+.
T Consensus 63 ~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~ 121 (401)
T PTZ00424 63 LDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGD 121 (401)
T ss_pred hCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhh
Confidence 678999999999999999999999987643 456899999999999999888877653
No 54
>KOG0951|consensus
Probab=99.23 E-value=3.8e-11 Score=99.71 Aligned_cols=81 Identities=25% Similarity=0.308 Sum_probs=70.2
Q ss_pred HhhhhhhhhHHHhhhhc--cceEEEeecCCCchHhHHHHHHHHHHhCC----------CeEEEEccchhHHHHHHHHHHH
Q psy2029 58 EEFKFYLEGKCLEMIQN--KNCVLSIPTSGGKTLVGEILIMKELKIKQ----------KSAIFILPYISLVHEKYQSLAK 125 (138)
Q Consensus 58 ~~~~~~~Q~~~~~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~----------~~~~~i~P~~~l~~q~~~~~~~ 125 (138)
...+.++|......... .|+++|+|||+|||.+|++.+++++..+. .+++|++|++||+.++...|.+
T Consensus 307 ~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSk 386 (1674)
T KOG0951|consen 307 KQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSK 386 (1674)
T ss_pred chhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHh
Confidence 34477888877754443 99999999999999999999999998742 2899999999999999999999
Q ss_pred HhhhcCceeeecC
Q psy2029 126 AAEEFKFYLEVLE 138 (138)
Q Consensus 126 ~~~~~~~~v~~~~ 138 (138)
+..++|+.|.+.+
T Consensus 387 Rla~~GI~V~ElT 399 (1674)
T KOG0951|consen 387 RLAPLGITVLELT 399 (1674)
T ss_pred hccccCcEEEEec
Confidence 9999999998863
No 55
>KOG0348|consensus
Probab=99.23 E-value=1.6e-11 Score=94.71 Aligned_cols=58 Identities=22% Similarity=0.391 Sum_probs=51.4
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+|+|+|++|.++||||||++|.+|+.+++.. .|.-+++++||++|+.|+|+.+.+.-.
T Consensus 171 lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~ 236 (708)
T KOG0348|consen 171 LLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLK 236 (708)
T ss_pred hhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhc
Confidence 4789999999999999999999999998865 255889999999999999999888743
No 56
>KOG0354|consensus
Probab=99.22 E-value=1.1e-11 Score=99.09 Aligned_cols=57 Identities=19% Similarity=0.455 Sum_probs=51.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
| |+|+++++|||+|||.+|.+.|.+|+.+ .++|+++.+|++.|+.|+.+.+..++..
T Consensus 75 L-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~ 132 (746)
T KOG0354|consen 75 L-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIP 132 (746)
T ss_pred h-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCc
Confidence 6 9999999999999999999999999988 5679999999999999998888777643
No 57
>KOG0350|consensus
Probab=99.22 E-value=2.3e-11 Score=93.10 Aligned_cols=114 Identities=18% Similarity=0.271 Sum_probs=82.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc---CCeEEEEcchhhhHHHHHHHHHHHHHhhhhhh-----hhHHH---hh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKAAEEFKFYL-----EGKCL---EM 71 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~-----Q~~~~---~~ 71 (138)
.++++.|.||||||||++|.+|+.+.+..+ .-|+++++|++.|..|.++.|.++....+..+ |...- .+
T Consensus 182 r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~q 261 (620)
T KOG0350|consen 182 RPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQ 261 (620)
T ss_pred CCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHH
Confidence 367999999999999999999999977664 34899999999999999999999865443222 21111 11
Q ss_pred h-hc-c----ceEEEeecCCCchHhHHHHHHHHHHh------CCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 72 I-QN-K----NCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 72 ~-~~-~----~~ii~~ptg~GKt~~~~~~~l~~~~~------~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+ .+ . ++++++| -..+.++.+ .+-|.++|.-.--|.+|.++++-..
T Consensus 262 L~~~~~~~~~DIlVaTP----------GRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~~ 318 (620)
T KOG0350|consen 262 LASDPPECRIDILVATP----------GRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDT 318 (620)
T ss_pred HhcCCCccccceEEcCc----------hHHHHhccCCCCcchhhceEEEechHHHHHHHHHHHHHHH
Confidence 2 22 3 8888888 445556653 2347888888877888877665443
No 58
>KOG0343|consensus
Probab=99.22 E-value=2.2e-11 Score=94.26 Aligned_cols=89 Identities=18% Similarity=0.208 Sum_probs=74.9
Q ss_pred HHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh------CCCeEEEEccchhHHHHH
Q psy2029 47 HEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVHEK 119 (138)
Q Consensus 47 ~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~------~~~~~~~i~P~~~l~~q~ 119 (138)
......+.+..+..+..+|.+++|.... ++++-.+-||+|||+++++|+++.+.. .+--+++|.|||+|+.|+
T Consensus 78 ~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~Qt 157 (758)
T KOG0343|consen 78 QKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQT 157 (758)
T ss_pred hHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHH
Confidence 3344455555555678899999988887 999999999999999999999999976 245689999999999999
Q ss_pred HHHHHHHhhhcCceee
Q psy2029 120 YQSLAKAAEEFKFYLE 135 (138)
Q Consensus 120 ~~~~~~~~~~~~~~v~ 135 (138)
++.+.+++..++++.+
T Consensus 158 FevL~kvgk~h~fSaG 173 (758)
T KOG0343|consen 158 FEVLNKVGKHHDFSAG 173 (758)
T ss_pred HHHHHHHhhccccccc
Confidence 9999999999877654
No 59
>KOG0346|consensus
Probab=99.21 E-value=3.2e-11 Score=91.17 Aligned_cols=87 Identities=21% Similarity=0.271 Sum_probs=75.9
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--------CCCeEEEEccchhH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISL 115 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--------~~~~~~~i~P~~~l 115 (138)
|...+.+.+.+.|+..+.-+|..++|.+.+ ++++..+.||+|||.++++|+++.+.+ .+..+++++||++|
T Consensus 26 LD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL 105 (569)
T KOG0346|consen 26 LDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKEL 105 (569)
T ss_pred CCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHH
Confidence 445566777778888889999999999988 999999999999999999999999976 24579999999999
Q ss_pred HHHHHHHHHHHhhhcC
Q psy2029 116 VHEKYQSLAKAAEEFK 131 (138)
Q Consensus 116 ~~q~~~~~~~~~~~~~ 131 (138)
+.|.+..+.++....+
T Consensus 106 ~qQvy~viekL~~~c~ 121 (569)
T KOG0346|consen 106 AQQVYKVIEKLVEYCS 121 (569)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999998876653
No 60
>KOG0342|consensus
Probab=99.21 E-value=4e-11 Score=91.49 Aligned_cols=90 Identities=14% Similarity=0.145 Sum_probs=79.3
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh------CCCeEEEEccchhHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVH 117 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~------~~~~~~~i~P~~~l~~ 117 (138)
|.......+.+.++....++|...++.+.. ++++..+-||+|||+++++++++.+.. ++..+++++|||+|+.
T Consensus 89 LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~ 168 (543)
T KOG0342|consen 89 LSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAM 168 (543)
T ss_pred cCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHH
Confidence 456778889999999999999999977777 999999999999999999999999876 2457999999999999
Q ss_pred HHHHHHHHHhhhc-Ccee
Q psy2029 118 EKYQSLAKAAEEF-KFYL 134 (138)
Q Consensus 118 q~~~~~~~~~~~~-~~~v 134 (138)
|.+.+.+++...+ ++.|
T Consensus 169 Q~~~eak~Ll~~h~~~~v 186 (543)
T KOG0342|consen 169 QIFAEAKELLKYHESITV 186 (543)
T ss_pred HHHHHHHHHHhhCCCcce
Confidence 9999999998887 4443
No 61
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.20 E-value=7.4e-11 Score=94.74 Aligned_cols=77 Identities=18% Similarity=0.242 Sum_probs=65.7
Q ss_pred hhhhhhhHHHhhhhc-------cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCc
Q psy2029 60 FKFYLEGKCLEMIQN-------KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~-------~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~ 132 (138)
.+++.|..+++.+.. .|.++.+|||+|||+++.++++..+. .+.+++|++|+++|+.|.++.+++++.++|+
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~-~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi 313 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE-AGYQVALMAPTEILAEQHYNSLRNLLAPLGI 313 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH-cCCcEEEECCHHHHHHHHHHHHHHHhcccCc
Confidence 588899999855432 36799999999999999998887665 4789999999999999999999999998888
Q ss_pred eeeec
Q psy2029 133 YLEVL 137 (138)
Q Consensus 133 ~v~~~ 137 (138)
++..+
T Consensus 314 ~v~ll 318 (630)
T TIGR00643 314 EVALL 318 (630)
T ss_pred EEEEE
Confidence 87643
No 62
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.20 E-value=2.2e-11 Score=100.44 Aligned_cols=56 Identities=29% Similarity=0.430 Sum_probs=50.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
..|+++++|||||||||+++++++...+.+ +.+++|+.|++||.+|+++++...+.
T Consensus 132 er~esVlV~ApTssGKTvVaeyAi~~al~~-~qrviYTsPIKALsNQKyrdl~~~fg 187 (1041)
T COG4581 132 ERGESVLVCAPTSSGKTVVAEYAIALALRD-GQRVIYTSPIKALSNQKYRDLLAKFG 187 (1041)
T ss_pred hCCCcEEEEccCCCCcchHHHHHHHHHHHc-CCceEeccchhhhhhhHHHHHHHHhh
Confidence 468999999999999999999999987765 77799999999999999999888654
No 63
>KOG0344|consensus
Probab=99.20 E-value=2.7e-11 Score=93.91 Aligned_cols=88 Identities=18% Similarity=0.255 Sum_probs=75.7
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC-------CeEEEEccchhHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ-------KSAIFILPYISLVHEK 119 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~-------~~~~~i~P~~~l~~q~ 119 (138)
+..+++.+.++..+.++|.+++|...+ ++++.++|||+|||+.+.+|+++++.... -+++++.|+++|++|.
T Consensus 146 ~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi 225 (593)
T KOG0344|consen 146 RLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQI 225 (593)
T ss_pred HHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHH
Confidence 445667777788899999999998888 99999999999999999999999998633 5899999999999999
Q ss_pred HHHHHHHh--hhcCceee
Q psy2029 120 YQSLAKAA--EEFKFYLE 135 (138)
Q Consensus 120 ~~~~~~~~--~~~~~~v~ 135 (138)
+++.+++. ...+.+++
T Consensus 226 ~re~~k~~~~~~t~~~a~ 243 (593)
T KOG0344|consen 226 YREMRKYSIDEGTSLRAA 243 (593)
T ss_pred HHHHHhcCCCCCCchhhh
Confidence 99999998 55555443
No 64
>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=99.19 E-value=4.7e-11 Score=92.94 Aligned_cols=67 Identities=19% Similarity=0.319 Sum_probs=59.7
Q ss_pred HHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 56 AAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 56 ~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
++++.+.++|.++++.+.+ +++++.+|||+|||+++.++++. .++.+++++|+++|+.|+++.++..
T Consensus 7 ~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~----~~~~~lVi~P~~~L~~dq~~~l~~~ 74 (470)
T TIGR00614 7 FGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC----SDGITLVISPLISLMEDQVLQLKAS 74 (470)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH----cCCcEEEEecHHHHHHHHHHHHHHc
Confidence 4667789999999988887 99999999999999999999875 3678999999999999999998865
No 65
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.19 E-value=1e-10 Score=91.93 Aligned_cols=60 Identities=17% Similarity=0.257 Sum_probs=51.7
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--cCC-e-EEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQK-S-AIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~-~-~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
+++|+|++..|+||+|||++|.+|+++++.. ... . +++++||++|+.|+++++..++...
T Consensus 63 ~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~ 126 (513)
T COG0513 63 ILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNL 126 (513)
T ss_pred HhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhc
Confidence 4789999999999999999999999998762 222 2 8999999999999999999987654
No 66
>KOG0343|consensus
Probab=99.19 E-value=4.9e-11 Score=92.44 Aligned_cols=82 Identities=22% Similarity=0.253 Sum_probs=67.1
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh------cCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH-----
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL----- 69 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~------~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~----- 69 (138)
.|+|++++-.|.||||||+++++|++++|-. .|--++++.||++|..|++..+.+.+..+.++..-..+
T Consensus 103 aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k 182 (758)
T KOG0343|consen 103 ALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVK 182 (758)
T ss_pred hccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhhccccccceeecCchhH
Confidence 3789999999999999999999999998755 35588999999999999999999998766555433222
Q ss_pred ---hhhhccceEEEee
Q psy2029 70 ---EMIQNKNCVLSIP 82 (138)
Q Consensus 70 ---~~~~~~~~ii~~p 82 (138)
..+.+.|+++|+|
T Consensus 183 ~E~eRi~~mNILVCTP 198 (758)
T KOG0343|consen 183 FELERISQMNILVCTP 198 (758)
T ss_pred HHHHhhhcCCeEEech
Confidence 2344489999999
No 67
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.18 E-value=8.3e-11 Score=94.11 Aligned_cols=80 Identities=20% Similarity=0.305 Sum_probs=65.2
Q ss_pred chhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHH
Q psy2029 41 PYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEK 119 (138)
Q Consensus 41 P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~ 119 (138)
|..++..+..++. ++++.+.++|.++++.+.+ +++++.+|||+|||+++.++++.. .+.+++++|+++|+.|+
T Consensus 8 ~~~~~~~~~l~~~--fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~----~g~tlVisPl~sL~~dq 81 (607)
T PRK11057 8 NLESLAKQVLQET--FGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL----DGLTLVVSPLISLMKDQ 81 (607)
T ss_pred CchhHHHHHHHHH--cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc----CCCEEEEecHHHHHHHH
Confidence 3444444444432 4677788999999988888 999999999999999999998853 56799999999999999
Q ss_pred HHHHHHH
Q psy2029 120 YQSLAKA 126 (138)
Q Consensus 120 ~~~~~~~ 126 (138)
.+.++..
T Consensus 82 v~~l~~~ 88 (607)
T PRK11057 82 VDQLLAN 88 (607)
T ss_pred HHHHHHc
Confidence 9998876
No 68
>KOG0331|consensus
Probab=99.18 E-value=7e-11 Score=91.62 Aligned_cols=60 Identities=15% Similarity=0.130 Sum_probs=53.7
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--------cCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
+++|+|++..|.||||||++|.+|++.++.+ ++.++|+++||++|+.|+.+++.+++...
T Consensus 125 ~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~ 192 (519)
T KOG0331|consen 125 ALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSL 192 (519)
T ss_pred eccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCC
Confidence 3789999999999999999999999999875 25589999999999999999999987644
No 69
>KOG0346|consensus
Probab=99.17 E-value=1.7e-10 Score=87.32 Aligned_cols=82 Identities=23% Similarity=0.316 Sum_probs=63.5
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--------cCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH---
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL--- 69 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~--- 69 (138)
+|+|+|++..|.||||||.+|++|+++.+++ .+..+++++|+++|+.|.|..++.....+...++..-+
T Consensus 53 aLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~ 132 (569)
T KOG0346|consen 53 ALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASS 132 (569)
T ss_pred hhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc
Confidence 4799999999999999999999999998876 24488999999999999999988875554433322211
Q ss_pred -------hhhhc-cceEEEee
Q psy2029 70 -------EMIQN-KNCVLSIP 82 (138)
Q Consensus 70 -------~~~~~-~~~ii~~p 82 (138)
..+.+ .++++.+|
T Consensus 133 ~sdsv~~~~L~d~pdIvV~TP 153 (569)
T KOG0346|consen 133 MSDSVNSVALMDLPDIVVATP 153 (569)
T ss_pred cchHHHHHHHccCCCeEEeCh
Confidence 23345 78888888
No 70
>PRK01172 ski2-like helicase; Provisional
Probab=99.17 E-value=5e-11 Score=96.37 Aligned_cols=54 Identities=33% Similarity=0.564 Sum_probs=48.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+|+|++++||||||||++++.++++++.+ +++++|++|+++|++|+++++.++
T Consensus 35 ~~~~nvlv~apTGSGKTl~a~lail~~l~~-~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 35 RKGENVIVSVPTAAGKTLIAYSAIYETFLA-GLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred hcCCcEEEECCCCchHHHHHHHHHHHHHHh-CCcEEEEechHHHHHHHHHHHHHH
Confidence 468899999999999999999999987654 789999999999999999998764
No 71
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.16 E-value=1.3e-10 Score=93.12 Aligned_cols=57 Identities=14% Similarity=0.225 Sum_probs=49.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++|+|++++||||+|||++|.++++..+.. ...++++++|+++|+.|..+.+.++..
T Consensus 41 l~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~ 99 (629)
T PRK11634 41 LNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSK 99 (629)
T ss_pred HcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHh
Confidence 678999999999999999999999877644 345899999999999999999888743
No 72
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.15 E-value=3.4e-10 Score=90.65 Aligned_cols=52 Identities=25% Similarity=0.532 Sum_probs=45.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++|+|+++++|||+|||++|.++++. .++.+++++|+++|..|+.+.+...+
T Consensus 38 l~g~dvlv~apTGsGKTl~y~lpal~----~~g~tlVisPl~sL~~dqv~~l~~~g 89 (607)
T PRK11057 38 LSGRDCLVVMPTGGGKSLCYQIPALV----LDGLTLVVSPLISLMKDQVDQLLANG 89 (607)
T ss_pred HcCCCEEEEcCCCchHHHHHHHHHHH----cCCCEEEEecHHHHHHHHHHHHHHcC
Confidence 68899999999999999999999875 35789999999999999988887653
No 73
>KOG0335|consensus
Probab=99.15 E-value=5.1e-11 Score=91.30 Aligned_cols=90 Identities=17% Similarity=0.108 Sum_probs=75.8
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC------------CCeEEEEcc
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK------------QKSAIFILP 111 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~------------~~~~~~i~P 111 (138)
|.+....++...+...+.|+|..++|.+.+ ++.+++++||+|||..+++|++.++... .+++++++|
T Consensus 81 l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlap 160 (482)
T KOG0335|consen 81 LGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAP 160 (482)
T ss_pred hhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeC
Confidence 334444555555667799999999999998 9999999999999999999999999862 268999999
Q ss_pred chhHHHHHHHHHHHHhhhcCcee
Q psy2029 112 YISLVHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 112 ~~~l~~q~~~~~~~~~~~~~~~v 134 (138)
|++|+.|.+++.+++.-..++++
T Consensus 161 TReL~~Qi~nea~k~~~~s~~~~ 183 (482)
T KOG0335|consen 161 TRELVDQIYNEARKFSYLSGMKS 183 (482)
T ss_pred cHHHhhHHHHHHHhhccccccee
Confidence 99999999999999977666554
No 74
>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=99.15 E-value=2.3e-10 Score=89.06 Aligned_cols=52 Identities=25% Similarity=0.514 Sum_probs=46.0
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++|+|+++++|||+|||++|.+|++. .++.+++++|+++|..|+++.+...+
T Consensus 24 l~g~dvlv~apTGsGKTl~y~lp~l~----~~~~~lVi~P~~~L~~dq~~~l~~~g 75 (470)
T TIGR00614 24 LLGRDCFVVMPTGGGKSLCYQLPALC----SDGITLVISPLISLMEDQVLQLKASG 75 (470)
T ss_pred HcCCCEEEEcCCCCcHhHHHHHHHHH----cCCcEEEEecHHHHHHHHHHHHHHcC
Confidence 67899999999999999999999875 36789999999999999988887654
No 75
>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=99.15 E-value=1.5e-10 Score=80.32 Aligned_cols=57 Identities=19% Similarity=0.216 Sum_probs=49.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc----CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK----QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~----~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
.+|+|+++++|||+|||+++.++++..+... +.++++++|+++|..|..+.++++..
T Consensus 34 ~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~ 94 (203)
T cd00268 34 LSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGK 94 (203)
T ss_pred hcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhc
Confidence 4689999999999999999999988877653 45899999999999999998888743
No 76
>PRK14701 reverse gyrase; Provisional
Probab=99.14 E-value=3.2e-10 Score=98.19 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=61.3
Q ss_pred hhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCc
Q psy2029 60 FKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~ 132 (138)
.+++.|..+++.+.. +++++.+|||+|||+++.++.+.. ...+.++++++|+++|+.|+++.+++++...++
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~ 151 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEKIESFCEKANL 151 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCC
Confidence 589999999988888 999999999999999766655543 234678999999999999999999999877643
No 77
>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=99.13 E-value=4.7e-10 Score=89.56 Aligned_cols=52 Identities=25% Similarity=0.487 Sum_probs=46.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++|+|++++||||+|||++|.++++. +++.+++++|+++|..|+.+.+...+
T Consensus 26 l~g~dvlv~~PTG~GKTl~y~lpal~----~~g~~lVisPl~sL~~dq~~~l~~~g 77 (591)
T TIGR01389 26 LDGRDVLVVMPTGGGKSLCYQVPALL----LKGLTVVISPLISLMKDQVDQLRAAG 77 (591)
T ss_pred HcCCCEEEEcCCCccHhHHHHHHHHH----cCCcEEEEcCCHHHHHHHHHHHHHcC
Confidence 68999999999999999999998874 36788999999999999999887764
No 78
>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=99.12 E-value=1.5e-10 Score=92.32 Aligned_cols=67 Identities=19% Similarity=0.292 Sum_probs=60.0
Q ss_pred HHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 56 AAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 56 ~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
++++.+.+.|.++++.+.+ +++++.+|||+|||+++.++++. .++.++|++|+++|+.|+++.+++.
T Consensus 9 fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~----~~g~~lVisPl~sL~~dq~~~l~~~ 76 (591)
T TIGR01389 9 FGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALL----LKGLTVVISPLISLMKDQVDQLRAA 76 (591)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHH----cCCcEEEEcCCHHHHHHHHHHHHHc
Confidence 4677788999999988888 99999999999999999999875 3567899999999999999999876
No 79
>KOG0347|consensus
Probab=99.11 E-value=6.4e-11 Score=91.69 Aligned_cols=92 Identities=22% Similarity=0.189 Sum_probs=79.6
Q ss_pred HHHHHHHHHHHHHhhhhhhhhHHHhhh-hc-cceEEEeecCCCchHhHHHHHHHHHHh-------------CCCe--EEE
Q psy2029 46 VHEKYQSLAKAAEEFKFYLEGKCLEMI-QN-KNCVLSIPTSGGKTLVGEILIMKELKI-------------KQKS--AIF 108 (138)
Q Consensus 46 ~~q~~~~l~~~~~~~~~~~Q~~~~~~~-~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-------------~~~~--~~~ 108 (138)
..++++.+...+++.+.++|...+|.+ ++ .+++-.+.||+|||+++-+|++.++.+ ...+ +++
T Consensus 189 p~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV 268 (731)
T KOG0347|consen 189 PMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALV 268 (731)
T ss_pred CHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEE
Confidence 368889999999999999999999655 55 889999999999999999999996543 2334 899
Q ss_pred EccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 109 ILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 109 i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
++|||+||.|+.+.+..++...++++..+
T Consensus 269 ~tPTRELa~QV~~Hl~ai~~~t~i~v~si 297 (731)
T KOG0347|consen 269 VTPTRELAHQVKQHLKAIAEKTQIRVASI 297 (731)
T ss_pred ecChHHHHHHHHHHHHHhccccCeEEEEe
Confidence 99999999999999999999999987643
No 80
>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=99.11 E-value=3.5e-10 Score=85.26 Aligned_cols=63 Identities=19% Similarity=0.308 Sum_probs=53.1
Q ss_pred hhhHHHhhhhc-c--ceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 64 LEGKCLEMIQN-K--NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 64 ~Q~~~~~~~~~-~--~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
+|.++++.+.+ . ++++++|||+|||.++.++++. .+.+++|++|+++|++|+++.+++++...
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~~~~~~~~~P~~aL~~~~~~~~~~~~~~~ 66 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----GENDTIALYPTNALIEDQTEAIKEFVDVF 66 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----cCCCEEEEeChHHHHHHHHHHHHHHHHhc
Confidence 47778877766 3 4688999999999999998885 35688999999999999999999998543
No 81
>KOG0345|consensus
Probab=99.07 E-value=7.7e-10 Score=84.35 Aligned_cols=58 Identities=22% Similarity=0.259 Sum_probs=49.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc-----CC--eEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK-----QK--SAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-----~~--~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++++|+++-+|||||||++|.+|+++-+.++ .+ -++++.|+++|+.|+.+....+..+
T Consensus 41 l~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~~ 105 (567)
T KOG0345|consen 41 LKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEH 105 (567)
T ss_pred hcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHHh
Confidence 6789999999999999999999999866332 22 5799999999999999998888655
No 82
>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=99.07 E-value=4.3e-10 Score=84.48 Aligned_cols=51 Identities=24% Similarity=0.322 Sum_probs=45.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+++++||||||||.++..+++..+.+ .+.+++|+.|+++|.+|+++.+.+.
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 47999999999999999999977544 4579999999999999999988886
No 83
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.07 E-value=1.6e-09 Score=90.58 Aligned_cols=51 Identities=24% Similarity=0.432 Sum_probs=44.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++|+|++++||||+|||++|.+|++. .++.++++.|+++|..++...+...
T Consensus 473 L~GrDVLVimPTGSGKSLcYQLPAL~----~~GiTLVISPLiSLmqDQV~~L~~~ 523 (1195)
T PLN03137 473 MSGYDVFVLMPTGGGKSLTYQLPALI----CPGITLVISPLVSLIQDQIMNLLQA 523 (1195)
T ss_pred HcCCCEEEEcCCCccHHHHHHHHHHH----cCCcEEEEeCHHHHHHHHHHHHHhC
Confidence 68999999999999999999999885 3678999999999998877776654
No 84
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.06 E-value=8.5e-10 Score=93.28 Aligned_cols=88 Identities=14% Similarity=0.184 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-------cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-------KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-------~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~ 120 (138)
..++++...+...+.+.|.++++.+.+ .+.++++|||+|||.+++.+++..+. .+.++++++|+++|+.|.+
T Consensus 588 ~~~~~~~~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~-~g~qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 588 EQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE-NHKQVAVLVPTTLLAQQHY 666 (1147)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH-cCCeEEEEeCcHHHHHHHH
Confidence 344555555444688999999965442 68899999999999999887776544 5789999999999999999
Q ss_pred HHHHHHhhhcCceeee
Q psy2029 121 QSLAKAAEEFKFYLEV 136 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~ 136 (138)
+.|++.+...++++..
T Consensus 667 ~~f~~~~~~~~v~i~~ 682 (1147)
T PRK10689 667 DNFRDRFANWPVRIEM 682 (1147)
T ss_pred HHHHHhhccCCceEEE
Confidence 9999988877766543
No 85
>KOG0333|consensus
Probab=99.06 E-value=3.9e-10 Score=86.99 Aligned_cols=92 Identities=13% Similarity=0.063 Sum_probs=80.5
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-----------CCCeEEEEccc
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-----------KQKSAIFILPY 112 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-----------~~~~~~~i~P~ 112 (138)
+..+.++.+.+.+...+.|+|.+++|...+ ++.+..+-||||||+.+.++++..+.+ .++.+++++||
T Consensus 252 ~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilapt 331 (673)
T KOG0333|consen 252 FPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPT 331 (673)
T ss_pred CCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechH
Confidence 456777777777888899999999986666 999999999999999999999888765 36789999999
Q ss_pred hhHHHHHHHHHHHHhhhcCceeee
Q psy2029 113 ISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 113 ~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++|+.|+.++-.+++.++|+++..
T Consensus 332 ReLaqqIeeEt~kf~~~lg~r~vs 355 (673)
T KOG0333|consen 332 RELAQQIEEETNKFGKPLGIRTVS 355 (673)
T ss_pred HHHHHHHHHHHHHhcccccceEEE
Confidence 999999999999999999988754
No 86
>KOG0948|consensus
Probab=99.06 E-value=2.4e-10 Score=91.24 Aligned_cols=56 Identities=29% Similarity=0.434 Sum_probs=50.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
.++.+++|+|.|++|||++|++++...|++ +.|++|..|.++|.+|+|+++.+-+.
T Consensus 142 dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~-kQRVIYTSPIKALSNQKYREl~~EF~ 197 (1041)
T KOG0948|consen 142 DRGESVLVSAHTSAGKTVVAEYAIAMSLRE-KQRVIYTSPIKALSNQKYRELLEEFK 197 (1041)
T ss_pred cCCceEEEEeecCCCcchHHHHHHHHHHHh-cCeEEeeChhhhhcchhHHHHHHHhc
Confidence 467899999999999999999999998775 78999999999999999999887644
No 87
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.05 E-value=5.3e-10 Score=85.87 Aligned_cols=52 Identities=27% Similarity=0.421 Sum_probs=48.7
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+|+++++|||-|||.+|...+.+.+.+.+++++++.|++.|+.|..+.+.+.
T Consensus 30 ~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v 81 (542)
T COG1111 30 KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKV 81 (542)
T ss_pred cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHH
Confidence 5999999999999999999999999887779999999999999999998886
No 88
>PRK09401 reverse gyrase; Reviewed
Probab=99.04 E-value=7.7e-10 Score=93.74 Aligned_cols=58 Identities=28% Similarity=0.328 Sum_probs=47.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
++|+|++++||||+|||.++. ++...+..++.++++++|+++|+.|+++.+..++...
T Consensus 93 l~g~dv~i~ApTGsGKT~f~l-~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~ 150 (1176)
T PRK09401 93 LLGESFAIIAPTGVGKTTFGL-VMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGEKV 150 (1176)
T ss_pred HCCCcEEEEcCCCCCHHHHHH-HHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhhhc
Confidence 689999999999999997554 3333344467899999999999999999999987643
No 89
>KOG0334|consensus
Probab=99.03 E-value=6.9e-10 Score=90.87 Aligned_cols=91 Identities=16% Similarity=0.180 Sum_probs=80.4
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-------CCCeEEEEccchhHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-------KQKSAIFILPYISLV 116 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-------~~~~~~~i~P~~~l~ 116 (138)
+...+...+++.+...+.++|.+++|.+.. +++|..+-||+|||+.+.+|+++.... .++-+++++|+++|+
T Consensus 372 l~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela 451 (997)
T KOG0334|consen 372 LSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELA 451 (997)
T ss_pred chHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHH
Confidence 445677788777788899999999999999 999999999999999999999977764 255789999999999
Q ss_pred HHHHHHHHHHhhhcCceee
Q psy2029 117 HEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 117 ~q~~~~~~~~~~~~~~~v~ 135 (138)
.|++++++++...+|+++.
T Consensus 452 ~QI~r~~~kf~k~l~ir~v 470 (997)
T KOG0334|consen 452 MQIHREVRKFLKLLGIRVV 470 (997)
T ss_pred HHHHHHHHHHHhhcCceEE
Confidence 9999999999999888764
No 90
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.02 E-value=7.4e-10 Score=91.66 Aligned_cols=69 Identities=23% Similarity=0.406 Sum_probs=61.4
Q ss_pred hhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 61 KFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
+.++|.+++..+-. +++++++|||+|||+++++++...+. ++.+++|..|.+||.+|++++|...+.++
T Consensus 120 LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~-~~qrviYTsPIKALsNQKyrdl~~~fgdv 189 (1041)
T COG4581 120 LDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALR-DGQRVIYTSPIKALSNQKYRDLLAKFGDV 189 (1041)
T ss_pred cCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHH-cCCceEeccchhhhhhhHHHHHHHHhhhh
Confidence 56789999987777 99999999999999999998876555 46779999999999999999999998866
No 91
>KOG0950|consensus
Probab=99.00 E-value=9.1e-10 Score=89.62 Aligned_cols=83 Identities=35% Similarity=0.596 Sum_probs=77.1
Q ss_pred HHHHhhhhhhhhHHH--hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcC
Q psy2029 55 KAAEEFKFYLEGKCL--EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 131 (138)
Q Consensus 55 ~~~~~~~~~~Q~~~~--~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~ 131 (138)
..+....+.||++|. +.+.+ +|+++.+||+.|||+++++.+++++....+.++.++|+.+.+.+....+...+.++|
T Consensus 218 ~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~~G 297 (1008)
T KOG0950|consen 218 DKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSIDLG 297 (1008)
T ss_pred hhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccccC
Confidence 346677899999999 77778 999999999999999999999999998889999999999999999999999999999
Q ss_pred ceeeec
Q psy2029 132 FYLEVL 137 (138)
Q Consensus 132 ~~v~~~ 137 (138)
+.|.+|
T Consensus 298 ~~ve~y 303 (1008)
T KOG0950|consen 298 FPVEEY 303 (1008)
T ss_pred Ccchhh
Confidence 999887
No 92
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.00 E-value=6.1e-09 Score=83.40 Aligned_cols=75 Identities=12% Similarity=0.005 Sum_probs=67.3
Q ss_pred hhhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 60 FKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
.++++|..+++.+...+ +..+.||+|||+++.++++..+.. +..+++++|++.|+.|.++.+..++..+|++|..
T Consensus 103 ~p~~VQ~~~~~~ll~G~-Iae~~TGeGKTla~~lp~~~~al~-G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~ 177 (656)
T PRK12898 103 RHFDVQLMGGLALLSGR-LAEMQTGEGKTLTATLPAGTAALA-GLPVHVITVNDYLAERDAELMRPLYEALGLTVGC 177 (656)
T ss_pred CCChHHHHHHHHHhCCC-eeeeeCCCCcHHHHHHHHHHHhhc-CCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEE
Confidence 47899999998888744 999999999999999999987664 7889999999999999999999999999998864
No 93
>KOG0342|consensus
Probab=99.00 E-value=5.4e-10 Score=85.40 Aligned_cols=83 Identities=14% Similarity=0.181 Sum_probs=62.4
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh------cCCeEEEEcchhhhHHHHHHHHHHHHHhh-hhhhhhHHH----
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI------KQKSAIFILPYISLVHEKYQSLAKAAEEF-KFYLEGKCL---- 69 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~------~~~~~l~v~P~~aL~~q~~~~l~~~~~~~-~~~~Q~~~~---- 69 (138)
++.|+|+++.|.||+|||++|++|+++.+.. .+..+++++|+++|..|++.+..+....+ ...+|...+
T Consensus 116 ll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~ 195 (543)
T KOG0342|consen 116 LLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNF 195 (543)
T ss_pred cCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccc
Confidence 4789999999999999999999999998766 23488999999999999999998875443 222222221
Q ss_pred ----hhhhc-cceEEEeec
Q psy2029 70 ----EMIQN-KNCVLSIPT 83 (138)
Q Consensus 70 ----~~~~~-~~~ii~~pt 83 (138)
..+.. -|+++.+|.
T Consensus 196 ~~e~~kl~k~~niliATPG 214 (543)
T KOG0342|consen 196 SVEADKLVKGCNILIATPG 214 (543)
T ss_pred hHHHHHhhccccEEEeCCc
Confidence 22233 677788874
No 94
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.99 E-value=3.1e-10 Score=88.53 Aligned_cols=64 Identities=23% Similarity=0.497 Sum_probs=56.9
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYL 64 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~ 64 (138)
+++|+|.+|..+|+||||++++++=+..+++.++|.+|++|+.+|.+|++++|.+...+.+..+
T Consensus 229 LLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rYs~Lglkv 292 (830)
T COG1202 229 LLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKLGLKV 292 (830)
T ss_pred cccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHhhcccceE
Confidence 4789999999999999999999998888888899999999999999999999998766555443
No 95
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.99 E-value=1.7e-09 Score=84.92 Aligned_cols=69 Identities=20% Similarity=0.231 Sum_probs=55.6
Q ss_pred hhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 60 FKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
.+.++|.++++...+ .+.++.+|||+|||+++...+...+...+.++++++|+++|++|..++++++..
T Consensus 114 ~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~ 183 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRL 183 (501)
T ss_pred CCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhcc
Confidence 578899999976666 889999999999999886543322333345999999999999999999998763
No 96
>KOG0335|consensus
Probab=98.99 E-value=9.4e-10 Score=84.44 Aligned_cols=57 Identities=23% Similarity=0.237 Sum_probs=50.8
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc------------CCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK------------QKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~------------~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+.+|++.+.|||||||||.+|++|++.+++++ ..+++++.||++|+.|++++-+++.
T Consensus 108 i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~ 176 (482)
T KOG0335|consen 108 ISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFS 176 (482)
T ss_pred eecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhc
Confidence 35789999999999999999999999988773 2588999999999999999998874
No 97
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.99 E-value=2.3e-09 Score=88.01 Aligned_cols=74 Identities=15% Similarity=0.101 Sum_probs=66.1
Q ss_pred hhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 62 FYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
.|+|.++++.+.. ++.+..++||+|||+++.+|++..+.. +..+++++|+++||.|.++.+..++..+|+++..
T Consensus 94 tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~-g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~ 168 (970)
T PRK12899 94 VPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALT-GKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGV 168 (970)
T ss_pred ChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhh-cCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEE
Confidence 7889999988777 899999999999999999999988875 4458899999999999999999999988888754
No 98
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.99 E-value=1.1e-09 Score=91.49 Aligned_cols=67 Identities=18% Similarity=0.254 Sum_probs=58.5
Q ss_pred HHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 56 AAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 56 ~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+|.+.+.+.|.++++.+.. +++++.+|||+|||+++.+|++.. .+.+|+|+|+++|+.|+...+...
T Consensus 456 FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~----~GiTLVISPLiSLmqDQV~~L~~~ 523 (1195)
T PLN03137 456 FGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC----PGITLVISPLVSLIQDQIMNLLQA 523 (1195)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc----CCcEEEEeCHHHHHHHHHHHHHhC
Confidence 3566789999999988888 999999999999999999999863 568999999999999888777654
No 99
>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=98.98 E-value=1.9e-09 Score=91.41 Aligned_cols=57 Identities=28% Similarity=0.349 Sum_probs=47.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++|+|++++||||+|||..+ +++...+...+.++++++|+++|+.|.++.+..++..
T Consensus 91 l~G~d~vi~ApTGsGKT~f~-l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~ 147 (1171)
T TIGR01054 91 LRGDSFAIIAPTGVGKTTFG-LAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEK 147 (1171)
T ss_pred hCCCeEEEECCCCCCHHHHH-HHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHHh
Confidence 68999999999999999854 4554445556789999999999999999999988653
No 100
>KOG0344|consensus
Probab=98.94 E-value=1.2e-09 Score=84.88 Aligned_cols=59 Identities=24% Similarity=0.392 Sum_probs=52.6
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhcC-------CeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIKQ-------KSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-------~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++++++++.|||||+|||+++.+|++.++.... -+++++.|+++|..|+++++.++..+
T Consensus 170 fl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~ 235 (593)
T KOG0344|consen 170 FLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSID 235 (593)
T ss_pred hhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcCCC
Confidence 367899999999999999999999999987743 48899999999999999999998743
No 101
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=98.93 E-value=3.2e-09 Score=79.80 Aligned_cols=52 Identities=23% Similarity=0.316 Sum_probs=46.7
Q ss_pred eEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 77 CVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 77 ~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+++.+|||+|||.++++++++.+.. ...+++|++|+++|++|+++.+.+++.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~ 54 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFG 54 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhC
Confidence 6799999999999999999987754 457999999999999999999999864
No 102
>KOG0947|consensus
Probab=98.92 E-value=9.5e-10 Score=89.68 Aligned_cols=57 Identities=23% Similarity=0.363 Sum_probs=50.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
..|+++.|.|+|++|||++|++++..... ++.|++|..|.++|.+|++++|+..+..
T Consensus 310 erg~SVFVAAHTSAGKTvVAEYAialaq~-h~TR~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 310 ERGDSVFVAAHTSAGKTVVAEYAIALAQK-HMTRTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred HcCCeEEEEecCCCCcchHHHHHHHHHHh-hccceEecchhhhhccchHHHHHHhccc
Confidence 46899999999999999999999876443 5889999999999999999999987543
No 103
>KOG0354|consensus
Probab=98.91 E-value=4.6e-09 Score=84.32 Aligned_cols=72 Identities=15% Similarity=0.325 Sum_probs=60.6
Q ss_pred hhhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHhhhcC
Q psy2029 60 FKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAEEFK 131 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~ 131 (138)
.+.+.|.+.......+|+++++|||+|||++|...++.++.. ++.|+|+++|++-|++|+...+..++.+.+
T Consensus 62 ~lR~YQ~eivq~ALgkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~ 134 (746)
T KOG0354|consen 62 ELRNYQEELVQPALGKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYS 134 (746)
T ss_pred cccHHHHHHhHHhhcCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCccc
Confidence 356677777633338999999999999999999999988876 458999999999999999999988876643
No 104
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.91 E-value=2.9e-09 Score=86.31 Aligned_cols=53 Identities=25% Similarity=0.347 Sum_probs=47.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
.|.++++|||||||++|.++++..+. .+.++++++|+++|+.|.++.+.++..
T Consensus 283 ~~~Ll~~~TGSGKT~va~~~il~~~~-~g~q~lilaPT~~LA~Q~~~~l~~l~~ 335 (681)
T PRK10917 283 MNRLLQGDVGSGKTVVAALAALAAIE-AGYQAALMAPTEILAEQHYENLKKLLE 335 (681)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEEeccHHHHHHHHHHHHHHHh
Confidence 47899999999999999999987654 588999999999999999999988753
No 105
>KOG0337|consensus
Probab=98.91 E-value=2.8e-09 Score=80.43 Aligned_cols=96 Identities=17% Similarity=0.166 Sum_probs=85.3
Q ss_pred cchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC---CCeEEEEccchhH
Q psy2029 40 LPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISL 115 (138)
Q Consensus 40 ~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~---~~~~~~i~P~~~l 115 (138)
.+.-.|....++++.+.+++.+.|+|...+|.+.+ ++++-.+-||+|||.++.+++++.+..+ +.|++++.|+++|
T Consensus 23 fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreL 102 (529)
T KOG0337|consen 23 FQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTREL 102 (529)
T ss_pred ccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHH
Confidence 45556777888999999999999999999999999 9999999999999999999999999874 3699999999999
Q ss_pred HHHHHHHHHHHhhhcCceee
Q psy2029 116 VHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 116 ~~q~~~~~~~~~~~~~~~v~ 135 (138)
+.|..+.+++.+...+++..
T Consensus 103 a~qtlkvvkdlgrgt~lr~s 122 (529)
T KOG0337|consen 103 ALQTLKVVKDLGRGTKLRQS 122 (529)
T ss_pred HHHHHHHHHHhccccchhhh
Confidence 99999999999987776643
No 106
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.90 E-value=2.8e-09 Score=88.56 Aligned_cols=52 Identities=15% Similarity=0.191 Sum_probs=46.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
.|.++++|||+|||.+|..+++..+. .+.++++++|+++|+.|.++.+.+..
T Consensus 473 ~d~Ll~adTGsGKT~val~a~l~al~-~g~qvlvLvPT~~LA~Q~~~~f~~~~ 524 (926)
T TIGR00580 473 MDRLVCGDVGFGKTEVAMRAAFKAVL-DGKQVAVLVPTTLLAQQHFETFKERF 524 (926)
T ss_pred CCEEEECCCCccHHHHHHHHHHHHHH-hCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 68999999999999999999988665 47899999999999999999988754
No 107
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=98.90 E-value=3.3e-09 Score=80.03 Aligned_cols=48 Identities=19% Similarity=0.299 Sum_probs=42.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+++++||||||||.++.++++. .+.+++|+.|+++|.+|+++.+.++.
T Consensus 16 ~~~i~apTGsGKT~~~~~~~l~----~~~~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 16 IIFNTAPTGAGKTLAWLTPLLH----GENDTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred EEEEECCCCCCHHHHHHHHHHH----cCCCEEEEeChHHHHHHHHHHHHHHH
Confidence 4789999999999999888774 35688999999999999999888875
No 108
>PRK14701 reverse gyrase; Provisional
Probab=98.90 E-value=9e-09 Score=89.48 Aligned_cols=57 Identities=25% Similarity=0.390 Sum_probs=47.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++|+|++++||||+|||+++..+++.. ..++.++++++|+++|+.|+.+.+..++..
T Consensus 92 l~G~d~li~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~ 148 (1638)
T PRK14701 92 LRGKSFSIVAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEKIESFCEK 148 (1638)
T ss_pred HcCCCEEEEEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHHHHHHHhh
Confidence 689999999999999999665555543 335779999999999999999999987653
No 109
>KOG0951|consensus
Probab=98.88 E-value=2.6e-09 Score=89.14 Aligned_cols=80 Identities=26% Similarity=0.378 Sum_probs=59.9
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc----------CCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH----
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK----------QKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL---- 69 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~----------~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~---- 69 (138)
.+|+++|||||+|||++|+..+++.+.++ ..++.|++|+++|+++....|.+.....+..+-....
T Consensus 325 ~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l 404 (1674)
T KOG0951|consen 325 DENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQL 404 (1674)
T ss_pred cCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccc
Confidence 46999999999999999999999877552 2289999999999999999988875555444433332
Q ss_pred --hhhhccceEEEeec
Q psy2029 70 --EMIQNKNCVLSIPT 83 (138)
Q Consensus 70 --~~~~~~~~ii~~pt 83 (138)
..+...++++++|-
T Consensus 405 ~~~qieeTqVIV~TPE 420 (1674)
T KOG0951|consen 405 GKEQIEETQVIVTTPE 420 (1674)
T ss_pred hhhhhhcceeEEeccc
Confidence 12222667777773
No 110
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.88 E-value=3.8e-09 Score=85.02 Aligned_cols=52 Identities=23% Similarity=0.321 Sum_probs=46.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
|.++++|||||||++|.++++..+ +.+.++++++|+++|+.|.++.+.++..
T Consensus 258 ~~Ll~g~TGSGKT~va~l~il~~~-~~g~qvlilaPT~~LA~Q~~~~~~~l~~ 309 (630)
T TIGR00643 258 NRLLQGDVGSGKTLVAALAMLAAI-EAGYQVALMAPTEILAEQHYNSLRNLLA 309 (630)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEECCHHHHHHHHHHHHHHHhc
Confidence 689999999999999999988765 4588999999999999999999988643
No 111
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.87 E-value=1.5e-08 Score=80.13 Aligned_cols=53 Identities=26% Similarity=0.460 Sum_probs=47.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++|+|+++.+|||+||+++|.+|++- ..+-+++|.|+.+|..++.+.+...|.
T Consensus 30 l~g~d~lvvmPTGgGKSlCyQiPAll----~~G~TLVVSPLiSLM~DQV~~l~~~Gi 82 (590)
T COG0514 30 LSGKDTLVVMPTGGGKSLCYQIPALL----LEGLTLVVSPLISLMKDQVDQLEAAGI 82 (590)
T ss_pred HcCCcEEEEccCCCCcchHhhhHHHh----cCCCEEEECchHHHHHHHHHHHHHcCc
Confidence 67899999999999999999999885 256889999999999999999988863
No 112
>PRK13766 Hef nuclease; Provisional
Probab=98.87 E-value=1.1e-08 Score=84.08 Aligned_cols=69 Identities=20% Similarity=0.237 Sum_probs=58.4
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
+.++|........++|.++++|||+|||.++.+.+...+...+.++++++|+++|++|+.+.+++++..
T Consensus 16 ~r~yQ~~~~~~~l~~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~ 84 (773)
T PRK13766 16 ARLYQQLLAATALKKNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNI 84 (773)
T ss_pred ccHHHHHHHHHHhcCCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCC
Confidence 455677776666667999999999999999988888777556789999999999999999999988643
No 113
>KOG0947|consensus
Probab=98.87 E-value=6.4e-09 Score=84.97 Aligned_cols=72 Identities=17% Similarity=0.274 Sum_probs=62.5
Q ss_pred hhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCce
Q psy2029 61 KFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFY 133 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~ 133 (138)
+-++|.+++-.+.. .++++.++|++|||++|+.++.- ...++.|++|..|.+||.+|++++|++-|.+.|+-
T Consensus 298 lD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAial-aq~h~TR~iYTSPIKALSNQKfRDFk~tF~DvgLl 370 (1248)
T KOG0947|consen 298 LDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIAL-AQKHMTRTIYTSPIKALSNQKFRDFKETFGDVGLL 370 (1248)
T ss_pred ccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHH-HHhhccceEecchhhhhccchHHHHHHhcccccee
Confidence 55689999977766 99999999999999999998754 34468999999999999999999999999888643
No 114
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.86 E-value=3.5e-08 Score=80.64 Aligned_cols=76 Identities=13% Similarity=0.100 Sum_probs=65.0
Q ss_pred hhhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 60 FKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
.++++|..++..+.+.+ +..+.||+|||+++.++++..... +..+.+++|++.||.|.++.+..++..+|++|..+
T Consensus 78 ~p~~vQl~~~~~l~~G~-Iaem~TGeGKTL~a~lp~~l~al~-G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i 153 (790)
T PRK09200 78 RPYDVQLIGALVLHEGN-IAEMQTGEGKTLTATMPLYLNALE-GKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLN 153 (790)
T ss_pred CCchHHHHhHHHHcCCc-eeeecCCCcchHHHHHHHHHHHHc-CCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEE
Confidence 46778877776565533 999999999999999999866664 78899999999999999999999999999988753
No 115
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.85 E-value=1.5e-08 Score=78.05 Aligned_cols=65 Identities=22% Similarity=0.280 Sum_probs=56.1
Q ss_pred hhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 64 LEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 64 ~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
.|.........+|.++++|||=|||.+|.+-+..++...++++++++||+.||.|.++.+++...
T Consensus 19 YQ~~i~a~al~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ 83 (542)
T COG1111 19 YQLNIAAKALFKNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTG 83 (542)
T ss_pred HHHHHHHHHhhcCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhC
Confidence 45555555556899999999999999999999988888777999999999999999999998853
No 116
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.84 E-value=7e-09 Score=81.44 Aligned_cols=56 Identities=27% Similarity=0.402 Sum_probs=44.0
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+++++.++++|||+|||+++...+...+.....++++++|+++|.+|..+++.+++
T Consensus 127 l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 127 LKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred HhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 45678999999999999987554433222334499999999999999999998864
No 117
>KOG0340|consensus
Probab=98.83 E-value=2.2e-09 Score=79.50 Aligned_cols=60 Identities=17% Similarity=0.259 Sum_probs=52.8
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
||+|+||+-+|.||||||.++.+++++.+.+. +.=+++++|+++|.-|+.+.|.-.+...
T Consensus 41 ILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l 102 (442)
T KOG0340|consen 41 ILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIALGKLL 102 (442)
T ss_pred HhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHhcccc
Confidence 58999999999999999999999999988773 4577899999999999999988876543
No 118
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.83 E-value=1.3e-08 Score=86.28 Aligned_cols=53 Identities=15% Similarity=0.169 Sum_probs=46.6
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
.|.++++|||+|||.+|..+++..+ .++.++++++|+++|+.|+++.+.+.+.
T Consensus 622 ~d~Ll~a~TGsGKT~val~aa~~~~-~~g~qvlvLvPT~eLA~Q~~~~f~~~~~ 674 (1147)
T PRK10689 622 MDRLVCGDVGFGKTEVAMRAAFLAV-ENHKQVAVLVPTTLLAQQHYDNFRDRFA 674 (1147)
T ss_pred CCEEEEcCCCcCHHHHHHHHHHHHH-HcCCeEEEEeCcHHHHHHHHHHHHHhhc
Confidence 6899999999999999988887654 4588999999999999999999987643
No 119
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=98.83 E-value=1.5e-08 Score=83.04 Aligned_cols=70 Identities=16% Similarity=0.119 Sum_probs=54.8
Q ss_pred hhhhhhHHHhhhhc-c-ceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 61 KFYLEGKCLEMIQN-K-NCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~-~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
++++|.++++.+.+ + ++++.+|||+|||.++..+.+..... ...+.+|++|+++|+.|+++.++++.+.+
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERL 89 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHHHh
Confidence 99999999988887 5 57778999999998654434322111 23467788899999999999999999865
No 120
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.81 E-value=4.7e-08 Score=79.43 Aligned_cols=74 Identities=16% Similarity=0.190 Sum_probs=59.3
Q ss_pred hhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 62 FYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
.|+|.+.+..+.. ...++.++||+|||+++.++++..+.. +..+++++|+++|+.|.++.+..++..+|+.|..
T Consensus 70 rpydVQlig~l~l~~G~Iaem~TGeGKTLta~Lpa~l~aL~-g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~ 144 (762)
T TIGR03714 70 FPYDVQVLGAIVLHQGNIAEMKTGEGKTLTATMPLYLNALT-GKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSL 144 (762)
T ss_pred CccHHHHHHHHHhcCCceeEecCCcchHHHHHHHHHHHhhc-CCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEE
Confidence 4444444433332 446999999999999999998776664 6679999999999999999999999999988764
No 121
>KOG0326|consensus
Probab=98.81 E-value=2.6e-09 Score=78.35 Aligned_cols=92 Identities=15% Similarity=0.161 Sum_probs=80.8
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l~~q~~~ 121 (138)
|..+.+..+.+.|+..+-|+|++.+|.... ++++..+-.|+|||.++.+|.++.+... .-.+++++|+++|+-|..+
T Consensus 92 Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSq 171 (459)
T KOG0326|consen 92 LKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQ 171 (459)
T ss_pred hhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHH
Confidence 445666777778888899999999998887 9999999999999999999999988753 3578999999999999999
Q ss_pred HHHHHhhhcCceeee
Q psy2029 122 SLAKAAEEFKFYLEV 136 (138)
Q Consensus 122 ~~~~~~~~~~~~v~~ 136 (138)
...+..+++|+.|..
T Consensus 172 vc~~lskh~~i~vmv 186 (459)
T KOG0326|consen 172 VCKELSKHLGIKVMV 186 (459)
T ss_pred HHHHHhcccCeEEEE
Confidence 999999999988753
No 122
>KOG0948|consensus
Probab=98.79 E-value=1.4e-08 Score=81.44 Aligned_cols=74 Identities=23% Similarity=0.354 Sum_probs=66.3
Q ss_pred hhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceee
Q psy2029 61 KFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~ 135 (138)
+-++|..++..+-+ .++++++.|++|||.+|++++...+.+ +.|++|..|.+||.+|+++++..=|++.|+.-+
T Consensus 130 LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~-kQRVIYTSPIKALSNQKYREl~~EF~DVGLMTG 204 (1041)
T KOG0948|consen 130 LDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE-KQRVIYTSPIKALSNQKYRELLEEFKDVGLMTG 204 (1041)
T ss_pred cCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh-cCeEEeeChhhhhcchhHHHHHHHhcccceeec
Confidence 56789999888887 999999999999999999999887765 889999999999999999999999999887543
No 123
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.78 E-value=9.5e-09 Score=88.35 Aligned_cols=47 Identities=23% Similarity=0.334 Sum_probs=41.1
Q ss_pred EEccCCcchHHHHHHHHHHHHhhc------------CCeEEEEcchhhhHHHHHHHHHH
Q psy2029 9 LSIPTSGGKTLVGEILIMKELKIK------------QKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 9 ~~~ptg~GKt~~~~~~~~~~~~~~------------~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
|+||||||||++|.++++..+... +.+++|+.|+++|.+|++++++.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 589999999999999998877642 35899999999999999998865
No 124
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.78 E-value=5.4e-08 Score=80.22 Aligned_cols=81 Identities=25% Similarity=0.309 Sum_probs=66.8
Q ss_pred HHHHHHHHH----hhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHH
Q psy2029 50 YQSLAKAAE----EFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLA 124 (138)
Q Consensus 50 ~~~l~~~~~----~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~ 124 (138)
++++.+++. ..+|..|..|...+.. +++.+.+|||.|||...+++.+.-.. .+++++||+||+.|+.|.++.++
T Consensus 68 ~e~~~~fF~k~~G~~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~-kgkr~yii~PT~~Lv~Q~~~kl~ 146 (1187)
T COG1110 68 YEEFEEFFKKATGFRPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAK-KGKRVYIIVPTTTLVRQVYERLK 146 (1187)
T ss_pred HHHHHHHHHHhhCCCchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHh-cCCeEEEEecCHHHHHHHHHHHH
Confidence 445555433 2589999999866666 99999999999999999888876544 47899999999999999999999
Q ss_pred HHhhhcC
Q psy2029 125 KAAEEFK 131 (138)
Q Consensus 125 ~~~~~~~ 131 (138)
++....|
T Consensus 147 ~~~e~~~ 153 (1187)
T COG1110 147 KFAEDAG 153 (1187)
T ss_pred HHHhhcC
Confidence 9998776
No 125
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.77 E-value=3.8e-08 Score=66.67 Aligned_cols=64 Identities=22% Similarity=0.374 Sum_probs=49.3
Q ss_pred hhhhhhHHHhhhh-------c-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 61 KFYLEGKCLEMIQ-------N-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 61 ~~~~Q~~~~~~~~-------~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+.++|.+++..+. + ++.++.+|||+|||.++...+.+. .. ++++++|+..|++|..+++..+..
T Consensus 4 lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l-~~---~~l~~~p~~~l~~Q~~~~~~~~~~ 75 (184)
T PF04851_consen 4 LRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILEL-AR---KVLIVAPNISLLEQWYDEFDDFGS 75 (184)
T ss_dssp E-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHH-HC---EEEEEESSHHHHHHHHHHHHHHST
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcc-cc---ceeEecCHHHHHHHHHHHHHHhhh
Confidence 4667777774333 2 788999999999999997655543 32 999999999999999999965543
No 126
>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=98.76 E-value=1.1e-07 Score=77.04 Aligned_cols=75 Identities=11% Similarity=0.030 Sum_probs=61.9
Q ss_pred hhhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 60 FKFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
.++++|...+..+.+ ..+..++||+|||+++.++++-.... +..+.+++|+..||.|.++.+..++..+|++|..
T Consensus 56 ~p~~vQlig~~~l~~-G~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~ 130 (745)
T TIGR00963 56 RPFDVQLIGGIALHK-GKIAEMKTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGL 130 (745)
T ss_pred CccchHHhhhhhhcC-CceeeecCCCccHHHHHHHHHHHHHh-CCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEE
Confidence 366777776665544 33899999999999999999654554 6679999999999999999999999999998864
No 127
>KOG0338|consensus
Probab=98.76 E-value=1.1e-08 Score=78.96 Aligned_cols=78 Identities=15% Similarity=0.221 Sum_probs=58.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc-----CCeEEEEcchhhhHHHHHHHHHHHHHhh-----------hhhhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK-----QKSAIFILPYISLVHEKYQSLAKAAEEF-----------KFYLE 65 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-----~~~~l~v~P~~aL~~q~~~~l~~~~~~~-----------~~~~Q 65 (138)
|-|++++-||-||||||.+|.+|++.+++=+ ..|+|+++|+++|.-|.+.......... ....|
T Consensus 216 llgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~Q 295 (691)
T KOG0338|consen 216 LLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQ 295 (691)
T ss_pred hhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHH
Confidence 5789999999999999999999999998763 2399999999999998887766653321 23334
Q ss_pred hHHHhhhhc-cceEEEee
Q psy2029 66 GKCLEMIQN-KNCVLSIP 82 (138)
Q Consensus 66 ~~~~~~~~~-~~~ii~~p 82 (138)
..+ ++. .++++.+|
T Consensus 296 E~~---LRs~PDIVIATP 310 (691)
T KOG0338|consen 296 EAV---LRSRPDIVIATP 310 (691)
T ss_pred HHH---HhhCCCEEEecc
Confidence 433 334 67777777
No 128
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.75 E-value=3.5e-08 Score=66.83 Aligned_cols=50 Identities=26% Similarity=0.524 Sum_probs=41.9
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+.++++.+|||||||.++...+.+... ++++++|..+|.+|..+++..+.
T Consensus 25 ~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~~ 74 (184)
T PF04851_consen 25 ERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDFG 74 (184)
T ss_dssp CSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHHS
T ss_pred CCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHhh
Confidence 578999999999999999766665332 99999999999999999986553
No 129
>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=98.75 E-value=4.2e-08 Score=62.99 Aligned_cols=54 Identities=24% Similarity=0.365 Sum_probs=45.5
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+++++.+|||+|||..+...+...... ..+++++++|...+.++..+.+.....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 478999999999999998888775544 567999999999999999888877653
No 130
>KOG0328|consensus
Probab=98.74 E-value=8e-09 Score=74.72 Aligned_cols=93 Identities=13% Similarity=0.191 Sum_probs=83.2
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~ 120 (138)
.|.++.++.+..+|+..+-.+|..+++.+.. ++++..+..|+|||..+.+.+++.+.. +...++++.|+|+|+.|.-
T Consensus 33 gl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~ 112 (400)
T KOG0328|consen 33 GLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQ 112 (400)
T ss_pred CchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHH
Confidence 4778999999999999999999999988888 999999999999999998888886654 3468999999999999999
Q ss_pred HHHHHHhhhcCceeee
Q psy2029 121 QSLAKAAEEFKFYLEV 136 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~ 136 (138)
+.+..++.+.++.+..
T Consensus 113 ~vi~alg~~mnvq~ha 128 (400)
T KOG0328|consen 113 KVILALGDYMNVQCHA 128 (400)
T ss_pred HHHHHhcccccceEEE
Confidence 9999999999888764
No 131
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.74 E-value=2.3e-07 Score=76.64 Aligned_cols=59 Identities=34% Similarity=0.465 Sum_probs=50.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 61 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~ 61 (138)
+.|+++-+.||||.|||...++..+. +...++|+++++||+.|+.|.++.+..++...+
T Consensus 95 ~rg~SFaiiAPTGvGKTTfg~~~sl~-~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~ 153 (1187)
T COG1110 95 VRGKSFAIIAPTGVGKTTFGLLMSLY-LAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAG 153 (1187)
T ss_pred HcCCceEEEcCCCCchhHHHHHHHHH-HHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcC
Confidence 57899999999999999888766554 334689999999999999999999999875544
No 132
>KOG4284|consensus
Probab=98.73 E-value=9.2e-09 Score=81.43 Aligned_cols=94 Identities=18% Similarity=0.240 Sum_probs=81.3
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~ 120 (138)
+|-.+....+++.++..+.++|..++|.... .++++.+-.|+|||+++...+++.+.. ....+++++|||+++-|+.
T Consensus 31 ~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~ 110 (980)
T KOG4284|consen 31 ALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIK 110 (980)
T ss_pred HHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHH
Confidence 3455666777777888899999999999998 999999999999999999999988865 3578999999999999999
Q ss_pred HHHHHHhhhc-Cceeeec
Q psy2029 121 QSLAKAAEEF-KFYLEVL 137 (138)
Q Consensus 121 ~~~~~~~~~~-~~~v~~~ 137 (138)
+.+.+++..+ |+++..|
T Consensus 111 ~tv~~v~~sf~g~~csvf 128 (980)
T KOG4284|consen 111 ETVRKVAPSFTGARCSVF 128 (980)
T ss_pred HHHHHhcccccCcceEEE
Confidence 9999998876 7777654
No 133
>PRK13766 Hef nuclease; Provisional
Probab=98.73 E-value=3.1e-08 Score=81.40 Aligned_cols=53 Identities=26% Similarity=0.382 Sum_probs=46.9
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+|+++++|||+|||.++.+.+...+.+.++++++++|+++|.+|..+.+.++.
T Consensus 30 ~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 30 KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 38999999999999999888887775568899999999999999998888763
No 134
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.72 E-value=2.3e-08 Score=86.12 Aligned_cols=48 Identities=23% Similarity=0.329 Sum_probs=42.1
Q ss_pred EEeecCCCchHhHHHHHHHHHHhC------------CCeEEEEccchhHHHHHHHHHHHH
Q psy2029 79 LSIPTSGGKTLVGEILIMKELKIK------------QKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 79 i~~ptg~GKt~~~~~~~l~~~~~~------------~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+++|||+|||+++.++++..+... +.+++||+|++||++|+.+.++..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~p 60 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIP 60 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHH
Confidence 478999999999999999988642 358999999999999999998763
No 135
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.71 E-value=4.1e-08 Score=78.65 Aligned_cols=55 Identities=22% Similarity=0.297 Sum_probs=48.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++..+++.||||+|||++|+++++..+.. .+.++++.+|+++|.+|.++++....
T Consensus 15 ~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 15 QKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 56788999999999999999999877664 47899999999999999998777664
No 136
>KOG0334|consensus
Probab=98.70 E-value=9.6e-08 Score=78.64 Aligned_cols=59 Identities=17% Similarity=0.216 Sum_probs=52.0
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh-------cCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI-------KQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-------~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
|..|+++|..|-||||||+.|.+|++.|... +|.-+++++|+++|..|+.+++..+...
T Consensus 399 ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~ 464 (997)
T KOG0334|consen 399 IMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKL 464 (997)
T ss_pred hccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhh
Confidence 4689999999999999999999999988765 3557899999999999999999988543
No 137
>KOG0341|consensus
Probab=98.70 E-value=1.6e-08 Score=76.04 Aligned_cols=83 Identities=14% Similarity=0.108 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh----------CCCeEEEEccchhHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI----------KQKSAIFILPYISLV 116 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~----------~~~~~~~i~P~~~l~ 116 (138)
.+++.+.+.+...+.|+|.+-+|.+.. ++++-.+-||+|||+++.+|++-...+ .++-.++|+|.++|+
T Consensus 180 ~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELA 259 (610)
T KOG0341|consen 180 PLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELA 259 (610)
T ss_pred HHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHH
Confidence 445666666777899999999998888 999999999999999999988655543 256789999999999
Q ss_pred HHHHHHHHHHhhhc
Q psy2029 117 HEKYQSLAKAAEEF 130 (138)
Q Consensus 117 ~q~~~~~~~~~~~~ 130 (138)
.|.++-+..++..+
T Consensus 260 rQt~~iie~~~~~L 273 (610)
T KOG0341|consen 260 RQTHDIIEQYVAAL 273 (610)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999998887655
No 138
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.66 E-value=1.1e-07 Score=77.20 Aligned_cols=66 Identities=23% Similarity=0.187 Sum_probs=54.6
Q ss_pred hhhhhhHHHhhhhc----cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCLEMIQN----KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~----~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+++.|.++++.+.+ .+.++.+|||+|||.+++.++.+.+. .++++++++|+++|+.|.++.|++.+
T Consensus 145 Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~-~g~~vLvLvPt~~L~~Q~~~~l~~~f 214 (679)
T PRK05580 145 LNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA-QGKQALVLVPEIALTPQMLARFRARF 214 (679)
T ss_pred CCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH-cCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 66788888855542 67899999999999999776655444 47899999999999999999999875
No 139
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.66 E-value=4.6e-08 Score=80.56 Aligned_cols=82 Identities=12% Similarity=0.073 Sum_probs=59.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH-----hh--hhc
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL-----EM--IQN 74 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~-----~~--~~~ 74 (138)
+.+++++..|+||+|||++|.+|++.+++. +..+++++|++.|+.|..+.+...+...+..+..... .. ...
T Consensus 105 ~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~-g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y~ 183 (970)
T PRK12899 105 AMHKGFITEMQTGEGKTLTAVMPLYLNALT-GKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIYQ 183 (970)
T ss_pred hcCCCeEEEeCCCCChHHHHHHHHHHHHhh-cCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHcC
Confidence 457889999999999999999999987765 4568899999999999999998876544333322111 11 112
Q ss_pred cceEEEeecC
Q psy2029 75 KNCVLSIPTS 84 (138)
Q Consensus 75 ~~~ii~~ptg 84 (138)
.++++.+|..
T Consensus 184 ~DIVygTPgR 193 (970)
T PRK12899 184 CDVVYGTASE 193 (970)
T ss_pred CCEEEECCCh
Confidence 5677777754
No 140
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.64 E-value=1e-07 Score=77.44 Aligned_cols=52 Identities=25% Similarity=0.222 Sum_probs=45.4
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+.++++.+|||||||.++..++...+ ..++++++++|+++|..|.++.+.+.
T Consensus 162 ~~~~Ll~~~TGSGKT~v~l~~i~~~l-~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 162 FSPFLLDGVTGSGKTEVYLQAIAEVL-AQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCcEEEECCCCChHHHHHHHHHHHHH-HcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 46799999999999999987776654 45889999999999999999999875
No 141
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.64 E-value=9.5e-08 Score=70.23 Aligned_cols=55 Identities=25% Similarity=0.286 Sum_probs=45.3
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCC-----eEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQK-----SAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~-----~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+|.++++.||||+|||++++.+++..+...+. +++|.+++.++..+...++++.
T Consensus 25 ~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 25 DRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred HcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 367899999999999999999999876665443 8999999999887777776654
No 142
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.64 E-value=9.5e-08 Score=70.23 Aligned_cols=55 Identities=25% Similarity=0.286 Sum_probs=45.3
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCC-----eEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQK-----SAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~-----~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+|.++++.||||+|||++++.+++..+...+. +++|.+++.++..+...++++.
T Consensus 25 ~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 25 DRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred HcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 367899999999999999999999876665443 8999999999887777776654
No 143
>KOG0327|consensus
Probab=98.62 E-value=2.6e-08 Score=74.30 Aligned_cols=93 Identities=13% Similarity=0.211 Sum_probs=80.3
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhHHH-hhhhccceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHH
Q psy2029 44 SLVHEKYQSLAKAAEEFKFYLEGKCL-EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 44 aL~~q~~~~l~~~~~~~~~~~Q~~~~-~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~ 120 (138)
.|.+..++.+..+|+..+..+|..++ |.+...|....+.+|+|||.++..++++.+.. ....+++++|+++|+.|..
T Consensus 32 ~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~ 111 (397)
T KOG0327|consen 32 NLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQ 111 (397)
T ss_pred CCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHH
Confidence 46678888888899999999999998 55555999999999999999999999998754 3467999999999999999
Q ss_pred HHHHHHhhhcCceeee
Q psy2029 121 QSLAKAAEEFKFYLEV 136 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~ 136 (138)
+....++...+.+|..
T Consensus 112 ~v~~~lg~~~~~~v~~ 127 (397)
T KOG0327|consen 112 KVVRALGDHMDVSVHA 127 (397)
T ss_pred HHHHhhhcccceeeee
Confidence 9999998888877753
No 144
>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=98.61 E-value=2.5e-07 Score=59.28 Aligned_cols=55 Identities=25% Similarity=0.380 Sum_probs=47.3
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
+++++..|||+|||..+...+.+.... ..+++++++|++++++|..+.+..+...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~ 56 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE 56 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC
Confidence 468899999999999998888776654 4579999999999999999999988753
No 145
>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=98.61 E-value=7.4e-08 Score=75.75 Aligned_cols=49 Identities=29% Similarity=0.196 Sum_probs=41.4
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++.+|||||||.++...+.. .++.++++++++|+++|..|.++.+++.+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~-~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f 49 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEK-VLALGKSVLVLVPEIALTPQMIQRFKYRF 49 (505)
T ss_pred CccCCCCCCHHHHHHHHHHH-HHHcCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 46899999999999766554 45568899999999999999999998753
No 146
>KOG0347|consensus
Probab=98.60 E-value=8.9e-08 Score=74.68 Aligned_cols=124 Identities=20% Similarity=0.233 Sum_probs=76.4
Q ss_pred CC-ccEEEEccCCcchHHHHHHHHHHHHhh-------------cCCe--EEEEcchhhhHHHHHHHHHHHHHhhh-----
Q psy2029 3 QN-KNCVLSIPTSGGKTLVGEILIMKELKI-------------KQKS--AIFILPYISLVHEKYQSLAKAAEEFK----- 61 (138)
Q Consensus 3 ~~-~~~~~~~ptg~GKt~~~~~~~~~~~~~-------------~~~~--~l~v~P~~aL~~q~~~~l~~~~~~~~----- 61 (138)
.| .+++--|.||||||++|-+|++..+.+ +..+ +|+++||++|+.|+.+.+.......+
T Consensus 217 ~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~s 296 (731)
T KOG0347|consen 217 RGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVAS 296 (731)
T ss_pred ccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEE
Confidence 45 688999999999999999999983322 2335 89999999999999999988755433
Q ss_pred ----hhhhhHHHhhhh-ccceEEEeecCCCchHhHHHHHHHH-HHh-CCCeEEEEccchhHHHH-HHHHHHHHhhhcC
Q psy2029 62 ----FYLEGKCLEMIQ-NKNCVLSIPTSGGKTLVGEILIMKE-LKI-KQKSAIFILPYISLVHE-KYQSLAKAAEEFK 131 (138)
Q Consensus 62 ----~~~Q~~~~~~~~-~~~~ii~~ptg~GKt~~~~~~~l~~-~~~-~~~~~~~i~P~~~l~~q-~~~~~~~~~~~~~ 131 (138)
..+|.+-- .+. ..++++.+|.. -+.+.. --.+ +.+ .+-+.+++.-.--+++. -+++|.++.+.++
T Consensus 297 i~GGLavqKQqR-lL~~~p~IVVATPGR-lweli~---e~n~~l~~~k~vkcLVlDEaDRmvekghF~Els~lL~~L~ 369 (731)
T KOG0347|consen 297 ITGGLAVQKQQR-LLNQRPDIVVATPGR-LWELIE---EDNTHLGNFKKVKCLVLDEADRMVEKGHFEELSKLLKHLN 369 (731)
T ss_pred eechhHHHHHHH-HHhcCCCEEEecchH-HHHHHH---hhhhhhhhhhhceEEEEccHHHHhhhccHHHHHHHHHHhh
Confidence 33333221 122 26777777721 111111 0000 000 23467777777667644 3466776665543
No 147
>KOG0339|consensus
Probab=98.59 E-value=1.5e-07 Score=72.99 Aligned_cols=90 Identities=11% Similarity=0.117 Sum_probs=76.2
Q ss_pred HHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-------CCCeEEEEccchhHHH
Q psy2029 46 VHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-------KQKSAIFILPYISLVH 117 (138)
Q Consensus 46 ~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-------~~~~~~~i~P~~~l~~ 117 (138)
..|+...++...+..++++|.+++|-... ++++-.+-||+|||.++..+++-++.. .++-.+|++|+++|+.
T Consensus 231 DkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~ 310 (731)
T KOG0339|consen 231 DKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELAS 310 (731)
T ss_pred hHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHH
Confidence 34666666666666789999999987766 999999999999999999999888865 2467899999999999
Q ss_pred HHHHHHHHHhhhcCceee
Q psy2029 118 EKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 118 q~~~~~~~~~~~~~~~v~ 135 (138)
|++.+.+++++..|+++.
T Consensus 311 Qi~~eaKkf~K~ygl~~v 328 (731)
T KOG0339|consen 311 QIFSEAKKFGKAYGLRVV 328 (731)
T ss_pred HHHHHHHHhhhhccceEE
Confidence 999999999999988864
No 148
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.59 E-value=2.7e-07 Score=74.10 Aligned_cols=56 Identities=20% Similarity=0.301 Sum_probs=49.9
Q ss_pred hhc-cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 72 IQN-KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 72 ~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+.+ ...++.+|||+|||++++++++..+.. .+.++++.+||++|.+|.++++..+.
T Consensus 13 l~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 13 LRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 344 778899999999999999999988764 47899999999999999999999887
No 149
>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=98.56 E-value=2.9e-07 Score=74.73 Aligned_cols=63 Identities=19% Similarity=0.236 Sum_probs=51.9
Q ss_pred hhhhhhHHHhhhhc----cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCLEMIQN----KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~----~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+.++|.+++..+.. ++.++++|||+|||++++..+. .+ +.++|+++|++.|++|..++|.+|+
T Consensus 256 LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~-~l---~k~tLILvps~~Lv~QW~~ef~~~~ 322 (732)
T TIGR00603 256 IRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAAC-TV---KKSCLVLCTSAVSVEQWKQQFKMWS 322 (732)
T ss_pred cCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHH-Hh---CCCEEEEeCcHHHHHHHHHHHHHhc
Confidence 56789988855542 4789999999999999965543 32 5679999999999999999999986
No 150
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.55 E-value=6e-07 Score=60.89 Aligned_cols=71 Identities=23% Similarity=0.318 Sum_probs=59.6
Q ss_pred hhhhhhhhHHHhhhhc--cceEEEeecCCCchHhHHHHHHHHHHhC-CCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 59 EFKFYLEGKCLEMIQN--KNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 59 ~~~~~~Q~~~~~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
..+.++|.++++.+.+ +++++..|+|+|||..+...+++.+... ..++++++|+.+++.|....+.+.+..
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~ 80 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPS 80 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 4467889989866654 7889999999999998888888877653 478999999999999999999988754
No 151
>KOG0949|consensus
Probab=98.55 E-value=1.6e-07 Score=77.22 Aligned_cols=55 Identities=27% Similarity=0.390 Sum_probs=49.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
.+++++++|||++|||.+..+++-.++++ ..+-++|++|+++|++|...++...+
T Consensus 525 r~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF 580 (1330)
T KOG0949|consen 525 RNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARF 580 (1330)
T ss_pred cccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhh
Confidence 56899999999999999999999999888 56788999999999999988887765
No 152
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.55 E-value=1.5e-07 Score=78.20 Aligned_cols=49 Identities=16% Similarity=0.154 Sum_probs=43.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
.+|+++++.||||+|||++|++|++.... ++.++++.+|+++|.+|...
T Consensus 262 ~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~ 310 (850)
T TIGR01407 262 THSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLE 310 (850)
T ss_pred ccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHH
Confidence 35788999999999999999999988665 57799999999999998865
No 153
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.54 E-value=1.4e-07 Score=75.72 Aligned_cols=56 Identities=14% Similarity=0.093 Sum_probs=48.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
++|+ +..|.||+|||+++.+|++.+.. .+..+++++|+..|+.|.++.+.++....
T Consensus 116 l~G~--Iae~~TGeGKTla~~lp~~~~al-~G~~v~VvTptreLA~qdae~~~~l~~~l 171 (656)
T PRK12898 116 LSGR--LAEMQTGEGKTLTATLPAGTAAL-AGLPVHVITVNDYLAERDAELMRPLYEAL 171 (656)
T ss_pred hCCC--eeeeeCCCCcHHHHHHHHHHHhh-cCCeEEEEcCcHHHHHHHHHHHHHHHhhc
Confidence 5665 89999999999999999998765 47899999999999999999999876543
No 154
>KOG0329|consensus
Probab=98.54 E-value=1.4e-07 Score=67.57 Aligned_cols=92 Identities=13% Similarity=0.134 Sum_probs=78.6
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l~~q~~~ 121 (138)
|..+..+.+-+.|+.++-.+|.+|+|+.-- .++++.+-.|-|||.++.+..++++..- .-.+++++.+|+|+-|+.+
T Consensus 49 lkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ 128 (387)
T KOG0329|consen 49 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISK 128 (387)
T ss_pred cCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHH
Confidence 456888999999999999999999977655 9999999999999999999999988762 2468999999999999999
Q ss_pred HHHHHhhhc-Cceeee
Q psy2029 122 SLAKAAEEF-KFYLEV 136 (138)
Q Consensus 122 ~~~~~~~~~-~~~v~~ 136 (138)
++.++.+.+ +++|..
T Consensus 129 ey~rfskymP~vkvaV 144 (387)
T KOG0329|consen 129 EYERFSKYMPSVKVSV 144 (387)
T ss_pred HHHHHHhhCCCceEEE
Confidence 999888776 555543
No 155
>KOG0337|consensus
Probab=98.54 E-value=2.9e-07 Score=69.84 Aligned_cols=58 Identities=19% Similarity=0.243 Sum_probs=52.4
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhhc---CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
||+|++++-.+-||||||.++.++|++++... +.|++++.|+++|..|..+-..+.+.
T Consensus 55 iLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdlgr 115 (529)
T KOG0337|consen 55 ILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDLGR 115 (529)
T ss_pred eeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHhcc
Confidence 57899999999999999999999999998774 46999999999999999998888764
No 156
>KOG0352|consensus
Probab=98.53 E-value=4.7e-07 Score=69.02 Aligned_cols=49 Identities=24% Similarity=0.431 Sum_probs=42.6
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..++.|++|||+||+++|.+|++-+ ++-.+++.|+.+|..++.+.+...
T Consensus 36 k~DVyVsMPTGaGKSLCyQLPaL~~----~gITIV~SPLiALIkDQiDHL~~L 84 (641)
T KOG0352|consen 36 KCDVYVSMPTGAGKSLCYQLPALVH----GGITIVISPLIALIKDQIDHLKRL 84 (641)
T ss_pred cCcEEEeccCCCchhhhhhchHHHh----CCeEEEehHHHHHHHHHHHHHHhc
Confidence 3589999999999999999998863 456788899999999999998775
No 157
>KOG0339|consensus
Probab=98.51 E-value=7.7e-07 Score=69.11 Aligned_cols=58 Identities=12% Similarity=0.158 Sum_probs=51.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-------cCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-------KQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-------~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
+.|++++-.|-||||||.++..+++.|+++ .+.-.+|++|+++|+.|++.+..+++.-
T Consensus 258 lsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ 322 (731)
T KOG0339|consen 258 LSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKA 322 (731)
T ss_pred cccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhh
Confidence 678999999999999999999999999877 2446788999999999999999888653
No 158
>KOG0950|consensus
Probab=98.50 E-value=2e-07 Score=76.32 Aligned_cols=68 Identities=38% Similarity=0.662 Sum_probs=62.2
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL 69 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~ 69 (138)
++++|++.++||++|||+++++.++..++.+++.+++++|+.+.+.++...+..++...++++....+
T Consensus 238 ~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~~G~~ve~y~g 305 (1008)
T KOG0950|consen 238 LERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSIDLGFPVEEYAG 305 (1008)
T ss_pred hcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccccCCcchhhcc
Confidence 57899999999999999999999999999889999999999999999999999988888888777665
No 159
>PRK09694 helicase Cas3; Provisional
Probab=98.50 E-value=5.8e-07 Score=74.57 Aligned_cols=70 Identities=19% Similarity=0.153 Sum_probs=53.0
Q ss_pred hhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-CCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 60 FKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
.+.+.|..+...... ..+++.+|||+|||.+++..+.+-+... ..+++|.+|++++++|.++++++++..
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~ 357 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASK 357 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHH
Confidence 356777766433233 6678999999999999977665433332 368999999999999999999886654
No 160
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.48 E-value=8.3e-07 Score=73.84 Aligned_cols=70 Identities=14% Similarity=0.080 Sum_probs=55.6
Q ss_pred hhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHH-HHHHHhhhcC
Q psy2029 61 KFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ-SLAKAAEEFK 131 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~-~~~~~~~~~~ 131 (138)
..+.|.+.. +.+.+ +++++.+|||+|||+.++++++..+. .+.++++.+||++|.+|... ++..+.+.++
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~ 321 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEKDIPLLNEILN 321 (850)
T ss_pred cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHHHHHHHHHHcC
Confidence 456777655 34445 78899999999999999999988776 56799999999999999865 6666655555
No 161
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.48 E-value=1.3e-06 Score=72.00 Aligned_cols=74 Identities=15% Similarity=0.067 Sum_probs=59.1
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|....-. ....-+..++||+|||+++.++++..+.. +..+.+++|++.||.|.++.+..++..+|+.|..
T Consensus 83 ~ydvQliGg~~-Lh~G~Iaem~TGeGKTL~a~Lpa~~~al~-G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~ 156 (896)
T PRK13104 83 HFDVQLIGGMV-LHEGNIAEMRTGEGKTLVATLPAYLNAIS-GRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGV 156 (896)
T ss_pred cchHHHhhhhh-hccCccccccCCCCchHHHHHHHHHHHhc-CCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEE
Confidence 34444433322 23444789999999999999999987765 5679999999999999999999999999988764
No 162
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.46 E-value=5.5e-07 Score=61.07 Aligned_cols=53 Identities=26% Similarity=0.418 Sum_probs=45.2
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+++++++|||+|||.++...+...+... ..++++++|+.++..|..+.+....
T Consensus 25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 25 RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 6899999999999998888888766542 4789999999999999888887765
No 163
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.46 E-value=7.2e-07 Score=65.60 Aligned_cols=67 Identities=21% Similarity=0.292 Sum_probs=53.5
Q ss_pred hhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCC-----eEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQK-----SAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~-----~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+.+.|.+.. ..+.+ .++++.+|||+|||+.++.+++..+...+. +++|.+++.++.+|...++++..
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00488 9 PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhcc
Confidence 355666644 33444 889999999999999999999887776443 89999999999999888888763
No 164
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.46 E-value=7.2e-07 Score=65.60 Aligned_cols=67 Identities=21% Similarity=0.292 Sum_probs=53.5
Q ss_pred hhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCC-----eEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQK-----SAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~-----~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+.+.|.+.. ..+.+ .++++.+|||+|||+.++.+++..+...+. +++|.+++.++.+|...++++..
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00489 9 PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhcc
Confidence 355666644 33444 889999999999999999999887776443 89999999999999888888763
No 165
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.46 E-value=6.6e-07 Score=69.41 Aligned_cols=66 Identities=24% Similarity=0.327 Sum_probs=51.4
Q ss_pred hhhhhhhHHHhhhh-----ccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 60 FKFYLEGKCLEMIQ-----NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~-----~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
.+.+.|.+++..+. ++..++.+|||+|||.++...+- ++ +.++++++|+++|+.|..+.+.+.+..
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~-~~---~~~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIA-EL---KRSTLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHH-Hh---cCCEEEEECcHHHHHHHHHHHHHhcCC
Confidence 36778888884332 37889999999999999965554 33 445999999999999999888877653
No 166
>PRK09694 helicase Cas3; Provisional
Probab=98.46 E-value=7.2e-07 Score=74.01 Aligned_cols=52 Identities=23% Similarity=0.255 Sum_probs=43.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+..+++.||||+|||.+++.++.. +... ..+++|.+|+.+..++.++++.++
T Consensus 301 pgl~ileApTGsGKTEAAL~~A~~-l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~ 354 (878)
T PRK09694 301 PGLTIIEAPTGSGKTEAALAYAWR-LIDQGLADSIIFALPTQATANAMLSRLEAL 354 (878)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHH-HHHhCCCCeEEEECcHHHHHHHHHHHHHHH
Confidence 457899999999999999887775 4333 358999999999999999998764
No 167
>KOG0332|consensus
Probab=98.44 E-value=3.5e-07 Score=68.48 Aligned_cols=90 Identities=12% Similarity=0.098 Sum_probs=77.4
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc---cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN---KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEK 119 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~---~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~ 119 (138)
|..+..+.+...++..+..+|+.++|.+.. +|.+..+..|+|||.++.+.++.++.. ..+.++-++|+++||.|+
T Consensus 97 LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q~ 176 (477)
T KOG0332|consen 97 LKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQT 176 (477)
T ss_pred CCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHHH
Confidence 556788888888888899999999987764 899999999999999999999998875 346777889999999999
Q ss_pred HHHHHHHhhhcCcee
Q psy2029 120 YQSLAKAAEEFKFYL 134 (138)
Q Consensus 120 ~~~~~~~~~~~~~~v 134 (138)
-+.+.+.++..++.+
T Consensus 177 ~eVv~eMGKf~~ita 191 (477)
T KOG0332|consen 177 GEVVEEMGKFTELTA 191 (477)
T ss_pred HHHHHHhcCceeeeE
Confidence 999999988775554
No 168
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=98.43 E-value=3.1e-07 Score=75.50 Aligned_cols=59 Identities=17% Similarity=0.170 Sum_probs=42.7
Q ss_pred CCCc-cEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 2 VQNK-NCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 2 ~~~~-~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
++|+ ++++.+|||||||.++.++.+....+ ...+.+|++|+++|++|+++++++++...
T Consensus 28 l~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l 89 (844)
T TIGR02621 28 VAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERL 89 (844)
T ss_pred HcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHHHh
Confidence 5677 57778999999998765444421111 12366778899999999999999987643
No 169
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.41 E-value=5.1e-07 Score=73.99 Aligned_cols=55 Identities=16% Similarity=0.146 Sum_probs=47.4
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhh
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFY 63 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~ 63 (138)
+..+.||+|||++|.+|++.+.++ |..+.+++|+..|+.|.++.+.++....+.+
T Consensus 95 Iaem~TGeGKTL~a~lp~~l~al~-G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~ 149 (790)
T PRK09200 95 IAEMQTGEGKTLTATMPLYLNALE-GKGVHLITVNDYLAKRDAEEMGQVYEFLGLT 149 (790)
T ss_pred eeeecCCCcchHHHHHHHHHHHHc-CCCeEEEeCCHHHHHHHHHHHHHHHhhcCCe
Confidence 999999999999999998865554 8899999999999999999998886654433
No 170
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.40 E-value=6.6e-07 Score=70.96 Aligned_cols=67 Identities=21% Similarity=0.306 Sum_probs=58.7
Q ss_pred HHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 57 AEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 57 ~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
|.....+-|.+++..+.+ ++.++.+|||+||++++-+|++-. .+-+++|.|+.+|..++.+.++..+
T Consensus 14 Gy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~----~G~TLVVSPLiSLM~DQV~~l~~~G 81 (590)
T COG0514 14 GYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL----EGLTLVVSPLISLMKDQVDQLEAAG 81 (590)
T ss_pred CccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc----CCCEEEECchHHHHHHHHHHHHHcC
Confidence 455566779999988888 999999999999999999999753 5578999999999999999999884
No 171
>KOG0336|consensus
Probab=98.40 E-value=2.5e-07 Score=70.15 Aligned_cols=80 Identities=13% Similarity=0.098 Sum_probs=67.5
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh--------CCCeEEEEccchhHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHE 118 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--------~~~~~~~i~P~~~l~~q 118 (138)
+..+++.+.++..+.|+|.++.|-+.. .+++..+.||+|||+.++++.+..+.. .+..+++++|+++|+.|
T Consensus 230 evmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalq 309 (629)
T KOG0336|consen 230 EVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQ 309 (629)
T ss_pred HHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHH
Confidence 445667777888999999999998887 999999999999999999988766643 35689999999999999
Q ss_pred HHHHHHHHh
Q psy2029 119 KYQSLAKAA 127 (138)
Q Consensus 119 ~~~~~~~~~ 127 (138)
+-.+..++.
T Consensus 310 ie~e~~kys 318 (629)
T KOG0336|consen 310 IEGEVKKYS 318 (629)
T ss_pred HHhHHhHhh
Confidence 887777663
No 172
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.39 E-value=7.3e-07 Score=72.65 Aligned_cols=79 Identities=16% Similarity=0.179 Sum_probs=57.9
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH------------hhhhc
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL------------EMIQN 74 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~------------~~~~~ 74 (138)
.++.++||+|||++|.+|++.+.+. +..+++++|+..|+.+..+.+.++....+..+..... .....
T Consensus 86 ~Iaem~TGeGKTLta~Lpa~l~aL~-g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~y~ 164 (762)
T TIGR03714 86 NIAEMKTGEGKTLTATMPLYLNALT-GKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKIYN 164 (762)
T ss_pred ceeEecCCcchHHHHHHHHHHHhhc-CCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHhCC
Confidence 6999999999999999998776654 6789999999999999999988876555444332111 11112
Q ss_pred cceEEEeecCCC
Q psy2029 75 KNCVLSIPTSGG 86 (138)
Q Consensus 75 ~~~ii~~ptg~G 86 (138)
.++++++|..-|
T Consensus 165 ~dIvygTp~~Lg 176 (762)
T TIGR03714 165 SDIVYTTNSALG 176 (762)
T ss_pred CCEEEECchhhh
Confidence 677788885544
No 173
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.39 E-value=7.1e-07 Score=73.87 Aligned_cols=52 Identities=15% Similarity=0.157 Sum_probs=43.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHH-HHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY-QSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~-~~l~~~ 56 (138)
+++.+++.||||+|||++|.+|++... ++.++++.+|+++|.+|.. +.+...
T Consensus 263 ~~~~~~~eA~tGtGKT~ayllp~l~~~--~~~~vvI~t~T~~Lq~Ql~~~~i~~l 315 (820)
T PRK07246 263 DGPASFIEAQTGIGKTYGYLLPLLAQS--DQRQIIVSVPTKILQDQIMAEEVKAI 315 (820)
T ss_pred CCCcEEEECCCCCcHHHHHHHHHHHhc--CCCcEEEEeCcHHHHHHHHHHHHHHH
Confidence 567889999999999999999988643 4679999999999999995 445444
No 174
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.39 E-value=7.4e-07 Score=74.70 Aligned_cols=49 Identities=16% Similarity=0.153 Sum_probs=43.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
++..+++.||||+|||++|++|++......++++++.++|++|-+|...
T Consensus 275 ~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~ 323 (928)
T PRK08074 275 DSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLE 323 (928)
T ss_pred cCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHH
Confidence 4678899999999999999999987766678899999999999998765
No 175
>KOG0351|consensus
Probab=98.38 E-value=3.2e-07 Score=76.24 Aligned_cols=52 Identities=29% Similarity=0.542 Sum_probs=44.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+.|+++.+.+|||+||+++|.+|++. .++-.++|.|+.+|.+++...+...+
T Consensus 277 l~Gkd~fvlmpTG~GKSLCYQlPA~l----~~gitvVISPL~SLm~DQv~~L~~~~ 328 (941)
T KOG0351|consen 277 LSGKDCFVLMPTGGGKSLCYQLPALL----LGGVTVVISPLISLMQDQVTHLSKKG 328 (941)
T ss_pred HcCCceEEEeecCCceeeEeeccccc----cCCceEEeccHHHHHHHHHHhhhhcC
Confidence 68999999999999999999999875 25677889999999999888885543
No 176
>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=98.38 E-value=8.2e-07 Score=69.93 Aligned_cols=49 Identities=24% Similarity=0.177 Sum_probs=41.0
Q ss_pred EEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 79 LSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 79 i~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+..|||+|||.+++.. +..+...+++++|++|+++|+.|.++.|++.+.
T Consensus 2 L~g~TGsGKT~v~l~~-i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~ 50 (505)
T TIGR00595 2 LFGVTGSGKTEVYLQA-IEKVLALGKSVLVLVPEIALTPQMIQRFKYRFG 50 (505)
T ss_pred ccCCCCCCHHHHHHHH-HHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 5689999999999655 444555688999999999999999999998763
No 177
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.37 E-value=9.1e-07 Score=72.15 Aligned_cols=48 Identities=17% Similarity=0.126 Sum_probs=42.4
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
++.+++.||||+|||+.|++|+.......++++++-+.|++|-+|...
T Consensus 49 ~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~ 96 (697)
T PRK11747 49 GRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVS 96 (697)
T ss_pred cceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHh
Confidence 467899999999999999999987766678899999999999988864
No 178
>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=98.33 E-value=1.1e-06 Score=71.50 Aligned_cols=55 Identities=13% Similarity=0.077 Sum_probs=45.9
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhh
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 62 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~ 62 (138)
.+..++||+|||+++.++++-+.+. +..+.+++|+..|+.|.++.+.++....+.
T Consensus 72 ~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~VvTpt~~LA~qdae~~~~l~~~LGL 126 (745)
T TIGR00963 72 KIAEMKTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAEWMGQVYRFLGL 126 (745)
T ss_pred ceeeecCCCccHHHHHHHHHHHHHh-CCCEEEEcCCHHHHHHHHHHHHHHhccCCC
Confidence 3899999999999999998644444 678999999999999999999988654433
No 179
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.33 E-value=1.2e-06 Score=70.95 Aligned_cols=54 Identities=17% Similarity=0.127 Sum_probs=47.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+|+.+++.||||+|||+.++.+++......+.++++.++++++.+|.+++..+.
T Consensus 33 ~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 33 GGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 455699999999999999999999887777899999999999999998876664
No 180
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.32 E-value=1.5e-06 Score=67.48 Aligned_cols=49 Identities=27% Similarity=0.445 Sum_probs=40.7
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++..++++|||+|||.++...+.. .+.++++++|+..|..|-.+.+...
T Consensus 55 ~~~gvivlpTGaGKT~va~~~~~~----~~~~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 55 ERRGVIVLPTGAGKTVVAAEAIAE----LKRSTLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCceEEEeCCCCCHHHHHHHHHHH----hcCCEEEEECcHHHHHHHHHHHHHh
Confidence 678899999999999999777665 2345999999999999988776665
No 181
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.30 E-value=9.7e-07 Score=71.51 Aligned_cols=54 Identities=26% Similarity=0.226 Sum_probs=40.8
Q ss_pred CCCccEEEEccCCcchHHHH---------HHHHHHHHh----h-cCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVG---------EILIMKELK----I-KQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~---------~~~~~~~~~----~-~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
++|++++++|+||||||... .++.+..+. + .+++++++.|+++|+.|...++.+
T Consensus 177 ~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 177 ISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred HhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHH
Confidence 57899999999999999862 222333221 1 356899999999999998888765
No 182
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.29 E-value=2e-06 Score=70.54 Aligned_cols=52 Identities=27% Similarity=0.429 Sum_probs=45.7
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh---cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~---~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
.+++.||||+|||.+++..+...+.+ ...|++++.|++++.+++++.+.+++
T Consensus 216 ~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~ 270 (733)
T COG1203 216 LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIF 270 (733)
T ss_pred cEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhh
Confidence 67899999999999999998876665 36799999999999999999988753
No 183
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.29 E-value=2e-06 Score=69.78 Aligned_cols=66 Identities=24% Similarity=0.147 Sum_probs=50.7
Q ss_pred hhhhhHHHhhhhc-cceEEEeecCCCchHh---------HHHHHHHHHH----h-CCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 62 FYLEGKCLEMIQN-KNCVLSIPTSGGKTLV---------GEILIMKELK----I-KQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~---------~~~~~l~~~~----~-~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
..+|.+.++.+.+ +++++.++||+|||.. ++++.+..+. . ...+++++.|+++|+.|...++.+.
T Consensus 166 ~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~ 245 (675)
T PHA02653 166 PDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHH
Confidence 3467878888877 9999999999999986 2233444332 1 3468999999999999999988765
Q ss_pred h
Q psy2029 127 A 127 (138)
Q Consensus 127 ~ 127 (138)
.
T Consensus 246 v 246 (675)
T PHA02653 246 L 246 (675)
T ss_pred h
Confidence 4
No 184
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.29 E-value=2.2e-06 Score=70.28 Aligned_cols=75 Identities=27% Similarity=0.414 Sum_probs=60.5
Q ss_pred hhhhhhhhHHHhhh---hc-c-ceEEEeecCCCchHhHHHHHHHHHHh---CCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 59 EFKFYLEGKCLEMI---QN-K-NCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 59 ~~~~~~Q~~~~~~~---~~-~-~~ii~~ptg~GKt~~~~~~~l~~~~~---~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
..+.+.|..+.... .. . .+++.+|||+|||.+++.+++..+.. ...+.+|+.|++++++++++.+++++...
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~ 273 (733)
T COG1203 194 HEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF 273 (733)
T ss_pred chhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhccc
Confidence 34577787777322 23 4 67899999999999999999888777 36899999999999999999999987665
Q ss_pred Cce
Q psy2029 131 KFY 133 (138)
Q Consensus 131 ~~~ 133 (138)
+..
T Consensus 274 ~~~ 276 (733)
T COG1203 274 SVI 276 (733)
T ss_pred ccc
Confidence 443
No 185
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.29 E-value=2.6e-06 Score=72.51 Aligned_cols=66 Identities=15% Similarity=0.269 Sum_probs=51.9
Q ss_pred hhhhhhHHHhhh----h-c-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCLEMI----Q-N-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~~~~----~-~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+.+.|..++..+ . . ++.++.+|||+|||+.+...+ .++.. ..+++++++|.++|+.|..+.|..+.
T Consensus 414 lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li-~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 414 LRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALM-YRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHH-HHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 577898888433 2 2 678999999999999975544 44443 34799999999999999999999874
No 186
>KOG0341|consensus
Probab=98.28 E-value=2.1e-06 Score=64.95 Aligned_cols=57 Identities=16% Similarity=0.146 Sum_probs=47.2
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh----------cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI----------KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~----------~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+|.|+++|-.|-||||||++|.+|+..-.++ .+.-.++++|.++|..|.++-+..+.
T Consensus 204 vLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~ 270 (610)
T KOG0341|consen 204 VLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYV 270 (610)
T ss_pred EeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHH
Confidence 3789999999999999999998886654333 35688999999999999988777764
No 187
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.27 E-value=1.6e-06 Score=71.68 Aligned_cols=52 Identities=19% Similarity=0.206 Sum_probs=44.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
++.+++++||||||||..+..++++... .+++++++.|++.++.|..+.+.+
T Consensus 19 ~~~~vvv~A~TGSGKTt~~pl~lL~~~~-~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 19 TAPQVLLKAPTGAGKSTWLPLQLLQHGG-INGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred hCCCEEEEcCCCCCHHHHHHHHHHHcCC-cCCeEEEECChHHHHHHHHHHHHH
Confidence 4678999999999999999988886532 346899999999999999888754
No 188
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.26 E-value=2.7e-06 Score=72.41 Aligned_cols=53 Identities=19% Similarity=0.320 Sum_probs=42.5
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+++++++|||||||.++...+...+.. ..+++|+++|.++|.+|..++|..++
T Consensus 434 r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 434 REILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcc
Confidence 578999999999999875555443322 34699999999999999999988763
No 189
>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=98.25 E-value=2.5e-06 Score=69.27 Aligned_cols=53 Identities=17% Similarity=0.202 Sum_probs=44.4
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++.++++|||||||+.+...+...+.. ...++++++|...|.+|..++|..++
T Consensus 264 ~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 264 RGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred ceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 578999999999999987777654322 45699999999999999999998875
No 190
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.24 E-value=6.1e-06 Score=68.44 Aligned_cols=72 Identities=15% Similarity=0.116 Sum_probs=54.7
Q ss_pred hhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH-HHHHHHhhhcCceee
Q psy2029 62 FYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY-QSLAKAAEEFKFYLE 135 (138)
Q Consensus 62 ~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~-~~~~~~~~~~~~~v~ 135 (138)
.+-|.+.. ..+.+ ..+++.++||+|||+.++++++... .+.++++.+||++|.+|.. +++..+.+.+++++.
T Consensus 247 R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~--~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~~~~~ 324 (820)
T PRK07246 247 RPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS--DQRQIIVSVPTKILQDQIMAEEVKAIQEVFHIDCH 324 (820)
T ss_pred CHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc--CCCcEEEEeCcHHHHHHHHHHHHHHHHHhcCCcEE
Confidence 34455533 33444 7788999999999999999988754 3678999999999999994 777777666666543
No 191
>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=98.22 E-value=3.1e-06 Score=70.03 Aligned_cols=52 Identities=19% Similarity=0.227 Sum_probs=44.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
++.+++++||||||||..+..+++.... .+++++++.|++.++.|..+.+.+
T Consensus 16 ~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 16 AHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 4568999999999999999999887653 467999999999999999988754
No 192
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.21 E-value=6e-06 Score=66.09 Aligned_cols=77 Identities=21% Similarity=0.253 Sum_probs=61.7
Q ss_pred hhhhhhhHHHhhhh-----c--cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCc
Q psy2029 60 FKFYLEGKCLEMIQ-----N--KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~-----~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~ 132 (138)
.++..|..++.-+. . .|-++--.-|||||++|.++++..+. .+.++..++||-=||+|-++.+.+|+.++|+
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~-~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i 340 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE-AGYQAALMAPTEILAEQHYESLRKWLEPLGI 340 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH-cCCeeEEeccHHHHHHHHHHHHHHHhhhcCC
Confidence 35566777763222 1 45567888999999999998887655 4888999999999999999999999999999
Q ss_pred eeeec
Q psy2029 133 YLEVL 137 (138)
Q Consensus 133 ~v~~~ 137 (138)
+|.-+
T Consensus 341 ~V~lL 345 (677)
T COG1200 341 RVALL 345 (677)
T ss_pred eEEEe
Confidence 88654
No 193
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.20 E-value=1.5e-05 Score=65.70 Aligned_cols=74 Identities=15% Similarity=0.084 Sum_probs=57.6
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|....-.+ ...-+..+.||+|||+++.++++-.... +..+-+++|+..||.|.++.+..++..+|+.|..
T Consensus 82 ~~dvQlig~l~L-~~G~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~ 155 (830)
T PRK12904 82 HFDVQLIGGMVL-HEGKIAEMKTGEGKTLVATLPAYLNALT-GKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGV 155 (830)
T ss_pred CCccHHHhhHHh-cCCchhhhhcCCCcHHHHHHHHHHHHHc-CCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEE
Confidence 455555443323 3334789999999999999999644444 5567799999999999999999999999998864
No 194
>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=98.19 E-value=3.5e-06 Score=68.64 Aligned_cols=49 Identities=20% Similarity=0.287 Sum_probs=41.5
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++.++++|||+|||+++..++.. .++++|+++|+..|++|-.++|.++.
T Consensus 274 r~GIIvLPtGaGKTlvai~aa~~----l~k~tLILvps~~Lv~QW~~ef~~~~ 322 (732)
T TIGR00603 274 RSGIIVLPCGAGKSLVGVTAACT----VKKSCLVLCTSAVSVEQWKQQFKMWS 322 (732)
T ss_pred CCcEEEeCCCCChHHHHHHHHHH----hCCCEEEEeCcHHHHHHHHHHHHHhc
Confidence 47899999999999999766543 25789999999999999999998874
No 195
>KOG0336|consensus
Probab=98.18 E-value=1e-06 Score=66.95 Aligned_cols=58 Identities=16% Similarity=0.107 Sum_probs=48.8
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+|+|.+++..|.||+|||++++.+.+.|+.. .+..+++++|+++|..|+.-+...+..
T Consensus 254 ~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysy 319 (629)
T KOG0336|consen 254 LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSY 319 (629)
T ss_pred eecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhh
Confidence 4899999999999999999999998876533 245889999999999998877777644
No 196
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.17 E-value=2.4e-06 Score=70.51 Aligned_cols=54 Identities=17% Similarity=0.110 Sum_probs=46.5
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhh
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 62 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~ 62 (138)
+..++||+|||++|.+|++.+++. +..+++++|+..|+.|.++.+.++....+.
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~-G~~V~VvTpn~yLA~qd~e~m~~l~~~lGL 152 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAIS-GRGVHIVTVNDYLAKRDSQWMKPIYEFLGL 152 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhc-CCCEEEEcCCHHHHHHHHHHHHHHhcccCc
Confidence 789999999999999999977664 677999999999999999999988654443
No 197
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.14 E-value=9e-06 Score=67.36 Aligned_cols=64 Identities=17% Similarity=0.167 Sum_probs=49.9
Q ss_pred hhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH-hhhcCceee
Q psy2029 71 MIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA-AEEFKFYLE 135 (138)
Q Consensus 71 ~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~-~~~~~~~v~ 135 (138)
.+.+ .++++.+|||+|||..+.+++++... .+.+++++.|++.++.|.++.+.+. ....|..|+
T Consensus 16 ~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~-~~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VG 81 (812)
T PRK11664 16 ALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG-INGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVG 81 (812)
T ss_pred HHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC-cCCeEEEECChHHHHHHHHHHHHHHhCcccCceEE
Confidence 3444 78999999999999999988887543 2458999999999999999998654 344454443
No 198
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.13 E-value=3.2e-05 Score=63.55 Aligned_cols=75 Identities=11% Similarity=0.055 Sum_probs=61.3
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
++++|....-.+.+ .-+..+.||+|||+++.+++...+.. +..+-+++|+--||.+-++.+..++..+|++|...
T Consensus 81 ~~dvQlig~l~l~~-G~iaEm~TGEGKTLvA~l~a~l~al~-G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl~vg~i 155 (796)
T PRK12906 81 PFDVQIIGGIVLHE-GNIAEMKTGEGKTLTATLPVYLNALT-GKGVHVVTVNEYLSSRDATEMGELYRWLGLTVGLN 155 (796)
T ss_pred CchhHHHHHHHHhc-CCcccccCCCCCcHHHHHHHHHHHHc-CCCeEEEeccHHHHHhhHHHHHHHHHhcCCeEEEe
Confidence 55666555433333 33889999999999999999887775 77788999999999999999999999999998754
No 199
>PF13245 AAA_19: Part of AAA domain
Probab=98.12 E-value=1.8e-05 Score=46.84 Aligned_cols=49 Identities=22% Similarity=0.182 Sum_probs=36.4
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh---cCCeEEEEcchhhhHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSL 53 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~---~~~~~l~v~P~~aL~~q~~~~l 53 (138)
.-++|.+|.|||||....-.+...+.. .+.+++++.|++...+++.+.+
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 345669999999996665555543321 2679999999999888877776
No 200
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.11 E-value=2.4e-05 Score=64.82 Aligned_cols=61 Identities=16% Similarity=0.090 Sum_probs=54.5
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..-+..++||.|||+++.++++..+.. +..+.+++|+..||.+.++.+..++..+|++|..
T Consensus 96 ~G~IaEm~TGEGKTL~a~lp~~l~al~-g~~VhIvT~ndyLA~RD~e~m~~l~~~lGlsv~~ 156 (908)
T PRK13107 96 SNRIAEMRTGEGKTLTATLPAYLNALT-GKGVHVITVNDYLARRDAENNRPLFEFLGLTVGI 156 (908)
T ss_pred CCccccccCCCCchHHHHHHHHHHHhc-CCCEEEEeCCHHHHHHHHHHHHHHHHhcCCeEEE
Confidence 455789999999999999999877765 5669999999999999999999999999999864
No 201
>KOG0352|consensus
Probab=98.11 E-value=7.3e-06 Score=62.73 Aligned_cols=64 Identities=25% Similarity=0.422 Sum_probs=53.2
Q ss_pred hhhhhhhHHHhhhhc--cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 60 FKFYLEGKCLEMIQN--KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
.-.+.|++++..+.+ .++.+++|||+||++++-+|.+- .++-.+++.|+.||+.++...+.++-
T Consensus 20 FKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~----~~gITIV~SPLiALIkDQiDHL~~LK 85 (641)
T KOG0352|consen 20 FKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALV----HGGITIVISPLIALIKDQIDHLKRLK 85 (641)
T ss_pred hcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHH----hCCeEEEehHHHHHHHHHHHHHHhcC
Confidence 345679988865544 88899999999999999999875 25577899999999999999888763
No 202
>KOG0333|consensus
Probab=98.09 E-value=3.6e-06 Score=65.60 Aligned_cols=57 Identities=21% Similarity=0.179 Sum_probs=48.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-----------cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-----------KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----------~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
++.+|+|..|.||||||+++.++++.-+.+ .+++++++.|+++|..|+.++-..++.
T Consensus 280 lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~ 347 (673)
T KOG0333|consen 280 LQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGK 347 (673)
T ss_pred hccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhcc
Confidence 678899999999999999999887754322 367999999999999999998777754
No 203
>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=98.09 E-value=8.1e-06 Score=66.79 Aligned_cols=55 Identities=22% Similarity=0.273 Sum_probs=45.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcC--CeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQ--KSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~--~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+|+++++.+|||+|||++.+.+++....+.+ .+++|.+.+.+=..|..+++++.
T Consensus 27 ~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 27 DRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred ccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhh
Confidence 46789999999999999999999888766444 69999999987667777887774
No 204
>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=98.09 E-value=1.9e-05 Score=65.52 Aligned_cols=64 Identities=17% Similarity=0.195 Sum_probs=50.7
Q ss_pred hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh-hhcCcee
Q psy2029 70 EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA-EEFKFYL 134 (138)
Q Consensus 70 ~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~-~~~~~~v 134 (138)
..+.+ .++++.+|||+|||..+.+++++... .+.+++++.|++.++.|.++.+.+.. ...|..|
T Consensus 12 ~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~V 77 (819)
T TIGR01970 12 DALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTV 77 (819)
T ss_pred HHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEE
Confidence 33444 78899999999999999999988763 35689999999999999999986443 3444444
No 205
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.09 E-value=1.9e-05 Score=66.58 Aligned_cols=89 Identities=18% Similarity=0.164 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHhhhh-----c--cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH
Q psy2029 48 EKYQSLAKAAEEFKFYLEGKCLEMIQ-----N--KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 48 q~~~~l~~~~~~~~~~~Q~~~~~~~~-----~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~ 120 (138)
+.+++|.+.+....++=|..++..+. . .+-++|-.-|-|||-+|+-+++..+.. ++++.+++||+-|++|.+
T Consensus 582 ~~q~~F~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~-GKQVAvLVPTTlLA~QHy 660 (1139)
T COG1197 582 EWQEEFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMD-GKQVAVLVPTTLLAQQHY 660 (1139)
T ss_pred HHHHHHHhcCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcC-CCeEEEEcccHHhHHHHH
Confidence 44556655544455666877874333 1 566899999999999999998887665 789999999999999999
Q ss_pred HHHHHHhhhcCceeeec
Q psy2029 121 QSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 121 ~~~~~~~~~~~~~v~~~ 137 (138)
+.|++.|.++.++|..+
T Consensus 661 ~tFkeRF~~fPV~I~~L 677 (1139)
T COG1197 661 ETFKERFAGFPVRIEVL 677 (1139)
T ss_pred HHHHHHhcCCCeeEEEe
Confidence 99999999999998765
No 206
>KOG0328|consensus
Probab=98.08 E-value=1.6e-06 Score=63.09 Aligned_cols=61 Identities=13% Similarity=0.300 Sum_probs=50.8
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHh--hcCCeEEEEcchhhhHHHHHHHHHHHHHhhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELK--IKQKSAIFILPYISLVHEKYQSLAKAAEEFK 61 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~--~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~ 61 (138)
|++|+|++..|..|+|||..+.+.+++.+- .+...++++.|+++|..|+.+.+...+...+
T Consensus 61 IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mn 123 (400)
T KOG0328|consen 61 ILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMN 123 (400)
T ss_pred hhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhccccc
Confidence 589999999999999999999888886432 2456889999999999999998888765443
No 207
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.05 E-value=0.00014 Score=61.48 Aligned_cols=52 Identities=17% Similarity=0.201 Sum_probs=47.2
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
|=++|+.-|-|||.+|+=+++....+ |+.+.+++||+-|++|.+++|.+.+.
T Consensus 617 DRLiCGDVGFGKTEVAmRAAFkAV~~-GKQVAvLVPTTlLA~QHy~tFkeRF~ 668 (1139)
T COG1197 617 DRLICGDVGFGKTEVAMRAAFKAVMD-GKQVAVLVPTTLLAQQHYETFKERFA 668 (1139)
T ss_pred hheeecCcCCcHHHHHHHHHHHHhcC-CCeEEEEcccHHhHHHHHHHHHHHhc
Confidence 44899999999999999999998775 89999999999999999999998765
No 208
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=98.01 E-value=0.0004 Score=49.63 Aligned_cols=53 Identities=13% Similarity=0.163 Sum_probs=39.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..|..+++.+|.|+|||..+...+...+ .++.+++|+.- -.-..+..+++..+
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs~-ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVAL-EEHPVQVRRNMAQF 71 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEEe-eCCHHHHHHHHHHh
Confidence 3578899999999999999988887766 45889999863 22334555655544
No 209
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=98.00 E-value=0.0003 Score=49.67 Aligned_cols=121 Identities=13% Similarity=0.104 Sum_probs=65.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhccce-EEEe
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNC-VLSI 81 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~-ii~~ 81 (138)
.|..+++.+|+|+|||..+...+.+.+.+.+.+++|+.-... ..+..+++..+ ++++.... .+.++ ++..
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~-~~~l~~~~~s~----g~d~~~~~----~~g~l~~~d~ 88 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEP-PEELIENMKSF----GWDLEEYE----DSGKLKIIDA 88 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS--HHHHHHHHHTT----TS-HHHHH----HTTSEEEEES
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCC-HHHHHHHHHHc----CCcHHHHh----hcCCEEEEec
Confidence 578899999999999999988888766544788888764221 23444444433 44333211 11112 2222
Q ss_pred ecCC----CchHhHHHHHHHHHHh-CCCeEEEEccchhH--------HHHHHHHHHHHhhhcCc
Q psy2029 82 PTSG----GKTLVGEILIMKELKI-KQKSAIFILPYISL--------VHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 82 ptg~----GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l--------~~q~~~~~~~~~~~~~~ 132 (138)
.+.. ....-.++..+....+ .+.+.++|.+..++ .....+.+.+.....|.
T Consensus 89 ~~~~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l~~~~~~~~~r~~l~~l~~~l~~~~~ 152 (226)
T PF06745_consen 89 FPERIGWSPNDLEELLSKIREAIEELKPDRVVIDSLSALLLYDDPEELRRFLRALIKFLKSRGV 152 (226)
T ss_dssp SGGGST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHHTTSSSGGGHHHHHHHHHHHHHHTTE
T ss_pred ccccccccccCHHHHHHHHHHHHHhcCCCEEEEECHHHHhhcCCHHHHHHHHHHHHHHHHHCCC
Confidence 2221 2233333333333332 35578889988888 23344455555555554
No 210
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=97.98 E-value=0.00054 Score=49.68 Aligned_cols=106 Identities=14% Similarity=0.114 Sum_probs=59.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhccceEEEee
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNCVLSIP 82 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~ii~~p 82 (138)
.|.-++|.+|+|+|||..+...+...+. ++.+++|+.-- .=.++..+++.......+++++.. ..++++.-+
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis~E-e~~~~~~~~l~~~a~~~g~d~~~~------~~~l~~id~ 106 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVTVE-SPANFVYTSLKERAKAMGVDFDKI------EENIILIDA 106 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEec-CCchHHHHHHHHHHHHcCCCHHHH------hCCEEEEEC
Confidence 4677899999999999999887776554 47799997632 111333344444444445554421 123444333
Q ss_pred cCCC---chHhHHHHHHHHHH-hCCCeEEEEccchhHH
Q psy2029 83 TSGG---KTLVGEILIMKELK-IKQKSAIFILPYISLV 116 (138)
Q Consensus 83 tg~G---Kt~~~~~~~l~~~~-~~~~~~~~i~P~~~l~ 116 (138)
...- ...-.++..+.+.. +.+.+.++|.+..++-
T Consensus 107 ~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~ 144 (259)
T TIGR03878 107 ASSTELRENVPNLLATLAYAIKEYKVKNTVIDSITGLY 144 (259)
T ss_pred CCchhhhhhHHHHHHHHHHHHHhhCCCEEEEcCchHhc
Confidence 3211 12222222233222 3467788898887653
No 211
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.96 E-value=4.5e-05 Score=62.12 Aligned_cols=54 Identities=17% Similarity=0.206 Sum_probs=44.5
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
++.++.+|||+|||+.+...+..-+.. ...++++++|...|..|..+.|.++..
T Consensus 264 ~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 264 RGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK 318 (667)
T ss_pred ceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC
Confidence 578999999999999997666443322 347899999999999999999998863
No 212
>KOG0332|consensus
Probab=97.94 E-value=1e-05 Score=60.84 Aligned_cols=56 Identities=13% Similarity=0.124 Sum_probs=47.4
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
.|+|..+..|+|||.+|.+.|+.+.-. ....++.++|+++|+.|..+.+.+.|...
T Consensus 130 ~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~ 187 (477)
T KOG0332|consen 130 QNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFT 187 (477)
T ss_pred hhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHHHHHHHHHhcCce
Confidence 578889999999999999999986532 34578888999999999999999987654
No 213
>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=97.93 E-value=3.7e-05 Score=63.00 Aligned_cols=66 Identities=18% Similarity=0.256 Sum_probs=54.5
Q ss_pred hhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC--CeEEEEccchhHHHHHHHHHHHHh
Q psy2029 62 FYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ--KSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 62 ~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~--~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
++.|.+.. ..+.+ .+.++.+|||+|||+..+.+++....+.+ .|++|.+.|.+-..|..+++++..
T Consensus 12 y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLM 84 (705)
T ss_pred CHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhh
Confidence 45565554 33445 88999999999999999999999877544 799999999999999999999853
No 214
>KOG0353|consensus
Probab=97.93 E-value=3.8e-05 Score=58.23 Aligned_cols=53 Identities=26% Similarity=0.432 Sum_probs=46.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
..|+++++.+|||.||++++.+|++- ..+-++++.|+.+|.+++.-.++..+.
T Consensus 107 ma~ed~~lil~tgggkslcyqlpal~----adg~alvi~plislmedqil~lkqlgi 159 (695)
T KOG0353|consen 107 MAGEDAFLILPTGGGKSLCYQLPALC----ADGFALVICPLISLMEDQILQLKQLGI 159 (695)
T ss_pred hccCceEEEEeCCCccchhhhhhHHh----cCCceEeechhHHHHHHHHHHHHHhCc
Confidence 46889999999999999999999875 367789999999999998888887764
No 215
>KOG0353|consensus
Probab=97.93 E-value=3.9e-05 Score=58.14 Aligned_cols=65 Identities=23% Similarity=0.321 Sum_probs=54.6
Q ss_pred hhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 61 KFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
..|.|..++..... ++.++.+|||+||++++-+|++- ..+-+++|.|+.+|++++.-++++++..
T Consensus 95 frplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~----adg~alvi~plislmedqil~lkqlgi~ 160 (695)
T KOG0353|consen 95 FRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC----ADGFALVICPLISLMEDQILQLKQLGID 160 (695)
T ss_pred cChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh----cCCceEeechhHHHHHHHHHHHHHhCcc
Confidence 45667777766666 88899999999999999999875 3678899999999999999999988543
No 216
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.91 E-value=0.00011 Score=60.93 Aligned_cols=75 Identities=15% Similarity=0.093 Sum_probs=59.6
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
++++|....- +....-+..+.||+|||+++.++++-.+.. +..+-+++|+..||.+-++.+..++..+|+.|...
T Consensus 83 ~ydVQliGg~-~Lh~G~iaEM~TGEGKTLvA~l~a~l~al~-G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i 157 (913)
T PRK13103 83 HFDVQLIGGM-TLHEGKIAEMRTGEGKTLVGTLAVYLNALS-GKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIV 157 (913)
T ss_pred cchhHHHhhh-HhccCccccccCCCCChHHHHHHHHHHHHc-CCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEE
Confidence 3445543322 223555789999999999999999876665 77888999999999999999999999999998754
No 217
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.90 E-value=0.00014 Score=59.33 Aligned_cols=74 Identities=16% Similarity=0.069 Sum_probs=60.0
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|....-.+. ..-+..+.||+|||+++.+++...+.. +..+-+++|+.-||.+-++.+..++..+|++|..
T Consensus 79 ~ydvQlig~l~Ll-~G~VaEM~TGEGKTLvA~l~a~l~AL~-G~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~ 152 (764)
T PRK12326 79 PFDVQLLGALRLL-AGDVIEMATGEGKTLAGAIAAAGYALQ-GRRVHVITVNDYLARRDAEWMGPLYEALGLTVGW 152 (764)
T ss_pred cchHHHHHHHHHh-CCCcccccCCCCHHHHHHHHHHHHHHc-CCCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEE
Confidence 4555554443333 344679999999999999999877765 7788999999999999999999999999999875
No 218
>KOG0949|consensus
Probab=97.87 E-value=4.4e-05 Score=63.51 Aligned_cols=67 Identities=22% Similarity=0.301 Sum_probs=53.3
Q ss_pred hhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
+..||.+....+-. ++.++.+||++|||.++..++=.-+.. ...-++|++|+++|++|...+....+
T Consensus 512 Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF 580 (1330)
T KOG0949|consen 512 PDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARF 580 (1330)
T ss_pred CcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhh
Confidence 44577766654444 888999999999999997766555544 34678999999999999999998887
No 219
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.87 E-value=3.7e-05 Score=62.36 Aligned_cols=67 Identities=15% Similarity=0.075 Sum_probs=56.3
Q ss_pred hhhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 60 FKFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 60 ~~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
.+.+.|.+.. ....+ +..++.+|||+|||+.++.+++......+.++++.+++.++-+|..++...+
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 4666777766 23334 5589999999999999999999998887899999999999999999888765
No 220
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.83 E-value=6.4e-05 Score=61.50 Aligned_cols=67 Identities=22% Similarity=0.316 Sum_probs=52.4
Q ss_pred hhhhhhHHH----hhhhc--cceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 61 KFYLEGKCL----EMIQN--KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+...|..++ +.+.+ ...++.+.||+|||..| +.++.++... -+|+|+++..++|+.|.+..|.++..
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTA-iaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P 240 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTA-IAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLP 240 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeH-HHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCC
Confidence 455677777 33433 66899999999999999 5555566653 37999999999999999999888753
No 221
>PRK04328 hypothetical protein; Provisional
Probab=97.82 E-value=0.0013 Score=47.33 Aligned_cols=52 Identities=10% Similarity=0.174 Sum_probs=36.7
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|..+++.+|+|+|||..+...+...+. ++.+++|+.- -+-.++..+++..+
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~-~ge~~lyis~-ee~~~~i~~~~~~~ 73 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ-MGEPGVYVAL-EEHPVQVRRNMRQF 73 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh-cCCcEEEEEe-eCCHHHHHHHHHHc
Confidence 5778899999999999999888777654 4788888763 22233444444444
No 222
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.81 E-value=6.1e-05 Score=61.53 Aligned_cols=52 Identities=25% Similarity=0.216 Sum_probs=45.7
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+..++.+-||||||.+|+-.+.+.+. .|+.+|+++|-++|..|..++|+..+
T Consensus 218 ~~~Ll~GvTGSGKTEvYl~~i~~~L~-~GkqvLvLVPEI~Ltpq~~~rf~~rF 269 (730)
T COG1198 218 APFLLDGVTGSGKTEVYLEAIAKVLA-QGKQVLVLVPEIALTPQLLARFKARF 269 (730)
T ss_pred cceeEeCCCCCcHHHHHHHHHHHHHH-cCCEEEEEeccccchHHHHHHHHHHh
Confidence 45799999999999999888887654 58999999999999999999998864
No 223
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.80 E-value=7.7e-05 Score=62.86 Aligned_cols=61 Identities=15% Similarity=0.127 Sum_probs=49.5
Q ss_pred hhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHH
Q psy2029 61 KFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~ 121 (138)
..+-|.+.. ..+.+ ...++.+|||.|||+.+++|++..+...+.++++-++|++|-+|..+
T Consensus 258 ~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~ 323 (928)
T PRK08074 258 KREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLE 323 (928)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHH
Confidence 344565544 33344 77889999999999999999998777678999999999999999865
No 224
>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=97.79 E-value=0.002 Score=46.72 Aligned_cols=131 Identities=14% Similarity=0.065 Sum_probs=68.3
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhh---------hhhhh--HHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK---------FYLEG--KCLE 70 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~---------~~~Q~--~~~~ 70 (138)
..|+.+++.+|+|+|||..+...+.......+.+++|+.---. .++..+.+........ +..+. .+..
T Consensus 28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~-~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (271)
T cd01122 28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEP-VVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFD 106 (271)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccC-HHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHH
Confidence 4577889999999999998877766544444778888753111 1333333322211100 11111 0111
Q ss_pred hhhc-cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHH-------------HHHHHHHHHhhhcCcee
Q psy2029 71 MIQN-KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVH-------------EKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 71 ~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~-------------q~~~~~~~~~~~~~~~v 134 (138)
...+ .++.+. .....-+.-.+...++.+.. .+.+.++|.+...+.. +..+.+++++...++.|
T Consensus 107 ~~~~~~~l~i~-d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtv 184 (271)
T cd01122 107 EFEGTGRLFMY-DSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHI 184 (271)
T ss_pred HhcCCCcEEEE-cCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEE
Confidence 2222 233333 22222244444455554443 4678888888766642 33455666667766654
No 225
>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=97.79 E-value=0.0019 Score=45.00 Aligned_cols=40 Identities=20% Similarity=0.203 Sum_probs=30.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcch
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPY 42 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~ 42 (138)
..|.-+.+.+|+|+|||..+...+.... ..+.+++|+.-.
T Consensus 10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~-~~g~~v~yi~~e 49 (209)
T TIGR02237 10 ERGTITQIYGPPGSGKTNICMILAVNAA-RQGKKVVYIDTE 49 (209)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECC
Confidence 3567789999999999999977666543 457789987653
No 226
>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=97.79 E-value=0.0011 Score=52.32 Aligned_cols=104 Identities=16% Similarity=0.079 Sum_probs=60.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhccceE-E-
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNCV-L- 79 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~i-i- 79 (138)
..|..+++.+|+|+|||..+...+...+ .++.+++|+.-- +=.+|+.++.+.+ +++.+.. ..+..+. +
T Consensus 261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~-~~ge~~~y~s~e-Es~~~i~~~~~~l----g~~~~~~----~~~g~l~~~~ 330 (484)
T TIGR02655 261 FKDSIILATGATGTGKTLLVSKFLENAC-ANKERAILFAYE-ESRAQLLRNAYSW----GIDFEEM----EQQGLLKIIC 330 (484)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEee-CCHHHHHHHHHHc----CCChHHH----hhCCcEEEEE
Confidence 4678889999999999999988877654 457899997642 2234555555444 4433221 1111121 1
Q ss_pred EeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHH
Q psy2029 80 SIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 116 (138)
Q Consensus 80 ~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~ 116 (138)
.-|...+.. -.+-.+++.+.+.+.+.++|.+..++.
T Consensus 331 ~~p~~~~~~-~~~~~i~~~i~~~~~~~vvIDsi~~~~ 366 (484)
T TIGR02655 331 AYPESAGLE-DHLQIIKSEIADFKPARIAIDSLSALA 366 (484)
T ss_pred cccccCChH-HHHHHHHHHHHHcCCCEEEEcCHHHHH
Confidence 224333311 122333444445677889999988773
No 227
>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=97.75 E-value=0.0014 Score=46.69 Aligned_cols=39 Identities=18% Similarity=0.141 Sum_probs=31.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
..|+-+++.+|+|+|||..+...+...+.+.+.+++|+.
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s 49 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS 49 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence 457788999999999999988777776655578888876
No 228
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.73 E-value=0.00039 Score=57.00 Aligned_cols=57 Identities=16% Similarity=0.082 Sum_probs=46.9
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH-HHHHHHhhhcC
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY-QSLAKAAEEFK 131 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~-~~~~~~~~~~~ 131 (138)
+..++.+|||.|||+.+++|++..+...++++++=+.|++|=+|.. +++-.+.+-+|
T Consensus 50 ~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~kDlP~l~~~l~ 107 (697)
T PRK11747 50 RILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSKDLPLLLKISG 107 (697)
T ss_pred ceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhhhhhHHHHHcC
Confidence 4578999999999999999999888877899999999999999986 55554444344
No 229
>KOG0327|consensus
Probab=97.71 E-value=1.2e-05 Score=60.25 Aligned_cols=65 Identities=14% Similarity=0.287 Sum_probs=52.0
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhh
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLE 65 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q 65 (138)
+++|.|+.+.+++|+|||.++.++++.++-- ....++.++|+++|..|..+.....+...+..++
T Consensus 60 ~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~v~ 126 (397)
T KOG0327|consen 60 CIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSVH 126 (397)
T ss_pred cccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccceeee
Confidence 3689999999999999999999999876421 3457788999999999999887777665544444
No 230
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=97.71 E-value=5.1e-05 Score=62.66 Aligned_cols=55 Identities=16% Similarity=0.099 Sum_probs=45.0
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhh
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFY 63 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~ 63 (138)
+..++||+|||+++.++++-..+. +..+.+++|+..|+.+.++.+.+++...+..
T Consensus 98 Iaem~TGeGKTLva~lpa~l~aL~-G~~V~IvTpn~yLA~rd~e~~~~l~~~LGls 152 (830)
T PRK12904 98 IAEMKTGEGKTLVATLPAYLNALT-GKGVHVVTVNDYLAKRDAEWMGPLYEFLGLS 152 (830)
T ss_pred hhhhhcCCCcHHHHHHHHHHHHHc-CCCEEEEecCHHHHHHHHHHHHHHHhhcCCe
Confidence 789999999999999998643443 6678899999999999999999886654443
No 231
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=97.70 E-value=6.4e-05 Score=62.36 Aligned_cols=57 Identities=16% Similarity=0.060 Sum_probs=47.6
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhh
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYL 64 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~ 64 (138)
-+..++||.|||+++.+|++.+.+. +..+.+++|+..|+.+-.+.+.++....+..+
T Consensus 98 ~IaEm~TGEGKTL~a~lp~~l~al~-g~~VhIvT~ndyLA~RD~e~m~~l~~~lGlsv 154 (908)
T PRK13107 98 RIAEMRTGEGKTLTATLPAYLNALT-GKGVHVITVNDYLARRDAENNRPLFEFLGLTV 154 (908)
T ss_pred ccccccCCCCchHHHHHHHHHHHhc-CCCEEEEeCCHHHHHHHHHHHHHHHHhcCCeE
Confidence 4779999999999999999876664 66799999999999999998888866555443
No 232
>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=97.69 E-value=0.00073 Score=53.21 Aligned_cols=60 Identities=15% Similarity=0.205 Sum_probs=42.1
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEG 66 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~ 66 (138)
..|+..++.+|+|+|||..+...+...+.+.+.+++|+.-- +=.++..++ ....+|+.+.
T Consensus 19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~----~~~~G~~~~~ 78 (484)
T TIGR02655 19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKN----ARSFGWDLQK 78 (484)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHH----HHHcCCCHHH
Confidence 35788999999999999999888887766557788998742 222344444 4444555554
No 233
>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=97.64 E-value=9.3e-05 Score=48.93 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=38.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+|+-.++-.++|+|||.--+--+.+..++++.|+|++.|++.+.++..+.++..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTS
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcC
Confidence 566778999999999975444444445667999999999999998888887654
No 234
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=97.61 E-value=0.0022 Score=43.66 Aligned_cols=49 Identities=14% Similarity=0.148 Sum_probs=33.8
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++++.+|+|+|||..+.-.+...+ ..+.+++|+... .-.++..+.+..+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~e-~~~~~~~~~~~~~ 49 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTLE-ESPEELIENAESL 49 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEECC-CCHHHHHHHHHHc
Confidence 368999999999999877777655 457888887643 2234444544443
No 235
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=97.61 E-value=0.0028 Score=44.72 Aligned_cols=52 Identities=15% Similarity=0.077 Sum_probs=36.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|+.+++.+|+|+|||..+...+...+. ++.+++|+..--. .++..+++..+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~-~g~~~~y~s~e~~-~~~l~~~~~~~ 66 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK-NGEKAMYISLEER-EERILGYAKSK 66 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCCC-HHHHHHHHHHc
Confidence 4678899999999999998877776554 4888999764332 34445554443
No 236
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=97.60 E-value=0.00018 Score=49.32 Aligned_cols=45 Identities=29% Similarity=0.324 Sum_probs=29.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEK 49 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~ 49 (138)
++.|+++.+|+|+|||..+... ...+.+.+.+++|+ +...|.++.
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai-~~~~~~~g~~v~f~-~~~~L~~~l 90 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAI-ANEAIRKGYSVLFI-TASDLLDEL 90 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHH-HHHHHHTT--EEEE-EHHHHHHHH
T ss_pred cCeEEEEEhhHhHHHHHHHHHH-HHHhccCCcceeEe-ecCceeccc
Confidence 5789999999999999998444 44466667777774 444554443
No 237
>KOG0326|consensus
Probab=97.59 E-value=2e-05 Score=58.33 Aligned_cols=60 Identities=17% Similarity=0.227 Sum_probs=50.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHHHHhhh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAEEFK 61 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~~~~~~ 61 (138)
|.|+|++..|..|+|||.++.+|+++.+-.. .-.+++++|+++|..|..+...+.+.+.+
T Consensus 120 LtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~~ 181 (459)
T KOG0326|consen 120 LTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHLG 181 (459)
T ss_pred ecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHHHhcccC
Confidence 7899999999999999999999999865442 33779999999999999988888876554
No 238
>PF13245 AAA_19: Part of AAA domain
Probab=97.56 E-value=0.00039 Score=41.04 Aligned_cols=49 Identities=22% Similarity=0.182 Sum_probs=37.2
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHh---CCCeEEEEccchhHHHHHHHHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSL 123 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~---~~~~~~~i~P~~~l~~q~~~~~ 123 (138)
.-+++..|.|+|||....-.+...+.. .+.+++++.|++..+++..+.+
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 445679999999997765555444421 2678999999999999888887
No 239
>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=97.56 E-value=0.0067 Score=42.84 Aligned_cols=38 Identities=16% Similarity=0.160 Sum_probs=29.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
.|+.+++.+|+|+|||..+...+...+ .++.+++|+..
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~-~~g~~~~~is~ 56 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGL-RDGDPVIYVTT 56 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEEc
Confidence 578899999999999998876665544 45778888764
No 240
>KOG0351|consensus
Probab=97.56 E-value=8.8e-05 Score=62.16 Aligned_cols=67 Identities=22% Similarity=0.318 Sum_probs=56.2
Q ss_pred HHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 56 AAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 56 ~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
++.+...+-|.+++..... ++.++.+|||+||++++-+|++-. ++-.++|.|+.+|+.++...+...
T Consensus 260 Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~----~gitvVISPL~SLm~DQv~~L~~~ 327 (941)
T KOG0351|consen 260 FGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL----GGVTVVISPLISLMQDQVTHLSKK 327 (941)
T ss_pred hccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc----CCceEEeccHHHHHHHHHHhhhhc
Confidence 3556677889999987777 999999999999999998888752 457899999999999999888444
No 241
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.55 E-value=0.00013 Score=60.17 Aligned_cols=54 Identities=13% Similarity=0.110 Sum_probs=46.0
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhh
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 62 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~ 62 (138)
+..+.||+|||+++.+++..+.+. |..+.+++|+--|..+-++.+.++....+.
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~-G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl 150 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALT-GKGVHVVTVNEYLSSRDATEMGELYRWLGL 150 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHc-CCCeEEEeccHHHHHhhHHHHHHHHHhcCC
Confidence 889999999999999998876664 888999999999999999998887654443
No 242
>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=97.52 E-value=0.00023 Score=47.05 Aligned_cols=51 Identities=22% Similarity=0.233 Sum_probs=39.9
Q ss_pred ceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 76 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 76 ~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
-.++...+|+|||---+-..+++....+.|+|++.|++.++++..+.++..
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTS
T ss_pred eeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcC
Confidence 346889999999998777777777778899999999999999999888654
No 243
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.51 E-value=0.0041 Score=47.48 Aligned_cols=38 Identities=18% Similarity=0.089 Sum_probs=26.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcC-CeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-~~~l~v~ 40 (138)
+|+.+++.+|||+|||....-.+.......+ .++.++.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit 174 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT 174 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 4778999999999999877555554333334 3555543
No 244
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.51 E-value=0.00018 Score=57.93 Aligned_cols=51 Identities=25% Similarity=0.294 Sum_probs=44.7
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
++.+.-|||||++|.++++.. .+.|..+..-+||--|.+|.++++.++...
T Consensus 287 LlQGDVGSGKTvVA~laml~a-i~~G~Q~ALMAPTEILA~QH~~~~~~~l~~ 337 (677)
T COG1200 287 LLQGDVGSGKTVVALLAMLAA-IEAGYQAALMAPTEILAEQHYESLRKWLEP 337 (677)
T ss_pred HhccCcCCCHHHHHHHHHHHH-HHcCCeeEEeccHHHHHHHHHHHHHHHhhh
Confidence 678899999999999999975 455888888899999999999999998653
No 245
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.48 E-value=0.0033 Score=47.19 Aligned_cols=41 Identities=34% Similarity=0.356 Sum_probs=30.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
++++++++|||+|||..+. ++...+.+++.+++|+. ...|.
T Consensus 183 ~~~Lll~G~~GtGKThLa~-aIa~~l~~~g~~V~y~t-~~~l~ 223 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSN-CIAKELLDRGKSVIYRT-ADELI 223 (329)
T ss_pred CCcEEEECCCCCcHHHHHH-HHHHHHHHCCCeEEEEE-HHHHH
Confidence 4789999999999998874 45555667777888754 33443
No 246
>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=97.47 E-value=0.012 Score=41.30 Aligned_cols=37 Identities=19% Similarity=0.154 Sum_probs=29.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
.|+-+.+.+|.|+|||..+...+.... ..+.+++|+.
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~-~~g~~v~yi~ 54 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAIQLAVETA-GQGKKVAYID 54 (218)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE
Confidence 466789999999999999987776543 4578898874
No 247
>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=97.44 E-value=0.002 Score=46.94 Aligned_cols=74 Identities=12% Similarity=0.082 Sum_probs=56.0
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|...+-.+ ...-+..+.||.|||+++.+++.-.... +..+=++.....|+..-++++..++..+|+.|..
T Consensus 78 p~~vQll~~l~L-~~G~laEm~TGEGKTli~~l~a~~~AL~-G~~V~vvT~NdyLA~RD~~~~~~~y~~LGlsv~~ 151 (266)
T PF07517_consen 78 PYDVQLLGALAL-HKGRLAEMKTGEGKTLIAALPAALNALQ-GKGVHVVTSNDYLAKRDAEEMRPFYEFLGLSVGI 151 (266)
T ss_dssp --HHHHHHHHHH-HTTSEEEESTTSHHHHHHHHHHHHHHTT-SS-EEEEESSHHHHHHHHHHHHHHHHHTT--EEE
T ss_pred ccHHHHhhhhhc-ccceeEEecCCCCcHHHHHHHHHHHHHh-cCCcEEEeccHHHhhccHHHHHHHHHHhhhcccc
Confidence 555665554333 3455899999999999999888776664 6778888999999999999999999999999864
No 248
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=97.42 E-value=0.0085 Score=42.14 Aligned_cols=43 Identities=12% Similarity=0.010 Sum_probs=31.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-----CCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-----QKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-----~~~~l~v~P~~aL 45 (138)
.|+-+.+.+|.|+|||..+...+...+... +.+++|+..-..+
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~ 65 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAF 65 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCC
Confidence 466789999999999999877766644332 2788888764433
No 249
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.42 E-value=0.011 Score=41.75 Aligned_cols=38 Identities=21% Similarity=0.203 Sum_probs=30.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
.|+-+.+.+|.|+|||..+...+...+ ..+.+++|+.-
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~~~-~~~~~v~yi~~ 59 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVEAA-KNGKKVIYIDT 59 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEC
Confidence 467789999999999999977776644 45788888754
No 250
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.41 E-value=0.00043 Score=48.38 Aligned_cols=53 Identities=19% Similarity=0.217 Sum_probs=37.3
Q ss_pred CCcc-EEEEccCCcchHHHHHHHHHHH-------HhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 3 QNKN-CVLSIPTSGGKTLVGEILIMKE-------LKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 3 ~~~~-~~~~~ptg~GKt~~~~~~~~~~-------~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
+... .+|++|.|+|||.+....+... ....+.+++++.|+.+-+++..+.+.+
T Consensus 15 ~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 15 SSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp TSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred cCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 3344 8999999999995543333332 134678999999999888888888777
No 251
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=97.41 E-value=0.01 Score=40.65 Aligned_cols=130 Identities=19% Similarity=0.176 Sum_probs=57.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh---------cCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI---------KQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQ 73 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~---------~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~ 73 (138)
.|.=+++.+|+|+|||.++...+...... ++.+++|+..--. ..+..+.+........ ..+...+....
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~~~~~-~~~~~~~~~~~ 108 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALLQDYD-DDANLFFVDLS 108 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHHTTS--HHHHHHHHHH-
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHhcccC-CccceEEeecc
Confidence 46668999999999999887766654431 3568898865333 2344455554432210 01111111111
Q ss_pred c-cceEEEeecCCCchHhHHHHHHHH-HHh-CCCeEEEEccchhHHH----------HHHHHHHHHhhhcCcee
Q psy2029 74 N-KNCVLSIPTSGGKTLVGEILIMKE-LKI-KQKSAIFILPYISLVH----------EKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 74 ~-~~~ii~~ptg~GKt~~~~~~~l~~-~~~-~~~~~~~i~P~~~l~~----------q~~~~~~~~~~~~~~~v 134 (138)
+ ...-+..+...+...-..+.-+.+ +.. .+.+.++|.|...+.. +..+.+++++...|+.|
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~~~~~~~~~~~~~~~~~~l~~la~~~~~~v 182 (193)
T PF13481_consen 109 NWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSLHDGDENSNSAVAQLMQELKRLAKEYGVAV 182 (193)
T ss_dssp -E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG--S-TT-HHHHHHHHHHHHHHHHHH--EE
T ss_pred ccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHHhcCCCCCHHHHHHHHHHHHHHHHHcCCEE
Confidence 1 111222222222222223333333 333 4678999998766654 34555666666666654
No 252
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.39 E-value=0.00024 Score=59.07 Aligned_cols=52 Identities=19% Similarity=0.128 Sum_probs=44.4
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
-|..+.||.|||+++.++++...+. |..+.+++|+.-|..+-++.+.++...
T Consensus 98 ~iaEM~TGEGKTLvA~l~a~l~al~-G~~VhvvT~ndyLA~RD~e~m~~l~~~ 149 (913)
T PRK13103 98 KIAEMRTGEGKTLVGTLAVYLNALS-GKGVHVVTVNDYLARRDANWMRPLYEF 149 (913)
T ss_pred ccccccCCCCChHHHHHHHHHHHHc-CCCEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 4678999999999999998876654 888999999999999999988887543
No 253
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.39 E-value=0.00062 Score=57.24 Aligned_cols=50 Identities=18% Similarity=0.155 Sum_probs=39.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLA 54 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~ 54 (138)
.|+.+.|+||+|||.+++-.++.-... .-.+.++++|+.++.....+.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhh
Confidence 588999999999999998888764333 33588999999998877665544
No 254
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.38 E-value=0.0016 Score=54.08 Aligned_cols=74 Identities=14% Similarity=0.072 Sum_probs=58.5
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|....- +.....+..+.||.|||+++.+++.-.... +..+-+|++...|+..-++.+..++..+|+.|+.
T Consensus 77 ~ydvQlig~l-~L~~G~IaEm~TGEGKTL~a~l~ayl~aL~-G~~VhVvT~NdyLA~RD~e~m~pvy~~LGLsvg~ 150 (870)
T CHL00122 77 HFDVQLIGGL-VLNDGKIAEMKTGEGKTLVATLPAYLNALT-GKGVHIVTVNDYLAKRDQEWMGQIYRFLGLTVGL 150 (870)
T ss_pred CCchHhhhhH-hhcCCccccccCCCCchHHHHHHHHHHHhc-CCceEEEeCCHHHHHHHHHHHHHHHHHcCCceee
Confidence 4445543321 223667889999999999999999655553 7778899999999999999999999999999874
No 255
>PRK08181 transposase; Validated
Probab=97.36 E-value=0.00056 Score=49.95 Aligned_cols=45 Identities=22% Similarity=0.286 Sum_probs=31.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEK 49 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~ 49 (138)
++.|+++++|+|+|||..+...+. .+.+.+.+++|+ +...|.++.
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~Aia~-~a~~~g~~v~f~-~~~~L~~~l 149 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAAAIGL-ALIENGWRVLFT-RTTDLVQKL 149 (269)
T ss_pred cCceEEEEecCCCcHHHHHHHHHH-HHHHcCCceeee-eHHHHHHHH
Confidence 567999999999999988754444 345567777774 444555444
No 256
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.34 E-value=0.00073 Score=48.90 Aligned_cols=50 Identities=24% Similarity=0.216 Sum_probs=35.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLA 54 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~ 54 (138)
+++|+++.+|.|.|||..+...+. .+...+.+++| +++.+|..+....+.
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~-~l~~~g~sv~f-~~~~el~~~Lk~~~~ 153 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGN-ELLKAGISVLF-ITAPDLLSKLKAAFD 153 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHH-HHHHcCCeEEE-EEHHHHHHHHHHHHh
Confidence 578999999999999999844444 45555667766 566666655555444
No 257
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.34 E-value=0.0013 Score=48.01 Aligned_cols=67 Identities=12% Similarity=-0.007 Sum_probs=51.9
Q ss_pred hhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhC---CCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 63 YLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 63 ~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~---~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
+-|..++.. .+.+++|.++.|+|||.+....+.+-+... ..++++++++++.+.+..+.+.+.+...
T Consensus 3 ~eQ~~~i~~-~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~~ 72 (315)
T PF00580_consen 3 DEQRRIIRS-TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEEE 72 (315)
T ss_dssp HHHHHHHHS--SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHhC-CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCcc
Confidence 345666554 448899999999999999887777666553 4689999999999999999999876554
No 258
>PRK08116 hypothetical protein; Validated
Probab=97.30 E-value=0.025 Score=41.32 Aligned_cols=43 Identities=26% Similarity=0.286 Sum_probs=29.7
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 50 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~ 50 (138)
.+++++|+|+|||..+. ++.+.+.+.+.+++|+ +...|.+++.
T Consensus 116 gl~l~G~~GtGKThLa~-aia~~l~~~~~~v~~~-~~~~ll~~i~ 158 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAA-CIANELIEKGVPVIFV-NFPQLLNRIK 158 (268)
T ss_pred eEEEECCCCCCHHHHHH-HHHHHHHHcCCeEEEE-EHHHHHHHHH
Confidence 48999999999999885 4555666666677665 4444444433
No 259
>KOG4284|consensus
Probab=97.29 E-value=6.9e-05 Score=60.13 Aligned_cols=57 Identities=18% Similarity=0.297 Sum_probs=47.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+.+.++||.|..|+|||++|.+.+...+-.+ ....++++|++++.-|+.+.+...+.
T Consensus 60 ~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~ 118 (980)
T KOG4284|consen 60 FSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP 118 (980)
T ss_pred hcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcc
Confidence 4567999999999999999988888776543 34778899999999999988877654
No 260
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.29 E-value=0.00088 Score=48.98 Aligned_cols=53 Identities=11% Similarity=-0.013 Sum_probs=40.6
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc---CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..+++|.|+.|||||.+...-+...+... ..++++++++++.+.+..+.+.+.
T Consensus 13 ~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 13 EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 56899999999999998866665544332 348999999999888887777775
No 261
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.29 E-value=0.00051 Score=56.08 Aligned_cols=50 Identities=22% Similarity=0.166 Sum_probs=43.0
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+..+.||.|||+++.+++..+.+. |..+.+++|+--|+.+-++.+.++..
T Consensus 95 VaEM~TGEGKTLvA~l~a~l~AL~-G~~VhvvT~NdyLA~RDae~m~~ly~ 144 (764)
T PRK12326 95 VIEMATGEGKTLAGAIAAAGYALQ-GRRVHVITVNDYLARRDAEWMGPLYE 144 (764)
T ss_pred cccccCCCCHHHHHHHHHHHHHHc-CCCeEEEcCCHHHHHHHHHHHHHHHH
Confidence 568999999999999998876654 88899999999999998888887654
No 262
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=97.29 E-value=0.012 Score=41.66 Aligned_cols=40 Identities=15% Similarity=0.013 Sum_probs=29.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-----CCeEEEEcch
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-----QKSAIFILPY 42 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-----~~~~l~v~P~ 42 (138)
.|+-+.+.+|.|+|||..+...+...+... +.+++|+..-
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e 62 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTE 62 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCC
Confidence 467789999999999999977766544332 3688888643
No 263
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=97.28 E-value=0.01 Score=47.00 Aligned_cols=52 Identities=12% Similarity=0.020 Sum_probs=36.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|..+++.+|+|+|||..+...+...+ ..+.+++|+.... -.+++.+++..+
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~-~~g~~~~yis~e~-~~~~i~~~~~~~ 323 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAAC-RRGERCLLFAFEE-SRAQLIRNARSW 323 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHH-hCCCcEEEEEecC-CHHHHHHHHHHc
Confidence 467789999999999999977776654 4578999985432 244555555443
No 264
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.28 E-value=0.00051 Score=56.42 Aligned_cols=51 Identities=24% Similarity=0.308 Sum_probs=42.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..++++|-||+|||..|...+.. |+. .-+|+|+++--++|.+|-+..+.++
T Consensus 186 ~raLlvMATGTGKTrTAiaii~r-L~r~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 186 NRALLVMATGTGKTRTAIAIIDR-LIKSGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred ceEEEEEecCCCcceeHHHHHHH-HHhcchhheeeEEechHHHHHHHHHHHHHh
Confidence 35899999999999998666554 444 3569999999999999999887776
No 265
>KOG0329|consensus
Probab=97.28 E-value=0.00019 Score=51.86 Aligned_cols=58 Identities=10% Similarity=0.094 Sum_probs=48.2
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhc-C-CeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIK-Q-KSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~-~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
+-|.+++..|.+|+|||.++.++.++.+-.- | -.+++.+-+++|.-|+.+++.+++..
T Consensus 77 ilgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfsky 136 (387)
T KOG0329|consen 77 ILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKY 136 (387)
T ss_pred hhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhh
Confidence 4578999999999999999999988865442 2 26788899999999999999888543
No 266
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=97.26 E-value=0.015 Score=41.49 Aligned_cols=53 Identities=11% Similarity=0.107 Sum_probs=36.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
-.|+.+++.+|+|+|||..+...+.. +.+++.+++|+...- -..+..+++..+
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~-~~~~g~~~~yi~~e~-~~~~~~~~~~~~ 74 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYG-FLQNGYSVSYVSTQL-TTTEFIKQMMSL 74 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHH-HHhCCCcEEEEeCCC-CHHHHHHHHHHh
Confidence 35778899999999999998666665 445678888887432 234555555443
No 267
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=97.20 E-value=0.033 Score=43.27 Aligned_cols=130 Identities=16% Similarity=0.059 Sum_probs=68.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhh---------hh--hhhh--HHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF---------KF--YLEG--KCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~---------~~--~~Q~--~~~ 69 (138)
.|.-+++.|++|+|||..+.-.+.....+.+.+++|+..--. ..+..+++....... .. .++. .+.
T Consensus 194 ~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~-~~~i~~R~~~~~~~v~~~~~~~g~l~~~~~~~~~~a~ 272 (434)
T TIGR00665 194 PSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMS-AEQLAMRMLSSESRVDSQKLRTGKLSDEDWEKLTSAA 272 (434)
T ss_pred CCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCC-HHHHHHHHHHHhcCCCHHHhccCCCCHHHHHHHHHHH
Confidence 456679999999999999877776645445667877653111 123333333321100 00 1111 111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH------------HHHHHHHHHHHhhhcCceee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL------------VHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v~ 135 (138)
..+.+.++.+.- ..+-+..-+...++++.. .+.+.++|.+...+ +.+..+.++.++..+++.|.
T Consensus 273 ~~l~~~~l~i~d--~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi 349 (434)
T TIGR00665 273 GKLSEAPLYIDD--TPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVI 349 (434)
T ss_pred HHHhcCCEEEEC--CCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEE
Confidence 222223333322 234455555555555543 45677777765433 23345667777777777654
No 268
>PRK06921 hypothetical protein; Provisional
Probab=97.19 E-value=0.0017 Score=47.39 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=30.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEcchhhhHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHE 48 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~P~~aL~~q 48 (138)
.+.++++++|+|+|||..+. ++...+.++ +.+++|+. ...+..+
T Consensus 116 ~~~~l~l~G~~G~GKThLa~-aia~~l~~~~g~~v~y~~-~~~l~~~ 160 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLT-AAANELMRKKGVPVLYFP-FVEGFGD 160 (266)
T ss_pred CCCeEEEECCCCCcHHHHHH-HHHHHHhhhcCceEEEEE-HHHHHHH
Confidence 35789999999999998874 444556665 67777754 3344333
No 269
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.19 E-value=0.0017 Score=45.33 Aligned_cols=63 Identities=17% Similarity=0.206 Sum_probs=46.1
Q ss_pred hhhhhHHHhhhhc-cc-eEEEeecCCCchHhHHHHHHHHH--------HhCCCeEEEEccchhHHHHHHHHHHH
Q psy2029 62 FYLEGKCLEMIQN-KN-CVLSIPTSGGKTLVGEILIMKEL--------KIKQKSAIFILPYISLVHEKYQSLAK 125 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~-~ii~~ptg~GKt~~~~~~~l~~~--------~~~~~~~~~i~P~~~l~~q~~~~~~~ 125 (138)
.+.|..++..... .. .++..|.|+|||....-.+ ..+ ...+.++++++|+.+-+++..+.+.+
T Consensus 3 n~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i-~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 3 NESQREAIQSALSSNGITLIQGPPGTGKTTTLASII-AQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHH-HHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHH-HHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 4568888866666 55 7899999999996554333 333 33578999999999999999999888
No 270
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=97.18 E-value=0.0065 Score=43.17 Aligned_cols=52 Identities=12% Similarity=0.141 Sum_probs=37.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|..+++.+|+|+|||..+...+...+. ++.+++|+.--.. .++..+++..+
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~-~g~~~~y~~~e~~-~~~~~~~~~~~ 75 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALK-QGKKVYVITTENT-SKSYLKQMESV 75 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHh-CCCEEEEEEcCCC-HHHHHHHHHHC
Confidence 5678899999999999999888776554 5889999764322 24555555444
No 271
>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=97.17 E-value=0.0029 Score=46.02 Aligned_cols=61 Identities=21% Similarity=0.255 Sum_probs=39.8
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhC-C----CeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIK-Q----KSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~----~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
+.++++-..|.|||..++..+ ..+... . .++++++|. ++..+..+++.+++.+...++..+
T Consensus 26 ~g~lL~de~GlGKT~~~i~~~-~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~ 91 (299)
T PF00176_consen 26 RGGLLADEMGLGKTITAIALI-SYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIY 91 (299)
T ss_dssp -EEEE---TTSSHHHHHHHHH-HHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEE
T ss_pred CCEEEEECCCCCchhhhhhhh-hhhhhccccccccceeEeecc-chhhhhhhhhcccccccccccccc
Confidence 778899999999999985544 444432 1 259999999 888999999999986644455443
No 272
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.15 E-value=0.013 Score=37.39 Aligned_cols=26 Identities=27% Similarity=0.245 Sum_probs=17.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKE 28 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~ 28 (138)
+++.+++++|+|+|||.+....+...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~~ 28 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQL 28 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHHh
Confidence 45678999999999999887666653
No 273
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.14 E-value=0.031 Score=42.24 Aligned_cols=55 Identities=18% Similarity=0.173 Sum_probs=43.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+.++.+++|=||+|||..- +......++.|+++.+..|-...+.+.+.++...+.
T Consensus 115 ~k~~~lv~AV~GaGKTEMi-f~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 115 QKEDTLVWAVTGAGKTEMI-FQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred hcCcEEEEEecCCCchhhh-HHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc
Confidence 4568999999999999875 344444566799999999988888888888877644
No 274
>PRK09354 recA recombinase A; Provisional
Probab=97.10 E-value=0.018 Score=43.64 Aligned_cols=92 Identities=23% Similarity=0.180 Sum_probs=56.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhccceEEEee
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNCVLSIP 82 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~ii~~p 82 (138)
.|.-+.+.+|.|+|||..++..+..... .+++++|+..--++..+ .++.. +++. .++++.-|
T Consensus 59 ~G~IteI~G~~GsGKTtLal~~~~~~~~-~G~~~~yId~E~s~~~~---~a~~l----Gvdl----------d~lli~qp 120 (349)
T PRK09354 59 RGRIVEIYGPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHALDPV---YAKKL----GVDI----------DNLLVSQP 120 (349)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEECCccchHHH---HHHHc----CCCH----------HHeEEecC
Confidence 4567789999999999999888776543 58899998775554432 11111 2221 34445545
Q ss_pred cCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHH
Q psy2029 83 TSGGKTLVGEILIMKELKI-KQKSAIFILPYISLV 116 (138)
Q Consensus 83 tg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~ 116 (138)
. ++... +.++..+.. ...+.++|.+..+|.
T Consensus 121 ~-~~Eq~---l~i~~~li~s~~~~lIVIDSvaaL~ 151 (349)
T PRK09354 121 D-TGEQA---LEIADTLVRSGAVDLIVVDSVAALV 151 (349)
T ss_pred C-CHHHH---HHHHHHHhhcCCCCEEEEeChhhhc
Confidence 3 33333 333444443 456778887777775
No 275
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=97.08 E-value=0.025 Score=44.91 Aligned_cols=53 Identities=15% Similarity=0.208 Sum_probs=38.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|+.+++.+++|+|||..+...+...+.+.+.+++|+.- -+-.+++.+++..+
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~-ee~~~~i~~~~~~~ 82 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTF-EESPEDIIRNVASF 82 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEc-cCCHHHHHHHHHHc
Confidence 577889999999999999988877766554788888753 22234555555544
No 276
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.07 E-value=0.051 Score=37.83 Aligned_cols=49 Identities=24% Similarity=0.122 Sum_probs=26.9
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc--chhhhHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL--PYISLVHEKYQSLAK 55 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~--P~~aL~~q~~~~l~~ 55 (138)
-+++.+|||+|||....-.+.....+ +.++.+++ .++.=..++.+.+.+
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~ 53 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRIGAVEQLKTYAE 53 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCccHHHHHHHHHH
Confidence 36789999999996654444433333 66665554 344433444444433
No 277
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=97.07 E-value=0.0014 Score=47.34 Aligned_cols=52 Identities=10% Similarity=0.200 Sum_probs=38.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|+.+++.++.|+|||..+...+.+.+. .+.+++|+.- .+-..+..+++..+
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~-~ge~vlyvs~-~e~~~~l~~~~~~~ 73 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAR-EGEPVLYVST-EESPEELLENARSF 73 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHh-cCCcEEEEEe-cCCHHHHHHHHHHc
Confidence 5788999999999999999888887554 4888999764 33334455554443
No 278
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.06 E-value=0.0077 Score=50.44 Aligned_cols=74 Identities=12% Similarity=0.068 Sum_probs=58.9
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|....- +....-+..+.||.|||+++.+++.-..+. ++.+-+|++..-||..-++.+..++..+|+.|+.
T Consensus 86 ~ydVQliGgl-~Lh~G~IAEM~TGEGKTL~atlpaylnAL~-GkgVhVVTvNdYLA~RDae~m~~vy~~LGLtvg~ 159 (939)
T PRK12902 86 HFDVQLIGGM-VLHEGQIAEMKTGEGKTLVATLPSYLNALT-GKGVHVVTVNDYLARRDAEWMGQVHRFLGLSVGL 159 (939)
T ss_pred cchhHHHhhh-hhcCCceeeecCCCChhHHHHHHHHHHhhc-CCCeEEEeCCHHHHHhHHHHHHHHHHHhCCeEEE
Confidence 4445543332 223555789999999999999999876665 6778889999999999999999999999999874
No 279
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=97.05 E-value=0.024 Score=42.88 Aligned_cols=50 Identities=10% Similarity=-0.049 Sum_probs=34.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhhHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISLVHEKYQS 52 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL~~q~~~~ 52 (138)
.|+-..+++|.|+|||..+...+....+. .+++++|+..--.+..+...+
T Consensus 125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ 179 (344)
T PLN03187 125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP 179 (344)
T ss_pred CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH
Confidence 45667899999999999987766654432 236999987644444444433
No 280
>PRK05973 replicative DNA helicase; Provisional
Probab=97.05 E-value=0.0017 Score=46.55 Aligned_cols=53 Identities=19% Similarity=0.261 Sum_probs=37.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..|.-++|.+++|+|||..++..+.+... ++.+++|+.---. .+++.+++...
T Consensus 62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-~Ge~vlyfSlEes-~~~i~~R~~s~ 114 (237)
T PRK05973 62 KPGDLVLLGARPGHGKTLLGLELAVEAMK-SGRTGVFFTLEYT-EQDVRDRLRAL 114 (237)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEEEeCC-HHHHHHHHHHc
Confidence 35677899999999999999888777654 4778888753211 24556665554
No 281
>PRK06526 transposase; Provisional
Probab=97.05 E-value=0.0012 Score=47.88 Aligned_cols=44 Identities=20% Similarity=0.163 Sum_probs=30.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHE 48 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q 48 (138)
.+.|+++++|+|+|||..+...... +...+.+++|.. ...+.++
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~-a~~~g~~v~f~t-~~~l~~~ 140 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIR-ACQAGHRVLFAT-AAQWVAR 140 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHH-HHHCCCchhhhh-HHHHHHH
Confidence 4679999999999999888555443 445577776643 3334433
No 282
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=97.04 E-value=0.022 Score=42.60 Aligned_cols=50 Identities=10% Similarity=-0.017 Sum_probs=34.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhhHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISLVHEKYQS 52 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL~~q~~~~ 52 (138)
.|.-..+++|.|+|||..+...+....+. .+++++|+.---.+..+...+
T Consensus 95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~ 149 (313)
T TIGR02238 95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA 149 (313)
T ss_pred CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH
Confidence 45667899999999999987766654432 356999987544444444433
No 283
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.04 E-value=0.0032 Score=49.81 Aligned_cols=53 Identities=21% Similarity=0.194 Sum_probs=42.0
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcC
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 131 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~ 131 (138)
+...+.--||+|||+.-.--+ .. -.+++++++|.+.|+.|.+.+|+++|.+.-
T Consensus 33 ~~QtLLGvTGSGKTfT~AnVI-~~---~~rPtLV~AhNKTLAaQLy~Efk~fFP~Na 85 (663)
T COG0556 33 KHQTLLGVTGSGKTFTMANVI-AK---VQRPTLVLAHNKTLAAQLYSEFKEFFPENA 85 (663)
T ss_pred eeeEEeeeccCCchhHHHHHH-HH---hCCCeEEEecchhHHHHHHHHHHHhCcCcc
Confidence 566788899999997653322 22 357889999999999999999999987663
No 284
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=97.01 E-value=0.029 Score=41.80 Aligned_cols=40 Identities=15% Similarity=0.060 Sum_probs=29.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-----CCeEEEEcch
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-----QKSAIFILPY 42 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-----~~~~l~v~P~ 42 (138)
.|.-+.+++|+|+|||..+...+....... +.+++|+.--
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te 145 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTE 145 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCC
Confidence 456678999999999999988777654431 3588898643
No 285
>PRK12377 putative replication protein; Provisional
Probab=97.01 E-value=0.0024 Score=46.08 Aligned_cols=45 Identities=22% Similarity=0.221 Sum_probs=30.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
.++++++|+|+|||..+. ++...+.+.+.+++|+ +...|..++..
T Consensus 102 ~~l~l~G~~GtGKThLa~-AIa~~l~~~g~~v~~i-~~~~l~~~l~~ 146 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAA-AIGNRLLAKGRSVIVV-TVPDVMSRLHE 146 (248)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHcCCCeEEE-EHHHHHHHHHH
Confidence 578999999999998874 4444566656667664 44445444433
No 286
>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=97.00 E-value=0.0011 Score=46.59 Aligned_cols=41 Identities=20% Similarity=0.259 Sum_probs=28.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEcchhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYIS 44 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~P~~a 44 (138)
...+++.+|.|+|||+.+...++..+.+. -.+++++-|..+
T Consensus 19 ~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 19 NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp -SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 35679999999999999999999877662 247788777664
No 287
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.0006 Score=50.80 Aligned_cols=25 Identities=36% Similarity=0.501 Sum_probs=20.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
|.-+|+++.+|||||||+.|...+.
T Consensus 95 L~KSNILLiGPTGsGKTlLAqTLAk 119 (408)
T COG1219 95 LSKSNILLIGPTGSGKTLLAQTLAK 119 (408)
T ss_pred eeeccEEEECCCCCcHHHHHHHHHH
Confidence 3457999999999999999865544
No 288
>PRK08760 replicative DNA helicase; Provisional
Probab=96.98 E-value=0.082 Score=41.78 Aligned_cols=131 Identities=14% Similarity=0.041 Sum_probs=71.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH-------hhh----hhhhh--HHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE-------EFK----FYLEG--KCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~-------~~~----~~~Q~--~~~ 69 (138)
.|.=+++.|++|+|||..++-.+.....+.+.+++|+..--. ..|...++..... ..+ ..|.. .+.
T Consensus 228 ~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs-~~ql~~Rl~a~~s~i~~~~i~~g~l~~~e~~~~~~a~ 306 (476)
T PRK08760 228 PTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLISSNGRINAQRLRTGALEDEDWARVTGAI 306 (476)
T ss_pred CCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCC-HHHHHHHHHHhhCCCcHHHHhcCCCCHHHHHHHHHHH
Confidence 355668899999999999977776654444667777643111 1344444332210 000 01111 111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH------------HHHHHHHHHHHhhhcCceeee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL------------VHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..+.+.++.+. ...+-|.-.+...++++.. ++.+.++|.....+ +.+..+.++.+++.+++.|.-
T Consensus 307 ~~l~~~~l~I~--d~~~~t~~~I~~~~r~l~~~~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~ 384 (476)
T PRK08760 307 KMLKETKIFID--DTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIA 384 (476)
T ss_pred HHHhcCCEEEe--CCCCCCHHHHHHHHHHHHHhcCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEE
Confidence 22223343333 2344566555556666654 34566666543222 346778888898888887753
No 289
>PRK10867 signal recognition particle protein; Provisional
Probab=96.95 E-value=0.059 Score=42.06 Aligned_cols=44 Identities=23% Similarity=0.215 Sum_probs=28.8
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEc--chhhhHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFIL--PYISLVHEKY 50 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~--P~~aL~~q~~ 50 (138)
-+++++|+|+|||..+.-.+.. +..+ +.+++++. ++++-..+++
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~-l~~~~G~kV~lV~~D~~R~aa~eQL 148 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKY-LKKKKKKKVLLVAADVYRPAAIEQL 148 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHH-HHHhcCCcEEEEEccccchHHHHHH
Confidence 4689999999999877555553 4445 67777764 4554333333
No 290
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=96.90 E-value=0.053 Score=40.21 Aligned_cols=43 Identities=14% Similarity=0.003 Sum_probs=31.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL 45 (138)
.|.-+.+++|.|+|||..+...+....++ .+++++|+.---.+
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f 141 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTF 141 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCC
Confidence 45667899999999999998877765442 23589998744333
No 291
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.90 E-value=0.0014 Score=53.42 Aligned_cols=49 Identities=12% Similarity=-0.016 Sum_probs=40.3
Q ss_pred EEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 8 VLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
++.+.+|||||.+++-.+...+ ..|+.+|+++|..+|..|..+.|.+.+
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l-~~Gk~vLvLvPEi~lt~q~~~rl~~~f 212 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATL-RAGRGALVVVPDQRDVDRLEAALRALL 212 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHH-HcCCeEEEEecchhhHHHHHHHHHHHc
Confidence 3344469999999977777654 458899999999999999999998864
No 292
>PRK05748 replicative DNA helicase; Provisional
Probab=96.86 E-value=0.12 Score=40.52 Aligned_cols=131 Identities=14% Similarity=0.015 Sum_probs=69.7
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH-HH---h-----h--hhhhh--hHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA-AE---E-----F--KFYLE--GKCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~-~~---~-----~--~~~~Q--~~~~ 69 (138)
.|.-+++.|++|+|||..+.-.+.....+.+.+++|+..- .=..|+..++... +. . . ...|+ ..+.
T Consensus 202 ~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlE-ms~~~l~~R~l~~~~~v~~~~i~~~~l~~~e~~~~~~a~ 280 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLE-MGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAM 280 (448)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCC-CCHHHHHHHHHHHhcCCCHHHhhcCCCCHHHHHHHHHHH
Confidence 4567799999999999999777766444456777776421 1113444443211 10 0 0 01111 1111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-C-CCeEEEEccchhH-------------HHHHHHHHHHHhhhcCcee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-K-QKSAIFILPYISL-------------VHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~-~~~~~~i~P~~~l-------------~~q~~~~~~~~~~~~~~~v 134 (138)
....+.++.+.- ..+-|..-+...++++.. . +.+.++|.....+ +.+..+.++.+++.+++.|
T Consensus 281 ~~l~~~~~~i~d--~~~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li~~~~~~~~~r~~~i~~i~~~LK~lAke~~i~v 358 (448)
T PRK05748 281 GSLSDAPIYIDD--TPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQGSGRSGENRQQEVSEISRSLKALAKELKVPV 358 (448)
T ss_pred HHHhcCCEEEEC--CCCCCHHHHHHHHHHHHHhcCCCCEEEEccchhcCCCCCCCcCHHHHHHHHHHHHHHHHHHhCCeE
Confidence 222234444432 334555555555555544 3 4566666654433 2345667888888888876
Q ss_pred ee
Q psy2029 135 EV 136 (138)
Q Consensus 135 ~~ 136 (138)
.-
T Consensus 359 i~ 360 (448)
T PRK05748 359 IA 360 (448)
T ss_pred EE
Confidence 53
No 293
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.85 E-value=0.0036 Score=52.84 Aligned_cols=50 Identities=18% Similarity=0.155 Sum_probs=40.3
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLA 124 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~ 124 (138)
.|+.+.++||+|||.+++-.+++.... +-.+.++++|+.|..+.+...++
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhh
Confidence 678899999999999997777654444 34789999999999988776655
No 294
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.84 E-value=0.046 Score=42.82 Aligned_cols=39 Identities=8% Similarity=0.030 Sum_probs=30.2
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
..|.-+++.+|+|+|||..+...+.... .++.+++|+.-
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~~g~~vlYvs~ 116 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLA-AAGGKVLYVSG 116 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEEc
Confidence 3467789999999999998877666533 45779999864
No 295
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=96.83 E-value=0.036 Score=43.52 Aligned_cols=40 Identities=13% Similarity=0.070 Sum_probs=30.7
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcch
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPY 42 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~ 42 (138)
..|.-+++.+++|+|||..+...+.. +..++.+++|+..-
T Consensus 92 ~~GsvilI~G~pGsGKTTL~lq~a~~-~a~~g~kvlYvs~E 131 (454)
T TIGR00416 92 VPGSLILIGGDPGIGKSTLLLQVACQ-LAKNQMKVLYVSGE 131 (454)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHH-HHhcCCcEEEEECc
Confidence 35677899999999999998776655 34456789998753
No 296
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.82 E-value=0.0034 Score=51.61 Aligned_cols=67 Identities=18% Similarity=0.133 Sum_probs=51.6
Q ss_pred hhhhhhHHHhhh----hc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 61 KFYLEGKCLEMI----QN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 61 ~~~~Q~~~~~~~----~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+.+-|..+...+ .. ...++..-||+|||-+++- ++......++.+++++|..+|-.|..+.|+..|.
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~-~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLE-AIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHH-HHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC
Confidence 344455555332 22 6678999999999999954 4455566689999999999999999999999975
No 297
>PRK10536 hypothetical protein; Provisional
Probab=96.82 E-value=0.0023 Score=46.36 Aligned_cols=42 Identities=17% Similarity=0.151 Sum_probs=30.7
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcC-CeEEEEcchhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYIS 44 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-~~~l~v~P~~a 44 (138)
++..+++.+|+|+|||+.+...+...+.+.. .++++.-|..+
T Consensus 73 ~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 73 SKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 4567899999999999999888887665533 34555556544
No 298
>PRK09183 transposase/IS protein; Provisional
Probab=96.80 E-value=0.0047 Score=44.83 Aligned_cols=38 Identities=26% Similarity=0.161 Sum_probs=27.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
-.|.++++.+|+|+|||..+...... +...+.+++|+.
T Consensus 100 ~~~~~v~l~Gp~GtGKThLa~al~~~-a~~~G~~v~~~~ 137 (259)
T PRK09183 100 ERNENIVLLGPSGVGKTHLAIALGYE-AVRAGIKVRFTT 137 (259)
T ss_pred hcCCeEEEEeCCCCCHHHHHHHHHHH-HHHcCCeEEEEe
Confidence 35789999999999999887655443 334566777753
No 299
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.80 E-value=0.043 Score=42.71 Aligned_cols=38 Identities=26% Similarity=0.145 Sum_probs=25.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHH-hhcCCeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKEL-KIKQKSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~-~~~~~~~l~v~ 40 (138)
.|+.+.+.+|||+|||..+...+.... ...+.++.++.
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~ 258 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT 258 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence 356789999999999977655444332 33456776654
No 300
>PHA02542 41 41 helicase; Provisional
Probab=96.78 E-value=0.081 Score=41.79 Aligned_cols=130 Identities=15% Similarity=0.040 Sum_probs=66.6
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHH----HHhhhh-----hhh--hHHHhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKA----AEEFKF-----YLE--GKCLEM 71 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~----~~~~~~-----~~Q--~~~~~~ 71 (138)
|.-+++.|++|+|||.++.-.+.... ..+.+++|+.- ++. +|...++... ..+... .|. ......
T Consensus 190 G~LiiIaarPgmGKTtfalniA~~~a-~~g~~Vl~fSL--EM~~~ql~~Rl~a~~~~i~~~~l~~l~~~~~~~~~~~~~~ 266 (473)
T PHA02542 190 KTLNVLLAGVNVGKSLGLCSLAADYL-QQGYNVLYISM--EMAEEVIAKRIDANLLDVSLDDIDDLSKAEYKAKMEKLRS 266 (473)
T ss_pred CcEEEEEcCCCccHHHHHHHHHHHHH-hcCCcEEEEec--cCCHHHHHHHHHHHHcCCCHHHHhhcCHHHHHHHHHHHHH
Confidence 45568899999999999977776544 45677777641 111 2333333211 111110 011 111122
Q ss_pred hhccceEEEeecCCCchHhHHHHHHHHHHh-CC--CeEEEEccchhH---------------HHHHHHHHHHHhhhcCce
Q psy2029 72 IQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQ--KSAIFILPYISL---------------VHEKYQSLAKAAEEFKFY 133 (138)
Q Consensus 72 ~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~--~~~~~i~P~~~l---------------~~q~~~~~~~~~~~~~~~ 133 (138)
....++.+.....++-|..-+...++++.. ++ ...|+|....-+ +.+..+.++.+++.+++.
T Consensus 267 ~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~~g~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel~vp 346 (473)
T PHA02542 267 KTQGKLIIKQYPTGGAHAGHFRALLNELKLKKNFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEHDVV 346 (473)
T ss_pred HhCCCceeecCCCCCCCHHHHHHHHHHHHHhcCCCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHhCCe
Confidence 222344333323344555444555555553 22 345554433222 234668888888888887
Q ss_pred eee
Q psy2029 134 LEV 136 (138)
Q Consensus 134 v~~ 136 (138)
|.-
T Consensus 347 Vi~ 349 (473)
T PHA02542 347 VWT 349 (473)
T ss_pred EEE
Confidence 753
No 301
>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=96.72 E-value=0.0056 Score=49.90 Aligned_cols=50 Identities=22% Similarity=0.147 Sum_probs=38.6
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
...+|.+|.|+|||....-.+. ++...+.+++++.|+..-+++..+.+.+
T Consensus 174 ~~~lI~GpPGTGKT~t~~~ii~-~~~~~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 174 DLFLIHGPPGTGKTRTLVELIR-QLVKRGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH-HHHHcCCCEEEEcCcHHHHHHHHHHHHh
Confidence 5789999999999977644333 3555678999999998777777777765
No 302
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=96.72 E-value=0.062 Score=41.63 Aligned_cols=130 Identities=15% Similarity=0.088 Sum_probs=68.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH----h-----hh--hhhhh--HHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE----E-----FK--FYLEG--KCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~----~-----~~--~~~Q~--~~~ 69 (138)
.|.-+++.|++|+|||..+.-.+.....+.+.+++|+..-- =..+...++..... . .. ..++. ...
T Consensus 193 ~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~~~~~v~~~~~~~~~l~~~~~~~~~~~~ 271 (421)
T TIGR03600 193 KGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLASKSGINTGNIRTGRFNDSDFNRLLNAV 271 (421)
T ss_pred CCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHH
Confidence 46667999999999999987777664445577787765210 01233333222110 0 00 01111 111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-C-CCeEEEEccchhH-----------HHHHHHHHHHHhhhcCceee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-K-QKSAIFILPYISL-----------VHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~-~~~~~~i~P~~~l-----------~~q~~~~~~~~~~~~~~~v~ 135 (138)
..+.+.++.+.- .++-|.--+...++++.. . +.+.++|.....+ +.+..+.++.++..+++.|.
T Consensus 272 ~~l~~~~l~i~d--~~~~t~~~i~~~~r~~~~~~~~~~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAke~~i~Vi 348 (421)
T TIGR03600 272 DRLSEKDLYIDD--TGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAKELDVPVV 348 (421)
T ss_pred HHHhcCCEEEEC--CCCCCHHHHHHHHHHHHHhcCCCCEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Confidence 222234443332 234455555555555543 2 4566666654332 22466778888888887764
No 303
>PF12846 AAA_10: AAA-like domain
Probab=96.71 E-value=0.0039 Score=45.30 Aligned_cols=40 Identities=15% Similarity=0.160 Sum_probs=30.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhh
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISL 45 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL 45 (138)
.++++.++||+|||.... .++..+...+..++++-|..+.
T Consensus 2 ~h~~i~G~tGsGKT~~~~-~l~~~~~~~g~~~~i~D~~g~~ 41 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLK-NLLEQLIRRGPRVVIFDPKGDY 41 (304)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHHcCCCEEEEcCCchH
Confidence 588999999999998876 5555566667788887765443
No 304
>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=96.71 E-value=0.0053 Score=43.08 Aligned_cols=52 Identities=17% Similarity=0.223 Sum_probs=37.6
Q ss_pred hhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC-CeEEEEccchh
Q psy2029 63 YLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYIS 114 (138)
Q Consensus 63 ~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~-~~~~~i~P~~~ 114 (138)
.-|..++..+.+ ..+++..|.|+|||+.|...+++.+.+.. .+.+|+-|..+
T Consensus 7 ~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 7 EEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp HHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred HHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 446666666667 77789999999999999999998887643 68888888764
No 305
>KOG1802|consensus
Probab=96.68 E-value=0.0064 Score=49.38 Aligned_cols=74 Identities=9% Similarity=0.095 Sum_probs=59.0
Q ss_pred hhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 59 EFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 59 ~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..+...|..+...+.. .=.++.-|.|+|||+.+.-.+.+-+..+..++++.+|..--+.|.++.+.+- |++|.+
T Consensus 409 pkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~t----gLKVvR 483 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKT----GLKVVR 483 (935)
T ss_pred hhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhc----CceEee
Confidence 3466788888877776 6668999999999999988777766667789999999988888877777665 666654
No 306
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.67 E-value=0.0031 Score=39.89 Aligned_cols=40 Identities=20% Similarity=0.159 Sum_probs=27.7
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS 44 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a 44 (138)
+.++++.+|+|+|||..+...+.. +......++++.+...
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~-~~~~~~~~~~~~~~~~ 41 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARE-LGPPGGGVIYIDGEDI 41 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhc-cCCCCCCEEEECCEEc
Confidence 568999999999999998655544 2222235777776543
No 307
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=96.66 E-value=0.13 Score=39.44 Aligned_cols=38 Identities=8% Similarity=0.073 Sum_probs=29.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
.|+-+++.+|.|+|||..+...+.. +...+.+++|+.-
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~-~a~~g~~VlYvs~ 118 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAAR-LAKRGGKVLYVSG 118 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHH-HHhcCCeEEEEEC
Confidence 4677899999999999988766654 3345679999864
No 308
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=96.64 E-value=0.16 Score=39.65 Aligned_cols=45 Identities=18% Similarity=0.101 Sum_probs=28.6
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc--chhhhHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL--PYISLVHEKY 50 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~--P~~aL~~q~~ 50 (138)
.+++++|+|+|||..+.-.+.......+.+++++. ++++-..+++
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL 147 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQL 147 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHH
Confidence 46899999999998876655542223566777764 3444333333
No 309
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=96.62 E-value=0.028 Score=47.13 Aligned_cols=74 Identities=12% Similarity=0.077 Sum_probs=56.7
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
++++|...+-.+ ...-+..+.||.|||+++.+++.-.++. ++.+-++...--||.--++....++..+|+.|+.
T Consensus 79 ~ydVQliGglvL-h~G~IAEMkTGEGKTLvAtLpayLnAL~-GkgVhVVTvNdYLA~RDae~mg~vy~fLGLsvG~ 152 (925)
T PRK12903 79 PYDVQIIGGIIL-DLGSVAEMKTGEGKTITSIAPVYLNALT-GKGVIVSTVNEYLAERDAEEMGKVFNFLGLSVGI 152 (925)
T ss_pred cCchHHHHHHHH-hcCCeeeecCCCCccHHHHHHHHHHHhc-CCceEEEecchhhhhhhHHHHHHHHHHhCCceee
Confidence 455665444333 3344689999999999999998765554 6666777888889999999999999999998764
No 310
>PRK08727 hypothetical protein; Validated
Probab=96.59 E-value=0.0092 Score=42.57 Aligned_cols=39 Identities=21% Similarity=0.169 Sum_probs=27.0
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
.+++++|+|+|||..+...... +.+.+.++.|+. ...+.
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~-~~~~~~~~~y~~-~~~~~ 81 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAA-AEQAGRSSAYLP-LQAAA 81 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHH-HHHcCCcEEEEe-HHHhh
Confidence 4899999999999877544443 455677888854 43433
No 311
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.57 E-value=0.12 Score=40.23 Aligned_cols=48 Identities=25% Similarity=0.139 Sum_probs=31.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc--chhhhHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL--PYISLVHEKYQS 52 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~--P~~aL~~q~~~~ 52 (138)
.-+++++|+|+|||..+.-.+.......+.++.++. +++....++.+.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~ 273 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKR 273 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHH
Confidence 447899999999998886666543344566776654 445544443333
No 312
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.54 E-value=0.11 Score=33.94 Aligned_cols=37 Identities=19% Similarity=0.170 Sum_probs=27.1
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS 44 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a 44 (138)
+++++|+|+|||..+...+... ...+.+++|+.....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~-~~~~~~v~~~~~e~~ 38 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNI-ATKGGKVVYVDIEEE 38 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHH-HhcCCEEEEEECCcc
Confidence 5789999999999886665543 335778888765433
No 313
>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=96.54 E-value=0.0071 Score=45.71 Aligned_cols=50 Identities=20% Similarity=0.211 Sum_probs=39.2
Q ss_pred cEEEEccCCcchHHHHHHHHHHHH--hhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKEL--KIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~--~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
-++|.+..|||||+++...+.. + .+.+.+++++++..+|.+...+.+...
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~-l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKE-LQNSEEGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHH-hhccccCCceEEEEecchHHHHHHHHHhhh
Confidence 4689999999999999666655 4 446778999999999887777666554
No 314
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=96.51 E-value=0.098 Score=37.28 Aligned_cols=36 Identities=14% Similarity=0.180 Sum_probs=26.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHh-----------hcCCeEEEEc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELK-----------IKQKSAIFIL 40 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~-----------~~~~~~l~v~ 40 (138)
.-.++.+|.|+|||..++..++.... .++++++|+.
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~ 48 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS 48 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE
Confidence 34589999999999998776664221 1356889986
No 315
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.51 E-value=0.044 Score=43.84 Aligned_cols=37 Identities=19% Similarity=0.155 Sum_probs=24.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEE
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFI 39 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v 39 (138)
+|+.+.+.+|||+|||..+...+....... +.++.++
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLI 386 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALV 386 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEE
Confidence 567889999999999977644444322222 3456554
No 316
>PTZ00035 Rad51 protein; Provisional
Probab=96.47 E-value=0.13 Score=38.90 Aligned_cols=39 Identities=15% Similarity=0.014 Sum_probs=27.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILP 41 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P 41 (138)
.|+-+.+++|.|+|||..+...+....+. .+++++|+.-
T Consensus 117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdt 160 (337)
T PTZ00035 117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDT 160 (337)
T ss_pred CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEc
Confidence 45667899999999998886665543321 3568888764
No 317
>PRK07773 replicative DNA helicase; Validated
Probab=96.46 E-value=0.22 Score=42.41 Aligned_cols=131 Identities=12% Similarity=0.013 Sum_probs=68.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh----h-------hhhhhh--HHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE----F-------KFYLEG--KCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~----~-------~~~~Q~--~~~ 69 (138)
.|.-+++.|++|+|||..+.-.+.....+.+.+++|+.-- -=..|+..++...... . ...|+. .+.
T Consensus 216 ~G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlE-ms~~ql~~R~~s~~~~i~~~~i~~g~l~~~~~~~~~~a~ 294 (886)
T PRK07773 216 PGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLE-MSKEQLVMRLLSAEAKIKLSDMRSGRMSDDDWTRLARAM 294 (886)
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecC-CCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHH
Confidence 4555789999999999999777776555556677765421 0013444443332110 0 011111 111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH------------HHHHHHHHHHHhhhcCceeee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL------------VHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..+.+.++.+. ...+-++.-+...++++.. .+.+.++|.....+ +.+..+.++.+++++++.|.-
T Consensus 295 ~~l~~~~i~i~--d~~~~~i~~i~~~~r~~~~~~~~~lvvIDyLql~~~~~~~~~r~~ei~~isr~LK~lAkel~vpvi~ 372 (886)
T PRK07773 295 GEISEAPIFID--DTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTSGKKYENRQQEVSEISRHLKLLAKELEVPVVA 372 (886)
T ss_pred HHHhcCCEEEE--CCCCCCHHHHHHHHHHHHHhcCCCEEEEcchhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHCCcEEE
Confidence 22222343332 2333444444444444443 34566666553322 345677888888888887653
No 318
>PRK08506 replicative DNA helicase; Provisional
Probab=96.46 E-value=0.18 Score=39.87 Aligned_cols=129 Identities=15% Similarity=0.098 Sum_probs=70.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH----hh-------hhhhh--hHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE----EF-------KFYLE--GKCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~----~~-------~~~~Q--~~~~ 69 (138)
.|.-+++.|++|+|||..+.-.+... ...+.+++|+..--. ..|...++..... .. ...|+ .++.
T Consensus 191 ~G~LivIaarpg~GKT~fal~ia~~~-~~~g~~V~~fSlEMs-~~ql~~Rlla~~s~v~~~~i~~~~l~~~e~~~~~~a~ 268 (472)
T PRK08506 191 KGDLIIIAARPSMGKTTLCLNMALKA-LNQDKGVAFFSLEMP-AEQLMLRMLSAKTSIPLQNLRTGDLDDDEWERLSDAC 268 (472)
T ss_pred CCceEEEEcCCCCChHHHHHHHHHHH-HhcCCcEEEEeCcCC-HHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHH
Confidence 45667899999999999997777664 345667777643111 1344444322211 00 00111 1111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEccchhH------------HHHHHHHHHHHhhhcCceee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISL------------VHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v~ 135 (138)
..+.+.++.+ ...++-|..-+...++++... +.+.++|.....+ +.+..+.++.+++.+++.|.
T Consensus 269 ~~l~~~~l~I--~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~~~~~~~~~r~~ev~~isr~LK~lAkel~ipVi 346 (472)
T PRK08506 269 DELSKKKLFV--YDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMSGSGNFKDRHLQISEISRGLKLLARELDIPII 346 (472)
T ss_pred HHHHcCCeEE--ECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcChhhccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Confidence 2233344433 233456766666666666542 3456665543322 23556678888888888765
No 319
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.46 E-value=0.11 Score=43.36 Aligned_cols=37 Identities=19% Similarity=0.117 Sum_probs=23.3
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcC-CeEEEEc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFIL 40 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-~~~l~v~ 40 (138)
|+-+.+.+|||+|||......+.......+ +++.++.
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit 222 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLT 222 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEec
Confidence 456789999999998665444433223344 3665544
No 320
>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=96.46 E-value=0.018 Score=47.05 Aligned_cols=65 Identities=17% Similarity=0.110 Sum_probs=49.4
Q ss_pred hhhhhhHHHhhhhc--cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 61 KFYLEGKCLEMIQN--KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+.+.|..++..... ...++.-|.|+|||....-.+ ..+...+.++++++|+..-+.+..+.+.+.
T Consensus 158 ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii-~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~ 224 (637)
T TIGR00376 158 LNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELI-RQLVKRGLRVLVTAPSNIAVDNLLERLALC 224 (637)
T ss_pred CCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHH-HHHHHcCCCEEEEcCcHHHHHHHHHHHHhC
Confidence 46678888755544 667899999999997774444 344455779999999999998888888764
No 321
>PRK05636 replicative DNA helicase; Provisional
Probab=96.44 E-value=0.28 Score=39.09 Aligned_cols=129 Identities=16% Similarity=0.058 Sum_probs=66.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHHH----Hhh-------hhhhhhH--HH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKAA----EEF-------KFYLEGK--CL 69 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~~----~~~-------~~~~Q~~--~~ 69 (138)
|.=+++.|++|+|||..++-.+.....+.+.+++|+.. ++. .|...++.... ... ...|+.. +.
T Consensus 265 G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSl--EMs~~ql~~R~ls~~s~v~~~~i~~g~l~~~e~~~~~~a~ 342 (505)
T PRK05636 265 GQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSL--EMSKSEIVMRLLSAEAEVRLSDMRGGKMDEDAWEKLVQRL 342 (505)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEe--eCCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHH
Confidence 44558899999999998876666544445667766532 111 23333321110 000 0111110 11
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH------------HHHHHHHHHHHhhhcCceeee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL------------VHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..+.+.++.+ ....+-|+.-+....+++.. ++.+.++|.....+ +.+..+.++.+++.+++.|..
T Consensus 343 ~~l~~~~l~I--~d~~~~ti~~I~~~~r~~~~~~~~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~ 420 (505)
T PRK05636 343 GKIAQAPIFI--DDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKELDVPLIA 420 (505)
T ss_pred HHHhcCCEEE--ECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEE
Confidence 1122233333 23334455555555555543 34566666553322 234667788888888887754
No 322
>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=96.42 E-value=0.008 Score=40.90 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=33.5
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
.++.+|+|||||..++..+.. .+.+++|+....++..+..+.+..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 578999999999999876554 467899988776765555555444
No 323
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.40 E-value=0.015 Score=41.95 Aligned_cols=40 Identities=23% Similarity=0.344 Sum_probs=28.0
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
.++++++|+|+|||..+. ++..++...+.+++|+ +...|.
T Consensus 100 ~~~~l~G~~GtGKThLa~-aia~~l~~~g~~v~~i-t~~~l~ 139 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAA-AICNELLLRGKSVLII-TVADIM 139 (244)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHhcCCeEEEE-EHHHHH
Confidence 468999999999998874 4444566667777775 443443
No 324
>COG4889 Predicted helicase [General function prediction only]
Probab=96.39 E-value=0.0084 Score=50.30 Aligned_cols=64 Identities=17% Similarity=0.284 Sum_probs=47.7
Q ss_pred hhhhhhhHHHhh----hhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 60 FKFYLEGKCLEM----IQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 60 ~~~~~Q~~~~~~----~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
.+.++|.+++.. ..+ .+.-+.+.-|+|||+.+ +-+.+++- ..+++|++|..+|..|..+++..-
T Consensus 161 k~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTs-LkisEala--~~~iL~LvPSIsLLsQTlrew~~~ 229 (1518)
T COG4889 161 KPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTS-LKISEALA--AARILFLVPSISLLSQTLREWTAQ 229 (1518)
T ss_pred CCChhHHHHHHHHHhhcccccCCcEEEecCCCccchH-HHHHHHHh--hhheEeecchHHHHHHHHHHHhhc
Confidence 467889988843 333 44556677899999998 44555554 378999999999999998877654
No 325
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.38 E-value=0.15 Score=39.41 Aligned_cols=108 Identities=19% Similarity=0.178 Sum_probs=52.6
Q ss_pred CCccEEEEccCCcchHH-HHHHHHHHHHhhcCCeEEE-Ecc-hhhhHHHHHHHHHHHHHhhhhhhh--------hHHHhh
Q psy2029 3 QNKNCVLSIPTSGGKTL-VGEILIMKELKIKQKSAIF-ILP-YISLVHEKYQSLAKAAEEFKFYLE--------GKCLEM 71 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~-~~~~~~~~~~~~~~~~~l~-v~P-~~aL~~q~~~~l~~~~~~~~~~~Q--------~~~~~~ 71 (138)
+++.+.+.+|||.|||. .|-+++.........++-+ .+- +|- --.++++.++.-.+.|+- .+++..
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRI---GA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~ 278 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRI---GAVEQLKTYADIMGVPLEVVYSPKELAEAIEA 278 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchh---hHHHHHHHHHHHhCCceEEecCHHHHHHHHHH
Confidence 46788999999999994 4445555443343444433 332 332 222334444433333321 112233
Q ss_pred hhccceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccch
Q psy2029 72 IQNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYI 113 (138)
Q Consensus 72 ~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~ 113 (138)
..+.++++.=..|-+=--...+.-+.++.. +.-....+++..
T Consensus 279 l~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat 322 (407)
T COG1419 279 LRDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSAT 322 (407)
T ss_pred hhcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecC
Confidence 444555555555544333333444555544 233445555543
No 326
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=96.38 E-value=0.0075 Score=50.34 Aligned_cols=54 Identities=15% Similarity=0.100 Sum_probs=43.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
.-+..+.||.|||+++.+++.-+.+ .|..+.++++..-|+..-.+.+.+.....
T Consensus 91 G~IaEm~TGEGKTL~a~l~ayl~aL-~G~~VhVvT~NdyLA~RD~e~m~pvy~~L 144 (870)
T CHL00122 91 GKIAEMKTGEGKTLVATLPAYLNAL-TGKGVHIVTVNDYLAKRDQEWMGQIYRFL 144 (870)
T ss_pred CccccccCCCCchHHHHHHHHHHHh-cCCceEEEeCCHHHHHHHHHHHHHHHHHc
Confidence 4678999999999999998865444 48888999999999988777777764433
No 327
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.37 E-value=0.012 Score=43.27 Aligned_cols=38 Identities=26% Similarity=0.127 Sum_probs=24.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcC-CeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-~~~l~v~ 40 (138)
++..+.+++|||+|||..+.-.+.......+ .++.++.
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~ 231 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence 3567889999999999777555444322223 5666653
No 328
>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=96.37 E-value=0.19 Score=36.29 Aligned_cols=131 Identities=15% Similarity=0.044 Sum_probs=69.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh-------hh--h--hhhh--HHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE-------FK--F--YLEG--KCL 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~-------~~--~--~~Q~--~~~ 69 (138)
.|.=+++.|++|+|||..+.-.+...+.+.+..++|+..--. .++...++...... .+ . .++. ...
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~-~~~l~~R~la~~s~v~~~~i~~g~l~~~e~~~~~~~~ 96 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS-EEELAARLLARLSGVPYNKIRSGDLSDEEFERLQAAA 96 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHHHHHTSTHHHHHCCGCHHHHHHHHHHHH
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC-HHHHHHHHHHHhhcchhhhhhccccCHHHHHHHHHHH
Confidence 345568999999999999988888766654678888764111 12333332222110 00 0 1111 111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHhC--CCeEEEEcc------------chhHHHHHHHHHHHHhhhcCceee
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILP------------YISLVHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~--~~~~~~i~P------------~~~l~~q~~~~~~~~~~~~~~~v~ 135 (138)
..+.+..+. ..+++ +-+.-.+...++.+... +.++++|.. ...-+.+.++.+++++..+++.|.
T Consensus 97 ~~l~~~~l~-i~~~~-~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi 174 (259)
T PF03796_consen 97 EKLSDLPLY-IEDTP-SLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSEDSSDNRRQEIGEISRELKALAKELNIPVI 174 (259)
T ss_dssp HHHHTSEEE-EEESS-S-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSCSSSCCHHHHHHHHHHHHHHHHHHTSEEE
T ss_pred HHHhhCcEE-EECCC-CCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHcCCeEE
Confidence 223333333 33333 23555555555555442 345555543 233455677889999988888765
Q ss_pred e
Q psy2029 136 V 136 (138)
Q Consensus 136 ~ 136 (138)
.
T Consensus 175 ~ 175 (259)
T PF03796_consen 175 A 175 (259)
T ss_dssp E
T ss_pred E
Confidence 3
No 329
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=96.36 E-value=0.013 Score=43.88 Aligned_cols=43 Identities=26% Similarity=0.186 Sum_probs=33.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
.|.-+.+.+|.|+|||..++..+..... .+++++|+..-.++.
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~-~g~~v~yId~E~~~~ 96 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHALD 96 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEEcccchhH
Confidence 4567789999999999999887776544 588999986654443
No 330
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.36 E-value=0.013 Score=43.67 Aligned_cols=36 Identities=25% Similarity=0.157 Sum_probs=26.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEE
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFI 39 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v 39 (138)
+++++++.+|+|+|||..+. ++...+.+.+.++.|+
T Consensus 155 ~~~gl~L~G~~G~GKThLa~-Aia~~l~~~g~~v~~~ 190 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLA-AIANELAKKGVSSTLL 190 (306)
T ss_pred CCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCEEEE
Confidence 35689999999999998875 4444466667777665
No 331
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=96.36 E-value=0.0038 Score=47.19 Aligned_cols=42 Identities=26% Similarity=0.288 Sum_probs=27.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
.+.|+++++|||||||...-. ++.. +....+++.+-...+|.
T Consensus 161 ~~~nilI~G~tGSGKTTll~a-Ll~~-i~~~~rivtiEd~~El~ 202 (344)
T PRK13851 161 GRLTMLLCGPTGSGKTTMSKT-LISA-IPPQERLITIEDTLELV 202 (344)
T ss_pred cCCeEEEECCCCccHHHHHHH-HHcc-cCCCCCEEEECCCcccc
Confidence 468999999999999987533 3332 33455666665555543
No 332
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.35 E-value=0.018 Score=40.02 Aligned_cols=45 Identities=24% Similarity=0.204 Sum_probs=31.0
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
-.++.+|.|+|||.+. ..+.+.+...+.+++++.|+..-..+..+
T Consensus 20 ~~~l~G~aGtGKT~~l-~~~~~~~~~~g~~v~~~apT~~Aa~~L~~ 64 (196)
T PF13604_consen 20 VSVLQGPAGTGKTTLL-KALAEALEAAGKRVIGLAPTNKAAKELRE 64 (196)
T ss_dssp EEEEEESTTSTHHHHH-HHHHHHHHHTT--EEEEESSHHHHHHHHH
T ss_pred EEEEEECCCCCHHHHH-HHHHHHHHhCCCeEEEECCcHHHHHHHHH
Confidence 4678899999999864 33555555567899999999765554333
No 333
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=96.35 E-value=0.14 Score=38.79 Aligned_cols=51 Identities=12% Similarity=0.014 Sum_probs=33.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhhHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISLVHEKYQSL 53 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL~~q~~~~l 53 (138)
.|.-+.++++.|+|||..+...+....+. .+++++|+.---.+..+...++
T Consensus 122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qi 177 (342)
T PLN03186 122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQI 177 (342)
T ss_pred CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHH
Confidence 35567899999999999886655443322 2358999875544444444433
No 334
>PRK05595 replicative DNA helicase; Provisional
Probab=96.33 E-value=0.19 Score=39.29 Aligned_cols=130 Identities=15% Similarity=0.037 Sum_probs=67.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHHHH----hh-------hhhhhhHH--
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKAAE----EF-------KFYLEGKC-- 68 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~~~----~~-------~~~~Q~~~-- 68 (138)
.|.-+++.|++|+|||..+.-.+.....+.+.+++|+.. ++. .|...++..... .. ...|+...
T Consensus 200 ~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSl--Ems~~~l~~R~~a~~~~v~~~~~~~~~l~~~e~~~~~~~ 277 (444)
T PRK05595 200 KGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSL--EMSKEQLAYKLLCSEANVDMLRLRTGNLEDKDWENIARA 277 (444)
T ss_pred CCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEec--CCCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHH
Confidence 455668899999999999877666534445778877643 111 233333222211 00 00111100
Q ss_pred HhhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchh------------HHHHHHHHHHHHhhhcCceee
Q psy2029 69 LEMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYIS------------LVHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 69 ~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~------------l~~q~~~~~~~~~~~~~~~v~ 135 (138)
...+.+.++.+. ...+-|..-....++++.. ++.+.++|..... -+.+..+.++.+++.+++.|.
T Consensus 278 ~~~l~~~~l~i~--d~~~~t~~~i~~~~r~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi 355 (444)
T PRK05595 278 SGPLAAAKIFID--DTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVI 355 (444)
T ss_pred HHHHhcCCEEEE--CCCCCCHHHHHHHHHHHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEE
Confidence 011222344333 3344555555555555543 3455555543221 134566778888888888765
Q ss_pred e
Q psy2029 136 V 136 (138)
Q Consensus 136 ~ 136 (138)
-
T Consensus 356 ~ 356 (444)
T PRK05595 356 A 356 (444)
T ss_pred E
Confidence 3
No 335
>PRK07004 replicative DNA helicase; Provisional
Probab=96.33 E-value=0.28 Score=38.68 Aligned_cols=130 Identities=11% Similarity=-0.002 Sum_probs=66.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHH-H---Hh---h----hhhhhh--HH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKA-A---EE---F----KFYLEG--KC 68 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~-~---~~---~----~~~~Q~--~~ 68 (138)
.|.=+++.|.+|+|||..+.-.+.....+.+..++++.. ++. .|...++-.. + .+ . ...|+. .+
T Consensus 212 ~g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSl--EM~~~ql~~R~la~~~~v~~~~i~~g~l~~~e~~~~~~a 289 (460)
T PRK07004 212 GGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSM--EMPGTQLAMRMLGSVGRLDQHRMRTGRLTDEDWPKLTHA 289 (460)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeC--CCCHHHHHHHHHHhhcCCCHHHHhcCCCCHHHHHHHHHH
Confidence 466678999999999999877666544455667766532 111 2333333211 0 00 0 111111 11
Q ss_pred HhhhhccceEEEeecCCCchHhHHHHHHHHHHhC-C-CeEEEEccchhH------------HHHHHHHHHHHhhhcCcee
Q psy2029 69 LEMIQNKNCVLSIPTSGGKTLVGEILIMKELKIK-Q-KSAIFILPYISL------------VHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 69 ~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~-~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~v 134 (138)
...+.+.++.+. ..++-+..-+....+++... + ...++|.....+ +.++.+.++.+++.+++.|
T Consensus 290 ~~~l~~~~l~I~--d~~~~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipV 367 (460)
T PRK07004 290 VQKMSEAQLFID--ETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSSQGENRATEISEISRSLKSLAKELDVPV 367 (460)
T ss_pred HHHHhcCCEEEE--CCCCCCHHHHHHHHHHHHHhCCCCCEEEEChhhhccCCCCCCcHHHHHHHHHHHHHHHHHHhCCeE
Confidence 122223333332 22234444444555555432 2 455555432211 3467788888888888877
Q ss_pred ee
Q psy2029 135 EV 136 (138)
Q Consensus 135 ~~ 136 (138)
..
T Consensus 368 i~ 369 (460)
T PRK07004 368 IA 369 (460)
T ss_pred EE
Confidence 53
No 336
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.32 E-value=0.0095 Score=42.54 Aligned_cols=36 Identities=8% Similarity=0.079 Sum_probs=26.1
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
+.++++++|+|+|||..+...... +.+.+.++.|+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~-~~~~~~~v~y~~ 80 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAE-LSQRGRAVGYVP 80 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH-HHhCCCeEEEEE
Confidence 357899999999999887554443 344567777754
No 337
>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=96.30 E-value=0.017 Score=36.79 Aligned_cols=37 Identities=22% Similarity=0.248 Sum_probs=25.9
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+..+++.+|+|+|||..+...+.. +.+.+..++++..
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~-~~~~~~~v~~~~~ 55 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANE-LFRPGAPFLYLNA 55 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH-hhcCCCCeEEEeh
Confidence 568999999999999877555443 3334566666544
No 338
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.26 E-value=0.12 Score=39.79 Aligned_cols=50 Identities=22% Similarity=0.071 Sum_probs=29.7
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhh---cCCeEEEEc--chhhhHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFIL--PYISLVHEKYQSL 53 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~---~~~~~l~v~--P~~aL~~q~~~~l 53 (138)
+..+++.+|||+|||..+.-.+...... ++.++.++. +++.-..++.+.+
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~ 228 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTY 228 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHH
Confidence 4578999999999997775444432222 355666653 4444333334443
No 339
>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=96.26 E-value=0.0084 Score=44.45 Aligned_cols=42 Identities=21% Similarity=0.260 Sum_probs=27.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL 45 (138)
.+.|+++++|||||||...-. ++..+.+ .+.+++.+-...++
T Consensus 131 ~~~~ilI~G~tGSGKTTll~a-l~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 131 ARKNILVVGGTGSGKTTLANA-LLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred cCCeEEEECCCCCCHHHHHHH-HHHHhhccCCCceEEEECCchhh
Confidence 457999999999999987633 3333322 24577666555444
No 340
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=96.25 E-value=0.016 Score=43.48 Aligned_cols=44 Identities=23% Similarity=0.143 Sum_probs=34.2
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVH 47 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~ 47 (138)
.|.-+.+.+|.|+|||..++..+..... .+++++|+.+--++..
T Consensus 54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~-~g~~~vyId~E~~~~~ 97 (325)
T cd00983 54 KGRIIEIYGPESSGKTTLALHAIAEAQK-LGGTVAFIDAEHALDP 97 (325)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCCEEEECccccHHH
Confidence 3567789999999999999887776543 5889999987655543
No 341
>PRK09165 replicative DNA helicase; Provisional
Probab=96.25 E-value=0.23 Score=39.55 Aligned_cols=130 Identities=13% Similarity=0.054 Sum_probs=68.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh--------------cCCeEEEEcchhhhH-HHHHHHHHHHHHhh-------
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI--------------KQKSAIFILPYISLV-HEKYQSLAKAAEEF------- 60 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--------------~~~~~l~v~P~~aL~-~q~~~~l~~~~~~~------- 60 (138)
.|.-+++.|++|+|||..++-.+.....+ .+.+++|+.. ++. .|...++.......
T Consensus 216 ~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSl--EMs~~ql~~R~la~~s~v~~~~i~~ 293 (497)
T PRK09165 216 PSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSL--EMSAEQLATRILSEQSEISSSKIRR 293 (497)
T ss_pred CCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeC--cCCHHHHHHHHHHHhcCCCHHHHhc
Confidence 45567899999999999887666654332 2457777642 111 34444432221100
Q ss_pred --h--hhhhh--HHHhhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH--------------HHHH
Q psy2029 61 --K--FYLEG--KCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL--------------VHEK 119 (138)
Q Consensus 61 --~--~~~Q~--~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l--------------~~q~ 119 (138)
. ..|+. .+...+.+.++.+.- .++-|+.-+...++++.. ++.+.++|.....+ +.+.
T Consensus 294 ~~l~~~e~~~l~~a~~~l~~~~l~I~d--~~~~ti~~i~~~ir~l~~~~~~~lvvIDyLqli~~~~~~~~~~r~~ev~~i 371 (497)
T PRK09165 294 GKISEEDFEKLVDASQELQKLPLYIDD--TPALSISQLRARARRLKRQHGLDLLVVDYLQLIRGSSKRSSDNRVQEISEI 371 (497)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCeEEeC--CCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhccCCCCCCCCchHHHHHHH
Confidence 0 01111 001122223444332 335566666666666554 34566666554322 2346
Q ss_pred HHHHHHHhhhcCceeee
Q psy2029 120 YQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 120 ~~~~~~~~~~~~~~v~~ 136 (138)
.+.++.+++.+++.|.-
T Consensus 372 s~~LK~lAkel~ipVi~ 388 (497)
T PRK09165 372 TQGLKALAKELNIPVIA 388 (497)
T ss_pred HHHHHHHHHHhCCeEEE
Confidence 67788888888887653
No 342
>PRK05642 DNA replication initiation factor; Validated
Probab=96.23 E-value=0.0096 Score=42.51 Aligned_cols=40 Identities=10% Similarity=0.082 Sum_probs=27.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 46 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~ 46 (138)
..+++++|+|+|||..+... ...+.+++.+++|+.. ..+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~-~~~~~~~~~~v~y~~~-~~~~ 85 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAA-CLRFEQRGEPAVYLPL-AELL 85 (234)
T ss_pred CeEEEECCCCCCHHHHHHHH-HHHHHhCCCcEEEeeH-HHHH
Confidence 46789999999999885433 3344555778888543 4443
No 343
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.22 E-value=0.03 Score=47.64 Aligned_cols=66 Identities=14% Similarity=0.180 Sum_probs=49.9
Q ss_pred hhhhhhHHHhhh-hc--cceEEEeecCCCchHhHHHHHHHHHHhC-CCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 61 KFYLEGKCLEMI-QN--KNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 61 ~~~~Q~~~~~~~-~~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
++|+|......+ .. .++++.-..|-|||..+.+.+-+.+... ..++++|+|. +|..|...++.+++
T Consensus 153 l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~-sL~~QW~~El~~kF 222 (956)
T PRK04914 153 LIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPE-TLQHQWLVEMLRRF 222 (956)
T ss_pred CCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCH-HHHHHHHHHHHHHh
Confidence 678888776433 22 6788999999999999965554433333 3689999997 79999999997765
No 344
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.20 E-value=0.0067 Score=47.67 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=20.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCC
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQK 34 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~ 34 (138)
=+++.+|||||||.. ++++++.+.....
T Consensus 260 liLvTGPTGSGKTTT-LY~~L~~ln~~~~ 287 (500)
T COG2804 260 LILVTGPTGSGKTTT-LYAALSELNTPER 287 (500)
T ss_pred EEEEeCCCCCCHHHH-HHHHHHHhcCCCc
Confidence 468999999999987 4666766544333
No 345
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=96.18 E-value=0.009 Score=43.32 Aligned_cols=117 Identities=13% Similarity=0.071 Sum_probs=53.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHH-hhhhc-cceEEE
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCL-EMIQN-KNCVLS 80 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~-~~~~~-~~~ii~ 80 (138)
.+.++++++|||||||... -+++..+-+...+++.+-...++........ .........-..+.+ ..++. .+.++.
T Consensus 126 ~~~~ili~G~tGSGKTT~l-~all~~i~~~~~~iv~iEd~~E~~l~~~~~~-~~~~~~~~~~~~~~l~~~LR~~pD~iii 203 (270)
T PF00437_consen 126 GRGNILISGPTGSGKTTLL-NALLEEIPPEDERIVTIEDPPELRLPGPNQI-QIQTRRDEISYEDLLKSALRQDPDVIII 203 (270)
T ss_dssp TTEEEEEEESTTSSHHHHH-HHHHHHCHTTTSEEEEEESSS-S--SCSSEE-EEEEETTTBSHHHHHHHHTTS--SEEEE
T ss_pred cceEEEEECCCccccchHH-HHHhhhccccccceEEeccccceeecccceE-EEEeecCcccHHHHHHHHhcCCCCcccc
Confidence 3679999999999999876 3334433333367777765444322100000 000000111122223 33344 777777
Q ss_pred eecCCCchHhHHHHHHHHHHhCCCeE-EEEccchhHHHHHHHHHHHHh
Q psy2029 81 IPTSGGKTLVGEILIMKELKIKQKSA-IFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 81 ~ptg~GKt~~~~~~~l~~~~~~~~~~-~~i~P~~~l~~q~~~~~~~~~ 127 (138)
.--.++.+..+ +.++. .+.+. +--.... -+.+....+..++
T Consensus 204 gEiR~~e~~~~-~~a~~----tGh~~~~tT~Ha~-s~~~~i~Rl~~l~ 245 (270)
T PF00437_consen 204 GEIRDPEAAEA-IQAAN----TGHLGSLTTLHAN-SAEDAIERLADLG 245 (270)
T ss_dssp SCE-SCHHHHH-HHHHH----TT-EEEEEEEE-S-SHHHHHHHHHHHC
T ss_pred cccCCHhHHHH-HHhhc----cCCceeeeeeecC-CHHHHHHHHHHHh
Confidence 77776655544 33332 24443 3333322 3445555555544
No 346
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=96.18 E-value=0.011 Score=47.01 Aligned_cols=49 Identities=18% Similarity=0.162 Sum_probs=38.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
.-.+.+-||||||..-.-.+. +-+..++++.|.+.|+-|.|.+|++++.
T Consensus 34 ~QtLLGvTGSGKTfT~AnVI~----~~~rPtLV~AhNKTLAaQLy~Efk~fFP 82 (663)
T COG0556 34 HQTLLGVTGSGKTFTMANVIA----KVQRPTLVLAHNKTLAAQLYSEFKEFFP 82 (663)
T ss_pred eeEEeeeccCCchhHHHHHHH----HhCCCeEEEecchhHHHHHHHHHHHhCc
Confidence 446788999999976422222 2467889999999999999999999864
No 347
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.17 E-value=0.015 Score=47.72 Aligned_cols=45 Identities=9% Similarity=-0.071 Sum_probs=38.2
Q ss_pred cCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 83 TSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 83 tg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
+|+|||-+++-.+ ......++.+++++|..+|..|..+.|++.|.
T Consensus 169 ~GSGKTevyl~~i-~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~ 213 (665)
T PRK14873 169 PGEDWARRLAAAA-AATLRAGRGALVVVPDQRDVDRLEAALRALLG 213 (665)
T ss_pred CCCcHHHHHHHHH-HHHHHcCCeEEEEecchhhHHHHHHHHHHHcC
Confidence 4999999995544 45555688899999999999999999999985
No 348
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=96.10 E-value=0.14 Score=42.78 Aligned_cols=92 Identities=20% Similarity=0.156 Sum_probs=54.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhhhhhHHHhhhhccceEEEee
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEGKCLEMIQNKNCVLSIP 82 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~ii~~p 82 (138)
.|..+.+.+|.|+|||..+...+.... ..+.+++|+.+--++..+ .. ...+++. .++++.-|
T Consensus 59 ~GsiteI~G~~GsGKTtLal~~~~~a~-~~G~~v~yId~E~t~~~~---~A----~~lGvDl----------~~llv~~~ 120 (790)
T PRK09519 59 RGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDPD---YA----KKLGVDT----------DSLLVSQP 120 (790)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchhHH---HH----HHcCCCh----------hHeEEecC
Confidence 466789999999999999977766544 358899998775554422 11 1112221 22233333
Q ss_pred cCCCchHhHHHHHHHHHH-hCCCeEEEEccchhHH
Q psy2029 83 TSGGKTLVGEILIMKELK-IKQKSAIFILPYISLV 116 (138)
Q Consensus 83 tg~GKt~~~~~~~l~~~~-~~~~~~~~i~P~~~l~ 116 (138)
. ++.. .+..+..+. +...+.++|.+..+|.
T Consensus 121 ~-~~E~---~l~~i~~lv~~~~~~LVVIDSI~aL~ 151 (790)
T PRK09519 121 D-TGEQ---ALEIADMLIRSGALDIVVIDSVAALV 151 (790)
T ss_pred C-CHHH---HHHHHHHHhhcCCCeEEEEcchhhhc
Confidence 3 2232 233333333 3457788888877777
No 349
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=96.08 E-value=0.008 Score=45.24 Aligned_cols=41 Identities=22% Similarity=0.141 Sum_probs=27.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL 45 (138)
.+.|+++++|||||||...-. ++. .+....+++.+--..+|
T Consensus 159 ~~~nili~G~tgSGKTTll~a-L~~-~ip~~~ri~tiEd~~El 199 (332)
T PRK13900 159 SKKNIIISGGTSTGKTTFTNA-ALR-EIPAIERLITVEDAREI 199 (332)
T ss_pred cCCcEEEECCCCCCHHHHHHH-HHh-hCCCCCeEEEecCCCcc
Confidence 467999999999999977533 333 33445666665444444
No 350
>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=96.03 E-value=0.017 Score=44.33 Aligned_cols=48 Identities=19% Similarity=0.288 Sum_probs=32.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
...++++.+.||||||.+ +..++..++.++.++++.-|.-++....++
T Consensus 14 e~~~~li~G~~GsGKT~~-i~~ll~~~~~~g~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 14 ENRHILIIGATGSGKTQA-IRHLLDQIRARGDRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp GGG-EEEEE-TTSSHHHH-HHHHHHHHHHTT-EEEEEEETTHHHHHH--
T ss_pred hhCcEEEECCCCCCHHHH-HHHHHHHHHHcCCEEEEEECCchHHHHhcC
Confidence 356899999999999974 455666677778888888888776654444
No 351
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=96.02 E-value=0.014 Score=40.51 Aligned_cols=33 Identities=15% Similarity=0.230 Sum_probs=21.3
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEE
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFI 39 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v 39 (138)
-+++++|||||||..... ++..+... +++++.+
T Consensus 3 lilI~GptGSGKTTll~~-ll~~~~~~~~~~i~t~ 36 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAA-MIDYINKNKTHHILTI 36 (198)
T ss_pred EEEEECCCCCCHHHHHHH-HHHHhhhcCCcEEEEE
Confidence 478999999999988633 34334332 3455544
No 352
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.02 E-value=0.55 Score=36.84 Aligned_cols=35 Identities=20% Similarity=0.102 Sum_probs=25.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
..+++++|+|+|||..+.-.+. .+.+.+.++.++.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~-~L~~~g~kV~lV~ 130 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLAR-YFKKKGLKVGLVA 130 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHH-HHHHcCCeEEEec
Confidence 4578999999999988765554 3555667777764
No 353
>PLN02199 shikimate kinase
Probab=96.01 E-value=0.16 Score=37.70 Aligned_cols=77 Identities=21% Similarity=0.273 Sum_probs=43.4
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHH------HHHHHHHHhhhhhhhhHHHhhhhc-
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY------QSLAKAAEEFKFYLEGKCLEMIQN- 74 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~------~~l~~~~~~~~~~~Q~~~~~~~~~- 74 (138)
+.|.++++.++.|||||.++-..+-. + +. -++-+-.+.++.+ +-+..+|+......+.+++..+..
T Consensus 100 l~~~~I~LIG~~GSGKSTVgr~LA~~-L---g~---~fIDtD~lIe~~~~G~sI~eIf~~~GE~~FR~~E~e~L~~L~~~ 172 (303)
T PLN02199 100 LNGRSMYLVGMMGSGKTTVGKLMSKV-L---GY---TFFDCDTLIEQAMNGTSVAEIFVHHGENFFRGKETDALKKLSSR 172 (303)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHHH-h---CC---CEEehHHHHHHHhcCCCHHHHHHHhCHHHHHHHHHHHHHHHHhc
Confidence 56889999999999999998555432 1 11 1222223333321 112223444455556666655554
Q ss_pred cceEEEeecCCCc
Q psy2029 75 KNCVLSIPTSGGK 87 (138)
Q Consensus 75 ~~~ii~~ptg~GK 87 (138)
.++++ .||+|-
T Consensus 173 ~~~VI--StGGG~ 183 (303)
T PLN02199 173 YQVVV--STGGGA 183 (303)
T ss_pred CCEEE--ECCCcc
Confidence 55554 567775
No 354
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.00 E-value=0.011 Score=44.34 Aligned_cols=42 Identities=19% Similarity=0.211 Sum_probs=27.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHH--hhcCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKEL--KIKQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~--~~~~~~~l~v~P~~aL 45 (138)
.+.|+++++|||||||......+ ..+ .....+++.+-...+|
T Consensus 147 ~~~~ilI~G~tGSGKTTll~aL~-~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 147 AHRNILVIGGTGSGKTTLVNAII-NEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred cCCeEEEECCCCCCHHHHHHHHH-HhhhhcCCCceEEEEcCCCcc
Confidence 56799999999999996653332 222 2234566666655554
No 355
>KOG0745|consensus
Probab=95.97 E-value=0.0065 Score=47.16 Aligned_cols=25 Identities=36% Similarity=0.527 Sum_probs=20.6
Q ss_pred CCCccEEEEccCCcchHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
|+-+|+++.+|||+|||+.+.-.+.
T Consensus 224 LeKSNvLllGPtGsGKTllaqTLAr 248 (564)
T KOG0745|consen 224 LEKSNVLLLGPTGSGKTLLAQTLAR 248 (564)
T ss_pred eecccEEEECCCCCchhHHHHHHHH
Confidence 4567999999999999999855443
No 356
>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=95.97 E-value=0.024 Score=46.23 Aligned_cols=52 Identities=23% Similarity=0.197 Sum_probs=35.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh--hHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS--LVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a--L~~q~~~~l~~~ 56 (138)
..+++|.+|||+|||..+...+.+. +..+..++++-|--. |...........
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~l~~q~-i~~g~~viv~DpKgD~~l~~~~~~~~~~~ 229 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAELLITQD-IRRGDVVIVIDPKGDADLKRRMRAEAKRA 229 (634)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHH-HHcCCeEEEEeCCCchHHHHHHHHHHHHh
Confidence 3588999999999998876655554 445677777777643 444444444444
No 357
>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=95.96 E-value=0.034 Score=40.60 Aligned_cols=56 Identities=14% Similarity=0.105 Sum_probs=41.6
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHhhhhh
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFY 63 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~~~~~ 63 (138)
-+..+.||-|||+++.+++.-+.+ .|..+-+++...-|...=++.+.++....+..
T Consensus 93 ~laEm~TGEGKTli~~l~a~~~AL-~G~~V~vvT~NdyLA~RD~~~~~~~y~~LGls 148 (266)
T PF07517_consen 93 RLAEMKTGEGKTLIAALPAALNAL-QGKGVHVVTSNDYLAKRDAEEMRPFYEFLGLS 148 (266)
T ss_dssp SEEEESTTSHHHHHHHHHHHHHHT-TSS-EEEEESSHHHHHHHHHHHHHHHHHTT--
T ss_pred eeEEecCCCCcHHHHHHHHHHHHH-hcCCcEEEeccHHHhhccHHHHHHHHHHhhhc
Confidence 388999999999999887766555 47888888888888877777777776554443
No 358
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.93 E-value=0.013 Score=43.96 Aligned_cols=42 Identities=19% Similarity=0.264 Sum_probs=26.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHh--hcCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELK--IKQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~--~~~~~~l~v~P~~aL 45 (138)
.+.|+++++|||||||...-. .+..+. ..+.+++.+-...+|
T Consensus 143 ~~~nilI~G~tGSGKTTll~a-L~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 143 SRLNIVISGGTGSGKTTLANA-VIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred cCCeEEEECCCCCCHHHHHHH-HHHHHhcCCCCceEEEecCCccc
Confidence 467999999999999977633 333332 234466555544444
No 359
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=95.92 E-value=0.015 Score=43.96 Aligned_cols=37 Identities=16% Similarity=0.144 Sum_probs=24.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc-CCeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK-QKSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~-~~~~l~v~ 40 (138)
.+..+++++|||||||.... ++...+.+. +++++.+-
T Consensus 121 ~~g~ili~G~tGSGKTT~l~-al~~~i~~~~~~~i~tiE 158 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLA-SMIDYINKNAAGHIITIE 158 (343)
T ss_pred cCcEEEEECCCCCCHHHHHH-HHHHhhCcCCCCEEEEEc
Confidence 35688999999999998763 334434332 45666554
No 360
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.92 E-value=0.099 Score=40.31 Aligned_cols=99 Identities=13% Similarity=0.094 Sum_probs=51.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH----H-----------HhhhhhhhhHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA----A-----------EEFKFYLEGKCL 69 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~----~-----------~~~~~~~Q~~~~ 69 (138)
.|+|+++|.|+|||.+|.+.+-. .+.....+..+.+=+.++.+.+++. . .+.+...|.+.+
T Consensus 49 ~SmIl~GPPG~GKTTlA~liA~~----~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l 124 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLIAGT----TNAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL 124 (436)
T ss_pred ceeEEECCCCCCHHHHHHHHHHh----hCCceEEeccccccHHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh
Confidence 58899999999999998665553 2333344444333222322222222 1 123455666666
Q ss_pred -hhhhccceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccc
Q psy2029 70 -EMIQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPY 112 (138)
Q Consensus 70 -~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~ 112 (138)
|.+-+..+++...|-.--++.---+++. ..+++.+-|+
T Consensus 125 Lp~vE~G~iilIGATTENPsF~ln~ALlS-----R~~vf~lk~L 163 (436)
T COG2256 125 LPHVENGTIILIGATTENPSFELNPALLS-----RARVFELKPL 163 (436)
T ss_pred hhhhcCCeEEEEeccCCCCCeeecHHHhh-----hhheeeeecC
Confidence 6666655554444433333322222222 3455555554
No 361
>PRK06893 DNA replication initiation factor; Validated
Probab=95.91 E-value=0.017 Score=41.05 Aligned_cols=35 Identities=20% Similarity=0.154 Sum_probs=25.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
.+++++|+|+|||..+...+.. +..++.++.|+..
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~-~~~~~~~~~y~~~ 75 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNH-YLLNQRTAIYIPL 75 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHH-HHHcCCCeEEeeH
Confidence 4689999999999887555544 4445667777543
No 362
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=95.87 E-value=0.02 Score=40.15 Aligned_cols=40 Identities=23% Similarity=0.262 Sum_probs=27.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISL 45 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL 45 (138)
+.++++.+|+|+|||..+...+.. +.+.+...+|+ +...+
T Consensus 38 ~~~lll~G~~G~GKT~la~~~~~~-~~~~~~~~~~i-~~~~~ 77 (226)
T TIGR03420 38 DRFLYLWGESGSGKSHLLQAACAA-AEERGKSAIYL-PLAEL 77 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH-HHhcCCcEEEE-eHHHH
Confidence 468899999999999998665554 33345555554 43333
No 363
>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=95.87 E-value=0.014 Score=45.14 Aligned_cols=43 Identities=19% Similarity=0.181 Sum_probs=30.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVH 47 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~ 47 (138)
.+++++.++||||||... ..++..+..++.+++++-|.-++..
T Consensus 42 ~~h~~i~g~tGsGKt~~i-~~l~~~~~~~~~~~vi~D~kg~~~~ 84 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI-RELLASIRARGDRAIIYDPNGGFVS 84 (410)
T ss_pred hccEEEEcCCCCCHHHHH-HHHHHHHHhcCCCEEEEeCCcchhH
Confidence 468999999999999863 3334445555677777777665544
No 364
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.86 E-value=0.55 Score=36.70 Aligned_cols=38 Identities=13% Similarity=0.053 Sum_probs=25.7
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc--chhh
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL--PYIS 44 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~--P~~a 44 (138)
-+.+++|+|+|||..+.-.+.. +..++.+++++. |+++
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~-l~~~G~kV~lV~~D~~R~ 141 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYY-YQRKGFKPCLVCADTFRA 141 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHH-HHHCCCCEEEEcCcccch
Confidence 4589999999999776544443 445577777764 4454
No 365
>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=95.81 E-value=0.013 Score=43.69 Aligned_cols=49 Identities=22% Similarity=0.233 Sum_probs=30.5
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
.+|.+||||||+-..=-.+--.+++ ....+++++|.+.+........++
T Consensus 90 ~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~ 139 (369)
T PF02456_consen 90 GVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWE 139 (369)
T ss_pred EEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHH
Confidence 5889999999996531111112333 245889999988776544443333
No 366
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=95.80 E-value=0.021 Score=47.49 Aligned_cols=46 Identities=17% Similarity=0.152 Sum_probs=35.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcC-CeEEEEcchhhhHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYISLVHEKY 50 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~-~~~l~v~P~~aL~~q~~ 50 (138)
-|+.|.|.||+|||.+|+=.|+.--..=| .+-++++|+.|+..-.+
T Consensus 75 lNiDI~METGTGKTy~YlrtmfeLhk~YG~~KFIivVPs~AIkeGv~ 121 (985)
T COG3587 75 LNIDILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVPSLAIKEGVF 121 (985)
T ss_pred ceeeEEEecCCCceeeHHHHHHHHHHHhCceeEEEEeccHHHHhhhH
Confidence 48899999999999999888886333322 37788899999876533
No 367
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=95.80 E-value=0.078 Score=40.17 Aligned_cols=73 Identities=16% Similarity=0.116 Sum_probs=59.2
Q ss_pred hhhhhhHHH----hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCcee
Q psy2029 61 KFYLEGKCL----EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYL 134 (138)
Q Consensus 61 ~~~~Q~~~~----~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v 134 (138)
+.+.|..+- ..+.+ ++.++-+-||+|||-+- +..++.+.+++.++.+..|-...+-|.+..+++.|.+.++..
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMi-f~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~ 175 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMI-FQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDL 175 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhh-HHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhccCCeee
Confidence 444555444 34445 88999999999999877 667777777899999999999999999999999998777664
No 368
>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=95.78 E-value=0.04 Score=40.01 Aligned_cols=52 Identities=27% Similarity=0.301 Sum_probs=32.9
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc--C---CeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK--Q---KSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~---~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
.+.++++-..|+|||..+...+. .+.+. . +++|+++|. ++..+-.+++.++.
T Consensus 25 ~~g~lL~de~GlGKT~~~i~~~~-~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~ 81 (299)
T PF00176_consen 25 PRGGLLADEMGLGKTITAIALIS-YLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWF 81 (299)
T ss_dssp T-EEEE---TTSSHHHHHHHHHH-HHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHS
T ss_pred CCCEEEEECCCCCchhhhhhhhh-hhhhccccccccceeEeecc-chhhhhhhhhcccc
Confidence 45778889999999988866554 23331 1 259999999 66677777777775
No 369
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.74 E-value=0.36 Score=36.13 Aligned_cols=23 Identities=17% Similarity=0.265 Sum_probs=16.4
Q ss_pred cEEEEccCCcchHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKEL 29 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~ 29 (138)
=++|.+|||||||.. +.++..++
T Consensus 127 LILVTGpTGSGKSTT-lAamId~i 149 (353)
T COG2805 127 LILVTGPTGSGKSTT-LAAMIDYI 149 (353)
T ss_pred eEEEeCCCCCcHHHH-HHHHHHHH
Confidence 468999999999965 24444444
No 370
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=95.72 E-value=0.014 Score=43.45 Aligned_cols=38 Identities=29% Similarity=0.187 Sum_probs=24.7
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcch
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPY 42 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~ 42 (138)
.|.++++++|||||||...-.. .. ......+++.+-..
T Consensus 143 ~~~~ili~G~tGsGKTTll~al-~~-~~~~~~~iv~ied~ 180 (308)
T TIGR02788 143 SRKNIIISGGTGSGKTTFLKSL-VD-EIPKDERIITIEDT 180 (308)
T ss_pred CCCEEEEECCCCCCHHHHHHHH-Hc-cCCccccEEEEcCc
Confidence 5789999999999999876332 22 23334455555433
No 371
>PRK14974 cell division protein FtsY; Provisional
Probab=95.72 E-value=0.63 Score=35.23 Aligned_cols=35 Identities=23% Similarity=0.038 Sum_probs=24.7
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
-+++.+|+|+|||....-.+. .+.+.+.++.++..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~-~l~~~g~~V~li~~ 176 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAY-YLKKNGFSVVIAAG 176 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHH-HHHHcCCeEEEecC
Confidence 468999999999976654443 35556677777653
No 372
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=95.70 E-value=0.028 Score=47.25 Aligned_cols=51 Identities=16% Similarity=0.113 Sum_probs=40.0
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
-+..+.||-|||+++.+|+.-+.+. |+.+.++++..-|+..=.+.+.+...
T Consensus 101 ~IAEM~TGEGKTL~atlpaylnAL~-GkgVhVVTvNdYLA~RDae~m~~vy~ 151 (939)
T PRK12902 101 QIAEMKTGEGKTLVATLPSYLNALT-GKGVHVVTVNDYLARRDAEWMGQVHR 151 (939)
T ss_pred ceeeecCCCChhHHHHHHHHHHhhc-CCCeEEEeCCHHHHHhHHHHHHHHHH
Confidence 4779999999999999988866664 78888888888887766666666543
No 373
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=95.69 E-value=0.027 Score=38.35 Aligned_cols=45 Identities=13% Similarity=0.117 Sum_probs=30.6
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 53 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l 53 (138)
..+++.+|+|||||..+...+.. .+.+.+|+.......++..+++
T Consensus 2 ~~ili~G~~~sGKS~~a~~l~~~----~~~~~~~iat~~~~~~e~~~ri 46 (170)
T PRK05800 2 MLILVTGGARSGKSRFAERLAAQ----SGLQVLYIATAQPFDDEMAARI 46 (170)
T ss_pred CEEEEECCCCccHHHHHHHHHHH----cCCCcEeCcCCCCChHHHHHHH
Confidence 45799999999999998766543 2446677765555444444444
No 374
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.69 E-value=0.026 Score=39.82 Aligned_cols=37 Identities=11% Similarity=0.137 Sum_probs=26.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+..+++++|+|+|||..+...... ....+..+.++..
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~-~~~~~~~~~~i~~ 78 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVAD-ASYGGRNARYLDA 78 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH-HHhCCCcEEEEeh
Confidence 457999999999999887655444 3345666666543
No 375
>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=95.65 E-value=0.023 Score=38.51 Aligned_cols=48 Identities=15% Similarity=0.145 Sum_probs=32.8
Q ss_pred eEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 77 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 77 ~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+++..|+|+|||..+.-.+...+ ..+.+++|+.. .+..++..+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~-e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTL-EESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEEC-CCCHHHHHHHHHHc
Confidence 57889999999999966555544 45778888854 44555555555444
No 376
>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=95.65 E-value=0.026 Score=47.80 Aligned_cols=41 Identities=20% Similarity=0.239 Sum_probs=30.5
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS 44 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a 44 (138)
..|.+|.+|||||||......+.+.+...+.+++++-|-.+
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~~~~v~IiD~g~s 515 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVHRPRLFIVEAGNS 515 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCCC
Confidence 46899999999999988766666655444677777776444
No 377
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=95.64 E-value=0.65 Score=34.80 Aligned_cols=39 Identities=15% Similarity=0.048 Sum_probs=26.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh--c---CCeEEEEcc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI--K---QKSAIFILP 41 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~---~~~~l~v~P 41 (138)
.|+-+.+.+|.|+|||..+...+...... . +++++|+.-
T Consensus 95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdt 138 (316)
T TIGR02239 95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDT 138 (316)
T ss_pred CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEEC
Confidence 35567899999999999886655433322 2 248888754
No 378
>PRK06321 replicative DNA helicase; Provisional
Probab=95.62 E-value=0.66 Score=36.75 Aligned_cols=128 Identities=10% Similarity=0.022 Sum_probs=64.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHHH----Hh-------hhhhhhhHHH--
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKAA----EE-------FKFYLEGKCL-- 69 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~~----~~-------~~~~~Q~~~~-- 69 (138)
|.=+++-|.+|+|||..+.-.+.......+.+++|+.. ++. .|...++.... .. ....|+....
T Consensus 226 G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSL--EMs~~ql~~Rlla~~s~v~~~~i~~~~l~~~e~~~~~~a~ 303 (472)
T PRK06321 226 SNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSL--EMTVDQLIHRIICSRSEVESKKISVGDLSGRDFQRIVSVV 303 (472)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec--cCCHHHHHHHHHHhhcCCCHHHhhcCCCCHHHHHHHHHHH
Confidence 44458899999999999877555544344667766542 111 23333332210 00 0111221111
Q ss_pred hhhhccceEEEeecCCCchHhHHHHHHHHHHh-CCCeEEEEccchhH---------------HHHHHHHHHHHhhhcCce
Q psy2029 70 EMIQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISL---------------VHEKYQSLAKAAEEFKFY 133 (138)
Q Consensus 70 ~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l---------------~~q~~~~~~~~~~~~~~~ 133 (138)
..+.+.++.+. ...+-|.--+...++++.. .+.+.++|.....+ +.+..+.++.+++.+++.
T Consensus 304 ~~l~~~~~~id--d~~~~ti~~i~~~~r~~~~~~~~~lvvIDyLql~~~~~~~~~~~~r~~ei~~Isr~LK~lAkel~vp 381 (472)
T PRK06321 304 NEMQEHTLLID--DQPGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSGNLRNSESRQTEISEISRMLKNLARELNIP 381 (472)
T ss_pred HHHHcCCEEEe--CCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHHcCCCCccCCcchHHHHHHHHHHHHHHHHHHhCCc
Confidence 11222333332 2234455555555555544 34566666554332 223566788888888887
Q ss_pred ee
Q psy2029 134 LE 135 (138)
Q Consensus 134 v~ 135 (138)
|.
T Consensus 382 Vi 383 (472)
T PRK06321 382 IL 383 (472)
T ss_pred EE
Confidence 65
No 379
>PRK04296 thymidine kinase; Provisional
Probab=95.60 E-value=0.029 Score=38.71 Aligned_cols=37 Identities=11% Similarity=-0.003 Sum_probs=27.7
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
|.-.++.+|.|+|||..+.-.+.+ +...+.+++++-|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~-~~~~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYN-YEERGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHH-HHHcCCeEEEEec
Confidence 445688999999999887666554 4445788888766
No 380
>KOG1803|consensus
Probab=95.59 E-value=0.025 Score=45.40 Aligned_cols=45 Identities=20% Similarity=0.189 Sum_probs=34.6
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 52 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~ 52 (138)
.++.+|.|+|||..-.-.+.+ +..+++++++..|+..-++.+.++
T Consensus 204 ~~I~GPPGTGKT~TlvEiI~q-lvk~~k~VLVcaPSn~AVdNiver 248 (649)
T KOG1803|consen 204 LIIHGPPGTGKTRTLVEIISQ-LVKQKKRVLVCAPSNVAVDNIVER 248 (649)
T ss_pred eEeeCCCCCCceeeHHHHHHH-HHHcCCeEEEEcCchHHHHHHHHH
Confidence 589999999999775444444 555789999999998766666664
No 381
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=95.57 E-value=0.021 Score=32.30 Aligned_cols=20 Identities=15% Similarity=0.302 Sum_probs=16.6
Q ss_pred CccEEEEccCCcchHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEI 23 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~ 23 (138)
|+..++.+|+|+|||.+...
T Consensus 23 g~~tli~G~nGsGKSTllDA 42 (62)
T PF13555_consen 23 GDVTLITGPNGSGKSTLLDA 42 (62)
T ss_pred CcEEEEECCCCCCHHHHHHH
Confidence 45789999999999987644
No 382
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.57 E-value=0.83 Score=35.60 Aligned_cols=35 Identities=29% Similarity=0.246 Sum_probs=25.4
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
..+.+.+|||+|||..+...+.. +..++.++.++.
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~-L~~~GkkVglI~ 276 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQ-FHGKKKTVGFIT 276 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH-HHHcCCcEEEEe
Confidence 46789999999999877555543 445566776654
No 383
>PRK13764 ATPase; Provisional
Probab=95.55 E-value=0.028 Score=45.52 Aligned_cols=33 Identities=9% Similarity=0.063 Sum_probs=21.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeE
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSA 36 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~ 36 (138)
.++++++++|||||||... .++...+..++..+
T Consensus 256 ~~~~ILIsG~TGSGKTTll-~AL~~~i~~~~riV 288 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFA-QALAEFYADMGKIV 288 (602)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHhhCCCEE
Confidence 3578999999999999776 33334443333333
No 384
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=95.53 E-value=0.9 Score=35.74 Aligned_cols=47 Identities=9% Similarity=-0.008 Sum_probs=29.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSL 53 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l 53 (138)
+.+++++|+|+|||... .++...+.. .+.+++|+.+ ..+..+....+
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l 190 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDIL 190 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHH
Confidence 34789999999999776 444444443 4568888654 34444444433
No 385
>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=95.52 E-value=0.05 Score=44.39 Aligned_cols=52 Identities=23% Similarity=0.307 Sum_probs=36.6
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh--hHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS--LVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a--L~~q~~~~l~~~~ 57 (138)
.+.+|.+|||+|||......+.+.+ ..+..++++-|... +....+......+
T Consensus 181 gHtlV~GtTGsGKT~l~~~li~q~i-~~g~~vi~fDpkgD~el~~~~~~~~~~~G 234 (643)
T TIGR03754 181 GHTLVLGTTRVGKTRLAELLITQDI-RRGDVVIVFDPKGDADLLKRMYAEAKRAG 234 (643)
T ss_pred CceEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCCCHHHHHHHHHHHHHhC
Confidence 4789999999999999887777644 45778888888664 3344444444443
No 386
>PRK10436 hypothetical protein; Provisional
Probab=95.50 E-value=0.026 Score=44.40 Aligned_cols=35 Identities=20% Similarity=0.202 Sum_probs=23.4
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEE
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFI 39 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v 39 (138)
+..+++++|||||||... ++++.++.+.+.+++-+
T Consensus 218 ~GliLvtGpTGSGKTTtL-~a~l~~~~~~~~~i~Ti 252 (462)
T PRK10436 218 QGLILVTGPTGSGKTVTL-YSALQTLNTAQINICSV 252 (462)
T ss_pred CCeEEEECCCCCChHHHH-HHHHHhhCCCCCEEEEe
Confidence 346899999999999875 45565554444444333
No 387
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.50 E-value=0.41 Score=37.99 Aligned_cols=36 Identities=19% Similarity=0.123 Sum_probs=23.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCC-eEEEE
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQK-SAIFI 39 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~-~~l~v 39 (138)
|.-+.+.+|||+|||......+.......+. ++.++
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI 292 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALL 292 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEE
Confidence 5567899999999997765444433333443 55544
No 388
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=95.48 E-value=0.016 Score=43.05 Aligned_cols=25 Identities=24% Similarity=0.090 Sum_probs=19.2
Q ss_pred CCCccEEEEccCCcchHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
.+.+-++|.+|||||||..+.-.+.
T Consensus 2 ~~~~ii~I~GpTasGKS~LAl~LA~ 26 (300)
T PRK14729 2 KENKIVFIFGPTAVGKSNILFHFPK 26 (300)
T ss_pred CCCcEEEEECCCccCHHHHHHHHHH
Confidence 3455579999999999988865544
No 389
>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=95.47 E-value=0.027 Score=39.69 Aligned_cols=49 Identities=16% Similarity=0.193 Sum_probs=31.4
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLA 124 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~ 124 (138)
..+++..|+|+|||..+.-.+...+.+.+.+++|+.- .+-..+..+.++
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~-ee~~~~l~~~~~ 68 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF-EEPPEELIENMK 68 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES-SS-HHHHHHHHH
T ss_pred cEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe-cCCHHHHHHHHH
Confidence 6677999999999999976666655543777888764 333344444444
No 390
>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=95.46 E-value=0.022 Score=45.85 Aligned_cols=43 Identities=12% Similarity=0.153 Sum_probs=29.9
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVH 47 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~ 47 (138)
..++++.++||||||.+. -.++..++.++.+++++-|.-++..
T Consensus 176 ~~h~li~G~tGsGKs~~i-~~ll~~~~~~g~~~ii~D~~g~~~~ 218 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVAI-RKLLRWIRQRGDRAIIYDKGCTFTS 218 (566)
T ss_pred ccceEEEcCCCCCHHHHH-HHHHHHHHhcCCeEEEEECCCCeeh
Confidence 458999999999999654 3344445556777777777655443
No 391
>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=95.43 E-value=0.031 Score=40.68 Aligned_cols=36 Identities=25% Similarity=0.242 Sum_probs=23.4
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
+..+++++|||||||.... +++..+.+.+.+++.+-
T Consensus 80 ~GlilisG~tGSGKTT~l~-all~~i~~~~~~iitiE 115 (264)
T cd01129 80 HGIILVTGPTGSGKTTTLY-SALSELNTPEKNIITVE 115 (264)
T ss_pred CCEEEEECCCCCcHHHHHH-HHHhhhCCCCCeEEEEC
Confidence 3468999999999998763 34344433344555553
No 392
>PRK11054 helD DNA helicase IV; Provisional
Probab=95.39 E-value=0.13 Score=42.48 Aligned_cols=75 Identities=8% Similarity=-0.077 Sum_probs=52.8
Q ss_pred hhhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHh---CCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 61 KFYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 61 ~~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~---~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
+.+-|..+... .+.+.++.+..|+|||.+....+...+.. .+.+++.++.++..+.+..+.+.+.....++.|..
T Consensus 197 L~~~Q~~av~~-~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~~v~v~T 274 (684)
T PRK11054 197 LNPSQARAVVN-GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTEDITART 274 (684)
T ss_pred CCHHHHHHHhC-CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCCCcEEEe
Confidence 44455554421 12677899999999999987666554443 24589999999999999999988776533555554
No 393
>KOG4150|consensus
Probab=95.36 E-value=0.034 Score=44.79 Aligned_cols=127 Identities=11% Similarity=0.104 Sum_probs=71.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHH-------HHHH------hhhhhhhhH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLA-------KAAE------EFKFYLEGK 67 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~-------~~~~------~~~~~~Q~~ 67 (138)
-+|+++++.-.|.+||.+++...+..-+.. .....+|..|++++.++..+.+. +... +........
T Consensus 299 ~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~~~K~A~V~~~D~~sE~~~~ 378 (1034)
T KOG4150|consen 299 SEGRADGGNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQVVHVEVIKARKSAYVEMSDKLSETTKS 378 (1034)
T ss_pred hhcccccccchhhcCCccCcccchhhhhhcCcccceecchhHHHHhhccCCceEEEEEehhhhhcceeecccCCCchhHH
Confidence 468899999999999999998877654333 45577888888887654432210 0000 000000000
Q ss_pred HHhhhhc-cceEEEeecC-----CCchHhHHHHHHHHHHh-CCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 68 CLEMIQN-KNCVLSIPTS-----GGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 68 ~~~~~~~-~~~ii~~ptg-----~GKt~~~~~~~l~~~~~-~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
+ ..+. -+.+++.|.. --|.+..-.++.+.+.. -..-.+|.-|+.+++..+.+.+.+++..+
T Consensus 379 A--~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~F 446 (1034)
T KOG4150|consen 379 A--LKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIKGF 446 (1034)
T ss_pred H--HHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHHHHHHHHHHH
Confidence 0 0111 3334333311 11222222333333322 24568999999999999999998887654
No 394
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=95.36 E-value=0.2 Score=35.74 Aligned_cols=69 Identities=17% Similarity=0.142 Sum_probs=53.0
Q ss_pred hhhhhhHHHh-hhh--c-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhc
Q psy2029 61 KFYLEGKCLE-MIQ--N-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEF 130 (138)
Q Consensus 61 ~~~~Q~~~~~-~~~--~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~ 130 (138)
..+.|.+... ... . .|.+.-+-.|.|||-+. +|++..+...+.+.+.++=.++|.+|.++.+++.+...
T Consensus 24 iR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg~~LvrviVpk~Ll~q~~~~L~~~lg~l 96 (229)
T PF12340_consen 24 IRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVI-VPMLALALADGSRLVRVIVPKALLEQMRQMLRSRLGGL 96 (229)
T ss_pred eeHHHHHHHHHHhCCCCCCCeEeeecccCCccchH-HHHHHHHHcCCCcEEEEEcCHHHHHHHHHHHHHHHHHH
Confidence 3455666652 222 2 78899999999999998 77877777777777777777889999999999887664
No 395
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.35 E-value=0.029 Score=48.96 Aligned_cols=49 Identities=12% Similarity=-0.000 Sum_probs=31.0
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcC--CeEEEEcc----hhhhHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQ--KSAIFILP----YISLVHEKYQSLAK 55 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~--~~~l~v~P----~~aL~~q~~~~l~~ 55 (138)
..++++++||||||.. +|.+-.-...+ +.+....| .++|..++.+++..
T Consensus 90 ~VviI~GeTGSGKTTq--lPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 90 QVVIVAGETGSGKTTQ--LPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred CeEEEECCCCCCHHHH--HHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 3568889999999994 55332111222 34444556 56788888887765
No 396
>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=95.34 E-value=0.04 Score=38.86 Aligned_cols=38 Identities=24% Similarity=0.266 Sum_probs=26.4
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHh-hcCCeEEEEcch
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELK-IKQKSAIFILPY 42 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~-~~~~~~l~v~P~ 42 (138)
++++.|.+.||||||...-..+.+ +. ..+.+++++-|.
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ll~~-l~~~~~~~~ii~D~~ 61 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKVLLEE-LLKKKGAKVIIFDPH 61 (229)
T ss_pred cceEEEECCCCCCHHHHHHHHHHH-HHhcCCCCEEEEcCC
Confidence 467899999999999887555444 44 445566655553
No 397
>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=95.33 E-value=0.51 Score=31.68 Aligned_cols=33 Identities=27% Similarity=0.245 Sum_probs=23.5
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
+++.+|+|+|||..+.-.+. .+.+.+.+++++.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~-~~~~~g~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLAL-YLKKKGKKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHH-HHHHCCCcEEEEE
Confidence 57899999999988755444 3445566776653
No 398
>PHA02535 P terminase ATPase subunit; Provisional
Probab=95.32 E-value=0.36 Score=39.07 Aligned_cols=85 Identities=14% Similarity=0.069 Sum_probs=67.3
Q ss_pred hHHHHHHHHHHHHHhhhhhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHH
Q psy2029 45 LVHEKYQSLAKAAEEFKFYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSL 123 (138)
Q Consensus 45 L~~q~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~ 123 (138)
+.++..+.+.+.....++++|..++..-.+ +.-++.-.-..|+|..+...++..+...+...+|+.|+++.+.+-.+.+
T Consensus 123 ~s~~~~~~l~~~~~~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~~G~nqiflSas~~QA~~f~~yi 202 (581)
T PHA02535 123 ISDEQTEKLIEAFLDSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALLTGRNQIFLSASKAQAHVFKQYI 202 (581)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHhcCCceEEECCCHHHHHHHHHHH
Confidence 556788888888888999999999854323 4556677788999999988888888877778899999999998766666
Q ss_pred HHHhhh
Q psy2029 124 AKAAEE 129 (138)
Q Consensus 124 ~~~~~~ 129 (138)
..++..
T Consensus 203 ~~~a~~ 208 (581)
T PHA02535 203 IAFARE 208 (581)
T ss_pred HHHHHh
Confidence 666554
No 399
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.31 E-value=0.022 Score=36.92 Aligned_cols=22 Identities=27% Similarity=0.271 Sum_probs=18.3
Q ss_pred cEEEEccCCcchHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
++++.+|+|+|||..+...+..
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~ 22 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAAL 22 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999988666554
No 400
>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=95.31 E-value=0.016 Score=45.32 Aligned_cols=48 Identities=23% Similarity=0.054 Sum_probs=32.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
++++.||||||||..+.+|.+ +...+.+++.-|--+|........++.
T Consensus 46 h~lvig~tgSGKt~~~viP~l---l~~~~s~iV~D~KgEl~~~t~~~r~~~ 93 (469)
T PF02534_consen 46 HVLVIGPTGSGKTTSFVIPNL---LNYPGSMIVTDPKGELYEKTAGYRKKR 93 (469)
T ss_pred EEEEEeCCCCCccceeeHhHH---HhccCCEEEEECCCcHHHHHHHHHHHC
Confidence 689999999999998877754 333446666667666655444444433
No 401
>KOG0953|consensus
Probab=95.31 E-value=0.025 Score=45.20 Aligned_cols=58 Identities=26% Similarity=0.360 Sum_probs=43.3
Q ss_pred hhhhc--cceE-EEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCc
Q psy2029 70 EMIQN--KNCV-LSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 70 ~~~~~--~~~i-i~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~ 132 (138)
|..+. +.++ =+-||-+|||..| ++++.+ -++.+|--|++.|+.|+++.+.+...+.++
T Consensus 184 P~AR~~~RkIi~H~GPTNSGKTy~A----Lqrl~~-aksGvycGPLrLLA~EV~~r~na~gipCdL 244 (700)
T KOG0953|consen 184 PEARKIRRKIIMHVGPTNSGKTYRA----LQRLKS-AKSGVYCGPLRLLAHEVYDRLNALGIPCDL 244 (700)
T ss_pred chhHhhhheEEEEeCCCCCchhHHH----HHHHhh-hccceecchHHHHHHHHHHHhhhcCCCccc
Confidence 44554 5555 4669999999666 455544 456799999999999999999998665544
No 402
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=95.29 E-value=0.017 Score=39.63 Aligned_cols=20 Identities=35% Similarity=0.277 Sum_probs=17.5
Q ss_pred CCCccEEEEccCCcchHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVG 21 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~ 21 (138)
..|+++++++|||||||...
T Consensus 23 ~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 23 EARKNILISGGTGSGKTTLL 42 (186)
T ss_pred hCCCEEEEECCCCCCHHHHH
Confidence 35789999999999999775
No 403
>PRK08006 replicative DNA helicase; Provisional
Probab=95.24 E-value=1.2 Score=35.31 Aligned_cols=130 Identities=14% Similarity=0.094 Sum_probs=68.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHHH----Hh-----h--hhhhhh--HH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKAA----EE-----F--KFYLEG--KC 68 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~~----~~-----~--~~~~Q~--~~ 68 (138)
.|.=+++-|.+|+|||..++-.+.+...+.+.+++|+.. ++. .|...++.... .. . .-.|+. .+
T Consensus 223 ~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSl--EM~~~ql~~Rlla~~~~v~~~~i~~~~l~~~e~~~~~~a 300 (471)
T PRK08006 223 PSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSL--EMPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGT 300 (471)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEec--cCCHHHHHHHHHHHhcCCCHHHhhcCCCCHHHHHHHHHH
Confidence 345568899999999999877776654445667776642 111 23333332210 00 0 011111 11
Q ss_pred Hhhh-hccceEEEeecCCCchHhHHHHHHHHHHh-C-CCeEEEEccchhH------------HHHHHHHHHHHhhhcCce
Q psy2029 69 LEMI-QNKNCVLSIPTSGGKTLVGEILIMKELKI-K-QKSAIFILPYISL------------VHEKYQSLAKAAEEFKFY 133 (138)
Q Consensus 69 ~~~~-~~~~~ii~~ptg~GKt~~~~~~~l~~~~~-~-~~~~~~i~P~~~l------------~~q~~~~~~~~~~~~~~~ 133 (138)
...+ .+.++.+. ..++-|..-+....+++.. + +.+.++|.....+ +.+..+.++.+++.+++.
T Consensus 301 ~~~~~~~~~l~I~--d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~~~~~~r~~ei~~isr~LK~lAkel~ip 378 (471)
T PRK08006 301 MGILLEKRNMYID--DSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAKELQVP 378 (471)
T ss_pred HHHHHhcCCEEEE--CCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHccCCCCCCCcHHHHHHHHHHHHHHHHHhCCe
Confidence 1122 22443332 3345566665556655543 2 3566666553222 345667888888888887
Q ss_pred eee
Q psy2029 134 LEV 136 (138)
Q Consensus 134 v~~ 136 (138)
|.-
T Consensus 379 Vi~ 381 (471)
T PRK08006 379 VVA 381 (471)
T ss_pred EEE
Confidence 653
No 404
>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=95.23 E-value=0.046 Score=39.02 Aligned_cols=53 Identities=15% Similarity=0.206 Sum_probs=37.8
Q ss_pred hhc-cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHH
Q psy2029 72 IQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 126 (138)
Q Consensus 72 ~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~ 126 (138)
+.. ..+++..|+|+|||..+.-.+...+ ..+.+++|+. +.+...|..+++.++
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs-~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVA-LEEHPVQVRRNMAQF 71 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEE-eeCCHHHHHHHHHHh
Confidence 444 6778999999999999976666555 4577888887 445666666655543
No 405
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.20 E-value=0.54 Score=36.66 Aligned_cols=23 Identities=35% Similarity=0.224 Sum_probs=17.7
Q ss_pred CCccEEEEccCCcchHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILI 25 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~ 25 (138)
+|+.+.+.+|||+|||......+
T Consensus 190 ~g~vi~lvGpnG~GKTTtlakLA 212 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTAKLA 212 (420)
T ss_pred CCcEEEEECCCCCCHHHHHHHHH
Confidence 46678999999999996654433
No 406
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.19 E-value=0.088 Score=45.07 Aligned_cols=56 Identities=18% Similarity=0.110 Sum_probs=45.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHHHHHHHHHHhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQSLAKAAEEF 60 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~~~l~~~~~~~ 60 (138)
++..+||=-||||||+.-...+.. +++ ...++++|+--+.|-.|..++|..++...
T Consensus 273 ~~~G~IWHtqGSGKTlTm~~~A~~-l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~ 330 (962)
T COG0610 273 GKGGYIWHTQGSGKTLTMFKLARL-LLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVA 330 (962)
T ss_pred CCceEEEeecCCchHHHHHHHHHH-HHhccCCCeEEEEechHHHHHHHHHHHHHHHHhh
Confidence 467899999999999987666554 333 46699999999999999999999986544
No 407
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=95.19 E-value=0.034 Score=44.77 Aligned_cols=31 Identities=19% Similarity=0.222 Sum_probs=21.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeE
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSA 36 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~ 36 (138)
..+++++|||||||... ++++..+.+...++
T Consensus 317 Glilv~G~tGSGKTTtl-~a~l~~~~~~~~~i 347 (564)
T TIGR02538 317 GMVLVTGPTGSGKTVSL-YTALNILNTEEVNI 347 (564)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHhhCCCCceE
Confidence 46799999999999775 55555553333333
No 408
>KOG1131|consensus
Probab=95.16 E-value=0.09 Score=41.95 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=34.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh---cCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~---~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
.+.++++.+|+|+|||..-+..+....+. .-.|.+|..-+..-.+....+++.
T Consensus 34 akGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~ 89 (755)
T KOG1131|consen 34 AKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKR 89 (755)
T ss_pred cCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHH
Confidence 35689999999999998776655544444 234778876655433333444433
No 409
>KOG1802|consensus
Probab=95.15 E-value=0.044 Score=44.78 Aligned_cols=54 Identities=19% Similarity=0.220 Sum_probs=39.1
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-cCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-KQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+..-.++.+|.|+|||..... +.+|+.+ ..+++|++.|..--++|+.+.+.+.+
T Consensus 424 ~rplsLIQGPPGTGKTvtsa~-IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tg 478 (935)
T KOG1802|consen 424 QRPLSLIQGPPGTGKTVTSAT-IVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTG 478 (935)
T ss_pred cCCceeeecCCCCCceehhHH-HHHHHHHhcCCceEEEcccchhHHHHHHHHHhcC
Confidence 334458999999999988744 4445555 57799999998776777776665543
No 410
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=95.14 E-value=0.14 Score=35.50 Aligned_cols=59 Identities=20% Similarity=0.182 Sum_probs=39.7
Q ss_pred hhhhHHHhhhh-c--cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHH
Q psy2029 63 YLEGKCLEMIQ-N--KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQS 122 (138)
Q Consensus 63 ~~Q~~~~~~~~-~--~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~ 122 (138)
+-|..++..+. . +-.++..|.|+|||... -.+.+.+...+.++++++|+..-+.+..+.
T Consensus 4 ~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 4 EEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEAAGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHHTT--EEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHhCCCeEEEECCcHHHHHHHHHh
Confidence 44666665453 3 34568899999999764 445555555678999999998877665544
No 411
>PRK00131 aroK shikimate kinase; Reviewed
Probab=95.11 E-value=0.028 Score=37.58 Aligned_cols=26 Identities=31% Similarity=0.416 Sum_probs=21.4
Q ss_pred CCCCccEEEEccCCcchHHHHHHHHH
Q psy2029 1 MVQNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 1 ~~~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
|.++.++++++|.|||||.++...+-
T Consensus 1 ~~~~~~i~l~G~~GsGKstla~~La~ 26 (175)
T PRK00131 1 MLKGPNIVLIGFMGAGKSTIGRLLAK 26 (175)
T ss_pred CCCCCeEEEEcCCCCCHHHHHHHHHH
Confidence 56788999999999999999855444
No 412
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.09 E-value=0.072 Score=41.74 Aligned_cols=36 Identities=17% Similarity=0.222 Sum_probs=26.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+.+++++|+|+|||..+- ++...+...+.+++|+..
T Consensus 142 npl~L~G~~G~GKTHLl~-Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQ-AAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHH-HHHHHHHHcCCCEEEeeH
Confidence 358999999999998874 444445556788888754
No 413
>PRK06749 replicative DNA helicase; Provisional
Probab=95.08 E-value=0.97 Score=35.33 Aligned_cols=131 Identities=15% Similarity=0.084 Sum_probs=65.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhH-HHHHHHHHHHH----Hhhhhh----h-hhHH--H-
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV-HEKYQSLAKAA----EEFKFY----L-EGKC--L- 69 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~-~q~~~~l~~~~----~~~~~~----~-Q~~~--~- 69 (138)
.|.=+++-|.+|+|||..+.-.+.... ..+.+++++.. ++. .|...++.... ...... . +.++ +
T Consensus 185 ~G~LiiIaarPgmGKTafal~ia~~~a-~~g~~v~~fSl--EMs~~ql~~R~ls~~~~i~~~~l~~~~~~l~~~e~~~~~ 261 (428)
T PRK06749 185 EGDFVVLGARPSMGKTAFALNVGLHAA-KSGAAVGLFSL--EMSSKQLLKRMASCVGEVSGGRLKNPKHRFAMEDWEKVS 261 (428)
T ss_pred CCcEEEEEeCCCCCchHHHHHHHHHHH-hcCCCEEEEEe--eCCHHHHHHHHHHhccCCCHHHHhcCcccCCHHHHHHHH
Confidence 355578899999999999876666544 34666666542 111 23333322210 000000 0 1111 1
Q ss_pred hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhC-CC-e-EEEEccchhH-------------HHHHHHHHHHHhhhcCc
Q psy2029 70 EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIK-QK-S-AIFILPYISL-------------VHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 70 ~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~-~~-~-~~~i~P~~~l-------------~~q~~~~~~~~~~~~~~ 132 (138)
..... .+.-+.....++-|+.-+...++++... +. . .++|....-+ +.++.+.++.+++++++
T Consensus 262 ~a~~~l~~~~i~i~d~~~~t~~~I~~~~r~~~~~~~~~~~lvvIDyLqli~~~~~~~~~r~~ei~~isr~LK~lAkel~v 341 (428)
T PRK06749 262 KAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKKILIIVDYLQLITGDPKHKGNRFQEISEISRKLKLLARELNV 341 (428)
T ss_pred HHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCcEEEEeChhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 11111 2222333445666666666666666542 32 2 4444332211 23467778888888888
Q ss_pred eeee
Q psy2029 133 YLEV 136 (138)
Q Consensus 133 ~v~~ 136 (138)
.|.-
T Consensus 342 pVi~ 345 (428)
T PRK06749 342 CVVA 345 (428)
T ss_pred eEEE
Confidence 7653
No 414
>PRK10536 hypothetical protein; Provisional
Probab=95.08 E-value=0.041 Score=40.04 Aligned_cols=53 Identities=17% Similarity=0.154 Sum_probs=37.5
Q ss_pred hhhhhHHHhhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC-CeEEEEccchh
Q psy2029 62 FYLEGKCLEMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYIS 114 (138)
Q Consensus 62 ~~~Q~~~~~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~-~~~~~i~P~~~ 114 (138)
...|......+.+ ..+++..|.|+|||+.+....++.+.++. .++++.-|..+
T Consensus 61 n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 61 NEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred CHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 3446655565666 77789999999999999888887775533 45666656543
No 415
>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=95.05 E-value=0.012 Score=44.89 Aligned_cols=47 Identities=15% Similarity=0.020 Sum_probs=32.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
++++.||||||||..+.+|.+ ++..+.++++-|.-++........++
T Consensus 1 H~lv~g~tGsGKt~~~viP~l---l~~~~s~vv~D~Kge~~~~t~~~r~~ 47 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNL---LTWPGSVVVLDPKGENFELTSEHRRA 47 (384)
T ss_pred CeeEecCCCCCCccEEEccch---hcCCCCEEEEccchhHHHHHHHHHHH
Confidence 478999999999988766643 23456777777877776554444333
No 416
>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=95.00 E-value=0.025 Score=38.48 Aligned_cols=39 Identities=21% Similarity=0.249 Sum_probs=24.1
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS 44 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a 44 (138)
.++++.+|||+|||..+...+-. +--.+.+.+...-...
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~-l~~~~~~~~~~~d~s~ 42 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAEL-LFVGSERPLIRIDMSE 42 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHH-HT-SSCCEEEEEEGGG
T ss_pred EEEEEECCCCCCHHHHHHHHHHH-hccCCccchHHHhhhc
Confidence 47899999999999887554443 2202334454444333
No 417
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=94.99 E-value=0.17 Score=43.18 Aligned_cols=61 Identities=15% Similarity=0.103 Sum_probs=49.9
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..-+..+.||.|||+++.+|+.-.++. ++.+=+|...--|+.--++....++..+|+.|+.
T Consensus 152 ~G~IAEM~TGEGKTLvatlp~yLnAL~-G~gVHvVTvNDYLA~RDaewm~p~y~flGLtVg~ 212 (1025)
T PRK12900 152 SGKISEMATGEGKTLVSTLPTFLNALT-GRGVHVVTVNDYLAQRDKEWMNPVFEFHGLSVGV 212 (1025)
T ss_pred cCCccccCCCCCcchHhHHHHHHHHHc-CCCcEEEeechHhhhhhHHHHHHHHHHhCCeeee
Confidence 444678999999999999999777765 4555566677779999999999999999998864
No 418
>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=94.95 E-value=0.028 Score=35.38 Aligned_cols=20 Identities=25% Similarity=0.385 Sum_probs=16.5
Q ss_pred EEEEccCCcchHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~ 26 (138)
++|.+|+|||||.++-..+-
T Consensus 2 I~I~G~~gsGKST~a~~La~ 21 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAE 21 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57999999999999855544
No 419
>KOG0953|consensus
Probab=94.93 E-value=0.04 Score=44.06 Aligned_cols=51 Identities=31% Similarity=0.377 Sum_probs=40.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHHHh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 59 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~~~ 59 (138)
.+-++=++||-||||.-| ++++.+ -++.+|.-|++-|..+.++.+...+..
T Consensus 191 RkIi~H~GPTNSGKTy~A----Lqrl~~-aksGvycGPLrLLA~EV~~r~na~gip 241 (700)
T KOG0953|consen 191 RKIIMHVGPTNSGKTYRA----LQRLKS-AKSGVYCGPLRLLAHEVYDRLNALGIP 241 (700)
T ss_pred heEEEEeCCCCCchhHHH----HHHHhh-hccceecchHHHHHHHHHHHhhhcCCC
Confidence 445667899999999876 445543 567799999999999999998887653
No 420
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=94.89 E-value=0.067 Score=38.79 Aligned_cols=50 Identities=16% Similarity=0.077 Sum_probs=34.9
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhhHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISLVHEKYQSLAK 55 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL~~q~~~~l~~ 55 (138)
-.=+++|.|+|||-.++..+...++. .+++++|+--...+..+...++.+
T Consensus 40 itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~ 94 (256)
T PF08423_consen 40 ITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAE 94 (256)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHH
T ss_pred EEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhh
Confidence 34589999999999987776665544 256999997655566665555544
No 421
>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=94.87 E-value=0.21 Score=35.67 Aligned_cols=23 Identities=22% Similarity=0.300 Sum_probs=18.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
.++++++|.|.|||..|.+.+-+
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e 73 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANE 73 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHH
T ss_pred ceEEEECCCccchhHHHHHHHhc
Confidence 37899999999999998766554
No 422
>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=94.87 E-value=0.023 Score=41.24 Aligned_cols=25 Identities=20% Similarity=0.124 Sum_probs=20.8
Q ss_pred CCCccEEEEccCCcchHHHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
..|.++++.+|+|+|||.++...+.
T Consensus 19 ~~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 19 KSGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred hcCCeEEEEcCCCCCHHHHHHHHHH
Confidence 3577999999999999999866554
No 423
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.86 E-value=0.11 Score=40.58 Aligned_cols=42 Identities=10% Similarity=0.051 Sum_probs=27.7
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHE 48 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q 48 (138)
..+++++|+|+|||..+...... +..+ +.+++|+.. ..+.++
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~-~~~~~~~~~v~yi~~-~~~~~~ 192 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNY-ILEKNPNAKVVYVTS-EKFTND 192 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH-HHHhCCCCeEEEEEH-HHHHHH
Confidence 45899999999999887554443 4443 567777643 334333
No 424
>PRK11054 helD DNA helicase IV; Provisional
Probab=94.85 E-value=0.082 Score=43.62 Aligned_cols=53 Identities=11% Similarity=-0.013 Sum_probs=39.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhh---cCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~---~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..+++|.|..|||||.+...-+...+.. ...+++.++.++...++..+++.+.
T Consensus 209 ~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~ 264 (684)
T PRK11054 209 EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRER 264 (684)
T ss_pred CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHh
Confidence 4578999999999998876555443322 2348999999998888777777653
No 425
>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=94.83 E-value=0.087 Score=39.86 Aligned_cols=50 Identities=22% Similarity=0.250 Sum_probs=38.8
Q ss_pred eEEEeecCCCchHhHHHHHHHHH--HhCCCeEEEEccchhHHHHHHHHHHHHh
Q psy2029 77 CVLSIPTSGGKTLVGEILIMKEL--KIKQKSAIFILPYISLVHEKYQSLAKAA 127 (138)
Q Consensus 77 ~ii~~ptg~GKt~~~~~~~l~~~--~~~~~~~~~i~P~~~l~~q~~~~~~~~~ 127 (138)
++|.-..|+|||+++.. .+.++ ...+.+++|+++..+|.....+.+.+..
T Consensus 4 ~~I~G~aGTGKTvla~~-l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~ 55 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALN-LAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKY 55 (352)
T ss_pred EEEEecCCcCHHHHHHH-HHHHhhccccCCceEEEEecchHHHHHHHHHhhhc
Confidence 46778899999999954 44556 4457889999999999987777776553
No 426
>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=94.79 E-value=0.061 Score=44.88 Aligned_cols=37 Identities=19% Similarity=0.101 Sum_probs=26.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+.|++|.++||||||......+.. ++..+.+++++-|
T Consensus 430 n~n~~I~G~tGsGKS~~~~~l~~~-~~~~g~~v~iiD~ 466 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQELIVD-NLSRGGKVWVIDV 466 (797)
T ss_pred ccceEEEcCCCCCHHHHHHHHHHH-HHhCCCEEEEEeC
Confidence 358999999999999887655544 3334556666554
No 427
>KOG1123|consensus
Probab=94.78 E-value=0.023 Score=45.04 Aligned_cols=64 Identities=22% Similarity=0.250 Sum_probs=49.3
Q ss_pred hhhhhhHHHhhhh-c---cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 61 KFYLEGKCLEMIQ-N---KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 61 ~~~~Q~~~~~~~~-~---~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
..|.|..++.... + ++.++..|-|+|||++..-++.. -++++++++...-.|+|...+|..|..
T Consensus 303 iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t----ikK~clvLcts~VSVeQWkqQfk~wst 370 (776)
T KOG1123|consen 303 IRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT----IKKSCLVLCTSAVSVEQWKQQFKQWST 370 (776)
T ss_pred cCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee----ecccEEEEecCccCHHHHHHHHHhhcc
Confidence 4667888884332 2 88899999999999999654432 256778888888888999999999863
No 428
>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=94.77 E-value=0.086 Score=46.27 Aligned_cols=54 Identities=19% Similarity=0.164 Sum_probs=38.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.|+|++|+|..|||||.+..--+...+.+. -.++++++-|++-..+.-.++.+.
T Consensus 13 ~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~ 68 (1232)
T TIGR02785 13 RGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEA 68 (1232)
T ss_pred CCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHH
Confidence 477999999999999998766555544432 236888888887776665555543
No 429
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.76 E-value=0.13 Score=39.70 Aligned_cols=37 Identities=24% Similarity=0.100 Sum_probs=26.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
.++.+.+.+|+|+|||..+.-.+.. +..++.++.++.
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~-l~~~g~~V~lIt 241 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQ-LLKQNRTVGFIT 241 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH-HHHcCCeEEEEe
Confidence 3567899999999999777555544 444566776654
No 430
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=94.76 E-value=0.078 Score=45.35 Aligned_cols=61 Identities=13% Similarity=0.112 Sum_probs=50.3
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeee
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEV 136 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~ 136 (138)
..-+..+.||.|||++|.+|+.-.++. ++.+-+|...--||.--++....++..+|+.|+-
T Consensus 183 ~G~IAEM~TGEGKTLvAtlp~yLnAL~-GkgVHvVTVNDYLA~RDaewmgply~fLGLsvg~ 243 (1112)
T PRK12901 183 QGKIAEMATGEGKTLVATLPVYLNALT-GNGVHVVTVNDYLAKRDSEWMGPLYEFHGLSVDC 243 (1112)
T ss_pred CCceeeecCCCCchhHHHHHHHHHHHc-CCCcEEEEechhhhhccHHHHHHHHHHhCCceee
Confidence 555789999999999999999877775 4455666777789999999999999999998764
No 431
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=94.76 E-value=0.12 Score=42.60 Aligned_cols=53 Identities=15% Similarity=0.084 Sum_probs=39.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc---CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+..++|.|..|||||.+...-+...+.+. ..+++.++.++.-..+..+++...
T Consensus 15 ~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 15 TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHH
Confidence 45789999999999988755555433222 248899999998888777776654
No 432
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=94.71 E-value=0.057 Score=45.25 Aligned_cols=25 Identities=28% Similarity=0.444 Sum_probs=19.9
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKEL 29 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~ 29 (138)
+|.+|++|||+|||..-...+.+..
T Consensus 437 ghT~I~G~tGaGKTvLl~~llaq~~ 461 (796)
T COG3451 437 GHTLIIGPTGAGKTVLLSFLLAQAL 461 (796)
T ss_pred CCeEEECCCCCCHHHHHHHHHHHHH
Confidence 4899999999999987766655543
No 433
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=94.70 E-value=0.087 Score=44.10 Aligned_cols=60 Identities=18% Similarity=0.179 Sum_probs=41.6
Q ss_pred hhhhhhHHH-h---h-hhc-cceEEEeecCCCchHhHHHHHHHHHHh--CCCeEEEEccchhHHHHHHH
Q psy2029 61 KFYLEGKCL-E---M-IQN-KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 61 ~~~~Q~~~~-~---~-~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~~~~~~i~P~~~l~~q~~~ 121 (138)
...+|..+. + . ..+ -|+.+.+-||+|||.+++-.++ ++.. +-.|.++++|+.|.-+-++.
T Consensus 55 i~n~qs~n~I~~~~~~~~~~lNiDI~METGTGKTy~Ylrtmf-eLhk~YG~~KFIivVPs~AIkeGv~~ 122 (985)
T COG3587 55 INNIQSKNGITQGSVRIDDKLNIDILMETGTGKTYTYLRTMF-ELHKKYGLFKFIIVVPSLAIKEGVFL 122 (985)
T ss_pred HHHHHhccCCCcccccCCCcceeeEEEecCCCceeeHHHHHH-HHHHHhCceeEEEEeccHHHHhhhHH
Confidence 344566665 2 2 223 7888999999999999955444 5654 23689999999988765443
No 434
>PLN02165 adenylate isopentenyltransferase
Probab=94.69 E-value=0.034 Score=41.84 Aligned_cols=22 Identities=27% Similarity=0.277 Sum_probs=18.1
Q ss_pred CCccEEEEccCCcchHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~ 24 (138)
.|+.+++.+|||||||..+...
T Consensus 42 ~g~iivIiGPTGSGKStLA~~L 63 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRLSVDL 63 (334)
T ss_pred CCCEEEEECCCCCcHHHHHHHH
Confidence 4567899999999999888553
No 435
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=94.68 E-value=0.16 Score=41.80 Aligned_cols=66 Identities=14% Similarity=0.067 Sum_probs=50.0
Q ss_pred hhhhhHHHhhhhccceEEEeecCCCchHhHHHHHHHHHHh---CCCeEEEEccchhHHHHHHHHHHHHhh
Q psy2029 62 FYLEGKCLEMIQNKNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKAAE 128 (138)
Q Consensus 62 ~~~Q~~~~~~~~~~~~ii~~ptg~GKt~~~~~~~l~~~~~---~~~~~~~i~P~~~l~~q~~~~~~~~~~ 128 (138)
.+-|.+++.. .+.++++.+..|+|||.+....+.+.+.. .+.+++.++-|+.-+.+.-+.+.+...
T Consensus 4 n~~Q~~av~~-~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 4 NPGQQQAVEF-VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CHHHHHHHhC-CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 3446555432 23778899999999999987777765543 245799999999999999999988754
No 436
>KOG0390|consensus
Probab=94.68 E-value=0.14 Score=42.64 Aligned_cols=68 Identities=19% Similarity=0.190 Sum_probs=48.3
Q ss_pred hhhhhhhHHHhhhh----------c-cceEEEeecCCCchHhHHHHHHHHHHh--CC-----CeEEEEccchhHHHHHHH
Q psy2029 60 FKFYLEGKCLEMIQ----------N-KNCVLSIPTSGGKTLVGEILIMKELKI--KQ-----KSAIFILPYISLVHEKYQ 121 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~----------~-~~~ii~~ptg~GKt~~~~~~~l~~~~~--~~-----~~~~~i~P~~~l~~q~~~ 121 (138)
.+.|+|.+.+..++ + .-++++-..|.|||+... ..++.++. +. .+.++|+|.. |+.-..+
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~I-sflwtlLrq~P~~~~~~~k~lVV~P~s-Lv~nWkk 315 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCI-SFIWTLLRQFPQAKPLINKPLVVAPSS-LVNNWKK 315 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHH-HHHHHHHHhCcCccccccccEEEccHH-HHHHHHH
Confidence 35566666664333 3 345677778999999994 44555554 34 6899999975 8889999
Q ss_pred HHHHHhhh
Q psy2029 122 SLAKAAEE 129 (138)
Q Consensus 122 ~~~~~~~~ 129 (138)
+|.+|...
T Consensus 316 EF~KWl~~ 323 (776)
T KOG0390|consen 316 EFGKWLGN 323 (776)
T ss_pred HHHHhccc
Confidence 99999765
No 437
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=94.66 E-value=0.17 Score=41.60 Aligned_cols=50 Identities=18% Similarity=0.207 Sum_probs=40.2
Q ss_pred ceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 76 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 76 ~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
+.++..-||+|||+.... +++. .++++++|+|...++.|.+.+|+.++.+
T Consensus 31 ~~~l~Gvtgs~kt~~~a~-~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 31 HQTLLGVTGSGKTFTMAN-VIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred cEEEECCCCcHHHHHHHH-HHHH---hCCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 556888899999987643 2222 3567999999999999999999999754
No 438
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.65 E-value=0.22 Score=42.98 Aligned_cols=67 Identities=16% Similarity=0.091 Sum_probs=47.7
Q ss_pred hhhhhhHHHhhh----hc-cceEEEeecCCCchHhHHHHHHHHHHh---CCCeEEEEccchhHHHHHHHHHHHHhhh
Q psy2029 61 KFYLEGKCLEMI----QN-KNCVLSIPTSGGKTLVGEILIMKELKI---KQKSAIFILPYISLVHEKYQSLAKAAEE 129 (138)
Q Consensus 61 ~~~~Q~~~~~~~----~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~---~~~~~~~i~P~~~l~~q~~~~~~~~~~~ 129 (138)
+.++|...+..+ .. .+.+++-..|-|||+.++ .++..+.. ..++.|+|+|. +++.+..+++.+|+..
T Consensus 170 Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaI-alL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~ 244 (1033)
T PLN03142 170 MRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTI-SLLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPV 244 (1033)
T ss_pred hHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHH-HHHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCC
Confidence 566777776322 23 688999999999999874 34444433 23578999996 5677899999998643
No 439
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.65 E-value=0.39 Score=36.84 Aligned_cols=60 Identities=15% Similarity=-0.019 Sum_probs=34.8
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCC-CeEEEEccchhHHHHHHHHHHHHhhhcCceee
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQ-KSAIFILPYISLVHEKYQSLAKAAEEFKFYLE 135 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~-~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~ 135 (138)
..+.+.-|+|.|||......+.+.....+ .++.++. +...----.++++.|++..|+.+.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit-~D~~R~ga~EqL~~~a~~~gv~~~ 198 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT-TDSYRIGGHEQLRIFGKILGVPVH 198 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe-cccccccHHHHHHHHHHHcCCceE
Confidence 56679999999999988766655444434 3544443 222211123455555555666554
No 440
>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=94.64 E-value=1.2 Score=32.56 Aligned_cols=35 Identities=26% Similarity=0.136 Sum_probs=25.0
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
+-+.+++|+|+|||..+.-.+.. +.+.+.+++++.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~-l~~~g~~V~li~ 107 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANK-LKKQGKSVLLAA 107 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHH-HHhcCCEEEEEe
Confidence 45678899999999776555543 445577887764
No 441
>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=94.58 E-value=0.033 Score=40.29 Aligned_cols=22 Identities=27% Similarity=0.226 Sum_probs=18.6
Q ss_pred ccEEEEccCCcchHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
.++++.+|+|+|||.++-..+.
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHH
Confidence 4789999999999999866544
No 442
>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=94.57 E-value=0.038 Score=40.47 Aligned_cols=22 Identities=23% Similarity=0.305 Sum_probs=18.6
Q ss_pred CCccEEEEccCCcchHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~ 24 (138)
.++.+++++|+|+|||......
T Consensus 32 ~~~pvLl~G~~GtGKT~li~~~ 53 (272)
T PF12775_consen 32 NGRPVLLVGPSGTGKTSLIQNF 53 (272)
T ss_dssp CTEEEEEESSTTSSHHHHHHHH
T ss_pred cCCcEEEECCCCCchhHHHHhh
Confidence 5779999999999999876544
No 443
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=94.55 E-value=0.038 Score=42.83 Aligned_cols=23 Identities=39% Similarity=0.511 Sum_probs=19.2
Q ss_pred CccEEEEccCCcchHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
..++++.+|||+|||.++-..+.
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred CceEEEEcCCCCCHHHHHHHHHH
Confidence 46899999999999999866543
No 444
>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=94.55 E-value=0.038 Score=42.09 Aligned_cols=26 Identities=27% Similarity=0.327 Sum_probs=19.5
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKEL 29 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~ 29 (138)
.+..+++++|||||||... .+++..+
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 4568999999999999775 4444444
No 445
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=94.55 E-value=0.076 Score=40.65 Aligned_cols=35 Identities=11% Similarity=0.087 Sum_probs=22.8
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEE
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFI 39 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v 39 (138)
+..+++++|||||||... .+++.++.+ .+.+++-+
T Consensus 149 ~GlilI~G~TGSGKTT~l-~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLA-ASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHHHhcCCCceEEEE
Confidence 447899999999999775 444444433 23455544
No 446
>PF12846 AAA_10: AAA-like domain
Probab=94.54 E-value=0.13 Score=37.26 Aligned_cols=41 Identities=15% Similarity=0.148 Sum_probs=31.8
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLV 116 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~ 116 (138)
.++++..+||+|||.... .++..+...+..++++.|..+..
T Consensus 2 ~h~~i~G~tGsGKT~~~~-~l~~~~~~~g~~~~i~D~~g~~~ 42 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLK-NLLEQLIRRGPRVVIFDPKGDYS 42 (304)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHHcCCCEEEEcCCchHH
Confidence 578899999999998886 55566666688888888875444
No 447
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=94.54 E-value=0.11 Score=43.30 Aligned_cols=51 Identities=25% Similarity=0.190 Sum_probs=40.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
-.++.+|.|+|||..-.-+....+.+...+++++.--++|..+..+.+...
T Consensus 51 V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 51 VLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred eEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 458999999999987655555444456789999999999999999888765
No 448
>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=94.53 E-value=0.091 Score=38.10 Aligned_cols=56 Identities=18% Similarity=0.218 Sum_probs=36.3
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCc
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKF 132 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~ 132 (138)
.-+++..|+|+|||..+.-.+.+.+. .+.+++|+.-- +-.++..+++.+.+..+|+
T Consensus 37 s~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis~E-e~~~~~~~~l~~~a~~~g~ 92 (259)
T TIGR03878 37 SVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVTVE-SPANFVYTSLKERAKAMGV 92 (259)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEec-CCchHHHHHHHHHHHHcCC
Confidence 55578999999999999766665544 47788888743 3334444445444444444
No 449
>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=94.51 E-value=0.05 Score=34.46 Aligned_cols=31 Identities=29% Similarity=0.177 Sum_probs=21.4
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+++.+|.|+|||..+...+.. + +...+.+..
T Consensus 1 ill~G~~G~GKT~l~~~la~~-l---~~~~~~i~~ 31 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY-L---GFPFIEIDG 31 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH-T---TSEEEEEET
T ss_pred CEEECcCCCCeeHHHHHHHhh-c---ccccccccc
Confidence 578999999999998665554 2 344555443
No 450
>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=94.51 E-value=0.14 Score=39.38 Aligned_cols=36 Identities=14% Similarity=0.099 Sum_probs=25.2
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhc--CCeEEEEcc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIK--QKSAIFILP 41 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~--~~~~l~v~P 41 (138)
..+++++|+|+|||..+.. +...+.++ +.+++|+..
T Consensus 137 n~l~l~G~~G~GKThL~~a-i~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHA-IGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHH-HHHHHHHhCCCCcEEEEEH
Confidence 3578999999999988744 44444443 567888643
No 451
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.48 E-value=0.093 Score=39.32 Aligned_cols=36 Identities=19% Similarity=0.041 Sum_probs=25.1
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
++-+.+.+|+|+|||..+.-.+.. +...+++++++.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~-l~~~g~~V~Li~ 149 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHK-YKAQGKKVLLAA 149 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHH-HHhcCCeEEEEe
Confidence 456788999999999776444433 344567777764
No 452
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=94.46 E-value=0.15 Score=39.88 Aligned_cols=36 Identities=11% Similarity=0.006 Sum_probs=25.3
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILP 41 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P 41 (138)
..+++++|+|+|||..+-... ..+.+ .+.+++|+..
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~-~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIG-NYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHH-HHHHHhCCCCeEEEEEH
Confidence 368999999999998874433 34444 2458888654
No 453
>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=94.45 E-value=0.046 Score=40.21 Aligned_cols=22 Identities=18% Similarity=0.107 Sum_probs=17.9
Q ss_pred CccEEEEccCCcchHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILI 25 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~ 25 (138)
+.++++.+|+|+|||.+|...+
T Consensus 58 ~~~vll~G~pGTGKT~lA~~ia 79 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALRMA 79 (284)
T ss_pred CceEEEEcCCCCCHHHHHHHHH
Confidence 3579999999999999885443
No 454
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=94.45 E-value=0.072 Score=43.99 Aligned_cols=48 Identities=15% Similarity=0.088 Sum_probs=36.9
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQ 51 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~ 51 (138)
+..++++.+.||+|||.+. .-++..++.++.++++.-|.-++....|+
T Consensus 184 E~~H~li~GttGSGKS~~i-~~LL~~ir~RGdrAIIyD~~GeFv~~FY~ 231 (732)
T PRK13700 184 EIQNFCLHGTVGAGKSEVI-RRLANYARQRGDMVVIYDRSGEFVKSYYD 231 (732)
T ss_pred hhcceEEeCCCCCCHHHHH-HHHHHHHHHcCCeEEEEeCCCchHHHhcC
Confidence 3468899999999999965 44555566788899998888877765543
No 455
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=94.44 E-value=0.15 Score=39.46 Aligned_cols=35 Identities=9% Similarity=0.003 Sum_probs=24.2
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcc
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILP 41 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P 41 (138)
-+++++|+|+|||...-..-.. ... .+.+++|+..
T Consensus 115 plfi~G~~GlGKTHLl~Aign~-~~~~~~~a~v~y~~s 151 (408)
T COG0593 115 PLFIYGGVGLGKTHLLQAIGNE-ALANGPNARVVYLTS 151 (408)
T ss_pred cEEEECCCCCCHHHHHHHHHHH-HHhhCCCceEEeccH
Confidence 4689999999999876443333 333 3458888775
No 456
>CHL00181 cbbX CbbX; Provisional
Probab=94.43 E-value=0.042 Score=40.52 Aligned_cols=24 Identities=17% Similarity=0.048 Sum_probs=19.8
Q ss_pred CccEEEEccCCcchHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
|.++++.+|+|+|||.+|-..+..
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHHH
Confidence 557899999999999999666543
No 457
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=94.42 E-value=0.077 Score=41.53 Aligned_cols=56 Identities=23% Similarity=0.097 Sum_probs=40.5
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
.++++..|||+|||....+|.+- ..+..+++..|--+|....+...++. |-+|..+
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll---~~~~s~iV~D~KgEl~~~t~~~r~~~----G~~V~vl 100 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL---NYPGSMIVTDPKGELYEKTAGYRKKR----GYKVYVL 100 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH---hccCCEEEEECCCcHHHHHHHHHHHC----CCEEEEe
Confidence 36899999999999998877653 33457888889888876666555554 4455444
No 458
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=94.40 E-value=0.055 Score=34.13 Aligned_cols=21 Identities=24% Similarity=0.183 Sum_probs=17.0
Q ss_pred EEEEccCCcchHHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~ 27 (138)
+++.+++|+|||.++......
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 478999999999998665554
No 459
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=94.38 E-value=0.043 Score=42.53 Aligned_cols=22 Identities=41% Similarity=0.560 Sum_probs=18.7
Q ss_pred CccEEEEccCCcchHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILI 25 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~ 25 (138)
..++++.+|||+|||..+-..+
T Consensus 116 ~~~iLL~GP~GsGKT~lAraLA 137 (413)
T TIGR00382 116 KSNILLIGPTGSGKTLLAQTLA 137 (413)
T ss_pred CceEEEECCCCcCHHHHHHHHH
Confidence 4689999999999999986554
No 460
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=94.38 E-value=0.039 Score=45.32 Aligned_cols=50 Identities=18% Similarity=0.073 Sum_probs=0.0
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
.++++.||||||||..+.+| ++++..+.++++-|.-++-.......+..|
T Consensus 140 ~hvlviApTgSGKgvg~VIP---nLL~~~gS~VV~DpKGE~~~~Ta~~R~~~G 189 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIP---TLLTFKGSVIALDVKGELFELTSRARKASG 189 (670)
T ss_pred ceEEEEecCCCCceeeehHh---HHhcCCCCEEEEeCCchHHHHHHHHHHhCC
No 461
>PRK00300 gmk guanylate kinase; Provisional
Probab=94.37 E-value=0.053 Score=37.51 Aligned_cols=23 Identities=30% Similarity=0.316 Sum_probs=18.6
Q ss_pred CCCccEEEEccCCcchHHHHHHH
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~ 24 (138)
-.|.-+++.+|+|||||..+...
T Consensus 3 ~~g~~i~i~G~sGsGKstl~~~l 25 (205)
T PRK00300 3 RRGLLIVLSGPSGAGKSTLVKAL 25 (205)
T ss_pred CCCCEEEEECCCCCCHHHHHHHH
Confidence 46778899999999999776443
No 462
>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=94.34 E-value=0.059 Score=42.67 Aligned_cols=33 Identities=18% Similarity=0.270 Sum_probs=21.4
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEE
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFI 39 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v 39 (138)
-+++++|||||||... .+++..+...+.+++.+
T Consensus 244 lilitGptGSGKTTtL-~a~L~~l~~~~~~iiTi 276 (486)
T TIGR02533 244 IILVTGPTGSGKTTTL-YAALSRLNTPERNILTV 276 (486)
T ss_pred EEEEEcCCCCCHHHHH-HHHHhccCCCCCcEEEE
Confidence 4789999999999875 44455443333344443
No 463
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=94.28 E-value=0.037 Score=44.95 Aligned_cols=23 Identities=26% Similarity=0.234 Sum_probs=19.5
Q ss_pred ccEEEEccCCcchHHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
.++++.||||||||..+.+|.+-
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHH
Confidence 47899999999999988777554
No 464
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=94.28 E-value=0.092 Score=44.38 Aligned_cols=36 Identities=17% Similarity=0.052 Sum_probs=22.8
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
.|.+|.+|||+|||......+.+...-.+.+++++-
T Consensus 489 gh~~I~G~tGsGKS~l~~~L~~~~~k~~~~~v~i~D 524 (852)
T PRK13891 489 GHTFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFD 524 (852)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEEc
Confidence 368999999999998876555543321233444333
No 465
>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=94.26 E-value=0.21 Score=35.32 Aligned_cols=35 Identities=23% Similarity=0.208 Sum_probs=23.6
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcc
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILP 41 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P 41 (138)
.+.+++|+|+|||... .++...+.+ ++.+++|+..
T Consensus 36 ~l~l~G~~G~GKTHLL-~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLL-QAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp EEEEEESTTSSHHHHH-HHHHHHHHHHCTTS-EEEEEH
T ss_pred ceEEECCCCCCHHHHH-HHHHHHHHhccccccceeecH
Confidence 4799999999999864 344444443 4678888653
No 466
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.25 E-value=0.08 Score=46.41 Aligned_cols=41 Identities=15% Similarity=-0.002 Sum_probs=24.0
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhh
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYIS 44 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~a 44 (138)
+..++++|+||||||..-....+..-....++++...|-+-
T Consensus 82 ~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRl 122 (1283)
T TIGR01967 82 NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRL 122 (1283)
T ss_pred CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHH
Confidence 34668999999999986443333321112235555566443
No 467
>KOG2028|consensus
Probab=94.21 E-value=0.62 Score=35.99 Aligned_cols=19 Identities=26% Similarity=0.450 Sum_probs=16.2
Q ss_pred cEEEEccCCcchHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~ 24 (138)
++|+|+|.|+|||..|-+.
T Consensus 164 SmIlWGppG~GKTtlArli 182 (554)
T KOG2028|consen 164 SMILWGPPGTGKTTLARLI 182 (554)
T ss_pred ceEEecCCCCchHHHHHHH
Confidence 6899999999999887443
No 468
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.15 E-value=0.14 Score=37.07 Aligned_cols=49 Identities=27% Similarity=0.299 Sum_probs=38.1
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 125 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~ 125 (138)
.|+++.-|.|.|||-.+ .++..++. ..+..++.+++.+++.+....+..
T Consensus 106 ~nl~l~G~~G~GKThLa-~Ai~~~l~-~~g~sv~f~~~~el~~~Lk~~~~~ 154 (254)
T COG1484 106 ENLVLLGPPGVGKTHLA-IAIGNELL-KAGISVLFITAPDLLSKLKAAFDE 154 (254)
T ss_pred CcEEEECCCCCcHHHHH-HHHHHHHH-HcCCeEEEEEHHHHHHHHHHHHhc
Confidence 79999999999999999 44555666 455567778999999887776653
No 469
>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=94.15 E-value=0.039 Score=35.70 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=15.0
Q ss_pred EEEEccCCcchHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~ 24 (138)
+++++|.|||||..+...
T Consensus 2 ii~~G~pgsGKSt~a~~l 19 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRL 19 (143)
T ss_dssp EEEEESTTSSHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 589999999999887443
No 470
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=94.14 E-value=0.059 Score=41.17 Aligned_cols=47 Identities=15% Similarity=0.020 Sum_probs=35.5
Q ss_pred ceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHH
Q psy2029 76 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAK 125 (138)
Q Consensus 76 ~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~ 125 (138)
++++..|||+|||....+|-+- ..+..++++.|--++.+..+...++
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll---~~~~s~vv~D~Kge~~~~t~~~r~~ 47 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL---TWPGSVVVLDPKGENFELTSEHRRA 47 (384)
T ss_pred CeeEecCCCCCCccEEEccchh---cCCCCEEEEccchhHHHHHHHHHHH
Confidence 4688999999999888776554 2457889999998888666555543
No 471
>PHA00729 NTP-binding motif containing protein
Probab=94.14 E-value=0.18 Score=35.96 Aligned_cols=22 Identities=18% Similarity=0.057 Sum_probs=18.0
Q ss_pred ccEEEEccCCcchHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
.|+++.+|+|+|||..|...+.
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~ 39 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVAR 39 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 4789999999999988855444
No 472
>PHA02244 ATPase-like protein
Probab=94.11 E-value=0.055 Score=41.42 Aligned_cols=24 Identities=21% Similarity=0.194 Sum_probs=19.8
Q ss_pred CCccEEEEccCCcchHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
.+.++++.+|||+|||.++...+.
T Consensus 118 ~~~PVLL~GppGtGKTtLA~aLA~ 141 (383)
T PHA02244 118 ANIPVFLKGGAGSGKNHIAEQIAE 141 (383)
T ss_pred cCCCEEEECCCCCCHHHHHHHHHH
Confidence 467899999999999988866544
No 473
>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=94.09 E-value=0.084 Score=39.43 Aligned_cols=37 Identities=16% Similarity=0.169 Sum_probs=23.9
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEc
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFIL 40 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~ 40 (138)
.+++++++++|||||||..- .+++ .++....|.+.+-
T Consensus 141 e~~~siii~G~t~sGKTt~l-nall-~~Ip~~~rivtIE 177 (312)
T COG0630 141 EARKSIIICGGTASGKTTLL-NALL-DFIPPEERIVTIE 177 (312)
T ss_pred HcCCcEEEECCCCCCHHHHH-HHHH-HhCCchhcEEEEe
Confidence 35789999999999999663 2222 2334444555543
No 474
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=94.08 E-value=0.18 Score=41.50 Aligned_cols=48 Identities=19% Similarity=0.171 Sum_probs=38.1
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAA 57 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~~ 57 (138)
+-++.+-||||||+...-.+ . +.++.+++++|.+.+..|.+++++.++
T Consensus 31 ~~~l~Gvtgs~kt~~~a~~~-~---~~~~p~Lvi~~n~~~A~ql~~el~~f~ 78 (655)
T TIGR00631 31 HQTLLGVTGSGKTFTMANVI-A---QVNRPTLVIAHNKTLAAQLYNEFKEFF 78 (655)
T ss_pred cEEEECCCCcHHHHHHHHHH-H---HhCCCEEEEECCHHHHHHHHHHHHHhC
Confidence 45689999999998753322 2 236788999999999999999998874
No 475
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=94.07 E-value=0.17 Score=41.41 Aligned_cols=53 Identities=17% Similarity=0.088 Sum_probs=38.3
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhhc---CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKIK---QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~~---~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+.+++|.|..|||||.+...-+...+.+. ..+++.++.++.-..+..+++.+.
T Consensus 14 ~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 14 TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHH
Confidence 45899999999999988766565544332 247788888887777777776653
No 476
>KOG1803|consensus
Probab=94.05 E-value=0.2 Score=40.48 Aligned_cols=64 Identities=19% Similarity=0.159 Sum_probs=46.8
Q ss_pred hhhhhhhHHHhhhhc-cc-eEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHH
Q psy2029 60 FKFYLEGKCLEMIQN-KN-CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLA 124 (138)
Q Consensus 60 ~~~~~Q~~~~~~~~~-~~-~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~ 124 (138)
.+.+.|..+.....+ ++ .++--|.|+|||..-...+ .++..++.++++.+|+..-++-+.+.+.
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI-~qlvk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEII-SQLVKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHH-HHHHHcCCeEEEEcCchHHHHHHHHHhc
Confidence 345567777765555 33 4688999999998875544 4555568999999999988877777544
No 477
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=94.04 E-value=0.21 Score=41.42 Aligned_cols=52 Identities=17% Similarity=-0.003 Sum_probs=39.2
Q ss_pred CccEEEEccCCcchHHHHHHHHHHHHhh-c---CCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEILIMKELKI-K---QKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~~~~~~~~-~---~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
..+++|.|..|||||.+...=+.. +++ . ..+++.++.++.-..+..+++.+.
T Consensus 22 ~g~~lV~AgaGSGKT~vl~~Ria~-Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~ 77 (721)
T PRK11773 22 LGNMLVLAGAGSGKTRVLVHRIAW-LMQVENASPYSIMAVTFTNKAAAEMRHRIEQL 77 (721)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHH-HHHcCCCChhHeEeeeccHHHHHHHHHHHHHH
Confidence 358899999999999887555554 443 2 348899999998888877777664
No 478
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=94.04 E-value=0.096 Score=44.00 Aligned_cols=22 Identities=18% Similarity=0.446 Sum_probs=17.8
Q ss_pred cEEEEccCCcchHHHHHHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
|.+|.+|||||||......+.+
T Consensus 443 n~~I~G~tGsGKS~l~~~l~~~ 464 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLALMALQ 464 (811)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 8899999999999877554443
No 479
>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=94.04 E-value=0.11 Score=37.34 Aligned_cols=36 Identities=25% Similarity=0.236 Sum_probs=23.9
Q ss_pred ccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
-+++|.+|+|||||...... +.++...-..+++++|
T Consensus 14 fr~viIG~sGSGKT~li~~l-L~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKSL-LYYLRHKFDHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHHHHHH-HHhhcccCCEEEEEec
Confidence 37899999999999876443 3444433345555566
No 480
>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=93.99 E-value=0.22 Score=35.64 Aligned_cols=53 Identities=19% Similarity=0.190 Sum_probs=38.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
+|+|.+..+-.|.|||-+- .|++...+.++.+.+.++=.++|.+|..+.+...
T Consensus 40 ~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg~~LvrviVpk~Ll~q~~~~L~~~ 92 (229)
T PF12340_consen 40 SGKNSVMQLNMGEGKTSVI-VPMLALALADGSRLVRVIVPKALLEQMRQMLRSR 92 (229)
T ss_pred CCCCeEeeecccCCccchH-HHHHHHHHcCCCcEEEEEcCHHHHHHHHHHHHHH
Confidence 4789999999999999774 5555445555666655555567888887777665
No 481
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=93.99 E-value=0.24 Score=40.35 Aligned_cols=43 Identities=9% Similarity=-0.052 Sum_probs=27.5
Q ss_pred cEEEEccCCcchHHHHHHHHHHHHhh--cCCeEEEEcchhhhHHHHH
Q psy2029 6 NCVLSIPTSGGKTLVGEILIMKELKI--KQKSAIFILPYISLVHEKY 50 (138)
Q Consensus 6 ~~~~~~ptg~GKt~~~~~~~~~~~~~--~~~~~l~v~P~~aL~~q~~ 50 (138)
.+++++++|+|||..+-..... +.. .+.+++|+. ...+.++..
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~-a~~~~~g~~V~Yit-aeef~~el~ 360 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHY-ARRLYPGTRVRYVS-SEEFTNEFI 360 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHH-HHHhCCCCeEEEee-HHHHHHHHH
Confidence 4899999999999886444333 332 366888854 344444433
No 482
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=93.98 E-value=0.075 Score=37.69 Aligned_cols=22 Identities=32% Similarity=0.353 Sum_probs=17.0
Q ss_pred EEEEccCCcchHHHHHHHHHHH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKE 28 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~ 28 (138)
.++.+|||+|||..+...+.+.
T Consensus 4 ~~i~GpT~tGKt~~ai~lA~~~ 25 (233)
T PF01745_consen 4 YLIVGPTGTGKTALAIALAQKT 25 (233)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCChhHHHHHHHHHh
Confidence 4789999999999987766653
No 483
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=93.94 E-value=0.054 Score=40.41 Aligned_cols=22 Identities=36% Similarity=0.335 Sum_probs=17.4
Q ss_pred ccEEEEccCCcchHHHHHHHHH
Q psy2029 5 KNCVLSIPTSGGKTLVGEILIM 26 (138)
Q Consensus 5 ~~~~~~~ptg~GKt~~~~~~~~ 26 (138)
.-+++++|||||||.++.-.+-
T Consensus 5 ~~i~i~GptgsGKt~la~~la~ 26 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIELAK 26 (307)
T ss_pred eEEEEECCCCcCHHHHHHHHHH
Confidence 3468999999999998865443
No 484
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=93.94 E-value=0.29 Score=31.77 Aligned_cols=20 Identities=20% Similarity=0.218 Sum_probs=16.6
Q ss_pred EEEccCCcchHHHHHHHHHH
Q psy2029 8 VLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 8 ~~~~ptg~GKt~~~~~~~~~ 27 (138)
.+.+|||+|||.++-+.+..
T Consensus 57 SfHG~tGtGKn~v~~liA~~ 76 (127)
T PF06309_consen 57 SFHGWTGTGKNFVSRLIAEH 76 (127)
T ss_pred EeecCCCCcHHHHHHHHHHH
Confidence 47899999999999776654
No 485
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=93.94 E-value=0.075 Score=40.60 Aligned_cols=40 Identities=18% Similarity=0.213 Sum_probs=30.6
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcC--CeEEEEcchhhhH
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQ--KSAIFILPYISLV 46 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~--~~~l~v~P~~aL~ 46 (138)
+.+.++.|+|||+.|+.+.+....+++ .|+++.=|+..+-
T Consensus 248 V~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG 289 (436)
T COG1875 248 VSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVG 289 (436)
T ss_pred EEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcc
Confidence 567899999999999999887776643 3666666766654
No 486
>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=93.92 E-value=0.17 Score=34.69 Aligned_cols=44 Identities=30% Similarity=0.308 Sum_probs=29.8
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHH
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKY 120 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~ 120 (138)
.++++.-|+|.|||..+.. +..++...+.+++| ++...|+++..
T Consensus 48 ~~l~l~G~~G~GKThLa~a-i~~~~~~~g~~v~f-~~~~~L~~~l~ 91 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVA-IANEAIRKGYSVLF-ITASDLLDELK 91 (178)
T ss_dssp -EEEEEESTTSSHHHHHHH-HHHHHHHTT--EEE-EEHHHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHH-HHHHhccCCcceeE-eecCceecccc
Confidence 8899999999999999844 45556655555555 56777775543
No 487
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=93.92 E-value=0.16 Score=44.29 Aligned_cols=54 Identities=11% Similarity=0.107 Sum_probs=39.6
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcC----CeEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQ----KSAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~----~~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+.+++|.|-.|||||.+-..-++.-++..+ .++++++.|++=..+...++.+.
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~ 72 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDR 72 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHH
Confidence 3568999999999999887666676666643 37899998887666555554443
No 488
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=93.91 E-value=0.22 Score=41.30 Aligned_cols=54 Identities=17% Similarity=0.046 Sum_probs=0.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCC---eEEEEcchhhhHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQK---SAIFILPYISLVHEKYQSLAKA 56 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~---~~l~v~P~~aL~~q~~~~l~~~ 56 (138)
.+.+++|.|..|||||.+...=+..-+.+.+. +++.++.++.-..+..+++...
T Consensus 16 ~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~ 72 (715)
T TIGR01075 16 PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGAL 72 (715)
T ss_pred CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHH
No 489
>PF13173 AAA_14: AAA domain
Probab=93.88 E-value=0.12 Score=33.08 Aligned_cols=35 Identities=26% Similarity=0.311 Sum_probs=25.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEE
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFI 39 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v 39 (138)
+++-+++.+|.|+|||......+.... ...+++|+
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi 35 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYI 35 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHhc--ccccceee
Confidence 456789999999999988766555432 34566775
No 490
>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=93.88 E-value=0.16 Score=33.92 Aligned_cols=34 Identities=26% Similarity=0.219 Sum_probs=23.0
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcc
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILP 41 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P 41 (138)
+.+++++|+|||.+....+. .+.+++.++-++-+
T Consensus 2 i~i~G~~gsGKTtl~~~l~~-~l~~~G~~V~viK~ 35 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVK-ALKARGYRVATIKH 35 (155)
T ss_pred EEEECCCCCCHHHHHHHHHH-HHHhcCCeEEEEec
Confidence 46789999999988654444 34455657766543
No 491
>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=93.75 E-value=0.13 Score=39.12 Aligned_cols=41 Identities=20% Similarity=0.289 Sum_probs=29.5
Q ss_pred CCCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchh
Q psy2029 2 VQNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYI 43 (138)
Q Consensus 2 ~~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~ 43 (138)
.++.++.+.+|-|+|||.+.-... ..+...+..++.++|+-
T Consensus 20 ~~~~~~fv~G~~GtGKs~l~~~i~-~~~~~~~~~~~~~a~tg 60 (364)
T PF05970_consen 20 EEGLNFFVTGPAGTGKSFLIKAII-DYLRSRGKKVLVTAPTG 60 (364)
T ss_pred cCCcEEEEEcCCCCChhHHHHHHH-HHhccccceEEEecchH
Confidence 357789999999999998864332 23444566778888865
No 492
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.71 E-value=0.2 Score=44.07 Aligned_cols=63 Identities=13% Similarity=0.069 Sum_probs=38.8
Q ss_pred hhhhc-cceEEEeecCCCchHhHHHHHHHHHHhCC--CeEEEEcc----chhHHHHHHHHHHH-HhhhcCcee
Q psy2029 70 EMIQN-KNCVLSIPTSGGKTLVGEILIMKELKIKQ--KSAIFILP----YISLVHEKYQSLAK-AAEEFKFYL 134 (138)
Q Consensus 70 ~~~~~-~~~ii~~ptg~GKt~~~~~~~l~~~~~~~--~~~~~i~P----~~~l~~q~~~~~~~-~~~~~~~~v 134 (138)
+.+.+ ..++++.+||||||. .+|.+-.-...+ .+++..-| .++|+.++++++.. ++...|..|
T Consensus 84 ~ai~~~~VviI~GeTGSGKTT--qlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY~v 154 (1294)
T PRK11131 84 EAIRDHQVVIVAGETGSGKTT--QLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKV 154 (1294)
T ss_pred HHHHhCCeEEEECCCCCCHHH--HHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcceeceee
Confidence 44555 556788999999998 366432211112 23444446 57888888888875 444456654
No 493
>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=93.70 E-value=0.072 Score=36.69 Aligned_cols=25 Identities=24% Similarity=0.291 Sum_probs=17.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMK 27 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~ 27 (138)
+...+++.+|.|||||..+......
T Consensus 2 k~~~vlL~Gps~SGKTaLf~~L~~~ 26 (181)
T PF09439_consen 2 KRPTVLLVGPSGSGKTALFSQLVNG 26 (181)
T ss_dssp ---EEEEE-STTSSHHHHHHHHHHS
T ss_pred CCceEEEEcCCCCCHHHHHHHHhcC
Confidence 3567899999999999888655543
No 494
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=93.68 E-value=0.21 Score=40.61 Aligned_cols=56 Identities=20% Similarity=0.148 Sum_probs=0.0
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhh-----cCCeEEEEcchhhhHHHHHHHHHHHHH
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKI-----KQKSAIFILPYISLVHEKYQSLAKAAE 58 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~-----~~~~~l~v~P~~aL~~q~~~~l~~~~~ 58 (138)
+++-++|.+-.|||||.+|+.=+..-+-. ..+.++++.|.+-+..=+.+.+-+.|.
T Consensus 225 k~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPeLGe 285 (747)
T COG3973 225 KNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPELGE 285 (747)
T ss_pred CCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhchhhcc
No 495
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=93.67 E-value=0.17 Score=35.11 Aligned_cols=28 Identities=18% Similarity=0.240 Sum_probs=18.3
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELK 30 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~ 30 (138)
+..++++.++||||||......+..-+.
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 3458999999999999887655554333
No 496
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=93.67 E-value=1.2 Score=37.07 Aligned_cols=57 Identities=11% Similarity=0.211 Sum_probs=46.8
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcC
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFK 131 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~ 131 (138)
+-.++.+|-|.|||-+..+.+...+...+.+++|.+|....+.+.++.++..++..|
T Consensus 188 ~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg 244 (752)
T PHA03333 188 CYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQ 244 (752)
T ss_pred cceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHHhc
Confidence 566889999999998887666654442578999999999999999999998887543
No 497
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=93.67 E-value=1.9 Score=30.92 Aligned_cols=32 Identities=22% Similarity=0.226 Sum_probs=21.4
Q ss_pred EEEEccCCcchHHHHHHHHHHHHhhcCCeEEEE
Q psy2029 7 CVLSIPTSGGKTLVGEILIMKELKIKQKSAIFI 39 (138)
Q Consensus 7 ~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v 39 (138)
++++++.|||||..+...+- ++...+.++.++
T Consensus 2 Ivl~G~pGSGKST~a~~La~-~l~~~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAK-KLSEKNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHH-HHHHcCCceEEE
Confidence 57899999999998855443 233334455554
No 498
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=93.62 E-value=0.077 Score=36.35 Aligned_cols=21 Identities=29% Similarity=0.211 Sum_probs=17.8
Q ss_pred CccEEEEccCCcchHHHHHHH
Q psy2029 4 NKNCVLSIPTSGGKTLVGEIL 24 (138)
Q Consensus 4 ~~~~~~~~ptg~GKt~~~~~~ 24 (138)
|..+++.+|.|||||.++-..
T Consensus 2 g~~i~l~G~sGsGKsTl~~~l 22 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLAAL 22 (186)
T ss_pred CcEEEEECCCCCCHHHHHHHH
Confidence 678899999999999887444
No 499
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=93.61 E-value=0.091 Score=39.73 Aligned_cols=41 Identities=20% Similarity=0.189 Sum_probs=26.4
Q ss_pred CCccEEEEccCCcchHHHHHHHHHHHHhhcCCeEEEEcchhhh
Q psy2029 3 QNKNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISL 45 (138)
Q Consensus 3 ~~~~~~~~~ptg~GKt~~~~~~~~~~~~~~~~~~l~v~P~~aL 45 (138)
.+.|+++++|||+|||...... .. ++....+.+.+-...+|
T Consensus 177 ~~~~ili~G~tGsGKTTll~al-~~-~i~~~~riv~iEd~~El 217 (340)
T TIGR03819 177 ARLAFLISGGTGSGKTTLLSAL-LA-LVAPDERIVLVEDAAEL 217 (340)
T ss_pred CCCeEEEECCCCCCHHHHHHHH-Hc-cCCCCCcEEEECCccee
Confidence 4679999999999999765332 22 33344566665544444
No 500
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=93.60 E-value=0.14 Score=41.76 Aligned_cols=56 Identities=16% Similarity=-0.048 Sum_probs=43.0
Q ss_pred cceEEEeecCCCchHhHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHhhhcCceeeec
Q psy2029 75 KNCVLSIPTSGGKTLVGEILIMKELKIKQKSAIFILPYISLVHEKYQSLAKAAEEFKFYLEVL 137 (138)
Q Consensus 75 ~~~ii~~ptg~GKt~~~~~~~l~~~~~~~~~~~~i~P~~~l~~q~~~~~~~~~~~~~~~v~~~ 137 (138)
.++++.+|||+|||....+|-+-. -+..+|++.|--++....+...++. |..|..+
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~---~~~S~VV~DpKGEl~~~Ta~~R~~~----G~~V~vf 214 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLF---WEDSVVVHDIKLENYELTSGWREKQ----GQKVFVW 214 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHh---CCCCEEEEeCcHHHHHHHHHHHHHC----CCeEEEE
Confidence 678999999999999998888754 3567889999998887777666554 5555444
Done!