Query psy12984
Match_columns 178
No_of_seqs 212 out of 1432
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 16:10:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12984hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0338|consensus 99.9 9.7E-28 2.1E-32 210.4 7.3 109 65-175 180-289 (691)
2 KOG0330|consensus 99.9 1.6E-25 3.5E-30 191.2 9.4 102 63-168 58-159 (476)
3 COG0513 SrmB Superfamily II DN 99.9 4.5E-24 9.7E-29 191.8 13.6 99 66-166 29-127 (513)
4 KOG0346|consensus 99.9 1.6E-24 3.4E-29 187.6 9.1 101 66-168 19-123 (569)
5 KOG0331|consensus 99.9 2.8E-24 6.2E-29 190.9 10.8 100 65-166 90-193 (519)
6 PRK04837 ATP-dependent RNA hel 99.9 4.2E-24 9.1E-29 187.2 11.5 103 64-168 6-113 (423)
7 KOG0343|consensus 99.9 2.3E-24 5.1E-29 190.6 8.1 111 62-174 65-177 (758)
8 KOG0345|consensus 99.9 1.7E-23 3.7E-28 182.2 11.7 101 65-165 3-106 (567)
9 PTZ00110 helicase; Provisional 99.9 1.8E-23 3.9E-28 189.0 11.1 108 54-166 121-231 (545)
10 PLN00206 DEAD-box ATP-dependen 99.9 1.8E-23 4E-28 187.9 10.5 116 46-166 104-224 (518)
11 KOG0348|consensus 99.9 2.7E-23 5.9E-28 183.3 10.1 105 61-167 131-240 (708)
12 KOG0340|consensus 99.9 1.6E-23 3.4E-28 177.5 7.9 101 65-169 6-106 (442)
13 KOG0342|consensus 99.9 7.2E-23 1.6E-27 178.9 10.7 102 62-165 78-181 (543)
14 KOG0347|consensus 99.9 4.2E-23 9.2E-28 182.6 8.4 107 64-176 179-297 (731)
15 PRK10590 ATP-dependent RNA hel 99.9 2.7E-22 5.8E-27 177.7 12.5 98 67-166 2-103 (456)
16 PRK04537 ATP-dependent RNA hel 99.9 1.8E-22 3.9E-27 183.4 11.5 99 66-166 9-112 (572)
17 PRK01297 ATP-dependent RNA hel 99.9 4E-22 8.7E-27 177.2 11.1 101 65-167 86-191 (475)
18 PRK11776 ATP-dependent RNA hel 99.9 6.8E-22 1.5E-26 174.9 12.4 96 66-165 4-99 (460)
19 PRK11192 ATP-dependent RNA hel 99.9 5.2E-22 1.1E-26 174.3 10.9 100 67-168 2-103 (434)
20 PRK11634 ATP-dependent RNA hel 99.9 3.8E-21 8.3E-26 176.4 12.7 96 66-165 6-101 (629)
21 TIGR03817 DECH_helic helicase/ 99.9 2.6E-21 5.7E-26 180.3 11.4 92 68-162 14-105 (742)
22 KOG0335|consensus 99.8 1.4E-21 3E-26 171.8 7.6 126 37-167 48-181 (482)
23 KOG0332|consensus 99.8 9.6E-22 2.1E-26 167.6 6.4 106 57-166 81-188 (477)
24 KOG0333|consensus 99.8 6.3E-21 1.4E-25 168.1 10.7 122 47-177 229-357 (673)
25 KOG0334|consensus 99.8 1E-20 2.2E-25 176.6 10.4 111 51-166 353-466 (997)
26 PTZ00424 helicase 45; Provisio 99.8 2.8E-20 6E-25 161.0 11.6 98 65-166 27-124 (401)
27 KOG0328|consensus 99.8 2.9E-21 6.2E-26 160.1 4.4 104 61-168 22-125 (400)
28 KOG0341|consensus 99.8 3.1E-20 6.7E-25 159.4 6.4 116 46-166 153-274 (610)
29 KOG0326|consensus 99.8 1.2E-20 2.6E-25 158.5 3.7 98 66-167 85-182 (459)
30 KOG0337|consensus 99.8 5.2E-20 1.1E-24 158.9 7.1 105 65-172 20-124 (529)
31 KOG0339|consensus 99.8 1.4E-19 2.9E-24 159.4 9.1 115 49-168 209-326 (731)
32 KOG0344|consensus 99.8 1.3E-19 2.9E-24 161.1 8.6 111 49-162 118-233 (593)
33 KOG0350|consensus 99.8 3.7E-19 8E-24 156.2 8.6 93 75-168 144-245 (620)
34 cd00268 DEADc DEAD-box helicas 99.8 1.3E-18 2.9E-23 137.3 10.4 96 68-165 1-96 (203)
35 KOG0327|consensus 99.8 1.8E-19 4E-24 153.7 5.0 103 66-172 26-128 (397)
36 KOG0329|consensus 99.8 9.4E-19 2E-23 143.7 7.1 102 62-167 38-139 (387)
37 COG1201 Lhr Lhr-like helicases 99.8 4.1E-18 8.9E-23 158.6 10.3 97 75-172 8-107 (814)
38 PRK02362 ski2-like helicase; P 99.7 7.6E-18 1.6E-22 157.1 11.4 89 67-162 2-91 (737)
39 PRK13767 ATP-dependent helicas 99.7 2.1E-17 4.6E-22 156.7 11.6 85 75-160 18-106 (876)
40 PRK00254 ski2-like helicase; P 99.7 2.8E-17 6.1E-22 153.0 11.8 89 67-161 2-91 (720)
41 KOG0336|consensus 99.7 1.2E-17 2.6E-22 144.3 6.4 95 66-161 219-317 (629)
42 COG1205 Distinct helicase fami 99.7 1.1E-16 2.4E-21 150.9 10.3 91 75-168 55-145 (851)
43 PRK01172 ski2-like helicase; P 99.7 3.9E-16 8.4E-21 144.3 11.6 88 67-162 2-89 (674)
44 KOG4284|consensus 99.7 5.8E-17 1.3E-21 146.2 4.3 97 66-166 25-121 (980)
45 PRK12899 secA preprotein trans 99.6 7.8E-15 1.7E-19 137.8 11.7 89 75-168 69-165 (970)
46 TIGR00614 recQ_fam ATP-depende 99.6 2.2E-15 4.7E-20 134.2 7.4 68 86-161 7-74 (470)
47 PF00270 DEAD: DEAD/DEAH box h 99.6 9.5E-15 2.1E-19 111.3 9.1 70 92-164 1-70 (169)
48 PLN03137 ATP-dependent DNA hel 99.5 3E-14 6.6E-19 136.2 10.7 87 66-160 435-522 (1195)
49 PRK11057 ATP-dependent DNA hel 99.5 2.3E-14 5E-19 131.3 8.6 75 79-161 13-88 (607)
50 PRK09401 reverse gyrase; Revie 99.5 4.8E-14 1E-18 136.9 10.5 84 79-168 69-153 (1176)
51 TIGR01054 rgy reverse gyrase. 99.5 5.5E-14 1.2E-18 136.5 10.1 86 77-167 65-150 (1171)
52 PRK14701 reverse gyrase; Provi 99.5 7.2E-14 1.6E-18 138.7 10.5 85 78-168 67-152 (1638)
53 TIGR00643 recG ATP-dependent D 99.5 5.7E-14 1.2E-18 129.3 8.8 83 79-167 225-313 (630)
54 PRK10917 ATP-dependent DNA hel 99.5 6.4E-14 1.4E-18 130.0 9.1 83 79-167 250-339 (681)
55 TIGR00580 mfd transcription-re 99.5 9.5E-14 2E-18 132.2 10.0 86 75-166 436-528 (926)
56 TIGR01389 recQ ATP-dependent D 99.5 6.4E-14 1.4E-18 127.8 7.7 72 82-161 4-76 (591)
57 TIGR02621 cas3_GSU0051 CRISPR- 99.5 1.2E-13 2.7E-18 129.5 9.4 77 86-166 12-90 (844)
58 PRK12898 secA preprotein trans 99.5 2E-13 4.3E-18 125.4 9.9 75 86-168 100-174 (656)
59 PRK10689 transcription-repair 99.4 9.8E-13 2.1E-17 127.6 9.0 81 79-165 590-676 (1147)
60 PRK09200 preprotein translocas 99.3 9.9E-12 2.2E-16 116.4 9.3 79 86-172 75-153 (790)
61 COG1202 Superfamily II helicas 99.3 6.2E-12 1.3E-16 112.9 7.3 103 67-175 195-298 (830)
62 COG1204 Superfamily II helicas 99.3 9.3E-12 2E-16 116.7 8.7 89 75-168 16-105 (766)
63 TIGR03158 cas3_cyano CRISPR-as 99.3 1.5E-11 3.3E-16 106.2 8.5 72 94-173 1-74 (357)
64 TIGR00963 secA preprotein tran 99.2 4.5E-11 9.8E-16 111.0 8.9 77 86-170 53-129 (745)
65 TIGR01407 dinG_rel DnaQ family 99.2 1.2E-10 2.6E-15 110.6 10.9 88 75-168 231-323 (850)
66 TIGR03714 secA2 accessory Sec 99.2 8.1E-11 1.8E-15 109.7 9.4 79 86-172 67-145 (762)
67 smart00487 DEXDc DEAD-like hel 99.1 2.6E-10 5.7E-15 87.1 7.7 77 85-164 3-80 (201)
68 PHA02653 RNA helicase NPH-II; 99.1 1.2E-10 2.6E-15 107.9 6.3 71 94-164 168-248 (675)
69 KOG0952|consensus 99.1 2.6E-10 5.7E-15 107.7 8.0 80 86-165 106-191 (1230)
70 PHA02558 uvsW UvsW helicase; P 99.1 3.2E-10 7E-15 101.9 8.0 72 88-163 112-183 (501)
71 PRK05580 primosome assembly pr 99.1 6.9E-10 1.5E-14 103.2 9.6 68 90-162 144-214 (679)
72 KOG0349|consensus 99.0 1E-10 2.3E-15 102.4 3.4 65 66-132 2-66 (725)
73 TIGR01587 cas3_core CRISPR-ass 99.0 4.7E-10 1E-14 96.0 7.1 54 107-163 1-54 (358)
74 TIGR03117 cas_csf4 CRISPR-asso 99.0 1.1E-09 2.4E-14 100.8 8.3 65 101-168 12-77 (636)
75 PRK09751 putative ATP-dependen 99.0 1.1E-09 2.5E-14 108.1 7.8 54 110-163 1-62 (1490)
76 PRK13104 secA preprotein trans 99.0 1.7E-09 3.8E-14 102.0 8.0 77 86-170 79-155 (896)
77 PRK07246 bifunctional ATP-depe 98.9 2.9E-09 6.4E-14 100.9 8.7 78 84-168 240-322 (820)
78 smart00488 DEXDc2 DEAD-like he 98.8 1.2E-08 2.7E-13 85.9 7.7 73 90-162 8-85 (289)
79 smart00489 DEXDc3 DEAD-like he 98.8 1.2E-08 2.7E-13 85.9 7.7 73 90-162 8-85 (289)
80 PF04851 ResIII: Type III rest 98.8 1.5E-08 3.4E-13 77.4 6.4 65 90-162 3-74 (184)
81 KOG0352|consensus 98.8 1.2E-08 2.6E-13 89.5 6.1 75 79-161 7-84 (641)
82 COG0514 RecQ Superfamily II DN 98.7 1.7E-08 3.8E-13 91.9 6.7 74 81-162 7-81 (590)
83 PRK12904 preprotein translocas 98.7 2.4E-08 5.2E-13 94.1 7.7 78 86-172 78-156 (830)
84 PRK13766 Hef nuclease; Provisi 98.7 2.7E-08 5.9E-13 93.5 8.1 71 88-163 13-83 (773)
85 COG4581 Superfamily II RNA hel 98.7 5.1E-08 1.1E-12 93.3 7.5 78 82-165 112-189 (1041)
86 PRK11664 ATP-dependent RNA hel 98.7 3.6E-08 7.9E-13 93.4 6.4 55 101-160 16-70 (812)
87 PRK13107 preprotein translocas 98.6 1.3E-07 2.7E-12 89.6 8.3 77 86-170 79-155 (908)
88 TIGR01970 DEAH_box_HrpB ATP-de 98.6 1.9E-07 4.1E-12 88.6 9.0 56 100-160 12-67 (819)
89 PRK09694 helicase Cas3; Provis 98.6 2.5E-07 5.4E-12 88.2 9.8 73 90-165 286-358 (878)
90 KOG0353|consensus 98.6 1.5E-07 3.2E-12 81.8 6.5 80 75-162 78-158 (695)
91 KOG0354|consensus 98.5 1.4E-07 3.1E-12 87.5 6.7 69 90-162 62-130 (746)
92 cd00046 DEXDc DEAD-like helica 98.5 7.3E-07 1.6E-11 64.0 8.5 56 106-164 1-56 (144)
93 KOG0951|consensus 98.5 6.2E-07 1.3E-11 86.7 8.9 91 75-167 296-393 (1674)
94 COG1110 Reverse gyrase [DNA re 98.4 1.8E-06 4E-11 82.2 10.4 82 79-166 71-153 (1187)
95 PRK08074 bifunctional ATP-depe 98.4 1.3E-06 2.8E-11 84.0 9.2 77 87-168 255-336 (928)
96 PRK11747 dinG ATP-dependent DN 98.3 3.1E-06 6.8E-11 79.2 10.1 78 87-169 23-110 (697)
97 COG1061 SSL2 DNA or RNA helica 98.3 1.2E-06 2.6E-11 77.9 6.4 66 90-163 36-105 (442)
98 KOG0351|consensus 98.3 5.2E-07 1.1E-11 86.4 4.3 72 79-158 253-324 (941)
99 KOG0947|consensus 98.2 1.9E-06 4.2E-11 81.6 5.7 77 85-167 293-369 (1248)
100 COG1199 DinG Rad3-related DNA 98.2 5.6E-06 1.2E-10 76.6 8.0 71 87-161 12-86 (654)
101 TIGR00595 priA primosomal prot 98.2 2.8E-06 6.1E-11 76.8 5.6 49 109-162 1-49 (505)
102 PRK11448 hsdR type I restricti 98.1 6.1E-06 1.3E-10 80.7 7.5 69 90-161 413-486 (1123)
103 PRK12906 secA preprotein trans 98.1 9.6E-06 2.1E-10 76.5 8.2 78 86-171 77-154 (796)
104 COG1200 RecG RecG-like helicas 98.1 8.6E-06 1.9E-10 75.1 6.4 90 75-170 247-343 (677)
105 TIGR00604 rad3 DNA repair heli 98.0 2.5E-05 5.4E-10 73.2 9.1 74 87-162 7-84 (705)
106 PRK12326 preprotein translocas 98.0 2.4E-05 5.2E-10 73.1 8.4 77 86-170 75-151 (764)
107 PF00580 UvrD-helicase: UvrD/R 98.0 3.8E-05 8.3E-10 63.5 8.4 73 91-166 1-73 (315)
108 TIGR00603 rad25 DNA repair hel 97.9 2.7E-05 5.9E-10 73.1 7.1 65 90-162 255-322 (732)
109 PF13245 AAA_19: Part of AAA d 97.9 4.4E-05 9.6E-10 51.9 6.1 52 106-158 11-62 (76)
110 KOG0948|consensus 97.9 2.4E-05 5.2E-10 72.9 5.8 75 90-169 129-203 (1041)
111 COG1111 MPH1 ERCC4-like helica 97.9 3.6E-05 7.9E-10 68.9 6.6 70 90-164 15-84 (542)
112 TIGR00348 hsdR type I site-spe 97.8 3.4E-05 7.4E-10 71.9 6.0 70 91-163 239-318 (667)
113 PRK13103 secA preprotein trans 97.8 7.4E-05 1.6E-09 71.2 8.2 78 86-171 79-156 (913)
114 CHL00122 secA preprotein trans 97.8 9.8E-05 2.1E-09 70.1 8.5 78 86-171 73-150 (870)
115 COG1203 CRISPR-associated heli 97.7 0.00011 2.4E-09 69.3 7.4 78 91-169 196-277 (733)
116 PF13086 AAA_11: AAA domain; P 97.7 0.00024 5.3E-09 55.9 8.0 69 91-160 2-75 (236)
117 PF07517 SecA_DEAD: SecA DEAD- 97.6 0.00044 9.6E-09 57.8 9.2 80 85-172 73-152 (266)
118 COG0556 UvrB Helicase subunit 97.3 0.00028 6.2E-09 63.8 4.3 65 90-162 12-81 (663)
119 PRK12902 secA preprotein trans 97.3 0.0014 2.9E-08 62.8 8.9 78 86-171 82-159 (939)
120 COG1198 PriA Primosomal protei 97.2 0.00067 1.4E-08 63.8 6.4 69 90-163 198-270 (730)
121 PF13604 AAA_30: AAA domain; P 97.0 0.0024 5.3E-08 50.7 6.4 63 90-157 1-65 (196)
122 KOG0951|consensus 96.9 0.0012 2.7E-08 64.7 5.2 69 88-162 1141-1210(1674)
123 PRK11054 helD DNA helicase IV; 96.8 0.011 2.3E-07 55.6 10.3 72 89-163 195-266 (684)
124 PF07652 Flavi_DEAD: Flaviviru 96.8 0.0028 6.1E-08 48.5 5.3 54 104-161 3-56 (148)
125 COG1197 Mfd Transcription-repa 96.8 0.0049 1.1E-07 60.2 8.0 85 77-167 581-672 (1139)
126 PRK10919 ATP-dependent DNA hel 96.8 0.0065 1.4E-07 56.9 8.5 71 90-163 2-72 (672)
127 PF02562 PhoH: PhoH-like prote 96.6 0.0031 6.6E-08 50.9 4.4 57 90-149 4-60 (205)
128 PF00176 SNF2_N: SNF2 family N 96.6 0.008 1.7E-07 49.3 6.9 59 103-163 23-82 (299)
129 TIGR00631 uvrb excinuclease AB 96.6 0.0053 1.1E-07 57.4 6.4 65 90-162 9-78 (655)
130 PRK11773 uvrD DNA-dependent he 96.5 0.011 2.4E-07 55.7 8.4 72 90-164 9-80 (721)
131 TIGR01074 rep ATP-dependent DN 96.5 0.014 3.1E-07 54.2 8.8 71 91-164 2-72 (664)
132 TIGR01075 uvrD DNA helicase II 96.5 0.012 2.7E-07 55.3 8.3 73 89-164 3-75 (715)
133 PRK12903 secA preprotein trans 96.4 0.014 3E-07 56.0 8.3 80 86-173 75-154 (925)
134 TIGR02785 addA_Gpos recombinat 96.4 0.014 3.1E-07 58.1 8.4 69 91-163 2-70 (1232)
135 TIGR00376 DNA helicase, putati 96.4 0.013 2.8E-07 54.6 7.6 65 91-160 158-223 (637)
136 PRK11131 ATP-dependent RNA hel 96.3 0.0078 1.7E-07 59.9 6.0 56 100-160 84-144 (1294)
137 PRK15483 type III restriction- 96.2 0.016 3.4E-07 56.3 7.5 51 106-159 60-110 (986)
138 PRK13894 conjugal transfer ATP 96.1 0.014 3E-07 50.0 6.2 48 80-130 124-172 (319)
139 TIGR01073 pcrA ATP-dependent D 96.1 0.027 5.8E-07 53.1 8.4 72 90-164 4-75 (726)
140 KOG0949|consensus 96.1 0.016 3.5E-07 56.0 6.7 70 90-162 511-580 (1330)
141 PRK05298 excinuclease ABC subu 95.6 0.027 5.8E-07 52.7 6.1 67 87-162 10-81 (652)
142 PRK04914 ATP-dependent helicas 95.6 0.044 9.5E-07 53.4 7.7 67 90-160 152-220 (956)
143 cd01126 TraG_VirD4 The TraG/Tr 95.4 0.012 2.7E-07 51.1 3.1 48 107-161 1-48 (384)
144 COG4096 HsdR Type I site-speci 95.3 0.024 5.3E-07 53.8 4.7 70 90-162 165-239 (875)
145 PF02534 T4SS-DNA_transf: Type 95.3 0.02 4.2E-07 51.0 3.8 49 106-161 45-93 (469)
146 PRK10536 hypothetical protein; 95.2 0.039 8.4E-07 46.1 5.3 46 87-132 56-101 (262)
147 COG3587 Restriction endonuclea 95.1 0.05 1.1E-06 52.0 6.2 57 106-165 75-131 (985)
148 PRK13897 type IV secretion sys 94.9 0.031 6.6E-07 51.9 4.0 49 106-161 159-207 (606)
149 TIGR01967 DEAH_box_HrpA ATP-de 94.8 0.12 2.7E-06 51.7 8.2 43 84-128 58-103 (1283)
150 TIGR02782 TrbB_P P-type conjug 94.8 0.1 2.2E-06 44.2 6.7 48 80-130 108-156 (299)
151 KOG4150|consensus 94.8 0.018 4E-07 53.0 2.2 72 84-158 280-351 (1034)
152 PF12340 DUF3638: Protein of u 94.7 0.2 4.3E-06 41.1 8.0 83 75-164 10-95 (229)
153 KOG1803|consensus 94.7 0.077 1.7E-06 49.0 6.0 62 91-157 186-248 (649)
154 COG4098 comFA Superfamily II D 94.7 0.054 1.2E-06 47.1 4.8 69 90-163 97-169 (441)
155 PRK13833 conjugal transfer pro 94.7 0.086 1.9E-06 45.3 6.1 45 83-130 123-168 (323)
156 COG4889 Predicted helicase [Ge 94.6 0.049 1.1E-06 52.6 4.6 74 78-159 149-227 (1518)
157 KOG0950|consensus 94.6 0.073 1.6E-06 51.3 5.8 88 75-166 207-297 (1008)
158 COG4962 CpaF Flp pilus assembl 94.5 0.045 9.8E-07 47.4 3.8 36 86-121 153-189 (355)
159 PRK13850 type IV secretion sys 94.4 0.05 1.1E-06 51.1 4.3 48 106-160 140-187 (670)
160 KOG0952|consensus 94.4 0.025 5.3E-07 55.0 2.3 69 88-159 925-994 (1230)
161 PRK14873 primosome assembly pr 94.4 0.061 1.3E-06 50.5 4.7 48 111-163 166-213 (665)
162 KOG1802|consensus 94.3 0.12 2.5E-06 48.6 6.3 73 83-159 403-475 (935)
163 COG3973 Superfamily I DNA and 94.3 0.12 2.6E-06 48.0 6.3 88 75-162 189-284 (747)
164 PRK13851 type IV secretion sys 94.2 0.04 8.6E-07 47.8 3.0 21 101-121 158-178 (344)
165 TIGR02768 TraA_Ti Ti-type conj 94.1 0.27 5.8E-06 46.8 8.6 64 86-155 349-413 (744)
166 PRK10875 recD exonuclease V su 94.0 0.34 7.3E-06 45.2 8.9 63 92-157 154-218 (615)
167 TIGR01448 recD_rel helicase, p 93.9 0.28 6.1E-06 46.5 8.3 67 86-156 320-386 (720)
168 COG2805 PilT Tfp pilus assembl 93.8 0.22 4.8E-06 42.7 6.7 24 108-132 128-151 (353)
169 TIGR01447 recD exodeoxyribonuc 93.7 0.28 6.1E-06 45.4 7.8 62 93-156 148-211 (586)
170 PRK13880 conjugal transfer cou 93.6 0.067 1.5E-06 50.0 3.5 45 106-157 176-220 (636)
171 PF09848 DUF2075: Uncharacteri 93.5 0.2 4.4E-06 43.1 6.2 52 108-162 4-55 (352)
172 KOG2340|consensus 93.5 0.2 4.4E-06 45.9 6.2 78 90-167 216-322 (698)
173 KOG1133|consensus 93.5 0.077 1.7E-06 49.7 3.6 44 90-133 15-62 (821)
174 PRK13900 type IV secretion sys 93.4 0.19 4E-06 43.4 5.6 28 102-130 157-184 (332)
175 PRK13822 conjugal transfer cou 93.3 0.12 2.5E-06 48.5 4.5 49 105-160 224-272 (641)
176 TIGR02767 TraG-Ti Ti-type conj 93.3 0.13 2.7E-06 48.1 4.7 49 106-161 212-260 (623)
177 KOG1132|consensus 93.2 0.051 1.1E-06 52.0 2.0 43 90-132 21-67 (945)
178 PRK13889 conjugal transfer rel 93.2 0.4 8.7E-06 47.0 8.2 63 86-154 343-406 (988)
179 PRK13876 conjugal transfer cou 93.2 0.1 2.2E-06 49.0 4.0 45 106-157 145-189 (663)
180 PF12846 AAA_10: AAA-like doma 93.0 0.19 4.2E-06 41.0 5.1 42 106-152 2-43 (304)
181 cd01127 TrwB Bacterial conjuga 92.9 0.17 3.8E-06 44.6 4.8 52 98-154 35-86 (410)
182 cd01130 VirB11-like_ATPase Typ 92.9 0.11 2.3E-06 40.6 3.2 31 92-122 11-42 (186)
183 KOG0953|consensus 92.7 0.15 3.2E-06 46.9 4.1 47 107-162 193-239 (700)
184 PF01695 IstB_IS21: IstB-like 92.6 0.45 9.8E-06 37.2 6.4 49 102-156 44-92 (178)
185 TIGR03877 thermo_KaiC_1 KaiC d 92.5 0.35 7.6E-06 39.3 5.8 53 103-161 19-71 (237)
186 COG1484 DnaC DNA replication p 92.5 0.28 6.1E-06 40.6 5.4 51 104-160 104-154 (254)
187 PRK12900 secA preprotein trans 92.5 0.28 6.1E-06 47.9 6.0 75 90-171 138-212 (1025)
188 PRK13764 ATPase; Provisional 92.5 0.24 5.2E-06 46.0 5.3 27 104-131 256-282 (602)
189 COG0210 UvrD Superfamily I DNA 92.4 0.71 1.5E-05 42.9 8.5 72 90-164 2-73 (655)
190 smart00382 AAA ATPases associa 92.4 0.095 2.1E-06 36.8 2.2 18 105-122 2-19 (148)
191 PRK12901 secA preprotein trans 92.3 0.35 7.7E-06 47.5 6.4 75 90-171 169-243 (1112)
192 KOG4150|consensus 92.3 0.28 6.1E-06 45.5 5.4 87 74-176 371-457 (1034)
193 PF10412 TrwB_AAD_bind: Type I 92.2 0.3 6.4E-06 42.8 5.3 53 99-156 9-61 (386)
194 TIGR03743 SXT_TraD conjugative 92.1 0.37 8.1E-06 45.1 6.1 54 105-163 176-231 (634)
195 PLN03142 Probable chromatin-re 92.0 0.51 1.1E-05 46.5 7.2 70 90-162 169-242 (1033)
196 TIGR01547 phage_term_2 phage t 92.0 0.7 1.5E-05 40.2 7.5 59 107-167 3-62 (396)
197 COG1219 ClpX ATP-dependent pro 91.7 0.098 2.1E-06 45.3 1.8 60 103-169 95-158 (408)
198 PRK10436 hypothetical protein; 91.6 0.22 4.8E-06 44.8 4.0 25 106-131 219-243 (462)
199 PRK05973 replicative DNA helic 91.6 0.73 1.6E-05 37.9 6.7 39 90-129 50-88 (237)
200 cd01124 KaiC KaiC is a circadi 91.5 0.53 1.2E-05 35.9 5.6 48 108-161 2-49 (187)
201 PF02399 Herpes_ori_bp: Origin 91.3 0.46 1E-05 45.5 5.9 52 106-161 50-101 (824)
202 COG1074 RecB ATP-dependent exo 91.0 0.62 1.3E-05 46.4 6.8 56 103-158 14-69 (1139)
203 KOG0390|consensus 90.7 0.73 1.6E-05 44.0 6.6 71 90-164 238-323 (776)
204 COG0630 VirB11 Type IV secreto 90.6 0.28 6E-06 41.9 3.5 34 88-121 125-159 (312)
205 TIGR03754 conj_TOL_TraD conjug 90.5 1 2.2E-05 42.3 7.3 54 105-163 180-235 (643)
206 PF00437 T2SE: Type II/IV secr 90.4 0.24 5.2E-06 40.7 2.8 30 102-132 124-153 (270)
207 TIGR02538 type_IV_pilB type IV 90.3 0.33 7.2E-06 44.7 3.9 45 83-131 295-341 (564)
208 COG0610 Type I site-specific r 90.2 0.95 2.1E-05 44.4 7.1 59 106-167 274-332 (962)
209 TIGR02525 plasmid_TraJ plasmid 90.1 0.65 1.4E-05 40.7 5.4 26 105-131 149-174 (372)
210 KOG0926|consensus 90.0 0.85 1.9E-05 43.9 6.3 34 88-121 242-287 (1172)
211 TIGR02784 addA_alphas double-s 90.0 1 2.2E-05 44.9 7.2 57 105-163 10-66 (1141)
212 TIGR02533 type_II_gspE general 90.0 0.3 6.5E-06 44.2 3.3 44 83-130 221-266 (486)
213 cd01122 GP4d_helicase GP4d_hel 89.8 0.78 1.7E-05 37.5 5.4 46 78-123 3-48 (271)
214 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.8 0.71 1.5E-05 36.2 5.0 27 105-131 38-64 (205)
215 PF06745 KaiC: KaiC; InterPro 89.7 0.82 1.8E-05 36.5 5.4 55 102-161 16-70 (226)
216 COG2804 PulE Type II secretory 89.6 0.23 5E-06 45.0 2.2 39 93-132 244-284 (500)
217 PRK08116 hypothetical protein; 89.4 2.7 5.8E-05 35.0 8.3 47 105-157 114-160 (268)
218 TIGR02640 gas_vesic_GvpN gas v 89.3 0.25 5.5E-06 40.8 2.2 25 98-122 14-38 (262)
219 cd00009 AAA The AAA+ (ATPases 89.2 0.37 8.1E-06 34.1 2.7 18 104-121 18-35 (151)
220 cd01131 PilT Pilus retraction 89.1 0.51 1.1E-05 37.3 3.7 23 108-131 4-26 (198)
221 PRK13700 conjugal transfer pro 89.1 0.41 8.9E-06 45.4 3.6 71 77-152 157-227 (732)
222 TIGR03819 heli_sec_ATPase heli 89.0 0.8 1.7E-05 39.6 5.1 41 80-122 154-195 (340)
223 TIGR03420 DnaA_homol_Hda DnaA 89.0 0.72 1.6E-05 36.5 4.5 20 103-122 36-55 (226)
224 PF13401 AAA_22: AAA domain; P 89.0 0.26 5.6E-06 35.4 1.7 20 104-123 3-22 (131)
225 cd00984 DnaB_C DnaB helicase C 89.0 0.78 1.7E-05 36.8 4.8 40 102-145 10-49 (242)
226 PF12775 AAA_7: P-loop contain 88.9 0.22 4.7E-06 41.7 1.5 21 102-122 30-50 (272)
227 PRK06921 hypothetical protein; 88.9 1.9 4.2E-05 35.8 7.2 50 104-158 116-165 (266)
228 TIGR02688 conserved hypothetic 88.9 0.56 1.2E-05 42.0 4.1 47 76-123 173-227 (449)
229 KOG0745|consensus 88.9 0.32 6.8E-06 43.8 2.5 61 103-170 224-288 (564)
230 TIGR03878 thermo_KaiC_2 KaiC d 88.8 1.5 3.2E-05 36.2 6.4 39 102-145 33-71 (259)
231 PF09439 SRPRB: Signal recogni 88.8 0.31 6.7E-06 38.5 2.2 20 105-124 3-22 (181)
232 PRK08181 transposase; Validate 88.5 1.2 2.6E-05 37.2 5.7 47 104-156 105-151 (269)
233 cd01129 PulE-GspE PulE/GspE Th 88.4 0.52 1.1E-05 39.2 3.4 44 83-130 59-104 (264)
234 COG0467 RAD55 RecA-superfamily 88.3 1.3 2.7E-05 36.4 5.6 55 102-162 20-74 (260)
235 PF05970 PIF1: PIF1-like helic 88.3 1 2.3E-05 39.0 5.4 59 91-154 2-66 (364)
236 PRK09183 transposase/IS protei 88.2 1.9 4.1E-05 35.7 6.6 22 102-123 99-120 (259)
237 PRK14722 flhF flagellar biosyn 88.2 1.6 3.5E-05 38.3 6.5 21 104-124 136-156 (374)
238 PF01935 DUF87: Domain of unkn 88.2 0.98 2.1E-05 36.0 4.8 26 105-131 23-48 (229)
239 PRK04328 hypothetical protein; 88.1 1.4 3.1E-05 36.1 5.8 52 104-161 22-73 (249)
240 KOG0729|consensus 88.1 1.1 2.4E-05 38.3 5.1 41 106-155 212-252 (435)
241 TIGR02524 dot_icm_DotB Dot/Icm 88.1 0.62 1.3E-05 40.6 3.8 26 104-130 133-158 (358)
242 TIGR02759 TraD_Ftype type IV c 87.9 0.72 1.6E-05 42.6 4.3 42 103-149 174-215 (566)
243 PHA02533 17 large terminase pr 87.7 2.8 6.1E-05 38.5 8.0 73 90-165 59-131 (534)
244 PHA00729 NTP-binding motif con 87.6 2.1 4.5E-05 35.1 6.4 50 107-159 19-78 (226)
245 TIGR03881 KaiC_arch_4 KaiC dom 87.5 1.7 3.8E-05 34.6 5.9 21 103-123 18-38 (229)
246 PRK06835 DNA replication prote 87.5 2 4.3E-05 37.0 6.6 47 104-156 182-228 (329)
247 PRK07952 DNA replication prote 87.1 2.4 5.1E-05 35.0 6.6 46 106-157 100-145 (244)
248 PRK13826 Dtr system oriT relax 87.0 3.7 8E-05 41.0 8.7 75 75-155 367-442 (1102)
249 PRK14712 conjugal transfer nic 86.9 1.8 3.9E-05 44.6 6.8 61 90-153 835-899 (1623)
250 PRK12377 putative replication 86.9 2.3 5.1E-05 35.1 6.4 47 105-157 101-147 (248)
251 TIGR02788 VirB11 P-type DNA tr 86.9 0.42 9E-06 40.5 2.0 21 102-122 141-161 (308)
252 PRK08903 DnaA regulatory inact 86.7 1.2 2.5E-05 35.6 4.5 49 61-121 10-58 (227)
253 PRK06526 transposase; Provisio 86.6 0.97 2.1E-05 37.4 4.0 21 103-123 96-116 (254)
254 PF05729 NACHT: NACHT domain 86.4 2 4.3E-05 31.6 5.3 24 108-132 3-26 (166)
255 TIGR01420 pilT_fam pilus retra 86.4 1.2 2.5E-05 38.4 4.5 26 104-130 121-146 (343)
256 TIGR03499 FlhF flagellar biosy 86.4 3 6.5E-05 34.9 6.9 20 104-123 193-212 (282)
257 PF13481 AAA_25: AAA domain; P 86.2 2.8 6.2E-05 32.1 6.3 65 98-163 24-94 (193)
258 PF13555 AAA_29: P-loop contai 86.0 0.66 1.4E-05 30.3 2.2 25 98-122 16-40 (62)
259 COG1125 OpuBA ABC-type proline 86.0 1.5 3.2E-05 37.1 4.7 55 102-162 24-85 (309)
260 PRK08533 flagellar accessory p 85.9 2.4 5.2E-05 34.4 5.9 21 102-122 21-41 (230)
261 PF13207 AAA_17: AAA domain; P 85.8 0.53 1.2E-05 33.4 1.9 14 108-121 2-15 (121)
262 PRK08084 DNA replication initi 85.7 1.5 3.4E-05 35.5 4.8 47 62-121 15-61 (235)
263 PF13671 AAA_33: AAA domain; P 85.4 0.5 1.1E-05 34.4 1.6 14 108-121 2-15 (143)
264 TIGR03015 pepcterm_ATPase puta 85.3 2 4.4E-05 34.8 5.3 34 90-123 23-61 (269)
265 TIGR02880 cbbX_cfxQ probable R 85.0 0.76 1.6E-05 38.6 2.7 19 104-122 57-75 (284)
266 TIGR02562 cas3_yersinia CRISPR 84.8 0.97 2.1E-05 44.6 3.6 79 93-174 411-497 (1110)
267 PF13238 AAA_18: AAA domain; P 84.6 0.66 1.4E-05 32.9 1.9 14 108-121 1-14 (129)
268 PF00004 AAA: ATPase family as 84.5 0.7 1.5E-05 32.9 2.0 15 108-122 1-15 (132)
269 KOG0924|consensus 84.2 3.2 7E-05 39.5 6.5 62 92-157 358-419 (1042)
270 KOG1942|consensus 84.1 1.4 3E-05 38.1 3.8 27 103-130 62-88 (456)
271 KOG1131|consensus 84.0 5.5 0.00012 36.9 7.7 74 88-162 14-91 (755)
272 PF07728 AAA_5: AAA domain (dy 83.9 0.69 1.5E-05 33.8 1.8 15 107-121 1-15 (139)
273 TIGR02760 TraI_TIGR conjugativ 83.6 2.9 6.3E-05 44.1 6.6 61 90-154 1019-1084(1960)
274 TIGR03689 pup_AAA proteasome A 83.5 1.2 2.6E-05 40.7 3.5 54 64-121 177-232 (512)
275 TIGR03880 KaiC_arch_3 KaiC dom 83.4 3.3 7.1E-05 33.0 5.6 18 104-121 15-32 (224)
276 PLN03025 replication factor C 83.3 1.8 4E-05 36.6 4.3 45 62-121 6-50 (319)
277 PTZ00112 origin recognition co 83.2 5.3 0.00011 39.4 7.6 16 108-123 784-799 (1164)
278 TIGR03744 traC_PFL_4706 conjug 83.1 3 6.5E-05 40.6 6.2 41 105-149 475-515 (893)
279 COG1136 SalX ABC-type antimicr 83.0 1.1 2.4E-05 36.7 2.7 29 102-132 28-56 (226)
280 PRK00131 aroK shikimate kinase 83.0 0.97 2.1E-05 33.9 2.3 19 103-121 2-20 (175)
281 COG1643 HrpA HrpA-like helicas 82.9 6.1 0.00013 38.4 8.0 28 101-128 61-88 (845)
282 PRK05642 DNA replication initi 82.9 17 0.00036 29.4 9.7 16 106-121 46-61 (234)
283 PF00448 SRP54: SRP54-type pro 82.8 3.7 7.9E-05 32.6 5.6 15 108-122 4-18 (196)
284 TIGR02655 circ_KaiC circadian 82.7 3 6.4E-05 37.7 5.7 54 103-161 19-72 (484)
285 PF06068 TIP49: TIP49 C-termin 82.7 0.87 1.9E-05 40.1 2.1 20 103-122 48-67 (398)
286 PRK13531 regulatory ATPase Rav 82.6 1.7 3.7E-05 39.6 4.0 43 79-122 14-56 (498)
287 PF04665 Pox_A32: Poxvirus A32 82.5 1.3 2.7E-05 36.7 2.9 24 106-130 14-37 (241)
288 PRK13709 conjugal transfer nic 82.5 3.4 7.3E-05 43.1 6.5 64 90-154 967-1032(1747)
289 TIGR02237 recomb_radB DNA repa 82.5 2.8 6E-05 32.9 4.8 25 104-128 11-35 (209)
290 COG1224 TIP49 DNA helicase TIP 82.2 1 2.2E-05 39.7 2.3 20 103-122 63-82 (450)
291 PF13191 AAA_16: AAA ATPase do 82.0 0.77 1.7E-05 34.7 1.4 28 104-132 23-50 (185)
292 PF03237 Terminase_6: Terminas 82.0 5.7 0.00012 33.0 6.8 45 109-156 1-46 (384)
293 COG4185 Uncharacterized protei 81.8 0.78 1.7E-05 36.0 1.3 18 108-125 5-22 (187)
294 COG1875 NYN ribonuclease and A 81.7 2.1 4.6E-05 37.8 4.1 48 86-133 224-273 (436)
295 PRK06067 flagellar accessory p 81.4 4.5 9.7E-05 32.4 5.8 51 104-160 24-74 (234)
296 PRK12402 replication factor C 81.3 2.3 5E-05 35.6 4.2 16 107-122 38-53 (337)
297 KOG0989|consensus 81.0 3.3 7.2E-05 35.7 4.9 53 59-126 26-78 (346)
298 PRK10078 ribose 1,5-bisphospho 80.9 1.2 2.6E-05 34.6 2.2 18 105-122 2-19 (186)
299 CHL00181 cbbX CbbX; Provisiona 80.7 1.5 3.3E-05 36.9 2.9 20 104-123 58-77 (287)
300 cd01120 RecA-like_NTPases RecA 80.6 3.5 7.7E-05 29.9 4.6 16 108-123 2-17 (165)
301 PRK14729 miaA tRNA delta(2)-is 80.6 1.1 2.4E-05 38.2 2.0 16 106-121 5-20 (300)
302 PTZ00361 26 proteosome regulat 80.6 1.9 4.1E-05 38.6 3.6 19 104-122 216-234 (438)
303 PRK11331 5-methylcytosine-spec 80.4 1.5 3.1E-05 39.6 2.7 28 96-123 185-212 (459)
304 PHA02244 ATPase-like protein 80.3 1.8 3.9E-05 38.2 3.2 21 101-121 115-135 (383)
305 KOG0060|consensus 80.3 1.2 2.6E-05 41.3 2.2 21 102-122 458-478 (659)
306 PRK14530 adenylate kinase; Pro 80.1 1.2 2.6E-05 35.4 2.0 18 104-121 2-19 (215)
307 PLN02165 adenylate isopentenyl 80.1 1.2 2.5E-05 38.6 2.0 21 103-123 41-61 (334)
308 PTZ00454 26S protease regulato 80.1 2 4.2E-05 38.0 3.5 18 104-121 178-195 (398)
309 PRK00300 gmk guanylate kinase; 79.9 1.3 2.8E-05 34.6 2.1 18 103-120 3-20 (205)
310 TIGR02881 spore_V_K stage V sp 79.8 1.3 2.7E-05 36.4 2.1 18 105-122 42-59 (261)
311 TIGR01242 26Sp45 26S proteasom 79.8 2.2 4.8E-05 36.8 3.7 17 105-121 156-172 (364)
312 COG1120 FepC ABC-type cobalami 79.7 2.4 5.3E-05 35.4 3.7 50 102-157 25-81 (258)
313 TIGR02655 circ_KaiC circadian 79.4 4.6 0.0001 36.4 5.7 52 104-161 262-313 (484)
314 PRK08727 hypothetical protein; 79.3 6.8 0.00015 31.7 6.2 16 106-121 42-57 (233)
315 PTZ00301 uridine kinase; Provi 79.2 4 8.7E-05 32.8 4.7 14 108-121 6-19 (210)
316 PF07088 GvpD: GvpD gas vesicl 79.0 2 4.4E-05 38.3 3.2 28 104-132 9-36 (484)
317 PF01078 Mg_chelatase: Magnesi 79.0 1.2 2.6E-05 36.0 1.6 19 103-121 20-38 (206)
318 COG1474 CDC6 Cdc6-related prot 79.0 1.4 3E-05 38.5 2.2 17 106-122 43-59 (366)
319 cd01918 HprK_C HprK/P, the bif 78.9 1.5 3.3E-05 33.6 2.1 19 103-121 12-30 (149)
320 PRK14087 dnaA chromosomal repl 78.9 7.1 0.00015 35.0 6.7 50 106-159 142-191 (450)
321 PF00005 ABC_tran: ABC transpo 78.7 1.8 4E-05 31.3 2.5 21 102-122 8-28 (137)
322 PRK03992 proteasome-activating 78.4 2.5 5.4E-05 37.1 3.6 17 105-121 165-181 (389)
323 TIGR00609 recB exodeoxyribonuc 78.2 6.6 0.00014 39.1 6.8 57 103-160 8-64 (1087)
324 PRK05342 clpX ATP-dependent pr 78.1 1.6 3.5E-05 38.8 2.3 19 104-122 107-125 (412)
325 COG0653 SecA Preprotein transl 77.9 7.1 0.00015 37.8 6.6 81 86-174 77-157 (822)
326 PF07724 AAA_2: AAA domain (Cd 77.8 1.5 3.2E-05 34.1 1.8 14 107-120 5-18 (171)
327 KOG2373|consensus 77.6 6.4 0.00014 34.8 5.7 79 65-154 232-320 (514)
328 PF00308 Bac_DnaA: Bacterial d 77.6 7.8 0.00017 31.1 6.0 45 107-155 36-80 (219)
329 PRK05703 flhF flagellar biosyn 77.5 10 0.00022 33.8 7.2 20 104-123 220-239 (424)
330 cd01363 Motor_domain Myosin an 77.3 1.3 2.7E-05 34.7 1.3 26 97-122 14-41 (186)
331 cd00071 GMPK Guanosine monopho 77.3 1.5 3.2E-05 32.6 1.6 13 108-120 2-14 (137)
332 COG0606 Predicted ATPase with 77.3 1.4 3.1E-05 39.8 1.8 19 103-121 196-214 (490)
333 PRK08939 primosomal protein Dn 77.3 8.5 0.00018 32.7 6.4 48 104-157 155-202 (306)
334 PRK00091 miaA tRNA delta(2)-is 77.3 1.4 3E-05 37.7 1.6 17 106-122 5-21 (307)
335 PRK13909 putative recombinatio 77.2 6.7 0.00014 38.3 6.4 54 109-164 2-55 (910)
336 cd00227 CPT Chloramphenicol (C 77.0 1.9 4E-05 33.1 2.2 17 105-121 2-18 (175)
337 PF08423 Rad51: Rad51; InterP 77.0 2.3 4.9E-05 35.2 2.8 38 108-145 41-79 (256)
338 PF14532 Sigma54_activ_2: Sigm 76.9 2.6 5.7E-05 31.0 2.9 70 102-174 18-104 (138)
339 COG1419 FlhF Flagellar GTP-bin 76.8 12 0.00025 33.4 7.2 19 104-122 202-220 (407)
340 TIGR02928 orc1/cdc6 family rep 76.7 1.8 4E-05 36.8 2.2 17 105-121 40-56 (365)
341 COG5008 PilU Tfp pilus assembl 76.5 2.6 5.7E-05 35.9 3.0 16 108-123 130-145 (375)
342 TIGR00382 clpX endopeptidase C 76.5 1.8 3.9E-05 38.5 2.2 20 103-122 114-133 (413)
343 PRK07261 topology modulation p 76.3 1.6 3.5E-05 33.6 1.6 16 107-122 2-17 (171)
344 TIGR02322 phosphon_PhnN phosph 76.3 1.7 3.6E-05 33.2 1.7 17 106-122 2-18 (179)
345 PHA02535 P terminase ATPase su 76.2 18 0.00039 33.7 8.6 72 89-164 137-208 (581)
346 PRK12723 flagellar biosynthesi 76.0 6.4 0.00014 34.7 5.5 19 105-123 174-192 (388)
347 PF05872 DUF853: Bacterial pro 76.0 0.97 2.1E-05 40.8 0.3 29 95-123 9-37 (502)
348 PRK00411 cdc6 cell division co 75.9 2 4.3E-05 37.1 2.2 18 105-122 55-72 (394)
349 KOG1806|consensus 75.9 7 0.00015 38.7 6.0 71 87-160 735-805 (1320)
350 cd01394 radB RadB. The archaea 75.8 5.3 0.00012 31.5 4.6 20 104-123 18-37 (218)
351 COG0324 MiaA tRNA delta(2)-iso 75.7 1.6 3.5E-05 37.4 1.6 14 108-121 6-19 (308)
352 COG0714 MoxR-like ATPases [Gen 75.3 1.9 4.2E-05 36.7 2.0 24 99-122 37-60 (329)
353 PRK08118 topology modulation p 75.1 1.8 3.9E-05 33.3 1.6 14 107-120 3-16 (167)
354 PRK09361 radB DNA repair and r 75.0 6.5 0.00014 31.2 4.9 25 104-128 22-46 (225)
355 TIGR02746 TraC-F-type type-IV 74.9 4.5 9.8E-05 38.5 4.5 19 106-124 431-449 (797)
356 PLN03187 meiotic recombination 74.9 4.8 0.0001 34.9 4.3 16 106-121 127-142 (344)
357 TIGR03263 guanyl_kin guanylate 74.8 2 4.3E-05 32.7 1.8 17 105-121 1-17 (180)
358 PRK04296 thymidine kinase; Pro 74.7 5.7 0.00012 31.1 4.4 19 105-123 2-20 (190)
359 KOG0741|consensus 74.6 12 0.00027 34.8 6.9 56 63-122 213-273 (744)
360 PRK08233 hypothetical protein; 74.4 1.9 4.2E-05 32.6 1.6 14 107-120 5-18 (182)
361 PRK09302 circadian clock prote 74.4 7.9 0.00017 35.0 5.8 53 104-161 30-82 (509)
362 COG3972 Superfamily I DNA and 74.3 6.4 0.00014 36.3 5.0 66 93-162 165-230 (660)
363 PRK00149 dnaA chromosomal repl 74.0 12 0.00025 33.4 6.7 46 106-155 149-194 (450)
364 PF13476 AAA_23: AAA domain; P 73.9 2.3 4.9E-05 32.4 1.9 15 108-122 22-36 (202)
365 COG1126 GlnQ ABC-type polar am 73.7 2.3 5E-05 34.9 1.9 28 102-131 25-52 (240)
366 PRK08769 DNA polymerase III su 73.7 22 0.00048 30.5 8.0 33 89-121 3-42 (319)
367 TIGR01243 CDC48 AAA family ATP 73.6 3.8 8.3E-05 38.9 3.7 53 64-121 173-228 (733)
368 KOG0738|consensus 73.6 1.6 3.6E-05 38.8 1.1 16 106-121 246-261 (491)
369 TIGR01313 therm_gnt_kin carboh 73.6 1.8 3.8E-05 32.6 1.2 14 108-121 1-14 (163)
370 KOG0744|consensus 73.5 16 0.00034 32.1 7.0 60 104-164 176-247 (423)
371 PRK06620 hypothetical protein; 73.4 2.1 4.6E-05 34.3 1.7 17 106-122 45-61 (214)
372 PRK09302 circadian clock prote 73.0 9.1 0.0002 34.6 5.8 51 104-160 272-322 (509)
373 TIGR02773 addB_Gpos ATP-depend 72.9 9.3 0.0002 38.3 6.3 50 109-161 5-54 (1158)
374 TIGR00174 miaA tRNA isopenteny 72.6 2.2 4.7E-05 36.2 1.6 14 108-121 2-15 (287)
375 TIGR00362 DnaA chromosomal rep 72.4 15 0.00032 32.2 6.8 46 106-155 137-182 (405)
376 PF00485 PRK: Phosphoribulokin 72.1 2.3 5E-05 33.2 1.6 14 108-121 2-15 (194)
377 cd02019 NK Nucleoside/nucleoti 71.7 2.8 6E-05 27.3 1.6 14 108-121 2-15 (69)
378 KOG0733|consensus 71.6 6 0.00013 37.3 4.3 52 66-121 187-239 (802)
379 PRK05595 replicative DNA helic 71.6 12 0.00025 33.4 6.1 20 103-122 199-218 (444)
380 PRK13873 conjugal transfer ATP 71.6 5.9 0.00013 38.1 4.5 18 107-124 443-460 (811)
381 PF06309 Torsin: Torsin; Inte 71.4 16 0.00035 27.3 5.8 17 110-126 58-74 (127)
382 PF02500 DNA_pack_N: Probable 71.4 5.1 0.00011 33.9 3.5 48 112-162 195-242 (284)
383 PRK04195 replication factor C 71.4 4.4 9.5E-05 36.5 3.4 47 62-121 7-55 (482)
384 TIGR01241 FtsH_fam ATP-depende 71.3 5.8 0.00013 35.8 4.2 53 64-121 50-104 (495)
385 TIGR02760 TraI_TIGR conjugativ 71.3 12 0.00026 39.8 6.8 61 90-155 429-491 (1960)
386 cd00820 PEPCK_HprK Phosphoenol 71.1 3.6 7.8E-05 29.7 2.3 22 103-124 13-34 (107)
387 PRK05541 adenylylsulfate kinas 71.0 3.1 6.7E-05 31.7 2.1 21 102-122 4-24 (176)
388 PF03215 Rad17: Rad17 cell cyc 70.9 7.2 0.00016 35.8 4.7 52 57-122 7-62 (519)
389 PF00625 Guanylate_kin: Guanyl 70.7 3 6.6E-05 32.1 2.0 17 105-121 2-18 (183)
390 KOG1533|consensus 70.7 4.9 0.00011 33.6 3.2 22 108-130 5-26 (290)
391 PRK14721 flhF flagellar biosyn 70.6 15 0.00033 32.8 6.5 20 104-123 190-209 (420)
392 TIGR02238 recomb_DMC1 meiotic 70.5 6.3 0.00014 33.6 4.0 19 105-123 96-114 (313)
393 TIGR01650 PD_CobS cobaltochela 70.5 4.2 9.2E-05 35.1 2.9 20 102-121 61-80 (327)
394 PRK06893 DNA replication initi 70.3 2.7 5.8E-05 33.9 1.6 17 105-121 39-55 (229)
395 TIGR03238 dnd_assoc_3 dnd syst 70.2 3.4 7.5E-05 37.6 2.4 33 91-123 11-50 (504)
396 KOG1015|consensus 70.2 14 0.0003 36.8 6.4 68 105-174 696-763 (1567)
397 PRK12727 flagellar biosynthesi 70.0 9.5 0.00021 35.3 5.2 22 102-123 347-368 (559)
398 cd01876 YihA_EngB The YihA (En 69.9 2.9 6.2E-05 30.4 1.6 15 107-121 1-15 (170)
399 TIGR00390 hslU ATP-dependent p 69.9 4 8.6E-05 36.7 2.7 18 105-122 47-64 (441)
400 PF03796 DnaB_C: DnaB-like hel 69.8 18 0.00039 29.4 6.5 39 103-145 17-55 (259)
401 PF00158 Sigma54_activat: Sigm 69.8 5.1 0.00011 31.0 3.0 21 102-122 19-39 (168)
402 cd02023 UMPK Uridine monophosp 69.8 3 6.5E-05 32.5 1.8 14 108-121 2-15 (198)
403 PRK06547 hypothetical protein; 69.7 4.7 0.0001 31.3 2.8 15 107-121 17-31 (172)
404 COG0419 SbcC ATPase involved i 69.7 2.8 6.1E-05 40.8 1.9 20 103-122 23-42 (908)
405 PRK00440 rfc replication facto 69.7 6.1 0.00013 32.7 3.7 16 107-122 40-55 (319)
406 PRK05201 hslU ATP-dependent pr 69.7 4.1 8.9E-05 36.6 2.8 21 105-125 50-71 (443)
407 PRK11889 flhF flagellar biosyn 69.7 13 0.00028 33.4 5.8 20 105-124 241-260 (436)
408 PF03193 DUF258: Protein of un 69.6 4.4 9.5E-05 31.4 2.6 45 77-121 2-51 (161)
409 PRK06762 hypothetical protein; 69.5 3 6.4E-05 31.4 1.6 15 107-121 4-18 (166)
410 PRK14088 dnaA chromosomal repl 69.5 15 0.00033 32.8 6.4 47 106-156 131-177 (440)
411 PRK14737 gmk guanylate kinase; 69.4 3.1 6.6E-05 32.7 1.7 17 105-121 4-20 (186)
412 PRK11608 pspF phage shock prot 69.1 4.7 0.0001 34.4 2.9 22 101-122 25-46 (326)
413 KOG1123|consensus 69.1 2.7 5.9E-05 38.7 1.5 64 90-161 302-368 (776)
414 cd03247 ABCC_cytochrome_bd The 68.9 4.6 0.0001 30.9 2.6 21 102-122 25-45 (178)
415 smart00072 GuKc Guanylate kina 68.6 3.5 7.5E-05 31.9 1.9 16 105-120 2-17 (184)
416 PRK14531 adenylate kinase; Pro 68.5 3.2 6.8E-05 32.1 1.6 16 106-121 3-18 (183)
417 PF03029 ATP_bind_1: Conserved 68.5 7.6 0.00017 31.7 4.0 22 110-132 1-22 (238)
418 PRK05480 uridine/cytidine kina 68.4 3.3 7.2E-05 32.6 1.8 17 105-121 6-22 (209)
419 PRK08356 hypothetical protein; 68.4 3.5 7.6E-05 32.2 1.9 16 107-122 7-22 (195)
420 cd02028 UMPK_like Uridine mono 68.3 3.4 7.3E-05 32.1 1.7 14 108-121 2-15 (179)
421 PF08477 Miro: Miro-like prote 68.3 3.5 7.6E-05 28.8 1.7 14 108-121 2-15 (119)
422 cd02020 CMPK Cytidine monophos 68.2 3.7 8E-05 29.8 1.9 14 108-121 2-15 (147)
423 cd01393 recA_like RecA is a b 68.1 11 0.00023 29.8 4.7 26 103-128 17-42 (226)
424 PF01745 IPT: Isopentenyl tran 68.1 3.3 7.1E-05 34.0 1.6 15 108-122 4-18 (233)
425 TIGR01243 CDC48 AAA family ATP 68.1 5.9 0.00013 37.6 3.7 52 65-121 449-503 (733)
426 KOG0090|consensus 68.1 2.4 5.1E-05 34.8 0.8 19 105-123 38-56 (238)
427 TIGR01359 UMP_CMP_kin_fam UMP- 67.9 3.3 7.2E-05 31.6 1.6 14 108-121 2-15 (183)
428 cd03292 ABC_FtsE_transporter F 67.8 4.8 0.00011 31.5 2.6 20 102-121 24-43 (214)
429 TIGR02012 tigrfam_recA protein 67.8 15 0.00032 31.6 5.7 21 103-123 53-73 (321)
430 TIGR00602 rad24 checkpoint pro 67.7 12 0.00026 35.3 5.5 56 57-122 72-127 (637)
431 COG1618 Predicted nucleotide k 67.7 11 0.00023 29.7 4.4 26 106-132 6-31 (179)
432 PRK05057 aroK shikimate kinase 67.6 3.9 8.5E-05 31.5 2.0 18 104-121 3-20 (172)
433 cd02021 GntK Gluconate kinase 67.6 3.4 7.4E-05 30.5 1.6 15 108-122 2-16 (150)
434 KOG0925|consensus 67.6 19 0.00041 33.2 6.5 52 67-121 26-78 (699)
435 PRK14532 adenylate kinase; Pro 67.5 3.5 7.6E-05 31.8 1.7 15 107-121 2-16 (188)
436 TIGR01360 aden_kin_iso1 adenyl 67.4 3.4 7.4E-05 31.4 1.6 16 107-122 5-20 (188)
437 PRK06217 hypothetical protein; 67.3 3.8 8.3E-05 31.6 1.9 15 107-121 3-17 (183)
438 TIGR02974 phageshock_pspF psp 67.3 5.3 0.00012 34.2 2.9 22 101-122 18-39 (329)
439 KOG0733|consensus 67.2 11 0.00023 35.7 4.9 57 62-122 504-562 (802)
440 PRK11823 DNA repair protein Ra 67.2 15 0.00032 32.9 5.8 52 104-161 79-130 (446)
441 cd01428 ADK Adenylate kinase ( 67.2 3.9 8.4E-05 31.4 1.9 14 108-121 2-15 (194)
442 TIGR01166 cbiO cobalt transpor 67.1 5.2 0.00011 30.9 2.6 20 102-121 15-34 (190)
443 cd00544 CobU Adenosylcobinamid 67.1 13 0.00028 28.8 4.8 42 108-157 2-43 (169)
444 PRK09825 idnK D-gluconate kina 67.1 4.5 9.8E-05 31.4 2.3 19 104-122 2-20 (176)
445 PLN02199 shikimate kinase 67.0 4.6 9.9E-05 34.6 2.4 24 98-121 95-118 (303)
446 cd00464 SK Shikimate kinase (S 67.0 3.7 8.1E-05 30.1 1.7 15 107-121 1-15 (154)
447 TIGR03608 L_ocin_972_ABC putat 66.9 5.1 0.00011 31.2 2.5 20 102-121 21-40 (206)
448 TIGR00235 udk uridine kinase. 66.8 3.5 7.6E-05 32.5 1.6 16 105-120 6-21 (207)
449 PRK00080 ruvB Holliday junctio 66.7 3.9 8.4E-05 34.7 1.9 19 105-123 51-69 (328)
450 PRK09376 rho transcription ter 66.7 17 0.00036 32.5 5.9 64 61-131 126-194 (416)
451 TIGR00635 ruvB Holliday juncti 66.5 4 8.8E-05 33.9 2.0 17 106-122 31-47 (305)
452 cd03258 ABC_MetN_methionine_tr 66.4 5.3 0.00012 31.8 2.6 20 102-121 28-47 (233)
453 KOG0991|consensus 66.4 6.1 0.00013 33.2 2.9 18 106-123 49-66 (333)
454 PF02456 Adeno_IVa2: Adenoviru 66.4 5.3 0.00012 34.6 2.7 37 108-149 90-128 (369)
455 cd03214 ABC_Iron-Siderophores_ 66.4 5.5 0.00012 30.6 2.6 20 102-121 22-41 (180)
456 PF03266 NTPase_1: NTPase; In 66.2 12 0.00026 28.9 4.4 24 107-131 1-24 (168)
457 cd01123 Rad51_DMC1_radA Rad51_ 66.2 9.8 0.00021 30.2 4.1 23 102-124 16-38 (235)
458 cd03259 ABC_Carb_Solutes_like 66.1 5.4 0.00012 31.3 2.6 21 102-122 23-43 (213)
459 PRK10876 recB exonuclease V su 66.1 18 0.0004 36.4 6.8 56 103-159 16-78 (1181)
460 PRK05707 DNA polymerase III su 66.1 22 0.00047 30.5 6.4 30 92-121 5-38 (328)
461 cd03221 ABCF_EF-3 ABCF_EF-3 E 65.9 6 0.00013 29.4 2.6 22 102-123 23-44 (144)
462 PRK12724 flagellar biosynthesi 65.7 18 0.0004 32.4 6.0 18 106-123 224-241 (432)
463 TIGR01277 thiQ thiamine ABC tr 65.5 5.5 0.00012 31.4 2.5 21 102-122 21-41 (213)
464 KOG1000|consensus 65.5 46 0.001 30.9 8.5 72 62-147 178-250 (689)
465 PRK01184 hypothetical protein; 65.4 4.4 9.5E-05 31.1 1.9 14 108-121 4-17 (184)
466 cd00267 ABC_ATPase ABC (ATP-bi 65.3 6.1 0.00013 29.5 2.6 21 102-122 22-42 (157)
467 PRK05748 replicative DNA helic 65.3 32 0.0007 30.6 7.6 28 102-130 200-227 (448)
468 PF06414 Zeta_toxin: Zeta toxi 65.3 4.4 9.6E-05 31.8 1.9 17 107-123 17-33 (199)
469 PRK10247 putative ABC transpor 65.2 5.8 0.00013 31.6 2.6 21 102-122 30-50 (225)
470 COG1221 PspF Transcriptional r 65.0 6.7 0.00015 34.9 3.1 23 101-123 97-119 (403)
471 cd03301 ABC_MalK_N The N-termi 64.9 5.9 0.00013 31.0 2.6 20 102-121 23-42 (213)
472 cd03262 ABC_HisP_GlnQ_permease 64.9 6 0.00013 31.0 2.6 20 102-121 23-42 (213)
473 TIGR00618 sbcc exonuclease Sbc 64.9 4 8.7E-05 40.3 1.9 16 107-122 28-43 (1042)
474 TIGR02673 FtsE cell division A 64.9 6 0.00013 31.0 2.6 21 102-122 25-45 (214)
475 cd03230 ABC_DR_subfamily_A Thi 64.8 6.1 0.00013 30.1 2.6 21 102-122 23-43 (173)
476 KOG0731|consensus 64.8 4 8.7E-05 39.1 1.8 18 105-122 344-361 (774)
477 cd04105 SR_beta Signal recogni 64.7 5.6 0.00012 31.4 2.4 17 107-123 2-18 (203)
478 cd03228 ABCC_MRP_Like The MRP 64.5 6.4 0.00014 29.9 2.6 20 102-121 25-44 (171)
479 PF03354 Terminase_1: Phage Te 64.4 25 0.00055 31.6 6.8 60 106-166 23-82 (477)
480 PF05707 Zot: Zonular occluden 64.4 5.4 0.00012 31.2 2.3 18 108-125 3-20 (193)
481 cd01368 KISc_KIF23_like Kinesi 64.4 3.1 6.8E-05 35.8 1.0 24 99-122 81-106 (345)
482 cd03245 ABCC_bacteriocin_expor 64.3 6.2 0.00013 31.1 2.6 21 102-122 27-47 (220)
483 PRK14086 dnaA chromosomal repl 64.3 22 0.00048 33.4 6.5 46 107-156 316-361 (617)
484 COG1222 RPT1 ATP-dependent 26S 64.2 4.5 9.8E-05 35.6 1.9 54 65-122 147-202 (406)
485 PF02463 SMC_N: RecF/RecN/SMC 64.1 5.3 0.00011 31.5 2.2 19 104-122 23-41 (220)
486 PRK06995 flhF flagellar biosyn 64.0 28 0.0006 31.8 6.9 20 104-123 255-274 (484)
487 PRK00771 signal recognition pa 64.0 15 0.00033 32.9 5.3 19 105-123 95-113 (437)
488 PF02492 cobW: CobW/HypB/UreG, 64.0 11 0.00023 29.1 3.8 14 108-121 3-16 (178)
489 cd01125 repA Hexameric Replica 64.0 30 0.00065 27.7 6.6 16 108-123 4-19 (239)
490 cd01370 KISc_KIP3_like Kinesin 63.8 3.5 7.6E-05 35.4 1.2 23 100-122 81-105 (338)
491 PRK10908 cell division protein 63.8 6.4 0.00014 31.2 2.6 22 102-123 25-46 (222)
492 cd03255 ABC_MJ0796_Lo1CDE_FtsE 63.8 6.4 0.00014 31.0 2.6 20 102-121 27-46 (218)
493 PRK10263 DNA translocase FtsK; 63.8 12 0.00025 38.1 4.8 26 106-131 1011-1036(1355)
494 PRK04220 2-phosphoglycerate ki 63.7 9.8 0.00021 32.5 3.8 44 77-121 62-108 (301)
495 TIGR00665 DnaB replicative DNA 63.6 36 0.00079 29.9 7.6 28 102-130 192-219 (434)
496 COG3598 RepA RecA-family ATPas 63.6 25 0.00054 30.8 6.2 64 103-168 87-156 (402)
497 PRK13540 cytochrome c biogenes 63.5 6.6 0.00014 30.6 2.6 22 102-123 24-45 (200)
498 cd00983 recA RecA is a bacter 63.5 19 0.00042 31.0 5.6 26 104-130 54-79 (325)
499 cd03293 ABC_NrtD_SsuB_transpor 63.5 6.4 0.00014 31.1 2.5 21 102-122 27-47 (220)
500 TIGR00176 mobB molybdopterin-g 63.5 8.2 0.00018 29.3 3.0 20 108-127 2-23 (155)
No 1
>KOG0338|consensus
Probab=99.94 E-value=9.7e-28 Score=210.37 Aligned_cols=109 Identities=30% Similarity=0.350 Sum_probs=100.0
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHh-ccCCCCCceEE
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN-LKFMPRNGKSW 143 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~-~~~~~~~~~~~ 143 (178)
..+|.+|+ |+-.|+++|..+||..|||||..+||.++-|+|+++||-||||||.||+||+|++|+- .+..+..+++|
T Consensus 180 ~~sF~~mN--LSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLV 257 (691)
T KOG0338|consen 180 NESFQSMN--LSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLV 257 (691)
T ss_pred hhhHHhcc--cchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEE
Confidence 35799998 9999999999999999999999999999999999999999999999999999999864 44566779999
Q ss_pred EeecHHHHHHHHHHHHHHhhhcCCCCcceEEE
Q psy12984 144 QGKLRPLTNGVYLVACNVFKSTQPPTVIKVQT 175 (178)
Q Consensus 144 l~Ptr~La~qi~~~~~~l~~~~~~~~~~~v~~ 175 (178)
|+||||||.|++.+.+++.+++...++++|+-
T Consensus 258 L~PTRELaiQv~sV~~qlaqFt~I~~~L~vGG 289 (691)
T KOG0338|consen 258 LVPTRELAIQVHSVTKQLAQFTDITVGLAVGG 289 (691)
T ss_pred EeccHHHHHHHHHHHHHHHhhccceeeeeecC
Confidence 99999999999999999999999877777754
No 2
>KOG0330|consensus
Probab=99.92 E-value=1.6e-25 Score=191.21 Aligned_cols=102 Identities=29% Similarity=0.294 Sum_probs=92.9
Q ss_pred CCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceE
Q psy12984 63 LSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKS 142 (178)
Q Consensus 63 ~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~ 142 (178)
....+|.+|+ +++++++++.+.||..||+||.++||.++.|+|||+.|.||||||++|+|||+++|...+. ...++
T Consensus 58 e~~~sf~dLg--v~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~--~~~~l 133 (476)
T KOG0330|consen 58 ESFKSFADLG--VHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPK--LFFAL 133 (476)
T ss_pred hhhcchhhcC--cCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCC--CceEE
Confidence 4456799998 9999999999999999999999999999999999999999999999999999999988543 36899
Q ss_pred EEeecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 143 WQGKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 143 ~l~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
|++||||||.||..+|..+++.+|..
T Consensus 134 VLtPtRELA~QI~e~fe~Lg~~iglr 159 (476)
T KOG0330|consen 134 VLTPTRELAQQIAEQFEALGSGIGLR 159 (476)
T ss_pred EecCcHHHHHHHHHHHHHhccccCeE
Confidence 99999999999999999888665544
No 3
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=4.5e-24 Score=191.77 Aligned_cols=99 Identities=31% Similarity=0.419 Sum_probs=89.0
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
..|++|+ |++.++++|.++||..|||||..+||.++.|+|++++|+||||||+||++|+|+++..........++|++
T Consensus 29 ~~F~~l~--l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~ 106 (513)
T COG0513 29 PEFASLG--LSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILA 106 (513)
T ss_pred CCHhhcC--CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEEC
Confidence 5699998 99999999999999999999999999999999999999999999999999999998742111211289999
Q ss_pred ecHHHHHHHHHHHHHHhhhcC
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~ 166 (178)
||||||.|+++++..+..+.+
T Consensus 107 PTRELA~Qi~~~~~~~~~~~~ 127 (513)
T COG0513 107 PTRELAVQIAEELRKLGKNLG 127 (513)
T ss_pred CCHHHHHHHHHHHHHHHhhcC
Confidence 999999999999999999875
No 4
>KOG0346|consensus
Probab=99.91 E-value=1.6e-24 Score=187.59 Aligned_cols=101 Identities=33% Similarity=0.438 Sum_probs=92.9
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC----CCCCce
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF----MPRNGK 141 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~----~~~~~~ 141 (178)
.+|++|+ |++.|++++.++||..||-||..|||.++.|+|+++.|.||||||+||+||+|+.|...+. ..++.+
T Consensus 19 ktFe~~g--LD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa 96 (569)
T KOG0346|consen 19 KTFEEFG--LDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSA 96 (569)
T ss_pred ccHHHhC--CCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhccccccccee
Confidence 5799998 9999999999999999999999999999999999999999999999999999999987544 346688
Q ss_pred EEEeecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 142 SWQGKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 142 ~~l~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
++|+||||||+|+|.++..+..+.+..
T Consensus 97 ~iLvPTkEL~qQvy~viekL~~~c~k~ 123 (569)
T KOG0346|consen 97 VILVPTKELAQQVYKVIEKLVEYCSKD 123 (569)
T ss_pred EEEechHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999998876643
No 5
>KOG0331|consensus
Probab=99.91 E-value=2.8e-24 Score=190.88 Aligned_cols=100 Identities=40% Similarity=0.442 Sum_probs=91.5
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhc----cCCCCCc
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNL----KFMPRNG 140 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~----~~~~~~~ 140 (178)
+..|++++ |++++..++...||..|||||+.+||.++.|+|+++.|.|||||||+|+||+|.++... ....++.
T Consensus 90 ~~~f~~~~--ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~ 167 (519)
T KOG0331|consen 90 SAAFQELG--LSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPI 167 (519)
T ss_pred chhhhccc--ccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCe
Confidence 34799998 99999999999999999999999999999999999999999999999999999999862 2345778
Q ss_pred eEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 141 KSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 141 ~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+++|+||||||.||+.++..+...+.
T Consensus 168 vLVL~PTRELA~QV~~~~~~~~~~~~ 193 (519)
T KOG0331|consen 168 VLVLAPTRELAVQVQAEAREFGKSLR 193 (519)
T ss_pred EEEEcCcHHHHHHHHHHHHHHcCCCC
Confidence 99999999999999999999887766
No 6
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.91 E-value=4.2e-24 Score=187.16 Aligned_cols=103 Identities=26% Similarity=0.378 Sum_probs=92.4
Q ss_pred CccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC-----CCC
Q psy12984 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-----MPR 138 (178)
Q Consensus 64 ~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-----~~~ 138 (178)
...+|++|+ |+++++++|.++||..|||+|.+|||.++.|+|++++||||||||++|++|+++.+..... ...
T Consensus 6 ~~~~f~~~~--l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~ 83 (423)
T PRK04837 6 TEQKFSDFA--LHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQ 83 (423)
T ss_pred CCCCHhhCC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCC
Confidence 446899998 9999999999999999999999999999999999999999999999999999999975432 234
Q ss_pred CceEEEeecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 139 NGKSWQGKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 139 ~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
.+++||+|||+||.|+++++..+...++..
T Consensus 84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~ 113 (423)
T PRK04837 84 PRALIMAPTRELAVQIHADAEPLAQATGLK 113 (423)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHhccCCce
Confidence 689999999999999999999998776543
No 7
>KOG0343|consensus
Probab=99.90 E-value=2.3e-24 Score=190.60 Aligned_cols=111 Identities=40% Similarity=0.552 Sum_probs=101.2
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCC--CC
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP--RN 139 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~--~~ 139 (178)
+.....|++|+ |+..++++|.+.+|..||.||+.+||..|.|+|||++|.|||||||||++|+|++|++.++.+ +.
T Consensus 65 ~~~~~kF~dlp--ls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGl 142 (758)
T KOG0343|consen 65 STTIKKFADLP--LSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGL 142 (758)
T ss_pred hhhhhhHHhCC--CchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCc
Confidence 34557899998 999999999999999999999999999999999999999999999999999999999988754 77
Q ss_pred ceEEEeecHHHHHHHHHHHHHHhhhcCCCCcceEE
Q psy12984 140 GKSWQGKLRPLTNGVYLVACNVFKSTQPPTVIKVQ 174 (178)
Q Consensus 140 ~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~~~~v~ 174 (178)
+++||+||||||.|++.++.++++...-..++-++
T Consensus 143 GalIISPTRELA~QtFevL~kvgk~h~fSaGLiiG 177 (758)
T KOG0343|consen 143 GALIISPTRELALQTFEVLNKVGKHHDFSAGLIIG 177 (758)
T ss_pred eeEEecchHHHHHHHHHHHHHHhhccccccceeec
Confidence 89999999999999999999999887776665543
No 8
>KOG0345|consensus
Probab=99.90 E-value=1.7e-23 Score=182.21 Aligned_cols=101 Identities=39% Similarity=0.540 Sum_probs=91.3
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC-CC--CCce
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-MP--RNGK 141 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-~~--~~~~ 141 (178)
...|+++..+|+++++.++..+||...||+|..|||.++.++||++.|+||||||+||++|+++.+++... .+ ..++
T Consensus 3 ~~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vga 82 (567)
T KOG0345|consen 3 PKSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGA 82 (567)
T ss_pred CcchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeE
Confidence 35799999889999999999999999999999999999999999999999999999999999999966432 22 2478
Q ss_pred EEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 142 SWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 142 ~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
+||+||||||.||+.++..+...+
T Consensus 83 lIIsPTRELa~QI~~V~~~F~~~l 106 (567)
T KOG0345|consen 83 LIISPTRELARQIREVAQPFLEHL 106 (567)
T ss_pred EEecCcHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999998884
No 9
>PTZ00110 helicase; Provisional
Probab=99.90 E-value=1.8e-23 Score=189.01 Aligned_cols=108 Identities=32% Similarity=0.413 Sum_probs=93.9
Q ss_pred CCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhc
Q psy12984 54 PGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNL 133 (178)
Q Consensus 54 ~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~ 133 (178)
.+.+.|.++ .+|++++ |++.++++|.++||..||+||..|||.++.|+|+|++|+||||||++|++|++.++...
T Consensus 121 ~g~~~p~p~---~~f~~~~--l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~ 195 (545)
T PTZ00110 121 AGENVPKPV---VSFEYTS--FPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQ 195 (545)
T ss_pred cCCCCCccc---CCHhhcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhc
Confidence 456666555 4599987 99999999999999999999999999999999999999999999999999999988753
Q ss_pred c---CCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 134 K---FMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 134 ~---~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
. ...++.++||+||||||.|++..+..+...++
T Consensus 196 ~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~ 231 (545)
T PTZ00110 196 PLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSK 231 (545)
T ss_pred ccccCCCCcEEEEECChHHHHHHHHHHHHHHhcccC
Confidence 2 23356789999999999999999999876543
No 10
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.89 E-value=1.8e-23 Score=187.90 Aligned_cols=116 Identities=30% Similarity=0.323 Sum_probs=99.0
Q ss_pred ccccccccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHH
Q psy12984 46 TNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 125 (178)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp 125 (178)
.....+...|.+.|.|+.+ |++++ |++.++++|..+||..|||+|.+|||.++.|+|+|++|+||||||++|++|
T Consensus 104 r~~~~i~~~g~~~p~pi~~---f~~~~--l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllP 178 (518)
T PLN00206 104 RRKLEIHVKGEAVPPPILS---FSSCG--LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVP 178 (518)
T ss_pred HHHCCCEecCCCCCchhcC---HHhCC--CCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHH
Confidence 3445556677777766655 99988 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcc-----CCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 126 AVELIYNLK-----FMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 126 ~l~~l~~~~-----~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
++.++.... ....+.++||+||||||.|++..+..+.+.++
T Consensus 179 il~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~ 224 (518)
T PLN00206 179 IISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLP 224 (518)
T ss_pred HHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCC
Confidence 999886421 12456899999999999999999988876553
No 11
>KOG0348|consensus
Probab=99.89 E-value=2.7e-23 Score=183.28 Aligned_cols=105 Identities=29% Similarity=0.364 Sum_probs=94.9
Q ss_pred CCCCccchHhhcccCCHHHHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhcc----C
Q psy12984 61 EILSSTQFEALKGKVCENTLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK----F 135 (178)
Q Consensus 61 ~~~~~~~f~~l~~~l~~~ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~----~ 135 (178)
-+.....|..|+ |++.+...|.. +++..||.||..|||.++.|+|++|.|+||||||+||++|+++.|.... .
T Consensus 131 ~~fts~~f~~LG--L~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~R 208 (708)
T KOG0348|consen 131 APFTSAAFASLG--LHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQR 208 (708)
T ss_pred cccccccchhcC--CCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccc
Confidence 346678899998 99999999976 9999999999999999999999999999999999999999999998632 3
Q ss_pred CCCCceEEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 136 MPRNGKSWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 136 ~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
..+..++||+||||||.|+|++++++++.+.+
T Consensus 209 s~G~~ALVivPTREL~~Q~y~~~qKLl~~~hW 240 (708)
T KOG0348|consen 209 SDGPYALVIVPTRELALQIYETVQKLLKPFHW 240 (708)
T ss_pred cCCceEEEEechHHHHHHHHHHHHHHhcCceE
Confidence 55778999999999999999999999987654
No 12
>KOG0340|consensus
Probab=99.89 E-value=1.6e-23 Score=177.50 Aligned_cols=101 Identities=29% Similarity=0.288 Sum_probs=91.4
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ 144 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l 144 (178)
...|+.|+ |++|+.+.|..+|+..|||||..|||.++.|+|+|++|.||||||++|.+|+++++... ..+..++++
T Consensus 6 ~~~F~~LG--l~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsed--P~giFalvl 81 (442)
T KOG0340|consen 6 AKPFSILG--LSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSED--PYGIFALVL 81 (442)
T ss_pred cCchhhcC--ccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccC--CCcceEEEe
Confidence 46799998 99999999999999999999999999999999999999999999999999999999764 445688999
Q ss_pred eecHHHHHHHHHHHHHHhhhcCCCC
Q psy12984 145 GKLRPLTNGVYLVACNVFKSTQPPT 169 (178)
Q Consensus 145 ~Ptr~La~qi~~~~~~l~~~~~~~~ 169 (178)
+||||||.|+.+.|..+++.++..+
T Consensus 82 TPTrELA~QiaEQF~alGk~l~lK~ 106 (442)
T KOG0340|consen 82 TPTRELALQIAEQFIALGKLLNLKV 106 (442)
T ss_pred cchHHHHHHHHHHHHHhcccccceE
Confidence 9999999999999888776655543
No 13
>KOG0342|consensus
Probab=99.89 E-value=7.2e-23 Score=178.91 Aligned_cols=102 Identities=46% Similarity=0.701 Sum_probs=93.6
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCC--CC
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP--RN 139 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~--~~ 139 (178)
+.....|+++. |++.++++|.++||..+|+||+.+||.++.|+|+++.|.||||||+||+||+++++...+..+ ..
T Consensus 78 ~~~~~~f~~~~--LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~ 155 (543)
T KOG0342|consen 78 ITTTFRFEEGS--LSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGT 155 (543)
T ss_pred hhhhhHhhccc--cCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCe
Confidence 45567788887 999999999999999999999999999999999999999999999999999999998876544 44
Q ss_pred ceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 140 GKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 140 ~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.++||+||||||.|++.+++.++.+.
T Consensus 156 ~vlIi~PTRELA~Q~~~eak~Ll~~h 181 (543)
T KOG0342|consen 156 GVLIICPTRELAMQIFAEAKELLKYH 181 (543)
T ss_pred eEEEecccHHHHHHHHHHHHHHHhhC
Confidence 77889999999999999999999987
No 14
>KOG0347|consensus
Probab=99.88 E-value=4.2e-23 Score=182.57 Aligned_cols=107 Identities=31% Similarity=0.438 Sum_probs=89.6
Q ss_pred CccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHh---------c
Q psy12984 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYN---------L 133 (178)
Q Consensus 64 ~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~---------~ 133 (178)
+...|.+|. |+.++|++|..+||.+||+||..+||++..| .||++.|.|||||||||.||+++.+.. .
T Consensus 179 DvsAW~~l~--lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~ 256 (731)
T KOG0347|consen 179 DVSAWKNLF--LPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSN 256 (731)
T ss_pred ChHHHhcCC--CCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhh
Confidence 335588886 9999999999999999999999999999999 899999999999999999999995543 2
Q ss_pred c--CCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCCcceEEEe
Q psy12984 134 K--FMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPTVIKVQTL 176 (178)
Q Consensus 134 ~--~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~~~~v~~~ 176 (178)
- ....+.++|++||||||.||...+..++.+++ |+|.++
T Consensus 257 ~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~----i~v~si 297 (731)
T KOG0347|consen 257 TSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQ----IRVASI 297 (731)
T ss_pred HHhccCcceeEEecChHHHHHHHHHHHHHhccccC----eEEEEe
Confidence 1 12233489999999999999999999887544 555544
No 15
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.88 E-value=2.7e-22 Score=177.65 Aligned_cols=98 Identities=30% Similarity=0.417 Sum_probs=88.4
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC----CCCCceE
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF----MPRNGKS 142 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~----~~~~~~~ 142 (178)
+|++|+ |+++++++|.++||..||++|..|||.++.|+|+|++||||||||++|++|+++.+..... ....+++
T Consensus 2 ~f~~l~--l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aL 79 (456)
T PRK10590 2 SFDSLG--LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRAL 79 (456)
T ss_pred CHHHcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEE
Confidence 599998 9999999999999999999999999999999999999999999999999999999865322 1234789
Q ss_pred EEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 143 WQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 143 ~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
||+|||+||.|++.++..+.+.++
T Consensus 80 il~PtreLa~Qi~~~~~~~~~~~~ 103 (456)
T PRK10590 80 ILTPTRELAAQIGENVRDYSKYLN 103 (456)
T ss_pred EEeCcHHHHHHHHHHHHHHhccCC
Confidence 999999999999999999887654
No 16
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.88 E-value=1.8e-22 Score=183.45 Aligned_cols=99 Identities=29% Similarity=0.352 Sum_probs=88.9
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhcc-----CCCCCc
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK-----FMPRNG 140 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~-----~~~~~~ 140 (178)
.+|++|+ |++.++++|.++||..|||||..+||.++.|+|++++||||||||++|++|+++++.... .....+
T Consensus 9 ~~f~~l~--l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~r 86 (572)
T PRK04537 9 LTFSSFD--LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPR 86 (572)
T ss_pred CChhhcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCce
Confidence 4699998 999999999999999999999999999999999999999999999999999999986532 122468
Q ss_pred eEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 141 KSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 141 ~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
++||+||||||.|++..+..++..++
T Consensus 87 aLIl~PTreLa~Qi~~~~~~l~~~~~ 112 (572)
T PRK04537 87 ALILAPTRELAIQIHKDAVKFGADLG 112 (572)
T ss_pred EEEEeCcHHHHHHHHHHHHHHhccCC
Confidence 99999999999999999998876654
No 17
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.87 E-value=4e-22 Score=177.16 Aligned_cols=101 Identities=29% Similarity=0.360 Sum_probs=90.6
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCC-----CCC
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM-----PRN 139 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~-----~~~ 139 (178)
...|.+++ |++.++++|.++||..||+||.+||+.++.|+|+|++|+||||||++|++|+++.+...... ...
T Consensus 86 ~~~f~~~~--l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~ 163 (475)
T PRK01297 86 KTRFHDFN--LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEP 163 (475)
T ss_pred CCCHhHCC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCc
Confidence 45799998 99999999999999999999999999999999999999999999999999999998764321 246
Q ss_pred ceEEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 140 GKSWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 140 ~~~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
+++||+|||+||.|++..+..+.+.++.
T Consensus 164 ~aLil~PtreLa~Q~~~~~~~l~~~~~~ 191 (475)
T PRK01297 164 RALIIAPTRELVVQIAKDAAALTKYTGL 191 (475)
T ss_pred eEEEEeCcHHHHHHHHHHHHHhhccCCC
Confidence 8899999999999999999998876653
No 18
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.87 E-value=6.8e-22 Score=174.88 Aligned_cols=96 Identities=30% Similarity=0.383 Sum_probs=87.8
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
.+|++|+ |++.++++|..+||..|||+|.+|||.++.|+|++++||||||||++|++|+++++... ....+++|++
T Consensus 4 ~~f~~l~--l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~--~~~~~~lil~ 79 (460)
T PRK11776 4 TAFSTLP--LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVK--RFRVQALVLC 79 (460)
T ss_pred CChhhcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhc--cCCceEEEEe
Confidence 4699998 99999999999999999999999999999999999999999999999999999998643 2345789999
Q ss_pred ecHHHHHHHHHHHHHHhhhc
Q psy12984 146 KLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~ 165 (178)
|||+||.|++..++.+....
T Consensus 80 PtreLa~Q~~~~~~~~~~~~ 99 (460)
T PRK11776 80 PTRELADQVAKEIRRLARFI 99 (460)
T ss_pred CCHHHHHHHHHHHHHHHhhC
Confidence 99999999999999987654
No 19
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.87 E-value=5.2e-22 Score=174.27 Aligned_cols=100 Identities=38% Similarity=0.502 Sum_probs=90.2
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhcc--CCCCCceEEE
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK--FMPRNGKSWQ 144 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~--~~~~~~~~~l 144 (178)
+|++|+ |++.++++|.++||..||++|.+|||+++.|+|++++||||+|||++|++|+++++.... .....+++|+
T Consensus 2 ~f~~l~--l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil 79 (434)
T PRK11192 2 TFSELE--LDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILIL 79 (434)
T ss_pred CHhhcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEE
Confidence 699998 999999999999999999999999999999999999999999999999999999987532 1234588999
Q ss_pred eecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 145 GKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 145 ~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
+||++||.|+++++..+...++..
T Consensus 80 ~Pt~eLa~Q~~~~~~~l~~~~~~~ 103 (434)
T PRK11192 80 TPTRELAMQVADQARELAKHTHLD 103 (434)
T ss_pred CCcHHHHHHHHHHHHHHHccCCcE
Confidence 999999999999999998776543
No 20
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.85 E-value=3.8e-21 Score=176.42 Aligned_cols=96 Identities=34% Similarity=0.438 Sum_probs=88.2
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
..|++|+ |++.++++|.++||..|||+|.++||.++.|+|+|++||||||||++|++|+++.+... ...++++||+
T Consensus 6 ~~f~~l~--L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~--~~~~~~LIL~ 81 (629)
T PRK11634 6 TTFADLG--LKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPE--LKAPQILVLA 81 (629)
T ss_pred CCHhhcC--CCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhc--cCCCeEEEEe
Confidence 4699998 99999999999999999999999999999999999999999999999999999988643 2345889999
Q ss_pred ecHHHHHHHHHHHHHHhhhc
Q psy12984 146 KLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~ 165 (178)
|||+||.|++..+..+.+.+
T Consensus 82 PTreLa~Qv~~~l~~~~~~~ 101 (629)
T PRK11634 82 PTRELAVQVAEAMTDFSKHM 101 (629)
T ss_pred CcHHHHHHHHHHHHHHHhhc
Confidence 99999999999999987765
No 21
>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=99.85 E-value=2.6e-21 Score=180.32 Aligned_cols=92 Identities=20% Similarity=0.254 Sum_probs=84.5
Q ss_pred hHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeec
Q psy12984 68 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL 147 (178)
Q Consensus 68 f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Pt 147 (178)
|..++.+|++.+.++|.++||..||+||..|||.++.|+|++++||||||||+||++|+|+.+.. .+..+++||+||
T Consensus 14 ~~~~~~~l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~---~~~~~aL~l~Pt 90 (742)
T TIGR03817 14 TAPWPAWAHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALAD---DPRATALYLAPT 90 (742)
T ss_pred cCCCCCcCCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhh---CCCcEEEEEcCh
Confidence 44555569999999999999999999999999999999999999999999999999999999976 345689999999
Q ss_pred HHHHHHHHHHHHHHh
Q psy12984 148 RPLTNGVYLVACNVF 162 (178)
Q Consensus 148 r~La~qi~~~~~~l~ 162 (178)
||||+|++..++.+.
T Consensus 91 raLa~q~~~~l~~l~ 105 (742)
T TIGR03817 91 KALAADQLRAVRELT 105 (742)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999999886
No 22
>KOG0335|consensus
Probab=99.85 E-value=1.4e-21 Score=171.79 Aligned_cols=126 Identities=29% Similarity=0.348 Sum_probs=108.4
Q ss_pred CCCccccccccccccccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCC
Q psy12984 37 SDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGS 116 (178)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGs 116 (178)
.+.....+..+.+.++..+.+.|.++. .|++-. +.+.+..++...||..|||||+.+||.+..|+|+++||+|||
T Consensus 48 ~~~~~nfd~~~~i~v~~~G~~~p~~i~---~f~~~~--l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGs 122 (482)
T KOG0335|consen 48 ISTGINFDKYNDIPVKVSGRDVPPHIP---TFDEAI--LGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGS 122 (482)
T ss_pred cchhhccCCccceeeeccCCccCCCcc---cccccc--hhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCC
Confidence 345556677788889999999988877 476554 889999999999999999999999999999999999999999
Q ss_pred chhhHhHHHHHHHHHhccCC--------CCCceEEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 117 GKTLAFLVPAVELIYNLKFM--------PRNGKSWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 117 GKTlaf~lp~l~~l~~~~~~--------~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
|||.||++|++.+++..... ..++++|++||||||.|+|+..+++......
T Consensus 123 GKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~ 181 (482)
T KOG0335|consen 123 GKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGM 181 (482)
T ss_pred cchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccc
Confidence 99999999999999875331 2578999999999999999999988755443
No 23
>KOG0332|consensus
Probab=99.85 E-value=9.6e-22 Score=167.59 Aligned_cols=106 Identities=25% Similarity=0.310 Sum_probs=98.4
Q ss_pred CCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCC--CcEEEEccCCCchhhHhHHHHHHHHHhcc
Q psy12984 57 DVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLK 134 (178)
Q Consensus 57 ~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~ 134 (178)
++..|+++..+|++|. |.|+++++|+.++|.+|+.||..|+|.++.. +|+|+++.+|+|||.||+|.+|.++...
T Consensus 81 dpnsPlyS~ksFeeL~--LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~- 157 (477)
T KOG0332|consen 81 DPNSPLYSAKSFEELR--LKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPD- 157 (477)
T ss_pred CCCCCccccccHHhhC--CCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCcc-
Confidence 5778999999999998 9999999999999999999999999999976 8999999999999999999999988653
Q ss_pred CCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 135 FMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 135 ~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
...+++++|+|||+||.|+.+++..++++.+
T Consensus 158 -~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ 188 (477)
T KOG0332|consen 158 -VVVPQCICLAPTRELAPQTGEVVEEMGKFTE 188 (477)
T ss_pred -ccCCCceeeCchHHHHHHHHHHHHHhcCcee
Confidence 4566999999999999999999999999873
No 24
>KOG0333|consensus
Probab=99.84 E-value=6.3e-21 Score=168.11 Aligned_cols=122 Identities=26% Similarity=0.317 Sum_probs=106.5
Q ss_pred cccccccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHH
Q psy12984 47 NAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPA 126 (178)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~ 126 (178)
....++..|...+.|+-+ |++.+ |+.++++.+...||..|||||+.|||..+..+|+|+.|.||||||+||++|+
T Consensus 229 edynis~kg~~lpnplrn---wEE~~--~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipL 303 (673)
T KOG0333|consen 229 EDYNISIKGGRLPNPLRN---WEESG--FPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPL 303 (673)
T ss_pred cceeeeecCCCCCccccC---hhhcC--CCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhH
Confidence 345566778888888877 99998 9999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccC-------CCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCCcceEEEee
Q psy12984 127 VELIYNLKF-------MPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPTVIKVQTLI 177 (178)
Q Consensus 127 l~~l~~~~~-------~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~~~~v~~~i 177 (178)
+.+|.+.+. ..++.+++++|||+||+||...-.++++.++ +++.++|
T Consensus 304 l~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg----~r~vsvi 357 (673)
T KOG0333|consen 304 LIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLG----IRTVSVI 357 (673)
T ss_pred HHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhccccc----ceEEEEe
Confidence 999987542 3467899999999999999999888776665 5666554
No 25
>KOG0334|consensus
Probab=99.84 E-value=1e-20 Score=176.62 Aligned_cols=111 Identities=29% Similarity=0.432 Sum_probs=97.9
Q ss_pred cccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 51 VQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 51 ~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
++..+...+.|+.+ |...+ ++..++..++++||..|++||..|||+++.|+|||+.|.||||||++|+||++.++
T Consensus 353 i~v~g~~~pkpv~s---W~q~g--l~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi 427 (997)
T KOG0334|consen 353 IKVKGKECPKPVTS---WTQCG--LSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHI 427 (997)
T ss_pred eeeccCCCCcccch---HhhCC--chHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhh
Confidence 55667777777766 88887 99999999999999999999999999999999999999999999999999999888
Q ss_pred HhccC---CCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 131 YNLKF---MPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 131 ~~~~~---~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
...+. ..++.++|++|||+||.||++.+..|++.++
T Consensus 428 ~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ 466 (997)
T KOG0334|consen 428 KDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLG 466 (997)
T ss_pred hcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcC
Confidence 65432 3477889999999999999999999987733
No 26
>PTZ00424 helicase 45; Provisional
Probab=99.83 E-value=2.8e-20 Score=161.03 Aligned_cols=98 Identities=32% Similarity=0.463 Sum_probs=88.3
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ 144 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l 144 (178)
..+|++++ |++.++++|...||..|+|+|..||+.++.|+|++++||||||||++|++|++..+... ....++++|
T Consensus 27 ~~~~~~l~--l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~--~~~~~~lil 102 (401)
T PTZ00424 27 VDSFDALK--LNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYD--LNACQALIL 102 (401)
T ss_pred cCCHhhCC--CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCC--CCCceEEEE
Confidence 35799998 99999999999999999999999999999999999999999999999999999987532 234578999
Q ss_pred eecHHHHHHHHHHHHHHhhhcC
Q psy12984 145 GKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 145 ~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+|||+||.|++..+..++...+
T Consensus 103 ~Pt~~L~~Q~~~~~~~~~~~~~ 124 (401)
T PTZ00424 103 APTRELAQQIQKVVLALGDYLK 124 (401)
T ss_pred CCCHHHHHHHHHHHHHHhhhcC
Confidence 9999999999999998876544
No 27
>KOG0328|consensus
Probab=99.83 E-value=2.9e-21 Score=160.09 Aligned_cols=104 Identities=24% Similarity=0.365 Sum_probs=91.8
Q ss_pred CCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCc
Q psy12984 61 EILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNG 140 (178)
Q Consensus 61 ~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~ 140 (178)
.+....+|++++ |.++++++++++||+.|+.||+.|||.++.|+|||++|.+|+|||.+|.+.+++.+.-. ....+
T Consensus 22 ~~~v~~~F~~Mg--l~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~--~r~tQ 97 (400)
T KOG0328|consen 22 KVKVIPTFDDMG--LKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDIS--VRETQ 97 (400)
T ss_pred CcccccchhhcC--chHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccc--cceee
Confidence 344556899999 99999999999999999999999999999999999999999999999999999877542 22358
Q ss_pred eEEEeecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 141 KSWQGKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 141 ~~~l~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
+++++||||||.|+..++..++..++..
T Consensus 98 ~lilsPTRELa~Qi~~vi~alg~~mnvq 125 (400)
T KOG0328|consen 98 ALILSPTRELAVQIQKVILALGDYMNVQ 125 (400)
T ss_pred EEEecChHHHHHHHHHHHHHhcccccce
Confidence 9999999999999999998887666544
No 28
>KOG0341|consensus
Probab=99.81 E-value=3.1e-20 Score=159.43 Aligned_cols=116 Identities=26% Similarity=0.351 Sum_probs=100.6
Q ss_pred ccccccccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHH
Q psy12984 46 TNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 125 (178)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp 125 (178)
+....+...|.++|+|+.+ |.++. ++..+++.|++.|+.+|||||.+-||.+++|||+|+.|.||||||+.|+||
T Consensus 153 Rk~~~I~veGd~ipPPIks---F~eMK--FP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP 227 (610)
T KOG0341|consen 153 RKQLHILVEGDDIPPPIKS---FKEMK--FPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLP 227 (610)
T ss_pred HHhheEEeeCCCCCCchhh---hhhcc--CCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHH
Confidence 3444556678888888876 98997 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhc------cCCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 126 AVELIYNL------KFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 126 ~l~~l~~~------~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+|...+.. ....++..+||||+||||.|+++.+..++..+.
T Consensus 228 ~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~ 274 (610)
T KOG0341|consen 228 VIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQ 274 (610)
T ss_pred HHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHH
Confidence 99876642 224577889999999999999999888876554
No 29
>KOG0326|consensus
Probab=99.81 E-value=1.2e-20 Score=158.54 Aligned_cols=98 Identities=30% Similarity=0.329 Sum_probs=90.4
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
..|+++. |..+++..+.+.||+.|+|||.++||.++.|+|+++.|..|+|||.||++|+|+++... ....++++++
T Consensus 85 ~efEd~~--Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~--~~~IQ~~ilV 160 (459)
T KOG0326|consen 85 NEFEDYC--LKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPK--KNVIQAIILV 160 (459)
T ss_pred ccHHHhh--hhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCcc--ccceeEEEEe
Confidence 4599998 99999999999999999999999999999999999999999999999999999998654 4456889999
Q ss_pred ecHHHHHHHHHHHHHHhhhcCC
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
||||||.|+..++..+.+.++.
T Consensus 161 PtrelALQtSqvc~~lskh~~i 182 (459)
T KOG0326|consen 161 PTRELALQTSQVCKELSKHLGI 182 (459)
T ss_pred ecchhhHHHHHHHHHHhcccCe
Confidence 9999999999999999887764
No 30
>KOG0337|consensus
Probab=99.80 E-value=5.2e-20 Score=158.90 Aligned_cols=105 Identities=34% Similarity=0.441 Sum_probs=96.6
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ 144 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l 144 (178)
...|..++ |+..++++|.+.||..|||||+++||.++.|+|+++.|.||||||+||++|+++++.... ..+.+++++
T Consensus 20 ~g~fqsmg--L~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s-~~g~Ralil 96 (529)
T KOG0337|consen 20 SGGFQSMG--LDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS-QTGLRALIL 96 (529)
T ss_pred CCCccccC--CCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhcc-ccccceeec
Confidence 45699998 999999999999999999999999999999999999999999999999999999998765 566799999
Q ss_pred eecHHHHHHHHHHHHHHhhhcCCCCcce
Q psy12984 145 GKLRPLTNGVYLVACNVFKSTQPPTVIK 172 (178)
Q Consensus 145 ~Ptr~La~qi~~~~~~l~~~~~~~~~~~ 172 (178)
+|||+||.|..+++..+++++++...+.
T Consensus 97 sptreLa~qtlkvvkdlgrgt~lr~s~~ 124 (529)
T KOG0337|consen 97 SPTRELALQTLKVVKDLGRGTKLRQSLL 124 (529)
T ss_pred cCcHHHHHHHHHHHHHhccccchhhhhh
Confidence 9999999999999999999888765543
No 31
>KOG0339|consensus
Probab=99.80 E-value=1.4e-19 Score=159.42 Aligned_cols=115 Identities=29% Similarity=0.343 Sum_probs=100.1
Q ss_pred cccccCCCCCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 49 VEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
....+.+..++.|+.+ |++++ +++.|+.+++...|+.|||||..++|..+.|+||+.+|.||||||.||++|.+.
T Consensus 209 Lnlrv~g~s~~rpvts---feh~g--fDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~ 283 (731)
T KOG0339|consen 209 LNLRVSGSSPPRPVTS---FEHFG--FDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIV 283 (731)
T ss_pred hcceeccCCCCCCcch---hhhcC--chHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHH
Confidence 3444566666666555 88887 999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcc---CCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 129 LIYNLK---FMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 129 ~l~~~~---~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
+++..+ ...++..+|+||||+||.||+.++++|++.++++
T Consensus 284 himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~ 326 (731)
T KOG0339|consen 284 HIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLR 326 (731)
T ss_pred HhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhhhhccce
Confidence 998643 3567788999999999999999999988777665
No 32
>KOG0344|consensus
Probab=99.80 E-value=1.3e-19 Score=161.13 Aligned_cols=111 Identities=29% Similarity=0.404 Sum_probs=95.5
Q ss_pred cccccCCCCCCcCCCCccchHhhcc--cCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHH
Q psy12984 49 VEVQLPGSDVALEILSSTQFEALKG--KVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPA 126 (178)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~f~~l~~--~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~ 126 (178)
......|.+.++++.+ |++|.. ..++.+++++...||..|||+|+.|||.++.++|+++|||||||||++|++|+
T Consensus 118 ~k~~v~G~~~~~~l~~---f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pi 194 (593)
T KOG0344|consen 118 NKINVDGFHLPPPLLS---FSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPI 194 (593)
T ss_pred ceeeccCCCCCCcccc---ccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHH
Confidence 3445567777777776 555431 38899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccC---CCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 127 VELIYNLKF---MPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 127 l~~l~~~~~---~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
+++|..... ..+.+++|++|||+||.|+|..+..+.
T Consensus 195 l~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 195 LQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred HHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC
Confidence 999976542 556788999999999999999999988
No 33
>KOG0350|consensus
Probab=99.78 E-value=3.7e-19 Score=156.21 Aligned_cols=93 Identities=26% Similarity=0.298 Sum_probs=80.4
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccc---------cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPL---------LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~---------l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
|...+.+++..+++.+.+|+|...+|.+ ..++||.|.||||||||+||.|||++.+..+ ..++.+++||+
T Consensus 144 lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R-~v~~LRavViv 222 (620)
T KOG0350|consen 144 LEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSR-PVKRLRAVVIV 222 (620)
T ss_pred HHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccC-CccceEEEEEe
Confidence 3344667799999999999999988765 3478999999999999999999999987653 36679999999
Q ss_pred ecHHHHHHHHHHHHHHhhhcCCC
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~~~ 168 (178)
|||+|+.|+|++|..++.+.+..
T Consensus 223 Ptr~L~~QV~~~f~~~~~~tgL~ 245 (620)
T KOG0350|consen 223 PTRELALQVYDTFKRLNSGTGLA 245 (620)
T ss_pred eHHHHHHHHHHHHHHhccCCceE
Confidence 99999999999999999887765
No 34
>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=99.78 E-value=1.3e-18 Score=137.28 Aligned_cols=96 Identities=42% Similarity=0.538 Sum_probs=86.9
Q ss_pred hHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeec
Q psy12984 68 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL 147 (178)
Q Consensus 68 f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Pt 147 (178)
|++++ +++.+.+.+.+.||..|+++|.++|+.++.|+|++++++||+|||++|++|+++.+.......+.+++|++|+
T Consensus 1 ~~~~~--~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~ 78 (203)
T cd00268 1 FEELG--LSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT 78 (203)
T ss_pred CCcCC--CCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC
Confidence 56777 9999999999999999999999999999999999999999999999999999999887533356689999999
Q ss_pred HHHHHHHHHHHHHHhhhc
Q psy12984 148 RPLTNGVYLVACNVFKST 165 (178)
Q Consensus 148 r~La~qi~~~~~~l~~~~ 165 (178)
++|+.|+...+..+....
T Consensus 79 ~~L~~q~~~~~~~~~~~~ 96 (203)
T cd00268 79 RELALQIAEVARKLGKHT 96 (203)
T ss_pred HHHHHHHHHHHHHHhccC
Confidence 999999999999887653
No 35
>KOG0327|consensus
Probab=99.77 E-value=1.8e-19 Score=153.72 Aligned_cols=103 Identities=25% Similarity=0.367 Sum_probs=90.8
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
.+|++++ |.++||++++.+||..|+.||+.||+++..|.|+++++++|+|||.+|++++++++.-. .....+++++
T Consensus 26 dsfddm~--L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~--~ke~qalila 101 (397)
T KOG0327|consen 26 DSFDDMN--LKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMS--VKETQALILA 101 (397)
T ss_pred hhhhhcC--CCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcc--hHHHHHHHhc
Confidence 3799999 99999999999999999999999999999999999999999999999999999998543 2344888999
Q ss_pred ecHHHHHHHHHHHHHHhhhcCCCCcce
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQPPTVIK 172 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~~~~~~~ 172 (178)
|||+||.|+..++..++...+-.+..+
T Consensus 102 PtreLa~qi~~v~~~lg~~~~~~v~~~ 128 (397)
T KOG0327|consen 102 PTRELAQQIQKVVRALGDHMDVSVHAC 128 (397)
T ss_pred chHHHHHHHHHHHHhhhcccceeeeee
Confidence 999999999999888887665544333
No 36
>KOG0329|consensus
Probab=99.76 E-value=9.4e-19 Score=143.66 Aligned_cols=102 Identities=25% Similarity=0.290 Sum_probs=91.7
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCce
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGK 141 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~ 141 (178)
..+++.|.++- |.|++++++-++||.+|+.+|..|||...-|.||+++|.+|-|||..|++..|++|... .....+
T Consensus 38 ~ihssgfrdfl--lkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv--~g~vsv 113 (387)
T KOG0329|consen 38 SIHSSGFRDFL--LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPV--DGQVSV 113 (387)
T ss_pred EEeccchhhhh--cCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCC--CCeEEE
Confidence 44567899998 99999999999999999999999999999999999999999999999999999988653 334577
Q ss_pred EEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 142 SWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 142 ~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
+++|.|||||.||.+.+.++.+++..
T Consensus 114 lvmchtrelafqi~~ey~rfskymP~ 139 (387)
T KOG0329|consen 114 LVMCHTRELAFQISKEYERFSKYMPS 139 (387)
T ss_pred EEEeccHHHHHHHHHHHHHHHhhCCC
Confidence 88999999999999999999888754
No 37
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.75 E-value=4.1e-18 Score=158.61 Aligned_cols=97 Identities=21% Similarity=0.242 Sum_probs=89.0
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhcc---CCCCCceEEEeecHHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK---FMPRNGKSWQGKLRPLT 151 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~---~~~~~~~~~l~Ptr~La 151 (178)
|++.+.++|.+. |..||++|.+|||.+..|+|++++||||||||+|.+||+++.|.... ...+..++||+|+|||+
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn 86 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN 86 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHH
Confidence 899999999997 99999999999999999999999999999999999999999998762 23357899999999999
Q ss_pred HHHHHHHHHHhhhcCCCCcce
Q psy12984 152 NGVYLVACNVFKSTQPPTVIK 172 (178)
Q Consensus 152 ~qi~~~~~~l~~~~~~~~~~~ 172 (178)
+++...+..++..+|.++.++
T Consensus 87 ~Di~~rL~~~~~~~G~~v~vR 107 (814)
T COG1201 87 NDIRRRLEEPLRELGIEVAVR 107 (814)
T ss_pred HHHHHHHHHHHHHcCCcccee
Confidence 999999999999999887554
No 38
>PRK02362 ski2-like helicase; Provisional
Probab=99.75 E-value=7.6e-18 Score=157.13 Aligned_cols=89 Identities=21% Similarity=0.262 Sum_probs=82.3
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
.|++++ |++.+++++.+.||..|+|+|.+||+. ++.|+|++++||||||||++|.+|+++.+.. +.+++|++
T Consensus 2 ~~~~l~--lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-----~~kal~i~ 74 (737)
T PRK02362 2 KIAELP--LPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-----GGKALYIV 74 (737)
T ss_pred ChhhcC--CCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-----CCcEEEEe
Confidence 588998 999999999999999999999999998 7899999999999999999999999998853 45899999
Q ss_pred ecHHHHHHHHHHHHHHh
Q psy12984 146 KLRPLTNGVYLVACNVF 162 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~ 162 (178)
|||+||.|++..++.+.
T Consensus 75 P~raLa~q~~~~~~~~~ 91 (737)
T PRK02362 75 PLRALASEKFEEFERFE 91 (737)
T ss_pred ChHHHHHHHHHHHHHhh
Confidence 99999999999998764
No 39
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.73 E-value=2.1e-17 Score=156.67 Aligned_cols=85 Identities=25% Similarity=0.292 Sum_probs=74.7
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC----CCCCceEEEeecHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF----MPRNGKSWQGKLRPL 150 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~----~~~~~~~~l~Ptr~L 150 (178)
|++.+.+++.. +|..|||+|..|||.++.|+|++++||||||||++|++|+++++..... ..+.+++||+|||+|
T Consensus 18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL 96 (876)
T PRK13767 18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96 (876)
T ss_pred cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence 78888888776 8999999999999999999999999999999999999999999875321 235678999999999
Q ss_pred HHHHHHHHHH
Q psy12984 151 TNGVYLVACN 160 (178)
Q Consensus 151 a~qi~~~~~~ 160 (178)
|+|++..+..
T Consensus 97 a~di~~~L~~ 106 (876)
T PRK13767 97 NNDIHRNLEE 106 (876)
T ss_pred HHHHHHHHHH
Confidence 9999987664
No 40
>PRK00254 ski2-like helicase; Provisional
Probab=99.72 E-value=2.8e-17 Score=152.96 Aligned_cols=89 Identities=24% Similarity=0.312 Sum_probs=82.0
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
+|++++ +++.+.+.|.+.||..|+|+|.+||+. ++.|+|++++||||||||++|.+|+++++.. .+.+++||+
T Consensus 2 ~~~~l~--l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~----~~~~~l~l~ 75 (720)
T PRK00254 2 KVDELR--VDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR----EGGKAVYLV 75 (720)
T ss_pred cHHHcC--CCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh----cCCeEEEEe
Confidence 588888 999999999999999999999999986 7899999999999999999999999998864 245899999
Q ss_pred ecHHHHHHHHHHHHHH
Q psy12984 146 KLRPLTNGVYLVACNV 161 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l 161 (178)
|+|+||.|++..+..+
T Consensus 76 P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 76 PLKALAEEKYREFKDW 91 (720)
T ss_pred ChHHHHHHHHHHHHHH
Confidence 9999999999998875
No 41
>KOG0336|consensus
Probab=99.71 E-value=1.2e-17 Score=144.35 Aligned_cols=95 Identities=32% Similarity=0.381 Sum_probs=82.2
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhc----cCCCCCce
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNL----KFMPRNGK 141 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~----~~~~~~~~ 141 (178)
.+|++-- .-.++++..+.+.||..|||||.+|||.+|.|.|+++.|.||+|||++|++|.+-++... ...++++.
T Consensus 219 ctFddAF-q~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~ 297 (629)
T KOG0336|consen 219 CTFDDAF-QCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGV 297 (629)
T ss_pred CcHHHHH-hhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCce
Confidence 4476543 267899999999999999999999999999999999999999999999999998887542 34567789
Q ss_pred EEEeecHHHHHHHHHHHHHH
Q psy12984 142 SWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 142 ~~l~Ptr~La~qi~~~~~~l 161 (178)
++++|||+||.|+.-.+..+
T Consensus 298 lvl~ptreLalqie~e~~ky 317 (629)
T KOG0336|consen 298 LVLTPTRELALQIEGEVKKY 317 (629)
T ss_pred EEEeccHHHHHHHHhHHhHh
Confidence 99999999999999877654
No 42
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.68 E-value=1.1e-16 Score=150.93 Aligned_cols=91 Identities=22% Similarity=0.261 Sum_probs=83.9
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
....+..+|...|+..+++||..|+..+..|+||||+++||||||++|++||++++.+ .+..++++|.||+|||++|
T Consensus 55 ~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~---~~~a~AL~lYPtnALa~DQ 131 (851)
T COG1205 55 RDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLR---DPSARALLLYPTNALANDQ 131 (851)
T ss_pred hhhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhh---CcCccEEEEechhhhHhhH
Confidence 5666788888899999999999999999999999999999999999999999999998 4455899999999999999
Q ss_pred HHHHHHHhhhcCCC
Q psy12984 155 YLVACNVFKSTQPP 168 (178)
Q Consensus 155 ~~~~~~l~~~~~~~ 168 (178)
...|.++...++.+
T Consensus 132 ~~rl~~~~~~~~~~ 145 (851)
T COG1205 132 AERLRELISDLPGK 145 (851)
T ss_pred HHHHHHHHHhCCCc
Confidence 99999999998874
No 43
>PRK01172 ski2-like helicase; Provisional
Probab=99.67 E-value=3.9e-16 Score=144.31 Aligned_cols=88 Identities=20% Similarity=0.202 Sum_probs=80.9
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEee
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGK 146 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~P 146 (178)
.|++|+ |++.+++.+...||. ++++|.+|++.++.|+|++++||||||||++|.+++++.+.. +.+++|++|
T Consensus 2 ~~~~~~--l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~-----~~k~v~i~P 73 (674)
T PRK01172 2 KISDLG--YDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLA-----GLKSIYIVP 73 (674)
T ss_pred cHhhcC--CCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHh-----CCcEEEEec
Confidence 588898 999999999999996 999999999999999999999999999999999999998764 347899999
Q ss_pred cHHHHHHHHHHHHHHh
Q psy12984 147 LRPLTNGVYLVACNVF 162 (178)
Q Consensus 147 tr~La~qi~~~~~~l~ 162 (178)
+|+||.|+++.++++.
T Consensus 74 ~raLa~q~~~~~~~l~ 89 (674)
T PRK01172 74 LRSLAMEKYEELSRLR 89 (674)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 9999999999998753
No 44
>KOG4284|consensus
Probab=99.65 E-value=5.8e-17 Score=146.15 Aligned_cols=97 Identities=30% Similarity=0.323 Sum_probs=88.5
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
..|++|. |..+++..|++.||..||+||..|||+++.+.|+||+|.+|+|||+.|.+-+++.+... ....+.+|++
T Consensus 25 ~~fe~l~--l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~--~~~~q~~Iv~ 100 (980)
T KOG4284|consen 25 PGFEQLA--LWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSR--SSHIQKVIVT 100 (980)
T ss_pred CCHHHHH--HHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcc--cCcceeEEEe
Confidence 5699997 99999999999999999999999999999999999999999999999999999987653 4566889999
Q ss_pred ecHHHHHHHHHHHHHHhhhcC
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~ 166 (178)
||||||.||..++..++..+.
T Consensus 101 PTREiaVQI~~tv~~v~~sf~ 121 (980)
T KOG4284|consen 101 PTREIAVQIKETVRKVAPSFT 121 (980)
T ss_pred cchhhhhHHHHHHHHhccccc
Confidence 999999999999999887543
No 45
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.59 E-value=7.8e-15 Score=137.82 Aligned_cols=89 Identities=15% Similarity=0.125 Sum_probs=79.5
Q ss_pred CCHHHHHHHH-----HCCCCCC---cHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEee
Q psy12984 75 VCENTLKAIA-----DMGFTKM---TEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGK 146 (178)
Q Consensus 75 l~~~ll~~l~-----~~g~~~p---t~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~P 146 (178)
+..++.+.+. .+||..| +|+|.++||.++.++|+|++++||+|||++|++|++..+... ..+++|+|
T Consensus 69 l~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g-----~~v~IVTp 143 (970)
T PRK12899 69 VVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG-----KPVHLVTV 143 (970)
T ss_pred CCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc-----CCeEEEeC
Confidence 8888887776 7899999 999999999999999999999999999999999999888642 24788999
Q ss_pred cHHHHHHHHHHHHHHhhhcCCC
Q psy12984 147 LRPLTNGVYLVACNVFKSTQPP 168 (178)
Q Consensus 147 tr~La~qi~~~~~~l~~~~~~~ 168 (178)
||+||.|+..++..+.++++..
T Consensus 144 TrELA~Qdae~m~~L~k~lGLs 165 (970)
T PRK12899 144 NDYLAQRDCEWVGSVLRWLGLT 165 (970)
T ss_pred CHHHHHHHHHHHHHHHhhcCCe
Confidence 9999999999999999876633
No 46
>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=99.59 E-value=2.2e-15 Score=134.15 Aligned_cols=68 Identities=25% Similarity=0.297 Sum_probs=61.8
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
+||..|+|+|.+||+.++.|+|+++++|||||||++|++|++.. ...++||+|||+|+.|++..+..+
T Consensus 7 ~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~--------~~~~lVi~P~~~L~~dq~~~l~~~ 74 (470)
T TIGR00614 7 FGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCS--------DGITLVISPLISLMEDQVLQLKAS 74 (470)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHc--------CCcEEEEecHHHHHHHHHHHHHHc
Confidence 69999999999999999999999999999999999999999751 236899999999999999888753
No 47
>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=99.58 E-value=9.5e-15 Score=111.33 Aligned_cols=70 Identities=27% Similarity=0.378 Sum_probs=63.2
Q ss_pred cHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 92 TEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 92 t~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
||+|.++|+.+..|+|+++.||||+|||++|++|++..+... ....+++++|+++|+.|++..+..++..
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~---~~~~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG---KDARVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT---SSSEEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC---CCceEEEEeecccccccccccccccccc
Confidence 799999999999999999999999999999999999988763 2338899999999999999999988876
No 48
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.54 E-value=3e-14 Score=136.18 Aligned_cols=87 Identities=16% Similarity=0.131 Sum_probs=70.2
Q ss_pred cchHhhcccCCHHHHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE
Q psy12984 66 TQFEALKGKVCENTLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ 144 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l 144 (178)
..|+....+....+...+.. +||..++|+|.++|++++.|+|+|+++|||+|||+||+||+|.. ...++||
T Consensus 435 ~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~--------~GiTLVI 506 (1195)
T PLN03137 435 KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC--------PGITLVI 506 (1195)
T ss_pred ccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc--------CCcEEEE
Confidence 34554333355666666655 89999999999999999999999999999999999999999852 2368999
Q ss_pred eecHHHHHHHHHHHHH
Q psy12984 145 GKLRPLTNGVYLVACN 160 (178)
Q Consensus 145 ~Ptr~La~qi~~~~~~ 160 (178)
+||++|++|+...+..
T Consensus 507 SPLiSLmqDQV~~L~~ 522 (1195)
T PLN03137 507 SPLVSLIQDQIMNLLQ 522 (1195)
T ss_pred eCHHHHHHHHHHHHHh
Confidence 9999999976655543
No 49
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.53 E-value=2.3e-14 Score=131.34 Aligned_cols=75 Identities=23% Similarity=0.301 Sum_probs=64.8
Q ss_pred HHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 79 TLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 79 ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
....|.+ .||..|+|+|..+|+.++.|+|+++++|||+|||++|++|++.. ...+++|+||++|+.|+...
T Consensus 13 ~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~--------~g~tlVisPl~sL~~dqv~~ 84 (607)
T PRK11057 13 AKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL--------DGLTLVVSPLISLMKDQVDQ 84 (607)
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc--------CCCEEEEecHHHHHHHHHHH
Confidence 3344444 79999999999999999999999999999999999999999852 23679999999999999988
Q ss_pred HHHH
Q psy12984 158 ACNV 161 (178)
Q Consensus 158 ~~~l 161 (178)
+..+
T Consensus 85 l~~~ 88 (607)
T PRK11057 85 LLAN 88 (607)
T ss_pred HHHc
Confidence 8764
No 50
>PRK09401 reverse gyrase; Reviewed
Probab=99.52 E-value=4.8e-14 Score=136.88 Aligned_cols=84 Identities=20% Similarity=0.011 Sum_probs=69.5
Q ss_pred HHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 79 TLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 79 ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
+.+.+.+ .|+ .||++|+.++|.++.|+|++++||||||||+ |++|++..+.. .+.+++||+|||+||.|++..
T Consensus 69 ~~~~f~~~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~----~g~~alIL~PTreLa~Qi~~~ 142 (1176)
T PRK09401 69 FEKFFKKKTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK----KGKKSYIIFPTRLLVEQVVEK 142 (1176)
T ss_pred HHHHHHHhcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh----cCCeEEEEeccHHHHHHHHHH
Confidence 3444544 588 8999999999999999999999999999996 66776665543 356899999999999999999
Q ss_pred HHHHhhhcCCC
Q psy12984 158 ACNVFKSTQPP 168 (178)
Q Consensus 158 ~~~l~~~~~~~ 168 (178)
++.++...+..
T Consensus 143 l~~l~~~~~~~ 153 (1176)
T PRK09401 143 LEKFGEKVGCG 153 (1176)
T ss_pred HHHHhhhcCce
Confidence 99998765543
No 51
>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=99.51 E-value=5.5e-14 Score=136.50 Aligned_cols=86 Identities=15% Similarity=-0.022 Sum_probs=71.7
Q ss_pred HHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 77 ~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
.++.+.+.+....+||++|+.++|.++.|+|++++||||||||+ |++|++..+.. .+.++++|+|||+||.|++.
T Consensus 65 ~~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~----~g~~vLIL~PTreLa~Qi~~ 139 (1171)
T TIGR01054 65 KEFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK----KGKRCYIILPTTLLVIQVAE 139 (1171)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh----cCCeEEEEeCHHHHHHHHHH
Confidence 34555666544448999999999999999999999999999997 77888776643 24689999999999999999
Q ss_pred HHHHHhhhcCC
Q psy12984 157 VACNVFKSTQP 167 (178)
Q Consensus 157 ~~~~l~~~~~~ 167 (178)
.+..++..++.
T Consensus 140 ~l~~l~~~~~i 150 (1171)
T TIGR01054 140 KISSLAEKAGV 150 (1171)
T ss_pred HHHHHHHhcCC
Confidence 99999887653
No 52
>PRK14701 reverse gyrase; Provisional
Probab=99.50 E-value=7.2e-14 Score=138.72 Aligned_cols=85 Identities=16% Similarity=0.036 Sum_probs=71.3
Q ss_pred HHHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 78 NTLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 78 ~ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
++.+.|.+ .|| .||++|..+||.++.|+|++++||||||||++++++.+.... .+.++++|+|||+|+.|++.
T Consensus 67 ~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~-----~g~~aLVl~PTreLa~Qi~~ 140 (1638)
T PRK14701 67 EFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL-----KGKKCYIILPTTLLVKQTVE 140 (1638)
T ss_pred HHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh-----cCCeEEEEECHHHHHHHHHH
Confidence 45566766 899 699999999999999999999999999999976666654322 34578999999999999999
Q ss_pred HHHHHhhhcCCC
Q psy12984 157 VACNVFKSTQPP 168 (178)
Q Consensus 157 ~~~~l~~~~~~~ 168 (178)
.++.++..++..
T Consensus 141 ~l~~l~~~~~~~ 152 (1638)
T PRK14701 141 KIESFCEKANLD 152 (1638)
T ss_pred HHHHHHhhcCCc
Confidence 999998876543
No 53
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.50 E-value=5.7e-14 Score=129.25 Aligned_cols=83 Identities=22% Similarity=0.226 Sum_probs=71.8
Q ss_pred HHHHHHHCCCCCCcHHHHHhhccccCC------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHH
Q psy12984 79 TLKAIADMGFTKMTEIQARTIPPLLEG------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152 (178)
Q Consensus 79 ll~~l~~~g~~~pt~iQ~~aip~~l~g------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~ 152 (178)
+.+.+..++| .||++|..||+.++.+ .+.+++++||||||++|++|++..+.. +.++++++||++||.
T Consensus 225 ~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~-----g~qvlilaPT~~LA~ 298 (630)
T TIGR00643 225 LTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA-----GYQVALMAPTEILAE 298 (630)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc-----CCcEEEECCHHHHHH
Confidence 3445677899 7999999999999876 368999999999999999999998753 458999999999999
Q ss_pred HHHHHHHHHhhhcCC
Q psy12984 153 GVYLVACNVFKSTQP 167 (178)
Q Consensus 153 qi~~~~~~l~~~~~~ 167 (178)
|++..++.++..++.
T Consensus 299 Q~~~~~~~l~~~~gi 313 (630)
T TIGR00643 299 QHYNSLRNLLAPLGI 313 (630)
T ss_pred HHHHHHHHHhcccCc
Confidence 999999999876543
No 54
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.50 E-value=6.4e-14 Score=129.96 Aligned_cols=83 Identities=20% Similarity=0.235 Sum_probs=71.4
Q ss_pred HHHH-HHHCCCCCCcHHHHHhhccccCC------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHH
Q psy12984 79 TLKA-IADMGFTKMTEIQARTIPPLLEG------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLT 151 (178)
Q Consensus 79 ll~~-l~~~g~~~pt~iQ~~aip~~l~g------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La 151 (178)
+.+. +..++| .||++|..||+.+..+ ++++++|+||||||++|++|++..+.. +.++++++||++||
T Consensus 250 ~~~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~-----g~q~lilaPT~~LA 323 (681)
T PRK10917 250 LLKKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA-----GYQAALMAPTEILA 323 (681)
T ss_pred HHHHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc-----CCeEEEEeccHHHH
Confidence 3344 455788 6999999999999876 489999999999999999999998753 55899999999999
Q ss_pred HHHHHHHHHHhhhcCC
Q psy12984 152 NGVYLVACNVFKSTQP 167 (178)
Q Consensus 152 ~qi~~~~~~l~~~~~~ 167 (178)
.|++..++.++..++.
T Consensus 324 ~Q~~~~l~~l~~~~~i 339 (681)
T PRK10917 324 EQHYENLKKLLEPLGI 339 (681)
T ss_pred HHHHHHHHHHHhhcCc
Confidence 9999999999877653
No 55
>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=99.49 E-value=9.5e-14 Score=132.18 Aligned_cols=86 Identities=15% Similarity=0.074 Sum_probs=73.5
Q ss_pred CCHHHHHHHHH-CCCCCCcHHHHHhhccccCC------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeec
Q psy12984 75 VCENTLKAIAD-MGFTKMTEIQARTIPPLLEG------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL 147 (178)
Q Consensus 75 l~~~ll~~l~~-~g~~~pt~iQ~~aip~~l~g------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Pt 147 (178)
.+..+.+.+.+ .+| .||++|..||+.++.+ +|++++|+||||||++|++|++..+.. +.++++++||
T Consensus 436 ~~~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~-----g~qvlvLvPT 509 (926)
T TIGR00580 436 PDLEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD-----GKQVAVLVPT 509 (926)
T ss_pred CCHHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh-----CCeEEEEeCc
Confidence 34456666655 689 5999999999999875 799999999999999999999998864 3589999999
Q ss_pred HHHHHHHHHHHHHHhhhcC
Q psy12984 148 RPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 148 r~La~qi~~~~~~l~~~~~ 166 (178)
++||.|++..|+.++..++
T Consensus 510 ~~LA~Q~~~~f~~~~~~~~ 528 (926)
T TIGR00580 510 TLLAQQHFETFKERFANFP 528 (926)
T ss_pred HHHHHHHHHHHHHHhccCC
Confidence 9999999999999887654
No 56
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.48 E-value=6.4e-14 Score=127.84 Aligned_cols=72 Identities=25% Similarity=0.342 Sum_probs=63.5
Q ss_pred HHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 82 AIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 82 ~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.|.+ +||..++|+|..+|++++.|+|+++++|||+|||++|++|++.. ...++||+|+++|+.|++..+..
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~--------~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL--------KGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc--------CCcEEEEcCCHHHHHHHHHHHHH
Confidence 3444 89999999999999999999999999999999999999999741 23578999999999999998876
Q ss_pred H
Q psy12984 161 V 161 (178)
Q Consensus 161 l 161 (178)
+
T Consensus 76 ~ 76 (591)
T TIGR01389 76 A 76 (591)
T ss_pred c
Confidence 4
No 57
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.48 E-value=1.2e-13 Score=129.49 Aligned_cols=77 Identities=16% Similarity=0.012 Sum_probs=62.2
Q ss_pred CCCCCCcHHHHHhhccccCCC-cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEE-EeecHHHHHHHHHHHHHHhh
Q psy12984 86 MGFTKMTEIQARTIPPLLEGR-DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSW-QGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~-dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~-l~Ptr~La~qi~~~~~~l~~ 163 (178)
.||. |||+|.++||.++.|+ ++++++|||||||++|.++++.. .. ....++.++ ++|||+||.|++..+..+++
T Consensus 12 ~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~-~~--~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k 87 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAV-EI--GAKVPRRLVYVVNRRTVVDQVTEEAEKIGE 87 (844)
T ss_pred hCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccc-cc--cccccceEEEeCchHHHHHHHHHHHHHHHH
Confidence 5997 9999999999999998 68888999999999776555532 11 133445555 66999999999999999999
Q ss_pred hcC
Q psy12984 164 STQ 166 (178)
Q Consensus 164 ~~~ 166 (178)
.+.
T Consensus 88 ~l~ 90 (844)
T TIGR02621 88 RLP 90 (844)
T ss_pred Hhc
Confidence 873
No 58
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.47 E-value=2e-13 Score=125.39 Aligned_cols=75 Identities=20% Similarity=0.151 Sum_probs=68.0
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +||++|..++|+++.|+ |+.+.||+|||++|++|++..... +.++.+++||++||.|.+.++..++.++
T Consensus 100 lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~-----G~~v~VvTptreLA~qdae~~~~l~~~l 171 (656)
T PRK12898 100 LGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALA-----GLPVHVITVNDYLAERDAELMRPLYEAL 171 (656)
T ss_pred hCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhc-----CCeEEEEcCcHHHHHHHHHHHHHHHhhc
Confidence 677 89999999999999999 899999999999999999987654 4589999999999999999999999886
Q ss_pred CCC
Q psy12984 166 QPP 168 (178)
Q Consensus 166 ~~~ 168 (178)
+..
T Consensus 172 Gls 174 (656)
T PRK12898 172 GLT 174 (656)
T ss_pred CCE
Confidence 643
No 59
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.39 E-value=9.8e-13 Score=127.62 Aligned_cols=81 Identities=19% Similarity=0.067 Sum_probs=69.3
Q ss_pred HHHHHHHCCCCCCcHHHHHhhccccCC------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHH
Q psy12984 79 TLKAIADMGFTKMTEIQARTIPPLLEG------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152 (178)
Q Consensus 79 ll~~l~~~g~~~pt~iQ~~aip~~l~g------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~ 152 (178)
..+.....+| .||++|..||+.++.+ +|++++++||||||.+|+.++...+. .+.++++|+||++||.
T Consensus 590 ~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~-----~g~qvlvLvPT~eLA~ 663 (1147)
T PRK10689 590 YQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE-----NHKQVAVLVPTTLLAQ 663 (1147)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH-----cCCeEEEEeCcHHHHH
Confidence 3344566888 7999999999999887 89999999999999999988877654 2458999999999999
Q ss_pred HHHHHHHHHhhhc
Q psy12984 153 GVYLVACNVFKST 165 (178)
Q Consensus 153 qi~~~~~~l~~~~ 165 (178)
|++..|+..+..+
T Consensus 664 Q~~~~f~~~~~~~ 676 (1147)
T PRK10689 664 QHYDNFRDRFANW 676 (1147)
T ss_pred HHHHHHHHhhccC
Confidence 9999999876654
No 60
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=9.9e-12 Score=116.38 Aligned_cols=79 Identities=19% Similarity=0.159 Sum_probs=69.6
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|..++++++.|+ |+.+.||+|||++|++|++...+. +.++.+++||++||.|.+..+..+..++
T Consensus 75 ~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~-----G~~v~VvTpt~~LA~qd~e~~~~l~~~l 146 (790)
T PRK09200 75 LGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALE-----GKGVHLITVNDYLAKRDAEEMGQVYEFL 146 (790)
T ss_pred hCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHc-----CCCeEEEeCCHHHHHHHHHHHHHHHhhc
Confidence 687 99999999999999887 899999999999999999866554 5588999999999999999999999998
Q ss_pred CCCCcce
Q psy12984 166 QPPTVIK 172 (178)
Q Consensus 166 ~~~~~~~ 172 (178)
+..+++.
T Consensus 147 Gl~v~~i 153 (790)
T PRK09200 147 GLTVGLN 153 (790)
T ss_pred CCeEEEE
Confidence 7655443
No 61
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.29 E-value=6.2e-12 Score=112.91 Aligned_cols=103 Identities=20% Similarity=0.238 Sum_probs=92.8
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
+.++|. +++++.+.|...|++.+.|+|..|+.+ ++.|.|.+|.+.|+|||||.--+.-|..++. .+...++++
T Consensus 195 ~vdeLd--ipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~----~g~KmlfLv 268 (830)
T COG1202 195 PVDELD--IPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS----GGKKMLFLV 268 (830)
T ss_pred cccccC--CcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh----CCCeEEEEe
Confidence 355676 999999999999999999999999987 6799999999999999999999999888875 345789999
Q ss_pred ecHHHHHHHHHHHHHHhhhcCCCCcceEEE
Q psy12984 146 KLRPLTNGVYLVACNVFKSTQPPTVIKVQT 175 (178)
Q Consensus 146 Ptr~La~qi~~~~~~l~~~~~~~~~~~v~~ 175 (178)
|+-+||+|-|..|+.-...++..+.|+|++
T Consensus 269 PLVALANQKy~dF~~rYs~LglkvairVG~ 298 (830)
T COG1202 269 PLVALANQKYEDFKERYSKLGLKVAIRVGM 298 (830)
T ss_pred hhHHhhcchHHHHHHHhhcccceEEEEech
Confidence 999999999999999999999998888875
No 62
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.28 E-value=9.3e-12 Score=116.66 Aligned_cols=89 Identities=19% Similarity=0.206 Sum_probs=74.7
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccc-cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPL-LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNG 153 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~-l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~q 153 (178)
+++.++..+...|+...++.|+.++... +.|.|+|+|+|||||||+...+.+++.+... +..++||||+|+||.+
T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~----~~k~vYivPlkALa~E 91 (766)
T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG----GGKVVYIVPLKALAEE 91 (766)
T ss_pred ccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc----CCcEEEEeChHHHHHH
Confidence 6778888888889988888888887664 5669999999999999999999999999763 5588999999999999
Q ss_pred HHHHHHHHhhhcCCC
Q psy12984 154 VYLVACNVFKSTQPP 168 (178)
Q Consensus 154 i~~~~~~l~~~~~~~ 168 (178)
++..|+ -...+|..
T Consensus 92 k~~~~~-~~~~~Gir 105 (766)
T COG1204 92 KYEEFS-RLEELGIR 105 (766)
T ss_pred HHHHhh-hHHhcCCE
Confidence 999999 34444433
No 63
>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=99.27 E-value=1.5e-11 Score=106.18 Aligned_cols=72 Identities=22% Similarity=0.224 Sum_probs=60.1
Q ss_pred HHHHhhccccCCCc--EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCCcc
Q psy12984 94 IQARTIPPLLEGRD--LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPTVI 171 (178)
Q Consensus 94 iQ~~aip~~l~g~d--vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~~~ 171 (178)
+|.++++.+..+.+ ++++||||||||++|++|++.. ...+++++|+++|++|+++.+..++..+....++
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~--------~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~ 72 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG--------ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDV 72 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc--------CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCc
Confidence 69999999998875 7889999999999999999841 2367999999999999999999998776544344
Q ss_pred eE
Q psy12984 172 KV 173 (178)
Q Consensus 172 ~v 173 (178)
.+
T Consensus 73 ~v 74 (357)
T TIGR03158 73 NL 74 (357)
T ss_pred eE
Confidence 33
No 64
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.21 E-value=4.5e-11 Score=110.97 Aligned_cols=77 Identities=21% Similarity=0.158 Sum_probs=65.8
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
+|. +|+++|..+.++++.|+ |+.++||+|||++|++|++-.... +.++.+++||++||.|.+.++..+.+++
T Consensus 53 lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~-----G~~V~VvTpt~~LA~qdae~~~~l~~~L 124 (745)
T TIGR00963 53 LGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALT-----GKGVHVVTVNDYLAQRDAEWMGQVYRFL 124 (745)
T ss_pred hCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHh-----CCCEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 677 89999999999998887 899999999999999999543333 3368899999999999999999999887
Q ss_pred CCCCc
Q psy12984 166 QPPTV 170 (178)
Q Consensus 166 ~~~~~ 170 (178)
+..++
T Consensus 125 GLsv~ 129 (745)
T TIGR00963 125 GLSVG 129 (745)
T ss_pred CCeEE
Confidence 65443
No 65
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.19 E-value=1.2e-10 Score=110.61 Aligned_cols=88 Identities=18% Similarity=0.148 Sum_probs=71.7
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhc----cccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIP----PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPL 150 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip----~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~L 150 (178)
+++.+.+.+...||. +.+.|...+. .+..|+++++.|+||+|||++|++|++.+.. ...+++|.+||++|
T Consensus 231 ~~~~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-----~~~~vvi~t~t~~L 304 (850)
T TIGR01407 231 LSSLFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-----TEKPVVISTNTKVL 304 (850)
T ss_pred ccHHHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-----CCCeEEEEeCcHHH
Confidence 556777788889995 8899998665 5567899999999999999999999988765 22378889999999
Q ss_pred HHHHHH-HHHHHhhhcCCC
Q psy12984 151 TNGVYL-VACNVFKSTQPP 168 (178)
Q Consensus 151 a~qi~~-~~~~l~~~~~~~ 168 (178)
+.|+.. .+..+.+.++.+
T Consensus 305 q~Ql~~~~~~~l~~~~~~~ 323 (850)
T TIGR01407 305 QSQLLEKDIPLLNEILNFK 323 (850)
T ss_pred HHHHHHHHHHHHHHHcCCC
Confidence 999965 677777666655
No 66
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.18 E-value=8.1e-11 Score=109.73 Aligned_cols=79 Identities=19% Similarity=0.125 Sum_probs=67.8
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|..+..++..| .|+.++||+|||++|++|++...+. +.+++|++|+++||.|...++..+.+++
T Consensus 67 lgl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~-----g~~V~VVTpn~yLA~Rdae~m~~l~~~L 138 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNALT-----GKGAMLVTTNDYLAKRDAEEMGPVYEWL 138 (762)
T ss_pred cCC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhhc-----CCceEEeCCCHHHHHHHHHHHHHHHhhc
Confidence 677 8999999988887777 5999999999999999998776654 3468999999999999999999999998
Q ss_pred CCCCcce
Q psy12984 166 QPPTVIK 172 (178)
Q Consensus 166 ~~~~~~~ 172 (178)
|..+++.
T Consensus 139 GLsv~~~ 145 (762)
T TIGR03714 139 GLTVSLG 145 (762)
T ss_pred CCcEEEE
Confidence 8775543
No 67
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.11 E-value=2.6e-10 Score=87.07 Aligned_cols=77 Identities=32% Similarity=0.324 Sum_probs=67.4
Q ss_pred HCCCCCCcHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 85 DMGFTKMTEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 85 ~~g~~~pt~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
..++..|+++|..++..++.+ ++++++++||||||.+++.+++..+... ....+++++|++.++.|++..+..++.
T Consensus 3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~---~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRG---KGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhccc---CCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 346789999999999999988 9999999999999999999999988653 234789999999999999999888775
Q ss_pred h
Q psy12984 164 S 164 (178)
Q Consensus 164 ~ 164 (178)
.
T Consensus 80 ~ 80 (201)
T smart00487 80 S 80 (201)
T ss_pred c
Confidence 4
No 68
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.10 E-value=1.2e-10 Score=107.89 Aligned_cols=71 Identities=13% Similarity=0.092 Sum_probs=59.4
Q ss_pred HHHHhhccccCCCcEEEEccCCCchhhH---------hHHHHHHHHHhcc-CCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 94 IQARTIPPLLEGRDLVGSAKTGSGKTLA---------FLVPAVELIYNLK-FMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 94 iQ~~aip~~l~g~dvi~~a~TGsGKTla---------f~lp~l~~l~~~~-~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
+|.++++.++.|+|+|++|+||||||.+ |++|.+..+.... ......+++++|||+||.|+...+...++
T Consensus 168 iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~vg 247 (675)
T PHA02653 168 VQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSLG 247 (675)
T ss_pred HHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999997 6677777664322 23345788899999999999999888776
Q ss_pred h
Q psy12984 164 S 164 (178)
Q Consensus 164 ~ 164 (178)
+
T Consensus 248 ~ 248 (675)
T PHA02653 248 F 248 (675)
T ss_pred c
Confidence 5
No 69
>KOG0952|consensus
Probab=99.09 E-value=2.6e-10 Score=107.69 Aligned_cols=80 Identities=16% Similarity=0.173 Sum_probs=66.9
Q ss_pred CCCCCCcHHHHHhhccccC-CCcEEEEccCCCchhhHhHHHHHHHHHhc-----cCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 86 MGFTKMTEIQARTIPPLLE-GRDLVGSAKTGSGKTLAFLVPAVELIYNL-----KFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~-g~dvi~~a~TGsGKTlaf~lp~l~~l~~~-----~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
.+|..+..+|..++|.+.+ .-|+|||||||||||..|+|.||+.|... -.......+||+|+++||..+++.+.
T Consensus 106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~ 185 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFS 185 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHh
Confidence 5788899999999998874 57999999999999999999999999751 12345588999999999999998877
Q ss_pred HHhhhc
Q psy12984 160 NVFKST 165 (178)
Q Consensus 160 ~l~~~~ 165 (178)
+-+..+
T Consensus 186 kkl~~~ 191 (1230)
T KOG0952|consen 186 KKLAPL 191 (1230)
T ss_pred hhcccc
Confidence 766433
No 70
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.08 E-value=3.2e-10 Score=101.91 Aligned_cols=72 Identities=10% Similarity=-0.111 Sum_probs=58.5
Q ss_pred CCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 88 FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 88 ~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
...|+++|..|++.++.+.++++++|||+|||+++..-+ ..+.. ....++++|+||++|+.|++..+..++.
T Consensus 112 ~~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~-~~~~~---~~~~~vLilvpt~eL~~Q~~~~l~~~~~ 183 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLS-RYYLE---NYEGKVLIIVPTTSLVTQMIDDFVDYRL 183 (501)
T ss_pred cCCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHH-HHHHh---cCCCeEEEEECcHHHHHHHHHHHHHhcc
Confidence 458999999999999999999999999999999865422 22222 1233889999999999999999988763
No 71
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.06 E-value=6.9e-10 Score=103.22 Aligned_cols=68 Identities=19% Similarity=0.141 Sum_probs=59.4
Q ss_pred CCcHHHHHhhccccCC---CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLEG---RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g---~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.+|+.|..++..+..+ +++++.++||||||.+|+.++...+.. +.++++|+||++|+.|++..++..+
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~-----g~~vLvLvPt~~L~~Q~~~~l~~~f 214 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQ-----GKQALVLVPEIALTPQMLARFRARF 214 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHc-----CCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 4799999999999874 899999999999999999888776643 3478999999999999999998754
No 72
>KOG0349|consensus
Probab=99.05 E-value=1e-10 Score=102.40 Aligned_cols=65 Identities=37% Similarity=0.578 Sum_probs=60.9
Q ss_pred cchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
+.|++++ +-|+|-.+..++.|.-||.+|+++||.++.|-||+.+|.||||||-||++|+|+.+..
T Consensus 2 ~af~e~g--v~pel~~a~~e~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~lpilqiv~e 66 (725)
T KOG0349|consen 2 TAFEEFG--VLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWE 66 (725)
T ss_pred cchHhhC--cchHhhhhhhhhccccccccccccccEEecCCcEEEEeccCCCCccceehhhHHHHHH
Confidence 3589998 9999999999999999999999999999999999999999999999999999997653
No 73
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.04 E-value=4.7e-10 Score=95.97 Aligned_cols=54 Identities=31% Similarity=0.198 Sum_probs=47.4
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
|++++||||||||++|++|++..+.. ....++++++|+|+|+.|+++.+..+++
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~---~~~~~ii~v~P~~~L~~q~~~~l~~~f~ 54 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKS---QKADRVIIALPTRATINAMYRRAKELFG 54 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhh---CCCCeEEEEeehHHHHHHHHHHHHHHhC
Confidence 68999999999999999999988654 3455889999999999999999998754
No 74
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=99.00 E-value=1.1e-09 Score=100.77 Aligned_cols=65 Identities=22% Similarity=0.219 Sum_probs=54.4
Q ss_pred cccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh-hhcCCC
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF-KSTQPP 168 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~-~~~~~~ 168 (178)
++..++.+++.|+||+|||++|++|++..+.. ....+++|++||++|+.|+++.+..+. +.++.+
T Consensus 12 al~~~~~lliEA~TGtGKTlAYLlpal~~~~~---~~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~ 77 (636)
T TIGR03117 12 SLRQKRIGMLEASTGVGKTLAMIMAALTMLKE---RPDQKIAIAVPTLALMGQLWSELERLTAEGLAGP 77 (636)
T ss_pred HHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHh---ccCceEEEECCcHHHHHHHHHHHHHHHHhhcCCC
Confidence 34567899999999999999999999998763 234688999999999999999998887 555544
No 75
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.97 E-value=1.1e-09 Score=108.12 Aligned_cols=54 Identities=24% Similarity=0.173 Sum_probs=45.4
Q ss_pred EEccCCCchhhHhHHHHHHHHHhccC--------CCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 110 GSAKTGSGKTLAFLVPAVELIYNLKF--------MPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 110 ~~a~TGsGKTlaf~lp~l~~l~~~~~--------~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
|+||||||||+||+||+|+.+..... ....+++||+|||+|++|+++.++..+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~ 62 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLK 62 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHH
Confidence 57999999999999999999976421 2356899999999999999999887544
No 76
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.96 E-value=1.7e-09 Score=102.03 Aligned_cols=77 Identities=19% Similarity=0.140 Sum_probs=64.2
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|...--++..|+ |+.++||+|||++|.+|++..+.. +.++.+++||++||.|.+.++..+..++
T Consensus 79 lg~-~~ydvQliGg~~Lh~G~--Iaem~TGeGKTL~a~Lpa~~~al~-----G~~V~VvTpn~yLA~qd~e~m~~l~~~l 150 (896)
T PRK13104 79 LGL-RHFDVQLIGGMVLHEGN--IAEMRTGEGKTLVATLPAYLNAIS-----GRGVHIVTVNDYLAKRDSQWMKPIYEFL 150 (896)
T ss_pred cCC-CcchHHHhhhhhhccCc--cccccCCCCchHHHHHHHHHHHhc-----CCCEEEEcCCHHHHHHHHHHHHHHhccc
Confidence 566 89999987665666665 789999999999999999987754 3468899999999999999999999887
Q ss_pred CCCCc
Q psy12984 166 QPPTV 170 (178)
Q Consensus 166 ~~~~~ 170 (178)
+..++
T Consensus 151 GLtv~ 155 (896)
T PRK13104 151 GLTVG 155 (896)
T ss_pred CceEE
Confidence 65443
No 77
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.93 E-value=2.9e-09 Score=100.86 Aligned_cols=78 Identities=17% Similarity=0.128 Sum_probs=60.6
Q ss_pred HHCCCCCCcHHHHHhhc----cccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH-HHHH
Q psy12984 84 ADMGFTKMTEIQARTIP----PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV-YLVA 158 (178)
Q Consensus 84 ~~~g~~~pt~iQ~~aip----~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi-~~~~ 158 (178)
.-.|| .+.+-|..-.. ++..+.++++.|+||+|||++|++|++... ....++|++|||+|+.|+ ...+
T Consensus 240 ~~~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~------~~~~vvI~t~T~~Lq~Ql~~~~i 312 (820)
T PRK07246 240 ALLGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS------DQRQIIVSVPTKILQDQIMAEEV 312 (820)
T ss_pred ccCCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc------CCCcEEEEeCcHHHHHHHHHHHH
Confidence 33466 67888877332 345678999999999999999999988754 235789999999999999 4778
Q ss_pred HHHhhhcCCC
Q psy12984 159 CNVFKSTQPP 168 (178)
Q Consensus 159 ~~l~~~~~~~ 168 (178)
..+.+.++.+
T Consensus 313 ~~l~~~~~~~ 322 (820)
T PRK07246 313 KAIQEVFHID 322 (820)
T ss_pred HHHHHhcCCc
Confidence 8877775543
No 78
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.82 E-value=1.2e-08 Score=85.86 Aligned_cols=73 Identities=15% Similarity=0.071 Sum_probs=57.7
Q ss_pred CCcHHHHH----hhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCC-CCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQAR----TIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM-PRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~----aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~-~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|+|.|.. .+..+..|.++++.||||+|||++|++|++.++...... .....+|.++|..+..|....++++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhcc
Confidence 46899998 444566789999999999999999999999887653221 23477889999999888877777653
No 79
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.82 E-value=1.2e-08 Score=85.86 Aligned_cols=73 Identities=15% Similarity=0.071 Sum_probs=57.7
Q ss_pred CCcHHHHH----hhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCC-CCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQAR----TIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM-PRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~----aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~-~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|+|.|.. .+..+..|.++++.||||+|||++|++|++.++...... .....+|.++|..+..|....++++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~~ 85 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKLM 85 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhcc
Confidence 46899998 444566789999999999999999999999887653221 23477889999999888877777653
No 80
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=98.78 E-value=1.5e-08 Score=77.41 Aligned_cols=65 Identities=25% Similarity=0.191 Sum_probs=52.9
Q ss_pred CCcHHHHHhhccccC-------CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLE-------GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~-------g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.+++.|..|+..+.. .+++++.++||||||.+.+..+.... . .+++++|++.|+.|.+..+..+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~-~-------~~l~~~p~~~l~~Q~~~~~~~~~ 74 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA-R-------KVLIVAPNISLLEQWYDEFDDFG 74 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-C-------EEEEEESSHHHHHHHHHHHHHHS
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-c-------ceeEecCHHHHHHHHHHHHHHhh
Confidence 578999999988763 68999999999999999886554433 2 78999999999999999985544
No 81
>KOG0352|consensus
Probab=98.77 E-value=1.2e-08 Score=89.48 Aligned_cols=75 Identities=21% Similarity=0.255 Sum_probs=61.6
Q ss_pred HHHHHHH-CCCCCC-cHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 79 TLKAIAD-MGFTKM-TEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 79 ll~~l~~-~g~~~p-t~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
+..+|++ .|+... |+.|..|+..+..+ .||.|+.|||+||+|||.||.|- .....++++|+.+|.+++.
T Consensus 7 VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~--------~~gITIV~SPLiALIkDQi 78 (641)
T KOG0352|consen 7 VREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALV--------HGGITIVISPLIALIKDQI 78 (641)
T ss_pred HHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHH--------hCCeEEEehHHHHHHHHHH
Confidence 3445544 687765 88999999987665 79999999999999999999975 2237788999999999999
Q ss_pred HHHHHH
Q psy12984 156 LVACNV 161 (178)
Q Consensus 156 ~~~~~l 161 (178)
+.+..|
T Consensus 79 DHL~~L 84 (641)
T KOG0352|consen 79 DHLKRL 84 (641)
T ss_pred HHHHhc
Confidence 987764
No 82
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.75 E-value=1.7e-08 Score=91.90 Aligned_cols=74 Identities=23% Similarity=0.270 Sum_probs=65.0
Q ss_pred HHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 81 KAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 81 ~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
..|++ +||....+-|..+|..+++|+|+++.-|||.||++||.+|.+-. .+ -+++|+|+.+|..++.+.+.
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~-------~G-~TLVVSPLiSLM~DQV~~l~ 78 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL-------EG-LTLVVSPLISLMKDQVDQLE 78 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc-------CC-CEEEECchHHHHHHHHHHHH
Confidence 44555 79999999999999999999999999999999999999999752 23 56889999999999999988
Q ss_pred HHh
Q psy12984 160 NVF 162 (178)
Q Consensus 160 ~l~ 162 (178)
..+
T Consensus 79 ~~G 81 (590)
T COG0514 79 AAG 81 (590)
T ss_pred HcC
Confidence 755
No 83
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.74 E-value=2.4e-08 Score=94.06 Aligned_cols=78 Identities=21% Similarity=0.184 Sum_probs=64.8
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHH-HHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV-ELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l-~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
+|. +|+++|...--++..|+ |+.++||+|||+++.+|++ +.+ . +.++-+++||+.||.|.+..+..+..+
T Consensus 78 lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL-~-----G~~V~IvTpn~yLA~rd~e~~~~l~~~ 148 (830)
T PRK12904 78 LGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNAL-T-----GKGVHVVTVNDYLAKRDAEWMGPLYEF 148 (830)
T ss_pred hCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHH-c-----CCCEEEEecCHHHHHHHHHHHHHHHhh
Confidence 677 89999998887777775 8899999999999999996 544 2 225668999999999999999999988
Q ss_pred cCCCCcce
Q psy12984 165 TQPPTVIK 172 (178)
Q Consensus 165 ~~~~~~~~ 172 (178)
+|..+++.
T Consensus 149 LGlsv~~i 156 (830)
T PRK12904 149 LGLSVGVI 156 (830)
T ss_pred cCCeEEEE
Confidence 87765443
No 84
>PRK13766 Hef nuclease; Provisional
Probab=98.74 E-value=2.7e-08 Score=93.45 Aligned_cols=71 Identities=15% Similarity=0.033 Sum_probs=61.1
Q ss_pred CCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 88 FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 88 ~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
...|.+.|...+..++.+ |+|+++|||+|||+++++++...+. .+...+++|+||++|+.|+...+..++.
T Consensus 13 ~~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~----~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~ 83 (773)
T PRK13766 13 TIEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLH----KKGGKVLILAPTKPLVEQHAEFFRKFLN 83 (773)
T ss_pred cCCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHH----hCCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 347888999988878877 9999999999999999999998773 3445889999999999999999988764
No 85
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.67 E-value=5.1e-08 Score=93.33 Aligned_cols=78 Identities=19% Similarity=0.239 Sum_probs=66.1
Q ss_pred HHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 82 AIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 82 ~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.....|| .+-++|+.|+-.+..|..|+||||||+|||+.--+.+-..+.+ +.+++|.+|++||.+|.|+.+...
T Consensus 112 ~~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~-----~qrviYTsPIKALsNQKyrdl~~~ 185 (1041)
T COG4581 112 PAREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRD-----GQRVIYTSPIKALSNQKYRDLLAK 185 (1041)
T ss_pred HHHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHc-----CCceEeccchhhhhhhHHHHHHHH
Confidence 3566789 7899999999999999999999999999999976666555544 225899999999999999998887
Q ss_pred hhhc
Q psy12984 162 FKST 165 (178)
Q Consensus 162 ~~~~ 165 (178)
.+..
T Consensus 186 fgdv 189 (1041)
T COG4581 186 FGDV 189 (1041)
T ss_pred hhhh
Confidence 7755
No 86
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.66 E-value=3.6e-08 Score=93.36 Aligned_cols=55 Identities=15% Similarity=0.007 Sum_probs=46.0
Q ss_pred cccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.+..+++++++|+||||||.+|.+|+++... ...+++++.|+|++|.|++..+..
T Consensus 16 ~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~-----~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 16 ALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG-----INGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC-----cCCeEEEECChHHHHHHHHHHHHH
Confidence 4456889999999999999999999997532 224788999999999999988754
No 87
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.61 E-value=1.3e-07 Score=89.58 Aligned_cols=77 Identities=18% Similarity=0.071 Sum_probs=63.7
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|...=-++..|+ |+.++||+|||++|.+|++...+. +.++.|++|+++||.+...++..+..++
T Consensus 79 lgm-~~ydVQliGgl~L~~G~--IaEm~TGEGKTL~a~lp~~l~al~-----g~~VhIvT~ndyLA~RD~e~m~~l~~~l 150 (908)
T PRK13107 79 FEM-RHFDVQLLGGMVLDSNR--IAEMRTGEGKTLTATLPAYLNALT-----GKGVHVITVNDYLARRDAENNRPLFEFL 150 (908)
T ss_pred hCC-CcCchHHhcchHhcCCc--cccccCCCCchHHHHHHHHHHHhc-----CCCEEEEeCCHHHHHHHHHHHHHHHHhc
Confidence 566 89999976654555554 789999999999999999877754 3468899999999999999999999997
Q ss_pred CCCCc
Q psy12984 166 QPPTV 170 (178)
Q Consensus 166 ~~~~~ 170 (178)
|..++
T Consensus 151 Glsv~ 155 (908)
T PRK13107 151 GLTVG 155 (908)
T ss_pred CCeEE
Confidence 66544
No 88
>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=98.59 E-value=1.9e-07 Score=88.57 Aligned_cols=56 Identities=14% Similarity=0.014 Sum_probs=47.3
Q ss_pred ccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 100 PPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 100 p~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
..+..+.++|++|+||||||.+|.+|+++... ...+++++.|+|++|.|+...+..
T Consensus 12 ~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-----~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 12 DALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-----IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-----cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 34556789999999999999999999998762 234789999999999999998753
No 89
>PRK09694 helicase Cas3; Provisional
Probab=98.59 E-value=2.5e-07 Score=88.19 Aligned_cols=73 Identities=21% Similarity=0.043 Sum_probs=56.7
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|+|+|..+......+.-+|+.||||+|||.+.++.+...+.. ....+.++..||+++++|+|..+..+.+.+
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~---~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~ 358 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQ---GLADSIIFALPTQATANAMLSRLEALASKL 358 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHh---CCCCeEEEECcHHHHHHHHHHHHHHHHHHh
Confidence 7999999876544456678999999999999977665543332 234577888999999999999998876654
No 90
>KOG0353|consensus
Probab=98.55 E-value=1.5e-07 Score=81.83 Aligned_cols=80 Identities=19% Similarity=0.195 Sum_probs=65.4
Q ss_pred CCHHHHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHH
Q psy12984 75 VCENTLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNG 153 (178)
Q Consensus 75 l~~~ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~q 153 (178)
.+.+....|++ .......|.|..+|.+.+.|.|+++.-|||.||+|||.+|+|- . ..-+++|+|+..|..+
T Consensus 78 ws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~-------a-dg~alvi~plislmed 149 (695)
T KOG0353|consen 78 WSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC-------A-DGFALVICPLISLMED 149 (695)
T ss_pred CchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh-------c-CCceEeechhHHHHHH
Confidence 44444555544 3456778999999999999999999999999999999999975 2 2367899999999999
Q ss_pred HHHHHHHHh
Q psy12984 154 VYLVACNVF 162 (178)
Q Consensus 154 i~~~~~~l~ 162 (178)
+.-+++.++
T Consensus 150 qil~lkqlg 158 (695)
T KOG0353|consen 150 QILQLKQLG 158 (695)
T ss_pred HHHHHHHhC
Confidence 988887764
No 91
>KOG0354|consensus
Probab=98.55 E-value=1.4e-07 Score=87.54 Aligned_cols=69 Identities=23% Similarity=0.282 Sum_probs=59.5
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.+...|......+| |+|+||++|||+|||.+.++-+++++.- .+...+++++||+-|..|+...++.++
T Consensus 62 ~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw---~p~~KiVF~aP~~pLv~QQ~a~~~~~~ 130 (746)
T KOG0354|consen 62 ELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEW---RPKGKVVFLAPTRPLVNQQIACFSIYL 130 (746)
T ss_pred cccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhc---CCcceEEEeeCCchHHHHHHHHHhhcc
Confidence 66778888888888 9999999999999999999999998866 445788999999999999996666655
No 92
>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=98.51 E-value=7.3e-07 Score=63.98 Aligned_cols=56 Identities=36% Similarity=0.395 Sum_probs=47.2
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
+++++.++||+|||..++..+...... .....+++++|++.|+.|....+......
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~---~~~~~~lv~~p~~~l~~~~~~~~~~~~~~ 56 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS---LKGGQVLVLAPTRELANQVAERLKELFGE 56 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc---ccCCCEEEEcCcHHHHHHHHHHHHHHhhC
Confidence 468999999999999999888886654 34558899999999999999988887754
No 93
>KOG0951|consensus
Probab=98.47 E-value=6.2e-07 Score=86.71 Aligned_cols=91 Identities=15% Similarity=0.143 Sum_probs=73.3
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHhccC------CCCCceEEEeec
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKF------MPRNGKSWQGKL 147 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~------~~~~~~~~l~Pt 147 (178)
++.|-..++. |+..+..||...-++++.+ .++++|||||+|||...++-+|+.+.+... ......+||+|+
T Consensus 296 lP~Wnq~aF~--g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPm 373 (1674)
T KOG0951|consen 296 LPKWNQPAFF--GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPM 373 (1674)
T ss_pred Ccchhhhhcc--cchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeH
Confidence 6666666663 5667999999999988877 699999999999999999999999977543 223367899999
Q ss_pred HHHHHHHHHHHHHHhhhcCC
Q psy12984 148 RPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 148 r~La~qi~~~~~~l~~~~~~ 167 (178)
++|++.+...|++-+..++.
T Consensus 374 KaLvqE~VgsfSkRla~~GI 393 (1674)
T KOG0951|consen 374 KALVQEMVGSFSKRLAPLGI 393 (1674)
T ss_pred HHHHHHHHHHHHhhccccCc
Confidence 99999999988887755443
No 94
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.41 E-value=1.8e-06 Score=82.23 Aligned_cols=82 Identities=20% Similarity=0.082 Sum_probs=65.7
Q ss_pred HHHHHHH-CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 79 TLKAIAD-MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 79 ll~~l~~-~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
+.+.+.+ .|| .|+..|+.....+..|+++-+.||||.|||..-++-.+-.-. .+.++.+|+||..|+.|+++.
T Consensus 71 ~~~fF~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~-----kgkr~yii~PT~~Lv~Q~~~k 144 (1187)
T COG1110 71 FEEFFKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAK-----KGKRVYIIVPTTTLVRQVYER 144 (1187)
T ss_pred HHHHHHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHh-----cCCeEEEEecCHHHHHHHHHH
Confidence 3344555 466 999999998899999999999999999999865444333222 235889999999999999999
Q ss_pred HHHHhhhcC
Q psy12984 158 ACNVFKSTQ 166 (178)
Q Consensus 158 ~~~l~~~~~ 166 (178)
+..+....+
T Consensus 145 l~~~~e~~~ 153 (1187)
T COG1110 145 LKKFAEDAG 153 (1187)
T ss_pred HHHHHhhcC
Confidence 999998877
No 95
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.39 E-value=1.3e-06 Score=84.05 Aligned_cols=77 Identities=21% Similarity=0.175 Sum_probs=57.7
Q ss_pred CCCCCcHHHHHhhcc----ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH-HHHH
Q psy12984 87 GFTKMTEIQARTIPP----LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV-ACNV 161 (178)
Q Consensus 87 g~~~pt~iQ~~aip~----~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~-~~~l 161 (178)
|| .+.+-|..-+.. +..+.++++-|+||+|||++|++|++.+... .+..++|-++|+.|..|+... +-.+
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~----~~~~vvIsT~T~~LQ~Ql~~kDiP~L 329 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKK----KEEPVVISTYTIQLQQQLLEKDIPLL 329 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhc----cCCeEEEEcCCHHHHHHHHHhhHHHH
Confidence 56 788888874433 3467899999999999999999999876643 334677789999999998763 4444
Q ss_pred hhhcCCC
Q psy12984 162 FKSTQPP 168 (178)
Q Consensus 162 ~~~~~~~ 168 (178)
.+-++.+
T Consensus 330 ~~~~~~~ 336 (928)
T PRK08074 330 QKIFPFP 336 (928)
T ss_pred HHHcCCC
Confidence 5555444
No 96
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.33 E-value=3.1e-06 Score=79.19 Aligned_cols=78 Identities=24% Similarity=0.233 Sum_probs=56.3
Q ss_pred CCCCCcHHHHHhhccc---cC------CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH-
Q psy12984 87 GFTKMTEIQARTIPPL---LE------GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL- 156 (178)
Q Consensus 87 g~~~pt~iQ~~aip~~---l~------g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~- 156 (178)
|| .+.+-|..-+..+ +. ++.++|-|+||+|||+||++|++-+... ...+++|=+.|+.|-.|+..
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~----~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARA----EKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHH----cCCeEEEEcCCHHHHHHHHhh
Confidence 66 6778887744333 33 3678999999999999999999876653 23356667899999999964
Q ss_pred HHHHHhhhcCCCC
Q psy12984 157 VACNVFKSTQPPT 169 (178)
Q Consensus 157 ~~~~l~~~~~~~~ 169 (178)
.+-.+.+-++.++
T Consensus 98 DlP~l~~~l~~~~ 110 (697)
T PRK11747 98 DLPLLLKISGLDF 110 (697)
T ss_pred hhhHHHHHcCCCc
Confidence 4555555555553
No 97
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.31 E-value=1.2e-06 Score=77.94 Aligned_cols=66 Identities=17% Similarity=0.096 Sum_probs=53.5
Q ss_pred CCcHHHHHhhccccC----CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 90 KMTEIQARTIPPLLE----GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~----g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.|.+.|.+|+..+.. ++..+++.|||+|||..++.-+-. +.. .++||||+++|+.|.++.+...+.
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~-~~~-------~~Lvlv~~~~L~~Qw~~~~~~~~~ 105 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAE-LKR-------STLVLVPTKELLDQWAEALKKFLL 105 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHH-hcC-------CEEEEECcHHHHHHHHHHHHHhcC
Confidence 689999999999887 899999999999999988654433 211 389999999999999866555443
No 98
>KOG0351|consensus
Probab=98.31 E-value=5.2e-07 Score=86.35 Aligned_cols=72 Identities=22% Similarity=0.212 Sum_probs=61.7
Q ss_pred HHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHH
Q psy12984 79 TLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA 158 (178)
Q Consensus 79 ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~ 158 (178)
........|+....+-|.++|.+.+.|+|+++..|||.||.+||.||++- .++ ..++|.|+.+|.+++...+
T Consensus 253 ~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l-------~~g-itvVISPL~SLm~DQv~~L 324 (941)
T KOG0351|consen 253 ELLLKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALL-------LGG-VTVVISPLISLMQDQVTHL 324 (941)
T ss_pred HHHHHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeeccccc-------cCC-ceEEeccHHHHHHHHHHhh
Confidence 33334558999999999999999999999999999999999999999863 222 6788999999999888776
No 99
>KOG0947|consensus
Probab=98.21 E-value=1.9e-06 Score=81.60 Aligned_cols=77 Identities=17% Similarity=0.154 Sum_probs=62.6
Q ss_pred HCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 85 DMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 85 ~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
..+| +|-.+|+.||-.+..|..|+|+|+|.+|||+..-+.+.-.- ....+++|-+|.++|.+|-|+.|+.-++.
T Consensus 293 ~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq-----~h~TR~iYTSPIKALSNQKfRDFk~tF~D 366 (1248)
T KOG0947|consen 293 IYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQ-----KHMTRTIYTSPIKALSNQKFRDFKETFGD 366 (1248)
T ss_pred hCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHH-----hhccceEecchhhhhccchHHHHHHhccc
Confidence 3566 67789999999999999999999999999998444332211 23458899999999999999999988877
Q ss_pred cCC
Q psy12984 165 TQP 167 (178)
Q Consensus 165 ~~~ 167 (178)
.|+
T Consensus 367 vgL 369 (1248)
T KOG0947|consen 367 VGL 369 (1248)
T ss_pred cce
Confidence 654
No 100
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.18 E-value=5.6e-06 Score=76.58 Aligned_cols=71 Identities=23% Similarity=0.211 Sum_probs=57.8
Q ss_pred CCCCCcHHHHHhhcc----ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 87 GFTKMTEIQARTIPP----LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 87 g~~~pt~iQ~~aip~----~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
....|.+.|...+.. +..|+.+++.||||+|||++|++|+|...... ...+++.++|+.|-.|++.....+
T Consensus 12 ~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~----~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 12 PGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE----GKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc----CCcEEEECCCHHHHHHHHHhhcch
Confidence 444899999988854 34566799999999999999999999987653 257788899999999999886654
No 101
>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=98.16 E-value=2.8e-06 Score=76.81 Aligned_cols=49 Identities=20% Similarity=0.029 Sum_probs=39.2
Q ss_pred EEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 109 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 109 i~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
++.++||||||.+|+..+...+.. +.++++++|+++|+.|++..|+..+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~-----g~~vLvlvP~i~L~~Q~~~~l~~~f 49 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLAL-----GKSVLVLVPEIALTPQMIQRFKYRF 49 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHc-----CCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 357999999999997665444432 4478999999999999999998754
No 102
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.13 E-value=6.1e-06 Score=80.75 Aligned_cols=69 Identities=16% Similarity=0.110 Sum_probs=54.7
Q ss_pred CCcHHHHHhhcccc----CC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 90 KMTEIQARTIPPLL----EG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 90 ~pt~iQ~~aip~~l----~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.+.+.|..||..+. .| +.++++.+||||||... +.++.++.+. ....++++|+|+++|+.|....|..+
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~ta-i~li~~L~~~--~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTA-IALMYRLLKA--KRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHH-HHHHHHHHhc--CccCeEEEEecHHHHHHHHHHHHHhc
Confidence 58999999998764 33 68999999999999884 3455555543 22348899999999999999998876
No 103
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.11 E-value=9.6e-06 Score=76.50 Aligned_cols=78 Identities=19% Similarity=0.161 Sum_probs=67.3
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|..+--++..|+ |+.-.||+|||++..+|++-..+. +.++-+++||-.||.|=+..+..+..++
T Consensus 77 ~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~-----G~~v~vvT~neyLA~Rd~e~~~~~~~~L 148 (796)
T PRK12906 77 LGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALT-----GKGVHVVTVNEYLSSRDATEMGELYRWL 148 (796)
T ss_pred hCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHc-----CCCeEEEeccHHHHHhhHHHHHHHHHhc
Confidence 676 89999998877777777 889999999999999999887765 5578889999999999999999999998
Q ss_pred CCCCcc
Q psy12984 166 QPPTVI 171 (178)
Q Consensus 166 ~~~~~~ 171 (178)
|..+++
T Consensus 149 Gl~vg~ 154 (796)
T PRK12906 149 GLTVGL 154 (796)
T ss_pred CCeEEE
Confidence 866554
No 104
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.05 E-value=8.6e-06 Score=75.05 Aligned_cols=90 Identities=20% Similarity=0.204 Sum_probs=73.2
Q ss_pred CCHHHHHH-HHHCCCCCCcHHHHHhhccccCC------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeec
Q psy12984 75 VCENTLKA-IADMGFTKMTEIQARTIPPLLEG------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL 147 (178)
Q Consensus 75 l~~~ll~~-l~~~g~~~pt~iQ~~aip~~l~g------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Pt 147 (178)
.+..+++. +..+.| .+|.-|..+|..++.. .+=++++--|||||+..++.++..+.. +-++..++||
T Consensus 247 ~~~~l~~~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~-----G~Q~ALMAPT 320 (677)
T COG1200 247 ANGELLAKFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA-----GYQAALMAPT 320 (677)
T ss_pred ccHHHHHHHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc-----CCeeEEeccH
Confidence 33444544 467899 8999999999988653 355788999999999999999998854 5588889999
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCc
Q psy12984 148 RPLTNGVYLVACNVFKSTQPPTV 170 (178)
Q Consensus 148 r~La~qi~~~~~~l~~~~~~~~~ 170 (178)
--||.|=|..+.+++..++..+.
T Consensus 321 EILA~QH~~~~~~~l~~~~i~V~ 343 (677)
T COG1200 321 EILAEQHYESLRKWLEPLGIRVA 343 (677)
T ss_pred HHHHHHHHHHHHHHhhhcCCeEE
Confidence 99999999999999987774433
No 105
>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=98.02 E-value=2.5e-05 Score=73.21 Aligned_cols=74 Identities=12% Similarity=0.117 Sum_probs=59.9
Q ss_pred CCCCCcHHHHHhhcc----ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 87 GFTKMTEIQARTIPP----LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 87 g~~~pt~iQ~~aip~----~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
-|..++|.|.+.+.. +..|.++++.||||+|||++-+.|+|.++.... ...+.+|.+.|..=-.|+.+.++++.
T Consensus 7 Py~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~--~~~kIiy~sRThsQl~q~i~Elk~~~ 84 (705)
T TIGR00604 7 PYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP--EVRKIIYASRTHSQLEQATEELRKLM 84 (705)
T ss_pred CCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc--ccccEEEEcccchHHHHHHHHHHhhh
Confidence 365668999887754 457899999999999999999999999876432 23477889999998888888988864
No 106
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.00 E-value=2.4e-05 Score=73.08 Aligned_cols=77 Identities=19% Similarity=0.099 Sum_probs=66.4
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+.+|..+.-.++.|+ |+...||+|||++..+|++-..+. +.++-+++|+-.||.+-+.++..+..++
T Consensus 75 lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~-----G~~VhvvT~NdyLA~RDae~m~~ly~~L 146 (764)
T PRK12326 75 LGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQ-----GRRVHVITVNDYLARRDAEWMGPLYEAL 146 (764)
T ss_pred cCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHc-----CCCeEEEcCCHHHHHHHHHHHHHHHHhc
Confidence 677 89999999998888874 678999999999999999876654 5578889999999999999999999997
Q ss_pred CCCCc
Q psy12984 166 QPPTV 170 (178)
Q Consensus 166 ~~~~~ 170 (178)
|..++
T Consensus 147 GLsvg 151 (764)
T PRK12326 147 GLTVG 151 (764)
T ss_pred CCEEE
Confidence 76544
No 107
>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=97.97 E-value=3.8e-05 Score=63.49 Aligned_cols=73 Identities=22% Similarity=0.196 Sum_probs=57.1
Q ss_pred CcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 91 MTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 91 pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+|+-|..+|.. ...+++|.|..|||||.+.+--++..+.... .+..+.+++++|+..|..+...+...+....
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~-~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~ 73 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGG-VPPERILVLTFTNAAAQEMRERIRELLEEEQ 73 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSS-STGGGEEEEESSHHHHHHHHHHHHHHHHHCC
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhcccc-CChHHheecccCHHHHHHHHHHHHHhcCccc
Confidence 46789898876 6778999999999999998877777776543 4445788999999999999999998876653
No 108
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.91 E-value=2.7e-05 Score=73.07 Aligned_cols=65 Identities=12% Similarity=0.040 Sum_probs=52.1
Q ss_pred CCcHHHHHhhcccc-CC--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLL-EG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l-~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.+.|.|..|+..++ .| +..+++.|||+|||+..+..+ ..+ ...++||||+..|+.|....|..+.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa-~~l-------~k~tLILvps~~Lv~QW~~ef~~~~ 322 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAA-CTV-------KKSCLVLCTSAVSVEQWKQQFKMWS 322 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHH-HHh-------CCCEEEEeCcHHHHHHHHHHHHHhc
Confidence 57889999998876 34 467889999999999976433 333 2368999999999999999998874
No 109
>PF13245 AAA_19: Part of AAA domain
Probab=97.89 E-value=4.4e-05 Score=51.95 Aligned_cols=52 Identities=15% Similarity=0.028 Sum_probs=37.9
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA 158 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~ 158 (178)
.-+++.++.|||||...+--+...+...... ..++++++||+..+..+.+.+
T Consensus 11 ~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~-~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 11 PLFVVQGPPGTGKTTTLAARIAELLAARADP-GKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHhcCC-CCeEEEECCCHHHHHHHHHHH
Confidence 3355599999999976655555544332223 568899999999999888877
No 110
>KOG0948|consensus
Probab=97.87 E-value=2.4e-05 Score=72.88 Aligned_cols=75 Identities=20% Similarity=0.234 Sum_probs=64.6
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCC
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPT 169 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~ 169 (178)
.+-|+|..||..+-.+..|+|+|.|.+|||.+.-+.|...+.. .-+++|-+|.++|.+|-|+.+..=++..|+-+
T Consensus 129 ~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~-----kQRVIYTSPIKALSNQKYREl~~EF~DVGLMT 203 (1041)
T KOG0948|consen 129 TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE-----KQRVIYTSPIKALSNQKYRELLEEFKDVGLMT 203 (1041)
T ss_pred ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh-----cCeEEeeChhhhhcchhHHHHHHHhcccceee
Confidence 4567999999999999999999999999999988888877754 33888999999999999999988877776643
No 111
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.86 E-value=3.6e-05 Score=68.86 Aligned_cols=70 Identities=14% Similarity=0.008 Sum_probs=54.2
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
.|...|......++. +|++|+.|||-|||...++-+...+.. .++ .+++++||+.|+.|....|.++++-
T Consensus 15 e~R~YQ~~i~a~al~-~NtLvvlPTGLGKT~IA~~V~~~~l~~---~~~-kvlfLAPTKPLV~Qh~~~~~~v~~i 84 (542)
T COG1111 15 EPRLYQLNIAAKALF-KNTLVVLPTGLGKTFIAAMVIANRLRW---FGG-KVLFLAPTKPLVLQHAEFCRKVTGI 84 (542)
T ss_pred cHHHHHHHHHHHHhh-cCeEEEecCCccHHHHHHHHHHHHHHh---cCC-eEEEecCCchHHHHHHHHHHHHhCC
Confidence 444555554444453 499999999999999998888877755 444 7899999999999999988877644
No 112
>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=97.81 E-value=3.4e-05 Score=71.94 Aligned_cols=70 Identities=20% Similarity=0.179 Sum_probs=53.2
Q ss_pred CcHHHHHhhcccc----C------CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 91 MTEIQARTIPPLL----E------GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 91 pt~iQ~~aip~~l----~------g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
|..+|..|+..+. . .+..++..+||||||+..+.-+...+ . .....++++|+|.++|..|....|..
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~-~--~~~~~~vl~lvdR~~L~~Q~~~~f~~ 315 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL-E--LLKNPKVFFVVDRRELDYQLMKEFQS 315 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH-h--hcCCCeEEEEECcHHHHHHHHHHHHh
Confidence 5668999887652 2 25788999999999998665554433 2 13455888999999999999999998
Q ss_pred Hhh
Q psy12984 161 VFK 163 (178)
Q Consensus 161 l~~ 163 (178)
+..
T Consensus 316 ~~~ 318 (667)
T TIGR00348 316 LQK 318 (667)
T ss_pred hCC
Confidence 763
No 113
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.81 E-value=7.4e-05 Score=71.24 Aligned_cols=78 Identities=19% Similarity=0.095 Sum_probs=63.7
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
+|. +|+++|...=-++..| -|+...||+|||++..+|++-..+. +.++-+++|+-.||.+-+..|..+..++
T Consensus 79 lGm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al~-----G~~VhvvT~ndyLA~RD~e~m~~l~~~l 150 (913)
T PRK13103 79 MGM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNALS-----GKGVHVVTVNDYLARRDANWMRPLYEFL 150 (913)
T ss_pred hCC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHHc-----CCCEEEEeCCHHHHHHHHHHHHHHhccc
Confidence 575 8999998765555555 4678999999999999999876654 5578889999999999999999999988
Q ss_pred CCCCcc
Q psy12984 166 QPPTVI 171 (178)
Q Consensus 166 ~~~~~~ 171 (178)
|..+++
T Consensus 151 Gl~v~~ 156 (913)
T PRK13103 151 GLSVGI 156 (913)
T ss_pred CCEEEE
Confidence 766543
No 114
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.78 E-value=9.8e-05 Score=70.12 Aligned_cols=78 Identities=18% Similarity=0.120 Sum_probs=64.1
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|..+--++.. .-|+...||.|||+++.+|+.-..+ .+.++-+++++..||.+-+.++..+.+++
T Consensus 73 lG~-r~ydvQlig~l~L~~--G~IaEm~TGEGKTL~a~l~ayl~aL-----~G~~VhVvT~NdyLA~RD~e~m~pvy~~L 144 (870)
T CHL00122 73 LGL-RHFDVQLIGGLVLND--GKIAEMKTGEGKTLVATLPAYLNAL-----TGKGVHIVTVNDYLAKRDQEWMGQIYRFL 144 (870)
T ss_pred hCC-CCCchHhhhhHhhcC--CccccccCCCCchHHHHHHHHHHHh-----cCCceEEEeCCHHHHHHHHHHHHHHHHHc
Confidence 677 799999887644544 4678999999999999999964333 35577889999999999999999999999
Q ss_pred CCCCcc
Q psy12984 166 QPPTVI 171 (178)
Q Consensus 166 ~~~~~~ 171 (178)
|..+++
T Consensus 145 GLsvg~ 150 (870)
T CHL00122 145 GLTVGL 150 (870)
T ss_pred CCceee
Confidence 987664
No 115
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.68 E-value=0.00011 Score=69.25 Aligned_cols=78 Identities=23% Similarity=0.183 Sum_probs=62.5
Q ss_pred CcHHHHHhhccccCC---C-cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 91 MTEIQARTIPPLLEG---R-DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 91 pt~iQ~~aip~~l~g---~-dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+++.|..++..++.+ . .+++.||||.|||.+.+++++..+.... ....+.+++.|+|.+..++++.+....+..+
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~-~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~ 274 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKI-KLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccc-cccceEEEEccHHHHHHHHHHHHHhhhcccc
Confidence 377888888766532 4 7889999999999999999998887632 2556888899999999999999998877665
Q ss_pred CCC
Q psy12984 167 PPT 169 (178)
Q Consensus 167 ~~~ 169 (178)
...
T Consensus 275 ~~~ 277 (733)
T COG1203 275 VIG 277 (733)
T ss_pred ccc
Confidence 543
No 116
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.66 E-value=0.00024 Score=55.93 Aligned_cols=69 Identities=12% Similarity=0.072 Sum_probs=48.5
Q ss_pred CcHHHHHhhccccCCCc-EEEEccCCCchhhHhHHHHHHHHHh----ccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 91 MTEIQARTIPPLLEGRD-LVGSAKTGSGKTLAFLVPAVELIYN----LKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 91 pt~iQ~~aip~~l~g~d-vi~~a~TGsGKTlaf~lp~l~~l~~----~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
+.+-|..|+..++...+ .+|.+|+|||||..-. -++..+.. .........++++|+..-+..+...+..
T Consensus 2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 56789999999998888 9999999999995433 34444421 1124555778899999988888887776
No 117
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=97.62 E-value=0.00044 Score=57.82 Aligned_cols=80 Identities=21% Similarity=0.167 Sum_probs=61.5
Q ss_pred HCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 85 DMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 85 ~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
..|+ .|+++|..++=++..|+ |+.-.||-|||++..+|++-..+. +..+=+++....||..=+..+..+...
T Consensus 73 ~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~-----G~~V~vvT~NdyLA~RD~~~~~~~y~~ 144 (266)
T PF07517_consen 73 TLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQ-----GKGVHVVTSNDYLAKRDAEEMRPFYEF 144 (266)
T ss_dssp HTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTT-----SS-EEEEESSHHHHHHHHHHHHHHHHH
T ss_pred HcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHh-----cCCcEEEeccHHHhhccHHHHHHHHHH
Confidence 3566 89999999997777777 889999999999988888766654 446677899999999999999999999
Q ss_pred cCCCCcce
Q psy12984 165 TQPPTVIK 172 (178)
Q Consensus 165 ~~~~~~~~ 172 (178)
+|..+++.
T Consensus 145 LGlsv~~~ 152 (266)
T PF07517_consen 145 LGLSVGII 152 (266)
T ss_dssp TT--EEEE
T ss_pred hhhccccC
Confidence 98876654
No 118
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.28 E-value=0.00028 Score=63.84 Aligned_cols=65 Identities=25% Similarity=0.269 Sum_probs=49.3
Q ss_pred CCcHHHHHhhccccCC-----CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLEG-----RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g-----~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|+.-|-.||..+..| ++-...+-||||||.... -+|..+. + -+++|+|.+-||-|+|..|+.++
T Consensus 12 ~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~A-nVI~~~~------r-PtLV~AhNKTLAaQLy~Efk~fF 81 (663)
T COG0556 12 KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMA-NVIAKVQ------R-PTLVLAHNKTLAAQLYSEFKEFF 81 (663)
T ss_pred CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHH-HHHHHhC------C-CeEEEecchhHHHHHHHHHHHhC
Confidence 6777888888766543 567778999999998754 2333232 2 45899999999999999999886
No 119
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.28 E-value=0.0014 Score=62.78 Aligned_cols=78 Identities=21% Similarity=0.125 Sum_probs=64.9
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+++|...--++..| -|+...||-||||+..+|+.-..+. +.++-+++++..||..-..++..+.+++
T Consensus 82 lG~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL~-----GkgVhVVTvNdYLA~RDae~m~~vy~~L 153 (939)
T PRK12902 82 LGM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNALT-----GKGVHVVTVNDYLARRDAEWMGQVHRFL 153 (939)
T ss_pred hCC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhhc-----CCCeEEEeCCHHHHHhHHHHHHHHHHHh
Confidence 577 8999998766556555 4689999999999999998765543 4577889999999999999999999999
Q ss_pred CCCCcc
Q psy12984 166 QPPTVI 171 (178)
Q Consensus 166 ~~~~~~ 171 (178)
|..+++
T Consensus 154 GLtvg~ 159 (939)
T PRK12902 154 GLSVGL 159 (939)
T ss_pred CCeEEE
Confidence 887664
No 120
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.23 E-value=0.00067 Score=63.83 Aligned_cols=69 Identities=17% Similarity=0.136 Sum_probs=55.4
Q ss_pred CCcHHHHHhhccccCC----CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 90 KMTEIQARTIPPLLEG----RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g----~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.+++-|..|+..+... .-.++.+.||||||-+|+--+-..|.. +.++++|+|-.+|..|+...|...++
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~-----GkqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ-----GKQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHc-----CCEEEEEeccccchHHHHHHHHHHhC
Confidence 5567888888877544 678999999999999997555555533 45899999999999999999887665
No 121
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.96 E-value=0.0024 Score=50.67 Aligned_cols=63 Identities=16% Similarity=0.104 Sum_probs=43.2
Q ss_pred CCcHHHHHhhccccCC--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
++++-|..++..++.. +-++++++.|+|||.+. -.+...+.. .+..+++++||..-+..+...
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~----~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEA----AGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHH----TT--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHh----CCCeEEEECCcHHHHHHHHHh
Confidence 3678899999988644 34778899999999753 334444443 245788899998887776655
No 122
>KOG0951|consensus
Probab=96.94 E-value=0.0012 Score=64.67 Aligned_cols=69 Identities=19% Similarity=0.236 Sum_probs=54.6
Q ss_pred CCCCcHHHHHhhccccC-CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 88 FTKMTEIQARTIPPLLE-GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 88 ~~~pt~iQ~~aip~~l~-g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
|....|+|...++.+.. ..+|+++||+|||||.+..+.++. ..+..++++|.|.-+.+.-++..+.+-+
T Consensus 1141 f~~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~------~~~~~~~vyi~p~~~i~~~~~~~w~~~f 1210 (1674)
T KOG0951|consen 1141 FQDFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR------PDTIGRAVYIAPLEEIADEQYRDWEKKF 1210 (1674)
T ss_pred ccccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC------CccceEEEEecchHHHHHHHHHHHHHhh
Confidence 33447899999998764 578999999999999998888866 2556689999999999987776654433
No 123
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.81 E-value=0.011 Score=55.62 Aligned_cols=72 Identities=18% Similarity=0.057 Sum_probs=53.9
Q ss_pred CCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 89 TKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 89 ~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
..+++-|+.|+-. ...+++|.|..|||||.+.+--+...+.... ....+.++++.||..|..+...+...++
T Consensus 195 ~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~-~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 195 SPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQ-AQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred CCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCC-CCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 4689999998843 3356889999999999987665555454322 3345888999999999999988877654
No 124
>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=96.80 E-value=0.0028 Score=48.47 Aligned_cols=54 Identities=20% Similarity=0.132 Sum_probs=38.1
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.|.--++-..+|+|||--.+--++..... .+.++|+|.|||.+|..++..++..
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~----~~~rvLvL~PTRvva~em~~aL~~~ 56 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIK----RRLRVLVLAPTRVVAEEMYEALKGL 56 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHH----TT--EEEEESSHHHHHHHHHHTTTS
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHH----ccCeEEEecccHHHHHHHHHHHhcC
Confidence 35555678899999999876655554443 3668999999999999999887643
No 125
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=96.79 E-value=0.0049 Score=60.20 Aligned_cols=85 Identities=15% Similarity=0.084 Sum_probs=65.9
Q ss_pred HHHHHHHHH-CCCCCCcHHHHHhhccccC----C--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH
Q psy12984 77 ENTLKAIAD-MGFTKMTEIQARTIPPLLE----G--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP 149 (178)
Q Consensus 77 ~~ll~~l~~-~g~~~pt~iQ~~aip~~l~----g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~ 149 (178)
.+....+.+ .+| ..|+-|..||..+.. + +|=++|+--|-|||-..+=.+.-.+. .+.++.++|||--
T Consensus 581 ~~~q~~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~-----~GKQVAvLVPTTl 654 (1139)
T COG1197 581 TEWQEEFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM-----DGKQVAVLVPTTL 654 (1139)
T ss_pred hHHHHHHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc-----CCCeEEEEcccHH
Confidence 334444433 566 679999999998753 3 68899999999999988777766664 3568999999999
Q ss_pred HHHHHHHHHHHHhhhcCC
Q psy12984 150 LTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 150 La~qi~~~~~~l~~~~~~ 167 (178)
||+|=|+.|+.=+++++-
T Consensus 655 LA~QHy~tFkeRF~~fPV 672 (1139)
T COG1197 655 LAQQHYETFKERFAGFPV 672 (1139)
T ss_pred hHHHHHHHHHHHhcCCCe
Confidence 999999999976655443
No 126
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.76 E-value=0.0065 Score=56.89 Aligned_cols=71 Identities=13% Similarity=0.009 Sum_probs=54.1
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.+++-|+.|+-.. ...++|.|..|||||.+...-+...+.... .+..+.++|+-|+.-|..+...+..+++
T Consensus 2 ~Ln~~Q~~av~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~-v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCG-YQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcC-CCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 4678899988542 456788899999999997776666664322 3344788999999999999988887764
No 127
>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=96.59 E-value=0.0031 Score=50.87 Aligned_cols=57 Identities=21% Similarity=0.176 Sum_probs=39.3
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP 149 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~ 149 (178)
..|+-|..++.+++...-+++.++.|||||+..+.-.++.+.. ....+.++.-|+-+
T Consensus 4 p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~---g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 4 PKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKE---GEYDKIIITRPPVE 60 (205)
T ss_dssp --SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHT---TS-SEEEEEE-S--
T ss_pred CCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHh---CCCcEEEEEecCCC
Confidence 4578999999999988889999999999999999999988876 33335455555443
No 128
>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=96.58 E-value=0.008 Score=49.35 Aligned_cols=59 Identities=14% Similarity=-0.047 Sum_probs=35.6
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhc-cCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNL-KFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~-~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
...+.+|++-..|+|||+..+.-+. .+... +......++|++|. .|..|....+..++.
T Consensus 23 ~~~~g~lL~de~GlGKT~~~i~~~~-~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~ 82 (299)
T PF00176_consen 23 SPPRGGLLADEMGLGKTITAIALIS-YLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFD 82 (299)
T ss_dssp TTT-EEEE---TTSSHHHHHHHHHH-HHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSG
T ss_pred cCCCCEEEEECCCCCchhhhhhhhh-hhhhccccccccceeEeecc-chhhhhhhhhccccc
Confidence 4457899999999999987654443 33332 21222358999999 777788888877774
No 129
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.56 E-value=0.0053 Score=57.41 Aligned_cols=65 Identities=22% Similarity=0.243 Sum_probs=50.4
Q ss_pred CCcHHHHHhhccccCC-----CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLEG-----RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g-----~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|+..|..+|..+..| ++.++.+-||||||+...- ++..+ + ..+++|+|.+.+|.|+|..|+.++
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~-~~~~~------~-~p~Lvi~~n~~~A~ql~~el~~f~ 78 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMAN-VIAQV------N-RPTLVIAHNKTLAAQLYNEFKEFF 78 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHH-HHHHh------C-CCEEEEECCHHHHHHHHHHHHHhC
Confidence 7888999999876443 3667899999999987542 33322 1 246899999999999999998886
No 130
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.54 E-value=0.011 Score=55.68 Aligned_cols=72 Identities=11% Similarity=-0.014 Sum_probs=55.3
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
.+++-|+.|+-.. ...++|.|..|||||.+...=+...+... ..+..+.++|+-|+.-|..+...+..+++.
T Consensus 9 ~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~-~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~ 80 (721)
T PRK11773 9 SLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVE-NASPYSIMAVTFTNKAAAEMRHRIEQLLGT 80 (721)
T ss_pred hcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcC-CCChhHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 5889999988533 35788999999999998766666555332 234457889999999999999999888764
No 131
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.50 E-value=0.014 Score=54.19 Aligned_cols=71 Identities=14% Similarity=-0.001 Sum_probs=53.7
Q ss_pred CcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 91 MTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 91 pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
+++-|..++-. .+.+++|.|..|||||.+.+--+...+.... .+....++++.|+.-|.++...+...++.
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~-~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~ 72 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCG-YKARNIAAVTFTNKAAREMKERVAKTLGK 72 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcC-CCHHHeEEEeccHHHHHHHHHHHHHHhCc
Confidence 57889888743 3458999999999999988777776664322 23347788899999999999888776653
No 132
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.48 E-value=0.012 Score=55.32 Aligned_cols=73 Identities=12% Similarity=0.006 Sum_probs=55.8
Q ss_pred CCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 89 TKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 89 ~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
..+++-|+.|+-. ....++|.|..|||||.+...=+...+... ..+..+.++++-|+.-|..+...+..+++.
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~-~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~ 75 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVE-NASPHSIMAVTFTNKAAAEMRHRIGALLGT 75 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcC-CCCHHHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 3578999998854 345789999999999998766665555432 234457888999999999999998888764
No 133
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=96.44 E-value=0.014 Score=56.00 Aligned_cols=80 Identities=21% Similarity=0.101 Sum_probs=65.1
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
+|. +|+++|...--++..|+ |+...||-||||+..+|+.-..+. +.++=+++..--||.-=..++..+..++
T Consensus 75 lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~-----GkgVhVVTvNdYLA~RDae~mg~vy~fL 146 (925)
T PRK12903 75 LGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALT-----GKGVIVSTVNEYLAERDAEEMGKVFNFL 146 (925)
T ss_pred hCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhc-----CCceEEEecchhhhhhhHHHHHHHHHHh
Confidence 577 89999998876667674 689999999999999998644433 4466678888999999999999999999
Q ss_pred CCCCcceE
Q psy12984 166 QPPTVIKV 173 (178)
Q Consensus 166 ~~~~~~~v 173 (178)
|..+++.+
T Consensus 147 GLsvG~i~ 154 (925)
T PRK12903 147 GLSVGINK 154 (925)
T ss_pred CCceeeeC
Confidence 99877544
No 134
>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=96.36 E-value=0.014 Score=58.14 Aligned_cols=69 Identities=17% Similarity=0.111 Sum_probs=54.8
Q ss_pred CcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 91 MTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 91 pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.|+-|..||- ..|.+++|.|..|||||.+.+--++..+... ....+.++++=|++-|..+...+..-+.
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~--~~~~~il~~tFt~~aa~e~~~ri~~~l~ 70 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRG--VDIDRLLVVTFTNAAAREMKERIEEALQ 70 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcC--CCHhhEEEEeccHHHHHHHHHHHHHHHH
Confidence 5889999995 4689999999999999999888888877653 2224678899999999887777665443
No 135
>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=96.36 E-value=0.013 Score=54.64 Aligned_cols=65 Identities=12% Similarity=0.042 Sum_probs=47.8
Q ss_pred CcHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 91 MTEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 91 pt~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
+.+.|..|+..++.. ..+++.+|+|||||....--+.+.+.. +.++++++||..=+.++...+..
T Consensus 158 ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~-----g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 158 LNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKR-----GLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHc-----CCCEEEEcCcHHHHHHHHHHHHh
Confidence 477999999888766 678899999999997554333333322 33788899998888777776654
No 136
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.29 E-value=0.0078 Score=59.91 Aligned_cols=56 Identities=20% Similarity=0.169 Sum_probs=35.5
Q ss_pred ccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe-e----cHHHHHHHHHHHHH
Q psy12984 100 PPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG-K----LRPLTNGVYLVACN 160 (178)
Q Consensus 100 p~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~-P----tr~La~qi~~~~~~ 160 (178)
..+..+..++++|+||||||. .+|.+-.... ... .+.++++ | +++||.+|...+..
T Consensus 84 ~ai~~~~VviI~GeTGSGKTT--qlPq~lle~g--~g~-~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 84 EAIRDHQVVIVAGETGSGKTT--QLPKICLELG--RGV-KGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHhCCeEEEECCCCCCHHH--HHHHHHHHcC--CCC-CCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 344456678889999999999 5785432221 111 1122221 3 68999999998875
No 137
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.22 E-value=0.016 Score=56.28 Aligned_cols=51 Identities=16% Similarity=0.021 Sum_probs=41.2
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
.++.+..+||||||.+|+--++..... ......+++||+.+.-..++.-+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~---~~~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQK---YGLFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHH---cCCcEEEEEeCCHHHHHHHHHHhh
Confidence 589999999999999998887775544 345678899999998888876655
No 138
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.15 E-value=0.014 Score=50.04 Aligned_cols=48 Identities=27% Similarity=0.391 Sum_probs=32.6
Q ss_pred HHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 80 LKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 80 l~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+..|...|+ +++.|...+.. +..+.+++++++|||||| .++-.++..+
T Consensus 124 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 124 LDQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 344555565 34566666654 457789999999999999 4555555544
No 139
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=96.10 E-value=0.027 Score=53.12 Aligned_cols=72 Identities=14% Similarity=0.016 Sum_probs=55.3
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
.+++-|..|+-.. ..+++|.|..|||||.+...=+...+.... ....+.++++-|+.-|..+...+..+++.
T Consensus 4 ~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~-i~P~~IL~lTFT~kAA~em~~Rl~~~~~~ 75 (726)
T TIGR01073 4 HLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKN-VAPWNILAITFTNKAAREMKERVEKLLGP 75 (726)
T ss_pred ccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCC-CCHHHeeeeeccHHHHHHHHHHHHHHhcc
Confidence 5789999988543 457899999999999988777766664322 23347788999999999999888877653
No 140
>KOG0949|consensus
Probab=96.07 E-value=0.016 Score=56.01 Aligned_cols=70 Identities=20% Similarity=0.120 Sum_probs=52.8
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|-..|.+.+-.+-.+...++.|||-+|||.+ .+-+++...+. ....-+++.+||++|.+|+...+....
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfi-sfY~iEKVLRe--sD~~VVIyvaPtKaLVnQvsa~VyaRF 580 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFI-SFYAIEKVLRE--SDSDVVIYVAPTKALVNQVSANVYARF 580 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceec-cHHHHHHHHhh--cCCCEEEEecchHHHhhhhhHHHHHhh
Confidence 46678888888888889999999999999986 23455655553 223355678999999999987766554
No 141
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.62 E-value=0.027 Score=52.70 Aligned_cols=67 Identities=22% Similarity=0.272 Sum_probs=51.6
Q ss_pred CCCCCcHHHHHhhccccCC-----CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 87 GFTKMTEIQARTIPPLLEG-----RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 87 g~~~pt~iQ~~aip~~l~g-----~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.| .|++.|..+|..+..+ +..++.+.+|||||+... .++... ....++|+|+..+|.|++..+..+
T Consensus 10 ~~-~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia-~l~~~~-------~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 10 PY-KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA-NVIARL-------QRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CC-CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH-HHHHHh-------CCCEEEEECCHHHHHHHHHHHHHh
Confidence 45 7999999999877533 256789999999998754 233221 225799999999999999999887
Q ss_pred h
Q psy12984 162 F 162 (178)
Q Consensus 162 ~ 162 (178)
+
T Consensus 81 ~ 81 (652)
T PRK05298 81 F 81 (652)
T ss_pred c
Confidence 6
No 142
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.62 E-value=0.044 Score=53.39 Aligned_cols=67 Identities=9% Similarity=-0.058 Sum_probs=50.2
Q ss_pred CCcHHHHHhhccccC--CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLE--GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~--g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.|.|+|..+.-.++. ...+|++-..|-|||+-..+-+-..+.. ....+++|+||. .|..|....+.+
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~---g~~~rvLIVvP~-sL~~QW~~El~~ 220 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLT---GRAERVLILVPE-TLQHQWLVEMLR 220 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHc---CCCCcEEEEcCH-HHHHHHHHHHHH
Confidence 599999998766543 3468889999999999876665554444 233478999997 899888877754
No 143
>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=95.43 E-value=0.012 Score=51.10 Aligned_cols=48 Identities=15% Similarity=-0.008 Sum_probs=36.2
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
++++.|+||||||.+|++|-+-. ....+++.-|--+|........+.+
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~-------~~~s~vv~D~Kge~~~~t~~~r~~~ 48 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT-------WPGSVVVLDPKGENFELTSEHRRAL 48 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc-------CCCCEEEEccchhHHHHHHHHHHHc
Confidence 57899999999999999987642 1246677788888887766555543
No 144
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.32 E-value=0.024 Score=53.83 Aligned_cols=70 Identities=14% Similarity=0.155 Sum_probs=54.2
Q ss_pred CCcHHHHHhhccc----cCC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPL----LEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~----l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.|...|..||..+ -.| +-+|+...||+|||-.. +.++.+|.+.... .++|.|+-.++|..|.+..+..+.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTA-iaii~rL~r~~~~--KRVLFLaDR~~Lv~QA~~af~~~~ 239 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTA-IAIIDRLIKSGWV--KRVLFLADRNALVDQAYGAFEDFL 239 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeH-HHHHHHHHhcchh--heeeEEechHHHHHHHHHHHHHhC
Confidence 4666888888754 344 45899999999999875 4677777765433 388999999999999998887765
No 145
>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=95.26 E-value=0.02 Score=50.96 Aligned_cols=49 Identities=22% Similarity=0.209 Sum_probs=36.9
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.++++.|+||||||.+|++|.|- . .++ .+++.-|-.||.......+++.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll---~---~~~-s~iV~D~KgEl~~~t~~~r~~~ 93 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL---N---YPG-SMIVTDPKGELYEKTAGYRKKR 93 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH---h---ccC-CEEEEECCCcHHHHHHHHHHHC
Confidence 47999999999999999999762 2 122 6677788888887766655543
No 146
>PRK10536 hypothetical protein; Provisional
Probab=95.25 E-value=0.039 Score=46.12 Aligned_cols=46 Identities=20% Similarity=0.224 Sum_probs=37.3
Q ss_pred CCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 87 GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 87 g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
++.--+..|...+-++..+.-+++.+++|||||+..+.-.++.+..
T Consensus 56 ~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 56 PILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred cccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4555577888888888888889999999999999877777766644
No 147
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=95.12 E-value=0.05 Score=51.96 Aligned_cols=57 Identities=19% Similarity=0.108 Sum_probs=40.9
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
-++=|...||+|||.+|+--+.+.-. +-.....+++||+.+.-..++..+...-..|
T Consensus 75 lNiDI~METGTGKTy~YlrtmfeLhk---~YG~~KFIivVPs~AIkeGv~~~s~~~~ehF 131 (985)
T COG3587 75 LNIDILMETGTGKTYTYLRTMFELHK---KYGLFKFIIVVPSLAIKEGVFLTSKETTEHF 131 (985)
T ss_pred ceeeEEEecCCCceeeHHHHHHHHHH---HhCceeEEEEeccHHHHhhhHHHHHHHHHHH
Confidence 46667899999999999866655222 2344577889999998777776666655555
No 148
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=94.86 E-value=0.031 Score=51.95 Aligned_cols=49 Identities=16% Similarity=0.059 Sum_probs=38.5
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.++++.||||||||.+|++|-|-.. ...++++-|--||........+++
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~-------~~S~VV~DpKGEl~~~Ta~~R~~~ 207 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW-------EDSVVVHDIKLENYELTSGWREKQ 207 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC-------CCCEEEEeCcHHHHHHHHHHHHHC
Confidence 5899999999999999999987532 236677788888887777665553
No 149
>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=94.79 E-value=0.12 Score=51.68 Aligned_cols=43 Identities=23% Similarity=0.421 Sum_probs=28.4
Q ss_pred HHCCCCCCcHHHH--Hhhc-cccCCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 84 ADMGFTKMTEIQA--RTIP-PLLEGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 84 ~~~g~~~pt~iQ~--~aip-~~l~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
....|....||.. ..|. .+..+..+|++|+||||||. .+|.+-
T Consensus 58 ~~~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~l 103 (1283)
T TIGR01967 58 PEIRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTT--QLPKIC 103 (1283)
T ss_pred ccccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHH--HHHHHH
Confidence 3456666666654 2333 34455678899999999999 567654
No 150
>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=94.77 E-value=0.1 Score=44.23 Aligned_cols=48 Identities=27% Similarity=0.352 Sum_probs=29.3
Q ss_pred HHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 80 LKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 80 l~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+..|...|. .++-|...+.. +..+.+++++++||||||... -.++..+
T Consensus 108 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i 156 (299)
T TIGR02782 108 LDDYVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEI 156 (299)
T ss_pred HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHh
Confidence 334444454 33444444443 456789999999999999753 3344444
No 151
>KOG4150|consensus
Probab=94.77 E-value=0.018 Score=53.04 Aligned_cols=72 Identities=10% Similarity=-0.095 Sum_probs=59.0
Q ss_pred HHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHH
Q psy12984 84 ADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA 158 (178)
Q Consensus 84 ~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~ 158 (178)
..+.-.....||..+|..+-.|+++++...|.+||.++|.+..+..+.. .+....+++.||.+|+++..+.+
T Consensus 280 ~~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~---~~~s~~~~~~~~~~~~~~~~~~~ 351 (1034)
T KOG4150|consen 280 NKNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTL---CHATNSLLPSEMVEHLRNGSKGQ 351 (1034)
T ss_pred hcccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhc---CcccceecchhHHHHhhccCCce
Confidence 4455666778999999999999999999999999999999988886655 34446688999999998765543
No 152
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=94.71 E-value=0.2 Score=41.09 Aligned_cols=83 Identities=16% Similarity=0.132 Sum_probs=56.6
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhcccc---CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLL---EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLT 151 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l---~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La 151 (178)
-+.+++=-+ +.++ -..+.|......+. .|.|.+.+...|.|||-+- +|++..+... .. +.+.++=.++|.
T Consensus 10 ~P~wLl~E~-e~~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAd---g~-~LvrviVpk~Ll 82 (229)
T PF12340_consen 10 YPDWLLFEI-ESNI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVI-VPMLALALAD---GS-RLVRVIVPKALL 82 (229)
T ss_pred ChHHHHHHH-HcCc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchH-HHHHHHHHcC---CC-cEEEEEcCHHHH
Confidence 344444333 2344 67788887776665 4689999999999999875 5888877652 22 333343348899
Q ss_pred HHHHHHHHHHhhh
Q psy12984 152 NGVYLVACNVFKS 164 (178)
Q Consensus 152 ~qi~~~~~~l~~~ 164 (178)
.|.+..++.-+++
T Consensus 83 ~q~~~~L~~~lg~ 95 (229)
T PF12340_consen 83 EQMRQMLRSRLGG 95 (229)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998876654
No 153
>KOG1803|consensus
Probab=94.71 E-value=0.077 Score=48.98 Aligned_cols=62 Identities=13% Similarity=0.156 Sum_probs=46.5
Q ss_pred CcHHHHHhhccccCCCc-EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 91 MTEIQARTIPPLLEGRD-LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 91 pt~iQ~~aip~~l~g~d-vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
.-+-|..|+..+.+.++ .++.+|+|+|||.....-|.+.+.+ ..++++.+||.+=..-+.+.
T Consensus 186 ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~-----~k~VLVcaPSn~AVdNiver 248 (649)
T KOG1803|consen 186 LNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQ-----KKRVLVCAPSNVAVDNIVER 248 (649)
T ss_pred ccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHc-----CCeEEEEcCchHHHHHHHHH
Confidence 45688899988887755 5778999999999887766666654 35888999998755555553
No 154
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=94.69 E-value=0.054 Score=47.13 Aligned_cols=69 Identities=19% Similarity=0.151 Sum_probs=52.3
Q ss_pred CCcHHHHHhhccc----cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 90 KMTEIQARTIPPL----LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 90 ~pt~iQ~~aip~~----l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.+|+.|+.+-..+ ....|.|+.|-||+|||-- +++.++...+ .+.++++.+|--..+..+|..++.-+.
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~----~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALN----QGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHh----cCCeEEEecCcccchHHHHHHHHHhhc
Confidence 5788888776554 3568999999999999985 4567776664 455667778988888888888877654
No 155
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=94.68 E-value=0.086 Score=45.34 Aligned_cols=45 Identities=33% Similarity=0.287 Sum_probs=29.6
Q ss_pred HHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 83 IADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 83 l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+...|. .++.|...|-. +..+.+++++++||||||... -.++..+
T Consensus 123 lv~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i 168 (323)
T PRK13833 123 YVTSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEI 168 (323)
T ss_pred HHHcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence 445554 44566655543 456789999999999999753 3444444
No 156
>COG4889 Predicted helicase [General function prediction only]
Probab=94.59 E-value=0.049 Score=52.58 Aligned_cols=74 Identities=19% Similarity=0.049 Sum_probs=52.2
Q ss_pred HHHHHHHHCCCCCCcHHHHHhhccccCC-----CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHH
Q psy12984 78 NTLKAIADMGFTKMTEIQARTIPPLLEG-----RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152 (178)
Q Consensus 78 ~ll~~l~~~g~~~pt~iQ~~aip~~l~g-----~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~ 152 (178)
++..+|.-+.-..|.|+|+.||.+++.| |.=++-| .|+|||..-+ -+.+.+.. .+.++|+|...|-.
T Consensus 149 e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsL-kisEala~------~~iL~LvPSIsLLs 220 (1518)
T COG4889 149 ELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSL-KISEALAA------ARILFLVPSISLLS 220 (1518)
T ss_pred ccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHH-HHHHHHhh------hheEeecchHHHHH
Confidence 4555555556678999999999988755 3334333 4999998753 44444432 47899999999999
Q ss_pred HHHHHHH
Q psy12984 153 GVYLVAC 159 (178)
Q Consensus 153 qi~~~~~ 159 (178)
|..+...
T Consensus 221 QTlrew~ 227 (1518)
T COG4889 221 QTLREWT 227 (1518)
T ss_pred HHHHHHh
Confidence 8876644
No 157
>KOG0950|consensus
Probab=94.56 E-value=0.073 Score=51.30 Aligned_cols=88 Identities=19% Similarity=0.147 Sum_probs=60.0
Q ss_pred CCHHHHHH-HHHCCCCCCcHHHHHhh--ccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHH
Q psy12984 75 VCENTLKA-IADMGFTKMTEIQARTI--PPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLT 151 (178)
Q Consensus 75 l~~~ll~~-l~~~g~~~pt~iQ~~ai--p~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La 151 (178)
+++.+... ....|....+..|..|+ |.++.++++|-.+||+.|||++.-+=++..+...+ ..++.+.|--+.+
T Consensus 207 ~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~r----r~~llilp~vsiv 282 (1008)
T KOG0950|consen 207 LPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRR----RNVLLILPYVSIV 282 (1008)
T ss_pred CchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHh----hceeEecceeehh
Confidence 55555444 45579999999999988 56889999999999999999998888877766532 2334455544444
Q ss_pred HHHHHHHHHHhhhcC
Q psy12984 152 NGVYLVACNVFKSTQ 166 (178)
Q Consensus 152 ~qi~~~~~~l~~~~~ 166 (178)
+.-...+..+...+|
T Consensus 283 ~Ek~~~l~~~~~~~G 297 (1008)
T KOG0950|consen 283 QEKISALSPFSIDLG 297 (1008)
T ss_pred HHHHhhhhhhccccC
Confidence 444444444443333
No 158
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=94.47 E-value=0.045 Score=47.40 Aligned_cols=36 Identities=31% Similarity=0.320 Sum_probs=30.3
Q ss_pred CCCCCCcHHHHHhhccccCCC-cEEEEccCCCchhhH
Q psy12984 86 MGFTKMTEIQARTIPPLLEGR-DLVGSAKTGSGKTLA 121 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~-dvi~~a~TGsGKTla 121 (178)
..|...++-|...+-.+..++ ++++++.||||||..
T Consensus 153 i~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl 189 (355)
T COG4962 153 IIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL 189 (355)
T ss_pred HHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH
Confidence 357788999998888777665 999999999999964
No 159
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=94.41 E-value=0.05 Score=51.11 Aligned_cols=48 Identities=13% Similarity=0.019 Sum_probs=36.4
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.++++.|+||||||.+|++|-|-.. ...++|+=|--|+..........
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~-------~gS~VV~DpKGE~~~~Ta~~R~~ 187 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF-------KGSVIALDVKGELFELTSRARKA 187 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC-------CCCEEEEeCCchHHHHHHHHHHh
Confidence 4899999999999999999986421 23667778888887766555444
No 160
>KOG0952|consensus
Probab=94.41 E-value=0.025 Score=55.02 Aligned_cols=69 Identities=17% Similarity=0.150 Sum_probs=52.4
Q ss_pred CCCCcHHHHHhhccccC-CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 88 FTKMTEIQARTIPPLLE-GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 88 ~~~pt~iQ~~aip~~l~-g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
+....|+|...+-.+.+ ..++++-+|||+|||++|-+.+..-+.. .+...++||+|.++|...-.+...
T Consensus 925 ~~~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~---~p~~kvvyIap~kalvker~~Dw~ 994 (1230)
T KOG0952|consen 925 YKYFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSY---YPGSKVVYIAPDKALVKERSDDWS 994 (1230)
T ss_pred hcccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhcc---CCCccEEEEcCCchhhcccccchh
Confidence 33555677776655543 4688999999999999999999887665 566789999999999886555443
No 161
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.35 E-value=0.061 Score=50.51 Aligned_cols=48 Identities=8% Similarity=-0.059 Sum_probs=37.6
Q ss_pred EccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 111 SAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 111 ~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.+.+|||||..|+--+-..+.. +.++++|+|...|+.|+...|...++
T Consensus 166 ~~~~GSGKTevyl~~i~~~l~~-----Gk~vLvLvPEi~lt~q~~~rl~~~f~ 213 (665)
T PRK14873 166 QALPGEDWARRLAAAAAATLRA-----GRGALVVVPDQRDVDRLEAALRALLG 213 (665)
T ss_pred hcCCCCcHHHHHHHHHHHHHHc-----CCeEEEEecchhhHHHHHHHHHHHcC
Confidence 3346999999998666555533 44799999999999999999987654
No 162
>KOG1802|consensus
Probab=94.31 E-value=0.12 Score=48.55 Aligned_cols=73 Identities=11% Similarity=0.010 Sum_probs=52.8
Q ss_pred HHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 83 IADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 83 l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
+...|+..+..-|..|+..+|...=-|+++|+|+|||..-.--+++.+.. ....+++.+|..-=.-|+..-+.
T Consensus 403 ~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~----~~~~VLvcApSNiAVDqLaeKIh 475 (935)
T KOG1802|consen 403 FSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ----HAGPVLVCAPSNIAVDQLAEKIH 475 (935)
T ss_pred hcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHh----cCCceEEEcccchhHHHHHHHHH
Confidence 44456667778999999999988888999999999999866555554433 34466778887665555555444
No 163
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=94.27 E-value=0.12 Score=47.98 Aligned_cols=88 Identities=19% Similarity=0.132 Sum_probs=57.1
Q ss_pred CCHH-HHHHHHHCCCCCCcH----HHHHhhcccc--CCCcEEEEccCCCchhhHhHHHHHHHHHhccC-CCCCceEEEee
Q psy12984 75 VCEN-TLKAIADMGFTKMTE----IQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-MPRNGKSWQGK 146 (178)
Q Consensus 75 l~~~-ll~~l~~~g~~~pt~----iQ~~aip~~l--~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-~~~~~~~~l~P 146 (178)
+.++ |.++|.+.-=.++.. ||.+==..+. .+.=++|++..|||||.+.+--+...++..+. .....++++.|
T Consensus 189 ~~dEvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~P 268 (747)
T COG3973 189 GRDEVLQRVLEKNSSAKMRDIVETIQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGP 268 (747)
T ss_pred hHHHHHHHHHHhccchhHHHHHHHhhHhHHHHHhccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcC
Confidence 4444 445566543333332 4443333333 45678999999999999887777666766432 22335889999
Q ss_pred cHHHHHHHHHHHHHHh
Q psy12984 147 LRPLTNGVYLVACNVF 162 (178)
Q Consensus 147 tr~La~qi~~~~~~l~ 162 (178)
.|-+..-+.+++=.|+
T Consensus 269 N~vFleYis~VLPeLG 284 (747)
T COG3973 269 NRVFLEYISRVLPELG 284 (747)
T ss_pred cHHHHHHHHHhchhhc
Confidence 9999988888876654
No 164
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.21 E-value=0.04 Score=47.77 Aligned_cols=21 Identities=29% Similarity=0.292 Sum_probs=18.1
Q ss_pred cccCCCcEEEEccCCCchhhH
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTla 121 (178)
++..+.+++++++||||||..
T Consensus 158 ~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHcCCeEEEECCCCccHHHH
Confidence 345789999999999999975
No 165
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=94.13 E-value=0.27 Score=46.83 Aligned_cols=64 Identities=14% Similarity=0.093 Sum_probs=44.5
Q ss_pred CCCCCCcHHHHHhhccccCC-CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 86 MGFTKMTEIQARTIPPLLEG-RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g-~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
.++ .+++-|..|+..++.+ +-++++++.|+|||...- .++..+.. .+..++.++||---|..+.
T Consensus 349 ~~~-~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~-~i~~~~~~----~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 349 QHY-RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLK-AAREAWEA----AGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred ccC-CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHH-HHHHHHHh----CCCeEEEEeCcHHHHHHHH
Confidence 344 6899999999988764 667899999999986532 23333322 2446777899976665554
No 166
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=94.04 E-value=0.34 Score=45.21 Aligned_cols=63 Identities=19% Similarity=0.047 Sum_probs=42.6
Q ss_pred cHHHHHhhccccCCCcEEEEccCCCchhhHh--HHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 92 TEIQARTIPPLLEGRDLVGSAKTGSGKTLAF--LVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 92 t~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf--~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
.+.|+.|+-..+..+-+++.+++|+|||..- ++-.+..+. ......+.+.+||.-=|..+.+.
T Consensus 154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~---~~~~~~i~l~APTgkAA~rL~e~ 218 (615)
T PRK10875 154 VDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLA---DGERCRIRLAAPTGKAAARLTES 218 (615)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhc---CCCCcEEEEECCcHHHHHHHHHH
Confidence 4789999999999999999999999999763 333332221 12234556679996555544443
No 167
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=93.92 E-value=0.28 Score=46.51 Aligned_cols=67 Identities=13% Similarity=0.075 Sum_probs=46.6
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
.++ .+++-|+.|+..+..++-+++++..|||||.... .++..+... .+...+++++||.--|..+..
T Consensus 320 ~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~-~i~~~~~~~--~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 320 LRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTITR-AIIELAEEL--GGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred cCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHH-HHHHHHHHc--CCCceEEEEeCchHHHHHHHH
Confidence 455 7899999999999888899999999999997532 333333221 111355667999666655543
No 168
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.84 E-value=0.22 Score=42.74 Aligned_cols=24 Identities=25% Similarity=0.476 Sum_probs=18.9
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
|+|.+|||||||.... .+|+++.+
T Consensus 128 ILVTGpTGSGKSTTlA-amId~iN~ 151 (353)
T COG2805 128 ILVTGPTGSGKSTTLA-AMIDYINK 151 (353)
T ss_pred EEEeCCCCCcHHHHHH-HHHHHHhc
Confidence 8899999999987643 66676654
No 169
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=93.72 E-value=0.28 Score=45.44 Aligned_cols=62 Identities=13% Similarity=-0.020 Sum_probs=42.2
Q ss_pred HHHHHhhccccCCCcEEEEccCCCchhhH--hHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLA--FLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 93 ~iQ~~aip~~l~g~dvi~~a~TGsGKTla--f~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
..|+.|+-.++..+-++++++.|||||.. .++-++..... .....+.++.+||.-=|..+.+
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~--~~~~~~I~l~APTGkAA~rL~e 211 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSP--KQGKLRIALAAPTGKAAARLAE 211 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhcc--ccCCCcEEEECCcHHHHHHHHH
Confidence 68999999999999999999999999976 33333332221 1112467778999554444443
No 170
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=93.58 E-value=0.067 Score=49.96 Aligned_cols=45 Identities=18% Similarity=0.033 Sum_probs=34.4
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
.++++.|+||||||.+|++|.|-. ....++++-|-.|+..-....
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~-------~~~S~VV~D~KGE~~~~Tag~ 220 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS-------WGHSSVITDLKGELWALTAGW 220 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh-------CCCCEEEEeCcHHHHHHHHHH
Confidence 689999999999999999998742 233677788888886544433
No 171
>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=93.54 E-value=0.2 Score=43.09 Aligned_cols=52 Identities=15% Similarity=0.138 Sum_probs=36.6
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
++|.+..|||||+..+- ++..+. ........+++++..+|...++..+..-.
T Consensus 4 ~~I~G~aGTGKTvla~~-l~~~l~--~~~~~~~~~~l~~n~~l~~~l~~~l~~~~ 55 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALN-LAKELQ--NSEEGKKVLYLCGNHPLRNKLREQLAKKY 55 (352)
T ss_pred EEEEecCCcCHHHHHHH-HHHHhh--ccccCCceEEEEecchHHHHHHHHHhhhc
Confidence 68899999999997542 223231 11345577899999999998887775543
No 172
>KOG2340|consensus
Probab=93.54 E-value=0.2 Score=45.86 Aligned_cols=78 Identities=13% Similarity=0.162 Sum_probs=59.0
Q ss_pred CCcHHHHHhhccccCCCcEEEEccC-CCch--hhHhHHHHHHHHHhcc--------------------------CCCCCc
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKT-GSGK--TLAFLVPAVELIYNLK--------------------------FMPRNG 140 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~T-GsGK--Tlaf~lp~l~~l~~~~--------------------------~~~~~~ 140 (178)
.+|+.|.+-+..+..-+|++....| +.|+ +-.|++-+|+|+++.+ ...++.
T Consensus 216 pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRpk 295 (698)
T KOG2340|consen 216 PLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRPK 295 (698)
T ss_pred cchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCce
Confidence 4688999988888889999755443 3455 4569999999987511 123678
Q ss_pred eEEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 141 KSWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 141 ~~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
++++||+|+-|..+.+.+..++.+...
T Consensus 296 VLivvpfRe~A~riVn~lis~l~G~~q 322 (698)
T KOG2340|consen 296 VLIVVPFRESAYRIVNLLISLLSGDDQ 322 (698)
T ss_pred EEEEecchHHHHHHHHHHHHHhcCccc
Confidence 899999999999999988888655544
No 173
>KOG1133|consensus
Probab=93.49 E-value=0.077 Score=49.75 Aligned_cols=44 Identities=25% Similarity=0.379 Sum_probs=36.2
Q ss_pred CCcHHHHHhhccc----cCCCcEEEEccCCCchhhHhHHHHHHHHHhc
Q psy12984 90 KMTEIQARTIPPL----LEGRDLVGSAKTGSGKTLAFLVPAVELIYNL 133 (178)
Q Consensus 90 ~pt~iQ~~aip~~----l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~ 133 (178)
.|+.||..-+..+ -.|+=-|.-+|||+||||..+=..+.+|...
T Consensus 15 ~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~ 62 (821)
T KOG1133|consen 15 TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDF 62 (821)
T ss_pred CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHh
Confidence 6888998777644 4688778899999999999998999988653
No 174
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.38 E-value=0.19 Score=43.36 Aligned_cols=28 Identities=25% Similarity=0.316 Sum_probs=20.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+..+.+++++++||||||... -.++..+
T Consensus 157 v~~~~nili~G~tgSGKTTll-~aL~~~i 184 (332)
T PRK13900 157 VISKKNIIISGGTSTGKTTFT-NAALREI 184 (332)
T ss_pred HHcCCcEEEECCCCCCHHHHH-HHHHhhC
Confidence 456899999999999999753 3344444
No 175
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=93.32 E-value=0.12 Score=48.49 Aligned_cols=49 Identities=14% Similarity=-0.066 Sum_probs=36.6
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
..++++.|+||||||.++++|-+- . ....++++-|-.|++.-+....++
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~----~~gS~VV~DpKgEl~~~Ta~~R~~ 272 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---K----WGGPLVVLDPSTEVAPMVSEHRRD 272 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---c----CCCCEEEEeCcHHHHHHHHHHHHH
Confidence 368999999999999999999753 2 233667777888887766655433
No 176
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=93.25 E-value=0.13 Score=48.07 Aligned_cols=49 Identities=14% Similarity=0.019 Sum_probs=37.0
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.++++.|+||||||.++++|-+ +. ....++++-|-.|++.-....-++.
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnL---L~----~~gS~VV~DpKgE~~~~Ta~~R~~~ 260 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTA---LK----YGGPLVCLDPSTEVAPMVCEHRRQA 260 (623)
T ss_pred ceEEEEeCCCCCccceeehhhh---hc----CCCCEEEEEChHHHHHHHHHHHHHc
Confidence 6999999999999999999963 22 2336677888888877666554433
No 177
>KOG1132|consensus
Probab=93.22 E-value=0.051 Score=51.97 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=34.2
Q ss_pred CCcHHHHHhhcccc----CCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLL----EGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 90 ~pt~iQ~~aip~~l----~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
.|++.|...+-.++ .+.+.++-+||||||||+.+=..|-+...
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~ 67 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQH 67 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHH
Confidence 68889987776554 45788999999999999988777776654
No 178
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=93.21 E-value=0.4 Score=47.03 Aligned_cols=63 Identities=21% Similarity=0.144 Sum_probs=45.0
Q ss_pred CCCCCCcHHHHHhhccccCCCc-EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRD-LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~d-vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
.|+ .+++-|..|+..++.+.+ +++++..|+|||.. +-.++..+.. .+..++.++||---|..+
T Consensus 343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~----~G~~V~~~ApTGkAA~~L 406 (988)
T PRK13889 343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEA----AGYEVRGAALSGIAAENL 406 (988)
T ss_pred cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHH----cCCeEEEecCcHHHHHHH
Confidence 455 789999999999888665 68899999999985 3334443322 244677789996655444
No 179
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=93.17 E-value=0.1 Score=48.99 Aligned_cols=45 Identities=16% Similarity=0.013 Sum_probs=33.9
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
.++++.||||||||.+|++|-|-.. ...++|+-|--||.......
T Consensus 145 ~hvLviApTrSGKgvg~VIPnLL~~-------~~S~VV~D~KGEl~~~Ta~~ 189 (663)
T PRK13876 145 EHVLCFAPTRSGKGVGLVVPTLLTW-------PGSAIVHDIKGENWQLTAGF 189 (663)
T ss_pred ceEEEEecCCCCcceeEehhhHHhC-------CCCEEEEeCcchHHHHHHHH
Confidence 6899999999999999999986532 23666677777776655444
No 180
>PF12846 AAA_10: AAA-like domain
Probab=93.04 E-value=0.19 Score=40.96 Aligned_cols=42 Identities=19% Similarity=0.063 Sum_probs=27.3
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~ 152 (178)
+++++.+.||||||.... .++..+.. .+...+++=|..+...
T Consensus 2 ~h~~i~G~tGsGKT~~~~-~l~~~~~~----~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLK-NLLEQLIR----RGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHH----cCCCEEEEcCCchHHH
Confidence 589999999999997766 55554443 2335555555544443
No 181
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=92.89 E-value=0.17 Score=44.56 Aligned_cols=52 Identities=15% Similarity=0.068 Sum_probs=35.1
Q ss_pred hhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 98 TIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 98 aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
.+|.-...+++++.++||||||.. +..++..+... +.+++++=|..++....
T Consensus 35 ~~~~~~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~~----~~~~vi~D~kg~~~~~~ 86 (410)
T cd01127 35 PFPKDAEEAHTMIIGTTGTGKTTQ-IRELLASIRAR----GDRAIIYDPNGGFVSKF 86 (410)
T ss_pred eCCcchhhccEEEEcCCCCCHHHH-HHHHHHHHHhc----CCCEEEEeCCcchhHhh
Confidence 355556678999999999999985 44455555432 33666677777765543
No 182
>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=92.87 E-value=0.11 Score=40.63 Aligned_cols=31 Identities=29% Similarity=0.320 Sum_probs=22.3
Q ss_pred cHHHHHhhcc-ccCCCcEEEEccCCCchhhHh
Q psy12984 92 TEIQARTIPP-LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 92 t~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf 122 (178)
++-|...+.. +..|..++++++||||||..+
T Consensus 11 ~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 11 SPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred CHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 3444444443 456899999999999999754
No 183
>KOG0953|consensus
Probab=92.66 E-value=0.15 Score=46.91 Aligned_cols=47 Identities=26% Similarity=0.259 Sum_probs=36.7
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
=++-++||.||||.. +|+++.. ....++-.|+|-||..||+.+++.+
T Consensus 193 Ii~H~GPTNSGKTy~----ALqrl~~-----aksGvycGPLrLLA~EV~~r~na~g 239 (700)
T KOG0953|consen 193 IIMHVGPTNSGKTYR----ALQRLKS-----AKSGVYCGPLRLLAHEVYDRLNALG 239 (700)
T ss_pred EEEEeCCCCCchhHH----HHHHHhh-----hccceecchHHHHHHHHHHHhhhcC
Confidence 466789999999975 4565543 3356889999999999999987654
No 184
>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=92.61 E-value=0.45 Score=37.17 Aligned_cols=49 Identities=14% Similarity=0.091 Sum_probs=28.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
+-.+.++++.+++|+|||.... .+...+.. .+.. +..+++.+|...+..
T Consensus 44 ~~~~~~l~l~G~~G~GKThLa~-ai~~~~~~----~g~~-v~f~~~~~L~~~l~~ 92 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTHLAV-AIANEAIR----KGYS-VLFITASDLLDELKQ 92 (178)
T ss_dssp -SC--EEEEEESTTSSHHHHHH-HHHHHHHH----TT---EEEEEHHHHHHHHHC
T ss_pred cccCeEEEEEhhHhHHHHHHHH-HHHHHhcc----CCcc-eeEeecCceeccccc
Confidence 4468899999999999998644 33333433 1223 445666777766543
No 185
>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=92.51 E-value=0.35 Score=39.25 Aligned_cols=53 Identities=13% Similarity=-0.025 Sum_probs=34.0
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
..|.-+++.+++|+|||...+--+.+.+.+ +..++|++ +-+-..|+.+.+..+
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~~~-----ge~~lyvs-~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNGLQM-----GEPGIYVA-LEEHPVQVRRNMAQF 71 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHHc-----CCcEEEEE-eeCCHHHHHHHHHHh
Confidence 347889999999999998544334444422 33556655 555566666665544
No 186
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=92.51 E-value=0.28 Score=40.59 Aligned_cols=51 Identities=20% Similarity=0.089 Sum_probs=36.9
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.+.++++.+++|+|||.-...-....+ . ...-++.+++.+|..++...+..
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~-----~g~sv~f~~~~el~~~Lk~~~~~ 154 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELL-K-----AGISVLFITAPDLLSKLKAAFDE 154 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHH-H-----cCCeEEEEEHHHHHHHHHHHHhc
Confidence 688999999999999976543333333 2 12336688999999998887664
No 187
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=92.50 E-value=0.28 Score=47.87 Aligned_cols=75 Identities=19% Similarity=0.070 Sum_probs=59.1
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCC
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPT 169 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~ 169 (178)
.|+++|...=-++..|+ |+-..||-||||+..+|+.=..+. +.++=+++..--||.-=..++..+..++|..+
T Consensus 138 ~~ydVQLiGgivLh~G~--IAEM~TGEGKTLvatlp~yLnAL~-----G~gVHvVTvNDYLA~RDaewm~p~y~flGLtV 210 (1025)
T PRK12900 138 VPYDVQLIGGIVLHSGK--ISEMATGEGKTLVSTLPTFLNALT-----GRGVHVVTVNDYLAQRDKEWMNPVFEFHGLSV 210 (1025)
T ss_pred cccchHHhhhHHhhcCC--ccccCCCCCcchHhHHHHHHHHHc-----CCCcEEEeechHhhhhhHHHHHHHHHHhCCee
Confidence 68999977554555554 678899999999999998655543 44666778888999999999999999988876
Q ss_pred cc
Q psy12984 170 VI 171 (178)
Q Consensus 170 ~~ 171 (178)
+.
T Consensus 211 g~ 212 (1025)
T PRK12900 211 GV 212 (1025)
T ss_pred ee
Confidence 53
No 188
>PRK13764 ATPase; Provisional
Probab=92.47 E-value=0.24 Score=46.05 Aligned_cols=27 Identities=15% Similarity=0.217 Sum_probs=20.3
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
.+.+++++++||||||.. +-.++..+.
T Consensus 256 ~~~~ILIsG~TGSGKTTl-l~AL~~~i~ 282 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTF-AQALAEFYA 282 (602)
T ss_pred cCCEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 467899999999999974 345555554
No 189
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=92.45 E-value=0.71 Score=42.90 Aligned_cols=72 Identities=17% Similarity=-0.005 Sum_probs=54.4
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
.+++-|..|+... .-.++|.|..|||||-+-.--+.+.+....-.+. ..++++=|+--|..+...+..+++.
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~-~Il~vTFTnkAA~em~~Rl~~~~~~ 73 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPE-QILAITFTNKAAAEMRERLLKLLGL 73 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChH-HeeeeechHHHHHHHHHHHHHHhCc
Confidence 5678899888555 4567778888999999887777776655433333 5677888899999998888888764
No 190
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=92.44 E-value=0.095 Score=36.81 Aligned_cols=18 Identities=33% Similarity=0.362 Sum_probs=15.7
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
+..+++.+|+|+|||...
T Consensus 2 ~~~~~l~G~~G~GKTtl~ 19 (148)
T smart00382 2 GEVILIVGPPGSGKTTLA 19 (148)
T ss_pred CCEEEEECCCCCcHHHHH
Confidence 567899999999999864
No 191
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=92.31 E-value=0.35 Score=47.46 Aligned_cols=75 Identities=17% Similarity=0.064 Sum_probs=59.3
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCC
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPT 169 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~ 169 (178)
+|+.+|...=-++..|+ |+-..||-||||+..+|+.-..+. +.++-+++..--||.-=..++..+..++|..+
T Consensus 169 ~~yDVQliGgivLh~G~--IAEM~TGEGKTLvAtlp~yLnAL~-----GkgVHvVTVNDYLA~RDaewmgply~fLGLsv 241 (1112)
T PRK12901 169 VHYDVQLIGGVVLHQGK--IAEMATGEGKTLVATLPVYLNALT-----GNGVHVVTVNDYLAKRDSEWMGPLYEFHGLSV 241 (1112)
T ss_pred cccchHHhhhhhhcCCc--eeeecCCCCchhHHHHHHHHHHHc-----CCCcEEEEechhhhhccHHHHHHHHHHhCCce
Confidence 68889876554455554 678999999999999998765544 44666788889999999999999999999887
Q ss_pred cc
Q psy12984 170 VI 171 (178)
Q Consensus 170 ~~ 171 (178)
++
T Consensus 242 g~ 243 (1112)
T PRK12901 242 DC 243 (1112)
T ss_pred ee
Confidence 64
No 192
>KOG4150|consensus
Probab=92.30 E-value=0.28 Score=45.53 Aligned_cols=87 Identities=20% Similarity=0.241 Sum_probs=68.9
Q ss_pred cCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHH
Q psy12984 74 KVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNG 153 (178)
Q Consensus 74 ~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~q 153 (178)
++++...+++.+.|....+.+|..++.+++. |.++|-.|+.+.+.. ....-.+|+.|+.+|+..
T Consensus 371 ~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~-------------~~~~~~~~~~~~~~~---~~~~~~~Y~~~~~~~~~~ 434 (1034)
T KOG4150|consen 371 KLSETTKSALKRIGLNTLYSHQAEAISAALA-------------KSLCYNVPVFEELCK---DTNSCALYLFPTKALAQD 434 (1034)
T ss_pred CCCchhHHHHHhcCcceeecCHHHHHHHHhh-------------hccccccHHHHHHHh---cccceeeeecchhhHHHH
Confidence 4667777888888888888888888877763 346788888886654 233356899999999999
Q ss_pred HHHHHHHHhhhcCCCCcceEEEe
Q psy12984 154 VYLVACNVFKSTQPPTVIKVQTL 176 (178)
Q Consensus 154 i~~~~~~l~~~~~~~~~~~v~~~ 176 (178)
+.+.+..+++.+-.+.++-+..+
T Consensus 435 ~~R~L~~L~~~F~~~~~~~~~~~ 457 (1034)
T KOG4150|consen 435 QLRALSDLIKGFEASINMGVYDG 457 (1034)
T ss_pred HHHHHHHHHHHHHhhcCcceEeC
Confidence 99999999999988888777654
No 193
>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=92.16 E-value=0.3 Score=42.81 Aligned_cols=53 Identities=23% Similarity=0.206 Sum_probs=33.1
Q ss_pred hccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 99 IPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 99 ip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
||.-...+++++.+.||||||. ++-+++..+... +.+++|.=|.-+.....|+
T Consensus 9 l~~~~e~~~~li~G~~GsGKT~-~i~~ll~~~~~~----g~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 9 LPKDSENRHILIIGATGSGKTQ-AIRHLLDQIRAR----GDRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp E-GGGGGG-EEEEE-TTSSHHH-HHHHHHHHHHHT----T-EEEEEEETTHHHHHH--
T ss_pred cccchhhCcEEEECCCCCCHHH-HHHHHHHHHHHc----CCEEEEEECCchHHHHhcC
Confidence 3445667899999999999997 445777776542 3356666677776655444
No 194
>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=92.09 E-value=0.37 Score=45.08 Aligned_cols=54 Identities=13% Similarity=-0.105 Sum_probs=36.3
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecH--HHHHHHHHHHHHHhh
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLR--PLTNGVYLVACNVFK 163 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr--~La~qi~~~~~~l~~ 163 (178)
..|++|.++||+|||..+.+ ++....+. +..++++=|-. +|...++..++..+.
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~-l~~q~i~~----g~~viv~DpKgD~~l~~~~~~~~~~~G~ 231 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAEL-LITQDIRR----GDVVIVIDPKGDADLKRRMRAEAKRAGR 231 (634)
T ss_pred CCcEEEECCCCCCHHHHHHH-HHHHHHHc----CCeEEEEeCCCchHHHHHHHHHHHHhCC
Confidence 46899999999999987744 44444331 23566676764 477777777666543
No 195
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.04 E-value=0.51 Score=46.54 Aligned_cols=70 Identities=14% Similarity=0.072 Sum_probs=47.1
Q ss_pred CCcHHHHHhhcccc----CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 90 KMTEIQARTIPPLL----EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 90 ~pt~iQ~~aip~~l----~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
.+.++|..++.-++ .|.+.|++-..|.|||+-- +.++..+.... ......+||||. .|..+....+..++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQa-IalL~~L~~~~-~~~gp~LIVvP~-SlL~nW~~Ei~kw~ 242 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQT-ISLLGYLHEYR-GITGPHMVVAPK-STLGNWMNEIRRFC 242 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHH-HHHHHHHHHhc-CCCCCEEEEeCh-HHHHHHHHHHHHHC
Confidence 56778888876553 6788999999999999863 34444443322 223356899995 55566666666654
No 196
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=91.98 E-value=0.7 Score=40.21 Aligned_cols=59 Identities=17% Similarity=0.172 Sum_probs=45.6
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH-HHHHHHHHHHHHhhhcCC
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP-LTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~-La~qi~~~~~~l~~~~~~ 167 (178)
-.++.+..|||||.+.++-++..+... .+....+++.++.. |..-++..+...+..++.
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~--~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~ 62 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAIN--KKQQNILAARKVQNSIRDSVFKDIENLLSIEGI 62 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhc--CCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCC
Confidence 357789999999999998888887764 13457777888854 888888888877776654
No 197
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.75 E-value=0.098 Score=45.25 Aligned_cols=60 Identities=18% Similarity=0.133 Sum_probs=34.3
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEE----EeecHHHHHHHHHHHHHHhhhcCCCC
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSW----QGKLRPLTNGVYLVACNVFKSTQPPT 169 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~----l~Ptr~La~qi~~~~~~l~~~~~~~~ 169 (178)
+...|++..+|||||||+-. -.|.++++-+ .++. |+----...++.+.+.++++.-.-++
T Consensus 95 L~KSNILLiGPTGsGKTlLA--qTLAk~LnVP-----FaiADATtLTEAGYVGEDVENillkLlqaadydV 158 (408)
T COG1219 95 LSKSNILLIGPTGSGKTLLA--QTLAKILNVP-----FAIADATTLTEAGYVGEDVENILLKLLQAADYDV 158 (408)
T ss_pred eeeccEEEECCCCCcHHHHH--HHHHHHhCCC-----eeeccccchhhccccchhHHHHHHHHHHHcccCH
Confidence 44568999999999999853 3444444421 1111 11111134577777777777655443
No 198
>PRK10436 hypothetical protein; Provisional
Probab=91.60 E-value=0.22 Score=44.84 Aligned_cols=25 Identities=28% Similarity=0.414 Sum_probs=19.0
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
--+++++|||||||... ..+|..+.
T Consensus 219 GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 219 GLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred CeEEEECCCCCChHHHH-HHHHHhhC
Confidence 45889999999999865 34666653
No 199
>PRK05973 replicative DNA helicase; Provisional
Probab=91.60 E-value=0.73 Score=37.93 Aligned_cols=39 Identities=33% Similarity=0.297 Sum_probs=25.3
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 129 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~ 129 (178)
.+||... .+.-+..|.-+++.|++|+|||..-+--+.+.
T Consensus 50 ~~~p~~~-l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~ 88 (237)
T PRK05973 50 ATTPAEE-LFSQLKPGDLVLLGARPGHGKTLLGLELAVEA 88 (237)
T ss_pred CCCCHHH-hcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 3455332 33455677889999999999998644333333
No 200
>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=91.48 E-value=0.53 Score=35.95 Aligned_cols=48 Identities=17% Similarity=0.016 Sum_probs=28.5
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
+++.+++|+|||..-+--+...+. .+..++|+ .+-+-..++...+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~-----~g~~v~~~-s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA-----RGEPGLYV-TLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH-----CCCcEEEE-ECCCCHHHHHHHHHHc
Confidence 688999999999854323333332 23355555 4455566666655544
No 201
>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=91.29 E-value=0.46 Score=45.46 Aligned_cols=52 Identities=21% Similarity=0.125 Sum_probs=38.7
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.=.++.||.|||||.+..-++-+.+. .+..++++|+.-|.|+.++...|+.-
T Consensus 50 ~V~vVRSpMGTGKTtaLi~wLk~~l~----~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 50 GVLVVRSPMGTGKTTALIRWLKDALK----NPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CeEEEECCCCCCcHHHHHHHHHHhcc----CCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 34578999999999877443333222 35568899999999999999998643
No 202
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=91.04 E-value=0.62 Score=46.43 Aligned_cols=56 Identities=13% Similarity=0.081 Sum_probs=40.7
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA 158 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~ 158 (178)
-.+.+++|.|..|||||.+...=+|..|.......-...++++-|++=|..+...+
T Consensus 14 ~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI 69 (1139)
T COG1074 14 PPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERI 69 (1139)
T ss_pred CCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHH
Confidence 34679999999999999999988888887742123347788888866554444443
No 203
>KOG0390|consensus
Probab=90.67 E-value=0.73 Score=43.99 Aligned_cols=71 Identities=17% Similarity=0.132 Sum_probs=49.3
Q ss_pred CCcHHHHHhhcccc---CC-------CcEEEEccCCCchhhHhHHHHHHHHHhccCCCC-----CceEEEeecHHHHHHH
Q psy12984 90 KMTEIQARTIPPLL---EG-------RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR-----NGKSWQGKLRPLTNGV 154 (178)
Q Consensus 90 ~pt~iQ~~aip~~l---~g-------~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~-----~~~~~l~Ptr~La~qi 154 (178)
.+.|||.+.+..+. .| -.+|++-..|+|||+-. ++.|+.+++. .+. ..++|++| ..|.+-.
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~-IsflwtlLrq--~P~~~~~~~k~lVV~P-~sLv~nW 313 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQC-ISFIWTLLRQ--FPQAKPLINKPLVVAP-SSLVNNW 313 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHH-HHHHHHHHHh--CcCccccccccEEEcc-HHHHHHH
Confidence 67899999997553 22 34667777899999854 4555555442 344 57889999 6677777
Q ss_pred HHHHHHHhhh
Q psy12984 155 YLVACNVFKS 164 (178)
Q Consensus 155 ~~~~~~l~~~ 164 (178)
++.|.++...
T Consensus 314 kkEF~KWl~~ 323 (776)
T KOG0390|consen 314 KKEFGKWLGN 323 (776)
T ss_pred HHHHHHhccc
Confidence 7777776654
No 204
>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=90.63 E-value=0.28 Score=41.93 Aligned_cols=34 Identities=21% Similarity=0.216 Sum_probs=25.3
Q ss_pred CCCCcHHHHHh-hccccCCCcEEEEccCCCchhhH
Q psy12984 88 FTKMTEIQART-IPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 88 ~~~pt~iQ~~a-ip~~l~g~dvi~~a~TGsGKTla 121 (178)
+..+++.|..- |-++..+++++++++||||||..
T Consensus 125 ~gt~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~ 159 (312)
T COG0630 125 YGTISPEQAAYLWLAIEARKSIIICGGTASGKTTL 159 (312)
T ss_pred cCCCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH
Confidence 44556666554 44566889999999999999964
No 205
>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=90.51 E-value=1 Score=42.28 Aligned_cols=54 Identities=15% Similarity=-0.082 Sum_probs=39.0
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecH--HHHHHHHHHHHHHhh
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLR--PLTNGVYLVACNVFK 163 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr--~La~qi~~~~~~l~~ 163 (178)
..+.+|.++||+|||..+.+=+.+.+.. +.+++++=|-. +|..-++..++.+++
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~~-----g~~vi~fDpkgD~el~~~~~~~~~~~GR 235 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIRR-----GDVVIVFDPKGDADLLKRMYAEAKRAGR 235 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHHc-----CCeEEEEeCCCCHHHHHHHHHHHHHhCC
Confidence 4688999999999999877656565543 33667777774 577777777666554
No 206
>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=90.37 E-value=0.24 Score=40.72 Aligned_cols=30 Identities=30% Similarity=0.266 Sum_probs=21.9
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
+..+.+++++++||||||... -.++..+..
T Consensus 124 v~~~~~ili~G~tGSGKTT~l-~all~~i~~ 153 (270)
T PF00437_consen 124 VRGRGNILISGPTGSGKTTLL-NALLEEIPP 153 (270)
T ss_dssp HHTTEEEEEEESTTSSHHHHH-HHHHHHCHT
T ss_pred cccceEEEEECCCccccchHH-HHHhhhccc
Confidence 356789999999999999864 344554443
No 207
>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=90.31 E-value=0.33 Score=44.68 Aligned_cols=45 Identities=24% Similarity=0.374 Sum_probs=28.9
Q ss_pred HHHCCCCCCcHHHHHhhccccC--CCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 83 IADMGFTKMTEIQARTIPPLLE--GRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 83 l~~~g~~~pt~iQ~~aip~~l~--g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
|.++||. +-|...|..++. .--+++++|||||||... ..++..+.
T Consensus 295 l~~lg~~---~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 295 IDKLGFE---PDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHcCCC---HHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 5566663 445555544433 235789999999999874 45666653
No 208
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=90.22 E-value=0.95 Score=44.40 Aligned_cols=59 Identities=19% Similarity=0.013 Sum_probs=43.4
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCC
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQP 167 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~ 167 (178)
+.-+|.--+|||||+.-+..+-..+ .. ...+.+++|+--++|-.|+.+.|..+......
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~-~~--~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~ 332 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLL-EL--PKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFN 332 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHH-hc--cCCCeEEEEechHHHHHHHHHHHHHHHHhhhh
Confidence 5678889999999998444332222 22 44557888999999999999999988765443
No 209
>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=90.14 E-value=0.65 Score=40.73 Aligned_cols=26 Identities=19% Similarity=0.019 Sum_probs=19.1
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
+..++++++||||||... ..++.++.
T Consensus 149 ~GlilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHHH
Confidence 346899999999999754 44556554
No 210
>KOG0926|consensus
Probab=90.02 E-value=0.85 Score=43.91 Aligned_cols=34 Identities=32% Similarity=0.466 Sum_probs=24.1
Q ss_pred CCCCcHHHHHhh--c----------cccCCCcEEEEccCCCchhhH
Q psy12984 88 FTKMTEIQARTI--P----------PLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 88 ~~~pt~iQ~~ai--p----------~~l~g~dvi~~a~TGsGKTla 121 (178)
+.+|..||..-+ | ++...-=||||+.||||||.-
T Consensus 242 V~R~~EIQ~sR~~LPI~aeEq~IMEaIn~n~vvIIcGeTGsGKTTQ 287 (1172)
T KOG0926|consen 242 VSRPAEIQESRLDLPIVAEEQRIMEAINENPVVIICGETGSGKTTQ 287 (1172)
T ss_pred ecCcHHHHHHHhcCchhHHHHHHHHHhhcCCeEEEecCCCCCcccc
Confidence 346788886543 3 333455689999999999974
No 211
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=89.97 E-value=1 Score=44.88 Aligned_cols=57 Identities=18% Similarity=0.113 Sum_probs=43.2
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.++++|.|..|||||....--++..+... ......++|+-|+.=|..+...+...+.
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~--~~~~~i~~~t~t~~aa~em~~Ri~~~L~ 66 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNG--VPPSKILCLTYTKAAAAEMQNRVFDRLG 66 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcC--CCCCeEEEEecCHHHHHHHHHHHHHHHH
Confidence 46899999999999999888888777653 2234778899998877777666555554
No 212
>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=89.95 E-value=0.3 Score=44.24 Aligned_cols=44 Identities=20% Similarity=0.329 Sum_probs=26.9
Q ss_pred HHHCCCCCCcHHHHHhhccccCC-C-cEEEEccCCCchhhHhHHHHHHHH
Q psy12984 83 IADMGFTKMTEIQARTIPPLLEG-R-DLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 83 l~~~g~~~pt~iQ~~aip~~l~g-~-dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
|.++|| ++-|...|..++.. . =+++++|||||||... ..++..+
T Consensus 221 l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l 266 (486)
T TIGR02533 221 LETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRL 266 (486)
T ss_pred HHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhcc
Confidence 455565 34455555444432 3 3789999999999864 2345544
No 213
>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=89.77 E-value=0.78 Score=37.53 Aligned_cols=46 Identities=20% Similarity=0.145 Sum_probs=27.4
Q ss_pred HHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhH
Q psy12984 78 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 78 ~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+++++|...|.....+-=-..+.-+..|.-+++.|++|+|||...+
T Consensus 3 ~~~~~~~~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~ 48 (271)
T cd01122 3 EIREALSNEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLR 48 (271)
T ss_pred hhhccccccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHH
Confidence 4555555444433222111222445667889999999999997543
No 214
>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=89.77 E-value=0.71 Score=36.24 Aligned_cols=27 Identities=26% Similarity=0.298 Sum_probs=18.4
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
..++++.+.||||||.+...-+...+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 459999999999999986655555444
No 215
>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=89.70 E-value=0.82 Score=36.47 Aligned_cols=55 Identities=16% Similarity=0.085 Sum_probs=31.3
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
+-.|.-+++.+++|+|||.--+--+.+.+.+. +..+++++ +-+-..++...+..+
T Consensus 16 ip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~----ge~vlyvs-~ee~~~~l~~~~~s~ 70 (226)
T PF06745_consen 16 IPKGSVVLISGPPGSGKTTLALQFLYNGLKNF----GEKVLYVS-FEEPPEELIENMKSF 70 (226)
T ss_dssp EETTSEEEEEESTTSSHHHHHHHHHHHHHHHH----T--EEEEE-SSS-HHHHHHHHHTT
T ss_pred CCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhc----CCcEEEEE-ecCCHHHHHHHHHHc
Confidence 34578899999999999986443344444320 22555554 444445555555443
No 216
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.61 E-value=0.23 Score=45.01 Aligned_cols=39 Identities=26% Similarity=0.293 Sum_probs=24.9
Q ss_pred HHHHHhhccccCCC--cEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 93 EIQARTIPPLLEGR--DLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 93 ~iQ~~aip~~l~g~--dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
+.|...+-.++... =+++.+|||||||... +.+|+.+..
T Consensus 244 ~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTL-Y~~L~~ln~ 284 (500)
T COG2804 244 PFQLARLLRLLNRPQGLILVTGPTGSGKTTTL-YAALSELNT 284 (500)
T ss_pred HHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH-HHHHHHhcC
Confidence 45555554444332 2788999999999873 456665543
No 217
>PRK08116 hypothetical protein; Validated
Probab=89.40 E-value=2.7 Score=35.02 Aligned_cols=47 Identities=15% Similarity=0.007 Sum_probs=30.4
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
+..+++.+++|+|||.... .+.+.+... + ..++..+..+|...+...
T Consensus 114 ~~gl~l~G~~GtGKThLa~-aia~~l~~~----~-~~v~~~~~~~ll~~i~~~ 160 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAA-CIANELIEK----G-VPVIFVNFPQLLNRIKST 160 (268)
T ss_pred CceEEEECCCCCCHHHHHH-HHHHHHHHc----C-CeEEEEEHHHHHHHHHHH
Confidence 3459999999999997543 455655542 2 234455667777666544
No 218
>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=89.33 E-value=0.25 Score=40.82 Aligned_cols=25 Identities=24% Similarity=0.227 Sum_probs=20.3
Q ss_pred hhccccCCCcEEEEccCCCchhhHh
Q psy12984 98 TIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 98 aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
++..+..|+++++.+++|+|||...
T Consensus 14 ~l~~l~~g~~vLL~G~~GtGKT~lA 38 (262)
T TIGR02640 14 ALRYLKSGYPVHLRGPAGTGKTTLA 38 (262)
T ss_pred HHHHHhcCCeEEEEcCCCCCHHHHH
Confidence 3445667899999999999999763
No 219
>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=89.16 E-value=0.37 Score=34.14 Aligned_cols=18 Identities=28% Similarity=0.375 Sum_probs=15.6
Q ss_pred CCCcEEEEccCCCchhhH
Q psy12984 104 EGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTla 121 (178)
.+..+++.+++|+|||..
T Consensus 18 ~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred CCCeEEEECCCCCCHHHH
Confidence 367899999999999963
No 220
>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=89.12 E-value=0.51 Score=37.30 Aligned_cols=23 Identities=26% Similarity=0.489 Sum_probs=16.8
Q ss_pred EEEEccCCCchhhHhHHHHHHHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
+++++|||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 688999999999874 33455443
No 221
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=89.11 E-value=0.41 Score=45.38 Aligned_cols=71 Identities=10% Similarity=0.026 Sum_probs=43.6
Q ss_pred HHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHH
Q psy12984 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152 (178)
Q Consensus 77 ~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~ 152 (178)
.++.+.+++.|-..+..|--.-||.-...+++++.+-||||||.++ .-+|..+.. .+.+++|.=|+.+...
T Consensus 157 ~~l~k~lk~~~~~s~i~I~gvPip~~~E~~H~li~GttGSGKS~~i-~~LL~~ir~----RGdrAIIyD~~GeFv~ 227 (732)
T PRK13700 157 KDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVI-RRLANYARQ----RGDMVVIYDRSGEFVK 227 (732)
T ss_pred HHHHHHHHhcCCCCCeeEccccCCcchhhcceEEeCCCCCCHHHHH-HHHHHHHHH----cCCeEEEEeCCCchHH
Confidence 3455667776654554443333444556799999999999999965 355555533 2335555555555544
No 222
>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=88.99 E-value=0.8 Score=39.58 Aligned_cols=41 Identities=27% Similarity=0.250 Sum_probs=27.0
Q ss_pred HHHHHHCCCCCCcHHHHHhhcc-ccCCCcEEEEccCCCchhhHh
Q psy12984 80 LKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 80 l~~l~~~g~~~pt~iQ~~aip~-~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..+.+.|+- ++.+...+.. +..+.+++++++||||||..+
T Consensus 154 l~~l~~~g~~--~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 154 LDELVASGTF--PPGVARLLRAIVAARLAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHHcCCC--CHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH
Confidence 4445566653 3444444443 446789999999999998754
No 223
>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=88.98 E-value=0.72 Score=36.46 Aligned_cols=20 Identities=30% Similarity=0.248 Sum_probs=16.4
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
..+..+++.+++|+|||...
T Consensus 36 ~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCCCeEEEECCCCCCHHHHH
Confidence 34678999999999999653
No 224
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=88.96 E-value=0.26 Score=35.40 Aligned_cols=20 Identities=45% Similarity=0.380 Sum_probs=13.1
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.++.+++.+++|+|||....
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp ----EEEEE-TTSSHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHH
Confidence 45678999999999998743
No 225
>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=88.96 E-value=0.78 Score=36.77 Aligned_cols=40 Identities=20% Similarity=0.121 Sum_probs=24.5
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
+..|.-++++|++|+|||..-+--+.+.+.. .+..+++++
T Consensus 10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~----~g~~vly~s 49 (242)
T cd00984 10 LQPGDLIIIAARPSMGKTAFALNIAENIAKK----QGKPVLFFS 49 (242)
T ss_pred CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHh----CCCceEEEe
Confidence 4457788999999999996433233333322 133556653
No 226
>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=88.94 E-value=0.22 Score=41.71 Aligned_cols=21 Identities=33% Similarity=0.495 Sum_probs=18.2
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..++.+++++++|+|||...
T Consensus 30 ~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 30 LSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHCTEEEEEESSTTSSHHHHH
T ss_pred HHcCCcEEEECCCCCchhHHH
Confidence 457899999999999999853
No 227
>PRK06921 hypothetical protein; Provisional
Probab=88.93 E-value=1.9 Score=35.83 Aligned_cols=50 Identities=12% Similarity=-0.076 Sum_probs=29.3
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA 158 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~ 158 (178)
.+..+++.+++|+|||... ..+...+.. ..+..++ -++..+|..++...+
T Consensus 116 ~~~~l~l~G~~G~GKThLa-~aia~~l~~---~~g~~v~-y~~~~~l~~~l~~~~ 165 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL-TAAANELMR---KKGVPVL-YFPFVEGFGDLKDDF 165 (266)
T ss_pred CCCeEEEECCCCCcHHHHH-HHHHHHHhh---hcCceEE-EEEHHHHHHHHHHHH
Confidence 4678999999999999643 233444433 1123334 445566655554443
No 228
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=88.90 E-value=0.56 Score=42.03 Aligned_cols=47 Identities=17% Similarity=0.242 Sum_probs=30.4
Q ss_pred CHHHHHHHHHCCCCCCcHH-------HHHhh-ccccCCCcEEEEccCCCchhhHhH
Q psy12984 76 CENTLKAIADMGFTKMTEI-------QARTI-PPLLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 76 ~~~ll~~l~~~g~~~pt~i-------Q~~ai-p~~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
.+|+---|...||. |+.. +...+ |.+-.+.|++..+|+|+|||-.|.
T Consensus 173 dEWid~LlrSiG~~-P~~~~~r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 173 EEWIDVLIRSIGYE-PEGFEARQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHHHhcCCC-cccCChHHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 33444445668884 4331 11222 556678999999999999995554
No 229
>KOG0745|consensus
Probab=88.89 E-value=0.32 Score=43.77 Aligned_cols=61 Identities=20% Similarity=0.179 Sum_probs=36.1
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeec----HHHHHHHHHHHHHHhhhcCCCCc
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL----RPLTNGVYLVACNVFKSTQPPTV 170 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Pt----r~La~qi~~~~~~l~~~~~~~~~ 170 (178)
|...|||+.+|||||||+.. -.|.++++ .+ .++.=|-| --...++..++.+|+..-+-++.
T Consensus 224 LeKSNvLllGPtGsGKTlla--qTLAr~ld---VP--faIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVe 288 (564)
T KOG0745|consen 224 LEKSNVLLLGPTGSGKTLLA--QTLARVLD---VP--FAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVE 288 (564)
T ss_pred eecccEEEECCCCCchhHHH--HHHHHHhC---CC--eEEecccchhhcccccccHHHHHHHHHHHccCCHH
Confidence 44568999999999999843 33444443 12 22211111 11345777788888877665544
No 230
>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=88.81 E-value=1.5 Score=36.21 Aligned_cols=39 Identities=15% Similarity=-0.011 Sum_probs=24.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
+..|.-+++.+++|+|||..-+--+.+.+. .+..++|++
T Consensus 33 ip~gs~~lI~G~pGtGKT~l~~qf~~~~a~-----~Ge~vlyis 71 (259)
T TIGR03878 33 IPAYSVINITGVSDTGKSLMVEQFAVTQAS-----RGNPVLFVT 71 (259)
T ss_pred eECCcEEEEEcCCCCCHHHHHHHHHHHHHh-----CCCcEEEEE
Confidence 445788999999999999853332333332 233556664
No 231
>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=88.79 E-value=0.31 Score=38.55 Aligned_cols=20 Identities=30% Similarity=0.331 Sum_probs=15.2
Q ss_pred CCcEEEEccCCCchhhHhHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~l 124 (178)
...|++++|.|||||.-|..
T Consensus 3 ~~~vlL~Gps~SGKTaLf~~ 22 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFSQ 22 (181)
T ss_dssp --EEEEE-STTSSHHHHHHH
T ss_pred CceEEEEcCCCCCHHHHHHH
Confidence 46799999999999998864
No 232
>PRK08181 transposase; Validated
Probab=88.48 E-value=1.2 Score=37.24 Aligned_cols=47 Identities=13% Similarity=0.066 Sum_probs=27.7
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
.+.++++.+|+|+|||.... .+...+.. .+.. ++.++..+|..++..
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~-Aia~~a~~----~g~~-v~f~~~~~L~~~l~~ 151 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAA-AIGLALIE----NGWR-VLFTRTTDLVQKLQV 151 (269)
T ss_pred cCceEEEEecCCCcHHHHHH-HHHHHHHH----cCCc-eeeeeHHHHHHHHHH
Confidence 57899999999999995433 22222222 1223 334455666666543
No 233
>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=88.36 E-value=0.52 Score=39.20 Aligned_cols=44 Identities=23% Similarity=0.327 Sum_probs=26.4
Q ss_pred HHHCCCCCCcHHHHHhhcccc--CCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 83 IADMGFTKMTEIQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 83 l~~~g~~~pt~iQ~~aip~~l--~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
|.++|| ++-|...|-.++ .+.-++++++||||||... ..++..+
T Consensus 59 l~~lg~---~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i 104 (264)
T cd01129 59 LEKLGL---KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSEL 104 (264)
T ss_pred HHHcCC---CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhh
Confidence 445565 234444444333 2345899999999999864 3344544
No 234
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=88.31 E-value=1.3 Score=36.36 Aligned_cols=55 Identities=16% Similarity=-0.003 Sum_probs=35.4
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
+-.|+.+++.+++|||||..-.--+.+.+ + . +.. ++.+-+.+...++...+..+.
T Consensus 20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~~~-~---~-ge~-vlyvs~~e~~~~l~~~~~~~g 74 (260)
T COG0467 20 LPRGSVVLITGPPGTGKTIFALQFLYEGA-R---E-GEP-VLYVSTEESPEELLENARSFG 74 (260)
T ss_pred CcCCcEEEEEcCCCCcHHHHHHHHHHHHH-h---c-CCc-EEEEEecCCHHHHHHHHHHcC
Confidence 34578999999999999985332233322 2 1 223 445667787887777776543
No 235
>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=88.31 E-value=1 Score=38.99 Aligned_cols=59 Identities=15% Similarity=0.144 Sum_probs=39.6
Q ss_pred CcHHHHHhhccc------cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 91 MTEIQARTIPPL------LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 91 pt~iQ~~aip~~------l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
+++=|+.++..+ ..|..+++.++-|+|||..+ =.|....+ .....+++.+||-.=|.-+
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~--~~i~~~~~---~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI--KAIIDYLR---SRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH--HHHHHHhc---cccceEEEecchHHHHHhc
Confidence 345566666555 67899999999999999753 33333333 2344677789997766666
No 236
>PRK09183 transposase/IS protein; Provisional
Probab=88.22 E-value=1.9 Score=35.70 Aligned_cols=22 Identities=23% Similarity=0.302 Sum_probs=18.0
Q ss_pred ccCCCcEEEEccCCCchhhHhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+..|.++++.+|+|+|||....
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAI 120 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHH
Confidence 4568899999999999996543
No 237
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.21 E-value=1.6 Score=38.34 Aligned_cols=21 Identities=29% Similarity=0.222 Sum_probs=17.7
Q ss_pred CCCcEEEEccCCCchhhHhHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~l 124 (178)
.|..+++.+|||+|||....-
T Consensus 136 ~g~ii~lvGptGvGKTTtiak 156 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAK 156 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHH
Confidence 477899999999999987653
No 238
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=88.19 E-value=0.98 Score=36.03 Aligned_cols=26 Identities=27% Similarity=0.287 Sum_probs=20.1
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
++++.|.|.||||||..-. -+++.+.
T Consensus 23 ~~H~~I~G~TGsGKS~~~~-~ll~~l~ 48 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVK-VLLEELL 48 (229)
T ss_pred cceEEEECCCCCCHHHHHH-HHHHHHH
Confidence 6899999999999998654 4445554
No 239
>PRK04328 hypothetical protein; Provisional
Probab=88.12 E-value=1.4 Score=36.09 Aligned_cols=52 Identities=13% Similarity=-0.023 Sum_probs=30.8
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.|.-+++.+++|+|||.-.+--+.+.+.+ +..++|++ +-+-..++.+.+..+
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~-----ge~~lyis-~ee~~~~i~~~~~~~ 73 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM-----GEPGVYVA-LEEHPVQVRRNMRQF 73 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhc-----CCcEEEEE-eeCCHHHHHHHHHHc
Confidence 47789999999999987433223333322 33555554 444455555555544
No 240
>KOG0729|consensus
Probab=88.11 E-value=1.1 Score=38.25 Aligned_cols=41 Identities=17% Similarity=0.048 Sum_probs=26.2
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
+.|++-+|+|+||||+.-.-+ ....-+.|-+---||.+...
T Consensus 212 kgvllygppgtgktl~arava---------nrtdacfirvigselvqkyv 252 (435)
T KOG0729|consen 212 KGVLLYGPPGTGKTLCARAVA---------NRTDACFIRVIGSELVQKYV 252 (435)
T ss_pred CceEEeCCCCCchhHHHHHHh---------cccCceEEeehhHHHHHHHh
Confidence 679999999999999864221 11223334455567776544
No 241
>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=88.10 E-value=0.62 Score=40.57 Aligned_cols=26 Identities=19% Similarity=0.262 Sum_probs=19.5
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
.+.-+++++|||||||... ..++..+
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 4678999999999999864 3355544
No 242
>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=87.90 E-value=0.72 Score=42.60 Aligned_cols=42 Identities=21% Similarity=0.177 Sum_probs=26.6
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP 149 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~ 149 (178)
...+++++.++||||||.+ +-.++..+... +.+++|+=|.-+
T Consensus 174 ~e~~h~li~G~tGsGKs~~-i~~ll~~~~~~----g~~~ii~D~~g~ 215 (566)
T TIGR02759 174 SETQHILIHGTTGSGKSVA-IRKLLRWIRQR----GDRAIIYDKGCT 215 (566)
T ss_pred ccccceEEEcCCCCCHHHH-HHHHHHHHHhc----CCeEEEEECCCC
Confidence 4457999999999999963 34455555431 234555555444
No 243
>PHA02533 17 large terminase protein; Provisional
Probab=87.69 E-value=2.8 Score=38.52 Aligned_cols=73 Identities=10% Similarity=0.012 Sum_probs=53.8
Q ss_pred CCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|.|.|...+..+..++-.++..+-..|||.+.+.-++..... .+...+++++|++.-|..+++.++.+...+
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~---~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~ 131 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCF---NKDKNVGILAHKASMAAEVLDRTKQAIELL 131 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHh---CCCCEEEEEeCCHHHHHHHHHHHHHHHHhC
Confidence 4678999888766556655666777899999877655554443 234477888999999999998888776543
No 244
>PHA00729 NTP-binding motif containing protein
Probab=87.59 E-value=2.1 Score=35.08 Aligned_cols=50 Identities=24% Similarity=0.161 Sum_probs=29.0
Q ss_pred cEEEEccCCCchhh-HhHHHHHHHHH-hc--------cCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 107 DLVGSAKTGSGKTL-AFLVPAVELIY-NL--------KFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 107 dvi~~a~TGsGKTl-af~lp~l~~l~-~~--------~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
++++.+++|+|||. |..+ ...+. .. ..... ...+.+...+|...+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aL--a~~l~~~l~~l~~~~~~~d~~-~~~~fid~~~Ll~~L~~a~~ 78 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKV--ARDVFWKLNNLSTKDDAWQYV-QNSYFFELPDALEKIQDAID 78 (226)
T ss_pred EEEEECCCCCCHHHHHHHH--HHHHHhhcccccchhhHHhcC-CcEEEEEHHHHHHHHHHHHh
Confidence 79999999999995 3333 22221 00 00112 23456777778877765543
No 245
>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=87.51 E-value=1.7 Score=34.59 Aligned_cols=21 Identities=29% Similarity=0.366 Sum_probs=17.1
Q ss_pred cCCCcEEEEccCCCchhhHhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~ 123 (178)
..|..+++.+++|+|||....
T Consensus 18 ~~G~~~~i~G~~G~GKT~l~~ 38 (229)
T TIGR03881 18 PRGFFVAVTGEPGTGKTIFCL 38 (229)
T ss_pred cCCeEEEEECCCCCChHHHHH
Confidence 357889999999999987543
No 246
>PRK06835 DNA replication protein DnaC; Validated
Probab=87.50 E-value=2 Score=37.00 Aligned_cols=47 Identities=15% Similarity=0.081 Sum_probs=29.1
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
.+.++++.++||+|||... ..+...+.. .+.. ++..+..+|..++..
T Consensus 182 ~~~~Lll~G~~GtGKThLa-~aIa~~l~~----~g~~-V~y~t~~~l~~~l~~ 228 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLS-NCIAKELLD----RGKS-VIYRTADELIEILRE 228 (329)
T ss_pred cCCcEEEECCCCCcHHHHH-HHHHHHHHH----CCCe-EEEEEHHHHHHHHHH
Confidence 3589999999999999732 234444443 1223 444555666665543
No 247
>PRK07952 DNA replication protein DnaC; Validated
Probab=87.15 E-value=2.4 Score=34.99 Aligned_cols=46 Identities=11% Similarity=0.045 Sum_probs=28.6
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
..+++.+++|+|||.... .+...+.. .+.. +++++..+|...+...
T Consensus 100 ~~~~l~G~~GtGKThLa~-aia~~l~~----~g~~-v~~it~~~l~~~l~~~ 145 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAA-AICNELLL----RGKS-VLIITVADIMSAMKDT 145 (244)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHh----cCCe-EEEEEHHHHHHHHHHH
Confidence 478999999999997543 34444433 1223 4455667776655543
No 248
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=86.96 E-value=3.7 Score=40.97 Aligned_cols=75 Identities=19% Similarity=0.092 Sum_probs=49.4
Q ss_pred CCHHHHHHHHHCCCCCCcHHHHHhhccccC-CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHH
Q psy12984 75 VCENTLKAIADMGFTKMTEIQARTIPPLLE-GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNG 153 (178)
Q Consensus 75 l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~-g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~q 153 (178)
+++..+.+....++ .+++-|..|+..+.. ++-+++++..|+|||...- .++..+.. .+..++.++||--=|..
T Consensus 367 v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~----~G~~V~g~ApTgkAA~~ 440 (1102)
T PRK13826 367 VREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AAREAWEA----AGYRVVGGALAGKAAEG 440 (1102)
T ss_pred CCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHHHHHH----cCCeEEEEcCcHHHHHH
Confidence 44555555444455 789999999987754 5668899999999997543 23333322 34466778999655554
Q ss_pred HH
Q psy12984 154 VY 155 (178)
Q Consensus 154 i~ 155 (178)
+.
T Consensus 441 L~ 442 (1102)
T PRK13826 441 LE 442 (1102)
T ss_pred HH
Confidence 43
No 249
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=86.95 E-value=1.8 Score=44.64 Aligned_cols=61 Identities=26% Similarity=0.235 Sum_probs=43.0
Q ss_pred CCcHHHHHhhccccCC--CcEEEEccCCCchhhHh--HHHHHHHHHhccCCCCCceEEEeecHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAF--LVPAVELIYNLKFMPRNGKSWQGKLRPLTNG 153 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf--~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~q 153 (178)
.+++-|..|+..++.+ +-+++++..|+|||... ++-++..+.. ..+..++.++||--=|..
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e---~~g~~V~glAPTgkAa~~ 899 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPE---SERPRVVGLGPTHRAVGE 899 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhh---ccCceEEEEechHHHHHH
Confidence 6899999999998855 77999999999999873 3344443322 233456678999544433
No 250
>PRK12377 putative replication protein; Provisional
Probab=86.94 E-value=2.3 Score=35.12 Aligned_cols=47 Identities=13% Similarity=0.032 Sum_probs=29.4
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
..++++.+++|+|||.... .+.+.+.. .+.. ++.++..+|..++...
T Consensus 101 ~~~l~l~G~~GtGKThLa~-AIa~~l~~----~g~~-v~~i~~~~l~~~l~~~ 147 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAA-AIGNRLLA----KGRS-VIVVTVPDVMSRLHES 147 (248)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHH----cCCC-eEEEEHHHHHHHHHHH
Confidence 3689999999999996432 33344432 1223 4455667777777654
No 251
>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=86.87 E-value=0.42 Score=40.54 Aligned_cols=21 Identities=33% Similarity=0.488 Sum_probs=18.0
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.+++++++||||||...
T Consensus 141 v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 141 IASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred hhCCCEEEEECCCCCCHHHHH
Confidence 457899999999999999853
No 252
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=86.73 E-value=1.2 Score=35.60 Aligned_cols=49 Identities=10% Similarity=0.118 Sum_probs=28.7
Q ss_pred CCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 61 EILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 61 ~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
+.....+|+++...-+..++..+...-. ....+..+++.+++|+|||..
T Consensus 10 ~~~~~~~~d~f~~~~~~~~~~~l~~~~~------------~~~~~~~~~l~G~~G~GKT~L 58 (227)
T PRK08903 10 GPPPPPTFDNFVAGENAELVARLRELAA------------GPVADRFFYLWGEAGSGRSHL 58 (227)
T ss_pred CCCChhhhcccccCCcHHHHHHHHHHHh------------ccCCCCeEEEECCCCCCHHHH
Confidence 3444456777643334455554444100 122456899999999999954
No 253
>PRK06526 transposase; Provisional
Probab=86.57 E-value=0.97 Score=37.43 Aligned_cols=21 Identities=24% Similarity=0.241 Sum_probs=17.4
Q ss_pred cCCCcEEEEccCCCchhhHhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~ 123 (178)
..+.++++.+|+|+|||....
T Consensus 96 ~~~~nlll~Gp~GtGKThLa~ 116 (254)
T PRK06526 96 TGKENVVFLGPPGTGKTHLAI 116 (254)
T ss_pred hcCceEEEEeCCCCchHHHHH
Confidence 357899999999999996543
No 254
>PF05729 NACHT: NACHT domain
Probab=86.45 E-value=2 Score=31.64 Aligned_cols=24 Identities=25% Similarity=0.254 Sum_probs=17.1
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
+++.++.|+|||.... -++..+..
T Consensus 3 l~I~G~~G~GKStll~-~~~~~~~~ 26 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLR-KLAQQLAE 26 (166)
T ss_pred EEEECCCCCChHHHHH-HHHHHHHh
Confidence 7899999999998543 44444444
No 255
>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=86.41 E-value=1.2 Score=38.43 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=19.1
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
.+..+++++|||||||... ..++..+
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i 146 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYI 146 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhh
Confidence 3567999999999999864 2345544
No 256
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=86.40 E-value=3 Score=34.92 Aligned_cols=20 Identities=30% Similarity=0.373 Sum_probs=16.2
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.++.+++++|||+|||....
T Consensus 193 ~~~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLA 212 (282)
T ss_pred CCeEEEEECCCCCCHHHHHH
Confidence 35678899999999997643
No 257
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=86.24 E-value=2.8 Score=32.13 Aligned_cols=65 Identities=20% Similarity=0.098 Sum_probs=32.5
Q ss_pred hhcccc-CCCcEEEEccCCCchhhHhHHHHHHHHHhccC-----CCCCceEEEeecHHHHHHHHHHHHHHhh
Q psy12984 98 TIPPLL-EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-----MPRNGKSWQGKLRPLTNGVYLVACNVFK 163 (178)
Q Consensus 98 aip~~l-~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-----~~~~~~~~l~Ptr~La~qi~~~~~~l~~ 163 (178)
.++-++ .|.=+++.|++|+|||..-+--+...+..... ....+++|+..-- =..++.+.+..+..
T Consensus 24 li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~-~~~~~~~rl~~~~~ 94 (193)
T PF13481_consen 24 LIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLED-SESQIARRLRALLQ 94 (193)
T ss_dssp EETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHHT
T ss_pred eECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccC-CHHHHHHHHHHHhc
Confidence 334444 57778999999999998644333333322111 1234556653221 14455555555443
No 258
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=86.00 E-value=0.66 Score=30.30 Aligned_cols=25 Identities=28% Similarity=0.228 Sum_probs=18.3
Q ss_pred hhccccCCCcEEEEccCCCchhhHh
Q psy12984 98 TIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 98 aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
.++.-..|..+++.+++|||||..+
T Consensus 16 ~~~~~~~g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 16 TIDFDPRGDVTLITGPNGSGKSTLL 40 (62)
T ss_pred EEeecCCCcEEEEECCCCCCHHHHH
Confidence 3443344667999999999999753
No 259
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=85.97 E-value=1.5 Score=37.08 Aligned_cols=55 Identities=24% Similarity=0.234 Sum_probs=37.1
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE-------eecHHHHHHHHHHHHHHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ-------GKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l-------~Ptr~La~qi~~~~~~l~ 162 (178)
+..|.-+++.+|+|||||.. +-+|+++.. +..+.+.+ .|..+|-+.+..+++..+
T Consensus 24 I~~gef~vliGpSGsGKTTt--LkMINrLie----pt~G~I~i~g~~i~~~d~~~LRr~IGYviQqig 85 (309)
T COG1125 24 IEEGEFLVLIGPSGSGKTTT--LKMINRLIE----PTSGEILIDGEDISDLDPVELRRKIGYVIQQIG 85 (309)
T ss_pred ecCCeEEEEECCCCCcHHHH--HHHHhcccC----CCCceEEECCeecccCCHHHHHHhhhhhhhhcc
Confidence 34677788899999999985 456666654 33333433 456778888877777644
No 260
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=85.86 E-value=2.4 Score=34.36 Aligned_cols=21 Identities=14% Similarity=0.257 Sum_probs=17.4
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+++.+++|+|||...
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~ 41 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILS 41 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHH
Confidence 345788999999999999863
No 261
>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=85.83 E-value=0.53 Score=33.40 Aligned_cols=14 Identities=36% Similarity=0.506 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++.+++|||||..
T Consensus 2 I~I~G~~gsGKST~ 15 (121)
T PF13207_consen 2 IIISGPPGSGKSTL 15 (121)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999975
No 262
>PRK08084 DNA replication initiation factor; Provisional
Probab=85.74 E-value=1.5 Score=35.50 Aligned_cols=47 Identities=11% Similarity=0.129 Sum_probs=28.1
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
.....+|+++-..-+...+.++... + ....+..+++.+|+|+|||-.
T Consensus 15 ~~~~~~fd~f~~~~n~~a~~~l~~~-----------~--~~~~~~~l~l~Gp~G~GKThL 61 (235)
T PRK08084 15 LPDDETFASFYPGDNDSLLAALQNA-----------L--RQEHSGYIYLWSREGAGRSHL 61 (235)
T ss_pred CCCcCCccccccCccHHHHHHHHHH-----------H--hCCCCCeEEEECCCCCCHHHH
Confidence 4445568777533344444444332 1 112346789999999999954
No 263
>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=85.40 E-value=0.5 Score=34.44 Aligned_cols=14 Identities=29% Similarity=0.458 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++++++|||||..
T Consensus 2 ii~~G~pgsGKSt~ 15 (143)
T PF13671_consen 2 IILCGPPGSGKSTL 15 (143)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999975
No 264
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=85.26 E-value=2 Score=34.80 Aligned_cols=34 Identities=18% Similarity=0.168 Sum_probs=22.0
Q ss_pred CCcHHHHHhhcccc----CCC-cEEEEccCCCchhhHhH
Q psy12984 90 KMTEIQARTIPPLL----EGR-DLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 90 ~pt~iQ~~aip~~l----~g~-dvi~~a~TGsGKTlaf~ 123 (178)
.+++.+..++..+. .+. .+++.+++|+|||....
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 45555555554332 233 58899999999997643
No 265
>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=85.04 E-value=0.76 Score=38.55 Aligned_cols=19 Identities=21% Similarity=0.230 Sum_probs=16.2
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
.+.++++.+++|||||...
T Consensus 57 ~~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 57 PTLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CCceEEEEcCCCCCHHHHH
Confidence 4668999999999999754
No 266
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=84.80 E-value=0.97 Score=44.61 Aligned_cols=79 Identities=20% Similarity=0.065 Sum_probs=51.5
Q ss_pred HHHHHhhcccc--------CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 93 EIQARTIPPLL--------EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 93 ~iQ~~aip~~l--------~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
..|-.|+..+. .|--++--|.||+|||++=. -|+..|.. ...+.+..+..-+|.|..|..+.++.-++-
T Consensus 411 ~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA-RImyaLsd--~~~g~RfsiALGLRTLTLQTGda~r~rL~L 487 (1110)
T TIGR02562 411 RWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA-RAMYALRD--DKQGARFAIALGLRSLTLQTGHALKTRLNL 487 (1110)
T ss_pred chHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH-HHHHHhCC--CCCCceEEEEccccceeccchHHHHHhcCC
Confidence 36666665543 24456778999999999843 12222221 134447777788999999999999987765
Q ss_pred cCCCCcceEE
Q psy12984 165 TQPPTVIKVQ 174 (178)
Q Consensus 165 ~~~~~~~~v~ 174 (178)
-.-.+.+.|+
T Consensus 488 ~~ddLAVlIG 497 (1110)
T TIGR02562 488 SDDDLAVLIG 497 (1110)
T ss_pred CccceEEEEC
Confidence 5555444443
No 267
>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=84.58 E-value=0.66 Score=32.85 Aligned_cols=14 Identities=43% Similarity=0.351 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|++.+.+|||||..
T Consensus 1 I~i~G~~GsGKtTi 14 (129)
T PF13238_consen 1 IGISGIPGSGKTTI 14 (129)
T ss_dssp EEEEESTTSSHHHH
T ss_pred CEEECCCCCCHHHH
Confidence 67899999999975
No 268
>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=84.54 E-value=0.7 Score=32.85 Aligned_cols=15 Identities=27% Similarity=0.348 Sum_probs=12.8
Q ss_pred EEEEccCCCchhhHh
Q psy12984 108 LVGSAKTGSGKTLAF 122 (178)
Q Consensus 108 vi~~a~TGsGKTlaf 122 (178)
+++.+|+|+|||...
T Consensus 1 ill~G~~G~GKT~l~ 15 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLA 15 (132)
T ss_dssp EEEESSTTSSHHHHH
T ss_pred CEEECcCCCCeeHHH
Confidence 578999999999853
No 269
>KOG0924|consensus
Probab=84.19 E-value=3.2 Score=39.52 Aligned_cols=62 Identities=18% Similarity=0.145 Sum_probs=34.4
Q ss_pred cHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 92 TEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 92 t~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
+..+..-+..+....-|++.+.||||||.-.. +.|+........-..+--|-|.-|.-+...
T Consensus 358 f~~R~~ll~~ir~n~vvvivgETGSGKTTQl~----QyL~edGY~~~GmIGcTQPRRvAAiSVAkr 419 (1042)
T KOG0924|consen 358 FACRDQLLSVIRENQVVVIVGETGSGKTTQLA----QYLYEDGYADNGMIGCTQPRRVAAISVAKR 419 (1042)
T ss_pred HHHHHHHHHHHhhCcEEEEEecCCCCchhhhH----HHHHhcccccCCeeeecCchHHHHHHHHHH
Confidence 34444555556667788999999999997532 223332222211112223667766655443
No 270
>KOG1942|consensus
Probab=84.12 E-value=1.4 Score=38.12 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=20.7
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+.||-+++++|.|+|||... +.+-+-|
T Consensus 62 maGravLlaGppgtGKTAlA-laisqEL 88 (456)
T KOG1942|consen 62 MAGRAVLLAGPPGTGKTALA-LAISQEL 88 (456)
T ss_pred ccCcEEEEecCCCCchhHHH-HHHHHHh
Confidence 57999999999999999754 3444433
No 271
>KOG1131|consensus
Probab=84.00 E-value=5.5 Score=36.87 Aligned_cols=74 Identities=11% Similarity=0.064 Sum_probs=41.2
Q ss_pred CCCCcHHHHHhhccc----cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 88 FTKMTEIQARTIPPL----LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 88 ~~~pt~iQ~~aip~~----l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
|..-+|-|..-+..+ -.+-+.++-.|+|+|||.+.+--++..-...+. .....+|-+.|-.-.......++++.
T Consensus 14 Y~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~-~~~KliYCSRTvpEieK~l~El~~l~ 91 (755)
T KOG1131|consen 14 YDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPD-EHRKLIYCSRTVPEIEKALEELKRLM 91 (755)
T ss_pred CcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCc-ccceEEEecCcchHHHHHHHHHHHHH
Confidence 455567776555433 245678889999999999977666654444322 22244444444333333333444443
No 272
>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=83.89 E-value=0.69 Score=33.82 Aligned_cols=15 Identities=27% Similarity=0.344 Sum_probs=13.4
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
+|++.+++|+|||..
T Consensus 1 ~vlL~G~~G~GKt~l 15 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTL 15 (139)
T ss_dssp EEEEEESSSSSHHHH
T ss_pred CEEEECCCCCCHHHH
Confidence 588999999999975
No 273
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=83.63 E-value=2.9 Score=44.10 Aligned_cols=61 Identities=15% Similarity=0.104 Sum_probs=42.6
Q ss_pred CCcHHHHHhhccccCC--CcEEEEccCCCchhhHhH---HHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFL---VPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~---lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
.+++.|..|+..++.+ +-+++++..|+|||.... -++.+... ..+..++.++||-.=|..+
T Consensus 1019 ~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~----~~g~~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1019 RLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFE----SEQLQVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHH----hcCCeEEEEeChHHHHHHH
Confidence 6899999999988765 567889999999997652 23333222 2344666789996655544
No 274
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=83.50 E-value=1.2 Score=40.68 Aligned_cols=54 Identities=13% Similarity=0.198 Sum_probs=31.1
Q ss_pred CccchHhhcccCCHHHHHHHHH--CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 64 SSTQFEALKGKVCENTLKAIAD--MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 64 ~~~~f~~l~~~l~~~ll~~l~~--~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
+..+|++++ ++++.+.+.... .-+.+|--+...-++. .+.+++.+|+|+|||+.
T Consensus 177 p~v~~~dIg-Gl~~~i~~i~~~v~lp~~~~~l~~~~gl~~---p~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 177 PDVTYADIG-GLDSQIEQIRDAVELPFLHPELYREYDLKP---PKGVLLYGPPGCGKTLI 232 (512)
T ss_pred CCCCHHHcC-ChHHHHHHHHHHHHHHhhCHHHHHhccCCC---CcceEEECCCCCcHHHH
Confidence 345688876 355443322111 2333444444433332 46799999999999974
No 275
>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=83.41 E-value=3.3 Score=32.96 Aligned_cols=18 Identities=39% Similarity=0.475 Sum_probs=15.3
Q ss_pred CCCcEEEEccCCCchhhH
Q psy12984 104 EGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTla 121 (178)
.|.-+++.+++|+|||..
T Consensus 15 ~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred CCeEEEEECCCCCCHHHH
Confidence 467889999999999874
No 276
>PLN03025 replication factor C subunit; Provisional
Probab=83.26 E-value=1.8 Score=36.59 Aligned_cols=45 Identities=18% Similarity=0.240 Sum_probs=27.4
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
.+...+|+++- -++.++..|... ++. -...++++.+|+|+|||..
T Consensus 6 kyrP~~l~~~~--g~~~~~~~L~~~-------~~~------~~~~~lll~Gp~G~GKTtl 50 (319)
T PLN03025 6 KYRPTKLDDIV--GNEDAVSRLQVI-------ARD------GNMPNLILSGPPGTGKTTS 50 (319)
T ss_pred hcCCCCHHHhc--CcHHHHHHHHHH-------Hhc------CCCceEEEECCCCCCHHHH
Confidence 34456777774 455555555431 110 1124689999999999954
No 277
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=83.17 E-value=5.3 Score=39.42 Aligned_cols=16 Identities=38% Similarity=0.411 Sum_probs=13.5
Q ss_pred EEEEccCCCchhhHhH
Q psy12984 108 LVGSAKTGSGKTLAFL 123 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~ 123 (178)
++|.++||+|||++--
T Consensus 784 LYIyG~PGTGKTATVK 799 (1164)
T PTZ00112 784 LYISGMPGTGKTATVY 799 (1164)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4599999999999843
No 278
>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=83.12 E-value=3 Score=40.59 Aligned_cols=41 Identities=15% Similarity=0.059 Sum_probs=27.0
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP 149 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~ 149 (178)
..|++|.++||||||.....=+.+.+.. .+.+++|+=|-++
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~----~~~~v~IiD~g~s 515 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAV----HRPRLFIVEAGNS 515 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHh----cCCEEEEEcCCCC
Confidence 3588999999999998755444443322 2346666766655
No 279
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=83.03 E-value=1.1 Score=36.72 Aligned_cols=29 Identities=21% Similarity=0.234 Sum_probs=20.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
+..|.-+.+.+|+|||||. ++-+|..+.+
T Consensus 28 i~~Ge~vaI~GpSGSGKST--LLniig~ld~ 56 (226)
T COG1136 28 IEAGEFVAIVGPSGSGKST--LLNLLGGLDK 56 (226)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHhcccC
Confidence 3568889999999999997 3344444443
No 280
>PRK00131 aroK shikimate kinase; Reviewed
Probab=82.95 E-value=0.97 Score=33.91 Aligned_cols=19 Identities=32% Similarity=0.468 Sum_probs=16.4
Q ss_pred cCCCcEEEEccCCCchhhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTla 121 (178)
..+..+++++++|||||..
T Consensus 2 ~~~~~i~l~G~~GsGKstl 20 (175)
T PRK00131 2 LKGPNIVLIGFMGAGKSTI 20 (175)
T ss_pred CCCCeEEEEcCCCCCHHHH
Confidence 4577899999999999975
No 281
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=82.91 E-value=6.1 Score=38.38 Aligned_cols=28 Identities=25% Similarity=0.273 Sum_probs=19.9
Q ss_pred cccCCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
++.+..-++++++||||||...=.-+++
T Consensus 61 ai~~~~vvii~getGsGKTTqlP~~lle 88 (845)
T COG1643 61 AIEQNQVVIIVGETGSGKTTQLPQFLLE 88 (845)
T ss_pred HHHhCCEEEEeCCCCCChHHHHHHHHHh
Confidence 3445566899999999999974444443
No 282
>PRK05642 DNA replication initiation factor; Validated
Probab=82.89 E-value=17 Score=29.45 Aligned_cols=16 Identities=19% Similarity=0.144 Sum_probs=13.8
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
..+++.+++|+|||--
T Consensus 46 ~~l~l~G~~G~GKTHL 61 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL 61 (234)
T ss_pred CeEEEECCCCCCHHHH
Confidence 5688999999999964
No 283
>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=82.81 E-value=3.7 Score=32.58 Aligned_cols=15 Identities=33% Similarity=0.403 Sum_probs=12.8
Q ss_pred EEEEccCCCchhhHh
Q psy12984 108 LVGSAKTGSGKTLAF 122 (178)
Q Consensus 108 vi~~a~TGsGKTlaf 122 (178)
+++.+|||+|||.+-
T Consensus 4 i~lvGptGvGKTTt~ 18 (196)
T PF00448_consen 4 IALVGPTGVGKTTTI 18 (196)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCchHhHH
Confidence 577899999999863
No 284
>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=82.75 E-value=3 Score=37.68 Aligned_cols=54 Identities=19% Similarity=0.113 Sum_probs=32.1
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
..|+-+++.+++|+|||...+--+.+.+.+ .+..++|++ .-|-..++...+..+
T Consensus 19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~----~ge~~lyvs-~eE~~~~l~~~~~~~ 72 (484)
T TIGR02655 19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIH----FDEPGVFVT-FEESPQDIIKNARSF 72 (484)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHHHh----CCCCEEEEE-EecCHHHHHHHHHHc
Confidence 357889999999999998654444444432 123556554 234444555554443
No 285
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=82.66 E-value=0.87 Score=40.15 Aligned_cols=20 Identities=30% Similarity=0.512 Sum_probs=15.1
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
+.|+-+|+.+|+|||||...
T Consensus 48 ~aGr~iLiaGppGtGKTAlA 67 (398)
T PF06068_consen 48 IAGRAILIAGPPGTGKTALA 67 (398)
T ss_dssp -TT-EEEEEE-TTSSHHHHH
T ss_pred ccCcEEEEeCCCCCCchHHH
Confidence 46899999999999999754
No 286
>PRK13531 regulatory ATPase RavA; Provisional
Probab=82.64 E-value=1.7 Score=39.59 Aligned_cols=43 Identities=16% Similarity=0.148 Sum_probs=27.8
Q ss_pred HHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 79 TLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 79 ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
+...|.+.=+.+-.-| ..++-+++.|.+|++.+++|+|||...
T Consensus 14 l~~~l~~~i~gre~vI-~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 14 LSSALEKGLYERSHAI-RLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHHhhhccCcHHHH-HHHHHHHccCCCEEEECCCChhHHHHH
Confidence 3344444223333334 334446788999999999999999864
No 287
>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=82.53 E-value=1.3 Score=36.70 Aligned_cols=24 Identities=29% Similarity=0.357 Sum_probs=17.2
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
-.+++.|++|||||. |++-++..+
T Consensus 14 fr~viIG~sGSGKT~-li~~lL~~~ 37 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTT-LIKSLLYYL 37 (241)
T ss_pred ceEEEECCCCCCHHH-HHHHHHHhh
Confidence 368899999999997 344444433
No 288
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=82.52 E-value=3.4 Score=43.10 Aligned_cols=64 Identities=22% Similarity=0.148 Sum_probs=42.5
Q ss_pred CCcHHHHHhhccccCC--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi 154 (178)
.+++-|..|+..++.+ +-+++++..|+|||...- .++..+.......+..++.++||--=|..+
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~-~v~~~~~~l~~~~~~~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFR-AVMSAVNTLPESERPRVVGLGPTHRAVGEM 1032 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHH-HHHHHHHHhhcccCceEEEECCcHHHHHHH
Confidence 6899999999998875 578999999999997632 233322211112334566689996444433
No 289
>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=82.52 E-value=2.8 Score=32.86 Aligned_cols=25 Identities=32% Similarity=0.276 Sum_probs=18.8
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
.|.=+.+.+++|+|||..-+.-+.+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~ 35 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVN 35 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4677889999999999865444444
No 290
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=82.17 E-value=1 Score=39.73 Aligned_cols=20 Identities=30% Similarity=0.484 Sum_probs=17.7
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
+.|+-+++.+|+|||||...
T Consensus 63 ~aGrgiLi~GppgTGKTAlA 82 (450)
T COG1224 63 MAGRGILIVGPPGTGKTALA 82 (450)
T ss_pred ccccEEEEECCCCCcHHHHH
Confidence 57899999999999999754
No 291
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=82.03 E-value=0.77 Score=34.74 Aligned_cols=28 Identities=25% Similarity=0.383 Sum_probs=15.0
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
.++.+++.+++|+|||..-. -++..+..
T Consensus 23 ~~~~~ll~G~~G~GKT~ll~-~~~~~~~~ 50 (185)
T PF13191_consen 23 SPRNLLLTGESGSGKTSLLR-ALLDRLAE 50 (185)
T ss_dssp ----EEE-B-TTSSHHHHHH-HHHHHHHH
T ss_pred CCcEEEEECCCCCCHHHHHH-HHHHHHHh
Confidence 35789999999999997522 24444433
No 292
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=82.02 E-value=5.7 Score=32.98 Aligned_cols=45 Identities=13% Similarity=-0.021 Sum_probs=26.8
Q ss_pred EEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHH-HHHHHHH
Q psy12984 109 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRP-LTNGVYL 156 (178)
Q Consensus 109 i~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~-La~qi~~ 156 (178)
++.++.|+|||...++-++.++... +....+++++|.. |+..+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~---~~~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTR---PPGRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSS---SS--EEEEEESSHHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhC---CCCcEEEEecCHHHHHHHHHH
Confidence 3567889999999988888887663 3224455557754 4544333
No 293
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.75 E-value=0.78 Score=36.04 Aligned_cols=18 Identities=22% Similarity=0.357 Sum_probs=14.5
Q ss_pred EEEEccCCCchhhHhHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVP 125 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp 125 (178)
.|++++.|||||..|..-
T Consensus 5 ~IvaG~NGsGKstv~~~~ 22 (187)
T COG4185 5 DIVAGPNGSGKSTVYAST 22 (187)
T ss_pred EEEecCCCCCceeeeecc
Confidence 467899999999987643
No 294
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=81.71 E-value=2.1 Score=37.80 Aligned_cols=48 Identities=25% Similarity=0.289 Sum_probs=36.0
Q ss_pred CCCCCCcHHHHHhhccccCC--CcEEEEccCCCchhhHhHHHHHHHHHhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNL 133 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~ 133 (178)
.|+..-.--|..|+.++++- .=|...++.|||||+-.+-..+++....
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~ 273 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLER 273 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHH
Confidence 47755566888999888865 2355678889999998888887776653
No 295
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=81.40 E-value=4.5 Score=32.42 Aligned_cols=51 Identities=6% Similarity=-0.117 Sum_probs=28.5
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.|.-+++.+++|+|||.-.+.-+...+.+ +..++|+. +.+-..++...+..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~-----g~~~~y~~-~e~~~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ-----GKKVYVIT-TENTSKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhC-----CCEEEEEE-cCCCHHHHHHHHHH
Confidence 46788999999999997544333333322 33444443 33333444444444
No 296
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=81.32 E-value=2.3 Score=35.63 Aligned_cols=16 Identities=44% Similarity=0.532 Sum_probs=14.0
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
++++.+|+|+|||...
T Consensus 38 ~lll~Gp~GtGKT~la 53 (337)
T PRK12402 38 HLLVQGPPGSGKTAAV 53 (337)
T ss_pred eEEEECCCCCCHHHHH
Confidence 7999999999999653
No 297
>KOG0989|consensus
Probab=80.96 E-value=3.3 Score=35.72 Aligned_cols=53 Identities=19% Similarity=0.137 Sum_probs=33.3
Q ss_pred CcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHH
Q psy12984 59 ALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPA 126 (178)
Q Consensus 59 ~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~ 126 (178)
....|...+|+++- -.+.+.+.|... ++. ..+-+.+..+|.|+|||-+.++-.
T Consensus 26 wteKYrPkt~de~~--gQe~vV~~L~~a-------~~~------~~lp~~LFyGPpGTGKTStalafa 78 (346)
T KOG0989|consen 26 WTEKYRPKTFDELA--GQEHVVQVLKNA-------LLR------RILPHYLFYGPPGTGKTSTALAFA 78 (346)
T ss_pred hHHHhCCCcHHhhc--chHHHHHHHHHH-------Hhh------cCCceEEeeCCCCCcHhHHHHHHH
Confidence 34556667788874 444555555441 221 234577889999999998765433
No 298
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=80.94 E-value=1.2 Score=34.58 Aligned_cols=18 Identities=28% Similarity=0.342 Sum_probs=15.5
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
|..+++.+|+|+|||...
T Consensus 2 g~~i~l~G~sGsGKsTl~ 19 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLL 19 (186)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 667899999999999854
No 299
>CHL00181 cbbX CbbX; Provisional
Probab=80.74 E-value=1.5 Score=36.88 Aligned_cols=20 Identities=30% Similarity=0.401 Sum_probs=16.7
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.|.++++.+++|+|||....
T Consensus 58 ~~~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred CCceEEEECCCCCCHHHHHH
Confidence 46789999999999997643
No 300
>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=80.64 E-value=3.5 Score=29.92 Aligned_cols=16 Identities=44% Similarity=0.443 Sum_probs=13.4
Q ss_pred EEEEccCCCchhhHhH
Q psy12984 108 LVGSAKTGSGKTLAFL 123 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~ 123 (178)
+++.+++|+|||....
T Consensus 2 ~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 2 ILVFGPTGSGKTTLAL 17 (165)
T ss_pred eeEeCCCCCCHHHHHH
Confidence 6789999999998544
No 301
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=80.57 E-value=1.1 Score=38.15 Aligned_cols=16 Identities=19% Similarity=0.063 Sum_probs=13.4
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
+=+++.+|||||||..
T Consensus 5 ~ii~I~GpTasGKS~L 20 (300)
T PRK14729 5 KIVFIFGPTAVGKSNI 20 (300)
T ss_pred cEEEEECCCccCHHHH
Confidence 3478999999999974
No 302
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=80.55 E-value=1.9 Score=38.64 Aligned_cols=19 Identities=26% Similarity=0.356 Sum_probs=16.3
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
.++.+++.+|+|+|||+..
T Consensus 216 ~p~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLLA 234 (438)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4578999999999999864
No 303
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=80.35 E-value=1.5 Score=39.64 Aligned_cols=28 Identities=18% Similarity=0.258 Sum_probs=21.9
Q ss_pred HHhhccccCCCcEEEEccCCCchhhHhH
Q psy12984 96 ARTIPPLLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 96 ~~aip~~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
...+..+..++++++.+++|+|||....
T Consensus 185 e~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 185 ETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 3445556679999999999999996543
No 304
>PHA02244 ATPase-like protein
Probab=80.33 E-value=1.8 Score=38.17 Aligned_cols=21 Identities=19% Similarity=0.121 Sum_probs=17.8
Q ss_pred cccCCCcEEEEccCCCchhhH
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTla 121 (178)
.+..+.+|++.+|||+|||..
T Consensus 115 ~l~~~~PVLL~GppGtGKTtL 135 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHI 135 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHH
Confidence 345788999999999999954
No 305
>KOG0060|consensus
Probab=80.32 E-value=1.2 Score=41.34 Aligned_cols=21 Identities=29% Similarity=0.507 Sum_probs=18.5
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+-+|.+++|++|+|+|||--|
T Consensus 458 V~~g~~LLItG~sG~GKtSLl 478 (659)
T KOG0060|consen 458 VPSGQNLLITGPSGCGKTSLL 478 (659)
T ss_pred ecCCCeEEEECCCCCchhHHH
Confidence 567999999999999999754
No 306
>PRK14530 adenylate kinase; Provisional
Probab=80.11 E-value=1.2 Score=35.41 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=15.4
Q ss_pred CCCcEEEEccCCCchhhH
Q psy12984 104 EGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTla 121 (178)
.|..+++.+++|||||..
T Consensus 2 ~~~~I~i~G~pGsGKsT~ 19 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQ 19 (215)
T ss_pred CCCEEEEECCCCCCHHHH
Confidence 467899999999999964
No 307
>PLN02165 adenylate isopentenyltransferase
Probab=80.10 E-value=1.2 Score=38.63 Aligned_cols=21 Identities=29% Similarity=0.275 Sum_probs=16.8
Q ss_pred cCCCcEEEEccCCCchhhHhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~ 123 (178)
..|.-+++.+|||||||....
T Consensus 41 ~~g~iivIiGPTGSGKStLA~ 61 (334)
T PLN02165 41 CKDKVVVIMGATGSGKSRLSV 61 (334)
T ss_pred CCCCEEEEECCCCCcHHHHHH
Confidence 346678999999999997643
No 308
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=80.10 E-value=2 Score=38.02 Aligned_cols=18 Identities=28% Similarity=0.409 Sum_probs=15.9
Q ss_pred CCCcEEEEccCCCchhhH
Q psy12984 104 EGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTla 121 (178)
.++.+++.+|+|+|||+.
T Consensus 178 ~pkgvLL~GppGTGKT~L 195 (398)
T PTZ00454 178 PPRGVLLYGPPGTGKTML 195 (398)
T ss_pred CCceEEEECCCCCCHHHH
Confidence 467899999999999986
No 309
>PRK00300 gmk guanylate kinase; Provisional
Probab=79.91 E-value=1.3 Score=34.58 Aligned_cols=18 Identities=33% Similarity=0.403 Sum_probs=15.7
Q ss_pred cCCCcEEEEccCCCchhh
Q psy12984 103 LEGRDLVGSAKTGSGKTL 120 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTl 120 (178)
..|.-+++.+++|||||.
T Consensus 3 ~~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 3 RRGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCCEEEEECCCCCCHHH
Confidence 357789999999999996
No 310
>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=79.78 E-value=1.3 Score=36.45 Aligned_cols=18 Identities=22% Similarity=0.261 Sum_probs=15.4
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
..++++.+|+|+|||...
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 468999999999999763
No 311
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=79.78 E-value=2.2 Score=36.78 Aligned_cols=17 Identities=29% Similarity=0.427 Sum_probs=14.9
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
.+.+++.+|+|+|||+.
T Consensus 156 p~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 156 PKGVLLYGPPGTGKTLL 172 (364)
T ss_pred CceEEEECCCCCCHHHH
Confidence 46799999999999975
No 312
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=79.72 E-value=2.4 Score=35.36 Aligned_cols=50 Identities=20% Similarity=0.256 Sum_probs=30.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEE-------eecHHHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQ-------GKLRPLTNGVYLV 157 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l-------~Ptr~La~qi~~~ 157 (178)
+-.|.-+.+.+|.|+|||. ++-+|..+.. +..+.+.+ .+.++||+.+.-+
T Consensus 25 i~~G~i~~iiGpNG~GKST--LLk~l~g~l~----p~~G~V~l~g~~i~~~~~kelAk~ia~v 81 (258)
T COG1120 25 IPKGEITGILGPNGSGKST--LLKCLAGLLK----PKSGEVLLDGKDIASLSPKELAKKLAYV 81 (258)
T ss_pred ecCCcEEEEECCCCCCHHH--HHHHHhccCC----CCCCEEEECCCchhhcCHHHHhhhEEEe
Confidence 3457888899999999997 3344444433 22333443 4667777665443
No 313
>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=79.39 E-value=4.6 Score=36.44 Aligned_cols=52 Identities=13% Similarity=0.042 Sum_probs=30.7
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.|.-+++.+++|+|||..-+--+.+.+. .+..++|++ .-|=..|+...+..+
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~-----~ge~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACA-----NKERAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHH-----CCCeEEEEE-eeCCHHHHHHHHHHc
Confidence 4578999999999999853322333222 233455543 455555666665544
No 314
>PRK08727 hypothetical protein; Validated
Probab=79.29 E-value=6.8 Score=31.66 Aligned_cols=16 Identities=38% Similarity=0.273 Sum_probs=13.6
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
..+++.+++|+|||-.
T Consensus 42 ~~l~l~G~~G~GKThL 57 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL 57 (233)
T ss_pred CeEEEECCCCCCHHHH
Confidence 4499999999999953
No 315
>PTZ00301 uridine kinase; Provisional
Probab=79.16 E-value=4 Score=32.81 Aligned_cols=14 Identities=36% Similarity=0.373 Sum_probs=11.8
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|.+++++|||||..
T Consensus 6 IgIaG~SgSGKTTl 19 (210)
T PTZ00301 6 IGISGASGSGKSSL 19 (210)
T ss_pred EEEECCCcCCHHHH
Confidence 56789999999974
No 316
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=79.04 E-value=2 Score=38.30 Aligned_cols=28 Identities=25% Similarity=0.469 Sum_probs=22.3
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
.|+.+||.+.+|||||+ |.|-+++.+..
T Consensus 9 ~G~TLLIKG~PGTGKTt-faLelL~~l~~ 36 (484)
T PF07088_consen 9 PGQTLLIKGEPGTGKTT-FALELLNSLKD 36 (484)
T ss_pred CCcEEEEecCCCCCcee-eehhhHHHHhc
Confidence 47899999999999998 55666666643
No 317
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=79.04 E-value=1.2 Score=35.98 Aligned_cols=19 Identities=32% Similarity=0.478 Sum_probs=14.0
Q ss_pred cCCCcEEEEccCCCchhhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTla 121 (178)
..+.++++.++.|+|||..
T Consensus 20 aG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 20 AGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp HCC--EEEES-CCCTHHHH
T ss_pred cCCCCeEEECCCCCCHHHH
Confidence 3578999999999999976
No 318
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=78.95 E-value=1.4 Score=38.51 Aligned_cols=17 Identities=29% Similarity=0.468 Sum_probs=15.0
Q ss_pred CcEEEEccCCCchhhHh
Q psy12984 106 RDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf 122 (178)
.++++-++||||||+.-
T Consensus 43 ~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 43 SNIIIYGPTGTGKTATV 59 (366)
T ss_pred ccEEEECCCCCCHhHHH
Confidence 47999999999999973
No 319
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=78.93 E-value=1.5 Score=33.57 Aligned_cols=19 Identities=21% Similarity=0.342 Sum_probs=16.5
Q ss_pred cCCCcEEEEccCCCchhhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTla 121 (178)
..|+-+++++++|+|||..
T Consensus 12 ~~g~gvLi~G~sG~GKStl 30 (149)
T cd01918 12 VGGIGVLITGPSGIGKSEL 30 (149)
T ss_pred ECCEEEEEEcCCCCCHHHH
Confidence 4588999999999999954
No 320
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=78.93 E-value=7.1 Score=35.02 Aligned_cols=50 Identities=18% Similarity=0.074 Sum_probs=29.1
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
..+++.+++|+|||.. +-.+.+.+... .+...++++ +..++..++...+.
T Consensus 142 npl~i~G~~G~GKTHL-l~Ai~~~l~~~--~~~~~v~yv-~~~~f~~~~~~~l~ 191 (450)
T PRK14087 142 NPLFIYGESGMGKTHL-LKAAKNYIESN--FSDLKVSYM-SGDEFARKAVDILQ 191 (450)
T ss_pred CceEEECCCCCcHHHH-HHHHHHHHHHh--CCCCeEEEE-EHHHHHHHHHHHHH
Confidence 4588999999999942 23444444332 233354544 44666666554443
No 321
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=78.74 E-value=1.8 Score=31.27 Aligned_cols=21 Identities=24% Similarity=0.316 Sum_probs=17.6
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|||||.-+
T Consensus 8 i~~g~~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 8 IKPGEIVAIVGPNGSGKSTLL 28 (137)
T ss_dssp EETTSEEEEEESTTSSHHHHH
T ss_pred EcCCCEEEEEccCCCccccce
Confidence 446888999999999999854
No 322
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=78.35 E-value=2.5 Score=37.06 Aligned_cols=17 Identities=29% Similarity=0.427 Sum_probs=14.9
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
.+.+++.+|+|+|||+.
T Consensus 165 p~gvLL~GppGtGKT~l 181 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLL 181 (389)
T ss_pred CCceEEECCCCCChHHH
Confidence 36799999999999975
No 323
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.20 E-value=6.6 Score=39.10 Aligned_cols=57 Identities=16% Similarity=0.047 Sum_probs=37.6
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
+.|.. +|.|..|||||.+...-++..+.........+.++++=|++=+..+...++.
T Consensus 8 l~G~~-lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 8 LNGTF-LIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred CCCCE-EEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHH
Confidence 46754 4577789999999887777777754222334778887776655555544443
No 324
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=78.10 E-value=1.6 Score=38.75 Aligned_cols=19 Identities=37% Similarity=0.440 Sum_probs=16.1
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
...++++.+|||+|||...
T Consensus 107 ~~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 107 QKSNILLIGPTGSGKTLLA 125 (412)
T ss_pred CCceEEEEcCCCCCHHHHH
Confidence 4578999999999999763
No 325
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=77.88 E-value=7.1 Score=37.75 Aligned_cols=81 Identities=17% Similarity=0.088 Sum_probs=60.6
Q ss_pred CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhc
Q psy12984 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKST 165 (178)
Q Consensus 86 ~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~ 165 (178)
.|. +|+.+|...--.+..| -|+-..||-||||+..+|+--.-+ .+.++-+++..--||.--..++..+..++
T Consensus 77 lg~-~~~dVQliG~i~lh~g--~iaEM~TGEGKTL~atlp~ylnaL-----~gkgVhvVTvNdYLA~RDae~m~~l~~~L 148 (822)
T COG0653 77 LGM-RHFDVQLLGGIVLHLG--DIAEMRTGEGKTLVATLPAYLNAL-----AGKGVHVVTVNDYLARRDAEWMGPLYEFL 148 (822)
T ss_pred cCC-ChhhHHHhhhhhhcCC--ceeeeecCCchHHHHHHHHHHHhc-----CCCCcEEeeehHHhhhhCHHHHHHHHHHc
Confidence 466 7888987655333333 456789999999999999854332 34466778888889999999999999999
Q ss_pred CCCCcceEE
Q psy12984 166 QPPTVIKVQ 174 (178)
Q Consensus 166 ~~~~~~~v~ 174 (178)
|..+++.+.
T Consensus 149 GlsvG~~~~ 157 (822)
T COG0653 149 GLSVGVILA 157 (822)
T ss_pred CCceeeccC
Confidence 988776543
No 326
>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=77.79 E-value=1.5 Score=34.11 Aligned_cols=14 Identities=29% Similarity=0.458 Sum_probs=12.7
Q ss_pred cEEEEccCCCchhh
Q psy12984 107 DLVGSAKTGSGKTL 120 (178)
Q Consensus 107 dvi~~a~TGsGKTl 120 (178)
+++.++|||+|||.
T Consensus 5 ~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 5 NFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEESSTTSSHHH
T ss_pred EEEEECCCCCCHHH
Confidence 57899999999995
No 327
>KOG2373|consensus
Probab=77.65 E-value=6.4 Score=34.81 Aligned_cols=79 Identities=24% Similarity=0.317 Sum_probs=42.2
Q ss_pred ccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccc---c----CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCC
Q psy12984 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPL---L----EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 137 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~---l----~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~ 137 (178)
..+|.+|...+-.+++..=...|| |..-+|.+ + .|.=.+..+|||||||...+=-.|..+..
T Consensus 232 i~sf~~mRe~ilseL~N~e~v~G~------~WkRFpvLNk~LkGhR~GElTvlTGpTGsGKTTFlsEYsLDL~~Q----- 300 (514)
T KOG2373|consen 232 IRSFTDMREGILSELLNTERVVGF------QWKRFPVLNKYLKGHRPGELTVLTGPTGSGKTTFLSEYSLDLFTQ----- 300 (514)
T ss_pred hhhHHHHHHHHHHHHhhhhhhhce------eehhhhHHHHHhccCCCCceEEEecCCCCCceeEehHhhHHHHhh-----
Confidence 455666543333344432222443 44444433 3 34567889999999998755555554433
Q ss_pred CCceEE---EeecHHHHHHH
Q psy12984 138 RNGKSW---QGKLRPLTNGV 154 (178)
Q Consensus 138 ~~~~~~---l~Ptr~La~qi 154 (178)
+...++ =.|..-||.-.
T Consensus 301 GVnTLwgSFEi~n~rla~~m 320 (514)
T KOG2373|consen 301 GVNTLWGSFEIPNKRLAHWM 320 (514)
T ss_pred hhhheeeeeecchHHHHHHH
Confidence 333333 34555566543
No 328
>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=77.62 E-value=7.8 Score=31.13 Aligned_cols=45 Identities=16% Similarity=0.114 Sum_probs=26.0
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
-+++.+++|+|||- .+-.+.+.+... .+..+++|+. ..+....+.
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~--~~~~~v~y~~-~~~f~~~~~ 80 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQ--HPGKRVVYLS-AEEFIREFA 80 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHH--CTTS-EEEEE-HHHHHHHHH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhc--cccccceeec-HHHHHHHHH
Confidence 48899999999998 344555545432 2344555553 334444433
No 329
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=77.46 E-value=10 Score=33.78 Aligned_cols=20 Identities=30% Similarity=0.356 Sum_probs=16.2
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.|+.+++.+|||+|||..-.
T Consensus 220 ~~~~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLA 239 (424)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 46788999999999997643
No 330
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=77.35 E-value=1.3 Score=34.68 Aligned_cols=26 Identities=31% Similarity=0.478 Sum_probs=18.8
Q ss_pred HhhccccCCC--cEEEEccCCCchhhHh
Q psy12984 97 RTIPPLLEGR--DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 97 ~aip~~l~g~--dvi~~a~TGsGKTlaf 122 (178)
.++..++.|. .+++.++||||||...
T Consensus 14 ~~v~~~~~G~n~~i~~yG~tGsGKT~Tm 41 (186)
T cd01363 14 PLLQSALDGYNVCIFAYGQTGSGKTYTM 41 (186)
T ss_pred HHHHHHhCCcceeEEEECCCCCcceEec
Confidence 3455566775 4678899999999653
No 331
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=77.35 E-value=1.5 Score=32.58 Aligned_cols=13 Identities=38% Similarity=0.539 Sum_probs=11.6
Q ss_pred EEEEccCCCchhh
Q psy12984 108 LVGSAKTGSGKTL 120 (178)
Q Consensus 108 vi~~a~TGsGKTl 120 (178)
+++.+|||||||.
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 5788999999996
No 332
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=77.30 E-value=1.4 Score=39.81 Aligned_cols=19 Identities=32% Similarity=0.524 Sum_probs=16.9
Q ss_pred cCCCcEEEEccCCCchhhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTla 121 (178)
..|+++++.+|+|||||..
T Consensus 196 AGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 196 AGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred hcCCcEEEecCCCCchHHh
Confidence 4579999999999999975
No 333
>PRK08939 primosomal protein DnaI; Reviewed
Probab=77.29 E-value=8.5 Score=32.74 Aligned_cols=48 Identities=8% Similarity=0.014 Sum_probs=27.6
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
.++.+++.+++|+|||.... .+.+.+.. .+..+. .+..-+|..++...
T Consensus 155 ~~~gl~L~G~~G~GKThLa~-Aia~~l~~----~g~~v~-~~~~~~l~~~lk~~ 202 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLA-AIANELAK----KGVSST-LLHFPEFIRELKNS 202 (306)
T ss_pred CCCeEEEECCCCCCHHHHHH-HHHHHHHH----cCCCEE-EEEHHHHHHHHHHH
Confidence 35789999999999997544 33333332 122333 33334555555443
No 334
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=77.28 E-value=1.4 Score=37.65 Aligned_cols=17 Identities=35% Similarity=0.260 Sum_probs=13.9
Q ss_pred CcEEEEccCCCchhhHh
Q psy12984 106 RDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf 122 (178)
+=+++++|||||||...
T Consensus 5 ~~i~i~GptgsGKt~la 21 (307)
T PRK00091 5 KVIVIVGPTASGKTALA 21 (307)
T ss_pred eEEEEECCCCcCHHHHH
Confidence 34789999999999753
No 335
>PRK13909 putative recombination protein RecB; Provisional
Probab=77.16 E-value=6.7 Score=38.28 Aligned_cols=54 Identities=19% Similarity=0.098 Sum_probs=37.9
Q ss_pred EEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 109 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 109 i~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
+..|+-|||||.+...-.|..|..... ....++|+=|+.=|..+...+...+..
T Consensus 2 ~~~AsAGsGKT~~L~~~yl~ll~~~~~--~~~IlavTFT~kAa~Emk~Ri~~~L~~ 55 (910)
T PRK13909 2 ALKASAGSGKTFALSVRFLALLFKGAN--PSEILALTFTKKAANEMKERIIDTLLN 55 (910)
T ss_pred ceecCCCCchhHHHHHHHHHHHhcCCC--cceEEEEeehHHHHHHHHHHHHHHHHH
Confidence 467899999999988888887776432 236677887877666666655554443
No 336
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=77.05 E-value=1.9 Score=33.09 Aligned_cols=17 Identities=24% Similarity=0.407 Sum_probs=15.1
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
|+-+++++++|||||..
T Consensus 2 ~~~i~l~G~~gsGKst~ 18 (175)
T cd00227 2 GRIIILNGGSSAGKSSI 18 (175)
T ss_pred CCEEEEECCCCCCHHHH
Confidence 67789999999999975
No 337
>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=77.02 E-value=2.3 Score=35.20 Aligned_cols=38 Identities=13% Similarity=-0.089 Sum_probs=20.6
Q ss_pred EEEEccCCCchhhHh-HHHHHHHHHhccCCCCCceEEEe
Q psy12984 108 LVGSAKTGSGKTLAF-LVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 108 vi~~a~TGsGKTlaf-~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
+=+++++|||||-.- -+.+-..+.........+++||.
T Consensus 41 tEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyid 79 (256)
T PF08423_consen 41 TEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYID 79 (256)
T ss_dssp EEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEE
T ss_pred EEEEEecccccchHHHHHHHHhhcccccccCCCceEEEe
Confidence 346899999999643 33332222221122345677773
No 338
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=76.89 E-value=2.6 Score=30.99 Aligned_cols=70 Identities=11% Similarity=0.154 Sum_probs=42.0
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHHhccC-----------------CCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-----------------MPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-----------------~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
......|++.+++||||+.+.- .|+....... ....++++|-..-.|..+.+..+..++..
T Consensus 18 a~~~~pvli~GE~GtGK~~~A~--~lh~~~~~~~~~~~~~~~~~~~~~~l~~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~ 95 (138)
T PF14532_consen 18 AKSSSPVLITGEPGTGKSLLAR--ALHRYSGRANGPFIVIDCASLPAELLEQAKGGTLYLKNIDRLSPEAQRRLLDLLKR 95 (138)
T ss_dssp HCSSS-EEEECCTTSSHHHHHH--CCHHTTTTCCS-CCCCCHHCTCHHHHHHCTTSEEEEECGCCS-HHHHHHHHHHHHH
T ss_pred hCCCCcEEEEcCCCCCHHHHHH--HHHhhcCccCCCeEEechhhCcHHHHHHcCCCEEEECChHHCCHHHHHHHHHHHHh
Confidence 4567899999999999998622 2222111100 11446788877777888777777777766
Q ss_pred cCCCCcceEE
Q psy12984 165 TQPPTVIKVQ 174 (178)
Q Consensus 165 ~~~~~~~~v~ 174 (178)
.. ..++++.
T Consensus 96 ~~-~~~~RlI 104 (138)
T PF14532_consen 96 QE-RSNVRLI 104 (138)
T ss_dssp CT-TTTSEEE
T ss_pred cC-CCCeEEE
Confidence 43 3344443
No 339
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=76.77 E-value=12 Score=33.41 Aligned_cols=19 Identities=32% Similarity=0.379 Sum_probs=16.2
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
.++-+...+|||.|||...
T Consensus 202 ~~~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTL 220 (407)
T ss_pred cCcEEEEECCCCCcHHHHH
Confidence 4788999999999999663
No 340
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=76.73 E-value=1.8 Score=36.82 Aligned_cols=17 Identities=35% Similarity=0.421 Sum_probs=15.0
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
+.++++.+|+|+|||..
T Consensus 40 ~~~i~I~G~~GtGKT~l 56 (365)
T TIGR02928 40 PSNVFIYGKTGTGKTAV 56 (365)
T ss_pred CCcEEEECCCCCCHHHH
Confidence 36899999999999976
No 341
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=76.53 E-value=2.6 Score=35.92 Aligned_cols=16 Identities=31% Similarity=0.455 Sum_probs=13.2
Q ss_pred EEEEccCCCchhhHhH
Q psy12984 108 LVGSAKTGSGKTLAFL 123 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~ 123 (178)
||+.++|||||+....
T Consensus 130 viiVGaTGSGKSTtmA 145 (375)
T COG5008 130 VIIVGATGSGKSTTMA 145 (375)
T ss_pred EEEECCCCCCchhhHH
Confidence 6788999999987643
No 342
>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=76.52 E-value=1.8 Score=38.51 Aligned_cols=20 Identities=40% Similarity=0.459 Sum_probs=16.5
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
+...++++.+|||+|||...
T Consensus 114 ~~~~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 114 LSKSNILLIGPTGSGKTLLA 133 (413)
T ss_pred cCCceEEEECCCCcCHHHHH
Confidence 34568999999999999763
No 343
>PRK07261 topology modulation protein; Provisional
Probab=76.34 E-value=1.6 Score=33.64 Aligned_cols=16 Identities=25% Similarity=0.258 Sum_probs=13.5
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
-+++.+++|||||...
T Consensus 2 ri~i~G~~GsGKSTla 17 (171)
T PRK07261 2 KIAIIGYSGSGKSTLA 17 (171)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 3788999999999754
No 344
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=76.29 E-value=1.7 Score=33.23 Aligned_cols=17 Identities=24% Similarity=0.325 Sum_probs=14.2
Q ss_pred CcEEEEccCCCchhhHh
Q psy12984 106 RDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf 122 (178)
+-+++.+++|||||...
T Consensus 2 ~~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLL 18 (179)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 44789999999999764
No 345
>PHA02535 P terminase ATPase subunit; Provisional
Probab=76.24 E-value=18 Score=33.71 Aligned_cols=72 Identities=11% Similarity=-0.031 Sum_probs=49.2
Q ss_pred CCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhh
Q psy12984 89 TKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 89 ~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~ 164 (178)
..+++.|+..+..-+..+.-++.-.--.|+|..|.+=++..... .+...++|+|+++-|.....-+..+.+.
T Consensus 137 ~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~----~G~nqiflSas~~QA~~f~~yi~~~a~~ 208 (581)
T PHA02535 137 DSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALL----TGRNQIFLSASKAQAHVFKQYIIAFARE 208 (581)
T ss_pred HHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHh----cCCceEEECCCHHHHHHHHHHHHHHHHh
Confidence 47788999877553223333333333589999999877776654 2335688999999999877666666554
No 346
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=76.05 E-value=6.4 Score=34.74 Aligned_cols=19 Identities=32% Similarity=0.349 Sum_probs=15.9
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
+..+++.+|||+|||.+..
T Consensus 174 ~~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIA 192 (388)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4678899999999998753
No 347
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=75.96 E-value=0.97 Score=40.84 Aligned_cols=29 Identities=24% Similarity=0.350 Sum_probs=23.9
Q ss_pred HHHhhccccCCCcEEEEccCCCchhhHhH
Q psy12984 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 95 Q~~aip~~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+...|+.-+.+||-+|++.||+|||...-
T Consensus 9 ~~v~l~~~~~NRHGLIaGATGTGKTvTLq 37 (502)
T PF05872_consen 9 APVYLPLKMANRHGLIAGATGTGKTVTLQ 37 (502)
T ss_pred CceecChhhccccceeeccCCCCceehHH
Confidence 34567777789999999999999998754
No 348
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=75.91 E-value=2 Score=37.08 Aligned_cols=18 Identities=22% Similarity=0.287 Sum_probs=15.6
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
+.++++.+++|+|||...
T Consensus 55 ~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 367999999999999863
No 349
>KOG1806|consensus
Probab=75.86 E-value=7 Score=38.75 Aligned_cols=71 Identities=15% Similarity=0.125 Sum_probs=48.8
Q ss_pred CCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 87 GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 87 g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.+-..|+-|-++|-....--++++.+|+|+|||-..+ =+|..+..+ .+..++++++....=-+|.+.-+.+
T Consensus 735 n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~av-qil~~lyhn--~p~qrTlivthsnqaln~lfeKi~~ 805 (1320)
T KOG1806|consen 735 NQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAV-QILSVLYHN--SPNQRTLIVTHSNQALNQLFEKIMA 805 (1320)
T ss_pred chhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhh-hhhhhhhhc--CCCcceEEEEecccchhHHHHHHHh
Confidence 3446688999999887777899999999999997654 233333332 5566888888765555555554443
No 350
>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=75.81 E-value=5.3 Score=31.48 Aligned_cols=20 Identities=25% Similarity=0.218 Sum_probs=16.0
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.|.=+++.+++|+|||...+
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~ 37 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAI 37 (218)
T ss_pred CCeEEEEECCCCCCHHHHHH
Confidence 35668899999999997543
No 351
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=75.66 E-value=1.6 Score=37.37 Aligned_cols=14 Identities=43% Similarity=0.425 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++++||+||||..
T Consensus 6 i~I~GPTAsGKT~l 19 (308)
T COG0324 6 IVIAGPTASGKTAL 19 (308)
T ss_pred EEEECCCCcCHHHH
Confidence 68899999999964
No 352
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=75.35 E-value=1.9 Score=36.65 Aligned_cols=24 Identities=33% Similarity=0.454 Sum_probs=20.2
Q ss_pred hccccCCCcEEEEccCCCchhhHh
Q psy12984 99 IPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 99 ip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
+-+++.|+++++-+++|+|||...
T Consensus 37 l~a~~~~~~vll~G~PG~gKT~la 60 (329)
T COG0714 37 LLALLAGGHVLLEGPPGVGKTLLA 60 (329)
T ss_pred HHHHHcCCCEEEECCCCccHHHHH
Confidence 345678999999999999999853
No 353
>PRK08118 topology modulation protein; Reviewed
Probab=75.08 E-value=1.8 Score=33.27 Aligned_cols=14 Identities=29% Similarity=0.442 Sum_probs=12.6
Q ss_pred cEEEEccCCCchhh
Q psy12984 107 DLVGSAKTGSGKTL 120 (178)
Q Consensus 107 dvi~~a~TGsGKTl 120 (178)
-|+|.+++|||||.
T Consensus 3 rI~I~G~~GsGKST 16 (167)
T PRK08118 3 KIILIGSGGSGKST 16 (167)
T ss_pred EEEEECCCCCCHHH
Confidence 48899999999996
No 354
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=75.01 E-value=6.5 Score=31.19 Aligned_cols=25 Identities=40% Similarity=0.267 Sum_probs=18.2
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
.|.-+++.+++|+|||..-+--+.+
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~ 46 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVE 46 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4677899999999998754433433
No 355
>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=74.86 E-value=4.5 Score=38.45 Aligned_cols=19 Identities=16% Similarity=0.295 Sum_probs=16.2
Q ss_pred CcEEEEccCCCchhhHhHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~l 124 (178)
.+++|.++||||||..-..
T Consensus 431 ~n~~I~G~tGsGKS~~~~~ 449 (797)
T TIGR02746 431 YNIAVVGGSGAGKSFFMQE 449 (797)
T ss_pred cceEEEcCCCCCHHHHHHH
Confidence 4799999999999987554
No 356
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=74.85 E-value=4.8 Score=34.94 Aligned_cols=16 Identities=25% Similarity=-0.024 Sum_probs=13.2
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
.=+.+++++|||||..
T Consensus 127 ~ItEI~G~~GsGKTql 142 (344)
T PLN03187 127 CITEAFGEFRSGKTQL 142 (344)
T ss_pred eEEEEecCCCCChhHH
Confidence 4466899999999974
No 357
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=74.83 E-value=2 Score=32.72 Aligned_cols=17 Identities=35% Similarity=0.395 Sum_probs=13.9
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
|+=+++.+|+|||||..
T Consensus 1 g~ii~l~G~~GsGKsTl 17 (180)
T TIGR03263 1 GLLIVISGPSGVGKSTL 17 (180)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 44578899999999973
No 358
>PRK04296 thymidine kinase; Provisional
Probab=74.72 E-value=5.7 Score=31.07 Aligned_cols=19 Identities=21% Similarity=0.146 Sum_probs=14.3
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
|.=+++.++.|+|||...+
T Consensus 2 g~i~litG~~GsGKTT~~l 20 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELL 20 (190)
T ss_pred cEEEEEECCCCCHHHHHHH
Confidence 3446789999999996543
No 359
>KOG0741|consensus
Probab=74.62 E-value=12 Score=34.83 Aligned_cols=56 Identities=20% Similarity=0.199 Sum_probs=33.8
Q ss_pred CCccchHhhc-ccCCHHHHHHHHHC----CCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 63 LSSTQFEALK-GKVCENTLKAIADM----GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 63 ~~~~~f~~l~-~~l~~~ll~~l~~~----g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
.+...|++|+ .+|+.+.-..+.+. -| .|--+-+.-| .+-+.++.-+|+|+||||..
T Consensus 213 ~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvF-pp~vie~lGi---~HVKGiLLyGPPGTGKTLiA 273 (744)
T KOG0741|consen 213 NPDFNFESMGIGGLDKEFSDIFRRAFASRVF-PPEVIEQLGI---KHVKGILLYGPPGTGKTLIA 273 (744)
T ss_pred CCCCChhhcccccchHHHHHHHHHHHHhhcC-CHHHHHHcCc---cceeeEEEECCCCCChhHHH
Confidence 3445688887 35777765555442 12 1222222222 23368999999999999964
No 360
>PRK08233 hypothetical protein; Provisional
Probab=74.43 E-value=1.9 Score=32.63 Aligned_cols=14 Identities=36% Similarity=0.378 Sum_probs=11.6
Q ss_pred cEEEEccCCCchhh
Q psy12984 107 DLVGSAKTGSGKTL 120 (178)
Q Consensus 107 dvi~~a~TGsGKTl 120 (178)
=|.+.+++|||||.
T Consensus 5 iI~I~G~~GsGKtT 18 (182)
T PRK08233 5 IITIAAVSGGGKTT 18 (182)
T ss_pred EEEEECCCCCCHHH
Confidence 36678999999995
No 361
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=74.41 E-value=7.9 Score=34.98 Aligned_cols=53 Identities=21% Similarity=0.176 Sum_probs=31.1
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.|.-+++.+++|+|||.-.+--+.+.+.+ .+..++|+ -+-+-..|+...+..+
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~----~ge~~lyi-s~ee~~~~i~~~~~~~ 82 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKR----FDEPGVFV-TFEESPEDIIRNVASF 82 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHh----cCCCEEEE-EccCCHHHHHHHHHHc
Confidence 47889999999999998643334444432 13355555 3444444555555443
No 362
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=74.30 E-value=6.4 Score=36.25 Aligned_cols=66 Identities=20% Similarity=0.102 Sum_probs=45.4
Q ss_pred HHHHHhhccccCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 93 ~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
..|.+|.=..-.|.- .+.+-.|||||...++-+-+.-.. .+..+.++-+=||.|+.++...+..++
T Consensus 165 ~~Q~kaa~~~~~G~q-rIrGLAGSGKT~~La~Kaa~lh~k---nPd~~I~~Tfftk~L~s~~r~lv~~F~ 230 (660)
T COG3972 165 TDQTKAAFQSGFGKQ-RIRGLAGSGKTELLAHKAAELHSK---NPDSRIAFTFFTKILASTMRTLVPEFF 230 (660)
T ss_pred chhheeeeecCCchh-hhhcccCCCchhHHHHHHHHHhcC---CCCceEEEEeehHHHHHHHHHHHHHHH
Confidence 456665544455655 457888999999877655442222 344466777899999999988877766
No 363
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=74.03 E-value=12 Score=33.39 Aligned_cols=46 Identities=20% Similarity=0.146 Sum_probs=25.7
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
..+++.+++|+|||.... .+.+.+... .+...++++ +...+..++.
T Consensus 149 ~~l~l~G~~G~GKThL~~-ai~~~~~~~--~~~~~v~yi-~~~~~~~~~~ 194 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLH-AIGNYILEK--NPNAKVVYV-TSEKFTNDFV 194 (450)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHh--CCCCeEEEE-EHHHHHHHHH
Confidence 468999999999997532 333333321 223344444 4445544433
No 364
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=73.90 E-value=2.3 Score=32.41 Aligned_cols=15 Identities=33% Similarity=0.321 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhHh
Q psy12984 108 LVGSAKTGSGKTLAF 122 (178)
Q Consensus 108 vi~~a~TGsGKTlaf 122 (178)
.++.|++|+|||..+
T Consensus 22 ~vi~G~Ng~GKStil 36 (202)
T PF13476_consen 22 NVIYGPNGSGKSTIL 36 (202)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 456899999999865
No 365
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=73.68 E-value=2.3 Score=34.94 Aligned_cols=28 Identities=25% Similarity=0.325 Sum_probs=19.9
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
+..|.=+.+++|+|||||. +|-+|+.|.
T Consensus 25 v~~Gevv~iiGpSGSGKST--lLRclN~LE 52 (240)
T COG1126 25 VEKGEVVVIIGPSGSGKST--LLRCLNGLE 52 (240)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHHCCc
Confidence 3457778999999999997 334444443
No 366
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=73.66 E-value=22 Score=30.50 Aligned_cols=33 Identities=24% Similarity=0.347 Sum_probs=23.3
Q ss_pred CCCcHHHHHhhcccc----CCC---cEEEEccCCCchhhH
Q psy12984 89 TKMTEIQARTIPPLL----EGR---DLVGSAKTGSGKTLA 121 (178)
Q Consensus 89 ~~pt~iQ~~aip~~l----~g~---dvi~~a~TGsGKTla 121 (178)
..++|.|..+|..+. .|+ -++..++.|+||+..
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~l 42 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAV 42 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHH
Confidence 356677777776543 343 488999999998864
No 367
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=73.63 E-value=3.8 Score=38.85 Aligned_cols=53 Identities=15% Similarity=0.225 Sum_probs=30.3
Q ss_pred CccchHhhcccCCHHHHHHHHH---CCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 64 SSTQFEALKGKVCENTLKAIAD---MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 64 ~~~~f~~l~~~l~~~ll~~l~~---~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
...+|++++ ++.. .++.+.+ .-+.+|--.+... +..++.+++.+|+|+|||..
T Consensus 173 ~~~~~~di~-G~~~-~~~~l~~~i~~~~~~~~~~~~~g---i~~~~giLL~GppGtGKT~l 228 (733)
T TIGR01243 173 PKVTYEDIG-GLKE-AKEKIREMVELPMKHPELFEHLG---IEPPKGVLLYGPPGTGKTLL 228 (733)
T ss_pred CCCCHHHhc-CHHH-HHHHHHHHHHHHhhCHHHHHhcC---CCCCceEEEECCCCCChHHH
Confidence 446788886 2333 3333322 1233333333322 23467899999999999965
No 368
>KOG0738|consensus
Probab=73.62 E-value=1.6 Score=38.83 Aligned_cols=16 Identities=31% Similarity=0.524 Sum_probs=14.7
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
+.|+..+|+|+|||+.
T Consensus 246 kgvLm~GPPGTGKTlL 261 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLL 261 (491)
T ss_pred ceeeeeCCCCCcHHHH
Confidence 6899999999999985
No 369
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=73.61 E-value=1.8 Score=32.59 Aligned_cols=14 Identities=36% Similarity=0.406 Sum_probs=11.6
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++++++|||||..
T Consensus 1 i~l~G~~GsGKSTl 14 (163)
T TIGR01313 1 FVLMGVAGSGKSTI 14 (163)
T ss_pred CEEECCCCCCHHHH
Confidence 46789999999954
No 370
>KOG0744|consensus
Probab=73.54 E-value=16 Score=32.11 Aligned_cols=60 Identities=12% Similarity=0.029 Sum_probs=33.7
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCC-ceEEEe-----------ecHHHHHHHHHHHHHHhhh
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN-GKSWQG-----------KLRPLTNGVYLVACNVFKS 164 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~-~~~~l~-----------Ptr~La~qi~~~~~~l~~~ 164 (178)
-.|=+++.+|+|+|||- .|=.+.+++.-+-..... +.++=. -.--|..++++.++.+...
T Consensus 176 ~NRliLlhGPPGTGKTS-LCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~d 247 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTS-LCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVED 247 (423)
T ss_pred eeeEEEEeCCCCCChhH-HHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHHhC
Confidence 35668999999999995 233444554322112222 222212 2233677777777777765
No 371
>PRK06620 hypothetical protein; Validated
Probab=73.43 E-value=2.1 Score=34.34 Aligned_cols=17 Identities=29% Similarity=0.219 Sum_probs=14.4
Q ss_pred CcEEEEccCCCchhhHh
Q psy12984 106 RDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf 122 (178)
+.+++.+|+|+|||--.
T Consensus 45 ~~l~l~Gp~G~GKThLl 61 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLT 61 (214)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 45899999999999653
No 372
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=72.95 E-value=9.1 Score=34.59 Aligned_cols=51 Identities=20% Similarity=0.036 Sum_probs=29.9
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACN 160 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~ 160 (178)
.|.-+++.+++|+|||...+--+.+.+. .+..++|++ +-+-..++...+..
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~~-----~g~~~~yis-~e~~~~~i~~~~~~ 322 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAACR-----RGERCLLFA-FEESRAQLIRNARS 322 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh-----CCCcEEEEE-ecCCHHHHHHHHHH
Confidence 4678889999999999854433333332 233556553 33334555555443
No 373
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=72.89 E-value=9.3 Score=38.26 Aligned_cols=50 Identities=12% Similarity=-0.124 Sum_probs=32.4
Q ss_pred EEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 109 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 109 i~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
+|.|+.|||||....--+...+... ...+..+++||... .-+....+..+
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~l~~~--~~~~~~illVPeq~-TF~~e~rl~~~ 54 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQKIKEN--PLGKPIILIVPDQM-TFQMEQALLND 54 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHHHhhC--CCCCcEEEEcCCcc-cHHHHHHHHHh
Confidence 5678899999997766666655442 23557788898763 34444444443
No 374
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=72.62 E-value=2.2 Score=36.16 Aligned_cols=14 Identities=21% Similarity=0.178 Sum_probs=12.3
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++++|||||||..
T Consensus 2 i~i~G~t~~GKs~l 15 (287)
T TIGR00174 2 IFIMGPTAVGKSQL 15 (287)
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999965
No 375
>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=72.38 E-value=15 Score=32.17 Aligned_cols=46 Identities=20% Similarity=0.118 Sum_probs=26.2
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
..+++.+++|+|||... ..+.+.+... .+...++++ +...+..++.
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~--~~~~~v~yi-~~~~~~~~~~ 182 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILEN--NPNAKVVYV-SSEKFTNDFV 182 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHh--CCCCcEEEE-EHHHHHHHHH
Confidence 45789999999999754 3344444332 223355555 3344444433
No 376
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=72.13 E-value=2.3 Score=33.19 Aligned_cols=14 Identities=36% Similarity=0.385 Sum_probs=11.9
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|-|++++|||||..
T Consensus 2 IgI~G~sgSGKTTl 15 (194)
T PF00485_consen 2 IGIAGPSGSGKTTL 15 (194)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 46799999999974
No 377
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=71.66 E-value=2.8 Score=27.27 Aligned_cols=14 Identities=29% Similarity=0.470 Sum_probs=11.9
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+.++++.|||||..
T Consensus 2 i~i~G~~gsGKst~ 15 (69)
T cd02019 2 IAITGGSGSGKSTV 15 (69)
T ss_pred EEEECCCCCCHHHH
Confidence 56789999999875
No 378
>KOG0733|consensus
Probab=71.61 E-value=6 Score=37.29 Aligned_cols=52 Identities=12% Similarity=0.086 Sum_probs=34.2
Q ss_pred cchHhhcccCCHHHHHHHHHCC-CCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 66 TQFEALKGKVCENTLKAIADMG-FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 66 ~~f~~l~~~l~~~ll~~l~~~g-~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
..|++++ +++..+...+.-.. +.+|-.++..-+ .--+.||+.+|+|.|||..
T Consensus 187 v~f~diG-G~d~~~~el~~li~~i~~Pe~~~~lGv---~PprGvLlHGPPGCGKT~l 239 (802)
T KOG0733|consen 187 VSFSDIG-GLDKTLAELCELIIHIKHPEVFSSLGV---RPPRGVLLHGPPGCGKTSL 239 (802)
T ss_pred cchhhcc-ChHHHHHHHHHHHHHhcCchhHhhcCC---CCCCceeeeCCCCccHHHH
Confidence 3688888 56665544432211 666766665533 2247899999999999964
No 379
>PRK05595 replicative DNA helicase; Provisional
Probab=71.60 E-value=12 Score=33.40 Aligned_cols=20 Identities=25% Similarity=0.247 Sum_probs=15.2
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
..|.=+++.|+||.|||...
T Consensus 199 ~~g~liviaarpg~GKT~~a 218 (444)
T PRK05595 199 QKGDMILIAARPSMGKTTFA 218 (444)
T ss_pred CCCcEEEEEecCCCChHHHH
Confidence 34555677999999999743
No 380
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=71.57 E-value=5.9 Score=38.12 Aligned_cols=18 Identities=22% Similarity=0.394 Sum_probs=15.4
Q ss_pred cEEEEccCCCchhhHhHH
Q psy12984 107 DLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~l 124 (178)
+.+|.++||||||..-..
T Consensus 443 n~~I~G~tGsGKS~l~~~ 460 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLAL 460 (811)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 789999999999987444
No 381
>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=71.38 E-value=16 Score=27.26 Aligned_cols=17 Identities=29% Similarity=0.222 Sum_probs=13.0
Q ss_pred EEccCCCchhhHhHHHH
Q psy12984 110 GSAKTGSGKTLAFLVPA 126 (178)
Q Consensus 110 ~~a~TGsGKTlaf~lp~ 126 (178)
..++||+|||.+--+-+
T Consensus 58 fHG~tGtGKn~v~~liA 74 (127)
T PF06309_consen 58 FHGWTGTGKNFVSRLIA 74 (127)
T ss_pred eecCCCCcHHHHHHHHH
Confidence 56999999998755433
No 382
>PF02500 DNA_pack_N: Probable DNA packing protein, N-terminus ; InterPro: IPR003499 This family includes proteins that are probably involved in DNA packing in Herpesviridae. This domain is normally found at the N terminus of the protein.; GO: 0006323 DNA packaging
Probab=71.37 E-value=5.1 Score=33.92 Aligned_cols=48 Identities=19% Similarity=0.299 Sum_probs=38.3
Q ss_pred ccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHh
Q psy12984 112 AKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVF 162 (178)
Q Consensus 112 a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~ 162 (178)
=|-.=|||+ |++|+|..++.. ..+.+.+|++..|=.++-++..+..-+
T Consensus 195 VPRRHGKTW-fvVpiIsllL~s--~~gI~IGYvAHqKhvs~~VF~EI~~~l 242 (284)
T PF02500_consen 195 VPRRHGKTW-FVVPIISLLLAS--FEGIKIGYVAHQKHVSEPVFEEIINRL 242 (284)
T ss_pred eeccCCCcc-hHHHHHHHHHHH--hcCceeeehHHHHHhhHHHHHHHHHHH
Confidence 456789998 888999988764 567788999999999998888755443
No 383
>PRK04195 replication factor C large subunit; Provisional
Probab=71.37 E-value=4.4 Score=36.48 Aligned_cols=47 Identities=15% Similarity=0.124 Sum_probs=29.2
Q ss_pred CCCccchHhhcccCCHHHHHHHHHC--CCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADM--GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~--g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
-|...+|+++- .++...+.|... .|.. -...+.+++.+|+|+|||..
T Consensus 7 KyrP~~l~dlv--g~~~~~~~l~~~l~~~~~-----------g~~~~~lLL~GppG~GKTtl 55 (482)
T PRK04195 7 KYRPKTLSDVV--GNEKAKEQLREWIESWLK-----------GKPKKALLLYGPPGVGKTSL 55 (482)
T ss_pred hcCCCCHHHhc--CCHHHHHHHHHHHHHHhc-----------CCCCCeEEEECCCCCCHHHH
Confidence 45556788886 566555554431 1110 01156899999999999965
No 384
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=71.32 E-value=5.8 Score=35.77 Aligned_cols=53 Identities=11% Similarity=0.211 Sum_probs=28.9
Q ss_pred CccchHhhcccCCHHHHHHHHHC-C-CCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 64 SSTQFEALKGKVCENTLKAIADM-G-FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 64 ~~~~f~~l~~~l~~~ll~~l~~~-g-~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
+..+|+++. -.+.+...+.+. . +..|...+... ....+.+++.+|+|+|||+.
T Consensus 50 ~~~~~~di~--g~~~~k~~l~~~~~~l~~~~~~~~~g---~~~~~giLL~GppGtGKT~l 104 (495)
T TIGR01241 50 PKVTFKDVA--GIDEAKEELMEIVDFLKNPSKFTKLG---AKIPKGVLLVGPPGTGKTLL 104 (495)
T ss_pred CCCCHHHhC--CHHHHHHHHHHHHHHHHCHHHHHhcC---CCCCCcEEEECCCCCCHHHH
Confidence 345788886 333333333221 0 23333333221 12236799999999999975
No 385
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=71.31 E-value=12 Score=39.77 Aligned_cols=61 Identities=8% Similarity=0.001 Sum_probs=42.0
Q ss_pred CCcHHHHHhhccccCC--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVY 155 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~ 155 (178)
.+++-|..|+-.++.. +=++++++.|+|||...- .++. +.. ..+..++.++||.-=|..+.
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~-~l~~-~~~---~~G~~V~~lAPTgrAA~~L~ 491 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQ-LLLH-LAS---EQGYEIQIITAGSLSAQELR 491 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHH-HHHH-HHH---hcCCeEEEEeCCHHHHHHHH
Confidence 5788999999888765 668889999999997532 2333 222 23457778899965444443
No 386
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=71.11 E-value=3.6 Score=29.73 Aligned_cols=22 Identities=23% Similarity=0.187 Sum_probs=17.3
Q ss_pred cCCCcEEEEccCCCchhhHhHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~l 124 (178)
..|.-+.+.+++|+|||....+
T Consensus 13 ~~ge~v~I~GpSGsGKSTLl~~ 34 (107)
T cd00820 13 YGKVGVLITGDSGIGKTELALE 34 (107)
T ss_pred cCCEEEEEEcCCCCCHHHHHHH
Confidence 3467788999999999986544
No 387
>PRK05541 adenylylsulfate kinase; Provisional
Probab=70.96 E-value=3.1 Score=31.72 Aligned_cols=21 Identities=29% Similarity=0.181 Sum_probs=16.9
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
...|.-+++++++|||||...
T Consensus 4 ~~~~~~I~i~G~~GsGKst~a 24 (176)
T PRK05541 4 KPNGYVIWITGLAGSGKTTIA 24 (176)
T ss_pred CCCCCEEEEEcCCCCCHHHHH
Confidence 345778999999999999753
No 388
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=70.90 E-value=7.2 Score=35.77 Aligned_cols=52 Identities=21% Similarity=0.284 Sum_probs=30.5
Q ss_pred CCCcCCCCccchHhhcccCCH----HHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 57 DVALEILSSTQFEALKGKVCE----NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 57 ~~~~~~~~~~~f~~l~~~l~~----~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
....+.+...+.++|- +++ ++..+|..+ +.. -..++=+|+++|+|+|||.+-
T Consensus 7 ~~W~~ky~P~~~~eLa--vhkkKv~eV~~wl~~~-~~~-----------~~~~~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 7 EPWVEKYAPKTLDELA--VHKKKVEEVRSWLEEM-FSG-----------SSPKRILLLTGPSGCGKTTTV 62 (519)
T ss_pred CccchhcCCCCHHHhh--ccHHHHHHHHHHHHHH-hcc-----------CCCcceEEEECCCCCCHHHHH
Confidence 3444556667777876 776 344444431 100 011234778999999999863
No 389
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=70.75 E-value=3 Score=32.15 Aligned_cols=17 Identities=35% Similarity=0.448 Sum_probs=14.8
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
+|-+++++|+|||||..
T Consensus 2 ~r~ivl~Gpsg~GK~~l 18 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTL 18 (183)
T ss_dssp SSEEEEESSTTSSHHHH
T ss_pred CCEEEEECCCCCCHHHH
Confidence 57789999999999974
No 390
>KOG1533|consensus
Probab=70.67 E-value=4.9 Score=33.57 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=15.6
Q ss_pred EEEEccCCCchhhHhHHHHHHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l 130 (178)
.+|.+|+|||||. |+....+.+
T Consensus 5 qvVIGPPgSGKsT-Yc~g~~~fl 26 (290)
T KOG1533|consen 5 QVVIGPPGSGKST-YCNGMSQFL 26 (290)
T ss_pred eEEEcCCCCCccc-hhhhHHHHH
Confidence 4688999999985 555554433
No 391
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=70.58 E-value=15 Score=32.79 Aligned_cols=20 Identities=30% Similarity=0.243 Sum_probs=16.8
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.|.-+.+.++||+|||....
T Consensus 190 ~g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 46678889999999998765
No 392
>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=70.47 E-value=6.3 Score=33.65 Aligned_cols=19 Identities=16% Similarity=-0.232 Sum_probs=14.8
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
|.=+.+.+++|+|||-..+
T Consensus 96 G~iteI~G~~GsGKTql~l 114 (313)
T TIGR02238 96 MSITEVFGEFRCGKTQLSH 114 (313)
T ss_pred CeEEEEECCCCCCcCHHHH
Confidence 3556799999999997543
No 393
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=70.45 E-value=4.2 Score=35.10 Aligned_cols=20 Identities=20% Similarity=0.307 Sum_probs=17.4
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..++++++.+++|+|||..
T Consensus 61 l~~~~~ilL~G~pGtGKTtl 80 (327)
T TIGR01650 61 FAYDRRVMVQGYHGTGKSTH 80 (327)
T ss_pred HhcCCcEEEEeCCCChHHHH
Confidence 44588999999999999976
No 394
>PRK06893 DNA replication initiation factor; Validated
Probab=70.30 E-value=2.7 Score=33.91 Aligned_cols=17 Identities=18% Similarity=-0.056 Sum_probs=13.7
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
+..+++.+++|+|||--
T Consensus 39 ~~~l~l~G~~G~GKThL 55 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHL 55 (229)
T ss_pred CCeEEEECCCCCCHHHH
Confidence 34578999999999953
No 395
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=70.16 E-value=3.4 Score=37.63 Aligned_cols=33 Identities=21% Similarity=0.151 Sum_probs=23.9
Q ss_pred CcHHHHHhhcc-------ccCCCcEEEEccCCCchhhHhH
Q psy12984 91 MTEIQARTIPP-------LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 91 pt~iQ~~aip~-------~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
-++||..-..+ +..|.-+.+++++|||||...-
T Consensus 11 ~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLLr 50 (504)
T TIGR03238 11 KRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEILA 50 (504)
T ss_pred chHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHHh
Confidence 35666655443 3468889999999999998544
No 396
>KOG1015|consensus
Probab=70.16 E-value=14 Score=36.83 Aligned_cols=68 Identities=13% Similarity=0.010 Sum_probs=40.2
Q ss_pred CCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcCCCCcceEE
Q psy12984 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQPPTVIKVQ 174 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~~~~~~~v~ 174 (178)
|..+|.+.--|-||||-- +..++.++........++||++|...+ +-....|..++..+...-.|.|.
T Consensus 696 GsGcILAHcMGLGKTlQV-vtflhTvL~c~klg~ktaLvV~PlNt~-~NW~~EFekWm~~~e~~~~leV~ 763 (1567)
T KOG1015|consen 696 GSGCILAHCMGLGKTLQV-VTFLHTVLLCDKLGFKTALVVCPLNTA-LNWMNEFEKWMEGLEDDEKLEVS 763 (1567)
T ss_pred CcchHHHHhhcccceehh-hHHHHHHHHhhccCCceEEEEcchHHH-HHHHHHHHHhcccccccccceee
Confidence 566777777799999742 233333333222566689999997554 33455666666654444345443
No 397
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=70.04 E-value=9.5 Score=35.32 Aligned_cols=22 Identities=32% Similarity=0.354 Sum_probs=17.7
Q ss_pred ccCCCcEEEEccCCCchhhHhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+..|..+++.++||+|||....
T Consensus 347 l~~G~vIaLVGPtGvGKTTtaa 368 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTIA 368 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHHH
Confidence 3457788899999999997653
No 398
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=69.92 E-value=2.9 Score=30.38 Aligned_cols=15 Identities=13% Similarity=0.304 Sum_probs=13.3
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
||++.+.+|+|||.-
T Consensus 1 ~i~l~G~~g~GKTtL 15 (170)
T cd01876 1 EIAFAGRSNVGKSSL 15 (170)
T ss_pred CEEEEcCCCCCHHHH
Confidence 688999999999974
No 399
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=69.87 E-value=4 Score=36.66 Aligned_cols=18 Identities=28% Similarity=0.316 Sum_probs=15.5
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
.+++++.+|||+|||...
T Consensus 47 p~~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 47 PKNILMIGPTGVGKTEIA 64 (441)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 378999999999999753
No 400
>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=69.83 E-value=18 Score=29.43 Aligned_cols=39 Identities=26% Similarity=0.135 Sum_probs=23.5
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEe
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~ 145 (178)
..|.=+++.|+||.|||...+--+.+.... .+..+++++
T Consensus 17 ~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~----~~~~vly~S 55 (259)
T PF03796_consen 17 RPGELTVIAARPGVGKTAFALQIALNAALN----GGYPVLYFS 55 (259)
T ss_dssp -TT-EEEEEESTTSSHHHHHHHHHHHHHHT----TSSEEEEEE
T ss_pred CcCcEEEEEecccCCchHHHHHHHHHHHHh----cCCeEEEEc
Confidence 345557889999999998655444444433 224556654
No 401
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=69.83 E-value=5.1 Score=30.96 Aligned_cols=21 Identities=24% Similarity=0.275 Sum_probs=16.3
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+.....|++.+++||||++..
T Consensus 19 a~~~~pVlI~GE~GtGK~~lA 39 (168)
T PF00158_consen 19 ASSDLPVLITGETGTGKELLA 39 (168)
T ss_dssp TTSTS-EEEECSTTSSHHHHH
T ss_pred hCCCCCEEEEcCCCCcHHHHH
Confidence 344578999999999999863
No 402
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=69.82 E-value=3 Score=32.47 Aligned_cols=14 Identities=36% Similarity=0.404 Sum_probs=11.9
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+.+.+++|||||..
T Consensus 2 igi~G~~GsGKSTl 15 (198)
T cd02023 2 IGIAGGSGSGKTTV 15 (198)
T ss_pred EEEECCCCCCHHHH
Confidence 46789999999975
No 403
>PRK06547 hypothetical protein; Provisional
Probab=69.69 E-value=4.7 Score=31.26 Aligned_cols=15 Identities=33% Similarity=0.510 Sum_probs=11.9
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
-|++.+++|||||..
T Consensus 17 ~i~i~G~~GsGKTt~ 31 (172)
T PRK06547 17 TVLIDGRSGSGKTTL 31 (172)
T ss_pred EEEEECCCCCCHHHH
Confidence 455669999999975
No 404
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=69.68 E-value=2.8 Score=40.76 Aligned_cols=20 Identities=15% Similarity=0.287 Sum_probs=14.5
Q ss_pred cCCCcEEEEccCCCchhhHh
Q psy12984 103 LEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf 122 (178)
..+.=++|+++||||||..+
T Consensus 23 f~~gi~lI~G~nGsGKSSIl 42 (908)
T COG0419 23 FDSGIFLIVGPNGAGKSSIL 42 (908)
T ss_pred CCCCeEEEECCCCCcHHHHH
Confidence 33334567999999999753
No 405
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=69.68 E-value=6.1 Score=32.70 Aligned_cols=16 Identities=38% Similarity=0.445 Sum_probs=13.9
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
++++.+++|+|||.+.
T Consensus 40 ~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 40 HLLFAGPPGTGKTTAA 55 (319)
T ss_pred eEEEECCCCCCHHHHH
Confidence 5899999999999764
No 406
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=69.68 E-value=4.1 Score=36.60 Aligned_cols=21 Identities=29% Similarity=0.306 Sum_probs=16.4
Q ss_pred CCcEEEEccCCCchhh-HhHHH
Q psy12984 105 GRDLVGSAKTGSGKTL-AFLVP 125 (178)
Q Consensus 105 g~dvi~~a~TGsGKTl-af~lp 125 (178)
.+++++.+|||+|||. |-.++
T Consensus 50 ~~~ILliGp~G~GKT~LAr~LA 71 (443)
T PRK05201 50 PKNILMIGPTGVGKTEIARRLA 71 (443)
T ss_pred CceEEEECCCCCCHHHHHHHHH
Confidence 4789999999999994 44433
No 407
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=69.66 E-value=13 Score=33.38 Aligned_cols=20 Identities=25% Similarity=0.228 Sum_probs=16.2
Q ss_pred CCcEEEEccCCCchhhHhHH
Q psy12984 105 GRDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~l 124 (178)
++.+++.++||+|||.....
T Consensus 241 ~~vI~LVGptGvGKTTTiaK 260 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAK 260 (436)
T ss_pred CcEEEEECCCCCcHHHHHHH
Confidence 36788999999999987543
No 408
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=69.59 E-value=4.4 Score=31.41 Aligned_cols=45 Identities=24% Similarity=0.387 Sum_probs=31.1
Q ss_pred HHHHHHHHHCCCCCC-----cHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 77 ENTLKAIADMGFTKM-----TEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 77 ~~ll~~l~~~g~~~p-----t~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
+++++...++||... +......+...+.++-+++++++|.||+..
T Consensus 2 ~~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSSL 51 (161)
T PF03193_consen 2 EELLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSSL 51 (161)
T ss_dssp HHHHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHHH
T ss_pred HHHHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 345666777787532 223344555667789999999999999864
No 409
>PRK06762 hypothetical protein; Provisional
Probab=69.48 E-value=3 Score=31.41 Aligned_cols=15 Identities=33% Similarity=0.423 Sum_probs=12.7
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
=+++++++|||||..
T Consensus 4 li~i~G~~GsGKST~ 18 (166)
T PRK06762 4 LIIIRGNSGSGKTTI 18 (166)
T ss_pred EEEEECCCCCCHHHH
Confidence 368899999999974
No 410
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=69.46 E-value=15 Score=32.76 Aligned_cols=47 Identities=15% Similarity=0.046 Sum_probs=26.5
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
..+++.+++|+|||... ..+.+.+... .+...++|+. ...+..++..
T Consensus 131 n~l~lyG~~G~GKTHLl-~ai~~~l~~~--~~~~~v~yi~-~~~f~~~~~~ 177 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLL-QSIGNYVVQN--EPDLRVMYIT-SEKFLNDLVD 177 (440)
T ss_pred CeEEEEcCCCCcHHHHH-HHHHHHHHHh--CCCCeEEEEE-HHHHHHHHHH
Confidence 45899999999999643 2344444331 2233555554 3444444433
No 411
>PRK14737 gmk guanylate kinase; Provisional
Probab=69.37 E-value=3.1 Score=32.69 Aligned_cols=17 Identities=24% Similarity=0.317 Sum_probs=14.4
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
++=+++++|+|+|||..
T Consensus 4 ~~~ivl~GpsG~GK~tl 20 (186)
T PRK14737 4 PKLFIISSVAGGGKSTI 20 (186)
T ss_pred CeEEEEECCCCCCHHHH
Confidence 45689999999999974
No 412
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=69.06 E-value=4.7 Score=34.45 Aligned_cols=22 Identities=18% Similarity=0.169 Sum_probs=18.4
Q ss_pred cccCCCcEEEEccCCCchhhHh
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf 122 (178)
++..+..|++.+.+||||+...
T Consensus 25 ~a~~~~pVlI~GE~GtGK~~lA 46 (326)
T PRK11608 25 LAPLDKPVLIIGERGTGKELIA 46 (326)
T ss_pred HhCCCCCEEEECCCCCcHHHHH
Confidence 3456789999999999999764
No 413
>KOG1123|consensus
Probab=69.05 E-value=2.7 Score=38.66 Aligned_cols=64 Identities=14% Similarity=0.057 Sum_probs=44.6
Q ss_pred CCcHHHHHhhccccC-C--CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 90 KMTEIQARTIPPLLE-G--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 90 ~pt~iQ~~aip~~l~-g--~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.+.|.|..++.-++. | |.-|+.-|.|+|||+.-+-.+. .-..++++||..-.-..|...+|..+
T Consensus 302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~--------tikK~clvLcts~VSVeQWkqQfk~w 368 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAAC--------TIKKSCLVLCTSAVSVEQWKQQFKQW 368 (776)
T ss_pred ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeee--------eecccEEEEecCccCHHHHHHHHHhh
Confidence 467899999987763 3 6778889999999997643321 22347888887766566666555544
No 414
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=68.89 E-value=4.6 Score=30.91 Aligned_cols=21 Identities=29% Similarity=0.506 Sum_probs=17.5
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||..+
T Consensus 25 i~~Ge~~~i~G~nGsGKStLl 45 (178)
T cd03247 25 LKQGEKIALLGRSGSGKSTLL 45 (178)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 346888999999999999743
No 415
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=68.64 E-value=3.5 Score=31.94 Aligned_cols=16 Identities=38% Similarity=0.447 Sum_probs=14.3
Q ss_pred CCcEEEEccCCCchhh
Q psy12984 105 GRDLVGSAKTGSGKTL 120 (178)
Q Consensus 105 g~dvi~~a~TGsGKTl 120 (178)
++-+++++|+|+||+.
T Consensus 2 ~r~ivl~Gpsg~GK~t 17 (184)
T smart00072 2 RRPIVLSGPSGVGKGT 17 (184)
T ss_pred CcEEEEECCCCCCHHH
Confidence 5678999999999997
No 416
>PRK14531 adenylate kinase; Provisional
Probab=68.48 E-value=3.2 Score=32.14 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=13.7
Q ss_pred CcEEEEccCCCchhhH
Q psy12984 106 RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 106 ~dvi~~a~TGsGKTla 121 (178)
+.+++.+++|||||..
T Consensus 3 ~~i~i~G~pGsGKsT~ 18 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQ 18 (183)
T ss_pred cEEEEECCCCCCHHHH
Confidence 3589999999999965
No 417
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=68.48 E-value=7.6 Score=31.74 Aligned_cols=22 Identities=32% Similarity=0.291 Sum_probs=16.2
Q ss_pred EEccCCCchhhHhHHHHHHHHHh
Q psy12984 110 GSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 110 ~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
|.+|.|||||. |+-.+-+++..
T Consensus 1 ViGpaGSGKTT-~~~~~~~~~~~ 22 (238)
T PF03029_consen 1 VIGPAGSGKTT-FCKGLSEWLES 22 (238)
T ss_dssp -EESTTSSHHH-HHHHHHHHHTT
T ss_pred CCCCCCCCHHH-HHHHHHHHHHh
Confidence 46899999986 77677776654
No 418
>PRK05480 uridine/cytidine kinase; Provisional
Probab=68.42 E-value=3.3 Score=32.55 Aligned_cols=17 Identities=29% Similarity=0.180 Sum_probs=13.6
Q ss_pred CCcEEEEccCCCchhhH
Q psy12984 105 GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 105 g~dvi~~a~TGsGKTla 121 (178)
+.-|.+.+++|||||..
T Consensus 6 ~~iI~I~G~sGsGKTTl 22 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTV 22 (209)
T ss_pred CEEEEEECCCCCCHHHH
Confidence 34577899999999964
No 419
>PRK08356 hypothetical protein; Provisional
Probab=68.40 E-value=3.5 Score=32.21 Aligned_cols=16 Identities=25% Similarity=0.084 Sum_probs=13.4
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
-+++++++|||||...
T Consensus 7 ~i~~~G~~gsGK~t~a 22 (195)
T PRK08356 7 IVGVVGKIAAGKTTVA 22 (195)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4778999999999753
No 420
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=68.32 E-value=3.4 Score=32.11 Aligned_cols=14 Identities=36% Similarity=0.335 Sum_probs=12.0
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|.+++++|||||..
T Consensus 2 i~i~G~sgsGKttl 15 (179)
T cd02028 2 VGIAGPSGSGKTTF 15 (179)
T ss_pred EEEECCCCCCHHHH
Confidence 56889999999974
No 421
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=68.28 E-value=3.5 Score=28.77 Aligned_cols=14 Identities=36% Similarity=0.427 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|++.++.|+|||..
T Consensus 2 I~V~G~~g~GKTsL 15 (119)
T PF08477_consen 2 IVVLGDSGVGKTSL 15 (119)
T ss_dssp EEEECSTTSSHHHH
T ss_pred EEEECcCCCCHHHH
Confidence 68899999999974
No 422
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=68.22 E-value=3.7 Score=29.77 Aligned_cols=14 Identities=29% Similarity=0.437 Sum_probs=12.1
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++++++|||||..
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 57889999999975
No 423
>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=68.10 E-value=11 Score=29.77 Aligned_cols=26 Identities=42% Similarity=0.273 Sum_probs=18.7
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVE 128 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~ 128 (178)
..|.=+.+.+++|+|||...+.-+..
T Consensus 17 ~~g~v~~I~G~~GsGKT~l~~~ia~~ 42 (226)
T cd01393 17 PTGRITEIFGEFGSGKTQLCLQLAVE 42 (226)
T ss_pred cCCcEEEEeCCCCCChhHHHHHHHHH
Confidence 34677889999999999865443333
No 424
>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=68.10 E-value=3.3 Score=34.00 Aligned_cols=15 Identities=33% Similarity=0.321 Sum_probs=11.4
Q ss_pred EEEEccCCCchhhHh
Q psy12984 108 LVGSAKTGSGKTLAF 122 (178)
Q Consensus 108 vi~~a~TGsGKTlaf 122 (178)
.++.+|||+|||...
T Consensus 4 ~~i~GpT~tGKt~~a 18 (233)
T PF01745_consen 4 YLIVGPTGTGKTALA 18 (233)
T ss_dssp EEEE-STTSSHHHHH
T ss_pred EEEECCCCCChhHHH
Confidence 467899999999754
No 425
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=68.09 E-value=5.9 Score=37.57 Aligned_cols=52 Identities=12% Similarity=0.176 Sum_probs=29.5
Q ss_pred ccchHhhcccCCHHHHHHHHHC---CCCCCcHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 65 STQFEALKGKVCENTLKAIADM---GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~l~~~---g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
..+|++++ ..+.+.+.|.+. .+.+|.-++..- +...+.+++.+|+|+|||+.
T Consensus 449 ~~~~~di~--g~~~~k~~l~~~v~~~~~~~~~~~~~g---~~~~~giLL~GppGtGKT~l 503 (733)
T TIGR01243 449 NVRWSDIG--GLEEVKQELREAVEWPLKHPEIFEKMG---IRPPKGVLLFGPPGTGKTLL 503 (733)
T ss_pred ccchhhcc--cHHHHHHHHHHHHHhhhhCHHHHHhcC---CCCCceEEEECCCCCCHHHH
Confidence 34677776 445555555441 222332222221 12245799999999999975
No 426
>KOG0090|consensus
Probab=68.07 E-value=2.4 Score=34.75 Aligned_cols=19 Identities=26% Similarity=0.249 Sum_probs=17.3
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
++.|+..++++||||..|.
T Consensus 38 ~~~Vll~Gl~dSGKT~LF~ 56 (238)
T KOG0090|consen 38 QNAVLLVGLSDSGKTSLFT 56 (238)
T ss_pred CCcEEEEecCCCCceeeee
Confidence 4799999999999999886
No 427
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=67.89 E-value=3.3 Score=31.58 Aligned_cols=14 Identities=29% Similarity=0.287 Sum_probs=12.2
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++.+++|||||..
T Consensus 2 i~i~G~pGsGKst~ 15 (183)
T TIGR01359 2 VFVLGGPGSGKGTQ 15 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999975
No 428
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=67.79 E-value=4.8 Score=31.52 Aligned_cols=20 Identities=20% Similarity=0.295 Sum_probs=16.7
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|||||.-
T Consensus 24 i~~G~~~~i~G~nGsGKSTL 43 (214)
T cd03292 24 ISAGEFVFLVGPSGAGKSTL 43 (214)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 34688889999999999973
No 429
>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=67.76 E-value=15 Score=31.62 Aligned_cols=21 Identities=33% Similarity=0.224 Sum_probs=16.9
Q ss_pred cCCCcEEEEccCCCchhhHhH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~ 123 (178)
-.|+=+.+.+++|||||...+
T Consensus 53 p~G~iteI~G~~GsGKTtLaL 73 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLAL 73 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHH
Confidence 346778899999999998544
No 430
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=67.72 E-value=12 Score=35.25 Aligned_cols=56 Identities=16% Similarity=0.245 Sum_probs=34.1
Q ss_pred CCCcCCCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 57 DVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 57 ~~~~~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
.+..+.+....++++- .++..++.+... +....++ ...|+-+++.+|+|+|||..+
T Consensus 72 ~pW~eKyrP~~ldel~--~~~~ki~~l~~~-------l~~~~~~-~~~~~illL~GP~GsGKTTl~ 127 (637)
T TIGR00602 72 EPWVEKYKPETQHELA--VHKKKIEEVETW-------LKAQVLE-NAPKRILLITGPSGCGKSTTI 127 (637)
T ss_pred CchHHHhCCCCHHHhc--CcHHHHHHHHHH-------HHhcccc-cCCCcEEEEECCCCCCHHHHH
Confidence 3445566677888886 777766654431 1111111 122445889999999999863
No 431
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=67.70 E-value=11 Score=29.74 Aligned_cols=26 Identities=19% Similarity=0.298 Sum_probs=19.5
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHh
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYN 132 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~ 132 (178)
..+++.+++|+|||.. ++-+.+.|..
T Consensus 6 mki~ITG~PGvGKtTl-~~ki~e~L~~ 31 (179)
T COG1618 6 MKIFITGRPGVGKTTL-VLKIAEKLRE 31 (179)
T ss_pred eEEEEeCCCCccHHHH-HHHHHHHHHh
Confidence 4689999999999974 4456666654
No 432
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=67.64 E-value=3.9 Score=31.47 Aligned_cols=18 Identities=28% Similarity=0.429 Sum_probs=15.0
Q ss_pred CCCcEEEEccCCCchhhH
Q psy12984 104 EGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTla 121 (178)
..+.+++.+++|+|||..
T Consensus 3 ~~~~I~liG~~GaGKStl 20 (172)
T PRK05057 3 EKRNIFLVGPMGAGKSTI 20 (172)
T ss_pred CCCEEEEECCCCcCHHHH
Confidence 345789999999999975
No 433
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=67.58 E-value=3.4 Score=30.46 Aligned_cols=15 Identities=33% Similarity=0.346 Sum_probs=12.5
Q ss_pred EEEEccCCCchhhHh
Q psy12984 108 LVGSAKTGSGKTLAF 122 (178)
Q Consensus 108 vi~~a~TGsGKTlaf 122 (178)
+++++++|||||...
T Consensus 2 i~l~G~~GsGKST~a 16 (150)
T cd02021 2 IVVMGVSGSGKSTVG 16 (150)
T ss_pred EEEEcCCCCCHHHHH
Confidence 578899999999753
No 434
>KOG0925|consensus
Probab=67.55 E-value=19 Score=33.24 Aligned_cols=52 Identities=21% Similarity=0.190 Sum_probs=33.2
Q ss_pred chHhhcccCCHHHHHHHHHCCCCCC-cHHHHHhhccccCCCcEEEEccCCCchhhH
Q psy12984 67 QFEALKGKVCENTLKAIADMGFTKM-TEIQARTIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 67 ~f~~l~~~l~~~ll~~l~~~g~~~p-t~iQ~~aip~~l~g~dvi~~a~TGsGKTla 121 (178)
.|...+ .++.-.+.+++.. .-| +.-+...+..+....-+++.+.||||||.-
T Consensus 26 pf~~~p--~s~rY~~ilk~R~-~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQ 78 (699)
T KOG0925|consen 26 PFNGKP--YSQRYYDILKKRR-ELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQ 78 (699)
T ss_pred CCCCCc--CcHHHHHHHHHHh-cCchHHhHHHHHHHHhcCceEEEEecCCCCcccc
Confidence 455555 6666666665522 223 334444445566778899999999999975
No 435
>PRK14532 adenylate kinase; Provisional
Probab=67.49 E-value=3.5 Score=31.75 Aligned_cols=15 Identities=20% Similarity=0.244 Sum_probs=13.1
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
++++.+++|||||..
T Consensus 2 ~i~~~G~pGsGKsT~ 16 (188)
T PRK14532 2 NLILFGPPAAGKGTQ 16 (188)
T ss_pred EEEEECCCCCCHHHH
Confidence 588999999999954
No 436
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=67.40 E-value=3.4 Score=31.41 Aligned_cols=16 Identities=25% Similarity=0.175 Sum_probs=13.1
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
-+++.+++|||||...
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4678999999999753
No 437
>PRK06217 hypothetical protein; Validated
Probab=67.28 E-value=3.8 Score=31.62 Aligned_cols=15 Identities=27% Similarity=0.326 Sum_probs=12.8
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
.|++.+.+|||||..
T Consensus 3 ~I~i~G~~GsGKSTl 17 (183)
T PRK06217 3 RIHITGASGSGTTTL 17 (183)
T ss_pred EEEEECCCCCCHHHH
Confidence 488999999999953
No 438
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=67.28 E-value=5.3 Score=34.22 Aligned_cols=22 Identities=23% Similarity=0.199 Sum_probs=18.2
Q ss_pred cccCCCcEEEEccCCCchhhHh
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf 122 (178)
++..+..|++.+++||||+...
T Consensus 18 ~a~~~~pVLI~GE~GtGK~~lA 39 (329)
T TIGR02974 18 LAPLDRPVLIIGERGTGKELIA 39 (329)
T ss_pred HhCCCCCEEEECCCCChHHHHH
Confidence 3456789999999999999853
No 439
>KOG0733|consensus
Probab=67.20 E-value=11 Score=35.72 Aligned_cols=57 Identities=14% Similarity=0.106 Sum_probs=30.7
Q ss_pred CCCccchHhhcc--cCCHHHHHHHHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 62 ILSSTQFEALKG--KVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 62 ~~~~~~f~~l~~--~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
..+..+|++.+. .+..++..++-. -+++ |-+.+++..-. -..|+.++|+|.||||..
T Consensus 504 tVPdVtW~dIGaL~~vR~eL~~aI~~-PiK~--pd~~k~lGi~~-PsGvLL~GPPGCGKTLlA 562 (802)
T KOG0733|consen 504 TVPDVTWDDIGALEEVRLELNMAILA-PIKR--PDLFKALGIDA-PSGVLLCGPPGCGKTLLA 562 (802)
T ss_pred ecCCCChhhcccHHHHHHHHHHHHhh-hccC--HHHHHHhCCCC-CCceEEeCCCCccHHHHH
Confidence 445567888772 122222222211 2222 33334442222 457999999999999854
No 440
>PRK11823 DNA repair protein RadA; Provisional
Probab=67.18 E-value=15 Score=32.94 Aligned_cols=52 Identities=17% Similarity=0.142 Sum_probs=30.6
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNV 161 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l 161 (178)
.|.-+++.+++|+|||...+--+.... . .+..++|+. +.+-..|+...+.++
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~----~g~~vlYvs-~Ees~~qi~~ra~rl 130 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLA-A----AGGKVLYVS-GEESASQIKLRAERL 130 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHH-h----cCCeEEEEE-ccccHHHHHHHHHHc
Confidence 466789999999999985433333222 1 133556665 444455665555444
No 441
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=67.17 E-value=3.9 Score=31.36 Aligned_cols=14 Identities=29% Similarity=0.337 Sum_probs=12.3
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
|++.+++|||||..
T Consensus 2 I~i~G~pGsGKst~ 15 (194)
T cd01428 2 ILLLGPPGSGKGTQ 15 (194)
T ss_pred EEEECCCCCCHHHH
Confidence 78999999999954
No 442
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=67.14 E-value=5.2 Score=30.89 Aligned_cols=20 Identities=25% Similarity=0.255 Sum_probs=17.0
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 15 i~~Ge~~~i~G~nGsGKSTL 34 (190)
T TIGR01166 15 AERGEVLALLGANGAGKSTL 34 (190)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 45688899999999999974
No 443
>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=67.10 E-value=13 Score=28.77 Aligned_cols=42 Identities=7% Similarity=-0.013 Sum_probs=24.1
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLV 157 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~ 157 (178)
+++.+++|||||.... -.+ .. .+..++|+.-.+.+-......
T Consensus 2 ~li~G~~~sGKS~~a~-~~~---~~----~~~~~~y~at~~~~d~em~~r 43 (169)
T cd00544 2 ILVTGGARSGKSRFAE-RLA---AE----LGGPVTYIATAEAFDDEMAER 43 (169)
T ss_pred EEEECCCCCCHHHHHH-HHH---Hh----cCCCeEEEEccCcCCHHHHHH
Confidence 5789999999997532 111 11 223566776555544443333
No 444
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=67.08 E-value=4.5 Score=31.36 Aligned_cols=19 Identities=32% Similarity=0.408 Sum_probs=16.0
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
.|.-+++.+++|+|||...
T Consensus 2 ~ge~i~l~G~sGsGKSTl~ 20 (176)
T PRK09825 2 AGESYILMGVSGSGKSLIG 20 (176)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4777899999999999753
No 445
>PLN02199 shikimate kinase
Probab=67.04 E-value=4.6 Score=34.56 Aligned_cols=24 Identities=38% Similarity=0.576 Sum_probs=20.1
Q ss_pred hhccccCCCcEEEEccCCCchhhH
Q psy12984 98 TIPPLLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 98 aip~~l~g~dvi~~a~TGsGKTla 121 (178)
.|...+.|++|++.+.+|+|||..
T Consensus 95 ~i~~~l~~~~I~LIG~~GSGKSTV 118 (303)
T PLN02199 95 EVKPYLNGRSMYLVGMMGSGKTTV 118 (303)
T ss_pred HHHHHcCCCEEEEECCCCCCHHHH
Confidence 344567899999999999999975
No 446
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=67.02 E-value=3.7 Score=30.13 Aligned_cols=15 Identities=33% Similarity=0.434 Sum_probs=13.1
Q ss_pred cEEEEccCCCchhhH
Q psy12984 107 DLVGSAKTGSGKTLA 121 (178)
Q Consensus 107 dvi~~a~TGsGKTla 121 (178)
++++++++|||||..
T Consensus 1 ~i~l~G~~GsGKstl 15 (154)
T cd00464 1 NIVLIGMMGAGKTTV 15 (154)
T ss_pred CEEEEcCCCCCHHHH
Confidence 478999999999975
No 447
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=66.86 E-value=5.1 Score=31.20 Aligned_cols=20 Identities=25% Similarity=0.370 Sum_probs=16.9
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 21 i~~Ge~~~i~G~nGsGKSTL 40 (206)
T TIGR03608 21 IEKGKMYAIIGESGSGKSTL 40 (206)
T ss_pred EeCCcEEEEECCCCCCHHHH
Confidence 34688899999999999974
No 448
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=66.83 E-value=3.5 Score=32.48 Aligned_cols=16 Identities=38% Similarity=0.345 Sum_probs=13.0
Q ss_pred CCcEEEEccCCCchhh
Q psy12984 105 GRDLVGSAKTGSGKTL 120 (178)
Q Consensus 105 g~dvi~~a~TGsGKTl 120 (178)
|.=+.+.+++|||||.
T Consensus 6 g~vi~I~G~sGsGKST 21 (207)
T TIGR00235 6 GIIIGIGGGSGSGKTT 21 (207)
T ss_pred eEEEEEECCCCCCHHH
Confidence 4456789999999996
No 449
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=66.75 E-value=3.9 Score=34.74 Aligned_cols=19 Identities=21% Similarity=0.037 Sum_probs=15.6
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
..++++.+|+|+|||....
T Consensus 51 ~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 51 LDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CCcEEEECCCCccHHHHHH
Confidence 3579999999999997543
No 450
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=66.69 E-value=17 Score=32.51 Aligned_cols=64 Identities=20% Similarity=0.221 Sum_probs=35.8
Q ss_pred CCCCccchHhhcccCCHHHHHHHHHCCCCC--CcHHHHHhhccc---cCCCcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 61 EILSSTQFEALKGKVCENTLKAIADMGFTK--MTEIQARTIPPL---LEGRDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 61 ~~~~~~~f~~l~~~l~~~ll~~l~~~g~~~--pt~iQ~~aip~~---l~g~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
.......|++|. +++|.-. ..... |.++-.++|..+ -.|.-.++.|+.|+|||.. +--+.+.+.
T Consensus 126 ~~~~r~~f~~l~-p~~p~~R-----~~le~~~~~~~~~rvID~l~PIGkGQR~lIvgppGvGKTTL-aK~Ian~I~ 194 (416)
T PRK09376 126 KARNRPLFENLT-PLYPNER-----LRLETGNPEDLSTRIIDLIAPIGKGQRGLIVAPPKAGKTVL-LQNIANSIT 194 (416)
T ss_pred HhcCCCCcccCC-CCChhhc-----ccccCCCCcccceeeeeeecccccCceEEEeCCCCCChhHH-HHHHHHHHH
Confidence 344456677775 2444322 22222 344444555543 3678888999999999953 223444443
No 451
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=66.49 E-value=4 Score=33.88 Aligned_cols=17 Identities=29% Similarity=0.229 Sum_probs=14.6
Q ss_pred CcEEEEccCCCchhhHh
Q psy12984 106 RDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf 122 (178)
.++++.+|+|+|||...
T Consensus 31 ~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 56999999999999653
No 452
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=66.41 E-value=5.3 Score=31.84 Aligned_cols=20 Identities=20% Similarity=0.293 Sum_probs=17.1
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|||||.-
T Consensus 28 i~~Ge~~~l~G~nGsGKSTL 47 (233)
T cd03258 28 VPKGEIFGIIGRSGAGKSTL 47 (233)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 45688899999999999973
No 453
>KOG0991|consensus
Probab=66.37 E-value=6.1 Score=33.16 Aligned_cols=18 Identities=39% Similarity=0.580 Sum_probs=15.9
Q ss_pred CcEEEEccCCCchhhHhH
Q psy12984 106 RDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~ 123 (178)
.++++.+|+|+|||.+..
T Consensus 49 P~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSIL 66 (333)
T ss_pred CceEeeCCCCCchhhHHH
Confidence 589999999999998744
No 454
>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=66.37 E-value=5.3 Score=34.58 Aligned_cols=37 Identities=19% Similarity=0.133 Sum_probs=20.9
Q ss_pred EEEEccCCCchhhHhHHHHHHHHHhc-cCCC-CCceEEEeecHH
Q psy12984 108 LVGSAKTGSGKTLAFLVPAVELIYNL-KFMP-RNGKSWQGKLRP 149 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp~l~~l~~~-~~~~-~~~~~~l~Ptr~ 149 (178)
.+|-+|||+||+-- |..|... .-.+ ...++.|+|++.
T Consensus 90 ~~VYGPTG~GKSqL-----lRNLis~~lI~P~PETVfFItP~~~ 128 (369)
T PF02456_consen 90 GVVYGPTGSGKSQL-----LRNLISCQLIQPPPETVFFITPQKD 128 (369)
T ss_pred EEEECCCCCCHHHH-----HHHhhhcCcccCCCCceEEECCCCC
Confidence 46789999999852 2222221 1123 335566888754
No 455
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=66.35 E-value=5.5 Score=30.57 Aligned_cols=20 Identities=20% Similarity=0.202 Sum_probs=16.8
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 22 i~~G~~~~l~G~nGsGKStL 41 (180)
T cd03214 22 IEAGEIVGILGPNGAGKSTL 41 (180)
T ss_pred ECCCCEEEEECCCCCCHHHH
Confidence 34688889999999999974
No 456
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=66.21 E-value=12 Score=28.91 Aligned_cols=24 Identities=21% Similarity=0.281 Sum_probs=17.3
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
+++++++.|+|||... .-+++.+.
T Consensus 1 ~i~iTG~pG~GKTTll-~k~i~~l~ 24 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLL-KKVIEELK 24 (168)
T ss_dssp EEEEES-TTSSHHHHH-HHHHHHHH
T ss_pred CEEEECcCCCCHHHHH-HHHHHHhh
Confidence 4789999999999865 45556663
No 457
>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=66.18 E-value=9.8 Score=30.17 Aligned_cols=23 Identities=26% Similarity=0.084 Sum_probs=17.6
Q ss_pred ccCCCcEEEEccCCCchhhHhHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLV 124 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~l 124 (178)
+..|.=+.+.+++|+|||...+.
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~ 38 (235)
T cd01123 16 IETGSITEIFGEFGSGKTQLCHQ 38 (235)
T ss_pred CCCCeEEEEECCCCCCHHHHHHH
Confidence 33467788999999999976443
No 458
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=66.14 E-value=5.4 Score=31.31 Aligned_cols=21 Identities=29% Similarity=0.295 Sum_probs=17.2
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||..+
T Consensus 23 i~~Ge~~~i~G~nGsGKSTLl 43 (213)
T cd03259 23 VEPGEFLALLGPSGCGKTTLL 43 (213)
T ss_pred EcCCcEEEEECCCCCCHHHHH
Confidence 346788899999999999743
No 459
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=66.10 E-value=18 Score=36.42 Aligned_cols=56 Identities=20% Similarity=0.124 Sum_probs=35.5
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhccC-------CCCCceEEEeecHHHHHHHHHHHH
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF-------MPRNGKSWQGKLRPLTNGVYLVAC 159 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~-------~~~~~~~~l~Ptr~La~qi~~~~~ 159 (178)
+.|.++ |-|.-|||||.+...=.|..+..... -.....++++=|++=+..+...++
T Consensus 16 L~G~~L-IEASAGTGKTyTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr 78 (1181)
T PRK10876 16 LQGERL-IEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIR 78 (1181)
T ss_pred CCCCEE-EEeCCCCcHHHHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHH
Confidence 568665 58888999999987777777764221 011266777766665555444443
No 460
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=66.05 E-value=22 Score=30.55 Aligned_cols=30 Identities=20% Similarity=0.149 Sum_probs=19.8
Q ss_pred cHHHHHhhccccC-C---CcEEEEccCCCchhhH
Q psy12984 92 TEIQARTIPPLLE-G---RDLVGSAKTGSGKTLA 121 (178)
Q Consensus 92 t~iQ~~aip~~l~-g---~dvi~~a~TGsGKTla 121 (178)
+|.|...|..+.. | .-++..+|.|.|||..
T Consensus 5 yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~ 38 (328)
T PRK05707 5 YPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRAL 38 (328)
T ss_pred CCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHH
Confidence 4555555554432 3 3578999999999964
No 461
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=65.88 E-value=6 Score=29.43 Aligned_cols=22 Identities=18% Similarity=0.297 Sum_probs=17.9
Q ss_pred ccCCCcEEEEccCCCchhhHhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+..|.-+.+.+++|+|||.-+-
T Consensus 23 ~~~Ge~~~i~G~nGsGKStLl~ 44 (144)
T cd03221 23 INPGDRIGLVGRNGAGKSTLLK 44 (144)
T ss_pred ECCCCEEEEECCCCCCHHHHHH
Confidence 4568888999999999997543
No 462
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=65.74 E-value=18 Score=32.44 Aligned_cols=18 Identities=33% Similarity=0.346 Sum_probs=14.6
Q ss_pred CcEEEEccCCCchhhHhH
Q psy12984 106 RDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~ 123 (178)
.-+++++++|+|||....
T Consensus 224 ~vi~lvGptGvGKTTtaa 241 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIA 241 (432)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 447789999999998644
No 463
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=65.52 E-value=5.5 Score=31.36 Aligned_cols=21 Identities=19% Similarity=0.357 Sum_probs=17.9
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|..+.+.+++|+|||.-+
T Consensus 21 i~~Ge~~~i~G~nGsGKSTLl 41 (213)
T TIGR01277 21 VADGEIVAIMGPSGAGKSTLL 41 (213)
T ss_pred EeCCcEEEEECCCCCCHHHHH
Confidence 457899999999999999754
No 464
>KOG1000|consensus
Probab=65.47 E-value=46 Score=30.88 Aligned_cols=72 Identities=14% Similarity=0.112 Sum_probs=47.0
Q ss_pred CCCccchHhhcccCCHHHHHHHHHCCCCCCcHHHHHhhcccc-CCCcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCc
Q psy12984 62 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL-EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNG 140 (178)
Q Consensus 62 ~~~~~~f~~l~~~l~~~ll~~l~~~g~~~pt~iQ~~aip~~l-~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~ 140 (178)
.+....+++|..-+++.|.. .+.|+|..-+...+ .|-.++++-.-|-|||+-.+- |...++. .. -
T Consensus 178 ~~~ea~~~~l~ev~d~kLvs--------~LlPFQreGv~faL~RgGR~llADeMGLGKTiQAla--IA~yyra---Ew-p 243 (689)
T KOG1000|consen 178 FKPEAAPSDLNEVMDPKLVS--------RLLPFQREGVIFALERGGRILLADEMGLGKTIQALA--IARYYRA---EW-P 243 (689)
T ss_pred cCCccCHHHHhhccCHHHHH--------hhCchhhhhHHHHHhcCCeEEEecccccchHHHHHH--HHHHHhh---cC-c
Confidence 35555677776556677655 55689998876544 567788899999999986542 2223332 22 3
Q ss_pred eEEEeec
Q psy12984 141 KSWQGKL 147 (178)
Q Consensus 141 ~~~l~Pt 147 (178)
.+|+||.
T Consensus 244 lliVcPA 250 (689)
T KOG1000|consen 244 LLIVCPA 250 (689)
T ss_pred EEEEecH
Confidence 4778884
No 465
>PRK01184 hypothetical protein; Provisional
Probab=65.40 E-value=4.4 Score=31.06 Aligned_cols=14 Identities=29% Similarity=0.164 Sum_probs=12.5
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
++++++.|||||..
T Consensus 4 i~l~G~~GsGKsT~ 17 (184)
T PRK01184 4 IGVVGMPGSGKGEF 17 (184)
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999985
No 466
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=65.28 E-value=6.1 Score=29.49 Aligned_cols=21 Identities=29% Similarity=0.344 Sum_probs=17.0
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||..+
T Consensus 22 i~~g~~~~i~G~nGsGKStll 42 (157)
T cd00267 22 LKAGEIVALVGPNGSGKSTLL 42 (157)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 346778889999999999743
No 467
>PRK05748 replicative DNA helicase; Provisional
Probab=65.26 E-value=32 Score=30.55 Aligned_cols=28 Identities=18% Similarity=0.191 Sum_probs=19.7
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+..|.=+++.|+||.|||.. ++-++.++
T Consensus 200 ~~~G~livIaarpg~GKT~~-al~ia~~~ 227 (448)
T PRK05748 200 LQPNDLIIVAARPSVGKTAF-ALNIAQNV 227 (448)
T ss_pred CCCCceEEEEeCCCCCchHH-HHHHHHHH
Confidence 44566788899999999974 44444443
No 468
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=65.25 E-value=4.4 Score=31.75 Aligned_cols=17 Identities=24% Similarity=0.270 Sum_probs=12.8
Q ss_pred cEEEEccCCCchhhHhH
Q psy12984 107 DLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~ 123 (178)
=+++.+++|||||...-
T Consensus 17 ~~i~aG~~GsGKSt~~~ 33 (199)
T PF06414_consen 17 LIIIAGQPGSGKSTLAR 33 (199)
T ss_dssp EEEEES-TTSTTHHHHH
T ss_pred EEEEeCCCCCCHHHHHH
Confidence 36788999999998654
No 469
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=65.16 E-value=5.8 Score=31.61 Aligned_cols=21 Identities=24% Similarity=0.317 Sum_probs=17.3
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||.-+
T Consensus 30 i~~Ge~~~i~G~nGsGKSTLl 50 (225)
T PRK10247 30 LRAGEFKLITGPSGCGKSTLL 50 (225)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 346888999999999999743
No 470
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=65.03 E-value=6.7 Score=34.87 Aligned_cols=23 Identities=26% Similarity=0.202 Sum_probs=19.2
Q ss_pred cccCCCcEEEEccCCCchhhHhH
Q psy12984 101 PLLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 101 ~~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
..-.|..|++.++||+||++...
T Consensus 97 ~ap~~~~vLi~GetGtGKel~A~ 119 (403)
T COG1221 97 YAPSGLPVLIIGETGTGKELFAR 119 (403)
T ss_pred hCCCCCcEEEecCCCccHHHHHH
Confidence 34568999999999999998653
No 471
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=64.94 E-value=5.9 Score=31.03 Aligned_cols=20 Identities=30% Similarity=0.421 Sum_probs=17.1
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 23 i~~Ge~~~l~G~nGsGKSTL 42 (213)
T cd03301 23 IADGEFVVLLGPSGCGKTTT 42 (213)
T ss_pred EcCCcEEEEECCCCCCHHHH
Confidence 45688899999999999984
No 472
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=64.93 E-value=6 Score=30.96 Aligned_cols=20 Identities=30% Similarity=0.383 Sum_probs=16.8
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 23 i~~G~~~~l~G~nGsGKSTL 42 (213)
T cd03262 23 VKKGEVVVIIGPSGSGKSTL 42 (213)
T ss_pred ECCCCEEEEECCCCCCHHHH
Confidence 34688899999999999963
No 473
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.85 E-value=4 Score=40.28 Aligned_cols=16 Identities=38% Similarity=0.445 Sum_probs=13.2
Q ss_pred cEEEEccCCCchhhHh
Q psy12984 107 DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf 122 (178)
=++|++|||+|||..|
T Consensus 28 l~~I~G~nGaGKSTil 43 (1042)
T TIGR00618 28 IFLICGKTGAGKTTLL 43 (1042)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4568999999999764
No 474
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=64.85 E-value=6 Score=31.03 Aligned_cols=21 Identities=29% Similarity=0.420 Sum_probs=17.4
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|||||.-+
T Consensus 25 i~~G~~~~l~G~nGsGKSTLl 45 (214)
T TIGR02673 25 IRKGEFLFLTGPSGAGKTTLL 45 (214)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 456788889999999999854
No 475
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=64.83 E-value=6.1 Score=30.14 Aligned_cols=21 Identities=24% Similarity=0.200 Sum_probs=17.3
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||.-+
T Consensus 23 i~~Ge~~~i~G~nGsGKStLl 43 (173)
T cd03230 23 VEKGEIYGLLGPNGAGKTTLI 43 (173)
T ss_pred EcCCcEEEEECCCCCCHHHHH
Confidence 346788999999999999844
No 476
>KOG0731|consensus
Probab=64.78 E-value=4 Score=39.10 Aligned_cols=18 Identities=28% Similarity=0.377 Sum_probs=15.5
Q ss_pred CCcEEEEccCCCchhhHh
Q psy12984 105 GRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf 122 (178)
-+.+|+++|+|+||||..
T Consensus 344 PkGvLL~GPPGTGKTLLA 361 (774)
T KOG0731|consen 344 PKGVLLVGPPGTGKTLLA 361 (774)
T ss_pred cCceEEECCCCCcHHHHH
Confidence 367999999999999864
No 477
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=64.69 E-value=5.6 Score=31.35 Aligned_cols=17 Identities=29% Similarity=0.323 Sum_probs=14.4
Q ss_pred cEEEEccCCCchhhHhH
Q psy12984 107 DLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~ 123 (178)
+|++.+++|+|||..|.
T Consensus 2 ~vll~G~~~sGKTsL~~ 18 (203)
T cd04105 2 TVLLLGPSDSGKTALFT 18 (203)
T ss_pred eEEEEcCCCCCHHHHHH
Confidence 68899999999997643
No 478
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=64.45 E-value=6.4 Score=29.94 Aligned_cols=20 Identities=25% Similarity=0.386 Sum_probs=17.0
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 25 i~~G~~~~l~G~nGsGKstL 44 (171)
T cd03228 25 IKPGEKVAIVGPSGSGKSTL 44 (171)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 45688899999999999973
No 479
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=64.41 E-value=25 Score=31.55 Aligned_cols=60 Identities=13% Similarity=0.072 Sum_probs=43.4
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHHHHHHHhhhcC
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVACNVFKSTQ 166 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~~~~~l~~~~~ 166 (178)
+.+++.-+-|.|||..-..-.+-.+.-. ...+..+.+.+++++-|..+++.+..++....
T Consensus 23 ~~~~l~v~RkNGKS~l~a~i~ly~l~~~-g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~~~ 82 (477)
T PF03354_consen 23 REVYLEVPRKNGKSTLAAAIALYMLFLD-GEPGAEIYCAANTRDQAKIVFDEAKKMIEASP 82 (477)
T ss_pred EEEEEEEcCccCccHHHHHHHHHHHhcC-CccCceEEEEeCCHHHHHHHHHHHHHHHHhCh
Confidence 4577777889999987665555444322 12344667789999999999999999887743
No 480
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=64.39 E-value=5.4 Score=31.20 Aligned_cols=18 Identities=28% Similarity=0.296 Sum_probs=12.4
Q ss_pred EEEEccCCCchhhHhHHH
Q psy12984 108 LVGSAKTGSGKTLAFLVP 125 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~lp 125 (178)
.++++..|||||+..+.-
T Consensus 3 ~~~~G~pGsGKS~~av~~ 20 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSY 20 (193)
T ss_dssp EEEE--TTSSHHHHHHHH
T ss_pred EEEEcCCCCcHhHHHHHH
Confidence 468899999999865554
No 481
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=64.37 E-value=3.1 Score=35.82 Aligned_cols=24 Identities=38% Similarity=0.504 Sum_probs=18.1
Q ss_pred hccccCCC--cEEEEccCCCchhhHh
Q psy12984 99 IPPLLEGR--DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 99 ip~~l~g~--dvi~~a~TGsGKTlaf 122 (178)
+..++.|. .|++.++||||||.+.
T Consensus 81 v~~~l~G~n~ti~aYGqtGSGKTyTm 106 (345)
T cd01368 81 VQDLLKGKNSLLFTYGVTNSGKTYTM 106 (345)
T ss_pred HHHHhCCCceEEEEeCCCCCCCeEEe
Confidence 34456775 4677899999999884
No 482
>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.
Probab=64.31 E-value=6.2 Score=31.09 Aligned_cols=21 Identities=24% Similarity=0.422 Sum_probs=17.6
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||..+
T Consensus 27 i~~G~~~~i~G~nGsGKSTLl 47 (220)
T cd03245 27 IRAGEKVAIIGRVGSGKSTLL 47 (220)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 456888999999999999853
No 483
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=64.28 E-value=22 Score=33.42 Aligned_cols=46 Identities=20% Similarity=0.139 Sum_probs=25.4
Q ss_pred cEEEEccCCCchhhHhHHHHHHHHHhccCCCCCceEEEeecHHHHHHHHH
Q psy12984 107 DLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYL 156 (178)
Q Consensus 107 dvi~~a~TGsGKTlaf~lp~l~~l~~~~~~~~~~~~~l~Ptr~La~qi~~ 156 (178)
.+++.+++|+|||.-.. .+.+.+... ..+..++| ++..++..+...
T Consensus 316 pL~LyG~sGsGKTHLL~-AIa~~a~~~--~~g~~V~Y-itaeef~~el~~ 361 (617)
T PRK14086 316 PLFIYGESGLGKTHLLH-AIGHYARRL--YPGTRVRY-VSSEEFTNEFIN 361 (617)
T ss_pred cEEEECCCCCCHHHHHH-HHHHHHHHh--CCCCeEEE-eeHHHHHHHHHH
Confidence 48999999999996322 333333321 12334443 445555555443
No 484
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=64.17 E-value=4.5 Score=35.64 Aligned_cols=54 Identities=15% Similarity=0.230 Sum_probs=31.1
Q ss_pred ccchHhhcccCCHHHHHH--HHHCCCCCCcHHHHHhhccccCCCcEEEEccCCCchhhHh
Q psy12984 65 STQFEALKGKVCENTLKA--IADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 65 ~~~f~~l~~~l~~~ll~~--l~~~g~~~pt~iQ~~aip~~l~g~dvi~~a~TGsGKTlaf 122 (178)
+.+|++.+ +|...+.+. .-++-..+|--++..-|. --+.||.-+|+|+|||+..
T Consensus 147 dvtY~dIG-GL~~Qi~EirE~VELPL~~PElF~~~GI~---PPKGVLLYGPPGTGKTLLA 202 (406)
T COG1222 147 DVTYEDIG-GLDEQIQEIREVVELPLKNPELFEELGID---PPKGVLLYGPPGTGKTLLA 202 (406)
T ss_pred CCChhhcc-CHHHHHHHHHHHhcccccCHHHHHHcCCC---CCCceEeeCCCCCcHHHHH
Confidence 35577776 465554432 112333344334433321 2367999999999999864
No 485
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=64.13 E-value=5.3 Score=31.51 Aligned_cols=19 Identities=26% Similarity=0.128 Sum_probs=14.8
Q ss_pred CCCcEEEEccCCCchhhHh
Q psy12984 104 EGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf 122 (178)
.+.-.++.+++|+|||..+
T Consensus 23 ~~~~~~i~G~NGsGKS~il 41 (220)
T PF02463_consen 23 SPGLNVIVGPNGSGKSNIL 41 (220)
T ss_dssp TSSEEEEEESTTSSHHHHH
T ss_pred CCCCEEEEcCCCCCHHHHH
Confidence 4445778999999999753
No 486
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=64.04 E-value=28 Score=31.77 Aligned_cols=20 Identities=30% Similarity=0.262 Sum_probs=16.4
Q ss_pred CCCcEEEEccCCCchhhHhH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~ 123 (178)
.|.-+++.+|||+|||.+..
T Consensus 255 ~g~Vi~LvGpnGvGKTTTia 274 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTA 274 (484)
T ss_pred CCcEEEEECCCCccHHHHHH
Confidence 35668889999999998754
No 487
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=63.99 E-value=15 Score=32.90 Aligned_cols=19 Identities=26% Similarity=0.251 Sum_probs=15.3
Q ss_pred CCcEEEEccCCCchhhHhH
Q psy12984 105 GRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 105 g~dvi~~a~TGsGKTlaf~ 123 (178)
..-+++++++|+|||..-.
T Consensus 95 p~vI~lvG~~GsGKTTtaa 113 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAA 113 (437)
T ss_pred CeEEEEECCCCCcHHHHHH
Confidence 3568889999999997643
No 488
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=63.98 E-value=11 Score=29.09 Aligned_cols=14 Identities=36% Similarity=0.415 Sum_probs=12.0
Q ss_pred EEEEccCCCchhhH
Q psy12984 108 LVGSAKTGSGKTLA 121 (178)
Q Consensus 108 vi~~a~TGsGKTla 121 (178)
+++.+.-|||||..
T Consensus 3 ~ii~GfLGsGKTTl 16 (178)
T PF02492_consen 3 IIITGFLGSGKTTL 16 (178)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEEcCCCCCHHHH
Confidence 57889999999974
No 489
>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=63.97 E-value=30 Score=27.74 Aligned_cols=16 Identities=31% Similarity=0.322 Sum_probs=13.1
Q ss_pred EEEEccCCCchhhHhH
Q psy12984 108 LVGSAKTGSGKTLAFL 123 (178)
Q Consensus 108 vi~~a~TGsGKTlaf~ 123 (178)
.++.++.|+|||...+
T Consensus 4 ~ll~g~~G~GKS~lal 19 (239)
T cd01125 4 SALVAPGGTGKSSLLL 19 (239)
T ss_pred eEEEcCCCCCHHHHHH
Confidence 5788999999997644
No 490
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=63.84 E-value=3.5 Score=35.38 Aligned_cols=23 Identities=30% Similarity=0.473 Sum_probs=17.9
Q ss_pred ccccCCC--cEEEEccCCCchhhHh
Q psy12984 100 PPLLEGR--DLVGSAKTGSGKTLAF 122 (178)
Q Consensus 100 p~~l~g~--dvi~~a~TGsGKTlaf 122 (178)
..++.|. .|++.++||||||...
T Consensus 81 ~~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 81 DGVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred HHHHCCCCceEEeeCCCCCCCeEEE
Confidence 3456775 4788899999999885
No 491
>PRK10908 cell division protein FtsE; Provisional
Probab=63.84 E-value=6.4 Score=31.16 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=17.8
Q ss_pred ccCCCcEEEEccCCCchhhHhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+..|.-+.+.+++|+|||.-+-
T Consensus 25 i~~Ge~~~i~G~nGsGKSTLl~ 46 (222)
T PRK10908 25 MRPGEMAFLTGHSGAGKSTLLK 46 (222)
T ss_pred EcCCCEEEEECCCCCCHHHHHH
Confidence 3468888999999999997543
No 492
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=63.82 E-value=6.4 Score=30.98 Aligned_cols=20 Identities=25% Similarity=0.320 Sum_probs=16.8
Q ss_pred ccCCCcEEEEccCCCchhhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTla 121 (178)
+..|.-+.+.+++|+|||.-
T Consensus 27 i~~G~~~~l~G~nGsGKSTL 46 (218)
T cd03255 27 IEKGEFVAIVGPSGSGKSTL 46 (218)
T ss_pred EcCCCEEEEEcCCCCCHHHH
Confidence 34688899999999999974
No 493
>PRK10263 DNA translocase FtsK; Provisional
Probab=63.79 E-value=12 Score=38.13 Aligned_cols=26 Identities=27% Similarity=0.488 Sum_probs=20.0
Q ss_pred CcEEEEccCCCchhhHhHHHHHHHHH
Q psy12984 106 RDLVGSAKTGSGKTLAFLVPAVELIY 131 (178)
Q Consensus 106 ~dvi~~a~TGsGKTlaf~lp~l~~l~ 131 (178)
-++||.+-||||||.+...-|+..+.
T Consensus 1011 PHLLIAGaTGSGKSv~LntLIlSLl~ 1036 (1355)
T PRK10263 1011 PHLLVAGTTGSGKSVGVNAMILSMLY 1036 (1355)
T ss_pred CcEEEecCCCCCHHHHHHHHHHHHHH
Confidence 58999999999999985554554444
No 494
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=63.73 E-value=9.8 Score=32.51 Aligned_cols=44 Identities=7% Similarity=0.078 Sum_probs=25.7
Q ss_pred HHHHHHHHHCCCCCCcHHHHHhhccccC---CCcEEEEccCCCchhhH
Q psy12984 77 ENTLKAIADMGFTKMTEIQARTIPPLLE---GRDLVGSAKTGSGKTLA 121 (178)
Q Consensus 77 ~~ll~~l~~~g~~~pt~iQ~~aip~~l~---g~dvi~~a~TGsGKTla 121 (178)
..+.+.|.+.++..+.+- ..-|..+.. ..-+++++++|||||..
T Consensus 62 ~~V~~~L~~~~~~~~~~~-y~~~~~i~~~~~p~iIlI~G~sgsGKStl 108 (301)
T PRK04220 62 RRVYYKLIEKDYEEVAEK-YLLWRRIRKSKEPIIILIGGASGVGTSTI 108 (301)
T ss_pred HHHHHHHHHhCcHhHHHH-HHHHHHHhcCCCCEEEEEECCCCCCHHHH
Confidence 445666666666554432 222222222 12488999999999973
No 495
>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=63.61 E-value=36 Score=29.92 Aligned_cols=28 Identities=25% Similarity=0.260 Sum_probs=19.2
Q ss_pred ccCCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
+..|.=+++.|++|+|||. |++-++.++
T Consensus 192 ~~~G~l~vi~g~pg~GKT~-~~l~~a~~~ 219 (434)
T TIGR00665 192 LQPSDLIILAARPSMGKTA-FALNIAENA 219 (434)
T ss_pred CCCCeEEEEEeCCCCChHH-HHHHHHHHH
Confidence 3445677889999999996 444444443
No 496
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=63.60 E-value=25 Score=30.82 Aligned_cols=64 Identities=14% Similarity=0.026 Sum_probs=36.2
Q ss_pred cCCCcEEEEccCCCchhhHhHHHHHHHHHhcc----CCCCC-ceEEEeecHHHH-HHHHHHHHHHhhhcCCC
Q psy12984 103 LEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK----FMPRN-GKSWQGKLRPLT-NGVYLVACNVFKSTQPP 168 (178)
Q Consensus 103 l~g~dvi~~a~TGsGKTlaf~lp~l~~l~~~~----~~~~~-~~~~l~Ptr~La-~qi~~~~~~l~~~~~~~ 168 (178)
..|.-+|+.++.|.|||+..+.=+|....-.. ....+ .++|+ . -||- ..+...++.++..++++
T Consensus 87 r~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyv-s-lEl~re~~L~Rl~~v~a~mgLs 156 (402)
T COG3598 87 RKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYV-S-LELYREDILERLEPVRARMGLS 156 (402)
T ss_pred hcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEE-E-eccChHHHHHHHHHHHHHcCCC
Confidence 35667788899999999986655554332211 12222 44443 2 2222 35556666666666653
No 497
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=63.55 E-value=6.6 Score=30.63 Aligned_cols=22 Identities=32% Similarity=0.297 Sum_probs=18.1
Q ss_pred ccCCCcEEEEccCCCchhhHhH
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAFL 123 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf~ 123 (178)
+..|.-+.+.+++|+|||..+-
T Consensus 24 i~~Ge~~~l~G~nGsGKSTLl~ 45 (200)
T PRK13540 24 LPAGGLLHLKGSNGAGKTTLLK 45 (200)
T ss_pred ECCCCEEEEECCCCCCHHHHHH
Confidence 3468889999999999998654
No 498
>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=63.48 E-value=19 Score=31.02 Aligned_cols=26 Identities=27% Similarity=0.258 Sum_probs=18.6
Q ss_pred CCCcEEEEccCCCchhhHhHHHHHHHH
Q psy12984 104 EGRDLVGSAKTGSGKTLAFLVPAVELI 130 (178)
Q Consensus 104 ~g~dvi~~a~TGsGKTlaf~lp~l~~l 130 (178)
.|+=+.+.+|+|||||. +++.++...
T Consensus 54 ~G~iteI~Gp~GsGKTt-Lal~~~~~~ 79 (325)
T cd00983 54 KGRIIEIYGPESSGKTT-LALHAIAEA 79 (325)
T ss_pred CCeEEEEECCCCCCHHH-HHHHHHHHH
Confidence 46778899999999996 444444333
No 499
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=63.47 E-value=6.4 Score=31.13 Aligned_cols=21 Identities=24% Similarity=0.327 Sum_probs=17.3
Q ss_pred ccCCCcEEEEccCCCchhhHh
Q psy12984 102 LLEGRDLVGSAKTGSGKTLAF 122 (178)
Q Consensus 102 ~l~g~dvi~~a~TGsGKTlaf 122 (178)
+..|.-+.+.+++|+|||.-+
T Consensus 27 i~~G~~~~i~G~nGsGKSTLl 47 (220)
T cd03293 27 VEEGEFVALVGPSGCGKSTLL 47 (220)
T ss_pred EeCCcEEEEECCCCCCHHHHH
Confidence 346888899999999999843
No 500
>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=63.45 E-value=8.2 Score=29.33 Aligned_cols=20 Identities=40% Similarity=0.288 Sum_probs=14.2
Q ss_pred EEEEccCCCchhhH--hHHHHH
Q psy12984 108 LVGSAKTGSGKTLA--FLVPAV 127 (178)
Q Consensus 108 vi~~a~TGsGKTla--f~lp~l 127 (178)
+.+++++|||||.. .++..+
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l 23 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKAL 23 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 45789999999974 444443
Done!