Query psy7268
Match_columns 134
No_of_seqs 137 out of 1454
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 22:21:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7268.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7268hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK04837 ATP-dependent RNA hel 99.9 8.9E-24 1.9E-28 167.4 11.0 93 39-133 8-100 (423)
2 KOG0330|consensus 99.9 3.5E-24 7.6E-29 165.0 8.3 93 32-133 54-146 (476)
3 KOG0346|consensus 99.9 3.4E-24 7.4E-29 167.2 7.6 94 38-134 18-111 (569)
4 PTZ00110 helicase; Provisional 99.9 1.6E-23 3.6E-28 170.7 11.4 97 33-133 124-220 (545)
5 PLN00206 DEAD-box ATP-dependen 99.9 2.2E-23 4.7E-28 169.1 10.7 99 33-133 115-213 (518)
6 COG0513 SrmB Superfamily II DN 99.9 1.2E-22 2.5E-27 164.7 11.1 89 39-134 29-117 (513)
7 PRK04537 ATP-dependent RNA hel 99.9 2.2E-22 4.8E-27 164.8 11.5 93 40-134 10-102 (572)
8 KOG0331|consensus 99.9 4.9E-23 1.1E-27 164.8 7.2 91 40-133 92-182 (519)
9 PRK10590 ATP-dependent RNA hel 99.9 2.1E-22 4.5E-27 161.1 10.6 91 40-133 2-92 (456)
10 PRK11776 ATP-dependent RNA hel 99.9 2.5E-22 5.5E-27 160.6 10.8 87 38-133 3-89 (460)
11 KOG0348|consensus 99.9 1.4E-22 3.1E-27 161.1 9.0 93 39-134 136-229 (708)
12 KOG0345|consensus 99.9 6.3E-22 1.4E-26 155.4 9.8 91 39-133 4-96 (567)
13 PRK01297 ATP-dependent RNA hel 99.9 1.8E-21 3.9E-26 156.3 11.9 96 36-133 84-179 (475)
14 PRK11192 ATP-dependent RNA hel 99.9 1.4E-21 2.9E-26 155.3 10.9 89 40-133 2-90 (434)
15 PRK11634 ATP-dependent RNA hel 99.9 1.7E-21 3.6E-26 161.1 10.7 87 38-133 5-91 (629)
16 KOG0340|consensus 99.9 1.2E-21 2.6E-26 149.7 7.8 89 36-133 4-92 (442)
17 PTZ00424 helicase 45; Provisio 99.9 4E-21 8.6E-26 150.7 10.9 92 33-133 22-113 (401)
18 KOG0338|consensus 99.9 6.5E-22 1.4E-26 156.8 5.5 91 38-134 180-270 (691)
19 KOG0343|consensus 99.8 1.5E-21 3.2E-26 156.0 4.9 98 31-133 61-158 (758)
20 KOG0334|consensus 99.8 2.9E-21 6.4E-26 162.2 6.4 99 32-134 358-456 (997)
21 KOG0333|consensus 99.8 8.7E-21 1.9E-25 150.8 7.3 99 35-133 241-339 (673)
22 KOG0342|consensus 99.8 5.4E-21 1.2E-25 150.6 6.0 94 35-133 78-171 (543)
23 KOG0335|consensus 99.8 5E-21 1.1E-25 151.6 5.5 101 34-134 69-170 (482)
24 TIGR03817 DECH_helic helicase/ 99.8 1.3E-19 2.8E-24 152.2 11.3 78 46-133 21-98 (742)
25 KOG0328|consensus 99.8 5.8E-21 1.2E-25 142.7 2.8 92 34-134 22-113 (400)
26 cd00268 DEADc DEAD-box helicas 99.8 3.1E-19 6.8E-24 128.1 10.8 86 41-133 1-86 (203)
27 KOG0347|consensus 99.8 1.7E-20 3.6E-25 149.9 4.2 103 31-133 173-280 (731)
28 KOG0344|consensus 99.8 1.1E-18 2.4E-23 139.9 8.5 100 31-134 124-227 (593)
29 KOG0336|consensus 99.8 1.2E-19 2.6E-24 141.3 2.4 97 34-133 214-311 (629)
30 KOG0326|consensus 99.8 7.5E-20 1.6E-24 138.7 1.0 89 36-133 82-170 (459)
31 PRK02362 ski2-like helicase; P 99.8 2.4E-18 5.2E-23 144.7 9.5 82 40-133 2-84 (737)
32 KOG0341|consensus 99.7 4.3E-19 9.4E-24 137.5 3.2 102 31-133 162-263 (610)
33 PRK00254 ski2-like helicase; P 99.7 5.3E-18 1.2E-22 142.3 9.8 83 40-133 2-85 (720)
34 KOG0339|consensus 99.7 2.1E-18 4.5E-23 137.1 5.4 102 28-133 212-313 (731)
35 KOG0327|consensus 99.7 9.6E-19 2.1E-23 134.6 2.1 90 35-133 22-111 (397)
36 KOG0337|consensus 99.7 7.3E-18 1.6E-22 131.4 5.2 88 38-133 20-107 (529)
37 PRK13767 ATP-dependent helicas 99.7 4.9E-17 1.1E-21 138.9 10.5 84 46-133 18-101 (876)
38 COG1201 Lhr Lhr-like helicases 99.7 9.8E-17 2.1E-21 134.6 10.0 83 46-133 8-90 (814)
39 PRK01172 ski2-like helicase; P 99.7 8.1E-17 1.7E-21 134.3 9.3 81 40-133 2-82 (674)
40 KOG0350|consensus 99.7 5.9E-17 1.3E-21 128.5 6.9 92 35-134 123-233 (620)
41 KOG0332|consensus 99.6 2.3E-16 4.9E-21 121.7 6.0 94 31-133 82-177 (477)
42 KOG0329|consensus 99.6 4.6E-16 1E-20 115.3 4.6 86 39-133 42-127 (387)
43 KOG4284|consensus 99.6 1.5E-16 3.3E-21 129.5 1.3 89 36-133 22-110 (980)
44 TIGR00614 recQ_fam ATP-depende 99.6 3.4E-15 7.3E-20 120.1 7.6 62 57-133 7-68 (470)
45 PLN03137 ATP-dependent DNA hel 99.6 2.4E-14 5.1E-19 123.3 10.3 79 39-132 435-517 (1195)
46 PF00270 DEAD: DEAD/DEAH box h 99.5 2.5E-14 5.4E-19 99.3 8.3 61 63-133 1-61 (169)
47 PRK11057 ATP-dependent DNA hel 99.5 2E-14 4.4E-19 118.8 8.9 73 46-133 9-82 (607)
48 COG1205 Distinct helicase fami 99.5 6.8E-14 1.5E-18 119.1 10.0 76 46-131 55-130 (851)
49 PRK09401 reverse gyrase; Revie 99.5 5.6E-14 1.2E-18 122.8 9.5 73 48-133 67-140 (1176)
50 TIGR01054 rgy reverse gyrase. 99.5 7.3E-14 1.6E-18 122.1 9.4 74 48-133 65-138 (1171)
51 TIGR00580 mfd transcription-re 99.5 1.2E-13 2.7E-18 118.3 9.6 75 46-133 436-517 (926)
52 PRK14701 reverse gyrase; Provi 99.5 1.1E-13 2.3E-18 123.8 9.4 73 48-133 66-139 (1638)
53 PRK10917 ATP-dependent DNA hel 99.5 1.3E-13 2.9E-18 115.3 9.1 73 48-133 248-327 (681)
54 TIGR00643 recG ATP-dependent D 99.5 1.4E-13 3.1E-18 114.2 8.7 73 48-133 223-301 (630)
55 TIGR01389 recQ ATP-dependent D 99.5 1.1E-13 2.5E-18 114.0 7.9 65 53-132 4-69 (591)
56 PRK12899 secA preprotein trans 99.5 1.5E-13 3.3E-18 116.5 8.1 80 42-133 65-152 (970)
57 PRK10689 transcription-repair 99.4 1.5E-12 3.3E-17 113.7 9.1 73 48-133 587-666 (1147)
58 TIGR02621 cas3_GSU0051 CRISPR- 99.4 1.2E-12 2.5E-17 110.8 7.0 73 51-134 5-80 (844)
59 KOG0952|consensus 99.3 2E-12 4.3E-17 109.8 6.4 75 57-133 106-181 (1230)
60 PRK12898 secA preprotein trans 99.3 4.7E-12 1E-16 104.9 7.3 62 57-133 100-161 (656)
61 COG1204 Superfamily II helicas 99.2 1.9E-11 4E-16 103.3 7.4 78 45-133 15-93 (766)
62 TIGR01407 dinG_rel DnaQ family 99.2 5.5E-11 1.2E-15 101.8 9.3 75 46-133 231-309 (850)
63 COG1202 Superfamily II helicas 99.1 9.3E-11 2E-15 95.2 6.3 83 40-133 195-278 (830)
64 PRK05580 primosome assembly pr 99.1 3.1E-10 6.7E-15 95.2 9.7 61 61-133 144-207 (679)
65 PHA02558 uvsW UvsW helicase; P 99.1 2.4E-10 5.2E-15 92.8 8.0 63 60-133 113-175 (501)
66 TIGR03158 cas3_cyano CRISPR-as 99.1 1.9E-10 4.1E-15 89.8 6.1 54 65-133 1-56 (357)
67 smart00487 DEXDc DEAD-like hel 99.1 4E-10 8.7E-15 78.7 7.1 67 57-133 4-71 (201)
68 PRK09200 preprotein translocas 99.1 6.1E-10 1.3E-14 94.2 8.3 62 57-133 75-136 (790)
69 PRK07246 bifunctional ATP-depe 99.1 5.5E-10 1.2E-14 95.3 8.0 65 55-133 240-308 (820)
70 TIGR03117 cas_csf4 CRISPR-asso 99.0 7.8E-10 1.7E-14 91.8 7.3 52 72-133 12-63 (636)
71 KOG0349|consensus 99.0 7.4E-11 1.6E-15 93.3 1.1 67 38-104 1-67 (725)
72 PHA02653 RNA helicase NPH-II; 99.0 8.9E-10 1.9E-14 92.2 6.8 64 64-133 167-239 (675)
73 TIGR00963 secA preprotein tran 99.0 1.5E-09 3.3E-14 91.0 7.1 62 57-133 53-114 (745)
74 TIGR01587 cas3_core CRISPR-ass 98.9 1.5E-09 3.3E-14 84.2 5.5 46 78-133 1-46 (358)
75 smart00489 DEXDc3 DEAD-like he 98.9 4.8E-09 1E-13 79.9 7.9 68 58-132 6-77 (289)
76 smart00488 DEXDc2 DEAD-like he 98.9 4.8E-09 1E-13 79.9 7.9 68 58-132 6-77 (289)
77 TIGR03714 secA2 accessory Sec 98.9 3.6E-09 7.9E-14 89.1 7.3 62 57-133 67-128 (762)
78 PF04851 ResIII: Type III rest 98.9 5.4E-09 1.2E-13 72.9 6.2 58 61-133 3-67 (184)
79 PRK08074 bifunctional ATP-depe 98.8 1.1E-08 2.3E-13 88.6 8.3 64 58-133 255-322 (928)
80 COG4581 Superfamily II RNA hel 98.8 9.5E-09 2.1E-13 88.6 6.9 71 51-134 110-180 (1041)
81 PRK13766 Hef nuclease; Provisi 98.8 2.1E-08 4.4E-13 85.2 8.1 62 60-133 14-75 (773)
82 PRK09751 putative ATP-dependen 98.8 5E-09 1.1E-13 93.4 4.5 53 81-133 1-54 (1490)
83 PRK11747 dinG ATP-dependent DN 98.8 4.8E-08 1E-12 82.4 9.7 64 58-133 23-95 (697)
84 COG1110 Reverse gyrase [DNA re 98.8 4.1E-08 8.8E-13 84.1 9.1 74 48-134 69-143 (1187)
85 KOG0353|consensus 98.7 3.2E-08 6.8E-13 77.6 6.4 75 42-131 74-149 (695)
86 KOG0352|consensus 98.7 4.3E-08 9.3E-13 77.7 6.9 68 49-131 6-76 (641)
87 KOG0354|consensus 98.7 3.7E-08 8E-13 82.4 6.9 62 60-132 61-122 (746)
88 PRK11664 ATP-dependent RNA hel 98.7 3.7E-08 8.1E-13 84.1 6.5 55 67-133 11-65 (812)
89 COG0514 RecQ Superfamily II DN 98.7 5.5E-08 1.2E-12 80.0 7.0 66 51-131 6-72 (590)
90 TIGR01970 DEAH_box_HrpB ATP-de 98.6 8.4E-08 1.8E-12 82.0 7.2 55 67-133 8-62 (819)
91 COG1199 DinG Rad3-related DNA 98.6 1.9E-07 4E-12 78.1 9.0 64 59-133 13-80 (654)
92 PRK13104 secA preprotein trans 98.6 7.7E-08 1.7E-12 82.2 6.4 62 57-133 79-140 (896)
93 COG1061 SSL2 DNA or RNA helica 98.6 1.8E-07 3.9E-12 75.1 7.2 58 61-133 36-97 (442)
94 KOG0951|consensus 98.5 3E-07 6.4E-12 80.3 7.3 84 46-132 296-380 (1674)
95 PRK09694 helicase Cas3; Provis 98.5 5.5E-07 1.2E-11 77.5 7.3 64 60-133 285-348 (878)
96 cd00046 DEXDc DEAD-like helica 98.4 4.6E-07 9.9E-12 59.6 5.4 47 77-133 1-47 (144)
97 COG1200 RecG RecG-like helicas 98.4 1.1E-06 2.3E-11 73.0 7.3 76 45-133 246-328 (677)
98 PRK11448 hsdR type I restricti 98.4 2.1E-06 4.5E-11 75.7 8.8 63 61-133 413-480 (1123)
99 KOG0351|consensus 98.3 4.9E-07 1.1E-11 78.0 4.2 69 49-132 251-320 (941)
100 TIGR00604 rad3 DNA repair heli 98.3 2.3E-06 4.9E-11 72.4 7.9 66 58-132 7-76 (705)
101 PRK12904 preprotein translocas 98.3 1.4E-06 3E-11 74.3 6.3 61 57-133 78-139 (830)
102 PF13086 AAA_11: AAA domain; P 98.2 4E-06 8.7E-11 60.4 6.9 69 61-133 1-70 (236)
103 COG1111 MPH1 ERCC4-like helica 98.2 4.6E-06 9.9E-11 67.3 7.3 60 61-132 15-74 (542)
104 PRK13107 preprotein translocas 98.2 4.1E-06 8.9E-11 71.8 5.9 62 57-133 79-140 (908)
105 PF13245 AAA_19: Part of AAA d 98.1 1.2E-05 2.6E-10 49.5 6.5 57 69-133 2-59 (76)
106 TIGR00603 rad25 DNA repair hel 98.1 9.2E-06 2E-10 68.7 6.8 57 61-132 255-314 (732)
107 KOG0947|consensus 98.0 1.4E-05 3.1E-10 68.6 6.5 64 57-133 294-357 (1248)
108 COG1198 PriA Primosomal protei 98.0 3.4E-05 7.3E-10 65.4 8.5 61 61-133 198-262 (730)
109 PF00580 UvrD-helicase: UvrD/R 97.9 4.5E-05 9.8E-10 57.4 6.5 61 62-132 1-61 (315)
110 TIGR00348 hsdR type I site-spe 97.9 3.2E-05 7E-10 65.2 6.1 63 61-133 238-310 (667)
111 PF13604 AAA_30: AAA domain; P 97.8 0.0001 2.2E-09 53.1 7.3 61 61-133 1-63 (196)
112 PRK12906 secA preprotein trans 97.8 7.6E-05 1.6E-09 63.7 7.5 60 57-131 77-136 (796)
113 KOG0948|consensus 97.8 3.4E-05 7.4E-10 65.1 4.5 64 57-133 126-189 (1041)
114 COG1197 Mfd Transcription-repa 97.7 0.00033 7.1E-09 61.6 9.6 76 45-133 578-660 (1139)
115 PRK12326 preprotein translocas 97.7 0.00023 5E-09 60.3 8.3 61 57-132 75-135 (764)
116 TIGR00376 DNA helicase, putati 97.7 0.0002 4.4E-09 60.1 8.1 60 61-132 157-217 (637)
117 COG1203 CRISPR-associated heli 97.6 0.0002 4.3E-09 61.1 7.2 66 61-134 195-264 (733)
118 PF02562 PhoH: PhoH-like prote 97.6 0.00017 3.8E-09 52.5 5.6 59 60-128 3-61 (205)
119 KOG1803|consensus 97.5 0.00027 5.8E-09 58.4 6.7 60 61-132 185-245 (649)
120 KOG0949|consensus 97.4 0.00037 8E-09 60.5 6.2 65 58-133 509-573 (1330)
121 KOG1802|consensus 97.4 0.00044 9.5E-09 58.0 6.3 70 53-133 402-471 (935)
122 COG0556 UvrB Helicase subunit 97.4 0.00023 5E-09 58.2 4.4 61 58-134 10-75 (663)
123 KOG0951|consensus 97.3 5.7E-05 1.2E-09 66.6 -0.0 61 60-133 1142-1203(1674)
124 PRK15483 type III restriction- 97.3 0.0012 2.7E-08 57.6 7.7 46 77-132 60-105 (986)
125 PRK13103 secA preprotein trans 97.2 0.00085 1.8E-08 58.0 6.5 60 57-131 79-138 (913)
126 PF07517 SecA_DEAD: SecA DEAD- 97.2 0.0024 5.1E-08 48.3 8.0 60 57-131 74-133 (266)
127 PRK10536 hypothetical protein; 97.2 0.0011 2.4E-08 49.9 5.6 46 57-102 55-100 (262)
128 COG4096 HsdR Type I site-speci 97.1 0.0013 2.8E-08 56.2 6.0 63 61-133 165-232 (875)
129 CHL00122 secA preprotein trans 97.0 0.0021 4.5E-08 55.5 6.8 61 57-132 73-133 (870)
130 PRK13889 conjugal transfer rel 97.0 0.0071 1.5E-07 53.3 9.9 63 57-132 343-406 (988)
131 PRK13894 conjugal transfer ATP 97.0 0.005 1.1E-07 47.8 8.0 48 51-101 124-172 (319)
132 PF07652 Flavi_DEAD: Flaviviru 97.0 0.00098 2.1E-08 46.0 3.4 47 76-133 4-50 (148)
133 TIGR02782 TrbB_P P-type conjug 96.9 0.008 1.7E-07 46.2 8.8 50 50-102 107-157 (299)
134 PRK13833 conjugal transfer pro 96.9 0.0066 1.4E-07 47.2 8.2 47 53-102 122-169 (323)
135 KOG1133|consensus 96.9 0.0021 4.6E-08 54.1 5.7 46 58-104 13-62 (821)
136 TIGR01448 recD_rel helicase, p 96.9 0.0086 1.9E-07 51.2 9.3 65 57-132 320-384 (720)
137 TIGR02768 TraA_Ti Ti-type conj 96.8 0.014 2.9E-07 50.2 10.0 74 46-132 338-412 (744)
138 PRK11131 ATP-dependent RNA hel 96.7 0.0032 7E-08 56.5 5.8 34 65-100 78-111 (1294)
139 COG2805 PilT Tfp pilus assembl 96.6 0.0055 1.2E-07 47.3 5.5 51 36-105 103-153 (353)
140 TIGR00631 uvrb excinuclease AB 96.6 0.0069 1.5E-07 51.2 6.4 61 58-134 7-72 (655)
141 PF01695 IstB_IS21: IstB-like 96.6 0.0059 1.3E-07 43.4 5.2 46 75-133 46-91 (178)
142 PRK10919 ATP-dependent DNA hel 96.4 0.0096 2.1E-07 50.5 6.5 62 61-132 2-63 (672)
143 COG1484 DnaC DNA replication p 96.4 0.011 2.4E-07 44.3 5.9 63 58-133 80-149 (254)
144 TIGR02525 plasmid_TraJ plasmid 96.3 0.018 3.9E-07 45.6 7.1 27 76-103 149-175 (372)
145 PRK12902 secA preprotein trans 96.3 0.013 2.8E-07 50.9 6.7 60 57-131 82-141 (939)
146 PRK11054 helD DNA helicase IV; 96.3 0.028 6E-07 47.9 8.6 63 60-132 195-257 (684)
147 PRK10875 recD exonuclease V su 96.2 0.049 1.1E-06 45.9 9.5 62 63-132 154-215 (615)
148 TIGR01074 rep ATP-dependent DN 96.2 0.018 3.8E-07 48.6 6.8 61 62-132 2-62 (664)
149 PF05970 PIF1: PIF1-like helic 96.2 0.023 4.9E-07 44.7 7.0 59 62-132 2-66 (364)
150 PRK05973 replicative DNA helic 96.2 0.015 3.2E-07 43.4 5.5 59 42-100 21-88 (237)
151 KOG0950|consensus 96.2 0.012 2.6E-07 51.1 5.6 58 46-103 207-267 (1008)
152 COG4889 Predicted helicase [Ge 96.1 0.0064 1.4E-07 52.9 3.9 78 40-133 141-223 (1518)
153 COG2804 PulE Type II secretory 96.1 0.019 4.1E-07 46.9 6.4 46 54-103 237-284 (500)
154 PRK13851 type IV secretion sys 96.1 0.012 2.5E-07 46.2 5.0 29 72-101 158-186 (344)
155 cd01129 PulE-GspE PulE/GspE Th 96.1 0.031 6.7E-07 42.1 7.0 46 53-102 58-105 (264)
156 PF00176 SNF2_N: SNF2 family N 96.1 0.021 4.6E-07 42.6 6.2 48 76-131 25-72 (299)
157 COG4962 CpaF Flp pilus assembl 96.1 0.025 5.3E-07 44.3 6.5 35 58-92 154-189 (355)
158 TIGR01447 recD exodeoxyribonuc 96.0 0.028 6E-07 47.1 7.1 61 64-131 148-208 (586)
159 cd01130 VirB11-like_ATPase Typ 96.0 0.018 3.9E-07 40.9 5.1 39 53-93 3-42 (186)
160 PRK13900 type IV secretion sys 96.0 0.038 8.3E-07 43.1 7.2 30 72-102 156-185 (332)
161 KOG1132|consensus 95.9 0.012 2.5E-07 50.8 4.4 46 58-104 19-68 (945)
162 PRK10436 hypothetical protein; 95.9 0.032 6.9E-07 45.4 6.7 46 53-102 196-243 (462)
163 PRK13764 ATPase; Provisional 95.9 0.026 5.6E-07 47.3 6.3 27 75-102 256-282 (602)
164 COG4098 comFA Superfamily II D 95.9 0.031 6.7E-07 44.0 6.2 61 60-132 96-160 (441)
165 PRK05298 excinuclease ABC subu 95.8 0.026 5.6E-07 47.8 6.3 60 58-133 10-74 (652)
166 COG3973 Superfamily I DNA and 95.8 0.086 1.9E-06 44.3 8.8 85 43-133 186-277 (747)
167 TIGR01075 uvrD DNA helicase II 95.8 0.027 5.8E-07 48.0 6.2 63 60-132 3-65 (715)
168 PRK04914 ATP-dependent helicas 95.8 0.049 1.1E-06 48.0 7.8 60 61-131 152-213 (956)
169 TIGR02538 type_IV_pilB type IV 95.8 0.035 7.5E-07 46.3 6.6 46 53-102 294-341 (564)
170 TIGR02524 dot_icm_DotB Dot/Icm 95.7 0.044 9.5E-07 43.2 6.6 27 75-102 133-159 (358)
171 TIGR02785 addA_Gpos recombinat 95.6 0.04 8.6E-07 49.8 6.9 60 62-132 2-61 (1232)
172 PRK13826 Dtr system oriT relax 95.6 0.14 2.9E-06 45.9 10.0 75 45-132 366-441 (1102)
173 PF12340 DUF3638: Protein of u 95.6 0.095 2.1E-06 38.9 7.7 80 39-132 3-85 (229)
174 TIGR02533 type_II_gspE general 95.5 0.041 8.8E-07 45.1 6.1 46 53-102 220-267 (486)
175 PRK08181 transposase; Validate 95.5 0.057 1.2E-06 40.9 6.5 46 74-132 104-149 (269)
176 PRK11773 uvrD DNA-dependent he 95.5 0.051 1.1E-06 46.4 6.8 62 61-132 9-70 (721)
177 PF12846 AAA_10: AAA-like doma 95.5 0.036 7.8E-07 41.3 5.2 40 76-127 1-40 (304)
178 PRK06835 DNA replication prote 95.3 0.12 2.6E-06 40.3 7.9 45 75-132 182-226 (329)
179 PRK06526 transposase; Provisio 95.3 0.04 8.7E-07 41.4 5.0 21 74-94 96-116 (254)
180 PRK14873 primosome assembly pr 95.3 0.019 4.2E-07 48.7 3.6 41 81-133 165-205 (665)
181 PF10412 TrwB_AAD_bind: Type I 95.2 0.025 5.4E-07 44.9 3.9 48 73-132 12-59 (386)
182 PRK12903 secA preprotein trans 95.2 0.095 2.1E-06 45.7 7.5 59 57-130 75-133 (925)
183 COG0630 VirB11 Type IV secreto 95.2 0.075 1.6E-06 41.1 6.3 58 39-102 110-168 (312)
184 TIGR02640 gas_vesic_GvpN gas v 95.2 0.026 5.7E-07 42.3 3.7 26 68-93 13-38 (262)
185 COG1875 NYN ribonuclease and A 95.1 0.064 1.4E-06 42.6 5.8 66 58-132 225-292 (436)
186 PF09848 DUF2075: Uncharacteri 95.1 0.034 7.3E-07 43.4 4.4 45 79-133 4-48 (352)
187 smart00382 AAA ATPases associa 95.0 0.019 4E-07 37.1 2.3 18 76-93 2-19 (148)
188 PF00437 T2SE: Type II/IV secr 95.0 0.031 6.6E-07 41.8 3.6 30 73-103 124-153 (270)
189 TIGR03499 FlhF flagellar biosy 95.0 0.2 4.2E-06 38.1 8.0 19 76-94 194-212 (282)
190 TIGR03819 heli_sec_ATPase heli 95.0 0.1 2.2E-06 40.8 6.6 42 50-93 153-195 (340)
191 cd01127 TrwB Bacterial conjuga 94.9 0.037 8E-07 44.2 4.1 33 70-103 36-68 (410)
192 PF06745 KaiC: KaiC; InterPro 94.8 0.073 1.6E-06 38.7 5.1 38 75-123 18-55 (226)
193 PF02534 T4SS-DNA_transf: Type 94.7 0.02 4.4E-07 46.1 2.2 23 77-99 45-67 (469)
194 PRK06921 hypothetical protein; 94.7 0.31 6.6E-06 36.8 8.5 45 75-131 116-160 (266)
195 TIGR01073 pcrA ATP-dependent D 94.7 0.1 2.2E-06 44.6 6.4 63 60-132 3-65 (726)
196 TIGR01967 DEAH_box_HrpA ATP-de 94.7 0.09 1.9E-06 47.7 6.2 42 57-100 60-104 (1283)
197 KOG0952|consensus 94.7 0.0088 1.9E-07 52.5 -0.0 61 60-130 926-987 (1230)
198 cd01124 KaiC KaiC is a circadi 94.6 0.072 1.6E-06 37.2 4.6 34 79-124 2-35 (187)
199 TIGR02760 TraI_TIGR conjugativ 94.6 0.18 3.9E-06 47.7 8.1 61 61-132 1019-1084(1960)
200 cd00009 AAA The AAA+ (ATPases 94.5 0.067 1.5E-06 34.8 4.0 25 76-101 19-43 (151)
201 COG5008 PilU Tfp pilus assembl 94.5 0.041 8.8E-07 42.1 3.2 23 79-102 130-152 (375)
202 PRK07952 DNA replication prote 94.5 0.23 5.1E-06 37.1 7.2 26 77-103 100-125 (244)
203 PRK12377 putative replication 94.4 0.2 4.2E-06 37.6 6.7 44 76-132 101-144 (248)
204 PF12775 AAA_7: P-loop contain 94.4 0.031 6.8E-07 42.3 2.4 21 73-93 30-50 (272)
205 COG1219 ClpX ATP-dependent pro 94.3 0.029 6.2E-07 43.8 2.0 56 38-93 43-114 (408)
206 PRK13700 conjugal transfer pro 94.2 0.073 1.6E-06 45.5 4.3 72 48-131 157-228 (732)
207 PRK09183 transposase/IS protei 94.2 0.17 3.7E-06 38.0 6.0 22 73-94 99-120 (259)
208 TIGR03877 thermo_KaiC_1 KaiC d 94.1 0.11 2.3E-06 38.4 4.7 37 75-123 20-56 (237)
209 PRK13709 conjugal transfer nic 94.1 0.26 5.6E-06 46.2 8.0 64 61-132 967-1032(1747)
210 PLN03142 Probable chromatin-re 94.1 0.25 5.4E-06 44.1 7.5 59 61-128 169-231 (1033)
211 cd01131 PilT Pilus retraction 94.0 0.094 2E-06 37.7 4.2 23 79-102 4-26 (198)
212 KOG1805|consensus 94.0 0.11 2.4E-06 45.6 5.1 67 44-126 656-723 (1100)
213 TIGR00595 priA primosomal prot 94.0 0.038 8.2E-07 45.5 2.3 22 80-101 1-22 (505)
214 PRK14722 flhF flagellar biosyn 94.0 0.51 1.1E-05 37.5 8.5 58 39-96 81-157 (374)
215 PRK14712 conjugal transfer nic 93.9 0.28 6E-06 45.6 7.7 62 61-132 835-900 (1623)
216 PF04665 Pox_A32: Poxvirus A32 93.8 0.12 2.6E-06 38.7 4.4 23 78-101 15-37 (241)
217 PF01580 FtsK_SpoIIIE: FtsK/Sp 93.7 0.17 3.7E-06 36.2 5.0 27 76-102 38-64 (205)
218 cd01122 GP4d_helicase GP4d_hel 93.6 0.037 8.1E-07 41.3 1.5 25 72-96 26-50 (271)
219 PRK05703 flhF flagellar biosyn 93.6 0.37 8E-06 38.9 7.2 19 76-94 221-239 (424)
220 PF02399 Herpes_ori_bp: Origin 93.5 0.12 2.5E-06 44.8 4.4 44 79-133 52-95 (824)
221 COG3587 Restriction endonuclea 93.5 0.095 2.1E-06 45.5 3.8 41 78-128 76-116 (985)
222 PF00004 AAA: ATPase family as 93.4 0.062 1.3E-06 35.0 2.2 15 79-93 1-15 (132)
223 PF13401 AAA_22: AAA domain; P 93.4 0.056 1.2E-06 35.5 2.0 19 75-93 3-21 (131)
224 PRK08116 hypothetical protein; 93.4 0.55 1.2E-05 35.5 7.5 26 77-103 115-140 (268)
225 PF01078 Mg_chelatase: Magnesi 93.4 0.1 2.2E-06 38.2 3.4 27 67-93 12-39 (206)
226 PTZ00454 26S protease regulato 93.3 0.071 1.5E-06 42.6 2.7 55 36-93 139-196 (398)
227 PRK13531 regulatory ATPase Rav 93.3 0.18 3.8E-06 41.5 4.9 27 67-93 30-56 (498)
228 cd00984 DnaB_C DnaB helicase C 93.2 0.16 3.5E-06 37.1 4.3 39 74-123 11-49 (242)
229 PRK11331 5-methylcytosine-spec 93.2 0.15 3.3E-06 41.5 4.4 31 63-93 181-211 (459)
230 PF01935 DUF87: Domain of unkn 93.2 0.18 4E-06 36.6 4.5 27 75-102 22-48 (229)
231 cd01126 TraG_VirD4 The TraG/Tr 93.2 0.02 4.3E-07 45.1 -0.6 23 78-100 1-23 (384)
232 TIGR01420 pilT_fam pilus retra 93.2 0.2 4.3E-06 39.1 5.0 27 75-102 121-147 (343)
233 TIGR02759 TraD_Ftype type IV c 93.1 0.16 3.4E-06 42.5 4.6 29 74-103 174-202 (566)
234 COG0467 RAD55 RecA-superfamily 93.1 0.19 4.2E-06 37.4 4.7 37 75-123 22-58 (260)
235 PF13555 AAA_29: P-loop contai 93.1 0.093 2E-06 31.0 2.3 19 75-93 22-40 (62)
236 TIGR03878 thermo_KaiC_2 KaiC d 93.1 0.2 4.3E-06 37.6 4.7 25 75-99 35-59 (259)
237 TIGR02788 VirB11 P-type DNA tr 92.9 0.16 3.5E-06 39.0 4.0 21 73-93 141-161 (308)
238 PF07728 AAA_5: AAA domain (dy 92.8 0.073 1.6E-06 35.6 1.9 16 78-93 1-16 (139)
239 PRK13897 type IV secretion sys 92.8 0.089 1.9E-06 44.3 2.6 25 77-101 159-183 (606)
240 TIGR02760 TraI_TIGR conjugativ 92.7 0.56 1.2E-05 44.6 7.9 60 61-132 429-490 (1960)
241 KOG1533|consensus 92.7 0.12 2.7E-06 38.7 3.0 24 79-103 5-28 (290)
242 TIGR03881 KaiC_arch_4 KaiC dom 92.7 0.28 6.1E-06 35.6 4.9 25 75-99 19-43 (229)
243 PTZ00361 26 proteosome regulat 92.6 0.071 1.5E-06 43.2 1.8 55 35-93 176-234 (438)
244 PF13207 AAA_17: AAA domain; P 92.6 0.092 2E-06 34.0 2.1 15 79-93 2-16 (121)
245 KOG0925|consensus 92.6 0.29 6.3E-06 40.4 5.2 56 37-92 23-78 (699)
246 PF00448 SRP54: SRP54-type pro 92.6 0.28 6.1E-06 35.3 4.8 16 79-94 4-19 (196)
247 PF13671 AAA_33: AAA domain; P 92.5 0.097 2.1E-06 34.9 2.1 15 79-93 2-16 (143)
248 TIGR02237 recomb_radB DNA repa 92.4 0.31 6.8E-06 34.8 4.8 25 75-99 11-35 (209)
249 KOG4150|consensus 92.3 0.13 2.8E-06 43.3 2.9 65 57-131 282-346 (1034)
250 PRK04328 hypothetical protein; 92.3 0.3 6.5E-06 36.4 4.8 27 75-101 22-48 (249)
251 PRK13880 conjugal transfer cou 92.3 0.075 1.6E-06 44.9 1.7 24 77-100 176-199 (636)
252 PRK08727 hypothetical protein; 92.3 0.29 6.2E-06 36.1 4.5 25 77-102 42-66 (233)
253 PRK13850 type IV secretion sys 92.2 0.11 2.4E-06 44.2 2.6 25 77-101 140-164 (670)
254 TIGR02655 circ_KaiC circadian 92.2 0.27 5.8E-06 40.2 4.7 28 75-102 20-47 (484)
255 PRK08084 DNA replication initi 92.1 0.37 8E-06 35.5 5.0 25 76-101 45-69 (235)
256 PRK06893 DNA replication initi 92.0 0.29 6.4E-06 35.9 4.4 25 77-102 40-64 (229)
257 PRK12727 flagellar biosynthesi 92.0 1.2 2.5E-05 37.3 8.1 56 39-94 299-368 (559)
258 PF09439 SRPRB: Signal recogni 91.9 0.13 2.8E-06 36.8 2.3 20 76-95 3-22 (181)
259 TIGR03743 SXT_TraD conjugative 91.9 0.33 7.2E-06 41.1 5.0 26 76-101 176-201 (634)
260 TIGR03015 pepcterm_ATPase puta 91.9 0.3 6.5E-06 36.1 4.4 33 61-93 23-60 (269)
261 PRK08903 DnaA regulatory inact 91.9 0.39 8.4E-06 34.9 4.8 19 75-93 41-59 (227)
262 cd01120 RecA-like_NTPases RecA 91.8 0.5 1.1E-05 31.6 5.1 16 79-94 2-17 (165)
263 PF13238 AAA_18: AAA domain; P 91.7 0.14 2.9E-06 33.3 2.1 15 79-93 1-15 (129)
264 PF00308 Bac_DnaA: Bacterial d 91.7 0.4 8.7E-06 35.0 4.8 36 78-123 36-71 (219)
265 PRK04296 thymidine kinase; Pro 91.7 0.44 9.6E-06 33.9 4.9 36 77-124 3-38 (190)
266 TIGR03744 traC_PFL_4706 conjug 91.7 0.38 8.2E-06 42.3 5.3 26 76-101 475-500 (893)
267 COG0606 Predicted ATPase with 91.7 0.2 4.3E-06 40.9 3.3 26 68-93 189-215 (490)
268 TIGR02880 cbbX_cfxQ probable R 91.6 0.14 2.9E-06 39.0 2.3 18 76-93 58-75 (284)
269 PF13191 AAA_16: AAA ATPase do 91.6 0.23 5.1E-06 34.3 3.3 27 76-103 24-50 (185)
270 KOG0744|consensus 91.5 0.24 5.2E-06 38.9 3.4 26 77-103 178-203 (423)
271 TIGR03880 KaiC_arch_3 KaiC dom 91.4 0.47 1E-05 34.4 4.9 20 75-94 15-34 (224)
272 PRK13876 conjugal transfer cou 91.4 0.16 3.6E-06 43.2 2.7 25 77-101 145-169 (663)
273 TIGR02767 TraG-Ti Ti-type conj 91.4 0.17 3.6E-06 42.8 2.7 24 77-100 212-235 (623)
274 KOG1807|consensus 91.4 0.43 9.3E-06 41.3 5.1 66 61-132 378-443 (1025)
275 COG0714 MoxR-like ATPases [Gen 91.3 0.28 6E-06 38.0 3.7 23 71-93 38-60 (329)
276 KOG0390|consensus 91.3 0.52 1.1E-05 40.7 5.6 62 60-126 237-308 (776)
277 PRK06067 flagellar accessory p 91.2 0.54 1.2E-05 34.4 5.1 26 75-100 24-49 (234)
278 TIGR03689 pup_AAA proteasome A 91.2 0.16 3.5E-06 42.0 2.4 54 37-93 177-233 (512)
279 TIGR02881 spore_V_K stage V sp 91.2 0.16 3.6E-06 37.9 2.3 17 77-93 43-59 (261)
280 PHA02244 ATPase-like protein 91.1 0.37 8E-06 38.4 4.2 22 72-93 115-136 (383)
281 PRK12402 replication factor C 91.0 0.36 7.9E-06 36.9 4.1 19 75-93 33-53 (337)
282 KOG0738|consensus 91.0 0.19 4.1E-06 40.3 2.5 56 37-93 181-262 (491)
283 CHL00181 cbbX CbbX; Provisiona 91.0 0.18 3.8E-06 38.5 2.3 19 76-94 59-77 (287)
284 TIGR01242 26Sp45 26S proteasom 90.9 0.16 3.4E-06 39.8 2.1 55 36-93 116-173 (364)
285 PRK08533 flagellar accessory p 90.9 0.59 1.3E-05 34.4 5.0 21 74-94 22-42 (230)
286 PRK03992 proteasome-activating 90.9 0.17 3.7E-06 40.2 2.2 54 37-93 126-182 (389)
287 TIGR01241 FtsH_fam ATP-depende 90.8 0.26 5.5E-06 40.4 3.2 55 36-93 49-105 (495)
288 PRK13822 conjugal transfer cou 90.7 0.2 4.3E-06 42.5 2.6 23 77-99 225-247 (641)
289 cd01394 radB RadB. The archaea 90.7 0.52 1.1E-05 34.0 4.5 22 76-97 19-40 (218)
290 PRK10078 ribose 1,5-bisphospho 90.7 0.2 4.4E-06 35.4 2.3 18 76-93 2-19 (186)
291 PF14532 Sigma54_activ_2: Sigm 90.7 0.47 1E-05 31.8 4.0 22 72-93 17-38 (138)
292 PRK05642 DNA replication initi 90.6 0.57 1.2E-05 34.5 4.7 25 77-102 46-70 (234)
293 TIGR02746 TraC-F-type type-IV 90.6 0.56 1.2E-05 40.4 5.2 39 76-126 430-468 (797)
294 COG1643 HrpA HrpA-like helicas 90.5 0.99 2.2E-05 39.5 6.6 38 63-100 52-89 (845)
295 TIGR03754 conj_TOL_TraD conjug 90.5 0.55 1.2E-05 39.9 5.0 27 76-102 180-206 (643)
296 KOG1131|consensus 90.4 2 4.3E-05 36.0 7.9 46 58-103 13-62 (755)
297 PRK08939 primosomal protein Dn 90.4 0.6 1.3E-05 36.0 4.8 26 76-102 156-181 (306)
298 TIGR01650 PD_CobS cobaltochela 90.4 0.37 8E-06 37.6 3.6 23 71-93 59-81 (327)
299 PF03193 DUF258: Protein of un 90.3 0.51 1.1E-05 33.1 4.0 44 48-91 2-50 (161)
300 PRK12726 flagellar biosynthesi 90.3 1.4 3E-05 35.5 6.8 19 76-94 206-224 (407)
301 cd01363 Motor_domain Myosin an 90.3 0.25 5.3E-06 35.1 2.5 26 68-93 14-41 (186)
302 KOG0745|consensus 90.3 0.17 3.6E-06 41.2 1.7 17 77-93 227-243 (564)
303 KOG0733|consensus 90.2 0.29 6.3E-06 41.4 3.0 51 40-93 188-240 (802)
304 KOG2340|consensus 90.1 0.83 1.8E-05 38.1 5.5 74 60-133 215-310 (698)
305 PRK09361 radB DNA repair and r 90.1 0.73 1.6E-05 33.4 4.9 24 76-99 23-46 (225)
306 TIGR02655 circ_KaiC circadian 89.9 0.6 1.3E-05 38.2 4.7 22 75-96 262-283 (484)
307 PF03205 MobB: Molybdopterin g 89.9 0.84 1.8E-05 31.1 4.7 24 79-103 3-26 (140)
308 TIGR00176 mobB molybdopterin-g 89.8 0.87 1.9E-05 31.5 4.8 14 79-92 2-15 (155)
309 PF00625 Guanylate_kin: Guanyl 89.7 0.62 1.3E-05 32.7 4.1 17 76-92 2-18 (183)
310 TIGR03420 DnaA_homol_Hda DnaA 89.6 0.29 6.3E-06 35.3 2.4 19 75-93 37-55 (226)
311 KOG0926|consensus 89.6 0.58 1.3E-05 40.9 4.4 33 60-92 243-287 (1172)
312 TIGR02688 conserved hypothetic 89.6 0.48 1E-05 38.4 3.7 24 71-94 204-227 (449)
313 TIGR03238 dnd_assoc_3 dnd syst 89.5 0.47 1E-05 39.0 3.7 31 63-93 12-49 (504)
314 cd00227 CPT Chloramphenicol (C 89.4 0.31 6.6E-06 34.1 2.3 18 76-93 2-19 (175)
315 PRK12723 flagellar biosynthesi 89.4 0.88 1.9E-05 36.4 5.1 18 77-94 175-192 (388)
316 COG1224 TIP49 DNA helicase TIP 89.3 0.29 6.2E-06 38.9 2.2 26 75-101 64-89 (450)
317 TIGR02928 orc1/cdc6 family rep 89.3 0.49 1.1E-05 36.7 3.6 24 77-101 41-64 (365)
318 COG1419 FlhF Flagellar GTP-bin 89.2 0.92 2E-05 36.4 5.1 19 76-94 203-221 (407)
319 PRK14530 adenylate kinase; Pro 89.1 0.3 6.5E-06 35.3 2.2 19 75-93 2-20 (215)
320 PF07724 AAA_2: AAA domain (Cd 89.0 0.3 6.5E-06 34.4 2.0 15 78-92 5-19 (171)
321 COG1136 SalX ABC-type antimicr 89.0 0.24 5.2E-06 36.7 1.6 27 74-102 29-55 (226)
322 PF06068 TIP49: TIP49 C-termin 89.0 0.3 6.5E-06 38.9 2.2 26 75-101 49-74 (398)
323 COG1222 RPT1 ATP-dependent 26S 88.9 0.3 6.4E-06 38.8 2.1 55 36-93 145-202 (406)
324 KOG0989|consensus 88.9 0.91 2E-05 35.4 4.7 34 65-98 40-79 (346)
325 COG1855 ATPase (PilT family) [ 88.9 1.1 2.3E-05 36.9 5.2 46 39-103 244-289 (604)
326 PRK00131 aroK shikimate kinase 88.9 0.3 6.4E-06 33.5 1.9 19 75-93 3-21 (175)
327 PRK14729 miaA tRNA delta(2)-is 88.8 0.32 6.9E-06 37.5 2.2 17 77-93 5-21 (300)
328 COG1474 CDC6 Cdc6-related prot 88.8 0.54 1.2E-05 37.2 3.5 24 78-102 44-67 (366)
329 KOG1806|consensus 88.7 0.69 1.5E-05 41.2 4.3 64 58-131 735-798 (1320)
330 PRK07261 topology modulation p 88.6 0.34 7.4E-06 33.9 2.1 16 78-93 2-17 (171)
331 PRK08118 topology modulation p 88.6 0.34 7.5E-06 33.8 2.1 15 78-92 3-17 (167)
332 PF00225 Kinesin: Kinesin moto 88.6 0.53 1.1E-05 36.3 3.3 25 69-93 66-92 (335)
333 KOG0920|consensus 88.5 3.1 6.7E-05 36.9 8.1 41 63-103 175-215 (924)
334 TIGR00390 hslU ATP-dependent p 88.5 0.93 2E-05 36.8 4.7 17 77-93 48-64 (441)
335 PF13481 AAA_25: AAA domain; P 88.5 1.1 2.3E-05 31.4 4.6 27 75-101 31-57 (193)
336 PRK14087 dnaA chromosomal repl 88.5 1.4 3.1E-05 35.8 5.9 43 77-130 142-184 (450)
337 TIGR00362 DnaA chromosomal rep 88.5 1 2.2E-05 35.8 4.9 38 77-124 137-174 (405)
338 TIGR01243 CDC48 AAA family ATP 88.5 0.41 8.9E-06 41.1 2.9 53 38-93 449-504 (733)
339 PRK14088 dnaA chromosomal repl 88.5 1 2.2E-05 36.4 5.0 38 77-124 131-168 (440)
340 cd03115 SRP The signal recogni 88.4 1.1 2.5E-05 30.9 4.7 15 79-93 3-17 (173)
341 COG3451 VirB4 Type IV secretor 88.4 0.87 1.9E-05 39.7 4.8 17 78-94 438-454 (796)
342 KOG0060|consensus 88.4 0.31 6.7E-06 40.8 2.0 20 73-92 458-477 (659)
343 TIGR01313 therm_gnt_kin carboh 88.4 0.32 7E-06 33.3 1.8 15 79-93 1-15 (163)
344 PRK09302 circadian clock prote 88.4 0.91 2E-05 37.2 4.7 27 75-101 30-56 (509)
345 TIGR00382 clpX endopeptidase C 88.2 0.37 8E-06 38.8 2.3 17 77-93 117-133 (413)
346 PLN03025 replication factor C 88.2 0.86 1.9E-05 35.0 4.3 17 77-93 35-51 (319)
347 PRK05342 clpX ATP-dependent pr 88.2 0.38 8.1E-06 38.7 2.3 17 77-93 109-125 (412)
348 PF02374 ArsA_ATPase: Anion-tr 88.2 1.4 3.1E-05 33.9 5.5 41 78-130 3-45 (305)
349 TIGR03600 phage_DnaB phage rep 88.1 3.1 6.7E-05 33.3 7.5 26 75-101 193-218 (421)
350 PF14516 AAA_35: AAA-like doma 88.1 2.3 4.9E-05 33.1 6.6 39 64-103 18-57 (331)
351 PF07088 GvpD: GvpD gas vesicl 88.1 0.38 8.3E-06 38.7 2.3 28 75-103 9-36 (484)
352 TIGR02322 phosphon_PhnN phosph 88.0 0.39 8.5E-06 33.4 2.1 17 77-93 2-18 (179)
353 PRK00300 gmk guanylate kinase; 88.0 0.43 9.4E-06 33.9 2.3 18 75-92 4-21 (205)
354 PRK06620 hypothetical protein; 87.9 0.35 7.6E-06 35.3 1.8 17 77-93 45-61 (214)
355 PF00005 ABC_tran: ABC transpo 87.9 0.45 9.7E-06 31.4 2.2 19 75-93 10-28 (137)
356 PLN02165 adenylate isopentenyl 87.8 0.46 9.9E-06 37.2 2.5 20 75-94 42-61 (334)
357 cd01370 KISc_KIP3_like Kinesin 87.8 0.64 1.4E-05 36.2 3.4 25 69-93 79-105 (338)
358 PRK12724 flagellar biosynthesi 87.8 1.2 2.7E-05 36.0 5.0 20 78-97 225-244 (432)
359 PRK00149 dnaA chromosomal repl 87.8 1.3 2.7E-05 35.9 5.2 26 77-103 149-174 (450)
360 PF05729 NACHT: NACHT domain 87.8 0.41 8.9E-06 32.2 2.1 24 79-103 3-26 (166)
361 cd03114 ArgK-like The function 87.8 1.5 3.3E-05 30.0 4.8 15 79-93 2-16 (148)
362 TIGR01243 CDC48 AAA family ATP 87.7 0.33 7.1E-06 41.7 1.8 53 38-93 174-229 (733)
363 PRK12900 secA preprotein trans 87.6 0.95 2.1E-05 40.2 4.5 56 61-130 138-193 (1025)
364 cd00071 GMPK Guanosine monopho 87.5 0.46 9.9E-06 32.1 2.1 14 79-92 2-15 (137)
365 cd01369 KISc_KHC_KIF5 Kinesin 87.5 0.55 1.2E-05 36.3 2.8 25 68-92 67-93 (325)
366 PRK13873 conjugal transfer ATP 87.4 1 2.2E-05 39.2 4.7 18 78-95 443-460 (811)
367 TIGR00764 lon_rel lon-related 87.4 1.2 2.6E-05 37.7 4.9 46 39-93 5-54 (608)
368 PHA02533 17 large terminase pr 87.4 3.3 7.2E-05 34.5 7.4 63 61-133 59-121 (534)
369 PRK11889 flhF flagellar biosyn 87.4 1.3 2.9E-05 35.8 4.9 19 77-95 242-260 (436)
370 cd01368 KISc_KIF23_like Kinesi 87.3 0.55 1.2E-05 36.7 2.7 25 69-93 80-106 (345)
371 cd01365 KISc_KIF1A_KIF1B Kines 87.3 0.55 1.2E-05 36.8 2.8 24 70-93 81-106 (356)
372 cd01376 KISc_KID_like Kinesin 87.3 0.61 1.3E-05 36.0 3.0 25 69-93 72-98 (319)
373 PRK14723 flhF flagellar biosyn 87.3 3.4 7.4E-05 36.0 7.6 19 77-95 186-204 (767)
374 KOG0733|consensus 87.3 0.51 1.1E-05 40.0 2.6 54 37-93 506-562 (802)
375 TIGR00064 ftsY signal recognit 87.2 1.4 3.1E-05 33.4 4.9 18 77-94 73-90 (272)
376 cd01367 KISc_KIF2_like Kinesin 87.2 0.55 1.2E-05 36.3 2.6 26 69-94 76-103 (322)
377 KOG1942|consensus 87.2 0.68 1.5E-05 36.1 3.1 26 75-101 63-88 (456)
378 PRK00411 cdc6 cell division co 87.1 0.48 1E-05 37.2 2.3 24 77-101 56-79 (394)
379 PRK04220 2-phosphoglycerate ki 87.0 1.2 2.5E-05 34.5 4.3 46 46-92 60-108 (301)
380 TIGR02012 tigrfam_recA protein 86.8 1.9 4.1E-05 33.6 5.4 26 75-100 54-79 (321)
381 TIGR03263 guanyl_kin guanylate 86.7 0.55 1.2E-05 32.6 2.2 17 76-92 1-17 (180)
382 PF00158 Sigma54_activat: Sigm 86.7 0.91 2E-05 31.9 3.3 19 75-93 21-39 (168)
383 KOG0731|consensus 86.6 0.48 1E-05 40.9 2.2 51 40-93 309-361 (774)
384 PRK09354 recA recombinase A; P 86.6 1.4 3.1E-05 34.7 4.7 26 76-101 60-85 (349)
385 cd01393 recA_like RecA is a b 86.6 1.2 2.7E-05 32.0 4.1 24 76-99 19-42 (226)
386 PRK00091 miaA tRNA delta(2)-is 86.5 0.54 1.2E-05 36.4 2.3 16 78-93 6-21 (307)
387 COG1126 GlnQ ABC-type polar am 86.5 0.51 1.1E-05 35.0 2.0 19 74-92 26-44 (240)
388 PRK10416 signal recognition pa 86.4 1.6 3.4E-05 33.9 4.8 16 78-93 116-131 (318)
389 PF13476 AAA_23: AAA domain; P 86.4 0.54 1.2E-05 32.7 2.1 15 79-93 22-36 (202)
390 PRK12422 chromosomal replicati 86.4 1.3 2.9E-05 35.9 4.5 26 77-103 142-167 (445)
391 cd00983 recA RecA is a bacter 86.3 1.6 3.5E-05 34.0 4.8 24 76-99 55-78 (325)
392 cd01373 KISc_KLP2_like Kinesin 86.3 0.62 1.3E-05 36.3 2.5 24 70-93 67-92 (337)
393 PRK12901 secA preprotein trans 86.3 1.3 2.8E-05 39.7 4.6 56 61-130 169-224 (1112)
394 PRK04195 replication factor C 86.3 0.53 1.1E-05 38.4 2.2 43 39-93 11-56 (482)
395 cd01375 KISc_KIF9_like Kinesin 86.2 0.68 1.5E-05 36.0 2.7 24 70-93 73-98 (334)
396 cd01374 KISc_CENP_E Kinesin mo 86.1 0.71 1.5E-05 35.6 2.8 26 69-94 65-92 (321)
397 COG1223 Predicted ATPase (AAA+ 86.1 0.56 1.2E-05 36.0 2.1 18 76-93 151-168 (368)
398 PRK11608 pspF phage shock prot 86.1 1 2.2E-05 34.9 3.6 27 67-93 20-46 (326)
399 KOG0736|consensus 86.0 0.88 1.9E-05 39.5 3.4 56 36-93 666-722 (953)
400 PF03796 DnaB_C: DnaB-like hel 85.8 2 4.3E-05 31.9 5.0 38 76-124 19-56 (259)
401 smart00129 KISc Kinesin motor, 85.6 0.98 2.1E-05 34.9 3.3 26 68-93 70-97 (335)
402 KOG0991|consensus 85.6 0.65 1.4E-05 35.1 2.2 17 78-94 50-66 (333)
403 PRK06762 hypothetical protein; 85.6 0.65 1.4E-05 31.9 2.1 16 78-93 4-19 (166)
404 cd00820 PEPCK_HprK Phosphoenol 85.6 0.73 1.6E-05 30.1 2.2 21 75-95 14-34 (107)
405 PRK11823 DNA repair protein Ra 85.6 1.5 3.2E-05 35.7 4.4 38 75-124 79-116 (446)
406 cd00106 KISc Kinesin motor dom 85.5 0.95 2.1E-05 34.8 3.2 25 68-92 69-95 (328)
407 TIGR02974 phageshock_pspF psp 85.5 1.1 2.4E-05 34.8 3.6 27 67-93 13-39 (329)
408 CHL00195 ycf46 Ycf46; Provisio 85.5 0.61 1.3E-05 38.4 2.2 18 76-93 259-276 (489)
409 TIGR01359 UMP_CMP_kin_fam UMP- 85.4 0.66 1.4E-05 32.3 2.1 15 79-93 2-16 (183)
410 cd01123 Rad51_DMC1_radA Rad51_ 85.3 1.1 2.3E-05 32.6 3.2 25 75-99 18-42 (235)
411 PRK13891 conjugal transfer pro 85.3 1.6 3.5E-05 38.3 4.8 17 78-94 490-506 (852)
412 PF05496 RuvB_N: Holliday junc 85.2 0.76 1.7E-05 34.2 2.4 16 78-93 52-67 (233)
413 KOG0924|consensus 85.2 1 2.2E-05 38.9 3.3 33 61-93 356-388 (1042)
414 PRK09825 idnK D-gluconate kina 85.2 0.7 1.5E-05 32.6 2.1 19 75-93 2-20 (176)
415 TIGR00750 lao LAO/AO transport 85.2 2 4.4E-05 32.8 4.8 18 75-92 33-50 (300)
416 TIGR01360 aden_kin_iso1 adenyl 85.2 0.69 1.5E-05 32.2 2.1 16 78-93 5-20 (188)
417 PRK13765 ATP-dependent proteas 85.0 1.4 3.1E-05 37.4 4.2 49 36-93 15-67 (637)
418 TIGR00959 ffh signal recogniti 84.9 2.1 4.5E-05 34.7 4.9 16 79-94 102-117 (428)
419 TIGR00416 sms DNA repair prote 84.9 1.5 3.2E-05 35.8 4.1 38 75-124 93-130 (454)
420 cd02019 NK Nucleoside/nucleoti 84.9 0.8 1.7E-05 27.1 2.0 15 79-93 2-16 (69)
421 PRK06995 flhF flagellar biosyn 84.9 1.8 4E-05 35.6 4.7 20 76-95 256-275 (484)
422 PRK14086 dnaA chromosomal repl 84.8 2.9 6.3E-05 35.5 5.9 41 78-129 316-356 (617)
423 PRK00771 signal recognition pa 84.8 2 4.3E-05 34.9 4.8 17 78-94 97-113 (437)
424 COG0419 SbcC ATPase involved i 84.8 0.62 1.3E-05 41.0 2.0 24 78-102 27-50 (908)
425 smart00072 GuKc Guanylate kina 84.7 1.8 3.9E-05 30.4 4.1 17 76-92 2-18 (184)
426 cd02020 CMPK Cytidine monophos 84.7 0.78 1.7E-05 30.5 2.1 15 79-93 2-16 (147)
427 PRK08233 hypothetical protein; 84.6 0.67 1.4E-05 32.1 1.8 15 79-93 6-20 (182)
428 PRK09302 circadian clock prote 84.6 2 4.2E-05 35.3 4.8 26 75-100 272-297 (509)
429 cd00464 SK Shikimate kinase (S 84.5 0.82 1.8E-05 30.7 2.2 16 78-93 1-16 (154)
430 PRK06547 hypothetical protein; 84.5 0.78 1.7E-05 32.3 2.1 15 79-93 18-32 (172)
431 PRK14531 adenylate kinase; Pro 84.5 0.66 1.4E-05 32.7 1.8 17 77-93 3-19 (183)
432 PRK13768 GTPase; Provisional 84.5 2 4.4E-05 32.1 4.4 16 78-93 4-19 (253)
433 PRK00080 ruvB Holliday junctio 84.4 0.76 1.7E-05 35.4 2.2 18 77-94 52-69 (328)
434 PF02456 Adeno_IVa2: Adenoviru 84.3 1.1 2.3E-05 35.1 2.9 13 79-91 90-102 (369)
435 PLN02796 D-glycerate 3-kinase 84.3 3.4 7.3E-05 32.6 5.7 15 79-93 103-117 (347)
436 TIGR02784 addA_alphas double-s 84.3 3 6.4E-05 37.8 6.1 48 76-132 10-57 (1141)
437 PRK08356 hypothetical protein; 84.3 0.79 1.7E-05 32.6 2.1 15 79-93 8-22 (195)
438 TIGR00635 ruvB Holliday juncti 84.2 0.8 1.7E-05 34.7 2.2 17 77-93 31-47 (305)
439 PF10662 PduV-EutP: Ethanolami 84.2 1.7 3.7E-05 29.9 3.6 15 77-91 2-16 (143)
440 PF08283 Gemini_AL1_M: Geminiv 84.2 0.71 1.5E-05 30.2 1.7 55 30-91 51-105 (106)
441 cd01428 ADK Adenylate kinase ( 84.1 0.81 1.8E-05 32.0 2.1 15 79-93 2-16 (194)
442 cd02021 GntK Gluconate kinase 84.1 0.83 1.8E-05 30.8 2.1 15 79-93 2-16 (150)
443 KOG0953|consensus 84.1 1.2 2.6E-05 37.4 3.3 41 78-134 193-233 (700)
444 PRK10867 signal recognition pa 84.1 2.1 4.7E-05 34.7 4.7 16 79-94 103-118 (433)
445 cd01371 KISc_KIF3 Kinesin moto 84.0 0.93 2E-05 35.2 2.6 23 70-92 74-98 (333)
446 PRK05541 adenylylsulfate kinas 84.0 0.91 2E-05 31.5 2.3 19 75-93 6-24 (176)
447 COG0210 UvrD Superfamily I DNA 84.0 3.3 7.1E-05 35.0 6.0 61 61-131 2-62 (655)
448 PF00485 PRK: Phosphoribulokin 83.9 0.83 1.8E-05 32.4 2.1 15 79-93 2-16 (194)
449 cd01372 KISc_KIF4 Kinesin moto 83.8 0.98 2.1E-05 35.1 2.6 24 70-93 66-91 (341)
450 PF03215 Rad17: Rad17 cell cyc 83.8 1.4 3E-05 36.6 3.5 16 78-93 47-62 (519)
451 cd03292 ABC_FtsE_transporter F 83.8 0.67 1.4E-05 33.2 1.6 18 75-92 26-43 (214)
452 cd03258 ABC_MetN_methionine_tr 83.8 0.75 1.6E-05 33.5 1.9 20 73-92 28-47 (233)
453 KOG0732|consensus 83.7 1.1 2.4E-05 40.0 3.1 61 31-92 254-315 (1080)
454 PRK14974 cell division protein 83.7 3.8 8.3E-05 32.1 5.8 16 78-93 142-157 (336)
455 PRK08506 replicative DNA helic 83.7 2.2 4.7E-05 34.9 4.6 26 75-101 191-216 (472)
456 PRK14737 gmk guanylate kinase; 83.7 0.83 1.8E-05 32.6 2.0 17 76-92 4-20 (186)
457 KOG0737|consensus 83.6 1 2.2E-05 35.7 2.6 52 39-93 89-144 (386)
458 TIGR03783 Bac_Flav_CT_G Bacter 83.6 2.4 5.2E-05 37.2 5.1 21 76-96 438-458 (829)
459 KOG0729|consensus 83.5 0.83 1.8E-05 35.2 2.0 53 39-93 174-228 (435)
460 cd01121 Sms Sms (bacterial rad 83.4 2.1 4.6E-05 34.0 4.4 20 75-94 81-100 (372)
461 KOG0240|consensus 83.4 1.3 2.8E-05 37.0 3.2 32 61-92 58-99 (607)
462 PF02367 UPF0079: Uncharacteri 83.3 1.5 3.3E-05 29.3 3.1 28 73-101 12-39 (123)
463 TIGR00174 miaA tRNA isopenteny 83.2 0.95 2.1E-05 34.7 2.3 15 79-93 2-16 (287)
464 PRK01184 hypothetical protein; 83.2 0.89 1.9E-05 31.8 2.0 16 79-94 4-19 (184)
465 PRK14721 flhF flagellar biosyn 83.2 3.3 7.1E-05 33.5 5.4 19 76-94 191-209 (420)
466 PF06414 Zeta_toxin: Zeta toxi 83.1 0.88 1.9E-05 32.5 2.0 16 79-94 18-33 (199)
467 PHA00729 NTP-binding motif con 83.1 0.94 2E-05 33.6 2.1 22 78-100 19-40 (226)
468 TIGR01166 cbiO cobalt transpor 83.1 0.85 1.8E-05 32.1 1.9 19 74-92 16-34 (190)
469 PRK05480 uridine/cytidine kina 83.0 0.95 2.1E-05 32.4 2.1 16 78-93 8-23 (209)
470 cd01983 Fer4_NifH The Fer4_Nif 83.0 4.2 9.1E-05 24.3 4.9 15 79-93 2-16 (99)
471 PF03237 Terminase_6: Terminas 83.0 3.5 7.5E-05 31.3 5.4 24 80-103 1-24 (384)
472 cd01918 HprK_C HprK/P, the bif 83.0 0.93 2E-05 31.4 2.0 19 75-93 13-31 (149)
473 cd01125 repA Hexameric Replica 82.8 4.1 8.9E-05 29.8 5.5 22 78-99 3-24 (239)
474 cd01366 KISc_C_terminal Kinesi 82.8 1.3 2.7E-05 34.3 2.9 26 68-93 68-95 (329)
475 PRK06645 DNA polymerase III su 82.8 2.4 5.1E-05 35.1 4.5 18 78-95 45-62 (507)
476 TIGR00665 DnaB replicative DNA 82.8 2.7 5.9E-05 33.6 4.9 26 75-101 194-219 (434)
477 COG1074 RecB ATP-dependent exo 82.8 2.4 5.3E-05 38.4 4.9 50 75-131 15-64 (1139)
478 COG0324 MiaA tRNA delta(2)-iso 82.8 0.99 2.1E-05 35.0 2.2 22 79-101 6-27 (308)
479 KOG0742|consensus 82.7 0.74 1.6E-05 37.5 1.5 49 39-93 352-401 (630)
480 PF02463 SMC_N: RecF/RecN/SMC 82.6 0.99 2.1E-05 32.5 2.1 17 77-93 25-41 (220)
481 cd03269 ABC_putative_ATPase Th 82.6 0.79 1.7E-05 32.8 1.6 19 74-92 24-42 (210)
482 TIGR01425 SRP54_euk signal rec 82.6 2.6 5.6E-05 34.2 4.6 15 79-93 103-117 (429)
483 cd03238 ABC_UvrA The excision 82.6 1.1 2.5E-05 31.6 2.3 20 75-94 20-39 (176)
484 PRK14532 adenylate kinase; Pro 82.5 0.98 2.1E-05 31.7 2.0 16 78-93 2-17 (188)
485 PF03029 ATP_bind_1: Conserved 82.5 1.3 2.7E-05 33.0 2.6 22 81-103 1-22 (238)
486 cd01364 KISc_BimC_Eg5 Kinesin 82.4 1.1 2.5E-05 34.9 2.5 24 70-93 74-99 (352)
487 PRK06217 hypothetical protein; 82.4 1 2.3E-05 31.6 2.1 16 78-93 3-18 (183)
488 cd02023 UMPK Uridine monophosp 82.4 0.99 2.2E-05 32.0 2.0 15 79-93 2-16 (198)
489 TIGR02673 FtsE cell division A 82.4 0.94 2E-05 32.4 1.9 20 74-93 26-45 (214)
490 COG3839 MalK ABC-type sugar tr 82.4 1 2.2E-05 35.4 2.2 19 74-92 27-45 (338)
491 cd03259 ABC_Carb_Solutes_like 82.3 0.93 2E-05 32.5 1.8 20 74-93 24-43 (213)
492 PF00910 RNA_helicase: RNA hel 82.3 1 2.2E-05 29.0 1.8 23 79-102 1-23 (107)
493 TIGR01547 phage_term_2 phage t 82.2 4.1 8.9E-05 32.2 5.6 40 79-127 4-43 (396)
494 PLN02199 shikimate kinase 82.2 1.7 3.6E-05 33.7 3.2 23 71-93 97-119 (303)
495 PF08477 Miro: Miro-like prote 82.1 0.98 2.1E-05 28.8 1.8 13 79-91 2-14 (119)
496 TIGR01817 nifA Nif-specific re 82.1 1.7 3.7E-05 35.9 3.5 19 75-93 218-236 (534)
497 PRK13721 conjugal transfer ATP 82.0 2.6 5.6E-05 36.9 4.7 24 77-101 450-473 (844)
498 PRK10247 putative ABC transpor 82.0 0.98 2.1E-05 32.8 1.9 20 74-93 31-50 (225)
499 PRK15429 formate hydrogenlyase 81.9 2 4.3E-05 36.7 3.9 19 75-93 398-416 (686)
500 TIGR02562 cas3_yersinia CRISPR 81.8 3.2 6.9E-05 37.4 5.1 61 63-133 410-478 (1110)
No 1
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.90 E-value=8.9e-24 Score=167.39 Aligned_cols=93 Identities=34% Similarity=0.588 Sum_probs=82.6
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
.+|++++|++.++++|.+.||+.||++|+++||.+++|+|++++||||||||++|++|+++.+....... .....+++
T Consensus 8 ~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~--~~~~~~~~ 85 (423)
T PRK04837 8 QKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPE--DRKVNQPR 85 (423)
T ss_pred CCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhccccc--ccccCCce
Confidence 5899999999999999999999999999999999999999999999999999999999999997643211 11125689
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
+||++||+|||.|++
T Consensus 86 ~lil~PtreLa~Qi~ 100 (423)
T PRK04837 86 ALIMAPTRELAVQIH 100 (423)
T ss_pred EEEECCcHHHHHHHH
Confidence 999999999999985
No 2
>KOG0330|consensus
Probab=99.90 E-value=3.5e-24 Score=164.96 Aligned_cols=93 Identities=38% Similarity=0.596 Sum_probs=86.3
Q ss_pred cccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCC
Q psy7268 32 AVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYK 111 (134)
Q Consensus 32 ~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~ 111 (134)
......+.+|.++++++++++++.+.||+.||+||+++||.++.|+|+|+.|.||||||.+|++|++++++.+.
T Consensus 54 ~~~~e~~~sf~dLgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p------ 127 (476)
T KOG0330|consen 54 MQTDESFKSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEP------ 127 (476)
T ss_pred hhhhhhhcchhhcCcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCC------
Confidence 33456778999999999999999999999999999999999999999999999999999999999999998744
Q ss_pred CCCCCcEEEEEcCcHHHHHHhc
Q psy7268 112 PELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 112 ~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
..++++|++||||||.||.
T Consensus 128 ---~~~~~lVLtPtRELA~QI~ 146 (476)
T KOG0330|consen 128 ---KLFFALVLTPTRELAQQIA 146 (476)
T ss_pred ---CCceEEEecCcHHHHHHHH
Confidence 4589999999999999985
No 3
>KOG0346|consensus
Probab=99.90 E-value=3.4e-24 Score=167.18 Aligned_cols=94 Identities=38% Similarity=0.573 Sum_probs=87.0
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
..+|++++|.+.+++++.++||++||-+|+.+||.++.|+|++..|.||||||.+|++|+++.+...... .....++
T Consensus 18 ~ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t---~~~e~~~ 94 (569)
T KOG0346|consen 18 EKTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKT---NDGEQGP 94 (569)
T ss_pred hccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhc---ccccccc
Confidence 3799999999999999999999999999999999999999999999999999999999999999976543 2445799
Q ss_pred EEEEEcCcHHHHHHhcC
Q psy7268 118 LALIITPGRELVFQIGQ 134 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~~ 134 (134)
.++|++||||||+|+|+
T Consensus 95 sa~iLvPTkEL~qQvy~ 111 (569)
T KOG0346|consen 95 SAVILVPTKELAQQVYK 111 (569)
T ss_pred eeEEEechHHHHHHHHH
Confidence 99999999999999974
No 4
>PTZ00110 helicase; Provisional
Probab=99.90 E-value=1.6e-23 Score=170.70 Aligned_cols=97 Identities=36% Similarity=0.478 Sum_probs=86.3
Q ss_pred ccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCC
Q psy7268 33 VSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKP 112 (134)
Q Consensus 33 ~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~ 112 (134)
....|+.+|++++|++.++++|.+.||+.||++|.++||.+++|+|+++++|||||||++|++|++.++..+.. ..
T Consensus 124 ~~p~p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~----~~ 199 (545)
T PTZ00110 124 NVPKPVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPL----LR 199 (545)
T ss_pred CCCcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhccc----cc
Confidence 34578899999999999999999999999999999999999999999999999999999999999999875321 11
Q ss_pred CCCCcEEEEEcCcHHHHHHhc
Q psy7268 113 ELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 113 ~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...++++|||+||||||.|++
T Consensus 200 ~~~gp~~LIL~PTreLa~Qi~ 220 (545)
T PTZ00110 200 YGDGPIVLVLAPTRELAEQIR 220 (545)
T ss_pred CCCCcEEEEECChHHHHHHHH
Confidence 225789999999999999986
No 5
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.90 E-value=2.2e-23 Score=169.13 Aligned_cols=99 Identities=37% Similarity=0.597 Sum_probs=86.5
Q ss_pred ccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCC
Q psy7268 33 VSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKP 112 (134)
Q Consensus 33 ~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~ 112 (134)
....|+.+|++++|++.++++|.+.||..|||+|.++||.++.|+|+++++|||||||++|++|++.++....... ..
T Consensus 115 ~~p~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~--~~ 192 (518)
T PLN00206 115 AVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGH--PS 192 (518)
T ss_pred CCCchhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhcccc--cc
Confidence 3347899999999999999999999999999999999999999999999999999999999999999886432111 11
Q ss_pred CCCCcEEEEEcCcHHHHHHhc
Q psy7268 113 ELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 113 ~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...++++||++||||||.|++
T Consensus 193 ~~~~~~aLIL~PTreLa~Qi~ 213 (518)
T PLN00206 193 EQRNPLAMVLTPTRELCVQVE 213 (518)
T ss_pred ccCCceEEEEeCCHHHHHHHH
Confidence 226789999999999999985
No 6
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.2e-22 Score=164.70 Aligned_cols=89 Identities=40% Similarity=0.636 Sum_probs=79.4
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
..|++++|++.+++++.+.||..|||||.++||.++.|+|++++|+||||||++|++|+++++..... .....
T Consensus 29 ~~F~~l~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~-------~~~~~ 101 (513)
T COG0513 29 PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVE-------RKYVS 101 (513)
T ss_pred CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccc-------cCCCc
Confidence 68999999999999999999999999999999999999999999999999999999999999864210 01122
Q ss_pred EEEEcCcHHHHHHhcC
Q psy7268 119 ALIITPGRELVFQIGQ 134 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~~ 134 (134)
+||++||||||.||++
T Consensus 102 aLil~PTRELA~Qi~~ 117 (513)
T COG0513 102 ALILAPTRELAVQIAE 117 (513)
T ss_pred eEEECCCHHHHHHHHH
Confidence 9999999999999973
No 7
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.88 E-value=2.2e-22 Score=164.85 Aligned_cols=93 Identities=34% Similarity=0.535 Sum_probs=81.4
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLA 119 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~ 119 (134)
+|++++|++.++++|.+.||+.||++|+++||.++.|+|+++++|||||||++|++|+++++....... .....++++
T Consensus 10 ~f~~l~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~--~~~~~~~ra 87 (572)
T PRK04537 10 TFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALA--DRKPEDPRA 87 (572)
T ss_pred ChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhccccc--ccccCCceE
Confidence 699999999999999999999999999999999999999999999999999999999999987532110 111236899
Q ss_pred EEEcCcHHHHHHhcC
Q psy7268 120 LIITPGRELVFQIGQ 134 (134)
Q Consensus 120 lil~Pt~~La~Qi~~ 134 (134)
|||+||+||+.|+++
T Consensus 88 LIl~PTreLa~Qi~~ 102 (572)
T PRK04537 88 LILAPTRELAIQIHK 102 (572)
T ss_pred EEEeCcHHHHHHHHH
Confidence 999999999999863
No 8
>KOG0331|consensus
Probab=99.88 E-value=4.9e-23 Score=164.78 Aligned_cols=91 Identities=32% Similarity=0.598 Sum_probs=82.9
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLA 119 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~ 119 (134)
.|++++|++++...++..||..|||||+++||.++.|+|++..|.||||||++|++|++.++..... ......+|++
T Consensus 92 ~f~~~~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~---~~~~~~~P~v 168 (519)
T KOG0331|consen 92 AFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQG---KLSRGDGPIV 168 (519)
T ss_pred hhhcccccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccc---cccCCCCCeE
Confidence 7899999999999999999999999999999999999999999999999999999999999986421 1333468999
Q ss_pred EEEcCcHHHHHHhc
Q psy7268 120 LIITPGRELVFQIG 133 (134)
Q Consensus 120 lil~Pt~~La~Qi~ 133 (134)
||++||||||.||+
T Consensus 169 LVL~PTRELA~QV~ 182 (519)
T KOG0331|consen 169 LVLAPTRELAVQVQ 182 (519)
T ss_pred EEEcCcHHHHHHHH
Confidence 99999999999996
No 9
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.88 E-value=2.1e-22 Score=161.11 Aligned_cols=91 Identities=40% Similarity=0.679 Sum_probs=80.6
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLA 119 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~ 119 (134)
+|++++|++.++++|.++||..||++|.++||.+++|+|+++++|||+|||++|++|+++.+...... ......+++
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~---~~~~~~~~a 78 (456)
T PRK10590 2 SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPH---AKGRRPVRA 78 (456)
T ss_pred CHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccc---cccCCCceE
Confidence 69999999999999999999999999999999999999999999999999999999999998754321 111234689
Q ss_pred EEEcCcHHHHHHhc
Q psy7268 120 LIITPGRELVFQIG 133 (134)
Q Consensus 120 lil~Pt~~La~Qi~ 133 (134)
|||+||++||.|++
T Consensus 79 Lil~PtreLa~Qi~ 92 (456)
T PRK10590 79 LILTPTRELAAQIG 92 (456)
T ss_pred EEEeCcHHHHHHHH
Confidence 99999999999985
No 10
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.88 E-value=2.5e-22 Score=160.59 Aligned_cols=87 Identities=34% Similarity=0.486 Sum_probs=80.3
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
..+|++++|++.++++|.++||+.|||+|+++||.+++|+|++++||||+|||++|++|+++++.... ..+
T Consensus 3 ~~~f~~l~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~---------~~~ 73 (460)
T PRK11776 3 MTAFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKR---------FRV 73 (460)
T ss_pred CCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhcc---------CCc
Confidence 35899999999999999999999999999999999999999999999999999999999999985322 456
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
++||++||+|||.|++
T Consensus 74 ~~lil~PtreLa~Q~~ 89 (460)
T PRK11776 74 QALVLCPTRELADQVA 89 (460)
T ss_pred eEEEEeCCHHHHHHHH
Confidence 8999999999999986
No 11
>KOG0348|consensus
Probab=99.88 E-value=1.4e-22 Score=161.13 Aligned_cols=93 Identities=38% Similarity=0.696 Sum_probs=84.1
Q ss_pred CCcccCCCCHHHHHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 39 GTFEDTGLAPEIIDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
..|.++||++.+...|.. +++..||.+|+++||.++.|+|++|.++||||||++|++|+++.+.....+-+ ...|+
T Consensus 136 ~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~---Rs~G~ 212 (708)
T KOG0348|consen 136 AAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQ---RSDGP 212 (708)
T ss_pred ccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCcccc---ccCCc
Confidence 459999999999999988 59999999999999999999999999999999999999999999987654322 33689
Q ss_pred EEEEEcCcHHHHHHhcC
Q psy7268 118 LALIITPGRELVFQIGQ 134 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~~ 134 (134)
.+|||+||||||.|+|+
T Consensus 213 ~ALVivPTREL~~Q~y~ 229 (708)
T KOG0348|consen 213 YALVIVPTRELALQIYE 229 (708)
T ss_pred eEEEEechHHHHHHHHH
Confidence 99999999999999984
No 12
>KOG0345|consensus
Probab=99.87 E-value=6.3e-22 Score=155.42 Aligned_cols=91 Identities=35% Similarity=0.545 Sum_probs=79.0
Q ss_pred CCcccCC--CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCC
Q psy7268 39 GTFEDTG--LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNA 116 (134)
Q Consensus 39 ~~f~~~~--l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~ 116 (134)
.+|++++ |++++++++.+.||+.+||+|..+||.+++++||.+.++||||||++|++|+++.+++......+ ..
T Consensus 4 ~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~----~~ 79 (567)
T KOG0345|consen 4 KSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPP----GQ 79 (567)
T ss_pred cchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCc----cc
Confidence 3677665 55999999999999999999999999999999999999999999999999999999765432111 14
Q ss_pred cEEEEEcCcHHHHHHhc
Q psy7268 117 PLALIITPGRELVFQIG 133 (134)
Q Consensus 117 ~~~lil~Pt~~La~Qi~ 133 (134)
.-+|||+||||||.||.
T Consensus 80 vgalIIsPTRELa~QI~ 96 (567)
T KOG0345|consen 80 VGALIISPTRELARQIR 96 (567)
T ss_pred eeEEEecCcHHHHHHHH
Confidence 57999999999999996
No 13
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.86 E-value=1.8e-21 Score=156.32 Aligned_cols=96 Identities=38% Similarity=0.497 Sum_probs=83.3
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
....+|.+++|++.++++|.+.||+.|+++|.++|+.+++|+|+++.+|||||||++|++|+++.+....... .....
T Consensus 84 ~~~~~f~~~~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~--~~~~~ 161 (475)
T PRK01297 84 EGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPK--ERYMG 161 (475)
T ss_pred cCCCCHhHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCccc--ccccC
Confidence 4456899999999999999999999999999999999999999999999999999999999999997643211 11113
Q ss_pred CcEEEEEcCcHHHHHHhc
Q psy7268 116 APLALIITPGRELVFQIG 133 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi~ 133 (134)
.+++|||+||++||.|++
T Consensus 162 ~~~aLil~PtreLa~Q~~ 179 (475)
T PRK01297 162 EPRALIIAPTRELVVQIA 179 (475)
T ss_pred CceEEEEeCcHHHHHHHH
Confidence 579999999999999986
No 14
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.86 E-value=1.4e-21 Score=155.26 Aligned_cols=89 Identities=37% Similarity=0.638 Sum_probs=80.2
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLA 119 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~ 119 (134)
+|++++|++.+++.|.+.||..|+++|.++|+.+++|+|+++++|||+|||++|++|+++++..... .....+++
T Consensus 2 ~f~~l~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~-----~~~~~~~~ 76 (434)
T PRK11192 2 TFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPR-----RKSGPPRI 76 (434)
T ss_pred CHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccc-----cCCCCceE
Confidence 6999999999999999999999999999999999999999999999999999999999999875321 11235789
Q ss_pred EEEcCcHHHHHHhc
Q psy7268 120 LIITPGRELVFQIG 133 (134)
Q Consensus 120 lil~Pt~~La~Qi~ 133 (134)
||++||++||.|++
T Consensus 77 lil~Pt~eLa~Q~~ 90 (434)
T PRK11192 77 LILTPTRELAMQVA 90 (434)
T ss_pred EEECCcHHHHHHHH
Confidence 99999999999985
No 15
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.86 E-value=1.7e-21 Score=161.08 Aligned_cols=87 Identities=37% Similarity=0.609 Sum_probs=80.4
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
..+|++++|++.++++|.++||+.||++|.++||.++.|+|++++||||+|||++|++|+++.+.... .++
T Consensus 5 ~~~f~~l~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~---------~~~ 75 (629)
T PRK11634 5 ETTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPEL---------KAP 75 (629)
T ss_pred cCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhcc---------CCC
Confidence 34799999999999999999999999999999999999999999999999999999999999985422 567
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
++||++||++||.|++
T Consensus 76 ~~LIL~PTreLa~Qv~ 91 (629)
T PRK11634 76 QILVLAPTRELAVQVA 91 (629)
T ss_pred eEEEEeCcHHHHHHHH
Confidence 9999999999999985
No 16
>KOG0340|consensus
Probab=99.85 E-value=1.2e-21 Score=149.67 Aligned_cols=89 Identities=35% Similarity=0.574 Sum_probs=84.1
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
.....|+.+||.+++.+.++.+|.+.|||+|..|||.++.|+|++-+|.||||||.+|.+|+++++.+.. .
T Consensus 4 ~t~~~F~~LGl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP---------~ 74 (442)
T KOG0340|consen 4 KTAKPFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDP---------Y 74 (442)
T ss_pred cccCchhhcCccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCC---------C
Confidence 4457899999999999999999999999999999999999999999999999999999999999998755 7
Q ss_pred CcEEEEEcCcHHHHHHhc
Q psy7268 116 APLALIITPGRELVFQIG 133 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi~ 133 (134)
+..++|++||||||.|+.
T Consensus 75 giFalvlTPTrELA~Qia 92 (442)
T KOG0340|consen 75 GIFALVLTPTRELALQIA 92 (442)
T ss_pred cceEEEecchHHHHHHHH
Confidence 889999999999999985
No 17
>PTZ00424 helicase 45; Provisional
Probab=99.85 E-value=4e-21 Score=150.68 Aligned_cols=92 Identities=33% Similarity=0.404 Sum_probs=82.9
Q ss_pred ccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCC
Q psy7268 33 VSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKP 112 (134)
Q Consensus 33 ~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~ 112 (134)
.......+|++++|++.+++++.+.||+.|+++|.++|+.+++|+|+++++|||+|||++|++|++..+...
T Consensus 22 ~~~~~~~~~~~l~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~-------- 93 (401)
T PTZ00424 22 NYDEIVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYD-------- 93 (401)
T ss_pred ccccccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCC--------
Confidence 334457899999999999999999999999999999999999999999999999999999999999987432
Q ss_pred CCCCcEEEEEcCcHHHHHHhc
Q psy7268 113 ELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 113 ~~~~~~~lil~Pt~~La~Qi~ 133 (134)
..+.++||++|+++|+.|++
T Consensus 94 -~~~~~~lil~Pt~~L~~Q~~ 113 (401)
T PTZ00424 94 -LNACQALILAPTRELAQQIQ 113 (401)
T ss_pred -CCCceEEEECCCHHHHHHHH
Confidence 14678999999999999985
No 18
>KOG0338|consensus
Probab=99.85 E-value=6.5e-22 Score=156.82 Aligned_cols=91 Identities=31% Similarity=0.514 Sum_probs=82.9
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
..+|.+|+|+..+++++..+||..|||||..+||..+.|+|+..||.||||||.+|++|+|++++..... -...
T Consensus 180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~------~~~T 253 (691)
T KOG0338|consen 180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKK------VAAT 253 (691)
T ss_pred hhhHHhcccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCccc------Ccce
Confidence 4589999999999999999999999999999999999999999999999999999999999999975421 1356
Q ss_pred EEEEEcCcHHHHHHhcC
Q psy7268 118 LALIITPGRELVFQIGQ 134 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~~ 134 (134)
++||++||||||.||++
T Consensus 254 RVLVL~PTRELaiQv~s 270 (691)
T KOG0338|consen 254 RVLVLVPTRELAIQVHS 270 (691)
T ss_pred eEEEEeccHHHHHHHHH
Confidence 89999999999999974
No 19
>KOG0343|consensus
Probab=99.84 E-value=1.5e-21 Score=155.95 Aligned_cols=98 Identities=32% Similarity=0.468 Sum_probs=89.2
Q ss_pred ccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCC
Q psy7268 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEY 110 (134)
Q Consensus 31 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~ 110 (134)
+......+..|++++|+...++.|++.+|..||.+|+.+||..+.|+||+..|.||||||++|++|+|+.+++..
T Consensus 61 ~ei~~~~~~kF~dlpls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~k----- 135 (758)
T KOG0343|consen 61 AEIDSTTIKKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLK----- 135 (758)
T ss_pred HHhhhhhhhhHHhCCCchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcC-----
Confidence 333446677899999999999999999999999999999999999999999999999999999999999999865
Q ss_pred CCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 111 KPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 111 ~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
|....|..||||+||||||.|++
T Consensus 136 Ws~~DGlGalIISPTRELA~QtF 158 (758)
T KOG0343|consen 136 WSPTDGLGALIISPTRELALQTF 158 (758)
T ss_pred CCCCCCceeEEecchHHHHHHHH
Confidence 44557889999999999999986
No 20
>KOG0334|consensus
Probab=99.84 E-value=2.9e-21 Score=162.19 Aligned_cols=99 Identities=37% Similarity=0.639 Sum_probs=88.5
Q ss_pred cccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCC
Q psy7268 32 AVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYK 111 (134)
Q Consensus 32 ~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~ 111 (134)
..-..|+.+|.+.+++..+++.++++||.+|++||.+|||+++.|+|||.+|.||||||++|++|++.++..+.. .
T Consensus 358 ~~~pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~----~ 433 (997)
T KOG0334|consen 358 KECPKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRP----L 433 (997)
T ss_pred CCCCcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCC----h
Confidence 344589999999999999999999999999999999999999999999999999999999999999977765433 3
Q ss_pred CCCCCcEEEEEcCcHHHHHHhcC
Q psy7268 112 PELNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 112 ~~~~~~~~lil~Pt~~La~Qi~~ 134 (134)
..+.||-+||++|||+|+.||++
T Consensus 434 ~~gdGPi~li~aPtrela~QI~r 456 (997)
T KOG0334|consen 434 EEGDGPIALILAPTRELAMQIHR 456 (997)
T ss_pred hhCCCceEEEEcCCHHHHHHHHH
Confidence 33459999999999999999974
No 21
>KOG0333|consensus
Probab=99.83 E-value=8.7e-21 Score=150.75 Aligned_cols=99 Identities=36% Similarity=0.576 Sum_probs=92.1
Q ss_pred CCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCC
Q psy7268 35 RIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPEL 114 (134)
Q Consensus 35 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~ 114 (134)
..|+.+|++.+++.++++.+.+.||..|+|||+++||..++.+|+|..+.||||||.+|++|++..+.............
T Consensus 241 pnplrnwEE~~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~ 320 (673)
T KOG0333|consen 241 PNPLRNWEESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNI 320 (673)
T ss_pred CccccChhhcCCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcc
Confidence 37899999999999999999999999999999999999999999999999999999999999999998876655555666
Q ss_pred CCcEEEEEcCcHHHHHHhc
Q psy7268 115 NAPLALIITPGRELVFQIG 133 (134)
Q Consensus 115 ~~~~~lil~Pt~~La~Qi~ 133 (134)
.+|.++|++|||+|++||+
T Consensus 321 ~gpyaiilaptReLaqqIe 339 (673)
T KOG0333|consen 321 EGPYAIILAPTRELAQQIE 339 (673)
T ss_pred cCceeeeechHHHHHHHHH
Confidence 7999999999999999996
No 22
>KOG0342|consensus
Probab=99.83 E-value=5.4e-21 Score=150.64 Aligned_cols=94 Identities=38% Similarity=0.553 Sum_probs=85.4
Q ss_pred CCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCC
Q psy7268 35 RIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPEL 114 (134)
Q Consensus 35 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~ 114 (134)
...-..|++..|++..+++|.++||+.+|++|+.+|+.++.|+|+++.|.||+|||++|++|.++.+.+....+ .
T Consensus 78 ~~~~~~f~~~~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~-----r 152 (543)
T KOG0342|consen 78 ITTTFRFEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKP-----R 152 (543)
T ss_pred hhhhhHhhccccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCC-----C
Confidence 34456789999999999999999999999999999999999999999999999999999999999999866432 2
Q ss_pred CCcEEEEEcCcHHHHHHhc
Q psy7268 115 NAPLALIITPGRELVFQIG 133 (134)
Q Consensus 115 ~~~~~lil~Pt~~La~Qi~ 133 (134)
++..+||++||||||.|++
T Consensus 153 ~~~~vlIi~PTRELA~Q~~ 171 (543)
T KOG0342|consen 153 NGTGVLIICPTRELAMQIF 171 (543)
T ss_pred CCeeEEEecccHHHHHHHH
Confidence 6788999999999999986
No 23
>KOG0335|consensus
Probab=99.83 E-value=5e-21 Score=151.58 Aligned_cols=101 Identities=35% Similarity=0.505 Sum_probs=90.0
Q ss_pred cCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCC
Q psy7268 34 SRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPE 113 (134)
Q Consensus 34 ~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~ 113 (134)
-..++.+|.+-.+.+.+..++...||..|||+|+.+||.+..|+|+++||+||||||.+|++|++.++++..........
T Consensus 69 ~p~~i~~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~ 148 (482)
T KOG0335|consen 69 VPPHIPTFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESG 148 (482)
T ss_pred cCCCcccccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccC
Confidence 34677799999999999999999999999999999999999999999999999999999999999999987664443333
Q ss_pred C-CCcEEEEEcCcHHHHHHhcC
Q psy7268 114 L-NAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 114 ~-~~~~~lil~Pt~~La~Qi~~ 134 (134)
. ..|+++|++||||||.||++
T Consensus 149 ~~~~P~~lIlapTReL~~Qi~n 170 (482)
T KOG0335|consen 149 GGVYPRALILAPTRELVDQIYN 170 (482)
T ss_pred CCCCCceEEEeCcHHHhhHHHH
Confidence 3 47999999999999999984
No 24
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.81 E-value=1.3e-19 Score=152.21 Aligned_cols=78 Identities=18% Similarity=0.341 Sum_probs=73.6
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCc
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPG 125 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt 125 (134)
|++++.++|.+.||+.|+++|.++|+.+++|+|+++.+|||||||++|++|+++.+... .+.++|||+||
T Consensus 21 l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~----------~~~~aL~l~Pt 90 (742)
T TIGR03817 21 AHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD----------PRATALYLAPT 90 (742)
T ss_pred CCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC----------CCcEEEEEcCh
Confidence 89999999999999999999999999999999999999999999999999999999652 35789999999
Q ss_pred HHHHHHhc
Q psy7268 126 RELVFQIG 133 (134)
Q Consensus 126 ~~La~Qi~ 133 (134)
||||.|++
T Consensus 91 raLa~q~~ 98 (742)
T TIGR03817 91 KALAADQL 98 (742)
T ss_pred HHHHHHHH
Confidence 99999985
No 25
>KOG0328|consensus
Probab=99.81 E-value=5.8e-21 Score=142.70 Aligned_cols=92 Identities=33% Similarity=0.522 Sum_probs=84.3
Q ss_pred cCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCC
Q psy7268 34 SRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPE 113 (134)
Q Consensus 34 ~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~ 113 (134)
...+..+|++++|.+++++.+..+||++|+.+|+++|+.+++|+|+++++.+|+|||.+|.+.+++.+.-..
T Consensus 22 ~~~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~-------- 93 (400)
T KOG0328|consen 22 KVKVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISV-------- 93 (400)
T ss_pred CcccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeeccccc--------
Confidence 346778999999999999999999999999999999999999999999999999999999999999885432
Q ss_pred CCCcEEEEEcCcHHHHHHhcC
Q psy7268 114 LNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 114 ~~~~~~lil~Pt~~La~Qi~~ 134 (134)
+..+++|++||||||.|+.+
T Consensus 94 -r~tQ~lilsPTRELa~Qi~~ 113 (400)
T KOG0328|consen 94 -RETQALILSPTRELAVQIQK 113 (400)
T ss_pred -ceeeEEEecChHHHHHHHHH
Confidence 56899999999999999863
No 26
>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=99.81 E-value=3.1e-19 Score=128.08 Aligned_cols=86 Identities=43% Similarity=0.704 Sum_probs=79.2
Q ss_pred cccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEE
Q psy7268 41 FEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120 (134)
Q Consensus 41 f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~l 120 (134)
|+++++++.+.+.+.+.|++.|+++|+++++.+.+|+|+++++|||+|||++|++|++..+.... ..++++++
T Consensus 1 ~~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~-------~~~~~~vi 73 (203)
T cd00268 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSP-------KKDGPQAL 73 (203)
T ss_pred CCcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhc-------ccCCceEE
Confidence 78999999999999999999999999999999999999999999999999999999999987642 12578999
Q ss_pred EEcCcHHHHHHhc
Q psy7268 121 IITPGRELVFQIG 133 (134)
Q Consensus 121 il~Pt~~La~Qi~ 133 (134)
|++|+++|+.|+.
T Consensus 74 ii~p~~~L~~q~~ 86 (203)
T cd00268 74 ILAPTRELALQIA 86 (203)
T ss_pred EEcCCHHHHHHHH
Confidence 9999999999974
No 27
>KOG0347|consensus
Probab=99.81 E-value=1.7e-20 Score=149.87 Aligned_cols=103 Identities=32% Similarity=0.532 Sum_probs=86.1
Q ss_pred ccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCC
Q psy7268 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPE 109 (134)
Q Consensus 31 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~ 109 (134)
+.+....+..|.+++|+.+++++|..+||..||+||..++|++..| .||+..|.||||||++|-||+++.+.......+
T Consensus 173 ~~~~~~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~ 252 (731)
T KOG0347|consen 173 DDSSKVDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQ 252 (731)
T ss_pred ccccccChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHh
Confidence 4555678889999999999999999999999999999999999999 799999999999999999999997765433111
Q ss_pred --CCCCCCCcE--EEEEcCcHHHHHHhc
Q psy7268 110 --YKPELNAPL--ALIITPGRELVFQIG 133 (134)
Q Consensus 110 --~~~~~~~~~--~lil~Pt~~La~Qi~ 133 (134)
.+....+++ +||++||||||.||-
T Consensus 253 e~~~~~~k~~k~~~LV~tPTRELa~QV~ 280 (731)
T KOG0347|consen 253 ELSNTSAKYVKPIALVVTPTRELAHQVK 280 (731)
T ss_pred hhhhHHhccCcceeEEecChHHHHHHHH
Confidence 011113445 999999999999984
No 28
>KOG0344|consensus
Probab=99.77 E-value=1.1e-18 Score=139.91 Aligned_cols=100 Identities=31% Similarity=0.447 Sum_probs=87.6
Q ss_pred ccccCCCCCCccc----CCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcC
Q psy7268 31 EAVSRIDLGTFED----TGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKS 106 (134)
Q Consensus 31 ~~~~~~~~~~f~~----~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~ 106 (134)
......++.+|.+ ...++.+++++.+.||..|+++|++++|.++.++|++.|+|||+|||++|++|+++++.....
T Consensus 124 G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~ 203 (593)
T KOG0344|consen 124 GFHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQ 203 (593)
T ss_pred CCCCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhc
Confidence 3344577888886 668999999999999999999999999999999999999999999999999999999986542
Q ss_pred CCCCCCCCCCcEEEEEcCcHHHHHHhcC
Q psy7268 107 RPEYKPELNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 107 ~~~~~~~~~~~~~lil~Pt~~La~Qi~~ 134 (134)
.+...|.+++|+.|||+|+.|+++
T Consensus 204 ----~~~~~gl~a~Il~ptreLa~Qi~r 227 (593)
T KOG0344|consen 204 ----EKHKVGLRALILSPTRELAAQIYR 227 (593)
T ss_pred ----ccCccceEEEEecchHHHHHHHHH
Confidence 223368899999999999999973
No 29
>KOG0336|consensus
Probab=99.77 E-value=1.2e-19 Score=141.33 Aligned_cols=97 Identities=40% Similarity=0.558 Sum_probs=85.5
Q ss_pred cCCCCCCccc-CCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCC
Q psy7268 34 SRIDLGTFED-TGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKP 112 (134)
Q Consensus 34 ~~~~~~~f~~-~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~ 112 (134)
-++|.-+|++ +.-.+++++++++.||.+|||+|.++||.+++|.|++.+|.||+|||++||+|-+.++..+... ..
T Consensus 214 IPnP~ctFddAFq~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~---~~ 290 (629)
T KOG0336|consen 214 IPNPVCTFDDAFQCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKR---RE 290 (629)
T ss_pred CCCCcCcHHHHHhhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchh---hh
Confidence 4577788875 5677999999999999999999999999999999999999999999999999998888765443 33
Q ss_pred CCCCcEEEEEcCcHHHHHHhc
Q psy7268 113 ELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 113 ~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+.+++.+|+++|||||+.|+.
T Consensus 291 qr~~p~~lvl~ptreLalqie 311 (629)
T KOG0336|consen 291 QRNGPGVLVLTPTRELALQIE 311 (629)
T ss_pred ccCCCceEEEeccHHHHHHHH
Confidence 457899999999999999984
No 30
>KOG0326|consensus
Probab=99.76 E-value=7.5e-20 Score=138.68 Aligned_cols=89 Identities=33% Similarity=0.513 Sum_probs=82.2
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
..-..|++++|.++++..+.+.||++|+|+|.++||.++.|+|+++.|.+|+|||-+|++|+++.+.. ..+
T Consensus 82 TkG~efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~---------~~~ 152 (459)
T KOG0326|consen 82 TKGNEFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDP---------KKN 152 (459)
T ss_pred ccCccHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCc---------ccc
Confidence 44467999999999999999999999999999999999999999999999999999999999999954 337
Q ss_pred CcEEEEEcCcHHHHHHhc
Q psy7268 116 APLALIITPGRELVFQIG 133 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi~ 133 (134)
.-+++|++||||||.|+.
T Consensus 153 ~IQ~~ilVPtrelALQtS 170 (459)
T KOG0326|consen 153 VIQAIILVPTRELALQTS 170 (459)
T ss_pred ceeEEEEeecchhhHHHH
Confidence 789999999999999974
No 31
>PRK02362 ski2-like helicase; Provisional
Probab=99.76 E-value=2.4e-18 Score=144.67 Aligned_cols=82 Identities=24% Similarity=0.305 Sum_probs=76.4
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
.|++++|++.+++++.+.||+.|+|+|.++++. ++.|+|+++++|||+|||++|.+|++..+. ++.+
T Consensus 2 ~~~~l~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~------------~~~k 69 (737)
T PRK02362 2 KIAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIA------------RGGK 69 (737)
T ss_pred ChhhcCCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHh------------cCCc
Confidence 588999999999999999999999999999998 778999999999999999999999999984 3568
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
+||++|+++||.|.+
T Consensus 70 al~i~P~raLa~q~~ 84 (737)
T PRK02362 70 ALYIVPLRALASEKF 84 (737)
T ss_pred EEEEeChHHHHHHHH
Confidence 999999999999975
No 32
>KOG0341|consensus
Probab=99.75 E-value=4.3e-19 Score=137.50 Aligned_cols=102 Identities=30% Similarity=0.423 Sum_probs=89.8
Q ss_pred ccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCC
Q psy7268 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEY 110 (134)
Q Consensus 31 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~ 110 (134)
......|+.+|.++.++..+++.|++.|+.+|||+|-+-+|.+++|+|+|-.|-||||||++|.+|++-.-+++... .+
T Consensus 162 Gd~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~-lP 240 (610)
T KOG0341|consen 162 GDDIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMM-LP 240 (610)
T ss_pred CCCCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhc-Cc
Confidence 34456899999999999999999999999999999999999999999999999999999999999998887765432 12
Q ss_pred CCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 111 KPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 111 ~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.....||..|||||+||||.|.+
T Consensus 241 f~~~EGP~gLiicPSRELArQt~ 263 (610)
T KOG0341|consen 241 FARGEGPYGLIICPSRELARQTH 263 (610)
T ss_pred cccCCCCeeEEEcCcHHHHHHHH
Confidence 23347899999999999999986
No 33
>PRK00254 ski2-like helicase; Provisional
Probab=99.75 E-value=5.3e-18 Score=142.27 Aligned_cols=83 Identities=22% Similarity=0.309 Sum_probs=77.1
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
+|+++++++.+.+.+.+.||+.|+++|.++++. ++.|+|+++++|||+|||++|.+|++..+.. .+.+
T Consensus 2 ~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~-----------~~~~ 70 (720)
T PRK00254 2 KVDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR-----------EGGK 70 (720)
T ss_pred cHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh-----------cCCe
Confidence 578999999999999999999999999999986 7899999999999999999999999998864 3568
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
+||++|+++|+.|.+
T Consensus 71 ~l~l~P~~aLa~q~~ 85 (720)
T PRK00254 71 AVYLVPLKALAEEKY 85 (720)
T ss_pred EEEEeChHHHHHHHH
Confidence 999999999999976
No 34
>KOG0339|consensus
Probab=99.74 E-value=2.1e-18 Score=137.11 Aligned_cols=102 Identities=31% Similarity=0.476 Sum_probs=91.3
Q ss_pred CCcccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCC
Q psy7268 28 RGYEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107 (134)
Q Consensus 28 ~~~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~ 107 (134)
+..+.....|+++|+++++.+.++.++++..|++||++|.+++|..++|+||+-.|.||||||-+|+.|++.++..+..
T Consensus 212 rv~g~s~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~e- 290 (731)
T KOG0339|consen 212 RVSGSSPPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPE- 290 (731)
T ss_pred eeccCCCCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhh-
Confidence 3445556689999999999999999999999999999999999999999999999999999999999999999986543
Q ss_pred CCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 108 PEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 108 ~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
-....+|..||++||||||.||+
T Consensus 291 ---L~~g~gPi~vilvPTrela~Qi~ 313 (731)
T KOG0339|consen 291 ---LKPGEGPIGVILVPTRELASQIF 313 (731)
T ss_pred ---hcCCCCCeEEEEeccHHHHHHHH
Confidence 22247899999999999999996
No 35
>KOG0327|consensus
Probab=99.73 E-value=9.6e-19 Score=134.56 Aligned_cols=90 Identities=32% Similarity=0.463 Sum_probs=83.2
Q ss_pred CCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCC
Q psy7268 35 RIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPEL 114 (134)
Q Consensus 35 ~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~ 114 (134)
..-+.+|++++|.+++++.+...||++|+.+|++||+++..|.|+++++.+|+|||.+|++++++.+....
T Consensus 22 ~evvdsfddm~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~--------- 92 (397)
T KOG0327|consen 22 NEVVDSFDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSV--------- 92 (397)
T ss_pred HHHhhhhhhcCCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcch---------
Confidence 34567999999999999999999999999999999999999999999999999999999999999985433
Q ss_pred CCcEEEEEcCcHHHHHHhc
Q psy7268 115 NAPLALIITPGRELVFQIG 133 (134)
Q Consensus 115 ~~~~~lil~Pt~~La~Qi~ 133 (134)
...++++++|+|+||.|++
T Consensus 93 ke~qalilaPtreLa~qi~ 111 (397)
T KOG0327|consen 93 KETQALILAPTRELAQQIQ 111 (397)
T ss_pred HHHHHHHhcchHHHHHHHH
Confidence 5788999999999999985
No 36
>KOG0337|consensus
Probab=99.71 E-value=7.3e-18 Score=131.37 Aligned_cols=88 Identities=36% Similarity=0.645 Sum_probs=82.0
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
-..|..++|...++++|.+.||+.|||+|+.+||.++.|+|++..+.||||||.||++|+++++.... ..+.
T Consensus 20 ~g~fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s--------~~g~ 91 (529)
T KOG0337|consen 20 SGGFQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS--------QTGL 91 (529)
T ss_pred CCCccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhcc--------cccc
Confidence 36899999999999999999999999999999999999999999999999999999999999997533 2688
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
+++|++|||+|+.|..
T Consensus 92 RalilsptreLa~qtl 107 (529)
T KOG0337|consen 92 RALILSPTRELALQTL 107 (529)
T ss_pred ceeeccCcHHHHHHHH
Confidence 9999999999999974
No 37
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.71 E-value=4.9e-17 Score=138.88 Aligned_cols=84 Identities=26% Similarity=0.422 Sum_probs=72.3
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCc
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPG 125 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt 125 (134)
|++.+.+++.+ +|..|+++|+++|+.+++|+|++++||||||||++|++|+++.+...... .....++++|||+|+
T Consensus 18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~---~~~~~~~~~LyIsPt 93 (876)
T PRK13767 18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGRE---GELEDKVYCLYVSPL 93 (876)
T ss_pred cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccc---cCCCCCeEEEEEcCH
Confidence 77888888877 79999999999999999999999999999999999999999998753211 111257889999999
Q ss_pred HHHHHHhc
Q psy7268 126 RELVFQIG 133 (134)
Q Consensus 126 ~~La~Qi~ 133 (134)
|+|+.|++
T Consensus 94 raLa~di~ 101 (876)
T PRK13767 94 RALNNDIH 101 (876)
T ss_pred HHHHHHHH
Confidence 99999975
No 38
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.69 E-value=9.8e-17 Score=134.59 Aligned_cols=83 Identities=30% Similarity=0.512 Sum_probs=74.8
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCc
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPG 125 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt 125 (134)
|++.+.+++.+. |..||+.|.++||.+.+|+|+++.||||||||++.++|++..+.+.. ..+...+..+|||+|.
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~----~~~~~~~i~~lYIsPL 82 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLG----KGKLEDGIYALYISPL 82 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhcc----CCCCCCceEEEEeCcH
Confidence 789999999997 99999999999999999999999999999999999999999999863 1222257899999999
Q ss_pred HHHHHHhc
Q psy7268 126 RELVFQIG 133 (134)
Q Consensus 126 ~~La~Qi~ 133 (134)
|+|..++.
T Consensus 83 kALn~Di~ 90 (814)
T COG1201 83 KALNNDIR 90 (814)
T ss_pred HHHHHHHH
Confidence 99999875
No 39
>PRK01172 ski2-like helicase; Provisional
Probab=99.69 E-value=8.1e-17 Score=134.28 Aligned_cols=81 Identities=25% Similarity=0.382 Sum_probs=74.8
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLA 119 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~ 119 (134)
+|++++|++++++.+.+.||+ ++++|.++++.+..|+|+++++|||+|||+++.++++..+. .+.++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~------------~~~k~ 68 (674)
T PRK01172 2 KISDLGYDDEFLNLFTGNDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFL------------AGLKS 68 (674)
T ss_pred cHhhcCCCHHHHHHHhhCCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHH------------hCCcE
Confidence 578899999999999999995 99999999999999999999999999999999999998875 34579
Q ss_pred EEEcCcHHHHHHhc
Q psy7268 120 LIITPGRELVFQIG 133 (134)
Q Consensus 120 lil~Pt~~La~Qi~ 133 (134)
||++|+++||.|++
T Consensus 69 v~i~P~raLa~q~~ 82 (674)
T PRK01172 69 IYIVPLRSLAMEKY 82 (674)
T ss_pred EEEechHHHHHHHH
Confidence 99999999999976
No 40
>KOG0350|consensus
Probab=99.68 E-value=5.9e-17 Score=128.48 Aligned_cols=92 Identities=27% Similarity=0.351 Sum_probs=77.4
Q ss_pred CCCCCCcccCCCCHHHHHH----------HHHCCCCCChHHHHHHHHHHH---------cCCCeEEEcCCCCchhHHhHH
Q psy7268 35 RIDLGTFEDTGLAPEIIDI----------FTKRGLTTPTEIQKYSIPTLL---------SGKSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 35 ~~~~~~f~~~~l~~~i~~~----------l~~~g~~~~t~iQ~~~i~~~~---------~g~dvli~a~tGsGKT~~~~l 95 (134)
.....-|+.+++++.+... +.++++....|+|..++|.++ .++|+.+.||||||||++|.+
T Consensus 123 ~nslq~~s~l~~se~k~~~d~lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~i 202 (620)
T KOG0350|consen 123 NNSLQIFSVLGKSEMKNLEDTLEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVI 202 (620)
T ss_pred CCceeeeeccchhHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehh
Confidence 3455567777776665544 889999999999999999885 378999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhcC
Q psy7268 96 PLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 96 pil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~~ 134 (134)
||++.+..... +..|||||+||++|+.||++
T Consensus 203 PIVQ~L~~R~v--------~~LRavVivPtr~L~~QV~~ 233 (620)
T KOG0350|consen 203 PIVQLLSSRPV--------KRLRAVVIVPTRELALQVYD 233 (620)
T ss_pred HHHHHHccCCc--------cceEEEEEeeHHHHHHHHHH
Confidence 99999976433 46899999999999999974
No 41
>KOG0332|consensus
Probab=99.65 E-value=2.3e-16 Score=121.66 Aligned_cols=94 Identities=26% Similarity=0.444 Sum_probs=83.8
Q ss_pred ccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcC--CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCC
Q psy7268 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSG--KSAILVAETGCGKTLSFLAPLVQQILTWKSRP 108 (134)
Q Consensus 31 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g--~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~ 108 (134)
...+.....+|++|.|.|++++.+..++|++|+.||..++|.++.. +++|.++.+|+|||.+|.+.+|.++...
T Consensus 82 pnsPlyS~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~---- 157 (477)
T KOG0332|consen 82 PNSPLYSAKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPD---- 157 (477)
T ss_pred CCCCccccccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCcc----
Confidence 4444566789999999999999999999999999999999999975 6899999999999999999999999543
Q ss_pred CCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 109 EYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 109 ~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...|+++-|+||||||.|+.
T Consensus 158 -----~~~PQ~iCLaPtrELA~Q~~ 177 (477)
T KOG0332|consen 158 -----VVVPQCICLAPTRELAPQTG 177 (477)
T ss_pred -----ccCCCceeeCchHHHHHHHH
Confidence 36788999999999999974
No 42
>KOG0329|consensus
Probab=99.61 E-value=4.6e-16 Score=115.35 Aligned_cols=86 Identities=33% Similarity=0.484 Sum_probs=79.3
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
..|.++-|.|++++++.+.||++|+++|+.|||....|-|++++|.+|.|||.+|+++.++.+.. ......
T Consensus 42 sgfrdfllkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiep---------v~g~vs 112 (387)
T KOG0329|consen 42 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEP---------VDGQVS 112 (387)
T ss_pred cchhhhhcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCC---------CCCeEE
Confidence 46889999999999999999999999999999999999999999999999999999999999843 235678
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
++++|.|||||-||.
T Consensus 113 vlvmchtrelafqi~ 127 (387)
T KOG0329|consen 113 VLVMCHTRELAFQIS 127 (387)
T ss_pred EEEEeccHHHHHHHH
Confidence 999999999999985
No 43
>KOG4284|consensus
Probab=99.60 E-value=1.5e-16 Score=129.47 Aligned_cols=89 Identities=30% Similarity=0.401 Sum_probs=82.3
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
.....|+++.|..+++..|+..+|..||++|..|||.++.+-|+||++.+|+|||++|.+.+++.+.. ...
T Consensus 22 ~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~---------~~~ 92 (980)
T KOG4284|consen 22 NCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDS---------RSS 92 (980)
T ss_pred CCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCc---------ccC
Confidence 44578999999999999999999999999999999999999999999999999999999999988854 337
Q ss_pred CcEEEEEcCcHHHHHHhc
Q psy7268 116 APLALIITPGRELVFQIG 133 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi~ 133 (134)
.++++|++||||+|.||.
T Consensus 93 ~~q~~Iv~PTREiaVQI~ 110 (980)
T KOG4284|consen 93 HIQKVIVTPTREIAVQIK 110 (980)
T ss_pred cceeEEEecchhhhhHHH
Confidence 899999999999999986
No 44
>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=3.4e-15 Score=120.08 Aligned_cols=62 Identities=27% Similarity=0.392 Sum_probs=56.2
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.||..|+|+|.++|+.+++|+|+++++|||+|||++|++|++. .+..+||++|+++|+.|..
T Consensus 7 ~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~---------------~~~~~lVi~P~~~L~~dq~ 68 (470)
T TIGR00614 7 FGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALC---------------SDGITLVISPLISLMEDQV 68 (470)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHH---------------cCCcEEEEecHHHHHHHHH
Confidence 5999999999999999999999999999999999999999875 2346899999999998753
No 45
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.56 E-value=2.4e-14 Score=123.32 Aligned_cols=79 Identities=23% Similarity=0.275 Sum_probs=67.4
Q ss_pred CCcc--cCCCCHHHHHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 39 GTFE--DTGLAPEIIDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 39 ~~f~--~~~l~~~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
..|. +++....+...+++ .||..++|+|.++|+.++.|+|+++++|||+|||++|++|++..
T Consensus 435 ~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~--------------- 499 (1195)
T PLN03137 435 KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC--------------- 499 (1195)
T ss_pred ccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc---------------
Confidence 3465 45566777777777 59999999999999999999999999999999999999999852
Q ss_pred CcEEEEEcCcHHHHH-Hh
Q psy7268 116 APLALIITPGRELVF-QI 132 (134)
Q Consensus 116 ~~~~lil~Pt~~La~-Qi 132 (134)
+..+|||+|+++|+. |+
T Consensus 500 ~GiTLVISPLiSLmqDQV 517 (1195)
T PLN03137 500 PGITLVISPLVSLIQDQI 517 (1195)
T ss_pred CCcEEEEeCHHHHHHHHH
Confidence 246999999999997 54
No 46
>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=99.55 E-value=2.5e-14 Score=99.35 Aligned_cols=61 Identities=34% Similarity=0.520 Sum_probs=54.7
Q ss_pred hHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 63 TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 63 t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
||+|.++|+.+.+|+|+++.+|||+|||++|+++++..+.+. ...+++|++|+++|+.|++
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~----------~~~~~lii~P~~~l~~q~~ 61 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG----------KDARVLIIVPTRALAEQQF 61 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT----------SSSEEEEEESSHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC----------CCceEEEEeeccccccccc
Confidence 789999999999999999999999999999999999998753 2248999999999999975
No 47
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.55 E-value=2e-14 Score=118.82 Aligned_cols=73 Identities=25% Similarity=0.333 Sum_probs=61.5
Q ss_pred CCHHHHHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 46 LAPEIIDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 46 l~~~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+.+...+.|++ .||..|+|+|.++|+.+++|+|+++.+|||+|||++|++|++.. ...+||++|
T Consensus 9 ~~~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~---------------~g~tlVisP 73 (607)
T PRK11057 9 LESLAKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL---------------DGLTLVVSP 73 (607)
T ss_pred chhHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc---------------CCCEEEEec
Confidence 33444455555 59999999999999999999999999999999999999998852 235899999
Q ss_pred cHHHHHHhc
Q psy7268 125 GRELVFQIG 133 (134)
Q Consensus 125 t~~La~Qi~ 133 (134)
+++|+.|..
T Consensus 74 l~sL~~dqv 82 (607)
T PRK11057 74 LISLMKDQV 82 (607)
T ss_pred HHHHHHHHH
Confidence 999998753
No 48
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.52 E-value=6.8e-14 Score=119.08 Aligned_cols=76 Identities=24% Similarity=0.372 Sum_probs=68.8
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCc
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPG 125 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt 125 (134)
....+..++.+.|...++.+|.+|+..+.+|+|++|.++||||||.+|++||++.+.+.. ..++|+|.||
T Consensus 55 ~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~----------~a~AL~lYPt 124 (851)
T COG1205 55 RDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDP----------SARALLLYPT 124 (851)
T ss_pred hhhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCc----------CccEEEEech
Confidence 455668888888999999999999999999999999999999999999999999998753 3389999999
Q ss_pred HHHHHH
Q psy7268 126 RELVFQ 131 (134)
Q Consensus 126 ~~La~Q 131 (134)
++||++
T Consensus 125 nALa~D 130 (851)
T COG1205 125 NALAND 130 (851)
T ss_pred hhhHhh
Confidence 999986
No 49
>PRK09401 reverse gyrase; Reviewed
Probab=99.52 E-value=5.6e-14 Score=122.81 Aligned_cols=73 Identities=33% Similarity=0.396 Sum_probs=60.3
Q ss_pred HHHHHHHHHC-CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcH
Q psy7268 48 PEIIDIFTKR-GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGR 126 (134)
Q Consensus 48 ~~i~~~l~~~-g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 126 (134)
+++.+.+++. |+ .|+++|+.++|.++.|+|++++||||+|||. |.++++..+.. ++.+++||+||+
T Consensus 67 ~~~~~~f~~~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~-----------~g~~alIL~PTr 133 (1176)
T PRK09401 67 KEFEKFFKKKTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK-----------KGKKSYIIFPTR 133 (1176)
T ss_pred HHHHHHHHHhcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh-----------cCCeEEEEeccH
Confidence 3445556554 88 8999999999999999999999999999996 55666655532 467899999999
Q ss_pred HHHHHhc
Q psy7268 127 ELVFQIG 133 (134)
Q Consensus 127 ~La~Qi~ 133 (134)
+|+.|++
T Consensus 134 eLa~Qi~ 140 (1176)
T PRK09401 134 LLVEQVV 140 (1176)
T ss_pred HHHHHHH
Confidence 9999986
No 50
>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=99.50 E-value=7.3e-14 Score=122.11 Aligned_cols=74 Identities=31% Similarity=0.371 Sum_probs=61.9
Q ss_pred HHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHH
Q psy7268 48 PEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRE 127 (134)
Q Consensus 48 ~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 127 (134)
.++.+.+.+.....|+++|+.+++.++.|+|++++||||+|||. |.+|++..+.. .+++++|++||++
T Consensus 65 ~~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~-----------~g~~vLIL~PTre 132 (1171)
T TIGR01054 65 KEFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK-----------KGKRCYIILPTTL 132 (1171)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh-----------cCCeEEEEeCHHH
Confidence 55666666643348999999999999999999999999999997 66777766643 4678999999999
Q ss_pred HHHHhc
Q psy7268 128 LVFQIG 133 (134)
Q Consensus 128 La~Qi~ 133 (134)
||.|++
T Consensus 133 La~Qi~ 138 (1171)
T TIGR01054 133 LVIQVA 138 (1171)
T ss_pred HHHHHH
Confidence 999986
No 51
>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=1.2e-13 Score=118.35 Aligned_cols=75 Identities=17% Similarity=0.153 Sum_probs=65.0
Q ss_pred CCHHHHHHHHH-CCCCCChHHHHHHHHHHHcC------CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 46 LAPEIIDIFTK-RGLTTPTEIQKYSIPTLLSG------KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 46 l~~~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g------~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
....+.+.+.+ .+| .||+.|.++|+.++++ .|++++|+||+|||.+|+++++..+. ++.+
T Consensus 436 ~~~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~------------~g~q 502 (926)
T TIGR00580 436 PDLEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL------------DGKQ 502 (926)
T ss_pred CCHHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH------------hCCe
Confidence 44566666666 599 6999999999999874 69999999999999999999998875 4578
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
++|++||++||.|++
T Consensus 503 vlvLvPT~~LA~Q~~ 517 (926)
T TIGR00580 503 VAVLVPTTLLAQQHF 517 (926)
T ss_pred EEEEeCcHHHHHHHH
Confidence 999999999999986
No 52
>PRK14701 reverse gyrase; Provisional
Probab=99.49 E-value=1.1e-13 Score=123.75 Aligned_cols=73 Identities=33% Similarity=0.266 Sum_probs=62.0
Q ss_pred HHHHHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcH
Q psy7268 48 PEIIDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGR 126 (134)
Q Consensus 48 ~~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 126 (134)
+++.+.+++ .|| .|+++|+.++|.+++|+|+++++|||+|||++++++.+.... .+.+++||+||+
T Consensus 66 ~~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~------------~g~~aLVl~PTr 132 (1638)
T PRK14701 66 EEFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL------------KGKKCYIILPTT 132 (1638)
T ss_pred HHHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh------------cCCeEEEEECHH
Confidence 566677777 799 699999999999999999999999999999976665554321 467899999999
Q ss_pred HHHHHhc
Q psy7268 127 ELVFQIG 133 (134)
Q Consensus 127 ~La~Qi~ 133 (134)
+|+.|++
T Consensus 133 eLa~Qi~ 139 (1638)
T PRK14701 133 LLVKQTV 139 (1638)
T ss_pred HHHHHHH
Confidence 9999985
No 53
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.48 E-value=1.3e-13 Score=115.31 Aligned_cols=73 Identities=22% Similarity=0.241 Sum_probs=62.6
Q ss_pred HHHHHHH-HHCCCCCChHHHHHHHHHHHcC------CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEE
Q psy7268 48 PEIIDIF-TKRGLTTPTEIQKYSIPTLLSG------KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120 (134)
Q Consensus 48 ~~i~~~l-~~~g~~~~t~iQ~~~i~~~~~g------~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~l 120 (134)
..+++.+ ..++| .||++|.++++.+.++ .+++++|+||||||++|++|++..+. ++.+++
T Consensus 248 ~~~~~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~------------~g~q~l 314 (681)
T PRK10917 248 GELLKKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE------------AGYQAA 314 (681)
T ss_pred hHHHHHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH------------cCCeEE
Confidence 3444444 45699 7999999999999876 37999999999999999999998874 578999
Q ss_pred EEcCcHHHHHHhc
Q psy7268 121 IITPGRELVFQIG 133 (134)
Q Consensus 121 il~Pt~~La~Qi~ 133 (134)
|++||++||.|++
T Consensus 315 ilaPT~~LA~Q~~ 327 (681)
T PRK10917 315 LMAPTEILAEQHY 327 (681)
T ss_pred EEeccHHHHHHHH
Confidence 9999999999986
No 54
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.48 E-value=1.4e-13 Score=114.23 Aligned_cols=73 Identities=19% Similarity=0.206 Sum_probs=63.1
Q ss_pred HHHHHHHHHCCCCCChHHHHHHHHHHHcCC------CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEE
Q psy7268 48 PEIIDIFTKRGLTTPTEIQKYSIPTLLSGK------SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALI 121 (134)
Q Consensus 48 ~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~------dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~li 121 (134)
+.+.+.+..++| .||+.|+++|+.++++. +.+++++||||||++|++|++..+. ++.+++|
T Consensus 223 ~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~------------~g~qvli 289 (630)
T TIGR00643 223 ELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE------------AGYQVAL 289 (630)
T ss_pred HHHHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH------------cCCcEEE
Confidence 344556677899 89999999999998752 5899999999999999999998874 5678999
Q ss_pred EcCcHHHHHHhc
Q psy7268 122 ITPGRELVFQIG 133 (134)
Q Consensus 122 l~Pt~~La~Qi~ 133 (134)
++||++||.|++
T Consensus 290 laPT~~LA~Q~~ 301 (630)
T TIGR00643 290 MAPTEILAEQHY 301 (630)
T ss_pred ECCHHHHHHHHH
Confidence 999999999986
No 55
>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=1.1e-13 Score=113.96 Aligned_cols=65 Identities=25% Similarity=0.387 Sum_probs=57.3
Q ss_pred HHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 53 IFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 53 ~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.|++ +||..++++|.++|+.+++|+|+++++|||+|||++|++|++.. +..++||+|+++|+.|
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~---------------~g~~lVisPl~sL~~d 68 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL---------------KGLTVVISPLISLMKD 68 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc---------------CCcEEEEcCCHHHHHH
Confidence 4555 69999999999999999999999999999999999999998742 2358999999999987
Q ss_pred h
Q psy7268 132 I 132 (134)
Q Consensus 132 i 132 (134)
.
T Consensus 69 q 69 (591)
T TIGR01389 69 Q 69 (591)
T ss_pred H
Confidence 5
No 56
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.47 E-value=1.5e-13 Score=116.46 Aligned_cols=80 Identities=21% Similarity=0.208 Sum_probs=70.7
Q ss_pred ccCCCCHHHHHHHH-----HCCCCCC---hHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCC
Q psy7268 42 EDTGLAPEIIDIFT-----KRGLTTP---TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPE 113 (134)
Q Consensus 42 ~~~~l~~~i~~~l~-----~~g~~~~---t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~ 113 (134)
+.+.+.+++.+.+. ..||..| +|+|.++++.+..++|++++++||+|||++|++|++..+..
T Consensus 65 eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~---------- 134 (970)
T PRK12899 65 EAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALT---------- 134 (970)
T ss_pred HHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhh----------
Confidence 56778888888877 5799998 99999999999999999999999999999999999988863
Q ss_pred CCCcEEEEEcCcHHHHHHhc
Q psy7268 114 LNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 114 ~~~~~~lil~Pt~~La~Qi~ 133 (134)
+..++||+||++||.|++
T Consensus 135 --g~~v~IVTpTrELA~Qda 152 (970)
T PRK12899 135 --GKPVHLVTVNDYLAQRDC 152 (970)
T ss_pred --cCCeEEEeCCHHHHHHHH
Confidence 123889999999999986
No 57
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.38 E-value=1.5e-12 Score=113.69 Aligned_cols=73 Identities=19% Similarity=0.172 Sum_probs=62.0
Q ss_pred HHHHHH-HHHCCCCCChHHHHHHHHHHHcC------CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEE
Q psy7268 48 PEIIDI-FTKRGLTTPTEIQKYSIPTLLSG------KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120 (134)
Q Consensus 48 ~~i~~~-l~~~g~~~~t~iQ~~~i~~~~~g------~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~l 120 (134)
....+. ....+| .||+.|.++|+.++++ .|++++++||+|||.+|+.++...+. .+.+++
T Consensus 587 ~~~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~------------~g~qvl 653 (1147)
T PRK10689 587 REQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE------------NHKQVA 653 (1147)
T ss_pred HHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH------------cCCeEE
Confidence 344444 455689 7999999999999987 89999999999999999888776653 567899
Q ss_pred EEcCcHHHHHHhc
Q psy7268 121 IITPGRELVFQIG 133 (134)
Q Consensus 121 il~Pt~~La~Qi~ 133 (134)
|++||++||.|++
T Consensus 654 vLvPT~eLA~Q~~ 666 (1147)
T PRK10689 654 VLVPTTLLAQQHY 666 (1147)
T ss_pred EEeCcHHHHHHHH
Confidence 9999999999986
No 58
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.37 E-value=1.2e-12 Score=110.77 Aligned_cols=73 Identities=22% Similarity=0.252 Sum_probs=54.7
Q ss_pred HHHHHH-CCCCCChHHHHHHHHHHHcCC-CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEE-EcCcHH
Q psy7268 51 IDIFTK-RGLTTPTEIQKYSIPTLLSGK-SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALI-ITPGRE 127 (134)
Q Consensus 51 ~~~l~~-~g~~~~t~iQ~~~i~~~~~g~-dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~li-l~Pt~~ 127 (134)
-+.+.+ .||+ |+|+|.+++|.++.|+ ++++++|||||||.++.++.+.. .. ....++.|| ++|+|+
T Consensus 5 ~~ff~~~~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~-~~---------~~~~~~rLv~~vPtRe 73 (844)
T TIGR02621 5 DEWYQGLHGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAV-EI---------GAKVPRRLVYVVNRRT 73 (844)
T ss_pred HHHHHHHhCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccc-cc---------cccccceEEEeCchHH
Confidence 344555 4996 9999999999999998 58888999999999765444422 11 114566666 669999
Q ss_pred HHHHhcC
Q psy7268 128 LVFQIGQ 134 (134)
Q Consensus 128 La~Qi~~ 134 (134)
|+.|+++
T Consensus 74 La~Qi~~ 80 (844)
T TIGR02621 74 VVDQVTE 80 (844)
T ss_pred HHHHHHH
Confidence 9999863
No 59
>KOG0952|consensus
Probab=99.33 E-value=2e-12 Score=109.81 Aligned_cols=75 Identities=19% Similarity=0.183 Sum_probs=64.4
Q ss_pred CCCCCChHHHHHHHHHHH-cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLL-SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~-~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+|++++.+|+.++|.++ ...|++||||||+|||..+++.||+.+.+. ..+..-..++.++|||+|+++||..+.
T Consensus 106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~--~~~~~i~k~~fKiVYIaPmKALa~Em~ 181 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEH--EEQGDIAKDDFKIVYIAPMKALAAEMV 181 (1230)
T ss_pred ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhh--ccccccccCCceEEEEechHHHHHHHH
Confidence 478999999999999887 567999999999999999999999999862 233444557899999999999998765
No 60
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.31 E-value=4.7e-12 Score=104.93 Aligned_cols=62 Identities=27% Similarity=0.230 Sum_probs=57.2
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. .|+++|..+++.++.|+ ++.+.||+|||++|.+|++.... .+.+++|++||++||.|.+
T Consensus 100 lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al------------~G~~v~VvTptreLA~qda 161 (656)
T PRK12898 100 LGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAAL------------AGLPVHVITVNDYLAERDA 161 (656)
T ss_pred hCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhh------------cCCeEEEEcCcHHHHHHHH
Confidence 477 89999999999999999 89999999999999999998764 5778999999999999976
No 61
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.24 E-value=1.9e-11 Score=103.32 Aligned_cols=78 Identities=24% Similarity=0.356 Sum_probs=66.5
Q ss_pred CCCHHHHHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 45 GLAPEIIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 45 ~l~~~i~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
.+.+.+.+.++..|+....+-|+.++.. +..|+|+++++|||+|||+.+++.++..+.+ .+.++||++
T Consensus 15 ~~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~-----------~~~k~vYiv 83 (766)
T COG1204 15 KLDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLE-----------GGGKVVYIV 83 (766)
T ss_pred cccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHh-----------cCCcEEEEe
Confidence 3677888888888997777777777765 5567999999999999999999999999975 367899999
Q ss_pred CcHHHHHHhc
Q psy7268 124 PGRELVFQIG 133 (134)
Q Consensus 124 Pt~~La~Qi~ 133 (134)
|+|+||.+.+
T Consensus 84 PlkALa~Ek~ 93 (766)
T COG1204 84 PLKALAEEKY 93 (766)
T ss_pred ChHHHHHHHH
Confidence 9999999875
No 62
>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=99.22 E-value=5.5e-11 Score=101.79 Aligned_cols=75 Identities=24% Similarity=0.246 Sum_probs=62.0
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHH----HHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEE
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIP----TLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALI 121 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~----~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~li 121 (134)
+.+.+.+.+...|| .+++.|.+.+. .+..|+++++.||||+|||++|++|++.... ++.+++|
T Consensus 231 ~~~~~~~~~~~~~~-~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~------------~~~~vvi 297 (850)
T TIGR01407 231 LSSLFSKNIDRLGL-EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI------------TEKPVVI 297 (850)
T ss_pred ccHHHHHhhhhcCC-ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc------------CCCeEEE
Confidence 33467777888899 47899998776 4457899999999999999999999988764 2347999
Q ss_pred EcCcHHHHHHhc
Q psy7268 122 ITPGRELVFQIG 133 (134)
Q Consensus 122 l~Pt~~La~Qi~ 133 (134)
.+||++|..|+.
T Consensus 298 ~t~t~~Lq~Ql~ 309 (850)
T TIGR01407 298 STNTKVLQSQLL 309 (850)
T ss_pred EeCcHHHHHHHH
Confidence 999999999974
No 63
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.13 E-value=9.3e-11 Score=95.23 Aligned_cols=83 Identities=19% Similarity=0.298 Sum_probs=76.2
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcE
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~ 118 (134)
..+++++++++.+-|+..|++.+.|+|..++.. ++.|+|.+++++|+||||++.-++=+.++.. .+.+
T Consensus 195 ~vdeLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~-----------~g~K 263 (830)
T COG1202 195 PVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS-----------GGKK 263 (830)
T ss_pred cccccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh-----------CCCe
Confidence 457899999999999999999999999999987 7799999999999999999999999998875 5778
Q ss_pred EEEEcCcHHHHHHhc
Q psy7268 119 ALIITPGRELVFQIG 133 (134)
Q Consensus 119 ~lil~Pt~~La~Qi~ 133 (134)
-|+++|..+||+|=|
T Consensus 264 mlfLvPLVALANQKy 278 (830)
T COG1202 264 MLFLVPLVALANQKY 278 (830)
T ss_pred EEEEehhHHhhcchH
Confidence 999999999999954
No 64
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.13 E-value=3.1e-10 Score=95.17 Aligned_cols=61 Identities=23% Similarity=0.292 Sum_probs=53.9
Q ss_pred CChHHHHHHHHHHHcC---CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLSG---KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g---~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+++.|++++..+.++ +++++.++||+|||.+|+.++...+. .+.++||++|+++|+.|++
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~------------~g~~vLvLvPt~~L~~Q~~ 207 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLA------------QGKQALVLVPEIALTPQML 207 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHH------------cCCeEEEEeCcHHHHHHHH
Confidence 5899999999999874 78999999999999999888777664 3568999999999999986
No 65
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.12 E-value=2.4e-10 Score=92.84 Aligned_cols=63 Identities=25% Similarity=0.171 Sum_probs=50.9
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
..|++.|.++++.++.+++.++++|||+|||+++... ....... ...++||++||++|+.|+.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l-~~~~~~~----------~~~~vLilvpt~eL~~Q~~ 175 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLL-SRYYLEN----------YEGKVLIIVPTTSLVTQMI 175 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHH-HHHHHhc----------CCCeEEEEECcHHHHHHHH
Confidence 4899999999999999999999999999999976442 2222221 2348999999999999985
No 66
>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=99.09 E-value=1.9e-10 Score=89.84 Aligned_cols=54 Identities=28% Similarity=0.372 Sum_probs=46.9
Q ss_pred HHHHHHHHHHcCCC--eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 65 IQKYSIPTLLSGKS--AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 65 iQ~~~i~~~~~g~d--vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|.++++.+.++++ +++++|||+|||++|++|++. .+.++++++|+++|+.|.+
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~---------------~~~~~~~~~P~~aL~~~~~ 56 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH---------------GENDTIALYPTNALIEDQT 56 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH---------------cCCCEEEEeChHHHHHHHH
Confidence 49999999999885 788999999999999999884 1235899999999999865
No 67
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.08 E-value=4e-10 Score=78.68 Aligned_cols=67 Identities=37% Similarity=0.490 Sum_probs=58.4
Q ss_pred CCCCCChHHHHHHHHHHHcC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.++..+++.|.+++..+..+ +.+++.+++|+|||.++..+++..+... ...++++++|+++++.|+.
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~----------~~~~~l~~~p~~~~~~~~~ 71 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRG----------KGKRVLVLVPTRELAEQWA 71 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhccc----------CCCcEEEEeCCHHHHHHHH
Confidence 46779999999999999998 9999999999999999999988887642 1357999999999999864
No 68
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.06 E-value=6.1e-10 Score=94.21 Aligned_cols=62 Identities=29% Similarity=0.314 Sum_probs=55.8
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. +|+++|..+++.+..|+ ++.+.||+|||+++++|++.... .|.+++|++||++||.|.+
T Consensus 75 ~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al------------~G~~v~VvTpt~~LA~qd~ 136 (790)
T PRK09200 75 LGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNAL------------EGKGVHLITVNDYLAKRDA 136 (790)
T ss_pred hCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHH------------cCCCeEEEeCCHHHHHHHH
Confidence 487 99999999999998887 89999999999999999986654 5778999999999999975
No 69
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.05 E-value=5.5e-10 Score=95.35 Aligned_cols=65 Identities=28% Similarity=0.336 Sum_probs=53.5
Q ss_pred HHCCCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 55 TKRGLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 55 ~~~g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.-.|| .+.+.|.+....+. .+..+++.|+||+|||++|++|++... .+.++||++||++|+.
T Consensus 240 ~~~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~-------------~~~~vvI~t~T~~Lq~ 305 (820)
T PRK07246 240 ALLGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS-------------DQRQIIVSVPTKILQD 305 (820)
T ss_pred ccCCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc-------------CCCcEEEEeCcHHHHH
Confidence 33478 67999999665443 678899999999999999999988753 3467999999999999
Q ss_pred Hhc
Q psy7268 131 QIG 133 (134)
Q Consensus 131 Qi~ 133 (134)
|+.
T Consensus 306 Ql~ 308 (820)
T PRK07246 306 QIM 308 (820)
T ss_pred HHH
Confidence 983
No 70
>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=99.02 E-value=7.8e-10 Score=91.79 Aligned_cols=52 Identities=25% Similarity=0.284 Sum_probs=44.6
Q ss_pred HHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 72 TLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+..++.+++.|+||+|||++|++|++..+... .+.++||++||++|+.|+.
T Consensus 12 al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~----------~~~rvlIstpT~~Lq~Ql~ 63 (636)
T TIGR03117 12 SLRQKRIGMLEASTGVGKTLAMIMAALTMLKER----------PDQKIAIAVPTLALMGQLW 63 (636)
T ss_pred HHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhc----------cCceEEEECCcHHHHHHHH
Confidence 345678899999999999999999999987531 3568999999999999986
No 71
>KOG0349|consensus
Probab=99.02 E-value=7.4e-11 Score=93.31 Aligned_cols=67 Identities=34% Similarity=0.547 Sum_probs=63.6
Q ss_pred CCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhh
Q psy7268 38 LGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTW 104 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~ 104 (134)
++.|+++++-|++-.+..++.+.-||.+|.++||.++.|.|++..+.||||||-+|++|+++.+++.
T Consensus 1 m~af~e~gv~pel~~a~~e~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~lpilqiv~et 67 (725)
T KOG0349|consen 1 MTAFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWET 67 (725)
T ss_pred CcchHhhCcchHhhhhhhhhccccccccccccccEEecCCcEEEEeccCCCCccceehhhHHHHHHH
Confidence 3579999999999999999999999999999999999999999999999999999999999998854
No 72
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.00 E-value=8.9e-10 Score=92.15 Aligned_cols=64 Identities=22% Similarity=0.250 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHcCCCeEEEcCCCCchhHH---------hHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 64 EIQKYSIPTLLSGKSAILVAETGCGKTLS---------FLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 64 ~iQ~~~i~~~~~g~dvli~a~tGsGKT~~---------~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+|+++++.+++|+|++++|+||+|||.+ |++|.+..+..-. +...+.++++++|+||||.|++
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~------~~~~~~~ilvt~PrreLa~qi~ 239 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKID------PNFIERPIVLSLPRVALVRLHS 239 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcc------cccCCcEEEEECcHHHHHHHHH
Confidence 48999999999999999999999999987 5555555543211 1114568999999999999975
No 73
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=98.97 E-value=1.5e-09 Score=91.00 Aligned_cols=62 Identities=27% Similarity=0.272 Sum_probs=53.6
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. .|+++|..+.+.+..|+ ++.++||+|||+++.+|++.... .+.++.|++||++||.|.+
T Consensus 53 lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL------------~G~~V~VvTpt~~LA~qda 114 (745)
T TIGR00963 53 LGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNAL------------TGKGVHVVTVNDYLAQRDA 114 (745)
T ss_pred hCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHH------------hCCCEEEEcCCHHHHHHHH
Confidence 487 99999999999988887 89999999999999999964443 3456999999999999975
No 74
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=98.93 E-value=1.5e-09 Score=84.22 Aligned_cols=46 Identities=26% Similarity=0.243 Sum_probs=40.2
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
|+++.+|||+|||++|+++++..+... .+.+++|++|+++|+.|++
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~----------~~~~ii~v~P~~~L~~q~~ 46 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQ----------KADRVIIALPTRATINAMY 46 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhC----------CCCeEEEEeehHHHHHHHH
Confidence 689999999999999999999886432 4568999999999999986
No 75
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.92 E-value=4.8e-09 Score=79.91 Aligned_cols=68 Identities=25% Similarity=0.266 Sum_probs=52.8
Q ss_pred CCCCChHHHHHHHHH----HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPT----LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~----~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.| .|++.|.+.+.. +..|.++++.+|||+|||++|++|++.++...... ..+.+++|.++|..+..|+
T Consensus 6 Py-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~------~~~~kvi~~t~T~~~~~q~ 77 (289)
T smart00489 6 PY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER------IQKIKLIYLSRTVSEIEKR 77 (289)
T ss_pred CC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc------ccccceeEEeccHHHHHHH
Confidence 46 469999996554 45789999999999999999999999887642210 0234799999999987774
No 76
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.92 E-value=4.8e-09 Score=79.91 Aligned_cols=68 Identities=25% Similarity=0.266 Sum_probs=52.8
Q ss_pred CCCCChHHHHHHHHH----HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPT----LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~----~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.| .|++.|.+.+.. +..|.++++.+|||+|||++|++|++.++...... ..+.+++|.++|..+..|+
T Consensus 6 Py-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~------~~~~kvi~~t~T~~~~~q~ 77 (289)
T smart00488 6 PY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPER------IQKIKLIYLSRTVSEIEKR 77 (289)
T ss_pred CC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccc------ccccceeEEeccHHHHHHH
Confidence 46 469999996554 45789999999999999999999999887642210 0234799999999987774
No 77
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.91 E-value=3.6e-09 Score=89.10 Aligned_cols=62 Identities=29% Similarity=0.340 Sum_probs=50.8
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. .|+++|......+..| .++.++||+|||++|++|++.... .+..++|++|+++||.|.+
T Consensus 67 lgl-rpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL------------~g~~V~VVTpn~yLA~Rda 128 (762)
T TIGR03714 67 LGM-FPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNAL------------TGKGAMLVTTNDYLAKRDA 128 (762)
T ss_pred cCC-CccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhh------------cCCceEEeCCCHHHHHHHH
Confidence 466 7788887777766666 689999999999999999876654 3456999999999999875
No 78
>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=98.87 E-value=5.4e-09 Score=72.93 Aligned_cols=58 Identities=28% Similarity=0.350 Sum_probs=47.2
Q ss_pred CChHHHHHHHHHHHc-------CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLS-------GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~-------g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+++.|.+++..+.. .+.+++.+|||+|||.+++..+.... . ++++++|+..|+.|..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~-------------~--~~l~~~p~~~l~~Q~~ 67 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA-------------R--KVLIVAPNISLLEQWY 67 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-------------C--EEEEEESSHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-------------c--ceeEecCHHHHHHHHH
Confidence 578999999998873 58899999999999999875444443 2 7999999999999974
No 79
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.85 E-value=1.1e-08 Score=88.59 Aligned_cols=64 Identities=23% Similarity=0.228 Sum_probs=54.4
Q ss_pred CCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 58 GLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
|| .+.+-|.+.+..+. .++.+++.|+||+|||++|++|.+..... ++.+++|.++|+.|..|+.
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~-----------~~~~vvIsT~T~~LQ~Ql~ 322 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKK-----------KEEPVVISTYTIQLQQQLL 322 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhc-----------cCCeEEEEcCCHHHHHHHH
Confidence 77 78999999776544 67889999999999999999999876643 4567999999999999974
No 80
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.82 E-value=9.5e-09 Score=88.60 Aligned_cols=71 Identities=18% Similarity=0.158 Sum_probs=61.4
Q ss_pred HHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 51 IDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 51 ~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.......|| .+.++|++++-.+-+|.+|+++||||+|||++...++-..+. .+-+++|.+|.++|.+
T Consensus 110 ~~~~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~------------~~qrviYTsPIKALsN 176 (1041)
T COG4581 110 APPAREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALR------------DGQRVIYTSPIKALSN 176 (1041)
T ss_pred CcHHHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHH------------cCCceEeccchhhhhh
Confidence 344566789 899999999999999999999999999999998888777765 4556999999999999
Q ss_pred HhcC
Q psy7268 131 QIGQ 134 (134)
Q Consensus 131 Qi~~ 134 (134)
|.++
T Consensus 177 QKyr 180 (1041)
T COG4581 177 QKYR 180 (1041)
T ss_pred hHHH
Confidence 9863
No 81
>PRK13766 Hef nuclease; Provisional
Probab=98.79 E-value=2.1e-08 Score=85.18 Aligned_cols=62 Identities=26% Similarity=0.295 Sum_probs=53.5
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
-.+.+.|..++..++.+ |+++++|||+|||+++++++...+.. .+.++||++||++|+.|..
T Consensus 14 ~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~-----------~~~~vLvl~Pt~~L~~Q~~ 75 (773)
T PRK13766 14 IEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHK-----------KGGKVLILAPTKPLVEQHA 75 (773)
T ss_pred CCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHh-----------CCCeEEEEeCcHHHHHHHH
Confidence 47788999999888877 89999999999999999998887732 4568999999999998864
No 82
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.79 E-value=5e-09 Score=93.43 Aligned_cols=53 Identities=21% Similarity=0.258 Sum_probs=40.5
Q ss_pred EEcCCCCchhHHhHHHHHHHHHhhcCCCC-CCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 81 LVAETGCGKTLSFLAPLVQQILTWKSRPE-YKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 81 i~a~tGsGKT~~~~lpil~~~~~~~~~~~-~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
|++|||||||++|++|+++.+........ .....++.++|||+|+|+|+.|++
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~ 54 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQ 54 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHH
Confidence 57999999999999999999986431100 001124689999999999999986
No 83
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.77 E-value=4.8e-08 Score=82.36 Aligned_cols=64 Identities=28% Similarity=0.325 Sum_probs=53.5
Q ss_pred CCCCChHHHHHHHHHHH---c------CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHH
Q psy7268 58 GLTTPTEIQKYSIPTLL---S------GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGREL 128 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~---~------g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 128 (134)
|| .+.+-|.+.+..+. . ++.+++.|+||+|||++|++|.+..... ++-++||-+.|+.|
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~-----------~~k~vVIST~T~~L 90 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARA-----------EKKKLVISTATVAL 90 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHH-----------cCCeEEEEcCCHHH
Confidence 78 77999999776654 3 3568899999999999999999877654 45679999999999
Q ss_pred HHHhc
Q psy7268 129 VFQIG 133 (134)
Q Consensus 129 a~Qi~ 133 (134)
-.|+.
T Consensus 91 QeQL~ 95 (697)
T PRK11747 91 QEQLV 95 (697)
T ss_pred HHHHH
Confidence 99984
No 84
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.77 E-value=4.1e-08 Score=84.12 Aligned_cols=74 Identities=31% Similarity=0.339 Sum_probs=60.3
Q ss_pred HHHHHHHHHC-CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcH
Q psy7268 48 PEIIDIFTKR-GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGR 126 (134)
Q Consensus 48 ~~i~~~l~~~-g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 126 (134)
+++.+.+++. || .|+..|+.....+..|+++-+.||||.|||..-++..+..-. .|.+++||+||+
T Consensus 69 e~~~~fF~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~------------kgkr~yii~PT~ 135 (1187)
T COG1110 69 EEFEEFFKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAK------------KGKRVYIIVPTT 135 (1187)
T ss_pred HHHHHHHHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHh------------cCCeEEEEecCH
Confidence 4555566665 77 999999999999999999999999999999776555444332 567899999999
Q ss_pred HHHHHhcC
Q psy7268 127 ELVFQIGQ 134 (134)
Q Consensus 127 ~La~Qi~~ 134 (134)
.|+.|+++
T Consensus 136 ~Lv~Q~~~ 143 (1187)
T COG1110 136 TLVRQVYE 143 (1187)
T ss_pred HHHHHHHH
Confidence 99999863
No 85
>KOG0353|consensus
Probab=98.72 E-value=3.2e-08 Score=77.65 Aligned_cols=75 Identities=28% Similarity=0.394 Sum_probs=65.0
Q ss_pred ccCCCCHHHHHHHHHC-CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEE
Q psy7268 42 EDTGLAPEIIDIFTKR-GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120 (134)
Q Consensus 42 ~~~~l~~~i~~~l~~~-g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~l 120 (134)
++++.+.+.-+.|++. ..+++.|.|..+|...+.|+|+++.-|||-||++||-+|.+. ....+|
T Consensus 74 d~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~---------------adg~al 138 (695)
T KOG0353|consen 74 DDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALC---------------ADGFAL 138 (695)
T ss_pred CCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHh---------------cCCceE
Confidence 4677888888887774 678899999999999999999999999999999999999886 344689
Q ss_pred EEcCcHHHHHH
Q psy7268 121 IITPGRELVFQ 131 (134)
Q Consensus 121 il~Pt~~La~Q 131 (134)
+++|...|..+
T Consensus 139 vi~plislmed 149 (695)
T KOG0353|consen 139 VICPLISLMED 149 (695)
T ss_pred eechhHHHHHH
Confidence 99999988754
No 86
>KOG0352|consensus
Probab=98.71 E-value=4.3e-08 Score=77.71 Aligned_cols=68 Identities=19% Similarity=0.361 Sum_probs=56.4
Q ss_pred HHHHHHHHC-CCCCC-hHHHHHHHHHHHcC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCc
Q psy7268 49 EIIDIFTKR-GLTTP-TEIQKYSIPTLLSG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPG 125 (134)
Q Consensus 49 ~i~~~l~~~-g~~~~-t~iQ~~~i~~~~~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt 125 (134)
.+.++|++. |+.++ ++.|++++..+..+ .||.++.|||+||++||-+|.|-. +...|+++|.
T Consensus 6 ~VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~---------------~gITIV~SPL 70 (641)
T KOG0352|consen 6 KVREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH---------------GGITIVISPL 70 (641)
T ss_pred HHHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh---------------CCeEEEehHH
Confidence 455677774 77665 78999999998865 599999999999999999998864 2378999999
Q ss_pred HHHHHH
Q psy7268 126 RELVFQ 131 (134)
Q Consensus 126 ~~La~Q 131 (134)
.+|+++
T Consensus 71 iALIkD 76 (641)
T KOG0352|consen 71 IALIKD 76 (641)
T ss_pred HHHHHH
Confidence 999875
No 87
>KOG0354|consensus
Probab=98.71 E-value=3.7e-08 Score=82.39 Aligned_cols=62 Identities=24% Similarity=0.252 Sum_probs=55.0
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
-.+...|......++ |++++|++|||+|||+++..-+.+++... ...++|+++|++-|+.|-
T Consensus 61 ~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~----------p~~KiVF~aP~~pLv~QQ 122 (746)
T KOG0354|consen 61 LELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWR----------PKGKVVFLAPTRPLVNQQ 122 (746)
T ss_pred ccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcC----------CcceEEEeeCCchHHHHH
Confidence 377889999999999 99999999999999999999999988653 347899999999999884
No 88
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.69 E-value=3.7e-08 Score=84.15 Aligned_cols=55 Identities=20% Similarity=0.202 Sum_probs=45.2
Q ss_pred HHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 67 KYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 67 ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+.+..+.++++++++|+||||||.+|.+++++... .+.+++++.|+|++|.|++
T Consensus 11 ~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~------------~~~~ilvlqPrR~aA~qia 65 (812)
T PRK11664 11 PELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG------------INGKIIMLEPRRLAARNVA 65 (812)
T ss_pred HHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC------------cCCeEEEECChHHHHHHHH
Confidence 344555667899999999999999999999987532 2348999999999999986
No 89
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.68 E-value=5.5e-08 Score=79.99 Aligned_cols=66 Identities=29% Similarity=0.434 Sum_probs=57.3
Q ss_pred HHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHH
Q psy7268 51 IDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELV 129 (134)
Q Consensus 51 ~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 129 (134)
...|++ .||..+.+-|.++|..+++|+|+++.-|||.||++||.+|.+-. .| -.|||+|..+|-
T Consensus 6 ~~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~--------------~G-~TLVVSPLiSLM 70 (590)
T COG0514 6 QQVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL--------------EG-LTLVVSPLISLM 70 (590)
T ss_pred HHHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc--------------CC-CEEEECchHHHH
Confidence 345666 49999999999999999999999999999999999999998875 22 589999999987
Q ss_pred HH
Q psy7268 130 FQ 131 (134)
Q Consensus 130 ~Q 131 (134)
.+
T Consensus 71 ~D 72 (590)
T COG0514 71 KD 72 (590)
T ss_pred HH
Confidence 54
No 90
>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=98.64 E-value=8.4e-08 Score=82.02 Aligned_cols=55 Identities=16% Similarity=0.135 Sum_probs=46.3
Q ss_pred HHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 67 KYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 67 ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+.+..+.++.+++++|+||||||..|.+++++... .+.+++++.|+|++|.|++
T Consensus 8 ~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~------------~~~~ilvlqPrR~aA~qiA 62 (819)
T TIGR01970 8 PALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG------------IGGKIIMLEPRRLAARSAA 62 (819)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc------------cCCeEEEEeCcHHHHHHHH
Confidence 345556667889999999999999999999998752 3458999999999999986
No 91
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.63 E-value=1.9e-07 Score=78.06 Aligned_cols=64 Identities=25% Similarity=0.291 Sum_probs=54.5
Q ss_pred CCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 59 LTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 59 ~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...+.+.|.+.+..+. .|+.+++.||||+|||++|++|++..... .+.+++|.++|+.|-.|+.
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~-----------~~~~viist~t~~lq~q~~ 80 (654)
T COG1199 13 GFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYARE-----------EGKKVIISTRTKALQEQLL 80 (654)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHH-----------cCCcEEEECCCHHHHHHHH
Confidence 3489999999996543 45669999999999999999999998865 4467999999999999875
No 92
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.62 E-value=7.7e-08 Score=82.18 Aligned_cols=62 Identities=26% Similarity=0.194 Sum_probs=50.1
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. .|+++|-..--.+..|+ +..++||+|||++|.+|++.... .+..++|++||++||.|.+
T Consensus 79 lg~-~~ydvQliGg~~Lh~G~--Iaem~TGeGKTL~a~Lpa~~~al------------~G~~V~VvTpn~yLA~qd~ 140 (896)
T PRK13104 79 LGL-RHFDVQLIGGMVLHEGN--IAEMRTGEGKTLVATLPAYLNAI------------SGRGVHIVTVNDYLAKRDS 140 (896)
T ss_pred cCC-CcchHHHhhhhhhccCc--cccccCCCCchHHHHHHHHHHHh------------cCCCEEEEcCCHHHHHHHH
Confidence 366 77888877665555555 68999999999999999998775 3446999999999999975
No 93
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.58 E-value=1.8e-07 Score=75.15 Aligned_cols=58 Identities=22% Similarity=0.348 Sum_probs=48.5
Q ss_pred CChHHHHHHHHHHHc----CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLS----GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~----g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+.+.|++++..+.+ ++..+++.|||+|||+.++..+-... ..+|||+|+++|+.|-+
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~---------------~~~Lvlv~~~~L~~Qw~ 97 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK---------------RSTLVLVPTKELLDQWA 97 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc---------------CCEEEEECcHHHHHHHH
Confidence 689999999999987 88999999999999998855443321 22999999999999963
No 94
>KOG0951|consensus
Probab=98.52 E-value=3e-07 Score=80.33 Aligned_cols=84 Identities=24% Similarity=0.245 Sum_probs=65.7
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCC-CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGK-SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~-dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+++.-..++. |...++++|.......+.+. ++++|||||+|||...++.+|+.+-.... .....++...+++|++|
T Consensus 296 lP~Wnq~aF~--g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r-~dgs~nl~~fKIVYIAP 372 (1674)
T KOG0951|consen 296 LPKWNQPAFF--GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLR-EDGSVNLAPFKIVYIAP 372 (1674)
T ss_pred Ccchhhhhcc--cchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccc-cccceecccceEEEEee
Confidence 3333344443 67779999999999988765 79999999999999999999999976543 23344456779999999
Q ss_pred cHHHHHHh
Q psy7268 125 GRELVFQI 132 (134)
Q Consensus 125 t~~La~Qi 132 (134)
+++|++-+
T Consensus 373 mKaLvqE~ 380 (1674)
T KOG0951|consen 373 MKALVQEM 380 (1674)
T ss_pred HHHHHHHH
Confidence 99999764
No 95
>PRK09694 helicase Cas3; Provisional
Probab=98.45 E-value=5.5e-07 Score=77.51 Aligned_cols=64 Identities=22% Similarity=0.163 Sum_probs=48.8
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
..|+|+|+.+......+.-+++.+|||+|||.+.+..+.. +.... ...++++..||+++++|++
T Consensus 285 ~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~-l~~~~---------~~~gi~~aLPT~Atan~m~ 348 (878)
T PRK09694 285 YQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWR-LIDQG---------LADSIIFALPTQATANAML 348 (878)
T ss_pred CCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHH-HHHhC---------CCCeEEEECcHHHHHHHHH
Confidence 3899999988654444566899999999999998766553 33211 3457999999999999886
No 96
>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=98.45 E-value=4.6e-07 Score=59.59 Aligned_cols=47 Identities=34% Similarity=0.581 Sum_probs=38.7
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+++++.++||+|||..++..+....... ...+++|++|++.++.|..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~----------~~~~~lv~~p~~~l~~~~~ 47 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL----------KGGQVLVLAPTRELANQVA 47 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc----------cCCCEEEEcCcHHHHHHHH
Confidence 4689999999999999988877766541 3467999999999999864
No 97
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.39 E-value=1.1e-06 Score=73.00 Aligned_cols=76 Identities=22% Similarity=0.239 Sum_probs=63.5
Q ss_pred CCCHHHHHH-HHHCCCCCChHHHHHHHHHHHcC------CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 45 GLAPEIIDI-FTKRGLTTPTEIQKYSIPTLLSG------KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 45 ~l~~~i~~~-l~~~g~~~~t~iQ~~~i~~~~~g------~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
....++++. +..+.| .+|..|++++..|... -+-+++|--|||||++.+++++..+. .|.
T Consensus 246 ~~~~~l~~~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~------------~G~ 312 (677)
T COG1200 246 PANGELLAKFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE------------AGY 312 (677)
T ss_pred CccHHHHHHHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH------------cCC
Confidence 344555544 466799 9999999999999843 25789999999999999999999885 788
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
++..++||.-||.|=+
T Consensus 313 Q~ALMAPTEILA~QH~ 328 (677)
T COG1200 313 QAALMAPTEILAEQHY 328 (677)
T ss_pred eeEEeccHHHHHHHHH
Confidence 9999999999999965
No 98
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.36 E-value=2.1e-06 Score=75.74 Aligned_cols=63 Identities=24% Similarity=0.218 Sum_probs=49.6
Q ss_pred CChHHHHHHHHHHH----cC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLL----SG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~----~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+.+.|.+++..+. +| +.++++.+||||||.+. +.++.++.+.. ...++|+++|+++|+.|..
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~ta-i~li~~L~~~~---------~~~rVLfLvDR~~L~~Qa~ 480 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTA-IALMYRLLKAK---------RFRRILFLVDRSALGEQAE 480 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHH-HHHHHHHHhcC---------ccCeEEEEecHHHHHHHHH
Confidence 58999999998765 33 57999999999999885 44556555432 3468999999999999975
No 99
>KOG0351|consensus
Probab=98.33 E-value=4.9e-07 Score=78.03 Aligned_cols=69 Identities=25% Similarity=0.317 Sum_probs=58.1
Q ss_pred HHHHHHHH-CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHH
Q psy7268 49 EIIDIFTK-RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRE 127 (134)
Q Consensus 49 ~i~~~l~~-~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 127 (134)
+.+..+.. .|...+.+-|.++|...+.|+|+++..|||.||.+||-+|.+-. +.-.|+|+|..+
T Consensus 251 ~~~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~---------------~gitvVISPL~S 315 (941)
T KOG0351|consen 251 ELELLLKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL---------------GGVTVVISPLIS 315 (941)
T ss_pred HHHHHHHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc---------------CCceEEeccHHH
Confidence 34444444 59999999999999999999999999999999999998887652 336899999999
Q ss_pred HHHHh
Q psy7268 128 LVFQI 132 (134)
Q Consensus 128 La~Qi 132 (134)
|.++.
T Consensus 316 Lm~DQ 320 (941)
T KOG0351|consen 316 LMQDQ 320 (941)
T ss_pred HHHHH
Confidence 98753
No 100
>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=98.32 E-value=2.3e-06 Score=72.39 Aligned_cols=66 Identities=20% Similarity=0.163 Sum_probs=53.0
Q ss_pred CCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.|..++|.|.+.+..+. .|.++++.+|||+|||++.+.|.+....... ...+++|.+.|..-..|+
T Consensus 7 Py~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~---------~~~kIiy~sRThsQl~q~ 76 (705)
T TIGR00604 7 PYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP---------EVRKIIYASRTHSQLEQA 76 (705)
T ss_pred CCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc---------ccccEEEEcccchHHHHH
Confidence 57667999999887654 6889999999999999999999999875422 336788888887766665
No 101
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.31 E-value=1.4e-06 Score=74.33 Aligned_cols=61 Identities=25% Similarity=0.215 Sum_probs=50.4
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHH-HHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLV-QQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil-~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+|. .|+++|-..--.+..|+ +..+.||+|||+++.+|++ +.+ .|..+-|++||.+||.|.+
T Consensus 78 lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL-------------~G~~V~IvTpn~yLA~rd~ 139 (830)
T PRK12904 78 LGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNAL-------------TGKGVHVVTVNDYLAKRDA 139 (830)
T ss_pred hCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHH-------------cCCCEEEEecCHHHHHHHH
Confidence 477 88999998887776775 7899999999999999996 554 3445779999999999975
No 102
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.25 E-value=4e-06 Score=60.38 Aligned_cols=69 Identities=22% Similarity=0.307 Sum_probs=44.5
Q ss_pred CChHHHHHHHHHHHcCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLSGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
++++-|..++..+++..+ .+|.||+|||||.... .++..+..... ......+.++|+++|+..-+.++.
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~---~~~~~~~~~il~~~~sN~avd~~~ 70 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFK---SRSADRGKKILVVSPSNAAVDNIL 70 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH----------HCCCSS-EEEEESSHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchh---hhhhhccccceeecCCchhHHHHH
Confidence 357899999999999998 9999999999995543 44444421000 001126778999999998877653
No 103
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.23 E-value=4.6e-06 Score=67.29 Aligned_cols=60 Identities=23% Similarity=0.298 Sum_probs=48.5
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+...|....-..+.+ |.+++.|||-|||...++-+..++... .+ ++|+++||+-|+.|=
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~----------~~-kvlfLAPTKPLV~Qh 74 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWF----------GG-KVLFLAPTKPLVLQH 74 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhc----------CC-eEEEecCCchHHHHH
Confidence 4556677666556555 889999999999999988888888653 34 899999999999984
No 104
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.15 E-value=4.1e-06 Score=71.82 Aligned_cols=62 Identities=24% Similarity=0.143 Sum_probs=49.0
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.|. .|+++|-..--.+..|+ +...+||.|||+++.+|++...+ .+..+.|++|+.+||.|..
T Consensus 79 lgm-~~ydVQliGgl~L~~G~--IaEm~TGEGKTL~a~lp~~l~al------------~g~~VhIvT~ndyLA~RD~ 140 (908)
T PRK13107 79 FEM-RHFDVQLLGGMVLDSNR--IAEMRTGEGKTLTATLPAYLNAL------------TGKGVHVITVNDYLARRDA 140 (908)
T ss_pred hCC-CcCchHHhcchHhcCCc--cccccCCCCchHHHHHHHHHHHh------------cCCCEEEEeCCHHHHHHHH
Confidence 366 77888876554444444 68999999999999999988775 3455999999999999864
No 105
>PF13245 AAA_19: Part of AAA domain
Probab=98.15 E-value=1.2e-05 Score=49.54 Aligned_cols=57 Identities=18% Similarity=0.344 Sum_probs=37.4
Q ss_pred HHHHHHcCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 69 SIPTLLSGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 69 ~i~~~~~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
++...+++.+ +++.+|+|||||...+--+...+.... . .+.++++++|++..+..+.
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~-------~-~~~~vlv~a~t~~aa~~l~ 59 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARA-------D-PGKRVLVLAPTRAAADELR 59 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhc-------C-CCCeEEEECCCHHHHHHHH
Confidence 3443334455 555999999999776555444442111 0 2567999999999998774
No 106
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.09 E-value=9.2e-06 Score=68.74 Aligned_cols=57 Identities=23% Similarity=0.297 Sum_probs=45.2
Q ss_pred CChHHHHHHHHHHH-cC--CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLL-SG--KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~-~g--~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+.+.|.+++..++ +| +..+++.|||+|||+..+..+ ..+ +.++|||||+.+|+.|-
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa-~~l--------------~k~tLILvps~~Lv~QW 314 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAA-CTV--------------KKSCLVLCTSAVSVEQW 314 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHH-HHh--------------CCCEEEEeCcHHHHHHH
Confidence 57889999998877 44 368899999999999986443 333 13499999999999885
No 107
>KOG0947|consensus
Probab=98.02 E-value=1.4e-05 Score=68.64 Aligned_cols=64 Identities=22% Similarity=0.147 Sum_probs=54.3
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+| .+..+|++||-++.+|.+|++.|+|.+|||+++..++...-. .+.+++|-+|-++|.+|=+
T Consensus 294 ~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq~------------h~TR~iYTSPIKALSNQKf 357 (1248)
T KOG0947|consen 294 YPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQK------------HMTRTIYTSPIKALSNQKF 357 (1248)
T ss_pred CCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHHh------------hccceEecchhhhhccchH
Confidence 477 889999999999999999999999999999996665543322 5678999999999999854
No 108
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.00 E-value=3.4e-05 Score=65.36 Aligned_cols=61 Identities=23% Similarity=0.329 Sum_probs=50.8
Q ss_pred CChHHHHHHHHHHHcC----CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLSG----KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g----~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+++-|+.+...+... ...++.+.||||||.+|+-.+-..+. .|.++|+++|-.+|..|+.
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~------------~GkqvLvLVPEI~Ltpq~~ 262 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA------------QGKQVLVLVPEIALTPQLL 262 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH------------cCCEEEEEeccccchHHHH
Confidence 6688999999988755 56899999999999999666555554 5778999999999999874
No 109
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.87 E-value=4.5e-05 Score=57.41 Aligned_cols=61 Identities=18% Similarity=0.207 Sum_probs=44.5
Q ss_pred ChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 62 PTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 62 ~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
+|+-|.+++.. ...+++|.|..|||||.+.+-=++..+.... ....+.++++.|+..+..+
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~--------~~~~~Il~lTft~~aa~e~ 61 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGG--------VPPERILVLTFTNAAAQEM 61 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSS--------STGGGEEEEESSHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhcccc--------CChHHheecccCHHHHHHH
Confidence 47789998877 6778999999999999988666666555431 1345699999999988765
No 110
>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=97.87 E-value=3.2e-05 Score=65.18 Aligned_cols=63 Identities=19% Similarity=0.332 Sum_probs=47.0
Q ss_pred CChHHHHHHHHHHH----c------CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 61 TPTEIQKYSIPTLL----S------GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~----~------g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.+...|..++..+. . .+..++..+||||||++.+..+...+ ... ..+++|+|+|.++|..
T Consensus 238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~-~~~---------~~~~vl~lvdR~~L~~ 307 (667)
T TIGR00348 238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL-ELL---------KNPKVFFVVDRRELDY 307 (667)
T ss_pred ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH-hhc---------CCCeEEEEECcHHHHH
Confidence 36778999998754 2 24688999999999988755443333 211 5678999999999999
Q ss_pred Hhc
Q psy7268 131 QIG 133 (134)
Q Consensus 131 Qi~ 133 (134)
|..
T Consensus 308 Q~~ 310 (667)
T TIGR00348 308 QLM 310 (667)
T ss_pred HHH
Confidence 975
No 111
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.82 E-value=0.0001 Score=53.12 Aligned_cols=61 Identities=18% Similarity=0.283 Sum_probs=42.8
Q ss_pred CChHHHHHHHHHHHcCC--CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLSGK--SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~--dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
++++-|..++..++.+. -.++.|+.|+|||... -.+...+.. .+.++++++||...+..+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~-----------~g~~v~~~apT~~Aa~~L~ 63 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLL-KALAEALEA-----------AGKRVIGLAPTNKAAKELR 63 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHH-----------TT--EEEEESSHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHh-----------CCCeEEEECCcHHHHHHHH
Confidence 36889999999997544 3677899999999653 344544443 4578999999998877653
No 112
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.81 E-value=7.6e-05 Score=63.72 Aligned_cols=60 Identities=28% Similarity=0.303 Sum_probs=52.2
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.|. .|+++|-..--.+..|+ +..-.||+|||++..+|++.... .|.++-+++||..||.|
T Consensus 77 ~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al------------~G~~v~vvT~neyLA~R 136 (796)
T PRK12906 77 LGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNAL------------TGKGVHVVTVNEYLSSR 136 (796)
T ss_pred hCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHH------------cCCCeEEEeccHHHHHh
Confidence 477 89999998887777777 78999999999999999888776 67789999999999987
No 113
>KOG0948|consensus
Probab=97.76 E-value=3.4e-05 Score=65.08 Aligned_cols=64 Identities=20% Similarity=0.179 Sum_probs=56.8
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+-| .+.|+|+.+|-++-++.+|++.|-|..|||.++..+|...+.. .-|+||-+|-++|.+|=|
T Consensus 126 YPF-~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~------------kQRVIYTSPIKALSNQKY 189 (1041)
T KOG0948|consen 126 YPF-TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLRE------------KQRVIYTSPIKALSNQKY 189 (1041)
T ss_pred CCc-ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHh------------cCeEEeeChhhhhcchhH
Confidence 345 6789999999999999999999999999999999998888864 457999999999999865
No 114
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.69 E-value=0.00033 Score=61.59 Aligned_cols=76 Identities=20% Similarity=0.203 Sum_probs=62.1
Q ss_pred CCCHHHHHHHHH-CCCCCChHHHHHHHHHHH----cCC--CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCc
Q psy7268 45 GLAPEIIDIFTK-RGLTTPTEIQKYSIPTLL----SGK--SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAP 117 (134)
Q Consensus 45 ~l~~~i~~~l~~-~g~~~~t~iQ~~~i~~~~----~g~--dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~ 117 (134)
+.+.+..+.+.+ .+| ..|+=|..||..+. +++ |-++||--|-|||.+++=++...+. .|.
T Consensus 578 ~~d~~~q~~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~------------~GK 644 (1139)
T COG1197 578 PPDTEWQEEFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM------------DGK 644 (1139)
T ss_pred CCChHHHHHHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc------------CCC
Confidence 344566666666 477 66999999999987 454 8899999999999999877777764 678
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
|+.+++||.-||+|=+
T Consensus 645 QVAvLVPTTlLA~QHy 660 (1139)
T COG1197 645 QVAVLVPTTLLAQQHY 660 (1139)
T ss_pred eEEEEcccHHhHHHHH
Confidence 9999999999999944
No 115
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.68 E-value=0.00023 Score=60.26 Aligned_cols=61 Identities=28% Similarity=0.290 Sum_probs=52.5
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
+|. .|+++|-...-.++.|+ ++.-.||.|||++..+|+..... .|.++.+++|+..||.|=
T Consensus 75 lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL------------~G~~VhvvT~NdyLA~RD 135 (764)
T PRK12326 75 LGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYAL------------QGRRVHVITVNDYLARRD 135 (764)
T ss_pred cCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHH------------cCCCeEEEcCCHHHHHHH
Confidence 477 89999999998888874 56999999999999998887765 577899999999999873
No 116
>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=97.68 E-value=0.0002 Score=60.11 Aligned_cols=60 Identities=23% Similarity=0.327 Sum_probs=46.0
Q ss_pred CChHHHHHHHHHHHcC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++.|..++..++.. ..+++.||+|+|||.... .++..+.. .+.++++++||..-+.++
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~-~ii~~~~~-----------~g~~VLv~a~sn~Avd~l 217 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLV-ELIRQLVK-----------RGLRVLVTAPSNIAVDNL 217 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHH-HHHHHHHH-----------cCCCEEEEcCcHHHHHHH
Confidence 5689999999998876 568899999999996653 34444433 455899999999777665
No 117
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.62 E-value=0.0002 Score=61.09 Aligned_cols=66 Identities=20% Similarity=0.150 Sum_probs=53.0
Q ss_pred CChHHHHHHHHHHHcC---C-CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhcC
Q psy7268 61 TPTEIQKYSIPTLLSG---K-SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g---~-dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~~ 134 (134)
...+.|..++..+..+ . .+++.+|||.|||.+.+.+........ .....+.+++.|++.++.++++
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~--------~~~~~r~i~vlP~~t~ie~~~~ 264 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEK--------IKLKSRVIYVLPFRTIIEDMYR 264 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcc--------ccccceEEEEccHHHHHHHHHH
Confidence 3478899999887742 3 788999999999999999888877642 1156789999999999999863
No 118
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.59 E-value=0.00017 Score=52.48 Aligned_cols=59 Identities=25% Similarity=0.316 Sum_probs=41.2
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHH
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGREL 128 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 128 (134)
+..|.-|+.++..+++..-+++.||.|||||+..+...++.+... ..-+.+|+-|..+.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g----------~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEG----------EYDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTT----------S-SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhC----------CCcEEEEEecCCCC
Confidence 456889999999999777799999999999999998888888652 34567777777654
No 119
>KOG1803|consensus
Probab=97.55 E-value=0.00027 Score=58.38 Aligned_cols=60 Identities=22% Similarity=0.275 Sum_probs=47.0
Q ss_pred CChHHHHHHHHHHHcCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+.+-|..|+....+.++ .+++||+|+|||.....-+.+.+. .+-++|+.+||.+-+.-|
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk------------~~k~VLVcaPSn~AVdNi 245 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVK------------QKKRVLVCAPSNVAVDNI 245 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHH------------cCCeEEEEcCchHHHHHH
Confidence 567789999998888766 688999999999887555555553 457899999998766544
No 120
>KOG0949|consensus
Probab=97.42 E-value=0.00037 Score=60.49 Aligned_cols=65 Identities=25% Similarity=0.411 Sum_probs=52.7
Q ss_pred CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 58 GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+| .|...|.+.+..+=.+++++|+|||.+|||.+-- -.++.+++.. ..-.+|+++|+++|+.|+.
T Consensus 509 dF-~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisf-Y~iEKVLRes---------D~~VVIyvaPtKaLVnQvs 573 (1330)
T KOG0949|consen 509 DF-CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISF-YAIEKVLRES---------DSDVVIYVAPTKALVNQVS 573 (1330)
T ss_pred cc-CCcHHHHHHhhhhhcccceEEEeeccCCceeccH-HHHHHHHhhc---------CCCEEEEecchHHHhhhhh
Confidence 56 7899999999999999999999999999998743 3345555543 3446899999999999984
No 121
>KOG1802|consensus
Probab=97.41 E-value=0.00044 Score=57.97 Aligned_cols=70 Identities=19% Similarity=0.218 Sum_probs=55.7
Q ss_pred HHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 53 IFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+...|+.+++.-|..|..+++...=-+|++|+|+|||.+-.-.+.+.+.. .+..+|+.+|+.--+.|+
T Consensus 402 ~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~-----------~~~~VLvcApSNiAVDqL 470 (935)
T KOG1802|consen 402 RFSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ-----------HAGPVLVCAPSNIAVDQL 470 (935)
T ss_pred hhcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHh-----------cCCceEEEcccchhHHHH
Confidence 455568889999999999999999989999999999998875555554433 345689999998777766
Q ss_pred c
Q psy7268 133 G 133 (134)
Q Consensus 133 ~ 133 (134)
+
T Consensus 471 a 471 (935)
T KOG1802|consen 471 A 471 (935)
T ss_pred H
Confidence 4
No 122
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.38 E-value=0.00023 Score=58.22 Aligned_cols=61 Identities=26% Similarity=0.437 Sum_probs=44.6
Q ss_pred CCCCChHHHHHHHHHHHcC-----CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLLSG-----KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~g-----~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.| .|+.=|-+||..+..| +.-.+.|.||||||+.. .-++..+ +. -+||++|++.||.|+
T Consensus 10 ~f-~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~-AnVI~~~-------------~r-PtLV~AhNKTLAaQL 73 (663)
T COG0556 10 PF-KPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTM-ANVIAKV-------------QR-PTLVLAHNKTLAAQL 73 (663)
T ss_pred CC-CCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHH-HHHHHHh-------------CC-CeEEEecchhHHHHH
Confidence 46 7777888888776643 35678899999999765 2333333 22 389999999999998
Q ss_pred cC
Q psy7268 133 GQ 134 (134)
Q Consensus 133 ~~ 134 (134)
|+
T Consensus 74 y~ 75 (663)
T COG0556 74 YS 75 (663)
T ss_pred HH
Confidence 73
No 123
>KOG0951|consensus
Probab=97.29 E-value=5.7e-05 Score=66.64 Aligned_cols=61 Identities=21% Similarity=0.181 Sum_probs=50.4
Q ss_pred CCChHHHHHHHHHHHcCC-CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 60 TTPTEIQKYSIPTLLSGK-SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~-dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...+++|.++++.+.+.+ ++++++|+|||||.+..++++..- ...+++++.|..+.+.-.+
T Consensus 1142 ~~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~~~-------------~~~~~vyi~p~~~i~~~~~ 1203 (1674)
T KOG0951|consen 1142 QDFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLRPD-------------TIGRAVYIAPLEEIADEQY 1203 (1674)
T ss_pred cccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcCCc-------------cceEEEEecchHHHHHHHH
Confidence 344899999999988654 699999999999999999988721 5678999999998887554
No 124
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.26 E-value=0.0012 Score=57.55 Aligned_cols=46 Identities=17% Similarity=0.183 Sum_probs=35.1
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.++.+..+||+|||.+|+-.++...... ...+.||+||+.+.-..+
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~----------~~~~fii~vp~~aI~egv 105 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKY----------GLFKFIIVVPTPAIKEGT 105 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHc----------CCcEEEEEeCCHHHHHHH
Confidence 3789999999999999977776554331 346799999998876554
No 125
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.25 E-value=0.00085 Score=58.04 Aligned_cols=60 Identities=25% Similarity=0.187 Sum_probs=48.1
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
+|. .|+++|-..--.+..| -+....||.|||++..+|++.... .|.++.+++|+..||.|
T Consensus 79 lGm-~~ydVQliGg~~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al------------~G~~VhvvT~ndyLA~R 138 (913)
T PRK13103 79 MGM-RHFDVQLIGGMTLHEG--KIAEMRTGEGKTLVGTLAVYLNAL------------SGKGVHVVTVNDYLARR 138 (913)
T ss_pred hCC-CcchhHHHhhhHhccC--ccccccCCCCChHHHHHHHHHHHH------------cCCCEEEEeCCHHHHHH
Confidence 475 7888887665445444 457899999999999999887665 67789999999999987
No 126
>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=97.22 E-value=0.0024 Score=48.35 Aligned_cols=60 Identities=27% Similarity=0.323 Sum_probs=46.0
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.|+ .|.++|-.++-.+..|+ ++.-.||-|||++..+|.....+ .|..+-|++.+..||.+
T Consensus 74 ~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL------------~G~~V~vvT~NdyLA~R 133 (266)
T PF07517_consen 74 LGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNAL------------QGKGVHVVTSNDYLAKR 133 (266)
T ss_dssp TS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHT------------TSS-EEEEESSHHHHHH
T ss_pred cCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHH------------hcCCcEEEeccHHHhhc
Confidence 477 89999999997776776 88999999999998887766655 56678999999999874
No 127
>PRK10536 hypothetical protein; Provisional
Probab=97.15 E-value=0.0011 Score=49.95 Aligned_cols=46 Identities=22% Similarity=0.289 Sum_probs=38.4
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.++..-+..|...+..+.++.-+++.|+.|+|||+..+...++.+.
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~ 100 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALI 100 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 3666678899999998888888999999999999988777776664
No 128
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.10 E-value=0.0013 Score=56.25 Aligned_cols=63 Identities=25% Similarity=0.324 Sum_probs=51.2
Q ss_pred CChHHHHHHHHHHH----cCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLL----SGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~----~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+...|..||..+. .|++ ++++..||+|||-.. +.++.++.+.. .--++|+++-.++|+.|-+
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTA-iaii~rL~r~~---------~~KRVLFLaDR~~Lv~QA~ 232 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTA-IAIIDRLIKSG---------WVKRVLFLADRNALVDQAY 232 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeH-HHHHHHHHhcc---------hhheeeEEechHHHHHHHH
Confidence 56778999997654 4543 999999999999887 77888887644 5568999999999999965
No 129
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.03 E-value=0.0021 Score=55.48 Aligned_cols=61 Identities=26% Similarity=0.162 Sum_probs=47.8
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.|. .|+++|-...-.+. ..-++...||.|||+++.+|+.-..+ .|..+.|++++..||.+-
T Consensus 73 lG~-r~ydvQlig~l~L~--~G~IaEm~TGEGKTL~a~l~ayl~aL------------~G~~VhVvT~NdyLA~RD 133 (870)
T CHL00122 73 LGL-RHFDVQLIGGLVLN--DGKIAEMKTGEGKTLVATLPAYLNAL------------TGKGVHIVTVNDYLAKRD 133 (870)
T ss_pred hCC-CCCchHhhhhHhhc--CCccccccCCCCchHHHHHHHHHHHh------------cCCceEEEeCCHHHHHHH
Confidence 477 78899887764443 45678999999999999999864443 466799999999999864
No 130
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.00 E-value=0.0071 Score=53.26 Aligned_cols=63 Identities=16% Similarity=0.132 Sum_probs=47.7
Q ss_pred CCCCCChHHHHHHHHHHHcCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.|+ .+++-|..++..++.+++ +++.|..|+|||.. +-.+...+.. .+.+++.++||---|..+
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 466 789999999999998766 67889999999975 3344444332 467899999997766554
No 131
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.98 E-value=0.005 Score=47.75 Aligned_cols=48 Identities=23% Similarity=0.544 Sum_probs=33.8
Q ss_pred HHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 51 IDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 51 ~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
++.+.+.|+ +++.|...+.. +..++++++.|+|||||| .++-.++..+
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 445555555 45667777764 557889999999999999 5556666654
No 132
>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=96.95 E-value=0.00098 Score=46.02 Aligned_cols=47 Identities=23% Similarity=0.395 Sum_probs=33.5
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
|+--++--.+|+|||--.+.-++..-.. .+.++||+.|||.++..++
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~-----------~~~rvLvL~PTRvva~em~ 50 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIK-----------RRLRVLVLAPTRVVAEEMY 50 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHH-----------TT--EEEEESSHHHHHHHH
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHH-----------ccCeEEEecccHHHHHHHH
Confidence 4446778899999998886666665544 5778999999999998765
No 133
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=96.94 E-value=0.008 Score=46.15 Aligned_cols=50 Identities=28% Similarity=0.426 Sum_probs=32.6
Q ss_pred HHHHHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 50 IIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 50 i~~~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
-++.+.+.|. +++-|...+.. +..+++++++|+||||||... -.++..+.
T Consensus 107 tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~ 157 (299)
T TIGR02782 107 TLDDYVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIA 157 (299)
T ss_pred CHHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhh
Confidence 3445555554 45555555544 556779999999999999553 55565553
No 134
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.92 E-value=0.0066 Score=47.18 Aligned_cols=47 Identities=23% Similarity=0.296 Sum_probs=32.3
Q ss_pred HHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 53 IFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.+.+.|. +++.|...+.. +..+.+++++|+||||||.. +-.++..+.
T Consensus 122 ~lv~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTl-l~aL~~~i~ 169 (323)
T PRK13833 122 DYVTSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTL-ANAVIAEIV 169 (323)
T ss_pred HHHHcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHHh
Confidence 3445444 56667766655 44677999999999999955 355666553
No 135
>KOG1133|consensus
Probab=96.91 E-value=0.0021 Score=54.06 Aligned_cols=46 Identities=30% Similarity=0.472 Sum_probs=39.6
Q ss_pred CCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhh
Q psy7268 58 GLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTW 104 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~ 104 (134)
.| +|+.||.+.+..++ .|+=-|..+|||+|||++.+-..+.++...
T Consensus 13 Py-~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~ 62 (821)
T KOG1133|consen 13 PY-TPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDF 62 (821)
T ss_pred CC-CchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHh
Confidence 45 78999999987765 688788999999999999999999988754
No 136
>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=96.89 E-value=0.0086 Score=51.17 Aligned_cols=65 Identities=18% Similarity=0.136 Sum_probs=47.5
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.++ .+++-|+.++..+..++-+++.|+.|+|||... -.++..+.... ....+++++||-.-|..+
T Consensus 320 ~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l-~~i~~~~~~~~---------~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 320 LRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT-RAIIELAEELG---------GLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred cCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHHHHcC---------CCceEEEEeCchHHHHHH
Confidence 465 789999999999988888999999999999654 34444443210 115678889997766655
No 137
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=96.82 E-value=0.014 Score=50.18 Aligned_cols=74 Identities=14% Similarity=0.141 Sum_probs=50.6
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcC-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSG-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+++..++..-..++ .+++-|+.++..++.+ +-+++.|+.|+|||... -.++..+.. .+.+++.++|
T Consensus 338 ~~~~~~~~~l~~~~-~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll-~~i~~~~~~-----------~g~~V~~~Ap 404 (744)
T TIGR02768 338 VSPPIVDAAIDQHY-RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTML-KAAREAWEA-----------AGYRVIGAAL 404 (744)
T ss_pred CCHHHHHHHHhccC-CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHH-HHHHHHHHh-----------CCCeEEEEeC
Confidence 34444443333455 6899999999998875 45789999999998553 333333322 4667899999
Q ss_pred cHHHHHHh
Q psy7268 125 GRELVFQI 132 (134)
Q Consensus 125 t~~La~Qi 132 (134)
|---+..+
T Consensus 405 Tg~Aa~~L 412 (744)
T TIGR02768 405 SGKAAEGL 412 (744)
T ss_pred cHHHHHHH
Confidence 98766654
No 138
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.74 E-value=0.0032 Score=56.53 Aligned_cols=34 Identities=24% Similarity=0.310 Sum_probs=23.3
Q ss_pred HHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 65 IQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 65 iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.-.+.+..+..+..++++|+||||||. .+|.+..
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 333444555566678888999999998 4774443
No 139
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.60 E-value=0.0055 Score=47.27 Aligned_cols=51 Identities=24% Similarity=0.405 Sum_probs=34.6
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhc
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWK 105 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~ 105 (134)
..+.+|+++++++.+.+.+..- .-=++|.+||||||+... .+++.++.+..
T Consensus 103 ~~i~~~e~LglP~i~~~~~~~~------------------~GLILVTGpTGSGKSTTl-AamId~iN~~~ 153 (353)
T COG2805 103 SKIPTLEELGLPPIVRELAESP------------------RGLILVTGPTGSGKSTTL-AAMIDYINKHK 153 (353)
T ss_pred ccCCCHHHcCCCHHHHHHHhCC------------------CceEEEeCCCCCcHHHHH-HHHHHHHhccC
Confidence 4556777777777666522211 112788999999999765 78888887643
No 140
>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=0.0069 Score=51.25 Aligned_cols=61 Identities=28% Similarity=0.429 Sum_probs=45.6
Q ss_pred CCCCChHHHHHHHHHHHc----C-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLLS----G-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~----g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.| .|+.-|..+|..+.+ | ++.++.|.||||||+... .++..+ +...|||+|++.+|.|+
T Consensus 7 ~~-~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a-~~~~~~--------------~~p~Lvi~~n~~~A~ql 70 (655)
T TIGR00631 7 PF-QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMA-NVIAQV--------------NRPTLVIAHNKTLAAQL 70 (655)
T ss_pred CC-CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHH-HHHHHh--------------CCCEEEEECCHHHHHHH
Confidence 46 789999999988763 3 256789999999997753 233322 22489999999999998
Q ss_pred cC
Q psy7268 133 GQ 134 (134)
Q Consensus 133 ~~ 134 (134)
++
T Consensus 71 ~~ 72 (655)
T TIGR00631 71 YN 72 (655)
T ss_pred HH
Confidence 63
No 141
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.55 E-value=0.0059 Score=43.37 Aligned_cols=46 Identities=22% Similarity=0.349 Sum_probs=29.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
+++++++.|++|+|||... ..+...+.. .+..++++ ...+|...+.
T Consensus 46 ~~~~l~l~G~~G~GKThLa-~ai~~~~~~-----------~g~~v~f~-~~~~L~~~l~ 91 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLA-VAIANEAIR-----------KGYSVLFI-TASDLLDELK 91 (178)
T ss_dssp C--EEEEEESTTSSHHHHH-HHHHHHHHH-----------TT--EEEE-EHHHHHHHHH
T ss_pred cCeEEEEEhhHhHHHHHHH-HHHHHHhcc-----------CCcceeEe-ecCceecccc
Confidence 6788999999999999775 445555544 34445554 6667776654
No 142
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.43 E-value=0.0096 Score=50.49 Aligned_cols=62 Identities=15% Similarity=0.092 Sum_probs=44.4
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++-|++++.. ....++|.|..|||||.+...=+...+..... ...++++++-|+.-|..+
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v--------~p~~IL~lTFT~kAA~em 63 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGY--------QARHIAAVTFTNKAAREM 63 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC--------CHHHeeeEechHHHHHHH
Confidence 468899998854 34578899999999998875555555532111 234689999999888765
No 143
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.36 E-value=0.011 Score=44.33 Aligned_cols=63 Identities=19% Similarity=0.303 Sum_probs=41.9
Q ss_pred CCCCChHHHHHHHHHHH-------cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 58 GLTTPTEIQKYSIPTLL-------SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~-------~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.|......+..++..+. +++++++.|++|+|||... .++...+.. .|..++ .+++.+|+.
T Consensus 80 d~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa-~Ai~~~l~~-----------~g~sv~-f~~~~el~~ 146 (254)
T COG1484 80 DFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLA-IAIGNELLK-----------AGISVL-FITAPDLLS 146 (254)
T ss_pred cccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHH-HHHHHHHHH-----------cCCeEE-EEEHHHHHH
Confidence 44455555666554433 6789999999999999766 455555553 344444 457888887
Q ss_pred Hhc
Q psy7268 131 QIG 133 (134)
Q Consensus 131 Qi~ 133 (134)
++.
T Consensus 147 ~Lk 149 (254)
T COG1484 147 KLK 149 (254)
T ss_pred HHH
Confidence 764
No 144
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=96.34 E-value=0.018 Score=45.63 Aligned_cols=27 Identities=26% Similarity=0.311 Sum_probs=20.3
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+..++++||||||||... -.++..+..
T Consensus 149 ~GlilI~G~TGSGKTT~l-~al~~~i~~ 175 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLA-ASIYQHCGE 175 (372)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 446899999999999654 566676653
No 145
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.33 E-value=0.013 Score=50.92 Aligned_cols=60 Identities=25% Similarity=0.208 Sum_probs=47.4
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
+|. .|+++|-..--.+..| -+....||-|||+++.+|+.-..+ .|..+.||+++..||.+
T Consensus 82 lG~-r~ydVQliGgl~Lh~G--~IAEM~TGEGKTL~atlpaylnAL------------~GkgVhVVTvNdYLA~R 141 (939)
T PRK12902 82 LGM-RHFDVQLIGGMVLHEG--QIAEMKTGEGKTLVATLPSYLNAL------------TGKGVHVVTVNDYLARR 141 (939)
T ss_pred hCC-CcchhHHHhhhhhcCC--ceeeecCCCChhHHHHHHHHHHhh------------cCCCeEEEeCCHHHHHh
Confidence 477 8888887766555444 467999999999999998877654 56679999999999975
No 146
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.31 E-value=0.028 Score=47.89 Aligned_cols=63 Identities=17% Similarity=0.212 Sum_probs=44.3
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
..+++-|++++-. ...+++|.|..|||||.+.+--+...+..... ...++++++.|+..|..+
T Consensus 195 ~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~--------~~~~IL~ltft~~AA~em 257 (684)
T PRK11054 195 SPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQA--------QPEQILLLAFGRQAAEEM 257 (684)
T ss_pred CCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCC--------CHHHeEEEeccHHHHHHH
Confidence 4789999998742 33468899999999998875444433332111 345799999999988765
No 147
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.22 E-value=0.049 Score=45.89 Aligned_cols=62 Identities=16% Similarity=0.244 Sum_probs=43.6
Q ss_pred hHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 63 TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 63 t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+.|+.|+-..+.++-.++.|++|+|||... .-++..+.+... ....++++.+||..-|..+
T Consensus 154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v-~~ll~~l~~~~~-------~~~~~i~l~APTgkAA~rL 215 (615)
T PRK10875 154 VDWQKVAAAVALTRRISVISGGPGTGKTTTV-AKLLAALIQLAD-------GERCRIRLAAPTGKAAARL 215 (615)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHH-HHHHHHHHHhcC-------CCCcEEEEECCcHHHHHHH
Confidence 5799999999999889999999999999764 222322322110 0235688889998766654
No 148
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=96.18 E-value=0.018 Score=48.57 Aligned_cols=61 Identities=15% Similarity=0.096 Sum_probs=43.4
Q ss_pred ChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 62 PTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 62 ~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
+++-|++++.. ...+++|.|..|||||.+.+-=+...+..... ...++++|+.|+.-|..+
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~--------~p~~IL~vTFt~~Aa~em 62 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGY--------KARNIAAVTFTNKAAREM 62 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC--------CHHHeEEEeccHHHHHHH
Confidence 67889888754 35689999999999998876555555532111 234588888888887765
No 149
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=96.17 E-value=0.023 Score=44.71 Aligned_cols=59 Identities=19% Similarity=0.292 Sum_probs=41.4
Q ss_pred ChHHHHHHHHHH------HcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 62 PTEIQKYSIPTL------LSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 62 ~t~iQ~~~i~~~------~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
+++-|+.++..+ ..+..+++.|+-|+|||..+ -.+.+.+ +. .+..+++++||-.=|..|
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~-~~i~~~~-~~----------~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI-KAIIDYL-RS----------RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH-HHHHHHh-cc----------ccceEEEecchHHHHHhc
Confidence 567799998877 57888999999999998554 2333333 21 345688888887665544
No 150
>PRK05973 replicative DNA helicase; Provisional
Probab=96.16 E-value=0.015 Score=43.36 Aligned_cols=59 Identities=24% Similarity=0.265 Sum_probs=37.1
Q ss_pred ccCCCCHHHHHHHHHCCCCCChHHHHHHH---------HHHHcCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 42 EDTGLAPEIIDIFTKRGLTTPTEIQKYSI---------PTLLSGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 42 ~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i---------~~~~~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
..++|++.+-+.-.+-||...+-+...+- .-+..|.-++|.|++|+|||...+--+.+.
T Consensus 21 ~~~~~~~~~~~~a~~~g~~~w~~~~~~~~~~~p~~~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~ 88 (237)
T PRK05973 21 QNIPLHEALDRIAAEEGFSSWSLLAAKAAATTPAEELFSQLKPGDLVLLGARPGHGKTLLGLELAVEA 88 (237)
T ss_pred cCCcHHHHHHHHHHHhccchHHHHHHhccCCCCHHHhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 34567777776666678865444443332 223356678999999999997654444433
No 151
>KOG0950|consensus
Probab=96.16 E-value=0.012 Score=51.15 Aligned_cols=58 Identities=26% Similarity=0.317 Sum_probs=47.0
Q ss_pred CCHHHH-HHHHHCCCCCChHHHHHHH--HHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 46 LAPEII-DIFTKRGLTTPTEIQKYSI--PTLLSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 46 l~~~i~-~~l~~~g~~~~t~iQ~~~i--~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+++... -..+..|..+++..|.+++ |.++.+++.+...||+.|||++.-+-++..+..
T Consensus 207 ~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~ 267 (1008)
T KOG0950|consen 207 LPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLC 267 (1008)
T ss_pred CchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHH
Confidence 344444 3444469999999999998 678899999999999999999998888877765
No 152
>COG4889 Predicted helicase [General function prediction only]
Probab=96.14 E-value=0.0064 Score=52.91 Aligned_cols=78 Identities=19% Similarity=0.245 Sum_probs=52.9
Q ss_pred CcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCC-----CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCC
Q psy7268 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGK-----SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPEL 114 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~-----dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~ 114 (134)
.|+.+.. .++..++.-..-++|.|+|+.++....+|- .=+| ...|+|||+.. +-+.+.+.
T Consensus 141 DW~~f~p-~e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLI-MAcGTGKTfTs-LkisEala------------ 205 (1518)
T COG4889 141 DWDIFDP-TELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLI-MACGTGKTFTS-LKISEALA------------ 205 (1518)
T ss_pred ChhhcCc-cccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEE-EecCCCccchH-HHHHHHHh------------
Confidence 4544432 355555555556799999999999987542 2222 33489999887 44455552
Q ss_pred CCcEEEEEcCcHHHHHHhc
Q psy7268 115 NAPLALIITPGRELVFQIG 133 (134)
Q Consensus 115 ~~~~~lil~Pt~~La~Qi~ 133 (134)
..++|+++|+..|..|..
T Consensus 206 -~~~iL~LvPSIsLLsQTl 223 (1518)
T COG4889 206 -AARILFLVPSISLLSQTL 223 (1518)
T ss_pred -hhheEeecchHHHHHHHH
Confidence 367999999999998853
No 153
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.14 E-value=0.019 Score=46.94 Aligned_cols=46 Identities=24% Similarity=0.369 Sum_probs=33.7
Q ss_pred HHHCCCCCChHHHHHHHHHHHcCCC--eEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 54 FTKRGLTTPTEIQKYSIPTLLSGKS--AILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 54 l~~~g~~~~t~iQ~~~i~~~~~g~d--vli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+.++|+ ++.|...+..+++... +++.||||||||... ..++..+..
T Consensus 237 l~~Lg~---~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTL-Y~~L~~ln~ 284 (500)
T COG2804 237 LEKLGM---SPFQLARLLRLLNRPQGLILVTGPTGSGKTTTL-YAALSELNT 284 (500)
T ss_pred HHHhCC---CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH-HHHHHHhcC
Confidence 455555 6778888877776554 778899999999764 677777754
No 154
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=96.11 E-value=0.012 Score=46.18 Aligned_cols=29 Identities=28% Similarity=0.409 Sum_probs=21.9
Q ss_pred HHHcCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 72 TLLSGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.+..+.+++++|+||||||.. +-.++..+
T Consensus 158 ~v~~~~nilI~G~tGSGKTTl-l~aLl~~i 186 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTM-SKTLISAI 186 (344)
T ss_pred HHHcCCeEEEECCCCccHHHH-HHHHHccc
Confidence 455788999999999999954 34555544
No 155
>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=96.07 E-value=0.031 Score=42.14 Aligned_cols=46 Identities=22% Similarity=0.239 Sum_probs=30.6
Q ss_pred HHHHCCCCCChHHHHHHHHHHHc--CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 53 IFTKRGLTTPTEIQKYSIPTLLS--GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~~~~--g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.+.++|+ .+-|.+.+..++. +.-+++.++||||||... -.++..+.
T Consensus 58 ~l~~lg~---~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~ 105 (264)
T cd01129 58 DLEKLGL---KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELN 105 (264)
T ss_pred CHHHcCC---CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhC
Confidence 4566665 5556666665553 335899999999999654 45555553
No 156
>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=96.07 E-value=0.021 Score=42.59 Aligned_cols=48 Identities=27% Similarity=0.408 Sum_probs=24.9
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.+..+++-..|.|||+..+. ++..+..... ......+|||+|. .+..|
T Consensus 25 ~~g~lL~de~GlGKT~~~i~-~~~~l~~~~~------~~~~~~~LIv~P~-~l~~~ 72 (299)
T PF00176_consen 25 PRGGLLADEMGLGKTITAIA-LISYLKNEFP------QRGEKKTLIVVPS-SLLSQ 72 (299)
T ss_dssp T-EEEE---TTSSHHHHHHH-HHHHHHHCCT------TSS-S-EEEEE-T-TTHHH
T ss_pred CCCEEEEECCCCCchhhhhh-hhhhhhhccc------cccccceeEeecc-chhhh
Confidence 45689999999999987744 4444433221 0011249999999 44433
No 157
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=96.06 E-value=0.025 Score=44.31 Aligned_cols=35 Identities=17% Similarity=0.115 Sum_probs=30.2
Q ss_pred CCCCChHHHHHHHHHHHcCC-CeEEEcCCCCchhHH
Q psy7268 58 GLTTPTEIQKYSIPTLLSGK-SAILVAETGCGKTLS 92 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~g~-dvli~a~tGsGKT~~ 92 (134)
.|..+++-|...+-.+..++ ++++++.||||||..
T Consensus 154 ~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl 189 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL 189 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH
Confidence 47889999999988877666 999999999999954
No 158
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=96.01 E-value=0.028 Score=47.06 Aligned_cols=61 Identities=16% Similarity=0.232 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 64 EIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 64 ~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
+.|+.++..++.++-.++.|++|||||... ..++..+.+... .....++++.+||---|..
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v-~~ll~~l~~~~~------~~~~~~I~l~APTGkAA~r 208 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTV-ARLLLALVKQSP------KQGKLRIALAAPTGKAAAR 208 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHH-HHHHHHHHHhcc------ccCCCcEEEECCcHHHHHH
Confidence 689999999999999999999999999764 233333322111 0013578899999655544
No 159
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=95.96 E-value=0.018 Score=40.91 Aligned_cols=39 Identities=23% Similarity=0.252 Sum_probs=27.7
Q ss_pred HHHHCCCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHh
Q psy7268 53 IFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~ 93 (134)
.|.+.| ..++-|...+.. +..|..+++.++||+|||...
T Consensus 3 ~l~~~g--~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 3 DLIAQG--TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHHcC--CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 344444 355666666655 447889999999999999654
No 160
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=95.96 E-value=0.038 Score=43.08 Aligned_cols=30 Identities=27% Similarity=0.334 Sum_probs=22.4
Q ss_pred HHHcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 72 TLLSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
++..+.+++++|+||||||.. +-.++..+-
T Consensus 156 ~v~~~~nili~G~tgSGKTTl-l~aL~~~ip 185 (332)
T PRK13900 156 AVISKKNIIISGGTSTGKTTF-TNAALREIP 185 (332)
T ss_pred HHHcCCcEEEECCCCCCHHHH-HHHHHhhCC
Confidence 345788999999999999954 355555553
No 161
>KOG1132|consensus
Probab=95.89 E-value=0.012 Score=50.84 Aligned_cols=46 Identities=24% Similarity=0.306 Sum_probs=36.8
Q ss_pred CCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhh
Q psy7268 58 GLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTW 104 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~ 104 (134)
.| .|++.|...+..++ .+.+.++.+|||+|||++.+-..|......
T Consensus 19 P~-qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~ 68 (945)
T KOG1132|consen 19 PF-QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHL 68 (945)
T ss_pred cC-CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHh
Confidence 45 77999998887665 456789999999999999987777766543
No 162
>PRK10436 hypothetical protein; Provisional
Probab=95.87 E-value=0.032 Score=45.43 Aligned_cols=46 Identities=22% Similarity=0.263 Sum_probs=30.3
Q ss_pred HHHHCCCCCChHHHHHHHHHHHc--CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 53 IFTKRGLTTPTEIQKYSIPTLLS--GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~~~~--g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.|.++|+ .+-|...+..++. +.-+++.||||||||... ..++..+.
T Consensus 196 ~L~~LG~---~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 196 DLETLGM---TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred CHHHcCc---CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 3455565 4556666655543 345889999999999765 45666654
No 163
>PRK13764 ATPase; Provisional
Probab=95.87 E-value=0.026 Score=47.33 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=21.0
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.+++++++|+||||||.. +-.++..+.
T Consensus 256 ~~~~ILIsG~TGSGKTTl-l~AL~~~i~ 282 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTF-AQALAEFYA 282 (602)
T ss_pred cCCEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 467899999999999964 466666664
No 164
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=95.86 E-value=0.031 Score=43.95 Aligned_cols=61 Identities=23% Similarity=0.257 Sum_probs=46.2
Q ss_pred CCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 60 TTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
..+|+.|+.+-..++ +.+|.++.|-||+|||.-. ...++...+ +|.++.|.+|-.+.+..+
T Consensus 96 G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMi-f~~i~~al~-----------~G~~vciASPRvDVclEl 160 (441)
T COG4098 96 GTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMI-FQGIEQALN-----------QGGRVCIASPRVDVCLEL 160 (441)
T ss_pred cccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhh-HHHHHHHHh-----------cCCeEEEecCcccchHHH
Confidence 478999988876544 6789999999999999764 555666655 677888888876655444
No 165
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.85 E-value=0.026 Score=47.79 Aligned_cols=60 Identities=25% Similarity=0.404 Sum_probs=45.4
Q ss_pred CCCCChHHHHHHHHHHHc----C-CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLLS----G-KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~----g-~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
+| .|++.|..++..+.+ | +..++.+.+|+||++... .++... +..+|||+|+.+.|.|+
T Consensus 10 ~~-~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia-~l~~~~--------------~r~vLIVt~~~~~A~~l 73 (652)
T PRK05298 10 PY-KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA-NVIARL--------------QRPTLVLAHNKTLAAQL 73 (652)
T ss_pred CC-CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH-HHHHHh--------------CCCEEEEECCHHHHHHH
Confidence 56 899999999988763 3 256789999999997743 222221 23599999999999998
Q ss_pred c
Q psy7268 133 G 133 (134)
Q Consensus 133 ~ 133 (134)
+
T Consensus 74 ~ 74 (652)
T PRK05298 74 Y 74 (652)
T ss_pred H
Confidence 6
No 166
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.79 E-value=0.086 Score=44.30 Aligned_cols=85 Identities=24% Similarity=0.318 Sum_probs=54.3
Q ss_pred cCCCCHHHH-HHHHHCCCCCChH----HHHHHHHHHHc--CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 43 DTGLAPEII-DIFTKRGLTTPTE----IQKYSIPTLLS--GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 43 ~~~l~~~i~-~~l~~~g~~~~t~----iQ~~~i~~~~~--g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
+.++.++++ .+|.+.--.++.. +|.+==..+.. ++-++|+|..|||||.+.+-=+...++.... ...
T Consensus 186 d~~~~dEvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~------~l~ 259 (747)
T COG3973 186 DTGGRDEVLQRVLEKNSSAKMRDIVETIQKEQNEIIRFEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRG------PLQ 259 (747)
T ss_pred CCchHHHHHHHHHHhccchhHHHHHHHhhHhHHHHHhccCCCeEEEecCCCCCchhHHHHHHHHHHhcccc------ccc
Confidence 455665555 6677653334433 45554445553 4458899999999999987666555554321 112
Q ss_pred CcEEEEEcCcHHHHHHhc
Q psy7268 116 APLALIITPGRELVFQIG 133 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi~ 133 (134)
+..++|+.|++-+..-|.
T Consensus 260 ~k~vlvl~PN~vFleYis 277 (747)
T COG3973 260 AKPVLVLGPNRVFLEYIS 277 (747)
T ss_pred cCceEEEcCcHHHHHHHH
Confidence 334999999998876653
No 167
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=95.79 E-value=0.027 Score=48.04 Aligned_cols=63 Identities=11% Similarity=0.137 Sum_probs=44.3
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
..+++-|++++.. ....++|.|..|||||.+..-=+...+..... ...++|+++-|+.-|..+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v--------~p~~IL~lTFTnkAA~em 65 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENA--------SPHSIMAVTFTNKAAAEM 65 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC--------CHHHeEeeeccHHHHHHH
Confidence 3578999998854 34579999999999998865444444422111 234689999999888765
No 168
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.77 E-value=0.049 Score=48.00 Aligned_cols=60 Identities=30% Similarity=0.284 Sum_probs=43.8
Q ss_pred CChHHHHHHHHHHHcC--CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 61 TPTEIQKYSIPTLLSG--KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g--~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.|.|+|..+.-.++.. ..+++.-..|.|||.-..+.+-..+... ...++|||||. .|..|
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g----------~~~rvLIVvP~-sL~~Q 213 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTG----------RAERVLILVPE-TLQHQ 213 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcC----------CCCcEEEEcCH-HHHHH
Confidence 5899999988776543 3689999999999988855554444321 23479999997 67665
No 169
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=95.76 E-value=0.035 Score=46.26 Aligned_cols=46 Identities=22% Similarity=0.218 Sum_probs=31.7
Q ss_pred HHHHCCCCCChHHHHHHHHHHHc--CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 53 IFTKRGLTTPTEIQKYSIPTLLS--GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~~~~--g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.|.++|| .+-|...+..++. ..-++++||||||||... ..++..+.
T Consensus 294 ~l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 294 DIDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred CHHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 4566676 5566666666554 334789999999999774 55666664
No 170
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=95.68 E-value=0.044 Score=43.18 Aligned_cols=27 Identities=19% Similarity=0.413 Sum_probs=20.5
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.+.-++++||||||||... -.++..+.
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i~ 159 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIRELA 159 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 5667999999999999664 55666554
No 171
>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=95.63 E-value=0.04 Score=49.84 Aligned_cols=60 Identities=22% Similarity=0.260 Sum_probs=45.6
Q ss_pred ChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 62 PTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 62 ~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.|+-|.++|. ..|++++|.|.-|||||.+.+-=++..+.... .--+.++|+=|+.-|..+
T Consensus 2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~---------~~~~il~~tFt~~aa~e~ 61 (1232)
T TIGR02785 2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGV---------DIDRLLVVTFTNAAAREM 61 (1232)
T ss_pred CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCC---------CHhhEEEEeccHHHHHHH
Confidence 5889999996 46889999999999999888666666664320 223589999888877543
No 172
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=95.61 E-value=0.14 Score=45.93 Aligned_cols=75 Identities=15% Similarity=0.107 Sum_probs=52.6
Q ss_pred CCCHHHHHHHHHCCCCCChHHHHHHHHHHHc-CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 45 GLAPEIIDIFTKRGLTTPTEIQKYSIPTLLS-GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 45 ~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~-g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
++++..+++....++ .+++-|..++..+.. ++-+++.|+.|+|||... -.+...+.. .+.+++.++
T Consensus 366 ~v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l-~~~~~~~e~-----------~G~~V~g~A 432 (1102)
T PRK13826 366 GVREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMM-KAAREAWEA-----------AGYRVVGGA 432 (1102)
T ss_pred CCCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHH-HHHHHHHHH-----------cCCeEEEEc
Confidence 355666665555455 789999999998864 345788999999999654 334444332 467788899
Q ss_pred CcHHHHHHh
Q psy7268 124 PGRELVFQI 132 (134)
Q Consensus 124 Pt~~La~Qi 132 (134)
||---|..+
T Consensus 433 pTgkAA~~L 441 (1102)
T PRK13826 433 LAGKAAEGL 441 (1102)
T ss_pred CcHHHHHHH
Confidence 997666554
No 173
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=95.59 E-value=0.095 Score=38.85 Aligned_cols=80 Identities=19% Similarity=0.262 Sum_probs=57.8
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHc---CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCC
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLS---GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~---g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~ 115 (134)
..|+...-++.++-.+.. ++ -..+.|.+....+.+ |.+.+.+.-.|.|||.+. +|++..+..+.
T Consensus 3 ~~w~p~~~P~wLl~E~e~-~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg---------- 69 (229)
T PF12340_consen 3 RNWDPMEYPDWLLFEIES-NI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVI-VPMLALALADG---------- 69 (229)
T ss_pred CCCCchhChHHHHHHHHc-Cc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchH-HHHHHHHHcCC----------
Confidence 356666667777766665 56 779999999988874 678999999999999665 78888877532
Q ss_pred CcEEEEEcCcHHHHHHh
Q psy7268 116 APLALIITPGRELVFQI 132 (134)
Q Consensus 116 ~~~~lil~Pt~~La~Qi 132 (134)
..-+.+++|. +|..|.
T Consensus 70 ~~LvrviVpk-~Ll~q~ 85 (229)
T PF12340_consen 70 SRLVRVIVPK-ALLEQM 85 (229)
T ss_pred CcEEEEEcCH-HHHHHH
Confidence 2345556664 466654
No 174
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=95.53 E-value=0.041 Score=45.08 Aligned_cols=46 Identities=15% Similarity=0.237 Sum_probs=30.5
Q ss_pred HHHHCCCCCChHHHHHHHHHHHcC-CC-eEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 53 IFTKRGLTTPTEIQKYSIPTLLSG-KS-AILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 53 ~l~~~g~~~~t~iQ~~~i~~~~~g-~d-vli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.|.++|| .+-|.+.+..+... +. +++.||||||||... ..++..+.
T Consensus 220 ~l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 220 DLETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred CHHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 4556666 55566666665543 33 789999999999764 44555553
No 175
>PRK08181 transposase; Validated
Probab=95.52 E-value=0.057 Score=40.94 Aligned_cols=46 Identities=22% Similarity=0.281 Sum_probs=29.4
Q ss_pred HcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 74 LSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
-.++++++.||+|+|||... ..+...+.. .+..++++ +..+|..++
T Consensus 104 ~~~~nlll~Gp~GtGKTHLa-~Aia~~a~~-----------~g~~v~f~-~~~~L~~~l 149 (269)
T PRK08181 104 AKGANLLLFGPPGGGKSHLA-AAIGLALIE-----------NGWRVLFT-RTTDLVQKL 149 (269)
T ss_pred hcCceEEEEecCCCcHHHHH-HHHHHHHHH-----------cCCceeee-eHHHHHHHH
Confidence 36789999999999999554 344444433 34445444 456666654
No 176
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=95.47 E-value=0.051 Score=46.44 Aligned_cols=62 Identities=11% Similarity=0.147 Sum_probs=43.9
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++-|++++.. ....++|.|..|||||.+..-=+...+..... ...++++|+-|+.-|..+
T Consensus 9 ~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v--------~p~~IL~lTFT~kAA~Em 70 (721)
T PRK11773 9 SLNDKQREAVAA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENA--------SPYSIMAVTFTNKAAAEM 70 (721)
T ss_pred hcCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC--------ChhHeEeeeccHHHHHHH
Confidence 579999998853 34578999999999998865444444422111 234689999999888765
No 177
>PF12846 AAA_10: AAA-like domain
Probab=95.45 E-value=0.036 Score=41.29 Aligned_cols=40 Identities=25% Similarity=0.528 Sum_probs=27.0
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRE 127 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 127 (134)
+.++++.|+||+|||.... .++..... .+..++++=|..+
T Consensus 1 n~h~~i~G~tGsGKT~~~~-~l~~~~~~-----------~g~~~~i~D~~g~ 40 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK-NLLEQLIR-----------RGPRVVIFDPKGD 40 (304)
T ss_pred CCeEEEECCCCCcHHHHHH-HHHHHHHH-----------cCCCEEEEcCCch
Confidence 3578999999999997765 55555544 3455666555443
No 178
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.31 E-value=0.12 Score=40.26 Aligned_cols=45 Identities=18% Similarity=0.303 Sum_probs=29.7
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+.++++.|++|+|||... ..+...+.. .+..++++ +..+|..++
T Consensus 182 ~~~~Lll~G~~GtGKThLa-~aIa~~l~~-----------~g~~V~y~-t~~~l~~~l 226 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLS-NCIAKELLD-----------RGKSVIYR-TADELIEIL 226 (329)
T ss_pred cCCcEEEECCCCCcHHHHH-HHHHHHHHH-----------CCCeEEEE-EHHHHHHHH
Confidence 4578999999999999643 455555553 34556655 445565543
No 179
>PRK06526 transposase; Provisional
Probab=95.28 E-value=0.04 Score=41.36 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=17.7
Q ss_pred HcCCCeEEEcCCCCchhHHhH
Q psy7268 74 LSGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~ 94 (134)
..+.++++.||+|+|||....
T Consensus 96 ~~~~nlll~Gp~GtGKThLa~ 116 (254)
T PRK06526 96 TGKENVVFLGPPGTGKTHLAI 116 (254)
T ss_pred hcCceEEEEeCCCCchHHHHH
Confidence 367899999999999997653
No 180
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.28 E-value=0.019 Score=48.67 Aligned_cols=41 Identities=17% Similarity=0.118 Sum_probs=31.9
Q ss_pred EEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 81 LVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 81 i~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
..+.+|||||..|+-.+-..+. .|.++|+++|...|+.|+.
T Consensus 165 ~~~~~GSGKTevyl~~i~~~l~------------~Gk~vLvLvPEi~lt~q~~ 205 (665)
T PRK14873 165 WQALPGEDWARRLAAAAAATLR------------AGRGALVVVPDQRDVDRLE 205 (665)
T ss_pred hhcCCCCcHHHHHHHHHHHHHH------------cCCeEEEEecchhhHHHHH
Confidence 3444699999999666555553 4668999999999999975
No 181
>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=95.23 E-value=0.025 Score=44.87 Aligned_cols=48 Identities=25% Similarity=0.362 Sum_probs=31.7
Q ss_pred HHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 73 LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
-...+++++.|.||+|||. ++-.++..+.. .+-++||.=|.-+.....
T Consensus 12 ~~e~~~~li~G~~GsGKT~-~i~~ll~~~~~-----------~g~~~iI~D~kg~~~~~f 59 (386)
T PF10412_consen 12 DSENRHILIIGATGSGKTQ-AIRHLLDQIRA-----------RGDRAIIYDPKGEFTERF 59 (386)
T ss_dssp GGGGG-EEEEE-TTSSHHH-HHHHHHHHHHH-----------TT-EEEEEEETTHHHHHH
T ss_pred chhhCcEEEECCCCCCHHH-HHHHHHHHHHH-----------cCCEEEEEECCchHHHHh
Confidence 3456789999999999996 44677777765 345677666666655443
No 182
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=95.20 E-value=0.095 Score=45.70 Aligned_cols=59 Identities=25% Similarity=0.263 Sum_probs=46.5
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
+|. +|+++|-..--.+..|+ +....||-|||++..+|+.-..+ .|..+-|++.+-.||.
T Consensus 75 lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL------------~GkgVhVVTvNdYLA~ 133 (925)
T PRK12903 75 LGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNAL------------TGKGVIVSTVNEYLAE 133 (925)
T ss_pred hCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHh------------cCCceEEEecchhhhh
Confidence 477 88999988886666664 68999999999999998865443 4566788888888875
No 183
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.17 E-value=0.075 Score=41.10 Aligned_cols=58 Identities=28% Similarity=0.287 Sum_probs=36.0
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHH-HHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKY-SIPTLLSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~-~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..|..-++.+.- +.+. ..+++.|.. .|-.+-.+++++++++||||||. ++.+++..+-
T Consensus 110 Rk~~~~~~t~~~---l~~~--gt~~~~~~ayL~~~ie~~~siii~G~t~sGKTt-~lnall~~Ip 168 (312)
T COG0630 110 RKFSDEPITPED---LIEY--GTISPEQAAYLWLAIEARKSIIICGGTASGKTT-LLNALLDFIP 168 (312)
T ss_pred EcCCCCCCCHHH---Hhhc--CCCCHHHHHHHHHHHHcCCcEEEECCCCCCHHH-HHHHHHHhCC
Confidence 344444444433 3333 345555544 44556689999999999999994 4466665553
No 184
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=95.15 E-value=0.026 Score=42.32 Aligned_cols=26 Identities=31% Similarity=0.277 Sum_probs=21.2
Q ss_pred HHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 68 YSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 68 ~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
+++..+..|+++++.|++|+|||...
T Consensus 13 ~~l~~l~~g~~vLL~G~~GtGKT~lA 38 (262)
T TIGR02640 13 RALRYLKSGYPVHLRGPAGTGKTTLA 38 (262)
T ss_pred HHHHHHhcCCeEEEEcCCCCCHHHHH
Confidence 34445668999999999999999875
No 185
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=95.15 E-value=0.064 Score=42.57 Aligned_cols=66 Identities=26% Similarity=0.311 Sum_probs=49.5
Q ss_pred CCCCChHHHHHHHHHHHcCC-C-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLLSGK-S-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~g~-d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
|+..-+.-|..|+..++.-. + |.+.++-|||||+-.+.+-++.....+ ...+.|+--|+..+.++|
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~---------~y~KiiVtRp~vpvG~dI 292 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERK---------RYRKIIVTRPTVPVGEDI 292 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHh---------hhceEEEecCCcCccccc
Confidence 77666778888887777543 3 778899999999999999898887654 345677777877665544
No 186
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=95.14 E-value=0.034 Score=43.45 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=31.5
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
++|.|..|||||+.. +-++..+... ..+.++++++.+..|...++
T Consensus 4 ~~I~G~aGTGKTvla-~~l~~~l~~~---------~~~~~~~~l~~n~~l~~~l~ 48 (352)
T PF09848_consen 4 ILITGGAGTGKTVLA-LNLAKELQNS---------EEGKKVLYLCGNHPLRNKLR 48 (352)
T ss_pred EEEEecCCcCHHHHH-HHHHHHhhcc---------ccCCceEEEEecchHHHHHH
Confidence 688999999999876 3334444111 14667899999998887553
No 187
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=95.04 E-value=0.019 Score=37.12 Aligned_cols=18 Identities=33% Similarity=0.527 Sum_probs=15.4
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
+..+++.||+|+|||...
T Consensus 2 ~~~~~l~G~~G~GKTtl~ 19 (148)
T smart00382 2 GEVILIVGPPGSGKTTLA 19 (148)
T ss_pred CCEEEEECCCCCcHHHHH
Confidence 567899999999999665
No 188
>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=94.98 E-value=0.031 Score=41.84 Aligned_cols=30 Identities=23% Similarity=0.376 Sum_probs=22.5
Q ss_pred HHcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 73 LLSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+..+.+++++|+||||||... -.++..+..
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 345789999999999999654 555665543
No 189
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.98 E-value=0.2 Score=38.13 Aligned_cols=19 Identities=42% Similarity=0.574 Sum_probs=15.3
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
++.++++||||+|||....
T Consensus 194 ~~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLA 212 (282)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 3458899999999997753
No 190
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=94.97 E-value=0.1 Score=40.85 Aligned_cols=42 Identities=17% Similarity=0.174 Sum_probs=28.7
Q ss_pred HHHHHHHCCCCCChHHHHHHHHHH-HcCCCeEEEcCCCCchhHHh
Q psy7268 50 IIDIFTKRGLTTPTEIQKYSIPTL-LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 50 i~~~l~~~g~~~~t~iQ~~~i~~~-~~g~dvli~a~tGsGKT~~~ 93 (134)
-++.+.+.|+ +++.+...+..+ ..+.+++++++||+|||...
T Consensus 153 tl~~l~~~g~--~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 153 TLDELVASGT--FPPGVARLLRAIVAARLAFLISGGTGSGKTTLL 195 (340)
T ss_pred CHHHHHHcCC--CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH
Confidence 3455566565 445566666554 46779999999999998543
No 191
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=94.93 E-value=0.037 Score=44.21 Aligned_cols=33 Identities=24% Similarity=0.419 Sum_probs=23.3
Q ss_pred HHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 70 IPTLLSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 70 i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+|.-...+++++.|+||+|||.. +..++..+..
T Consensus 36 ~~~~~~~~h~~i~g~tGsGKt~~-i~~l~~~~~~ 68 (410)
T cd01127 36 FPKDAEEAHTMIIGTTGTGKTTQ-IRELLASIRA 68 (410)
T ss_pred CCcchhhccEEEEcCCCCCHHHH-HHHHHHHHHh
Confidence 44444567999999999999975 4455555543
No 192
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=94.78 E-value=0.073 Score=38.69 Aligned_cols=38 Identities=21% Similarity=0.269 Sum_probs=25.2
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
.|..+++.|++|+|||.-.+--+...+.+ .+-++++++
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~-----------~ge~vlyvs 55 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKN-----------FGEKVLYVS 55 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHH-----------HT--EEEEE
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhh-----------cCCcEEEEE
Confidence 45679999999999997664444444432 145678877
No 193
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=94.75 E-value=0.02 Score=46.13 Aligned_cols=23 Identities=35% Similarity=0.622 Sum_probs=20.6
Q ss_pred CCeEEEcCCCCchhHHhHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.++++.||||||||..+++|.+.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll 67 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL 67 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH
Confidence 46999999999999999999774
No 194
>PRK06921 hypothetical protein; Provisional
Probab=94.74 E-value=0.31 Score=36.82 Aligned_cols=45 Identities=18% Similarity=0.141 Sum_probs=28.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.+..+++.|++|+|||... ..+...+... .+..++++. ..++..+
T Consensus 116 ~~~~l~l~G~~G~GKThLa-~aia~~l~~~----------~g~~v~y~~-~~~l~~~ 160 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL-TAAANELMRK----------KGVPVLYFP-FVEGFGD 160 (266)
T ss_pred CCCeEEEECCCCCcHHHHH-HHHHHHHhhh----------cCceEEEEE-HHHHHHH
Confidence 3567999999999999544 4555555431 145566654 4454443
No 195
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=94.69 E-value=0.1 Score=44.63 Aligned_cols=63 Identities=17% Similarity=0.140 Sum_probs=43.0
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
..+++-|.+++.. ...+++|.|..|||||.+..-=+...+..... ..-++|.++-|+.-|..+
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i--------~P~~IL~lTFT~kAA~em 65 (726)
T TIGR01073 3 AHLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNV--------APWNILAITFTNKAAREM 65 (726)
T ss_pred cccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCC--------CHHHeeeeeccHHHHHHH
Confidence 3578999998864 34679999999999998875555554432111 123588888887766544
No 196
>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=94.69 E-value=0.09 Score=47.68 Aligned_cols=42 Identities=19% Similarity=0.219 Sum_probs=28.0
Q ss_pred CCCCCChHHHH---HHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 57 RGLTTPTEIQK---YSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 57 ~g~~~~t~iQ~---~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
..|....|+.+ +.+..+..+..++++|+||||||. .+|.+..
T Consensus 60 ~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 60 IRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred ccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 45665566654 344445456678999999999998 3565543
No 197
>KOG0952|consensus
Probab=94.66 E-value=0.0088 Score=52.52 Aligned_cols=61 Identities=23% Similarity=0.245 Sum_probs=47.5
Q ss_pred CCChHHHHHHHHHHHc-CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 60 TTPTEIQKYSIPTLLS-GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~-g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
+...|+|.+.+-.+.. ..++++.+|||+|||++|.+.+....... .+.+++|++|.++|..
T Consensus 926 ~~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~----------p~~kvvyIap~kalvk 987 (1230)
T KOG0952|consen 926 KYFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYY----------PGSKVVYIAPDKALVK 987 (1230)
T ss_pred cccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccC----------CCccEEEEcCCchhhc
Confidence 3556677776655543 45789999999999999999988776543 4578999999999875
No 198
>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=94.63 E-value=0.072 Score=37.19 Aligned_cols=34 Identities=26% Similarity=0.280 Sum_probs=22.3
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+++.|++|+|||...+--+.... + ++.+++|++.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~-----------~g~~v~~~s~ 35 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-A-----------RGEPGLYVTL 35 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-H-----------CCCcEEEEEC
Confidence 68899999999976533333333 2 4556777764
No 199
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=94.58 E-value=0.18 Score=47.73 Aligned_cols=61 Identities=25% Similarity=0.258 Sum_probs=44.4
Q ss_pred CChHHHHHHHHHHHcCC--CeEEEcCCCCchhHHhH---HHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGK--SAILVAETGCGKTLSFL---APLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~--dvli~a~tGsGKT~~~~---lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++.|+.++..++.+. -+++.|..|+|||...- -++.+.+.. .+.+++.++||-.-+..+
T Consensus 1019 ~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~-----------~g~~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1019 RLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES-----------EQLQVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh-----------cCCeEEEEeChHHHHHHH
Confidence 78999999999998764 47788999999996651 122232211 466788899998776655
No 200
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=94.52 E-value=0.067 Score=34.85 Aligned_cols=25 Identities=24% Similarity=0.369 Sum_probs=18.2
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
++.+++.|++|+|||... --+...+
T Consensus 19 ~~~v~i~G~~G~GKT~l~-~~i~~~~ 43 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLA-RAIANEL 43 (151)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHh
Confidence 678999999999999543 3444443
No 201
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.51 E-value=0.041 Score=42.12 Aligned_cols=23 Identities=30% Similarity=0.488 Sum_probs=16.9
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~ 102 (134)
++++++|||||+... ..++.+..
T Consensus 130 viiVGaTGSGKSTtm-AaMi~yRN 152 (375)
T COG5008 130 VIIVGATGSGKSTTM-AAMIGYRN 152 (375)
T ss_pred EEEECCCCCCchhhH-HHHhcccc
Confidence 788999999998664 45555443
No 202
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.47 E-value=0.23 Score=37.09 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=19.2
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
..+++.|++|+|||... ..+...+..
T Consensus 100 ~~~~l~G~~GtGKThLa-~aia~~l~~ 125 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLA-AAICNELLL 125 (244)
T ss_pred ceEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 47999999999999655 455555543
No 203
>PRK12377 putative replication protein; Provisional
Probab=94.43 E-value=0.2 Score=37.59 Aligned_cols=44 Identities=11% Similarity=0.270 Sum_probs=27.7
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
..++++.|++|+|||-.. ..+...+.. .+..++++ +..+|..++
T Consensus 101 ~~~l~l~G~~GtGKThLa-~AIa~~l~~-----------~g~~v~~i-~~~~l~~~l 144 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLA-AAIGNRLLA-----------KGRSVIVV-TVPDVMSRL 144 (248)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHHHH-----------cCCCeEEE-EHHHHHHHH
Confidence 357999999999999544 455555543 33344443 455666544
No 204
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=94.40 E-value=0.031 Score=42.32 Aligned_cols=21 Identities=38% Similarity=0.627 Sum_probs=17.8
Q ss_pred HHcCCCeEEEcCCCCchhHHh
Q psy7268 73 LLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~ 93 (134)
+.+++.++++||+|+|||...
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 447889999999999999653
No 205
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.27 E-value=0.029 Score=43.84 Aligned_cols=56 Identities=21% Similarity=0.247 Sum_probs=31.6
Q ss_pred CCCcccCCCCHHHHHHHHHC--CCCCChHHHHH-HHHHH-------------HcCCCeEEEcCCCCchhHHh
Q psy7268 38 LGTFEDTGLAPEIIDIFTKR--GLTTPTEIQKY-SIPTL-------------LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~--g~~~~t~iQ~~-~i~~~-------------~~g~dvli~a~tGsGKT~~~ 93 (134)
..+.++++-+.+|.+.|.++ |=..--.+=+. +..+. +...|+++.+|||||||+..
T Consensus 43 ~~~~~~lPtP~eik~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLA 114 (408)
T COG1219 43 EKELSELPTPKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLA 114 (408)
T ss_pred chhhccCCChHHHHHHhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHH
Confidence 34566777888888888764 21110000000 00111 12347999999999999754
No 206
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=94.18 E-value=0.073 Score=45.52 Aligned_cols=72 Identities=17% Similarity=0.185 Sum_probs=45.6
Q ss_pred HHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHH
Q psy7268 48 PEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRE 127 (134)
Q Consensus 48 ~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 127 (134)
.++-+.+++.|-..+..+--.-+|.-...+++++.|.||+|||.+. --++..+.. ++-++||.=|+-+
T Consensus 157 ~~l~k~lk~~~~~s~i~I~gvPip~~~E~~H~li~GttGSGKS~~i-~~LL~~ir~-----------RGdrAIIyD~~Ge 224 (732)
T PRK13700 157 KDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVI-RRLANYARQ-----------RGDMVVIYDRSGE 224 (732)
T ss_pred HHHHHHHHhcCCCCCeeEccccCCcchhhcceEEeCCCCCCHHHHH-HHHHHHHHH-----------cCCeEEEEeCCCc
Confidence 5566677765543333332222333446789999999999999854 666666654 4556777766666
Q ss_pred HHHH
Q psy7268 128 LVFQ 131 (134)
Q Consensus 128 La~Q 131 (134)
....
T Consensus 225 Fv~~ 228 (732)
T PRK13700 225 FVKS 228 (732)
T ss_pred hHHH
Confidence 5543
No 207
>PRK09183 transposase/IS protein; Provisional
Probab=94.16 E-value=0.17 Score=37.98 Aligned_cols=22 Identities=23% Similarity=0.415 Sum_probs=18.1
Q ss_pred HHcCCCeEEEcCCCCchhHHhH
Q psy7268 73 LLSGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~~ 94 (134)
+..|.++++.||+|+|||....
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAI 120 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHH
Confidence 4468899999999999996653
No 208
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=94.14 E-value=0.11 Score=38.38 Aligned_cols=37 Identities=14% Similarity=0.162 Sum_probs=26.1
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
.|..+++.|++|+|||...+--+...+. ++-++++++
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~------------~ge~~lyvs 56 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ------------MGEPGIYVA 56 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHH------------cCCcEEEEE
Confidence 4667999999999999766444444442 455677776
No 209
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=94.12 E-value=0.26 Score=46.15 Aligned_cols=64 Identities=20% Similarity=0.253 Sum_probs=44.6
Q ss_pred CChHHHHHHHHHHHcCC--CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGK--SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~--dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++-|+.++..++.+. -+++.|..|+|||... -.++..+.... ...+.+++.++||-.-+..+
T Consensus 967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l-~~v~~~~~~l~-------~~~~~~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQF-RAVMSAVNTLP-------ESERPRVVGLGPTHRAVGEM 1032 (1747)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHH-HHHHHHHHHhh-------cccCceEEEECCcHHHHHHH
Confidence 68999999999999764 5889999999999663 23333332110 01356788899998666554
No 210
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.06 E-value=0.25 Score=44.07 Aligned_cols=59 Identities=24% Similarity=0.363 Sum_probs=41.8
Q ss_pred CChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHH
Q psy7268 61 TPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGREL 128 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 128 (134)
.+.++|.+.+..+. +|.+.|+.-..|.|||+-. +.++..+..... .....|||||..-+
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQa-IalL~~L~~~~~--------~~gp~LIVvP~SlL 231 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQT-ISLLGYLHEYRG--------ITGPHMVVAPKSTL 231 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHH-HHHHHHHHHhcC--------CCCCEEEEeChHHH
Confidence 67889999998764 6788999999999999875 444444433211 22347999997554
No 211
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=94.04 E-value=0.094 Score=37.65 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=17.3
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~ 102 (134)
++++||||||||... ..++..+.
T Consensus 4 ilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 4 VLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHhh
Confidence 688999999999774 44555554
No 212
>KOG1805|consensus
Probab=94.02 E-value=0.11 Score=45.64 Aligned_cols=67 Identities=19% Similarity=0.273 Sum_probs=45.5
Q ss_pred CCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCC-eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEE
Q psy7268 44 TGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKS-AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALII 122 (134)
Q Consensus 44 ~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~d-vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil 122 (134)
..+.|.+...+ +..++.-|++|+-.++..+| .+|.|=+|+|||...+.-+ ..+.. .+.++|+.
T Consensus 656 ~~~~p~~~~~~----~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LI-kiL~~-----------~gkkVLLt 719 (1100)
T KOG1805|consen 656 KVLIPKIKKII----LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLI-KILVA-----------LGKKVLLT 719 (1100)
T ss_pred cccCchhhHHH----HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHH-HHHHH-----------cCCeEEEE
Confidence 44556665542 35778899999999998877 7889999999998764333 22222 45566666
Q ss_pred cCcH
Q psy7268 123 TPGR 126 (134)
Q Consensus 123 ~Pt~ 126 (134)
+-|-
T Consensus 720 syTh 723 (1100)
T KOG1805|consen 720 SYTH 723 (1100)
T ss_pred ehhh
Confidence 5543
No 213
>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=93.98 E-value=0.038 Score=45.45 Aligned_cols=22 Identities=32% Similarity=0.548 Sum_probs=17.0
Q ss_pred EEEcCCCCchhHHhHHHHHHHH
Q psy7268 80 ILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 80 li~a~tGsGKT~~~~lpil~~~ 101 (134)
++.|+||+|||.+|+..+...+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l 22 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVL 22 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHH
Confidence 4689999999999976554443
No 214
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.98 E-value=0.51 Score=37.51 Aligned_cols=58 Identities=19% Similarity=0.292 Sum_probs=33.6
Q ss_pred CCcccCCCCHHHHHHHHHC---C--CCCChHHHHHHHHHH--------------HcCCCeEEEcCCCCchhHHhHHH
Q psy7268 39 GTFEDTGLAPEIIDIFTKR---G--LTTPTEIQKYSIPTL--------------LSGKSAILVAETGCGKTLSFLAP 96 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~---g--~~~~t~iQ~~~i~~~--------------~~g~dvli~a~tGsGKT~~~~lp 96 (134)
..+.+.++++.+.+.|-+. + ...+...+...-..+ -.|..+++.||||+|||....--
T Consensus 81 ~~L~~~g~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTTtiakL 157 (374)
T PRK14722 81 KYLFAAGFSAQLVRMIVDNLPEGEGYDTLDAAADWAQSVLAANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAKL 157 (374)
T ss_pred HHHHHCCCCHHHHHHHHHhhhhhcccCCHHHHHHHHHHHHHhcchhhcCCCccccCCcEEEEECCCCCCHHHHHHHH
Confidence 4456778888887777552 1 112222222111111 13567899999999999886433
No 215
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=93.91 E-value=0.28 Score=45.57 Aligned_cols=62 Identities=19% Similarity=0.245 Sum_probs=44.8
Q ss_pred CChHHHHHHHHHHHcC--CCeEEEcCCCCchhHHh--HHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSG--KSAILVAETGCGKTLSF--LAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g--~dvli~a~tGsGKT~~~--~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++-|+.++..++.+ +-+++.|..|+|||... ++.++..+.+. .+.+++.++||-.-+..+
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~----------~g~~V~glAPTgkAa~~L 900 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPES----------ERPRVVGLGPTHRAVGEM 900 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhc----------cCceEEEEechHHHHHHH
Confidence 7899999999999965 55899999999999763 23333332211 456788899997766554
No 216
>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=93.81 E-value=0.12 Score=38.67 Aligned_cols=23 Identities=22% Similarity=0.606 Sum_probs=17.4
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.+++.|++||||| .+++-++..+
T Consensus 15 r~viIG~sGSGKT-~li~~lL~~~ 37 (241)
T PF04665_consen 15 RMVIIGKSGSGKT-TLIKSLLYYL 37 (241)
T ss_pred eEEEECCCCCCHH-HHHHHHHHhh
Confidence 6889999999999 4555555554
No 217
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=93.69 E-value=0.17 Score=36.17 Aligned_cols=27 Identities=22% Similarity=0.340 Sum_probs=17.2
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..++++.|.||+|||.....-+...+.
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 348999999999999776544444443
No 218
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=93.62 E-value=0.037 Score=41.26 Aligned_cols=25 Identities=40% Similarity=0.392 Sum_probs=19.0
Q ss_pred HHHcCCCeEEEcCCCCchhHHhHHH
Q psy7268 72 TLLSGKSAILVAETGCGKTLSFLAP 96 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~~lp 96 (134)
-+..|.-+++.|++|+|||...+--
T Consensus 26 G~~~g~~~~i~g~~G~GKT~l~~~~ 50 (271)
T cd01122 26 GLRKGELIILTAGTGVGKTTFLREY 50 (271)
T ss_pred EEcCCcEEEEEcCCCCCHHHHHHHH
Confidence 3456778999999999999655433
No 219
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.59 E-value=0.37 Score=38.86 Aligned_cols=19 Identities=42% Similarity=0.590 Sum_probs=15.8
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
|+.+++.+|||+|||....
T Consensus 221 ~~~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLA 239 (424)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 5568899999999997754
No 220
>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=93.50 E-value=0.12 Score=44.75 Aligned_cols=44 Identities=18% Similarity=0.291 Sum_probs=32.2
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.++.+|.|||||.+..-.+-+.+.. ...++++|+.-+.|+.++.
T Consensus 52 ~vVRSpMGTGKTtaLi~wLk~~l~~-----------~~~~VLvVShRrSL~~sL~ 95 (824)
T PF02399_consen 52 LVVRSPMGTGKTTALIRWLKDALKN-----------PDKSVLVVSHRRSLTKSLA 95 (824)
T ss_pred EEEECCCCCCcHHHHHHHHHHhccC-----------CCCeEEEEEhHHHHHHHHH
Confidence 6788999999997763333222211 5678999999999998874
No 221
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.48 E-value=0.095 Score=45.46 Aligned_cols=41 Identities=22% Similarity=0.352 Sum_probs=29.6
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGREL 128 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L 128 (134)
++=|...||+|||.+|+=-+...-.. ..-.+.||+||+.+.
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~----------YG~~KFIivVPs~AI 116 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKK----------YGLFKFIIVVPSLAI 116 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHH----------hCceeEEEEeccHHH
Confidence 56678999999999997555443221 144678999999764
No 222
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=93.44 E-value=0.062 Score=35.04 Aligned_cols=15 Identities=33% Similarity=0.375 Sum_probs=12.9
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.||+|+|||...
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 589999999999664
No 223
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=93.42 E-value=0.056 Score=35.46 Aligned_cols=19 Identities=26% Similarity=0.396 Sum_probs=12.6
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.++.+++.|++|+|||...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ----EEEEE-TTSSHHHHH
T ss_pred CCcccEEEcCCCCCHHHHH
Confidence 3567899999999999764
No 224
>PRK08116 hypothetical protein; Validated
Probab=93.39 E-value=0.55 Score=35.47 Aligned_cols=26 Identities=23% Similarity=0.341 Sum_probs=19.7
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
..+++.|++|+|||... ..+.+.+..
T Consensus 115 ~gl~l~G~~GtGKThLa-~aia~~l~~ 140 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLA-ACIANELIE 140 (268)
T ss_pred ceEEEECCCCCCHHHHH-HHHHHHHHH
Confidence 34999999999999655 456666654
No 225
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=93.39 E-value=0.1 Score=38.15 Aligned_cols=27 Identities=26% Similarity=0.431 Sum_probs=17.2
Q ss_pred HHHHHHH-HcCCCeEEEcCCCCchhHHh
Q psy7268 67 KYSIPTL-LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 67 ~~~i~~~-~~g~dvli~a~tGsGKT~~~ 93 (134)
++++... ..+.++++.+|+|+|||+..
T Consensus 12 KrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 12 KRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp HHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred HHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 3444433 35678999999999999774
No 226
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.31 E-value=0.071 Score=42.60 Aligned_cols=55 Identities=20% Similarity=0.182 Sum_probs=35.1
Q ss_pred CCCCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.|-.+|++++-.+...+.+.+. .+..|.-.+..- +...+.+++.||+|+|||+..
T Consensus 139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G---l~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG---IDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC---CCCCceEEEECCCCCCHHHHH
Confidence 3445788888777777777663 233322222111 124678999999999999864
No 227
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.28 E-value=0.18 Score=41.49 Aligned_cols=27 Identities=30% Similarity=0.452 Sum_probs=22.0
Q ss_pred HHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 67 KYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 67 ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
..++-.++.|.++++.||+|+|||...
T Consensus 30 ~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 30 RLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHHHHccCCCEEEECCCChhHHHHH
Confidence 344445678999999999999999775
No 228
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=93.23 E-value=0.16 Score=37.09 Aligned_cols=39 Identities=21% Similarity=0.158 Sum_probs=25.4
Q ss_pred HcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 74 LSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
..|.-+++.|++|+|||...+--+.+.... .+..+++++
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~-----------~g~~vly~s 49 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAKK-----------QGKPVLFFS 49 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHHh-----------CCCceEEEe
Confidence 356678999999999996554333443322 145677776
No 229
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=93.18 E-value=0.15 Score=41.45 Aligned_cols=31 Identities=26% Similarity=0.261 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 63 TEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 63 t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-......+..+..++++++.+++|+|||...
T Consensus 181 e~~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 181 ETTIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 3444556666778999999999999999765
No 230
>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=93.18 E-value=0.18 Score=36.62 Aligned_cols=27 Identities=22% Similarity=0.429 Sum_probs=20.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
-++++.|.|.||||||... --+++.+.
T Consensus 22 ~~~H~~I~G~TGsGKS~~~-~~ll~~l~ 48 (229)
T PF01935_consen 22 FNRHIAIFGTTGSGKSNTV-KVLLEELL 48 (229)
T ss_pred ccceEEEECCCCCCHHHHH-HHHHHHHH
Confidence 3578999999999999765 44555554
No 231
>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=93.17 E-value=0.02 Score=45.15 Aligned_cols=23 Identities=26% Similarity=0.462 Sum_probs=19.9
Q ss_pred CeEEEcCCCCchhHHhHHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~ 100 (134)
++++.|+||+|||.++++|-+..
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~ 23 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT 23 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc
Confidence 47899999999999999887654
No 232
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=93.16 E-value=0.2 Score=39.12 Aligned_cols=27 Identities=22% Similarity=0.391 Sum_probs=20.0
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.+..++++||||||||... -.++..+.
T Consensus 121 ~~g~ili~G~tGSGKTT~l-~al~~~i~ 147 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL-ASMIDYIN 147 (343)
T ss_pred cCcEEEEECCCCCCHHHHH-HHHHHhhC
Confidence 4567999999999999664 45555553
No 233
>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=93.14 E-value=0.16 Score=42.46 Aligned_cols=29 Identities=21% Similarity=0.340 Sum_probs=21.2
Q ss_pred HcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 74 LSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
...+++++.|+||||||. ++-.++..+..
T Consensus 174 ~e~~h~li~G~tGsGKs~-~i~~ll~~~~~ 202 (566)
T TIGR02759 174 SETQHILIHGTTGSGKSV-AIRKLLRWIRQ 202 (566)
T ss_pred ccccceEEEcCCCCCHHH-HHHHHHHHHHh
Confidence 346689999999999995 34555666543
No 234
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=93.12 E-value=0.19 Score=37.40 Aligned_cols=37 Identities=22% Similarity=0.313 Sum_probs=25.1
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
.|+.+++.+++|+|||....--+...+. .+-.+++++
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~------------~ge~vlyvs 58 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAR------------EGEPVLYVS 58 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHh------------cCCcEEEEE
Confidence 5678999999999999655333333332 355677775
No 235
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.08 E-value=0.093 Score=30.97 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=15.6
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.|...++.+++|+|||..+
T Consensus 22 ~g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 22 RGDVTLITGPNGSGKSTLL 40 (62)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 3556899999999999764
No 236
>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=93.07 E-value=0.2 Score=37.56 Aligned_cols=25 Identities=16% Similarity=0.062 Sum_probs=18.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.|.-+++.|++|+|||...+--+.+
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~ 59 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVT 59 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 4567899999999999765443333
No 237
>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=92.85 E-value=0.16 Score=39.05 Aligned_cols=21 Identities=38% Similarity=0.493 Sum_probs=17.8
Q ss_pred HHcCCCeEEEcCCCCchhHHh
Q psy7268 73 LLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~ 93 (134)
+..|.++++.|+||+|||...
T Consensus 141 v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 141 IASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred hhCCCEEEEECCCCCCHHHHH
Confidence 447889999999999999653
No 238
>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=92.81 E-value=0.073 Score=35.55 Aligned_cols=16 Identities=38% Similarity=0.490 Sum_probs=13.8
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
+|++.||+|+|||...
T Consensus 1 ~vlL~G~~G~GKt~l~ 16 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA 16 (139)
T ss_dssp EEEEEESSSSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4899999999999764
No 239
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=92.76 E-value=0.089 Score=44.29 Aligned_cols=25 Identities=36% Similarity=0.547 Sum_probs=22.2
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.++++.||||||||..+++|-+...
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~ 183 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW 183 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC
Confidence 3689999999999999999988764
No 240
>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=92.72 E-value=0.56 Score=44.62 Aligned_cols=60 Identities=20% Similarity=0.145 Sum_probs=44.7
Q ss_pred CChHHHHHHHHHHHcCC--CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGK--SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~--dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+++-|+.++..++... -.++.++.|+|||... -.++..+.. .|.+++.++||..-+.++
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l-~~l~~~~~~-----------~G~~V~~lAPTgrAA~~L 490 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIA-QLLLHLASE-----------QGYEIQIITAGSLSAQEL 490 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHH-HHHHHHHHh-----------cCCeEEEEeCCHHHHHHH
Confidence 67899999999988754 4788999999999553 333443322 467899999998766654
No 241
>KOG1533|consensus
Probab=92.70 E-value=0.12 Score=38.71 Aligned_cols=24 Identities=17% Similarity=0.450 Sum_probs=19.3
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
-++.||+||||| +|+....+.+..
T Consensus 5 qvVIGPPgSGKs-TYc~g~~~fls~ 28 (290)
T KOG1533|consen 5 QVVIGPPGSGKS-TYCNGMSQFLSA 28 (290)
T ss_pred eEEEcCCCCCcc-chhhhHHHHHHH
Confidence 468899999998 788877777654
No 242
>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=92.66 E-value=0.28 Score=35.63 Aligned_cols=25 Identities=28% Similarity=0.292 Sum_probs=18.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.|..+++.+++|+|||...+.-+.+
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~ 43 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYK 43 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHH
Confidence 4678999999999998665433333
No 243
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.63 E-value=0.071 Score=43.16 Aligned_cols=55 Identities=24% Similarity=0.280 Sum_probs=31.0
Q ss_pred CCCCCCcccCCCCHHHHHHHHHC-CCCCChHHHHH-HHH--HHHcCCCeEEEcCCCCchhHHh
Q psy7268 35 RIDLGTFEDTGLAPEIIDIFTKR-GLTTPTEIQKY-SIP--TLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 35 ~~~~~~f~~~~l~~~i~~~l~~~-g~~~~t~iQ~~-~i~--~~~~g~dvli~a~tGsGKT~~~ 93 (134)
..|-.+|++++--+..++.+.+. .+ ++... .+. .+...+.+++.||+|+|||+..
T Consensus 176 ~~p~~~~~DIgGl~~qi~~l~e~v~l----pl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 176 KAPLESYADIGGLEQQIQEIKEAVEL----PLTHPELYDDIGIKPPKGVILYGPPGTGKTLLA 234 (438)
T ss_pred cCCCCCHHHhcCHHHHHHHHHHHHHh----hhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHH
Confidence 34556777776555555555542 11 11111 111 1224567999999999999775
No 244
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=92.61 E-value=0.092 Score=34.04 Aligned_cols=15 Identities=27% Similarity=0.388 Sum_probs=12.8
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.|++|||||...
T Consensus 2 I~I~G~~gsGKST~a 16 (121)
T PF13207_consen 2 IIISGPPGSGKSTLA 16 (121)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 678999999999654
No 245
>KOG0925|consensus
Probab=92.59 E-value=0.29 Score=40.39 Aligned_cols=56 Identities=29% Similarity=0.363 Sum_probs=41.5
Q ss_pred CCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHH
Q psy7268 37 DLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 37 ~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~ 92 (134)
.+.-|.+.+.++.-.+.+++..=-.-+..+.+.+..+.++.-+++.|.||||||.-
T Consensus 23 ~~Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQ 78 (699)
T KOG0925|consen 23 AINPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQ 78 (699)
T ss_pred hcCCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCcccc
Confidence 37788999999998888887532233444555555666777899999999999954
No 246
>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=92.58 E-value=0.28 Score=35.32 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.7
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
++++||||+|||....
T Consensus 4 i~lvGptGvGKTTt~a 19 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIA 19 (196)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred EEEECCCCCchHhHHH
Confidence 6789999999998753
No 247
>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=92.46 E-value=0.097 Score=34.88 Aligned_cols=15 Identities=33% Similarity=0.437 Sum_probs=12.9
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
++++|++|+|||...
T Consensus 2 ii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 2 IILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 688999999999663
No 248
>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=92.42 E-value=0.31 Score=34.83 Aligned_cols=25 Identities=24% Similarity=0.284 Sum_probs=18.2
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.|.-+.+.+++|+|||...+.-+.+
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~ 35 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVN 35 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3456889999999999776544333
No 249
>KOG4150|consensus
Probab=92.32 E-value=0.13 Score=43.26 Aligned_cols=65 Identities=11% Similarity=-0.099 Sum_probs=51.3
Q ss_pred CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 57 ~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
+.-+....+|..++..+..|+++++...+.+||.++|-+......... .....+++.|+++++..
T Consensus 282 ~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~----------~~s~~~~~~~~~~~~~~ 346 (1034)
T KOG4150|consen 282 NTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLC----------HATNSLLPSEMVEHLRN 346 (1034)
T ss_pred ccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcC----------cccceecchhHHHHhhc
Confidence 344567889999999999999999999999999999988887766542 22346777788887754
No 250
>PRK04328 hypothetical protein; Provisional
Probab=92.32 E-value=0.3 Score=36.36 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=19.3
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|..+++.+++|+|||.-.+--+.+.+
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~ 48 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGL 48 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 466789999999999966544444443
No 251
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=92.29 E-value=0.075 Score=44.94 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=21.5
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.++++.||||||||..+++|-+..
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~ 199 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS 199 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh
Confidence 469999999999999999998764
No 252
>PRK08727 hypothetical protein; Validated
Probab=92.25 E-value=0.29 Score=36.07 Aligned_cols=25 Identities=24% Similarity=0.137 Sum_probs=17.3
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..+++.|++|+|||-.. -.+...+.
T Consensus 42 ~~l~l~G~~G~GKThL~-~a~~~~~~ 66 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLA-LALCAAAE 66 (233)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHH
Confidence 34999999999999443 34444443
No 253
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=92.23 E-value=0.11 Score=44.18 Aligned_cols=25 Identities=24% Similarity=0.424 Sum_probs=21.9
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.++++.||||||||..+++|-+-.+
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~~ 164 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLTF 164 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhcC
Confidence 3799999999999999999987653
No 254
>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=92.22 E-value=0.27 Score=40.23 Aligned_cols=28 Identities=32% Similarity=0.487 Sum_probs=21.1
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
.|+.+++.+++|+|||...+--+.+.+.
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~ 47 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGII 47 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4678999999999999776555555443
No 255
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.15 E-value=0.37 Score=35.54 Aligned_cols=25 Identities=12% Similarity=0.231 Sum_probs=17.6
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
+..+++.||+|+|||-.. ..+.+.+
T Consensus 45 ~~~l~l~Gp~G~GKThLl-~a~~~~~ 69 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLL-HAACAEL 69 (235)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHH
Confidence 457999999999999543 2334443
No 256
>PRK06893 DNA replication initiation factor; Validated
Probab=92.02 E-value=0.29 Score=35.88 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=17.0
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..+++.||+|+|||-.. ..+.+.+.
T Consensus 40 ~~l~l~G~~G~GKThL~-~ai~~~~~ 64 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLL-KAVSNHYL 64 (229)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHH
Confidence 34799999999999443 34444443
No 257
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.98 E-value=1.2 Score=37.29 Aligned_cols=56 Identities=21% Similarity=0.220 Sum_probs=31.6
Q ss_pred CCcccCCCCHHHHHHHHHC-CC-CCChHHHHHHHHHH------------HcCCCeEEEcCCCCchhHHhH
Q psy7268 39 GTFEDTGLAPEIIDIFTKR-GL-TTPTEIQKYSIPTL------------LSGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~-g~-~~~t~iQ~~~i~~~------------~~g~dvli~a~tGsGKT~~~~ 94 (134)
..+.+.|+++.+.+.|.+. .- .............+ ..|+.+.+.||+|+|||....
T Consensus 299 ~~L~~~Gvs~~la~~L~~~l~~~~~~~~~~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaa 368 (559)
T PRK12727 299 ELMDDYGFDAGLTRDVAMQIPADTELHRGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIA 368 (559)
T ss_pred HHHHHCCCCHHHHHHHHHhhhcccchhhHHHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHH
Confidence 3445667777777776542 11 11122222222221 246678899999999997763
No 258
>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=91.94 E-value=0.13 Score=36.79 Aligned_cols=20 Identities=35% Similarity=0.536 Sum_probs=14.5
Q ss_pred CCCeEEEcCCCCchhHHhHH
Q psy7268 76 GKSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~l 95 (134)
.+.+++.||.|+|||.-|..
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 45799999999999977643
No 259
>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=91.91 E-value=0.33 Score=41.14 Aligned_cols=26 Identities=27% Similarity=0.280 Sum_probs=19.5
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
..++++.|+||+|||..+.+-+.+.+
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~l~~q~i 201 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAELLITQDI 201 (634)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHH
Confidence 35799999999999977744444444
No 260
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=91.91 E-value=0.3 Score=36.14 Aligned_cols=33 Identities=24% Similarity=0.337 Sum_probs=24.2
Q ss_pred CChHHHHHHHHHHH----cCC-CeEEEcCCCCchhHHh
Q psy7268 61 TPTEIQKYSIPTLL----SGK-SAILVAETGCGKTLSF 93 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~----~g~-dvli~a~tGsGKT~~~ 93 (134)
.+++.+.+++..+. .+. .+++.|++|+|||...
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 66777777776543 333 5889999999999664
No 261
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=91.86 E-value=0.39 Score=34.87 Aligned_cols=19 Identities=21% Similarity=0.347 Sum_probs=15.3
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.++.+++.|++|+|||-..
T Consensus 41 ~~~~~~l~G~~G~GKT~La 59 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLL 59 (227)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 3457999999999999543
No 262
>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=91.84 E-value=0.5 Score=31.56 Aligned_cols=16 Identities=38% Similarity=0.495 Sum_probs=13.3
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
+++.|++|+|||....
T Consensus 2 ~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 2 ILVFGPTGSGKTTLAL 17 (165)
T ss_pred eeEeCCCCCCHHHHHH
Confidence 5789999999997653
No 263
>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=91.73 E-value=0.14 Score=33.25 Aligned_cols=15 Identities=27% Similarity=0.180 Sum_probs=13.0
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
|++.|++|||||...
T Consensus 1 I~i~G~~GsGKtTia 15 (129)
T PF13238_consen 1 IGISGIPGSGKTTIA 15 (129)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred CEEECCCCCCHHHHH
Confidence 578999999999774
No 264
>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=91.72 E-value=0.4 Score=35.04 Aligned_cols=36 Identities=17% Similarity=0.274 Sum_probs=25.5
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT 123 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~ 123 (134)
.+++.|++|+|||= .+-++.+.+.+.. .+.+++++.
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~~---------~~~~v~y~~ 71 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQH---------PGKRVVYLS 71 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHHC---------TTS-EEEEE
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhcc---------ccccceeec
Confidence 48999999999995 5567766665432 456777775
No 265
>PRK04296 thymidine kinase; Provisional
Probab=91.71 E-value=0.44 Score=33.95 Aligned_cols=36 Identities=14% Similarity=0.192 Sum_probs=22.9
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
.=.++.|++|+|||... +-.+.+... .+.+++++-|
T Consensus 3 ~i~litG~~GsGKTT~~-l~~~~~~~~-----------~g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTEL-LQRAYNYEE-----------RGMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHH-HHHHHHHHH-----------cCCeEEEEec
Confidence 34678899999999655 344444432 3455666655
No 266
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=91.69 E-value=0.38 Score=42.33 Aligned_cols=26 Identities=23% Similarity=0.445 Sum_probs=19.3
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
..+.+|.|+||+|||...-.-+.+.+
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~ 500 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVM 500 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHH
Confidence 45789999999999977654444444
No 267
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=91.68 E-value=0.2 Score=40.91 Aligned_cols=26 Identities=27% Similarity=0.424 Sum_probs=19.6
Q ss_pred HHHHHHH-cCCCeEEEcCCCCchhHHh
Q psy7268 68 YSIPTLL-SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 68 ~~i~~~~-~g~dvli~a~tGsGKT~~~ 93 (134)
+++.... -|+++++.+|+|||||+..
T Consensus 189 rAleiAAAGgHnLl~~GpPGtGKTmla 215 (490)
T COG0606 189 RALEIAAAGGHNLLLVGPPGTGKTMLA 215 (490)
T ss_pred HHHHHHHhcCCcEEEecCCCCchHHhh
Confidence 3443333 5789999999999999874
No 268
>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=91.63 E-value=0.14 Score=39.04 Aligned_cols=18 Identities=22% Similarity=0.213 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
+.++++.||+|+|||...
T Consensus 58 ~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 447999999999999775
No 269
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=91.63 E-value=0.23 Score=34.28 Aligned_cols=27 Identities=30% Similarity=0.512 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
++.+++.|+.|+|||.. +-.++..+..
T Consensus 24 ~~~~ll~G~~G~GKT~l-l~~~~~~~~~ 50 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSL-LRALLDRLAE 50 (185)
T ss_dssp ---EEE-B-TTSSHHHH-HHHHHHHHHH
T ss_pred CcEEEEECCCCCCHHHH-HHHHHHHHHh
Confidence 46799999999999955 3445555554
No 270
>KOG0744|consensus
Probab=91.46 E-value=0.24 Score=38.93 Aligned_cols=26 Identities=31% Similarity=0.438 Sum_probs=19.7
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
|=++++||+|+||| ..+=++.+++.-
T Consensus 178 RliLlhGPPGTGKT-SLCKaLaQkLSI 203 (423)
T KOG0744|consen 178 RLILLHGPPGTGKT-SLCKALAQKLSI 203 (423)
T ss_pred eEEEEeCCCCCChh-HHHHHHHHhhee
Confidence 34889999999999 455677777653
No 271
>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=91.44 E-value=0.47 Score=34.41 Aligned_cols=20 Identities=35% Similarity=0.523 Sum_probs=15.8
Q ss_pred cCCCeEEEcCCCCchhHHhH
Q psy7268 75 SGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~ 94 (134)
.|.-+++.+++|+|||...+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~ 34 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSL 34 (224)
T ss_pred CCeEEEEECCCCCCHHHHHH
Confidence 35668999999999986543
No 272
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=91.42 E-value=0.16 Score=43.15 Aligned_cols=25 Identities=20% Similarity=0.341 Sum_probs=22.3
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.++++.||||||||..+++|-|..+
T Consensus 145 ~hvLviApTrSGKgvg~VIPnLL~~ 169 (663)
T PRK13876 145 EHVLCFAPTRSGKGVGLVVPTLLTW 169 (663)
T ss_pred ceEEEEecCCCCcceeEehhhHHhC
Confidence 4799999999999999999987754
No 273
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=91.41 E-value=0.17 Score=42.82 Aligned_cols=24 Identities=29% Similarity=0.317 Sum_probs=21.0
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.++++.||||+|||..+++|-+-.
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL~ 235 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTALK 235 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhhc
Confidence 479999999999999999996543
No 274
>KOG1807|consensus
Probab=91.39 E-value=0.43 Score=41.31 Aligned_cols=66 Identities=18% Similarity=0.174 Sum_probs=46.0
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.+..-|..|....+.-+=-++++|+|+|||++-+..+=..+..... .......+++|-|..-+.|+
T Consensus 378 ildsSq~~A~qs~ltyelsliqgppGTgkt~vtlkav~tLL~n~s~------~~~~epIlvvC~Tnhavdq~ 443 (1025)
T KOG1807|consen 378 ILDSSQQFAKQSKLTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSG------YTEPEPILVVCLTNHAVDQY 443 (1025)
T ss_pred eecHHHHHHHHHHhhhhhheeecCCCCCceeehHHHHHHHHhcccc------cccccceeeeehhhHHHHHH
Confidence 3344689999888888888999999999999987665444443211 11233478888887777664
No 275
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=91.35 E-value=0.28 Score=37.95 Aligned_cols=23 Identities=39% Similarity=0.527 Sum_probs=19.8
Q ss_pred HHHHcCCCeEEEcCCCCchhHHh
Q psy7268 71 PTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 71 ~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-.++.|+.+++.+++|+|||...
T Consensus 38 ~a~~~~~~vll~G~PG~gKT~la 60 (329)
T COG0714 38 LALLAGGHVLLEGPPGVGKTLLA 60 (329)
T ss_pred HHHHcCCCEEEECCCCccHHHHH
Confidence 35668999999999999999764
No 276
>KOG0390|consensus
Probab=91.29 E-value=0.52 Score=40.75 Aligned_cols=62 Identities=24% Similarity=0.332 Sum_probs=41.6
Q ss_pred CCChHHHHHHHHHHHc---CC-------CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcH
Q psy7268 60 TTPTEIQKYSIPTLLS---GK-------SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGR 126 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~---g~-------dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 126 (134)
..+.|+|++.+..+.. |. ..|+.-..|+|||+-. ++.+..++++.+. ..+ .-.++|||+|..
T Consensus 237 ~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~-IsflwtlLrq~P~--~~~--~~~k~lVV~P~s 308 (776)
T KOG0390|consen 237 KILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQC-ISFIWTLLRQFPQ--AKP--LINKPLVVAPSS 308 (776)
T ss_pred hhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHH-HHHHHHHHHhCcC--ccc--cccccEEEccHH
Confidence 3778999999987652 22 3566677899999765 6777777665421 000 125789999964
No 277
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=91.24 E-value=0.54 Score=34.36 Aligned_cols=26 Identities=12% Similarity=0.100 Sum_probs=18.4
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.|.-+++.+++|+|||.....-+...
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~ 49 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGA 49 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHH
Confidence 35568899999999996654443333
No 278
>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=91.17 E-value=0.16 Score=41.95 Aligned_cols=54 Identities=28% Similarity=0.385 Sum_probs=29.5
Q ss_pred CCCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 37 DLGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 37 ~~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
|-.+|++++--+..++.+.+. .+.+|......- +...+.+++.||+|+|||+..
T Consensus 177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~g---l~~p~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYD---LKPPKGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhcc---CCCCcceEEECCCCCcHHHHH
Confidence 345788877333444444431 232222222111 113467999999999999753
No 279
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=91.15 E-value=0.16 Score=37.88 Aligned_cols=17 Identities=29% Similarity=0.327 Sum_probs=14.9
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.++++.||+|+|||...
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 46899999999999775
No 280
>PHA02244 ATPase-like protein
Probab=91.09 E-value=0.37 Score=38.36 Aligned_cols=22 Identities=18% Similarity=0.194 Sum_probs=18.3
Q ss_pred HHHcCCCeEEEcCCCCchhHHh
Q psy7268 72 TLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.+..+.++++.||+|+|||...
T Consensus 115 ~l~~~~PVLL~GppGtGKTtLA 136 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHIA 136 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHHH
Confidence 3457889999999999999654
No 281
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=91.04 E-value=0.36 Score=36.86 Aligned_cols=19 Identities=26% Similarity=0.391 Sum_probs=15.7
Q ss_pred cCC--CeEEEcCCCCchhHHh
Q psy7268 75 SGK--SAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~--dvli~a~tGsGKT~~~ 93 (134)
+++ .+++.||+|+|||...
T Consensus 33 ~~~~~~lll~Gp~GtGKT~la 53 (337)
T PRK12402 33 SPNLPHLLVQGPPGSGKTAAV 53 (337)
T ss_pred CCCCceEEEECCCCCCHHHHH
Confidence 444 7999999999999665
No 282
>KOG0738|consensus
Probab=90.96 E-value=0.19 Score=40.34 Aligned_cols=56 Identities=20% Similarity=0.494 Sum_probs=34.0
Q ss_pred CCCCcccCCCCHHHHHHHHHC------CCCCChH----------HHHHH-----HHHHHcC-----CCeEEEcCCCCchh
Q psy7268 37 DLGTFEDTGLAPEIIDIFTKR------GLTTPTE----------IQKYS-----IPTLLSG-----KSAILVAETGCGKT 90 (134)
Q Consensus 37 ~~~~f~~~~l~~~i~~~l~~~------g~~~~t~----------iQ~~~-----i~~~~~g-----~dvli~a~tGsGKT 90 (134)
....|+..+....+.+.+++- ++ +.+. +++.+ +|.+++| +.++..+|+|+|||
T Consensus 181 ~~~~f~~~~~d~~Lve~lerdIl~~np~i-kW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKT 259 (491)
T KOG0738|consen 181 EDKKFDSLGYDADLVEALERDILQRNPNI-KWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKT 259 (491)
T ss_pred ccCCCCcccchHHHHHHHHHHHhccCCCc-ChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHH
Confidence 445677777777777777651 11 1111 12221 1344555 47999999999999
Q ss_pred HHh
Q psy7268 91 LSF 93 (134)
Q Consensus 91 ~~~ 93 (134)
+..
T Consensus 260 lLA 262 (491)
T KOG0738|consen 260 LLA 262 (491)
T ss_pred HHH
Confidence 764
No 283
>CHL00181 cbbX CbbX; Provisional
Probab=90.95 E-value=0.18 Score=38.53 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
|.++++.||+|+|||...-
T Consensus 59 ~~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 4568999999999998753
No 284
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=90.93 E-value=0.16 Score=39.85 Aligned_cols=55 Identities=25% Similarity=0.296 Sum_probs=31.2
Q ss_pred CCCCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.|-.+|++++-.++..+.+.+. .+.++.-... + -+...+.+++.||+|+|||...
T Consensus 116 ~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~--~-g~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 116 RPNVSYEDIGGLEEQIREIREAVELPLKHPELFEE--V-GIEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHh--c-CCCCCceEEEECCCCCCHHHHH
Confidence 3444677777666666666552 1222111110 0 0122456999999999999764
No 285
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=90.89 E-value=0.59 Score=34.40 Aligned_cols=21 Identities=14% Similarity=0.270 Sum_probs=17.2
Q ss_pred HcCCCeEEEcCCCCchhHHhH
Q psy7268 74 LSGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~ 94 (134)
-.|.-+++.+++|+|||...+
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~ 42 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQ 42 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHH
Confidence 357789999999999997643
No 286
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.87 E-value=0.17 Score=40.20 Aligned_cols=54 Identities=28% Similarity=0.294 Sum_probs=30.0
Q ss_pred CCCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 37 DLGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 37 ~~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
|-.+|++++-.++..+.+.+. .+.++-..+.. -+..-+.+++.||+|+|||+..
T Consensus 126 p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~---g~~~p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEV---GIEPPKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCCceEEECCCCCChHHHH
Confidence 334677777666666666552 12221111110 0112357999999999999764
No 287
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=90.75 E-value=0.26 Score=40.36 Aligned_cols=55 Identities=27% Similarity=0.258 Sum_probs=33.2
Q ss_pred CCCCCcccCCCCHHHHHHHHHC--CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKR--GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~--g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.+-.+|+++.-.++..+.+.+. -+..+...+..- ....+.+++.||+|+|||...
T Consensus 49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g---~~~~~giLL~GppGtGKT~la 105 (495)
T TIGR01241 49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLG---AKIPKGVLLVGPPGTGKTLLA 105 (495)
T ss_pred CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcC---CCCCCcEEEECCCCCCHHHHH
Confidence 4556888888777776666542 122222221110 112357999999999999763
No 288
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=90.75 E-value=0.2 Score=42.53 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=20.7
Q ss_pred CCeEEEcCCCCchhHHhHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.++++.||||+|||..+++|-+-
T Consensus 225 ~H~Lv~ApTgsGKt~g~VIPnLL 247 (641)
T PRK13822 225 THGLVFAGSGGFKTTSVVVPTAL 247 (641)
T ss_pred ceEEEEeCCCCCccceEehhhhh
Confidence 47899999999999999999764
No 289
>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=90.73 E-value=0.52 Score=33.95 Aligned_cols=22 Identities=23% Similarity=0.238 Sum_probs=16.6
Q ss_pred CCCeEEEcCCCCchhHHhHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPL 97 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpi 97 (134)
|.-+.+.+++|+|||...+--+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a 40 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLA 40 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHH
Confidence 4558899999999997654433
No 290
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=90.71 E-value=0.2 Score=35.37 Aligned_cols=18 Identities=33% Similarity=0.492 Sum_probs=15.4
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
|..+++.||+|+|||...
T Consensus 2 g~~i~l~G~sGsGKsTl~ 19 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLL 19 (186)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 567899999999999764
No 291
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=90.66 E-value=0.47 Score=31.83 Aligned_cols=22 Identities=27% Similarity=0.386 Sum_probs=17.0
Q ss_pred HHHcCCCeEEEcCCCCchhHHh
Q psy7268 72 TLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 72 ~~~~g~dvli~a~tGsGKT~~~ 93 (134)
....+..|++.|+.|+||+.+.
T Consensus 17 ~a~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 17 LAKSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp HHCSSS-EEEECCTTSSHHHHH
T ss_pred HhCCCCcEEEEcCCCCCHHHHH
Confidence 3446778999999999999753
No 292
>PRK05642 DNA replication initiation factor; Validated
Probab=90.59 E-value=0.57 Score=34.54 Aligned_cols=25 Identities=16% Similarity=0.189 Sum_probs=17.7
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
+.+++.|++|+|||-- +-.+.+.+.
T Consensus 46 ~~l~l~G~~G~GKTHL-l~a~~~~~~ 70 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL-LQAACLRFE 70 (234)
T ss_pred CeEEEECCCCCCHHHH-HHHHHHHHH
Confidence 4688999999999954 344444443
No 293
>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=90.57 E-value=0.56 Score=40.45 Aligned_cols=39 Identities=23% Similarity=0.377 Sum_probs=25.2
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGR 126 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~ 126 (134)
+.+++|.|+||+|||...-. ++..... .+.+++|+=|..
T Consensus 430 n~n~~I~G~tGsGKS~~~~~-l~~~~~~-----------~g~~v~iiD~~~ 468 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQE-LIVDNLS-----------RGGKVWVIDVGR 468 (797)
T ss_pred ccceEEEcCCCCCHHHHHHH-HHHHHHh-----------CCCEEEEEeCCC
Confidence 34799999999999977544 3333332 345566665543
No 294
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=90.52 E-value=0.99 Score=39.55 Aligned_cols=38 Identities=26% Similarity=0.411 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 63 TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 63 t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
+....+.+..+.+..-++++|+||+|||...=.-+++.
T Consensus 52 ~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~ 89 (845)
T COG1643 52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEE 89 (845)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhh
Confidence 34455555566677779999999999997653333443
No 295
>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=0.55 Score=39.87 Aligned_cols=27 Identities=22% Similarity=0.149 Sum_probs=21.5
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..+.+|.|+||+|||..+.+-+.+.+.
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~ 206 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIR 206 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHH
Confidence 457899999999999988776666654
No 296
>KOG1131|consensus
Probab=90.43 E-value=2 Score=35.98 Aligned_cols=46 Identities=22% Similarity=0.187 Sum_probs=32.9
Q ss_pred CCCCChHHHHHHHHHHH----cCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 58 GLTTPTEIQKYSIPTLL----SGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~----~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
.|.+-+|-|..-+-.+. .+.+.++..|+|+|||.+.+--++.+-..
T Consensus 13 PY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~ 62 (755)
T KOG1131|consen 13 PYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLH 62 (755)
T ss_pred CCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHh
Confidence 45666788877665554 45678899999999998876555555443
No 297
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.42 E-value=0.6 Score=36.03 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=19.2
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
++.+++.|++|+|||... .++...+.
T Consensus 156 ~~gl~L~G~~G~GKThLa-~Aia~~l~ 181 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLL-AAIANELA 181 (306)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHHH
Confidence 457999999999999654 34455554
No 298
>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=90.35 E-value=0.37 Score=37.62 Aligned_cols=23 Identities=13% Similarity=0.263 Sum_probs=19.0
Q ss_pred HHHHcCCCeEEEcCCCCchhHHh
Q psy7268 71 PTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 71 ~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-.+..++++++.+++|+|||...
T Consensus 59 ~~l~~~~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 59 AGFAYDRRVMVQGYHGTGKSTHI 81 (327)
T ss_pred HHHhcCCcEEEEeCCCChHHHHH
Confidence 34556889999999999999764
No 299
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=90.34 E-value=0.51 Score=33.12 Aligned_cols=44 Identities=27% Similarity=0.501 Sum_probs=32.2
Q ss_pred HHHHHHHHHCCCCC-----ChHHHHHHHHHHHcCCCeEEEcCCCCchhH
Q psy7268 48 PEIIDIFTKRGLTT-----PTEIQKYSIPTLLSGKSAILVAETGCGKTL 91 (134)
Q Consensus 48 ~~i~~~l~~~g~~~-----~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~ 91 (134)
+++++..+++||+- -+......+...+.++-+++.+++|.||+.
T Consensus 2 ~~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~~k~~vl~G~SGvGKSS 50 (161)
T PF03193_consen 2 EELLEQYEKLGYPVFFISAKTGEGIEELKELLKGKTSVLLGQSGVGKSS 50 (161)
T ss_dssp HHHHHHHHHTTSEEEE-BTTTTTTHHHHHHHHTTSEEEEECSTTSSHHH
T ss_pred HHHHHHHHHcCCcEEEEeCCCCcCHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 45667777777751 133445666677888999999999999983
No 300
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.32 E-value=1.4 Score=35.47 Aligned_cols=19 Identities=32% Similarity=0.555 Sum_probs=15.7
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
++-+++.||+|+|||....
T Consensus 206 ~~ii~lvGptGvGKTTt~a 224 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLV 224 (407)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4568899999999997754
No 301
>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=90.32 E-value=0.25 Score=35.12 Aligned_cols=26 Identities=27% Similarity=0.415 Sum_probs=20.8
Q ss_pred HHHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 68 YSIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 68 ~~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
.++..++.|.| +++-+.||+|||...
T Consensus 14 ~~v~~~~~G~n~~i~~yG~tGsGKT~Tm 41 (186)
T cd01363 14 PLLQSALDGYNVCIFAYGQTGSGKTYTM 41 (186)
T ss_pred HHHHHHhCCcceeEEEECCCCCcceEec
Confidence 56677788876 778899999999553
No 302
>KOG0745|consensus
Probab=90.31 E-value=0.17 Score=41.22 Aligned_cols=17 Identities=41% Similarity=0.604 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.|+++.+|||||||+..
T Consensus 227 SNvLllGPtGsGKTlla 243 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTLLA 243 (564)
T ss_pred ccEEEECCCCCchhHHH
Confidence 36999999999999754
No 303
>KOG0733|consensus
Probab=90.24 E-value=0.29 Score=41.44 Aligned_cols=51 Identities=20% Similarity=0.347 Sum_probs=30.7
Q ss_pred CcccCCCCHHHHHHHHHC--CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 40 TFEDTGLAPEIIDIFTKR--GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~--g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
+|+++|=-+..+..|.++ ...+|-.+++.- +.--+.+++++|+|+|||...
T Consensus 188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lG---v~PprGvLlHGPPGCGKT~lA 240 (802)
T KOG0733|consen 188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLG---VRPPRGVLLHGPPGCGKTSLA 240 (802)
T ss_pred chhhccChHHHHHHHHHHHHHhcCchhHhhcC---CCCCCceeeeCCCCccHHHHH
Confidence 677777556666555553 233333332221 112467999999999999654
No 304
>KOG2340|consensus
Probab=90.11 E-value=0.83 Score=38.11 Aligned_cols=74 Identities=18% Similarity=0.231 Sum_probs=52.8
Q ss_pred CCChHHHHHHHHHHHcCCCeEEEcC-CCCch--hHHhHHHHHHHHHhhcC-------------------CCCCCCCCCCc
Q psy7268 60 TTPTEIQKYSIPTLLSGKSAILVAE-TGCGK--TLSFLAPLVQQILTWKS-------------------RPEYKPELNAP 117 (134)
Q Consensus 60 ~~~t~iQ~~~i~~~~~g~dvli~a~-tGsGK--T~~~~lpil~~~~~~~~-------------------~~~~~~~~~~~ 117 (134)
..+|+.|.+.+..+.+-+|++.... -+.|+ +-.|++=+|+++++... ....+.....|
T Consensus 215 ~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tRp 294 (698)
T KOG2340|consen 215 EPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTRP 294 (698)
T ss_pred CcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCCc
Confidence 4679999999999999999764322 23455 45688888998885422 11123344679
Q ss_pred EEEEEcCcHHHHHHhc
Q psy7268 118 LALIITPGRELVFQIG 133 (134)
Q Consensus 118 ~~lil~Pt~~La~Qi~ 133 (134)
++||++|+|+-|..|.
T Consensus 295 kVLivvpfRe~A~riV 310 (698)
T KOG2340|consen 295 KVLIVVPFRESAYRIV 310 (698)
T ss_pred eEEEEecchHHHHHHH
Confidence 9999999999988764
No 305
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.10 E-value=0.73 Score=33.36 Aligned_cols=24 Identities=29% Similarity=0.337 Sum_probs=17.8
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
|.-+.+.+++|+|||...+--+.+
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~ 46 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVE 46 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 556899999999999766444333
No 306
>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=89.90 E-value=0.6 Score=38.18 Aligned_cols=22 Identities=27% Similarity=0.250 Sum_probs=17.0
Q ss_pred cCCCeEEEcCCCCchhHHhHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAP 96 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lp 96 (134)
.|.-+++.+++|+|||...+--
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f 283 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKF 283 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHH
Confidence 4557999999999999765433
No 307
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=89.87 E-value=0.84 Score=31.06 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=16.9
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+.++|+.++|||.. +--++..+.+
T Consensus 3 v~VvG~~~sGKTTl-~~~Li~~l~~ 26 (140)
T PF03205_consen 3 VQVVGPKNSGKTTL-IRKLINELKR 26 (140)
T ss_dssp EEEEESTTSSHHHH-HHHHHHHHHH
T ss_pred EEEECCCCCCHHHH-HHHHHHHHhH
Confidence 67899999999955 3445555543
No 308
>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=89.79 E-value=0.87 Score=31.49 Aligned_cols=14 Identities=29% Similarity=0.302 Sum_probs=11.6
Q ss_pred eEEEcCCCCchhHH
Q psy7268 79 AILVAETGCGKTLS 92 (134)
Q Consensus 79 vli~a~tGsGKT~~ 92 (134)
+.+.|++|+|||..
T Consensus 2 i~i~G~~gsGKTtl 15 (155)
T TIGR00176 2 LQIVGPKNSGKTTL 15 (155)
T ss_pred EEEECCCCCCHHHH
Confidence 45789999999964
No 309
>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=89.74 E-value=0.62 Score=32.75 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=14.5
Q ss_pred CCCeEEEcCCCCchhHH
Q psy7268 76 GKSAILVAETGCGKTLS 92 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~ 92 (134)
++-++++||+|+||+..
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 56789999999999854
No 310
>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=89.59 E-value=0.29 Score=35.25 Aligned_cols=19 Identities=26% Similarity=0.378 Sum_probs=16.0
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.+..+++.|++|+|||...
T Consensus 37 ~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 4567999999999999665
No 311
>KOG0926|consensus
Probab=89.57 E-value=0.58 Score=40.85 Aligned_cols=33 Identities=33% Similarity=0.526 Sum_probs=22.3
Q ss_pred CCChHHHHHHH------------HHHHcCCCeEEEcCCCCchhHH
Q psy7268 60 TTPTEIQKYSI------------PTLLSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 60 ~~~t~iQ~~~i------------~~~~~g~dvli~a~tGsGKT~~ 92 (134)
.++.++|..-+ ..|..+--+||||.||||||.-
T Consensus 243 ~R~~EIQ~sR~~LPI~aeEq~IMEaIn~n~vvIIcGeTGsGKTTQ 287 (1172)
T KOG0926|consen 243 SRPAEIQESRLDLPIVAEEQRIMEAINENPVVIICGETGSGKTTQ 287 (1172)
T ss_pred cCcHHHHHHHhcCchhHHHHHHHHHhhcCCeEEEecCCCCCcccc
Confidence 35666765433 3333445589999999999964
No 312
>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=89.56 E-value=0.48 Score=38.44 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=19.8
Q ss_pred HHHHcCCCeEEEcCCCCchhHHhH
Q psy7268 71 PTLLSGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 71 ~~~~~g~dvli~a~tGsGKT~~~~ 94 (134)
+.+-++.|++..||+|+|||-.|.
T Consensus 204 ~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 204 PLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHhcCCcEEEECCCCCCHHHHHH
Confidence 445578899999999999996654
No 313
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=89.52 E-value=0.47 Score=39.00 Aligned_cols=31 Identities=26% Similarity=0.251 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHH-------cCCCeEEEcCCCCchhHHh
Q psy7268 63 TEIQKYSIPTLL-------SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 63 t~iQ~~~i~~~~-------~g~dvli~a~tGsGKT~~~ 93 (134)
++||......+. .|.-+.++||+|+|||...
T Consensus 12 r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLL 49 (504)
T TIGR03238 12 RKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEIL 49 (504)
T ss_pred hHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHH
Confidence 678887766553 5778999999999999654
No 314
>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=89.42 E-value=0.31 Score=34.07 Aligned_cols=18 Identities=28% Similarity=0.366 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
|+-+++.|++|+|||...
T Consensus 2 ~~~i~l~G~~gsGKst~a 19 (175)
T cd00227 2 GRIIILNGGSSAGKSSIA 19 (175)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 667899999999999774
No 315
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.37 E-value=0.88 Score=36.36 Aligned_cols=18 Identities=44% Similarity=0.597 Sum_probs=15.2
Q ss_pred CCeEEEcCCCCchhHHhH
Q psy7268 77 KSAILVAETGCGKTLSFL 94 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~ 94 (134)
+.+++.||||+|||.+..
T Consensus 175 ~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIA 192 (388)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 458899999999998864
No 316
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=89.28 E-value=0.29 Score=38.95 Aligned_cols=26 Identities=23% Similarity=0.494 Sum_probs=19.8
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|+-+++.+|+|||||..+ +.+.+-+
T Consensus 64 aGrgiLi~GppgTGKTAlA-~gIa~eL 89 (450)
T COG1224 64 AGRGILIVGPPGTGKTALA-MGIAREL 89 (450)
T ss_pred cccEEEEECCCCCcHHHHH-HHHHHHh
Confidence 5788999999999999544 5554444
No 317
>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=89.25 E-value=0.49 Score=36.72 Aligned_cols=24 Identities=21% Similarity=0.389 Sum_probs=17.8
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.++++.||+|+|||... -.++..+
T Consensus 41 ~~i~I~G~~GtGKT~l~-~~~~~~l 64 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVT-KYVMKEL 64 (365)
T ss_pred CcEEEECCCCCCHHHHH-HHHHHHH
Confidence 57999999999999654 3444444
No 318
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=89.22 E-value=0.92 Score=36.42 Aligned_cols=19 Identities=37% Similarity=0.506 Sum_probs=16.6
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
++-+.+.||||.|||....
T Consensus 203 ~~vi~LVGPTGVGKTTTlA 221 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLA 221 (407)
T ss_pred CcEEEEECCCCCcHHHHHH
Confidence 6779999999999998854
No 319
>PRK14530 adenylate kinase; Provisional
Probab=89.11 E-value=0.3 Score=35.31 Aligned_cols=19 Identities=26% Similarity=0.364 Sum_probs=15.9
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.+..+++.|++|||||...
T Consensus 2 ~~~~I~i~G~pGsGKsT~~ 20 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQS 20 (215)
T ss_pred CCCEEEEECCCCCCHHHHH
Confidence 4667999999999999664
No 320
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=89.04 E-value=0.3 Score=34.42 Aligned_cols=15 Identities=33% Similarity=0.468 Sum_probs=13.1
Q ss_pred CeEEEcCCCCchhHH
Q psy7268 78 SAILVAETGCGKTLS 92 (134)
Q Consensus 78 dvli~a~tGsGKT~~ 92 (134)
++++.+|||+|||..
T Consensus 5 ~~ll~GpsGvGKT~l 19 (171)
T PF07724_consen 5 NFLLAGPSGVGKTEL 19 (171)
T ss_dssp EEEEESSTTSSHHHH
T ss_pred EEEEECCCCCCHHHH
Confidence 578999999999964
No 321
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=89.02 E-value=0.24 Score=36.67 Aligned_cols=27 Identities=22% Similarity=0.315 Sum_probs=19.6
Q ss_pred HcCCCeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 74 LSGKSAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
..|.-+.|.+|+|||||.- +-++..+.
T Consensus 29 ~~Ge~vaI~GpSGSGKSTL--Lniig~ld 55 (226)
T COG1136 29 EAGEFVAIVGPSGSGKSTL--LNLLGGLD 55 (226)
T ss_pred cCCCEEEEECCCCCCHHHH--HHHHhccc
Confidence 4688899999999999853 34444443
No 322
>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=88.97 E-value=0.3 Score=38.89 Aligned_cols=26 Identities=19% Similarity=0.486 Sum_probs=18.0
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|+-+++.+|+|+|||... +.+.+.+
T Consensus 49 aGr~iLiaGppGtGKTAlA-~~ia~eL 74 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTALA-MAIAKEL 74 (398)
T ss_dssp TT-EEEEEE-TTSSHHHHH-HHHHHHC
T ss_pred cCcEEEEeCCCCCCchHHH-HHHHHHh
Confidence 5788999999999999544 5555544
No 323
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=88.95 E-value=0.3 Score=38.76 Aligned_cols=55 Identities=29% Similarity=0.289 Sum_probs=31.8
Q ss_pred CCCCCcccCCCCHHHHHHHHH---CCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTK---RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~---~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.|=.+|++.|=-++=++.+++ +-.++|--+++.-| ---+.|++.+|+|+|||+..
T Consensus 145 ~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI---~PPKGVLLYGPPGTGKTLLA 202 (406)
T COG1222 145 KPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGI---DPPKGVLLYGPPGTGKTLLA 202 (406)
T ss_pred CCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCC---CCCCceEeeCCCCCcHHHHH
Confidence 344578887744444444554 23333333322211 12357999999999999865
No 324
>KOG0989|consensus
Probab=88.95 E-value=0.91 Score=35.38 Aligned_cols=34 Identities=24% Similarity=0.135 Sum_probs=22.8
Q ss_pred HHHHHHHHHH---cC---CCeEEEcCCCCchhHHhHHHHH
Q psy7268 65 IQKYSIPTLL---SG---KSAILVAETGCGKTLSFLAPLV 98 (134)
Q Consensus 65 iQ~~~i~~~~---~g---~dvli~a~tGsGKT~~~~lpil 98 (134)
.|..+...+. .+ -+.+..||+|+|||-+.++..-
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar 79 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFAR 79 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHH
Confidence 3555554443 22 3689999999999988755443
No 325
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=88.89 E-value=1.1 Score=36.91 Aligned_cols=46 Identities=20% Similarity=0.420 Sum_probs=34.3
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
.+.++++|++.+.+.|.+ +.+.+++.+++|+||| .|.-++.+.+..
T Consensus 244 ~~ledY~L~dkl~eRL~e------------------raeGILIAG~PGaGKs-TFaqAlAefy~~ 289 (604)
T COG1855 244 LSLEDYGLSDKLKERLEE------------------RAEGILIAGAPGAGKS-TFAQALAEFYAS 289 (604)
T ss_pred echhhcCCCHHHHHHHHh------------------hhcceEEecCCCCChh-HHHHHHHHHHHh
Confidence 356677888888877765 2356899999999998 566777777664
No 326
>PRK00131 aroK shikimate kinase; Reviewed
Probab=88.89 E-value=0.3 Score=33.49 Aligned_cols=19 Identities=26% Similarity=0.396 Sum_probs=16.3
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.+..+++.|++|||||...
T Consensus 3 ~~~~i~l~G~~GsGKstla 21 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTIG 21 (175)
T ss_pred CCCeEEEEcCCCCCHHHHH
Confidence 4667999999999999774
No 327
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=88.84 E-value=0.32 Score=37.54 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=13.8
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
+=++|.||||||||-..
T Consensus 5 ~ii~I~GpTasGKS~LA 21 (300)
T PRK14729 5 KIVFIFGPTAVGKSNIL 21 (300)
T ss_pred cEEEEECCCccCHHHHH
Confidence 34788999999999654
No 328
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=88.78 E-value=0.54 Score=37.22 Aligned_cols=24 Identities=25% Similarity=0.414 Sum_probs=17.3
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
++++-|+||+|||... --++..+.
T Consensus 44 n~~iyG~~GTGKT~~~-~~v~~~l~ 67 (366)
T COG1474 44 NIIIYGPTGTGKTATV-KFVMEELE 67 (366)
T ss_pred cEEEECCCCCCHhHHH-HHHHHHHH
Confidence 6999999999999774 23344443
No 329
>KOG1806|consensus
Probab=88.73 E-value=0.69 Score=41.24 Aligned_cols=64 Identities=19% Similarity=0.150 Sum_probs=45.6
Q ss_pred CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 58 GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 58 g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
++-..|+-|-++|-.-..-.++++.+|+|+|||-..+ =++..++... ...+++|++.+..--+|
T Consensus 735 n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~av-qil~~lyhn~---------p~qrTlivthsnqaln~ 798 (1320)
T KOG1806|consen 735 NQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAV-QILSVLYHNS---------PNQRTLIVTHSNQALNQ 798 (1320)
T ss_pred chhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhh-hhhhhhhhcC---------CCcceEEEEecccchhH
Confidence 4446688999988777777899999999999997763 3444443322 56788888876544444
No 330
>PRK07261 topology modulation protein; Provisional
Probab=88.62 E-value=0.34 Score=33.95 Aligned_cols=16 Identities=19% Similarity=0.335 Sum_probs=13.6
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+++.|++|+|||...
T Consensus 2 ri~i~G~~GsGKSTla 17 (171)
T PRK07261 2 KIAIIGYSGSGKSTLA 17 (171)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 3789999999999765
No 331
>PRK08118 topology modulation protein; Reviewed
Probab=88.61 E-value=0.34 Score=33.85 Aligned_cols=15 Identities=33% Similarity=0.547 Sum_probs=13.0
Q ss_pred CeEEEcCCCCchhHH
Q psy7268 78 SAILVAETGCGKTLS 92 (134)
Q Consensus 78 dvli~a~tGsGKT~~ 92 (134)
.++|.|++|+|||..
T Consensus 3 rI~I~G~~GsGKSTl 17 (167)
T PRK08118 3 KIILIGSGGSGKSTL 17 (167)
T ss_pred EEEEECCCCCCHHHH
Confidence 478999999999964
No 332
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=88.60 E-value=0.53 Score=36.34 Aligned_cols=25 Identities=28% Similarity=0.510 Sum_probs=18.5
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
.+..++.|.| ++..|+||||||.+.
T Consensus 66 ~v~~~l~G~n~~i~ayG~tgSGKT~Tm 92 (335)
T PF00225_consen 66 LVDSVLDGYNATIFAYGQTGSGKTYTM 92 (335)
T ss_dssp HHHHHHTT-EEEEEEEESTTSSHHHHH
T ss_pred HHHHhhcCCceEEEeeccccccccccc
Confidence 3445678987 777899999999764
No 333
>KOG0920|consensus
Probab=88.53 E-value=3.1 Score=36.88 Aligned_cols=41 Identities=17% Similarity=0.389 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 63 TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 63 t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+..+...+..+.+..-++|.|.||+|||.=.---+++....
T Consensus 175 ~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~ 215 (924)
T KOG0920|consen 175 YKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIE 215 (924)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHh
Confidence 56778888888889999999999999998765556665544
No 334
>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=88.52 E-value=0.93 Score=36.77 Aligned_cols=17 Identities=35% Similarity=0.520 Sum_probs=15.1
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
+++++.+|+|+|||...
T Consensus 48 ~~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIA 64 (441)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 68999999999999764
No 335
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=88.52 E-value=1.1 Score=31.45 Aligned_cols=27 Identities=22% Similarity=0.286 Sum_probs=19.0
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|.=+++.|++|+|||...+--+....
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~ 57 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALA 57 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 466689999999999966543333333
No 336
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=88.51 E-value=1.4 Score=35.75 Aligned_cols=43 Identities=19% Similarity=0.159 Sum_probs=27.1
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
+.+++.|++|+|||- .+-.+.+.+.... .+.+++++.. .++..
T Consensus 142 npl~i~G~~G~GKTH-Ll~Ai~~~l~~~~---------~~~~v~yv~~-~~f~~ 184 (450)
T PRK14087 142 NPLFIYGESGMGKTH-LLKAAKNYIESNF---------SDLKVSYMSG-DEFAR 184 (450)
T ss_pred CceEEECCCCCcHHH-HHHHHHHHHHHhC---------CCCeEEEEEH-HHHHH
Confidence 358999999999993 3355566554321 3556777654 34433
No 337
>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=88.50 E-value=1 Score=35.81 Aligned_cols=38 Identities=16% Similarity=0.243 Sum_probs=24.9
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+.+++.|++|+|||... ..+...+.... .+.+++++..
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~---------~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENN---------PNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhC---------CCCcEEEEEH
Confidence 35889999999999654 55555554421 2456677643
No 338
>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=88.49 E-value=0.41 Score=41.09 Aligned_cols=53 Identities=25% Similarity=0.296 Sum_probs=31.0
Q ss_pred CCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 38 LGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-.+|++++..+.+.+.|.+. .+.++.-.+.. .+...+.+++.||+|+|||+..
T Consensus 449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~---g~~~~~giLL~GppGtGKT~la 504 (733)
T TIGR01243 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKM---GIRPPKGVLLFGPPGTGKTLLA 504 (733)
T ss_pred ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhc---CCCCCceEEEECCCCCCHHHHH
Confidence 34677777777777666652 22222111111 0112356999999999999764
No 339
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=88.47 E-value=1 Score=36.44 Aligned_cols=38 Identities=16% Similarity=0.198 Sum_probs=25.1
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
+.+++.|++|+|||-.. ..+.+.+.+.. .+.+++++..
T Consensus 131 n~l~lyG~~G~GKTHLl-~ai~~~l~~~~---------~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLL-QSIGNYVVQNE---------PDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHH-HHHHHHHHHhC---------CCCeEEEEEH
Confidence 35999999999999544 55566554421 2446777653
No 340
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=88.45 E-value=1.1 Score=30.93 Aligned_cols=15 Identities=40% Similarity=0.532 Sum_probs=12.9
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.+++|+|||...
T Consensus 3 ~~~~G~~G~GKTt~~ 17 (173)
T cd03115 3 ILLVGLQGVGKTTTA 17 (173)
T ss_pred EEEECCCCCCHHHHH
Confidence 578899999999775
No 341
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=88.39 E-value=0.87 Score=39.68 Aligned_cols=17 Identities=29% Similarity=0.600 Sum_probs=14.5
Q ss_pred CeEEEcCCCCchhHHhH
Q psy7268 78 SAILVAETGCGKTLSFL 94 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~ 94 (134)
+.+|+||||+|||.-.-
T Consensus 438 hT~I~G~tGaGKTvLl~ 454 (796)
T COG3451 438 HTLIIGPTGAGKTVLLS 454 (796)
T ss_pred CeEEECCCCCCHHHHHH
Confidence 78999999999996543
No 342
>KOG0060|consensus
Probab=88.37 E-value=0.31 Score=40.83 Aligned_cols=20 Identities=35% Similarity=0.713 Sum_probs=17.5
Q ss_pred HHcCCCeEEEcCCCCchhHH
Q psy7268 73 LLSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~ 92 (134)
+.+|.+++|++|+|+|||--
T Consensus 458 V~~g~~LLItG~sG~GKtSL 477 (659)
T KOG0060|consen 458 VPSGQNLLITGPSGCGKTSL 477 (659)
T ss_pred ecCCCeEEEECCCCCchhHH
Confidence 45899999999999999954
No 343
>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=88.36 E-value=0.32 Score=33.32 Aligned_cols=15 Identities=27% Similarity=0.406 Sum_probs=12.3
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
++++|++|+|||...
T Consensus 1 i~l~G~~GsGKSTla 15 (163)
T TIGR01313 1 FVLMGVAGSGKSTIA 15 (163)
T ss_pred CEEECCCCCCHHHHH
Confidence 468899999999653
No 344
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.35 E-value=0.91 Score=37.23 Aligned_cols=27 Identities=37% Similarity=0.537 Sum_probs=19.5
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|.-+++.|++|+|||...+--+.+.+
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~ 56 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGI 56 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 466799999999999976544444444
No 345
>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=88.19 E-value=0.37 Score=38.80 Aligned_cols=17 Identities=41% Similarity=0.612 Sum_probs=14.9
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.++++.+|||+|||...
T Consensus 117 ~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLA 133 (413)
T ss_pred ceEEEECCCCcCHHHHH
Confidence 36999999999999775
No 346
>PLN03025 replication factor C subunit; Provisional
Probab=88.18 E-value=0.86 Score=35.04 Aligned_cols=17 Identities=41% Similarity=0.520 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.++++.||+|+|||...
T Consensus 35 ~~lll~Gp~G~GKTtla 51 (319)
T PLN03025 35 PNLILSGPPGTGKTTSI 51 (319)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 36899999999999654
No 347
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=88.18 E-value=0.38 Score=38.71 Aligned_cols=17 Identities=41% Similarity=0.612 Sum_probs=15.0
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.++++.||||+|||...
T Consensus 109 ~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 109 SNILLIGPTGSGKTLLA 125 (412)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 56999999999999775
No 348
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=88.18 E-value=1.4 Score=33.87 Aligned_cols=41 Identities=20% Similarity=0.195 Sum_probs=27.4
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEc--CcHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIIT--PGRELVF 130 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~--Pt~~La~ 130 (134)
=+++.|+-|.|||.+...-.+.... .|.++++++ |...|+.
T Consensus 3 ~~~~~GKGGVGKTT~aaA~A~~~A~------------~G~rtLlvS~Dpa~~L~d 45 (305)
T PF02374_consen 3 ILFFGGKGGVGKTTVAAALALALAR------------RGKRTLLVSTDPAHSLSD 45 (305)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH------------TTS-EEEEESSTTTHHHH
T ss_pred EEEEecCCCCCcHHHHHHHHHHHhh------------CCCCeeEeecCCCccHHH
Confidence 3678999999999988665555443 455677665 5555543
No 349
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=88.12 E-value=3.1 Score=33.26 Aligned_cols=26 Identities=19% Similarity=0.286 Sum_probs=18.1
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|.=+++.|++|+|||... +-+...+
T Consensus 193 ~g~liviag~pg~GKT~~a-l~ia~~~ 218 (421)
T TIGR03600 193 KGDLIVIGARPSMGKTTLA-LNIAENV 218 (421)
T ss_pred CCceEEEEeCCCCCHHHHH-HHHHHHH
Confidence 4556888999999999554 4444333
No 350
>PF14516 AAA_35: AAA-like domain
Probab=88.11 E-value=2.3 Score=33.07 Aligned_cols=39 Identities=18% Similarity=0.222 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHc-CCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 64 EIQKYSIPTLLS-GKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 64 ~iQ~~~i~~~~~-g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
++.+.++..+.+ |.-+.|.||-.+|||.. +.-+++++..
T Consensus 18 ~~e~~~~~~i~~~G~~~~I~apRq~GKTSl-l~~l~~~l~~ 57 (331)
T PF14516_consen 18 PAEQECYQEIVQPGSYIRIKAPRQMGKTSL-LLRLLERLQQ 57 (331)
T ss_pred HHHHHHHHHHhcCCCEEEEECcccCCHHHH-HHHHHHHHHH
Confidence 588899999887 99999999999999944 4556666643
No 351
>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=88.09 E-value=0.38 Score=38.72 Aligned_cols=28 Identities=29% Similarity=0.542 Sum_probs=22.3
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
.|+.++|.+.+|+|||+ |.+-++..+..
T Consensus 9 ~G~TLLIKG~PGTGKTt-faLelL~~l~~ 36 (484)
T PF07088_consen 9 PGQTLLIKGEPGTGKTT-FALELLNSLKD 36 (484)
T ss_pred CCcEEEEecCCCCCcee-eehhhHHHHhc
Confidence 47889999999999995 44677777754
No 352
>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=88.05 E-value=0.39 Score=33.43 Aligned_cols=17 Identities=24% Similarity=0.419 Sum_probs=14.3
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
+-+++.|++|+|||...
T Consensus 2 ~~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLL 18 (179)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 44789999999999775
No 353
>PRK00300 gmk guanylate kinase; Provisional
Probab=87.96 E-value=0.43 Score=33.93 Aligned_cols=18 Identities=28% Similarity=0.446 Sum_probs=15.2
Q ss_pred cCCCeEEEcCCCCchhHH
Q psy7268 75 SGKSAILVAETGCGKTLS 92 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~ 92 (134)
.|+-+++.||+|+|||..
T Consensus 4 ~g~~i~i~G~sGsGKstl 21 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTL 21 (205)
T ss_pred CCCEEEEECCCCCCHHHH
Confidence 467789999999999954
No 354
>PRK06620 hypothetical protein; Validated
Probab=87.86 E-value=0.35 Score=35.28 Aligned_cols=17 Identities=18% Similarity=0.215 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
+.+++.||+|+|||-..
T Consensus 45 ~~l~l~Gp~G~GKThLl 61 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLT 61 (214)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 45899999999999654
No 355
>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=87.86 E-value=0.45 Score=31.44 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=15.9
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.|.-+.+.|++|+|||...
T Consensus 10 ~g~~~~i~G~nGsGKStLl 28 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLL 28 (137)
T ss_dssp TTSEEEEEESTTSSHHHHH
T ss_pred CCCEEEEEccCCCccccce
Confidence 5777899999999999543
No 356
>PLN02165 adenylate isopentenyltransferase
Probab=87.82 E-value=0.46 Score=37.22 Aligned_cols=20 Identities=25% Similarity=0.429 Sum_probs=16.1
Q ss_pred cCCCeEEEcCCCCchhHHhH
Q psy7268 75 SGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~ 94 (134)
.|.-+++.||||+|||....
T Consensus 42 ~g~iivIiGPTGSGKStLA~ 61 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRLSV 61 (334)
T ss_pred CCCEEEEECCCCCcHHHHHH
Confidence 35568899999999997663
No 357
>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=87.80 E-value=0.64 Score=36.22 Aligned_cols=25 Identities=28% Similarity=0.450 Sum_probs=19.4
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
.+..++.|.+ ++.-|+||||||...
T Consensus 79 lv~~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 79 LVDGVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred HHHHHHCCCCceEEeeCCCCCCCeEEE
Confidence 3445568886 788899999999875
No 358
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=87.79 E-value=1.2 Score=36.03 Aligned_cols=20 Identities=35% Similarity=0.398 Sum_probs=15.5
Q ss_pred CeEEEcCCCCchhHHhHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPL 97 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpi 97 (134)
-+++.+|+|+|||....--+
T Consensus 225 vi~lvGptGvGKTTtaaKLA 244 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLA 244 (432)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 37789999999998764433
No 359
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=87.79 E-value=1.3 Score=35.85 Aligned_cols=26 Identities=23% Similarity=0.305 Sum_probs=18.9
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+.+++.||+|+|||... -.+...+.+
T Consensus 149 ~~l~l~G~~G~GKThL~-~ai~~~~~~ 174 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL-HAIGNYILE 174 (450)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHH
Confidence 45899999999999554 455555543
No 360
>PF05729 NACHT: NACHT domain
Probab=87.78 E-value=0.41 Score=32.24 Aligned_cols=24 Identities=29% Similarity=0.410 Sum_probs=17.6
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
++|.|+.|+|||... --++..+..
T Consensus 3 l~I~G~~G~GKStll-~~~~~~~~~ 26 (166)
T PF05729_consen 3 LWISGEPGSGKSTLL-RKLAQQLAE 26 (166)
T ss_pred EEEECCCCCChHHHH-HHHHHHHHh
Confidence 689999999999654 455555544
No 361
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=87.75 E-value=1.5 Score=30.01 Aligned_cols=15 Identities=20% Similarity=0.273 Sum_probs=12.2
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+.+.|+.|+|||...
T Consensus 2 i~~~G~~GsGKTt~~ 16 (148)
T cd03114 2 IGITGVPGAGKSTLI 16 (148)
T ss_pred EEEECCCCCcHHHHH
Confidence 467899999999654
No 362
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=87.74 E-value=0.33 Score=41.66 Aligned_cols=53 Identities=25% Similarity=0.291 Sum_probs=31.4
Q ss_pred CCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 38 LGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 38 ~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-.+|++++-.+...+.+.+. .+.+|.-.+.. .+..++.+++.||+|+|||...
T Consensus 174 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~---gi~~~~giLL~GppGtGKT~la 229 (733)
T TIGR01243 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHL---GIEPPKGVLLYGPPGTGKTLLA 229 (733)
T ss_pred CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhc---CCCCCceEEEECCCCCChHHHH
Confidence 35677777666666666553 12121111111 1224678999999999999653
No 363
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=87.64 E-value=0.95 Score=40.24 Aligned_cols=56 Identities=30% Similarity=0.255 Sum_probs=40.5
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.|+++|-..=-.+..|+ |....||-|||++..+|+.-..+ .|..+-||+-+-.||.
T Consensus 138 ~~ydVQLiGgivLh~G~--IAEM~TGEGKTLvatlp~yLnAL------------~G~gVHvVTvNDYLA~ 193 (1025)
T PRK12900 138 VPYDVQLIGGIVLHSGK--ISEMATGEGKTLVSTLPTFLNAL------------TGRGVHVVTVNDYLAQ 193 (1025)
T ss_pred cccchHHhhhHHhhcCC--ccccCCCCCcchHhHHHHHHHHH------------cCCCcEEEeechHhhh
Confidence 57778766655555554 57899999999999999866665 3445677777767764
No 364
>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=87.54 E-value=0.46 Score=32.08 Aligned_cols=14 Identities=29% Similarity=0.508 Sum_probs=11.9
Q ss_pred eEEEcCCCCchhHH
Q psy7268 79 AILVAETGCGKTLS 92 (134)
Q Consensus 79 vli~a~tGsGKT~~ 92 (134)
+++.||+|+|||..
T Consensus 2 i~i~GpsGsGKstl 15 (137)
T cd00071 2 IVLSGPSGVGKSTL 15 (137)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999963
No 365
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=87.46 E-value=0.55 Score=36.27 Aligned_cols=25 Identities=28% Similarity=0.437 Sum_probs=19.4
Q ss_pred HHHHHHHcCCC--eEEEcCCCCchhHH
Q psy7268 68 YSIPTLLSGKS--AILVAETGCGKTLS 92 (134)
Q Consensus 68 ~~i~~~~~g~d--vli~a~tGsGKT~~ 92 (134)
..++.++.|.+ ++..|+||||||..
T Consensus 67 ~~v~~~~~G~n~~i~ayG~tgSGKT~T 93 (325)
T cd01369 67 PIVDDVLNGYNGTIFAYGQTGSGKTYT 93 (325)
T ss_pred HHHHHHHcCccceEEEeCCCCCCceEE
Confidence 34455678886 78889999999977
No 366
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=87.42 E-value=1 Score=39.16 Aligned_cols=18 Identities=28% Similarity=0.530 Sum_probs=15.3
Q ss_pred CeEEEcCCCCchhHHhHH
Q psy7268 78 SAILVAETGCGKTLSFLA 95 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~l 95 (134)
+.+|.|+||+|||...-.
T Consensus 443 n~~I~G~tGsGKS~l~~~ 460 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLAL 460 (811)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 789999999999977544
No 367
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=87.40 E-value=1.2 Score=37.65 Aligned_cols=46 Identities=24% Similarity=0.412 Sum_probs=28.8
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHH----HHHcCCCeEEEcCCCCchhHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIP----TLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~----~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.+=+++.+++.+++.+. | |..+.. .+..++++++.+++|+|||...
T Consensus 5 ~~~~~~~~~~~~~~~vi--G-------~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la 54 (608)
T TIGR00764 5 ETTEEIPVPERLIDQVI--G-------QEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLA 54 (608)
T ss_pred ccccccCcchhhHhhcc--C-------HHHHHHHHHHHHHcCCCEEEECCCCCCHHHHH
Confidence 34456666665554432 1 223222 3446789999999999999664
No 368
>PHA02533 17 large terminase protein; Provisional
Probab=87.36 E-value=3.3 Score=34.49 Aligned_cols=63 Identities=11% Similarity=-0.001 Sum_probs=46.6
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
.+.|.|...+..+..++-.++..+=..|||.....-.+...... .+.++++++|+++-|..+.
T Consensus 59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~----------~~~~v~i~A~~~~QA~~vF 121 (534)
T PHA02533 59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFN----------KDKNVGILAHKASMAAEVL 121 (534)
T ss_pred CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhC----------CCCEEEEEeCCHHHHHHHH
Confidence 57889999998776666667888889999988765444444321 3558999999998877654
No 369
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=87.35 E-value=1.3 Score=35.79 Aligned_cols=19 Identities=32% Similarity=0.536 Sum_probs=15.5
Q ss_pred CCeEEEcCCCCchhHHhHH
Q psy7268 77 KSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~l 95 (134)
+.+.+.||+|+|||.....
T Consensus 242 ~vI~LVGptGvGKTTTiaK 260 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAK 260 (436)
T ss_pred cEEEEECCCCCcHHHHHHH
Confidence 4678999999999977543
No 370
>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=87.34 E-value=0.55 Score=36.74 Aligned_cols=25 Identities=32% Similarity=0.454 Sum_probs=19.2
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
.+..++.|.+ ++.-|.||||||.+.
T Consensus 80 ~v~~~l~G~n~ti~aYGqtGSGKTyTm 106 (345)
T cd01368 80 LVQDLLKGKNSLLFTYGVTNSGKTYTM 106 (345)
T ss_pred HHHHHhCCCceEEEEeCCCCCCCeEEe
Confidence 3445668886 777899999999774
No 371
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=87.33 E-value=0.55 Score=36.80 Aligned_cols=24 Identities=21% Similarity=0.439 Sum_probs=18.8
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
+..++.|.+ ++..|+||||||...
T Consensus 81 v~~~l~G~n~~i~ayGqtGSGKT~Tm 106 (356)
T cd01365 81 LDHAFEGYNVCLFAYGQTGSGKSYTM 106 (356)
T ss_pred HHHHhCCCceEEEEecCCCCCCeEEe
Confidence 445678886 777899999999854
No 372
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=87.31 E-value=0.61 Score=35.98 Aligned_cols=25 Identities=40% Similarity=0.672 Sum_probs=19.6
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
.++.++.|.| ++..|.||||||...
T Consensus 72 lv~~~~~G~n~~i~ayG~tgSGKTyTm 98 (319)
T cd01376 72 IVPHLLSGQNATVFAYGSTGAGKTHTM 98 (319)
T ss_pred HHHHHhCCCceEEEEECCCCCCCcEEE
Confidence 4455678887 677799999999864
No 373
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=87.29 E-value=3.4 Score=35.96 Aligned_cols=19 Identities=37% Similarity=0.371 Sum_probs=15.2
Q ss_pred CCeEEEcCCCCchhHHhHH
Q psy7268 77 KSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~l 95 (134)
+-+.+.||||+|||.+...
T Consensus 186 ~Vi~lVGpnGvGKTTTiaK 204 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAK 204 (767)
T ss_pred eEEEEECCCCCcHHHHHHH
Confidence 3478999999999987643
No 374
>KOG0733|consensus
Probab=87.26 E-value=0.51 Score=40.04 Aligned_cols=54 Identities=24% Similarity=0.323 Sum_probs=29.5
Q ss_pred CCCCcccCCCCHHHHHHHHHC---CCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 37 DLGTFEDTGLAPEIIDIFTKR---GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 37 ~~~~f~~~~l~~~i~~~l~~~---g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
|=.+|++.|=-+++...|... -.++|.-+++.-+ -.-..+++++|+|+|||+..
T Consensus 506 PdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi---~~PsGvLL~GPPGCGKTLlA 562 (802)
T KOG0733|consen 506 PDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGI---DAPSGVLLCGPPGCGKTLLA 562 (802)
T ss_pred CCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCC---CCCCceEEeCCCCccHHHHH
Confidence 334666666555555444432 2333322222111 11335999999999999865
No 375
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=87.25 E-value=1.4 Score=33.35 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCchhHHhH
Q psy7268 77 KSAILVAETGCGKTLSFL 94 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~ 94 (134)
+-+++.+++|+|||....
T Consensus 73 ~vi~l~G~~G~GKTTt~a 90 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIA 90 (272)
T ss_pred eEEEEECCCCCcHHHHHH
Confidence 347788999999998754
No 376
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=87.15 E-value=0.55 Score=36.33 Aligned_cols=26 Identities=35% Similarity=0.612 Sum_probs=19.6
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHhH
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSFL 94 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~~ 94 (134)
.+..++.|.| ++.-|+||||||.+..
T Consensus 76 lv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 76 LIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred HHHHHhCCCceEEEeccCCCCCCceEec
Confidence 3445667876 7777999999998753
No 377
>KOG1942|consensus
Probab=87.15 E-value=0.68 Score=36.13 Aligned_cols=26 Identities=27% Similarity=0.507 Sum_probs=20.3
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
+|+-+++.+|+|+|||... +.+-+-+
T Consensus 63 aGravLlaGppgtGKTAlA-laisqEL 88 (456)
T KOG1942|consen 63 AGRAVLLAGPPGTGKTALA-LAISQEL 88 (456)
T ss_pred cCcEEEEecCCCCchhHHH-HHHHHHh
Confidence 7899999999999999554 5554444
No 378
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=87.08 E-value=0.48 Score=37.16 Aligned_cols=24 Identities=17% Similarity=0.408 Sum_probs=17.6
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.++++.||+|+|||... --++..+
T Consensus 56 ~~~lI~G~~GtGKT~l~-~~v~~~l 79 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTV-KKVFEEL 79 (394)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHH
Confidence 57999999999999764 3334443
No 379
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=86.98 E-value=1.2 Score=34.48 Aligned_cols=46 Identities=11% Similarity=0.122 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHCCCCCChHHHHHHHHHHHcCC---CeEEEcCCCCchhHH
Q psy7268 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGK---SAILVAETGCGKTLS 92 (134)
Q Consensus 46 l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~---dvli~a~tGsGKT~~ 92 (134)
|.+.+.+.|.+.++..+.+- ...|..+...+ -+++.|++|+|||..
T Consensus 60 l~~~V~~~L~~~~~~~~~~~-y~~~~~i~~~~~p~iIlI~G~sgsGKStl 108 (301)
T PRK04220 60 LRRRVYYKLIEKDYEEVAEK-YLLWRRIRKSKEPIIILIGGASGVGTSTI 108 (301)
T ss_pred HHHHHHHHHHHhCcHhHHHH-HHHHHHHhcCCCCEEEEEECCCCCCHHHH
Confidence 44566677777777654332 33333344322 388899999999974
No 380
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=86.76 E-value=1.9 Score=33.61 Aligned_cols=26 Identities=19% Similarity=0.263 Sum_probs=18.8
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.|+-+.+.+|+|+|||...+..+.+.
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~ 79 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEA 79 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence 34568899999999997765444443
No 381
>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=86.72 E-value=0.55 Score=32.64 Aligned_cols=17 Identities=24% Similarity=0.442 Sum_probs=13.9
Q ss_pred CCCeEEEcCCCCchhHH
Q psy7268 76 GKSAILVAETGCGKTLS 92 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~ 92 (134)
|+=+++.||+|+|||..
T Consensus 1 g~ii~l~G~~GsGKsTl 17 (180)
T TIGR03263 1 GLLIVISGPSGVGKSTL 17 (180)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 44578999999999964
No 382
>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=86.69 E-value=0.91 Score=31.86 Aligned_cols=19 Identities=37% Similarity=0.497 Sum_probs=15.4
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
....|++.+++|+||++..
T Consensus 21 ~~~pVlI~GE~GtGK~~lA 39 (168)
T PF00158_consen 21 SDLPVLITGETGTGKELLA 39 (168)
T ss_dssp STS-EEEECSTTSSHHHHH
T ss_pred CCCCEEEEcCCCCcHHHHH
Confidence 4567999999999999764
No 383
>KOG0731|consensus
Probab=86.62 E-value=0.48 Score=40.91 Aligned_cols=51 Identities=25% Similarity=0.307 Sum_probs=30.5
Q ss_pred CcccCCCCHHHHHHHHHC-CC-CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 40 TFEDTGLAPEIIDIFTKR-GL-TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 40 ~f~~~~l~~~i~~~l~~~-g~-~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
+|.+.---++..+.|.+. .| ++|-..|.. -+.-=+-+++++|+|+|||+.+
T Consensus 309 ~FkDVAG~deAK~El~E~V~fLKNP~~Y~~l---GAKiPkGvLL~GPPGTGKTLLA 361 (774)
T KOG0731|consen 309 KFKDVAGVDEAKEELMEFVKFLKNPEQYQEL---GAKIPKGVLLVGPPGTGKTLLA 361 (774)
T ss_pred ccccccCcHHHHHHHHHHHHHhcCHHHHHHc---CCcCcCceEEECCCCCcHHHHH
Confidence 566655555666555553 23 333333332 1122357999999999999875
No 384
>PRK09354 recA recombinase A; Provisional
Probab=86.59 E-value=1.4 Score=34.67 Aligned_cols=26 Identities=19% Similarity=0.253 Sum_probs=19.2
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
|+-+.+.+|+|+|||...+..+.+..
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~ 85 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQ 85 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 45688999999999977755544443
No 385
>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=86.56 E-value=1.2 Score=32.02 Aligned_cols=24 Identities=33% Similarity=0.419 Sum_probs=17.8
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
|.=+.+.+++|+|||...+.-+..
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~ 42 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVE 42 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHH
Confidence 556889999999999776544333
No 386
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=86.52 E-value=0.54 Score=36.36 Aligned_cols=16 Identities=31% Similarity=0.362 Sum_probs=13.6
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
=++++||||+|||...
T Consensus 6 ~i~i~GptgsGKt~la 21 (307)
T PRK00091 6 VIVIVGPTASGKTALA 21 (307)
T ss_pred EEEEECCCCcCHHHHH
Confidence 4788999999999665
No 387
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=86.50 E-value=0.51 Score=35.01 Aligned_cols=19 Identities=21% Similarity=0.515 Sum_probs=15.6
Q ss_pred HcCCCeEEEcCCCCchhHH
Q psy7268 74 LSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~ 92 (134)
..|.-+.+++|+|||||..
T Consensus 26 ~~Gevv~iiGpSGSGKSTl 44 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTL 44 (240)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 3567789999999999853
No 388
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=86.42 E-value=1.6 Score=33.93 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=13.6
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+.+.||+|+|||...
T Consensus 116 vi~lvGpnGsGKTTt~ 131 (318)
T PRK10416 116 VILVVGVNGVGKTTTI 131 (318)
T ss_pred EEEEECCCCCcHHHHH
Confidence 4778899999999775
No 389
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=86.42 E-value=0.54 Score=32.73 Aligned_cols=15 Identities=20% Similarity=0.488 Sum_probs=12.8
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
.++.|++|+|||..+
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 567899999999775
No 390
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=86.38 E-value=1.3 Score=35.95 Aligned_cols=26 Identities=23% Similarity=0.310 Sum_probs=18.9
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~~~ 103 (134)
+.+++.|++|+|||-.. -.+...+..
T Consensus 142 npl~L~G~~G~GKTHLl-~Ai~~~l~~ 167 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLM-QAAVHALRE 167 (445)
T ss_pred ceEEEEcCCCCCHHHHH-HHHHHHHHH
Confidence 45899999999999543 466666543
No 391
>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=86.34 E-value=1.6 Score=34.05 Aligned_cols=24 Identities=21% Similarity=0.290 Sum_probs=17.6
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
|+-+.+.+|+|+|||...+..+.+
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~ 78 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAE 78 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 456889999999999665444433
No 392
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=86.34 E-value=0.62 Score=36.30 Aligned_cols=24 Identities=33% Similarity=0.520 Sum_probs=18.2
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
+..++.|.+ ++.-|.||||||...
T Consensus 67 v~~~~~G~n~ti~aYGqTGSGKTyTm 92 (337)
T cd01373 67 VEDCLSGYNGSIFAYGQTGSGKTYTM 92 (337)
T ss_pred HHHHhCCCceeEEEeCCCCCCceEEe
Confidence 345568887 778899999999553
No 393
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=86.30 E-value=1.3 Score=39.71 Aligned_cols=56 Identities=25% Similarity=0.191 Sum_probs=39.4
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHH
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVF 130 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~ 130 (134)
.|+++|-..=-.+..| -|....||-|||++..+|+.-..+ .|..+-||+.+-.||.
T Consensus 169 ~~yDVQliGgivLh~G--~IAEM~TGEGKTLvAtlp~yLnAL------------~GkgVHvVTVNDYLA~ 224 (1112)
T PRK12901 169 VHYDVQLIGGVVLHQG--KIAEMATGEGKTLVATLPVYLNAL------------TGNGVHVVTVNDYLAK 224 (1112)
T ss_pred cccchHHhhhhhhcCC--ceeeecCCCCchhHHHHHHHHHHH------------cCCCcEEEEechhhhh
Confidence 5667776554444444 467899999999999999877665 3445667777777764
No 394
>PRK04195 replication factor C large subunit; Provisional
Probab=86.28 E-value=0.53 Score=38.41 Aligned_cols=43 Identities=21% Similarity=0.217 Sum_probs=28.0
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHc---CCCeEEEcCCCCchhHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLS---GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~---g~dvli~a~tGsGKT~~~ 93 (134)
.+|+++-.++...+.|.+. + ..... .+.+++.||+|+|||...
T Consensus 11 ~~l~dlvg~~~~~~~l~~~-l-----------~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 11 KTLSDVVGNEKAKEQLREW-I-----------ESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCHHHhcCCHHHHHHHHHH-H-----------HHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 3567777777766666542 0 01112 457999999999999664
No 395
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=86.16 E-value=0.68 Score=35.99 Aligned_cols=24 Identities=29% Similarity=0.552 Sum_probs=18.5
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
+..++.|.| ++.-|+||||||...
T Consensus 73 v~~~~~G~n~~i~ayG~tgSGKTyTm 98 (334)
T cd01375 73 VDSALDGYNGTIFAYGQTGAGKTFTM 98 (334)
T ss_pred HHHHhCCCccceeeecCCCCCCeEEc
Confidence 345667876 788899999999663
No 396
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=86.14 E-value=0.71 Score=35.60 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=19.9
Q ss_pred HHHHHHcCCC--eEEEcCCCCchhHHhH
Q psy7268 69 SIPTLLSGKS--AILVAETGCGKTLSFL 94 (134)
Q Consensus 69 ~i~~~~~g~d--vli~a~tGsGKT~~~~ 94 (134)
.+..++.|.+ ++..|+||||||....
T Consensus 65 ~v~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 65 VVRSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred HHHHHHCCCceeEEeecCCCCCCceecc
Confidence 3445678876 7788999999997753
No 397
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=86.07 E-value=0.56 Score=36.00 Aligned_cols=18 Identities=28% Similarity=0.444 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
-++|+..+|+|+|||+..
T Consensus 151 PknVLFyGppGTGKTm~A 168 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMA 168 (368)
T ss_pred cceeEEECCCCccHHHHH
Confidence 368999999999999754
No 398
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=86.07 E-value=1 Score=34.91 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=20.2
Q ss_pred HHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 67 KYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 67 ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
+++-.....+..|++.|.+|+||+...
T Consensus 20 ~~i~~~a~~~~pVlI~GE~GtGK~~lA 46 (326)
T PRK11608 20 EQVSRLAPLDKPVLIIGERGTGKELIA 46 (326)
T ss_pred HHHHHHhCCCCCEEEECCCCCcHHHHH
Confidence 333334456778999999999999765
No 399
>KOG0736|consensus
Probab=86.05 E-value=0.88 Score=39.54 Aligned_cols=56 Identities=21% Similarity=0.229 Sum_probs=30.2
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHc-CCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLS-GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~-g~dvli~a~tGsGKT~~~ 93 (134)
.|--+|++.|=-+++-..+.+. +.-|-.+ -..+-.-+. .-.+++-||+|+|||+.+
T Consensus 666 IPnV~WdDVGGLeevK~eIldT-IqlPL~h-peLfssglrkRSGILLYGPPGTGKTLlA 722 (953)
T KOG0736|consen 666 IPNVSWDDVGGLEEVKTEILDT-IQLPLKH-PELFSSGLRKRSGILLYGPPGTGKTLLA 722 (953)
T ss_pred CCccchhcccCHHHHHHHHHHH-hcCcccC-hhhhhccccccceeEEECCCCCchHHHH
Confidence 4445788877555555444441 1111111 011111122 335999999999999875
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=85.83 E-value=2 Score=31.86 Aligned_cols=38 Identities=24% Similarity=0.290 Sum_probs=24.8
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
|.=+++.|.+|.|||...+--+.+.... .+..+++++.
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~-----------~~~~vly~Sl 56 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALN-----------GGYPVLYFSL 56 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHT-----------TSSEEEEEES
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHh-----------cCCeEEEEcC
Confidence 3447889999999996665444444432 2456787763
No 401
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=85.63 E-value=0.98 Score=34.92 Aligned_cols=26 Identities=27% Similarity=0.447 Sum_probs=19.7
Q ss_pred HHHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 68 YSIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 68 ~~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
..+..++.|.+ ++..|+||||||...
T Consensus 70 p~v~~~~~G~~~~i~~yG~tgSGKT~tl 97 (335)
T smart00129 70 PLVDSVLEGYNATIFAYGQTGSGKTYTM 97 (335)
T ss_pred HHHHHHhcCCceeEEEeCCCCCCCceEe
Confidence 44455678886 677899999999664
No 402
>KOG0991|consensus
Probab=85.58 E-value=0.65 Score=35.11 Aligned_cols=17 Identities=41% Similarity=0.587 Sum_probs=15.3
Q ss_pred CeEEEcCCCCchhHHhH
Q psy7268 78 SAILVAETGCGKTLSFL 94 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~ 94 (134)
++++.+|+|+|||.+.+
T Consensus 50 ~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 50 NLIISGPPGTGKTTSIL 66 (333)
T ss_pred ceEeeCCCCCchhhHHH
Confidence 79999999999998864
No 403
>PRK06762 hypothetical protein; Provisional
Probab=85.58 E-value=0.65 Score=31.88 Aligned_cols=16 Identities=31% Similarity=0.385 Sum_probs=13.2
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
=++++|++|||||...
T Consensus 4 li~i~G~~GsGKST~A 19 (166)
T PRK06762 4 LIIIRGNSGSGKTTIA 19 (166)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3678999999999754
No 404
>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=85.56 E-value=0.73 Score=30.15 Aligned_cols=21 Identities=24% Similarity=0.366 Sum_probs=16.8
Q ss_pred cCCCeEEEcCCCCchhHHhHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~l 95 (134)
.|+-+.+.+|+|+|||....+
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~~ 34 (107)
T cd00820 14 GKVGVLITGDSGIGKTELALE 34 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHHH
Confidence 356689999999999986544
No 405
>PRK11823 DNA repair protein RadA; Provisional
Probab=85.55 E-value=1.5 Score=35.68 Aligned_cols=38 Identities=16% Similarity=0.315 Sum_probs=24.3
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
.|.-+++.+++|+|||...+-- +....+ .+.+++|++-
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~-a~~~a~-----------~g~~vlYvs~ 116 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQV-AARLAA-----------AGGKVLYVSG 116 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHH-HHHHHh-----------cCCeEEEEEc
Confidence 3456889999999999655333 333322 3456777763
No 406
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=85.54 E-value=0.95 Score=34.82 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=19.1
Q ss_pred HHHHHHHcCCC--eEEEcCCCCchhHH
Q psy7268 68 YSIPTLLSGKS--AILVAETGCGKTLS 92 (134)
Q Consensus 68 ~~i~~~~~g~d--vli~a~tGsGKT~~ 92 (134)
..+..++.|.| ++..|+||||||..
T Consensus 69 ~~v~~~~~G~~~~i~~yG~tgSGKT~t 95 (328)
T cd00106 69 PLVESVLEGYNGTIFAYGQTGSGKTYT 95 (328)
T ss_pred HHHHHHhCCCceeEEEecCCCCCCeEE
Confidence 44455677886 77789999999964
No 407
>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=85.50 E-value=1.1 Score=34.82 Aligned_cols=27 Identities=19% Similarity=0.255 Sum_probs=20.0
Q ss_pred HHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 67 KYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 67 ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
+++-.....+..|++.|++|+||+...
T Consensus 13 ~~~~~~a~~~~pVLI~GE~GtGK~~lA 39 (329)
T TIGR02974 13 EQVSRLAPLDRPVLIIGERGTGKELIA 39 (329)
T ss_pred HHHHHHhCCCCCEEEECCCCChHHHHH
Confidence 333334456778999999999999764
No 408
>CHL00195 ycf46 Ycf46; Provisional
Probab=85.48 E-value=0.61 Score=38.38 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCchhHHh
Q psy7268 76 GKSAILVAETGCGKTLSF 93 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~ 93 (134)
.+.+++.||+|+|||+..
T Consensus 259 pkGILL~GPpGTGKTllA 276 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTA 276 (489)
T ss_pred CceEEEECCCCCcHHHHH
Confidence 456999999999999764
No 409
>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=85.44 E-value=0.66 Score=32.32 Aligned_cols=15 Identities=20% Similarity=0.401 Sum_probs=12.8
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.|++|||||...
T Consensus 2 i~i~G~pGsGKst~a 16 (183)
T TIGR01359 2 VFVLGGPGSGKGTQC 16 (183)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999763
No 410
>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=85.31 E-value=1.1 Score=32.58 Aligned_cols=25 Identities=28% Similarity=0.287 Sum_probs=18.3
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~ 99 (134)
.|.-+.+.+++|+|||...+.-++.
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~ 42 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVT 42 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3556899999999999776544333
No 411
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=85.28 E-value=1.6 Score=38.26 Aligned_cols=17 Identities=24% Similarity=0.419 Sum_probs=14.5
Q ss_pred CeEEEcCCCCchhHHhH
Q psy7268 78 SAILVAETGCGKTLSFL 94 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~ 94 (134)
+.+|.|+||+|||+..-
T Consensus 490 h~~I~G~tGsGKS~l~~ 506 (852)
T PRK13891 490 HTFMFGPTGAGKSTHLG 506 (852)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 48999999999997654
No 412
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=85.20 E-value=0.76 Score=34.18 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=14.1
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
++++.||+|+|||...
T Consensus 52 h~lf~GPPG~GKTTLA 67 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTLA 67 (233)
T ss_dssp EEEEESSTTSSHHHHH
T ss_pred eEEEECCCccchhHHH
Confidence 5899999999999655
No 413
>KOG0924|consensus
Probab=85.19 E-value=1 Score=38.86 Aligned_cols=33 Identities=21% Similarity=0.345 Sum_probs=25.0
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.-...+.+.+..+..+.-+++.+.||||||.-.
T Consensus 356 Pvf~~R~~ll~~ir~n~vvvivgETGSGKTTQl 388 (1042)
T KOG0924|consen 356 PVFACRDQLLSVIRENQVVVIVGETGSGKTTQL 388 (1042)
T ss_pred chHHHHHHHHHHHhhCcEEEEEecCCCCchhhh
Confidence 345566666666677788999999999999653
No 414
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=85.19 E-value=0.7 Score=32.60 Aligned_cols=19 Identities=42% Similarity=0.590 Sum_probs=16.0
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.|+-+.+.|++|+|||...
T Consensus 2 ~ge~i~l~G~sGsGKSTl~ 20 (176)
T PRK09825 2 AGESYILMGVSGSGKSLIG 20 (176)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4677899999999999754
No 415
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=85.17 E-value=2 Score=32.80 Aligned_cols=18 Identities=17% Similarity=0.292 Sum_probs=14.7
Q ss_pred cCCCeEEEcCCCCchhHH
Q psy7268 75 SGKSAILVAETGCGKTLS 92 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~ 92 (134)
.+.-+.+.+++|+|||..
T Consensus 33 ~~~~i~i~G~~G~GKttl 50 (300)
T TIGR00750 33 NAHRVGITGTPGAGKSTL 50 (300)
T ss_pred CceEEEEECCCCCCHHHH
Confidence 356688899999999954
No 416
>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=85.16 E-value=0.69 Score=32.18 Aligned_cols=16 Identities=25% Similarity=0.374 Sum_probs=13.5
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+++.|++|||||...
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4678999999999865
No 417
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=84.98 E-value=1.4 Score=37.40 Aligned_cols=49 Identities=18% Similarity=0.355 Sum_probs=31.4
Q ss_pred CCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHH----HHHcCCCeEEEcCCCCchhHHh
Q psy7268 36 IDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIP----TLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 36 ~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~----~~~~g~dvli~a~tGsGKT~~~ 93 (134)
..+.+-++..+++.+++.+.. |..++. .+..++.+++.+++|+|||...
T Consensus 15 ~~~~~~~~~~~~~~~~~~vig---------q~~a~~~L~~~~~~~~~~l~~G~~G~GKttla 67 (637)
T PRK13765 15 LDFETTSDIEVPERLIDQVIG---------QEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLA 67 (637)
T ss_pred cCcccceecccCcccHHHcCC---------hHHHHHHHHHHHHhCCeEEEECCCCCcHHHHH
Confidence 344555566677765554432 233322 3446788999999999999764
No 418
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=84.93 E-value=2.1 Score=34.72 Aligned_cols=16 Identities=31% Similarity=0.416 Sum_probs=13.9
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
+++++++|+|||....
T Consensus 102 i~~vG~~GsGKTTtaa 117 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCG 117 (428)
T ss_pred EEEECCCCCcHHHHHH
Confidence 7889999999998753
No 419
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=84.92 E-value=1.5 Score=35.78 Aligned_cols=38 Identities=21% Similarity=0.338 Sum_probs=24.8
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcC
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITP 124 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~P 124 (134)
.|.-+++.+++|+|||...+. ++..+.. ++.+++|++.
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq-~a~~~a~-----------~g~kvlYvs~ 130 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQ-VACQLAK-----------NQMKVLYVSG 130 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHH-HHHHHHh-----------cCCcEEEEEC
Confidence 355689999999999976543 3333332 3345777764
No 420
>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=84.89 E-value=0.8 Score=27.05 Aligned_cols=15 Identities=20% Similarity=0.352 Sum_probs=12.2
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+.+.++.|+|||...
T Consensus 2 i~i~G~~gsGKst~~ 16 (69)
T cd02019 2 IAITGGSGSGKSTVA 16 (69)
T ss_pred EEEECCCCCCHHHHH
Confidence 567899999998653
No 421
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=84.85 E-value=1.8 Score=35.58 Aligned_cols=20 Identities=35% Similarity=0.414 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCchhHHhHH
Q psy7268 76 GKSAILVAETGCGKTLSFLA 95 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~l 95 (134)
|+-+.+.||||+|||.+...
T Consensus 256 g~Vi~LvGpnGvGKTTTiaK 275 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAK 275 (484)
T ss_pred CcEEEEECCCCccHHHHHHH
Confidence 44578999999999988643
No 422
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=84.85 E-value=2.9 Score=35.48 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=25.5
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELV 129 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La 129 (134)
.+++.|++|+|||-.. ..+.+.+.... .+.+++++. ..++.
T Consensus 316 pL~LyG~sGsGKTHLL-~AIa~~a~~~~---------~g~~V~Yit-aeef~ 356 (617)
T PRK14086 316 PLFIYGESGLGKTHLL-HAIGHYARRLY---------PGTRVRYVS-SEEFT 356 (617)
T ss_pred cEEEECCCCCCHHHHH-HHHHHHHHHhC---------CCCeEEEee-HHHHH
Confidence 4899999999999443 45555554311 345666664 44444
No 423
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=84.78 E-value=2 Score=34.93 Aligned_cols=17 Identities=35% Similarity=0.471 Sum_probs=14.3
Q ss_pred CeEEEcCCCCchhHHhH
Q psy7268 78 SAILVAETGCGKTLSFL 94 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~ 94 (134)
.++++|++|+|||....
T Consensus 97 vI~lvG~~GsGKTTtaa 113 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAA 113 (437)
T ss_pred EEEEECCCCCcHHHHHH
Confidence 47889999999997753
No 424
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=84.76 E-value=0.62 Score=41.00 Aligned_cols=24 Identities=17% Similarity=0.344 Sum_probs=16.5
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~ 102 (134)
=.+|+|+||+|||..+ =+|...++
T Consensus 27 i~lI~G~nGsGKSSIl-dAI~~ALy 50 (908)
T COG0419 27 IFLIVGPNGAGKSSIL-DAITFALY 50 (908)
T ss_pred eEEEECCCCCcHHHHH-HHHHHHHc
Confidence 3678999999999765 33333343
No 425
>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=84.73 E-value=1.8 Score=30.44 Aligned_cols=17 Identities=24% Similarity=0.409 Sum_probs=14.3
Q ss_pred CCCeEEEcCCCCchhHH
Q psy7268 76 GKSAILVAETGCGKTLS 92 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~ 92 (134)
++-+++.||+|+||+..
T Consensus 2 ~r~ivl~Gpsg~GK~tl 18 (184)
T smart00072 2 RRPIVLSGPSGVGKGTL 18 (184)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 56689999999999953
No 426
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=84.66 E-value=0.78 Score=30.45 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=12.7
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.+++|||||...
T Consensus 2 I~i~G~~GsGKst~a 16 (147)
T cd02020 2 IAIDGPAGSGKSTVA 16 (147)
T ss_pred EEEECCCCCCHHHHH
Confidence 578899999999854
No 427
>PRK08233 hypothetical protein; Provisional
Probab=84.62 E-value=0.67 Score=32.06 Aligned_cols=15 Identities=33% Similarity=0.330 Sum_probs=12.1
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+.+.|++|||||...
T Consensus 6 I~I~G~~GsGKtTla 20 (182)
T PRK08233 6 ITIAAVSGGGKTTLT 20 (182)
T ss_pred EEEECCCCCCHHHHH
Confidence 567899999999643
No 428
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=84.57 E-value=2 Score=35.30 Aligned_cols=26 Identities=27% Similarity=0.242 Sum_probs=18.5
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~ 100 (134)
.|.-+++.+++|+|||...+--+.+.
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~ 297 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAA 297 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence 35668889999999997654444333
No 429
>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=84.53 E-value=0.82 Score=30.69 Aligned_cols=16 Identities=31% Similarity=0.420 Sum_probs=13.8
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
+++++|++|+|||...
T Consensus 1 ~i~l~G~~GsGKstla 16 (154)
T cd00464 1 NIVLIGMMGAGKTTVG 16 (154)
T ss_pred CEEEEcCCCCCHHHHH
Confidence 4789999999999764
No 430
>PRK06547 hypothetical protein; Provisional
Probab=84.48 E-value=0.78 Score=32.33 Aligned_cols=15 Identities=27% Similarity=0.412 Sum_probs=12.3
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.|++|||||...
T Consensus 18 i~i~G~~GsGKTt~a 32 (172)
T PRK06547 18 VLIDGRSGSGKTTLA 32 (172)
T ss_pred EEEECCCCCCHHHHH
Confidence 666699999999764
No 431
>PRK14531 adenylate kinase; Provisional
Probab=84.46 E-value=0.66 Score=32.68 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
+.+++.|++|||||...
T Consensus 3 ~~i~i~G~pGsGKsT~~ 19 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQA 19 (183)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 35899999999999764
No 432
>PRK13768 GTPase; Provisional
Probab=84.46 E-value=2 Score=32.05 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=12.9
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+++.++.|+|||...
T Consensus 4 ~i~v~G~~G~GKTt~~ 19 (253)
T PRK13768 4 IVFFLGTAGSGKTTLT 19 (253)
T ss_pred EEEEECCCCccHHHHH
Confidence 3678899999999753
No 433
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=84.36 E-value=0.76 Score=35.45 Aligned_cols=18 Identities=28% Similarity=0.277 Sum_probs=15.2
Q ss_pred CCeEEEcCCCCchhHHhH
Q psy7268 77 KSAILVAETGCGKTLSFL 94 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~ 94 (134)
..+++.||+|+|||....
T Consensus 52 ~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcEEEECCCCccHHHHHH
Confidence 469999999999997653
No 434
>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=84.32 E-value=1.1 Score=35.07 Aligned_cols=13 Identities=31% Similarity=0.595 Sum_probs=10.7
Q ss_pred eEEEcCCCCchhH
Q psy7268 79 AILVAETGCGKTL 91 (134)
Q Consensus 79 vli~a~tGsGKT~ 91 (134)
.+|-||||+||+-
T Consensus 90 ~~VYGPTG~GKSq 102 (369)
T PF02456_consen 90 GVVYGPTGSGKSQ 102 (369)
T ss_pred EEEECCCCCCHHH
Confidence 4677999999973
No 435
>PLN02796 D-glycerate 3-kinase
Probab=84.32 E-value=3.4 Score=32.62 Aligned_cols=15 Identities=40% Similarity=0.567 Sum_probs=12.9
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+-|.|++|||||...
T Consensus 103 IGI~G~sGSGKSTLa 117 (347)
T PLN02796 103 IGISAPQGCGKTTLV 117 (347)
T ss_pred EEEECCCCCcHHHHH
Confidence 778899999999764
No 436
>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=84.30 E-value=3 Score=37.78 Aligned_cols=48 Identities=21% Similarity=0.231 Sum_probs=34.9
Q ss_pred CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHh
Q psy7268 76 GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi 132 (134)
.++++|.|+-|||||....--++..+.... ..-++++|+-|+.=|..+
T Consensus 10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~---------~~~~i~~~t~t~~aa~em 57 (1141)
T TIGR02784 10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGV---------PPSKILCLTYTKAAAAEM 57 (1141)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHHHHcCC---------CCCeEEEEecCHHHHHHH
Confidence 467999999999999888766666664321 223688889888766554
No 437
>PRK08356 hypothetical protein; Provisional
Probab=84.29 E-value=0.79 Score=32.61 Aligned_cols=15 Identities=27% Similarity=0.237 Sum_probs=13.0
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
++++||+|||||...
T Consensus 8 i~~~G~~gsGK~t~a 22 (195)
T PRK08356 8 VGVVGKIAAGKTTVA 22 (195)
T ss_pred EEEECCCCCCHHHHH
Confidence 678999999999764
No 438
>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=84.20 E-value=0.8 Score=34.68 Aligned_cols=17 Identities=29% Similarity=0.327 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.++++.||+|+|||...
T Consensus 31 ~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 35999999999999654
No 439
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=84.19 E-value=1.7 Score=29.91 Aligned_cols=15 Identities=40% Similarity=0.689 Sum_probs=12.8
Q ss_pred CCeEEEcCCCCchhH
Q psy7268 77 KSAILVAETGCGKTL 91 (134)
Q Consensus 77 ~dvli~a~tGsGKT~ 91 (134)
+-+++.|++|+|||.
T Consensus 2 krimliG~~g~GKTT 16 (143)
T PF10662_consen 2 KRIMLIGPSGSGKTT 16 (143)
T ss_pred ceEEEECCCCCCHHH
Confidence 357899999999994
No 440
>PF08283 Gemini_AL1_M: Geminivirus rep protein central domain; InterPro: IPR022692 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. This is the central region of the geminivirus rep proteins []. It is found C-terminal to PF00799 from PFAM and is thought to be responsible for oligomerisation.; GO: 0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters
Probab=84.18 E-value=0.71 Score=30.20 Aligned_cols=55 Identities=13% Similarity=0.021 Sum_probs=35.5
Q ss_pred cccccCCCCCCcccCCCCHHHHHHHHHCCCCCChHHHHHHHHHHHcCCCeEEEcCCCCchhH
Q psy7268 30 YEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTL 91 (134)
Q Consensus 30 ~~~~~~~~~~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~ 91 (134)
.......|+..-+.+..+++|.+++.+.=+ ...+ ..-++-.++++++++.+|||+
T Consensus 51 ~~e~y~~Pf~~ssf~~~pe~i~~W~~~nv~-~~aa------~rp~rp~SivieG~sRTGKT~ 105 (106)
T PF08283_consen 51 PPEPYVSPFPLSSFLQVPEEIEEWADENVY-SVAA------ARPLRPISIVIEGDSRTGKTM 105 (106)
T ss_pred CCccccCCCCChhhccCChHHHHHHHhccC-cccc------cCCCCCCceeEecCCccCcCC
Confidence 334445566644566688999999987422 1110 012345689999999999995
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=84.14 E-value=0.81 Score=32.03 Aligned_cols=15 Identities=27% Similarity=0.443 Sum_probs=13.0
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.|++|||||...
T Consensus 2 I~i~G~pGsGKst~a 16 (194)
T cd01428 2 ILLLGPPGSGKGTQA 16 (194)
T ss_pred EEEECCCCCCHHHHH
Confidence 789999999999654
No 442
>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=84.13 E-value=0.83 Score=30.75 Aligned_cols=15 Identities=20% Similarity=0.364 Sum_probs=12.8
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.|++|+|||...
T Consensus 2 i~l~G~~GsGKST~a 16 (150)
T cd02021 2 IVVMGVSGSGKSTVG 16 (150)
T ss_pred EEEEcCCCCCHHHHH
Confidence 578999999999764
No 443
>KOG0953|consensus
Probab=84.12 E-value=1.2 Score=37.39 Aligned_cols=41 Identities=22% Similarity=0.216 Sum_probs=31.2
Q ss_pred CeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhcC
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~~ 134 (134)
=++-+|||-||||..+ |+++... -.+++--|.|-||..|++
T Consensus 193 Ii~H~GPTNSGKTy~A----Lqrl~~a------------ksGvycGPLrLLA~EV~~ 233 (700)
T KOG0953|consen 193 IIMHVGPTNSGKTYRA----LQRLKSA------------KSGVYCGPLRLLAHEVYD 233 (700)
T ss_pred EEEEeCCCCCchhHHH----HHHHhhh------------ccceecchHHHHHHHHHH
Confidence 3566799999999655 6776532 347888899999998874
No 444
>PRK10867 signal recognition particle protein; Provisional
Probab=84.05 E-value=2.1 Score=34.69 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=13.7
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
+++++++|+|||.+..
T Consensus 103 I~~vG~~GsGKTTtaa 118 (433)
T PRK10867 103 IMMVGLQGAGKTTTAG 118 (433)
T ss_pred EEEECCCCCcHHHHHH
Confidence 7889999999997753
No 445
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=84.00 E-value=0.93 Score=35.19 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=17.7
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHH
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLS 92 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~ 92 (134)
++.++.|.+ ++..|.||||||..
T Consensus 74 v~~~~~G~n~~i~ayG~tgSGKTyT 98 (333)
T cd01371 74 VDSVLEGYNGTIFAYGQTGTGKTFT 98 (333)
T ss_pred HHHHhCCCceeEEecCCCCCCCcEe
Confidence 345667876 78889999999944
No 446
>PRK05541 adenylylsulfate kinase; Provisional
Probab=83.98 E-value=0.91 Score=31.55 Aligned_cols=19 Identities=26% Similarity=0.291 Sum_probs=15.9
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.|.-+++.|++|+|||...
T Consensus 6 ~~~~I~i~G~~GsGKst~a 24 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIA 24 (176)
T ss_pred CCCEEEEEcCCCCCHHHHH
Confidence 4667899999999999665
No 447
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=83.97 E-value=3.3 Score=34.99 Aligned_cols=61 Identities=16% Similarity=0.115 Sum_probs=40.2
Q ss_pred CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 61 ~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.+++-|++++... ...++|.|..|||||-+..-=+.+.+..... .-.+++.++=|+--|..
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v--------~p~~Il~vTFTnkAA~e 62 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGV--------DPEQILAITFTNKAAAE 62 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCc--------ChHHeeeeechHHHHHH
Confidence 5688899988665 5668888999999998876666666643221 11235666656555543
No 448
>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=83.90 E-value=0.83 Score=32.44 Aligned_cols=15 Identities=27% Similarity=0.277 Sum_probs=12.3
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
|-|.|++|||||...
T Consensus 2 IgI~G~sgSGKTTla 16 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLA 16 (194)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 458899999999654
No 449
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=83.85 E-value=0.98 Score=35.06 Aligned_cols=24 Identities=29% Similarity=0.560 Sum_probs=19.0
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
+..++.|.| ++..|.||||||...
T Consensus 66 v~~~~~G~n~~i~ayG~tgSGKT~Tm 91 (341)
T cd01372 66 VDGLFEGYNATVLAYGQTGSGKTYTM 91 (341)
T ss_pred HHHHhCCCccceeeecCCCCCCcEEe
Confidence 344567876 788899999999875
No 450
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=83.81 E-value=1.4 Score=36.63 Aligned_cols=16 Identities=38% Similarity=0.750 Sum_probs=13.4
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
=+++.||+|+|||.+.
T Consensus 47 iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 47 ILLLTGPSGCGKTTTV 62 (519)
T ss_pred eEEEECCCCCCHHHHH
Confidence 3788999999999764
No 451
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=83.81 E-value=0.67 Score=33.18 Aligned_cols=18 Identities=33% Similarity=0.577 Sum_probs=15.5
Q ss_pred cCCCeEEEcCCCCchhHH
Q psy7268 75 SGKSAILVAETGCGKTLS 92 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~ 92 (134)
.|.-+.+.|++|+|||..
T Consensus 26 ~G~~~~i~G~nGsGKSTL 43 (214)
T cd03292 26 AGEFVFLVGPSGAGKSTL 43 (214)
T ss_pred CCCEEEEECCCCCCHHHH
Confidence 677889999999999953
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=83.80 E-value=0.75 Score=33.46 Aligned_cols=20 Identities=20% Similarity=0.370 Sum_probs=16.7
Q ss_pred HHcCCCeEEEcCCCCchhHH
Q psy7268 73 LLSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~ 92 (134)
+..|.-+.+.|++|+|||..
T Consensus 28 i~~Ge~~~l~G~nGsGKSTL 47 (233)
T cd03258 28 VPKGEIFGIIGRSGAGKSTL 47 (233)
T ss_pred EcCCCEEEEECCCCCCHHHH
Confidence 34688899999999999953
No 453
>KOG0732|consensus
Probab=83.75 E-value=1.1 Score=40.02 Aligned_cols=61 Identities=16% Similarity=0.140 Sum_probs=39.0
Q ss_pred ccccCCCCCCcccCCCCHHHHHHHHHCCC-CCChHHHHHHHHHHHcCCCeEEEcCCCCchhHH
Q psy7268 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGL-TTPTEIQKYSIPTLLSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 31 ~~~~~~~~~~f~~~~l~~~i~~~l~~~g~-~~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~ 92 (134)
+....+..-.|++.|.-+..++.|+++-. ..++|-+..-+ .+.--+.++.++|+|+|||+.
T Consensus 254 dp~~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~-~itpPrgvL~~GppGTGkTl~ 315 (1080)
T KOG0732|consen 254 DPLSVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNF-NITPPRGVLFHGPPGTGKTLM 315 (1080)
T ss_pred CchhhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhc-ccCCCcceeecCCCCCchhHH
Confidence 33334555679999988999999988622 12222111111 123356799999999999976
No 454
>PRK14974 cell division protein FtsY; Provisional
Probab=83.70 E-value=3.8 Score=32.10 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=13.6
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+++.|++|+|||...
T Consensus 142 vi~~~G~~GvGKTTti 157 (336)
T PRK14974 142 VIVFVGVNGTGKTTTI 157 (336)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 3778999999999765
No 455
>PRK08506 replicative DNA helicase; Provisional
Probab=83.70 E-value=2.2 Score=34.93 Aligned_cols=26 Identities=27% Similarity=0.345 Sum_probs=17.7
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|.=+++.|.+|.|||...+ -++..+
T Consensus 191 ~G~LivIaarpg~GKT~fal-~ia~~~ 216 (472)
T PRK08506 191 KGDLIIIAARPSMGKTTLCL-NMALKA 216 (472)
T ss_pred CCceEEEEcCCCCChHHHHH-HHHHHH
Confidence 34457889999999996554 444444
No 456
>PRK14737 gmk guanylate kinase; Provisional
Probab=83.67 E-value=0.83 Score=32.55 Aligned_cols=17 Identities=29% Similarity=0.307 Sum_probs=14.1
Q ss_pred CCCeEEEcCCCCchhHH
Q psy7268 76 GKSAILVAETGCGKTLS 92 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~ 92 (134)
++=++++||+|+||+..
T Consensus 4 ~~~ivl~GpsG~GK~tl 20 (186)
T PRK14737 4 PKLFIISSVAGGGKSTI 20 (186)
T ss_pred CeEEEEECCCCCCHHHH
Confidence 45588999999999954
No 457
>KOG0737|consensus
Probab=83.65 E-value=1 Score=35.74 Aligned_cols=52 Identities=23% Similarity=0.292 Sum_probs=31.2
Q ss_pred CCcccCCCCHHHHHHHHHCCCCCChHHHHHHH----HHHHcCCCeEEEcCCCCchhHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSI----PTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~~~t~iQ~~~i----~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-+|.+.+=-+.+.+.+.+.= .-|.|..=+ ..+..-+.+++.+|+|+|||+..
T Consensus 89 v~f~DIggLe~v~~~L~e~V---ilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlA 144 (386)
T KOG0737|consen 89 VSFDDIGGLEEVKDALQELV---ILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLA 144 (386)
T ss_pred eehhhccchHHHHHHHHHHH---hhcccchhhhcccccccCCccceecCCCCchHHHHH
Confidence 36777776677777776631 111111111 11113457999999999999876
No 458
>TIGR03783 Bac_Flav_CT_G Bacteroides conjugation system ATPase, TraG family. Members of this family include the predicted ATPase, TraG, encoded by transfer region genes of conjugative transposons of Bacteroides, such as CTnDOT, found on the main chromosome. Members also include TraG homologs borne on plasmids in Bacteroides. The protein family is related to the conjugative transfer system ATPase VirB4.
Probab=83.62 E-value=2.4 Score=37.21 Aligned_cols=21 Identities=14% Similarity=0.313 Sum_probs=16.4
Q ss_pred CCCeEEEcCCCCchhHHhHHH
Q psy7268 76 GKSAILVAETGCGKTLSFLAP 96 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~lp 96 (134)
..+++|.|+||+|||...-.-
T Consensus 438 n~N~~I~G~sGsGKS~l~~~l 458 (829)
T TIGR03783 438 NRNKFILGPSGSGKSFFTNHL 458 (829)
T ss_pred cCceEEECCCCCCHHHHHHHH
Confidence 457899999999999664333
No 459
>KOG0729|consensus
Probab=83.49 E-value=0.83 Score=35.23 Aligned_cols=53 Identities=25% Similarity=0.268 Sum_probs=30.0
Q ss_pred CCcccCCCCHHHHHHHHHC-CCCCChHHHHHHHHH-HHcCCCeEEEcCCCCchhHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKR-GLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~-g~~~~t~iQ~~~i~~-~~~g~dvli~a~tGsGKT~~~ 93 (134)
.++++.+=..+-++.|++- ...-+.| .+.... +---+.+++-+|+|+|||++.
T Consensus 174 vty~dvggckeqieklrevve~pll~p--erfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 174 VTYSDVGGCKEQIEKLREVVELPLLHP--ERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred cccccccchHHHHHHHHHHHhccccCH--HHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 4666777666666666552 1111122 111111 112356999999999999986
No 460
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=83.43 E-value=2.1 Score=33.98 Aligned_cols=20 Identities=25% Similarity=0.506 Sum_probs=16.0
Q ss_pred cCCCeEEEcCCCCchhHHhH
Q psy7268 75 SGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~ 94 (134)
.|.-+++.+++|+|||...+
T Consensus 81 ~GslvLI~G~pG~GKStLll 100 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLL 100 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHH
Confidence 35568999999999996654
No 461
>KOG0240|consensus
Probab=83.35 E-value=1.3 Score=36.98 Aligned_cols=32 Identities=28% Similarity=0.405 Sum_probs=23.9
Q ss_pred CChHHHHHHHHH--------HHcCCC--eEEEcCCCCchhHH
Q psy7268 61 TPTEIQKYSIPT--------LLSGKS--AILVAETGCGKTLS 92 (134)
Q Consensus 61 ~~t~iQ~~~i~~--------~~~g~d--vli~a~tGsGKT~~ 92 (134)
.|+..|.++... ++.|.+ |+..|+||+|||-.
T Consensus 58 ~pnatQe~Vy~~~a~~Iv~dVL~GYNGTvfaYGqT~sGKTyt 99 (607)
T KOG0240|consen 58 SPNATQEDVYEFAAKPIVDDVLLGYNGTVFAYGQTGSGKTYT 99 (607)
T ss_pred CCCccHHHHHHHHHHHHHHHHhcccceeEEEecCCCCCccee
Confidence 777777766643 346776 88889999999965
No 462
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=83.34 E-value=1.5 Score=29.33 Aligned_cols=28 Identities=32% Similarity=0.574 Sum_probs=18.1
Q ss_pred HHcCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 73 LLSGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 73 ~~~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
+..|.=+++.|+-|+|||. |.=.++..+
T Consensus 12 l~~g~vi~L~GdLGaGKTt-f~r~l~~~l 39 (123)
T PF02367_consen 12 LKPGDVILLSGDLGAGKTT-FVRGLARAL 39 (123)
T ss_dssp HSS-EEEEEEESTTSSHHH-HHHHHHHHT
T ss_pred CCCCCEEEEECCCCCCHHH-HHHHHHHHc
Confidence 3345557889999999994 434444443
No 463
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=83.24 E-value=0.95 Score=34.70 Aligned_cols=15 Identities=20% Similarity=0.288 Sum_probs=12.8
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.||||+|||...
T Consensus 2 i~i~G~t~~GKs~la 16 (287)
T TIGR00174 2 IFIMGPTAVGKSQLA 16 (287)
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999654
No 464
>PRK01184 hypothetical protein; Provisional
Probab=83.23 E-value=0.89 Score=31.81 Aligned_cols=16 Identities=25% Similarity=0.073 Sum_probs=13.4
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
+++.|++|||||...-
T Consensus 4 i~l~G~~GsGKsT~a~ 19 (184)
T PRK01184 4 IGVVGMPGSGKGEFSK 19 (184)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6789999999998643
No 465
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=83.16 E-value=3.3 Score=33.52 Aligned_cols=19 Identities=37% Similarity=0.471 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCchhHHhH
Q psy7268 76 GKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 76 g~dvli~a~tGsGKT~~~~ 94 (134)
|.-+.+.||||+|||....
T Consensus 191 g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 4458899999999998764
No 466
>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=83.13 E-value=0.88 Score=32.47 Aligned_cols=16 Identities=25% Similarity=0.387 Sum_probs=12.4
Q ss_pred eEEEcCCCCchhHHhH
Q psy7268 79 AILVAETGCGKTLSFL 94 (134)
Q Consensus 79 vli~a~tGsGKT~~~~ 94 (134)
+++.|++|+|||...-
T Consensus 18 ~i~aG~~GsGKSt~~~ 33 (199)
T PF06414_consen 18 IIIAGQPGSGKSTLAR 33 (199)
T ss_dssp EEEES-TTSTTHHHHH
T ss_pred EEEeCCCCCCHHHHHH
Confidence 7888999999986653
No 467
>PHA00729 NTP-binding motif containing protein
Probab=83.13 E-value=0.94 Score=33.56 Aligned_cols=22 Identities=27% Similarity=0.430 Sum_probs=16.3
Q ss_pred CeEEEcCCCCchhHHhHHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQQ 100 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~~ 100 (134)
++++.|++|+|||... ..+...
T Consensus 19 nIlItG~pGvGKT~LA-~aLa~~ 40 (226)
T PHA00729 19 SAVIFGKQGSGKTTYA-LKVARD 40 (226)
T ss_pred EEEEECCCCCCHHHHH-HHHHHH
Confidence 7999999999999554 333333
No 468
>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=83.06 E-value=0.85 Score=32.12 Aligned_cols=19 Identities=26% Similarity=0.415 Sum_probs=16.1
Q ss_pred HcCCCeEEEcCCCCchhHH
Q psy7268 74 LSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~ 92 (134)
..|.-+.+.|++|+|||..
T Consensus 16 ~~Ge~~~i~G~nGsGKSTL 34 (190)
T TIGR01166 16 ERGEVLALLGANGAGKSTL 34 (190)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 3677899999999999964
No 469
>PRK05480 uridine/cytidine kinase; Provisional
Probab=83.04 E-value=0.95 Score=32.41 Aligned_cols=16 Identities=25% Similarity=0.239 Sum_probs=13.2
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
-+.+.|++|||||...
T Consensus 8 iI~I~G~sGsGKTTl~ 23 (209)
T PRK05480 8 IIGIAGGSGSGKTTVA 23 (209)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4778999999999553
No 470
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=83.02 E-value=4.2 Score=24.33 Aligned_cols=15 Identities=27% Similarity=0.399 Sum_probs=11.7
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+++.+..|+|||...
T Consensus 2 ~~~~g~~G~Gktt~~ 16 (99)
T cd01983 2 IVVTGKGGVGKTTLA 16 (99)
T ss_pred EEEECCCCCCHHHHH
Confidence 456778899999764
No 471
>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=83.02 E-value=3.5 Score=31.29 Aligned_cols=24 Identities=25% Similarity=0.232 Sum_probs=17.4
Q ss_pred EEEcCCCCchhHHhHHHHHHHHHh
Q psy7268 80 ILVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 80 li~a~tGsGKT~~~~lpil~~~~~ 103 (134)
++.++.|+|||....+-++.....
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~ 24 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALT 24 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHS
T ss_pred CCcCCccccHHHHHHHHHHHHHhh
Confidence 467899999999988877777765
No 472
>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=83.01 E-value=0.93 Score=31.41 Aligned_cols=19 Identities=21% Similarity=0.389 Sum_probs=16.2
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.|+-+++.+++|+|||...
T Consensus 13 ~g~gvLi~G~sG~GKStla 31 (149)
T cd01918 13 GGIGVLITGPSGIGKSELA 31 (149)
T ss_pred CCEEEEEEcCCCCCHHHHH
Confidence 4678999999999999655
No 473
>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=82.82 E-value=4.1 Score=29.84 Aligned_cols=22 Identities=32% Similarity=0.379 Sum_probs=16.0
Q ss_pred CeEEEcCCCCchhHHhHHHHHH
Q psy7268 78 SAILVAETGCGKTLSFLAPLVQ 99 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~lpil~ 99 (134)
-.++.||.|+|||...+--.+.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHH
Confidence 3578999999999776444333
No 474
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=82.81 E-value=1.3 Score=34.28 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=20.3
Q ss_pred HHHHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 68 YSIPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 68 ~~i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
..+..++.|.+ ++..|+||||||...
T Consensus 68 p~v~~~~~G~~~~i~ayG~tgSGKT~tl 95 (329)
T cd01366 68 PLVQSALDGYNVCIFAYGQTGSGKTYTM 95 (329)
T ss_pred HHHHHHhCCCceEEEEeCCCCCCCcEEe
Confidence 34556678887 778899999999765
No 475
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=82.78 E-value=2.4 Score=35.14 Aligned_cols=18 Identities=33% Similarity=0.318 Sum_probs=15.3
Q ss_pred CeEEEcCCCCchhHHhHH
Q psy7268 78 SAILVAETGCGKTLSFLA 95 (134)
Q Consensus 78 dvli~a~tGsGKT~~~~l 95 (134)
.++++||.|+|||....+
T Consensus 45 a~Lf~Gp~G~GKTT~Ari 62 (507)
T PRK06645 45 GYLLTGIRGVGKTTSARI 62 (507)
T ss_pred eEEEECCCCCCHHHHHHH
Confidence 589999999999987643
No 476
>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=82.77 E-value=2.7 Score=33.65 Aligned_cols=26 Identities=23% Similarity=0.224 Sum_probs=17.8
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.|.=+++.|++|+|||... +-++..+
T Consensus 194 ~G~l~vi~g~pg~GKT~~~-l~~a~~~ 219 (434)
T TIGR00665 194 PSDLIILAARPSMGKTAFA-LNIAENA 219 (434)
T ss_pred CCeEEEEEeCCCCChHHHH-HHHHHHH
Confidence 3445788999999999554 4444443
No 477
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=82.77 E-value=2.4 Score=38.40 Aligned_cols=50 Identities=22% Similarity=0.344 Sum_probs=36.9
Q ss_pred cCCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHH
Q psy7268 75 SGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Q 131 (134)
.+.+++|.|.-|||||.+..-=++..+.... ...-.+.|+|+-|+.=+.-
T Consensus 15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~-------~~~v~~ILvvTFT~aAa~E 64 (1139)
T COG1074 15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGG-------PLDVDEILVVTFTKAAAAE 64 (1139)
T ss_pred CCCcEEEEEcCCCCchhHHHHHHHHHHhhcC-------CCChhHeeeeeccHHHHHH
Confidence 5679999999999999998777777776531 0123468899988865543
No 478
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=82.77 E-value=0.99 Score=34.99 Aligned_cols=22 Identities=23% Similarity=0.371 Sum_probs=15.7
Q ss_pred eEEEcCCCCchhHHhHHHHHHHH
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~ 101 (134)
+++.|||++|||-.. +-+.+.+
T Consensus 6 i~I~GPTAsGKT~la-i~LAk~~ 27 (308)
T COG0324 6 IVIAGPTASGKTALA-IALAKRL 27 (308)
T ss_pred EEEECCCCcCHHHHH-HHHHHHc
Confidence 688999999999543 4444443
No 479
>KOG0742|consensus
Probab=82.74 E-value=0.74 Score=37.48 Aligned_cols=49 Identities=16% Similarity=0.236 Sum_probs=29.1
Q ss_pred CCcccCCCCHHHHHHHHHCCCC-CChHHHHHHHHHHHcCCCeEEEcCCCCchhHHh
Q psy7268 39 GTFEDTGLAPEIIDIFTKRGLT-TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 39 ~~f~~~~l~~~i~~~l~~~g~~-~~t~iQ~~~i~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
.-|++.-|++.+-+.+.++-.. .-|.-.+ ---+|++..+|+|+|||+..
T Consensus 352 ~pl~~ViL~psLe~Rie~lA~aTaNTK~h~------apfRNilfyGPPGTGKTm~A 401 (630)
T KOG0742|consen 352 DPLEGVILHPSLEKRIEDLAIATANTKKHQ------APFRNILFYGPPGTGKTMFA 401 (630)
T ss_pred CCcCCeecCHHHHHHHHHHHHHhccccccc------chhhheeeeCCCCCCchHHH
Confidence 3466666777777666653211 1011000 01268999999999999875
No 480
>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=82.62 E-value=0.99 Score=32.47 Aligned_cols=17 Identities=24% Similarity=0.423 Sum_probs=13.7
Q ss_pred CCeEEEcCCCCchhHHh
Q psy7268 77 KSAILVAETGCGKTLSF 93 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~ 93 (134)
.-.++.||+|+|||..+
T Consensus 25 ~~~~i~G~NGsGKS~il 41 (220)
T PF02463_consen 25 GLNVIVGPNGSGKSNIL 41 (220)
T ss_dssp SEEEEEESTTSSHHHHH
T ss_pred CCEEEEcCCCCCHHHHH
Confidence 34788999999999654
No 481
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=82.59 E-value=0.79 Score=32.77 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=15.9
Q ss_pred HcCCCeEEEcCCCCchhHH
Q psy7268 74 LSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~ 92 (134)
..|.-+.+.|++|+|||.-
T Consensus 24 ~~G~~~~i~G~nGsGKSTL 42 (210)
T cd03269 24 EKGEIFGLLGPNGAGKTTT 42 (210)
T ss_pred cCCcEEEEECCCCCCHHHH
Confidence 3677789999999999954
No 482
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=82.57 E-value=2.6 Score=34.21 Aligned_cols=15 Identities=33% Similarity=0.516 Sum_probs=13.1
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
++++|++|+|||...
T Consensus 103 i~lvG~~GvGKTTta 117 (429)
T TIGR01425 103 IMFVGLQGSGKTTTC 117 (429)
T ss_pred EEEECCCCCCHHHHH
Confidence 788999999998764
No 483
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=82.56 E-value=1.1 Score=31.62 Aligned_cols=20 Identities=15% Similarity=0.190 Sum_probs=16.5
Q ss_pred cCCCeEEEcCCCCchhHHhH
Q psy7268 75 SGKSAILVAETGCGKTLSFL 94 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~~ 94 (134)
.|.-+.+.+|+|+|||..+-
T Consensus 20 ~G~~~~l~G~nG~GKSTLl~ 39 (176)
T cd03238 20 LNVLVVVTGVSGSGKSTLVN 39 (176)
T ss_pred CCCEEEEECCCCCCHHHHHH
Confidence 56678899999999997653
No 484
>PRK14532 adenylate kinase; Provisional
Probab=82.49 E-value=0.98 Score=31.71 Aligned_cols=16 Identities=25% Similarity=0.297 Sum_probs=13.6
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
++++.|++|||||...
T Consensus 2 ~i~~~G~pGsGKsT~a 17 (188)
T PRK14532 2 NLILFGPPAAGKGTQA 17 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4789999999999664
No 485
>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=82.46 E-value=1.3 Score=32.95 Aligned_cols=22 Identities=27% Similarity=0.501 Sum_probs=16.0
Q ss_pred EEcCCCCchhHHhHHHHHHHHHh
Q psy7268 81 LVAETGCGKTLSFLAPLVQQILT 103 (134)
Q Consensus 81 i~a~tGsGKT~~~~lpil~~~~~ 103 (134)
|.||.||||| .|+-.+-+++..
T Consensus 1 ViGpaGSGKT-T~~~~~~~~~~~ 22 (238)
T PF03029_consen 1 VIGPAGSGKT-TFCKGLSEWLES 22 (238)
T ss_dssp -EESTTSSHH-HHHHHHHHHHTT
T ss_pred CCCCCCCCHH-HHHHHHHHHHHh
Confidence 5799999998 676776666643
No 486
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=82.44 E-value=1.1 Score=34.90 Aligned_cols=24 Identities=29% Similarity=0.500 Sum_probs=18.0
Q ss_pred HHHHHcCCC--eEEEcCCCCchhHHh
Q psy7268 70 IPTLLSGKS--AILVAETGCGKTLSF 93 (134)
Q Consensus 70 i~~~~~g~d--vli~a~tGsGKT~~~ 93 (134)
+..++.|.| ++.-|.||||||.+.
T Consensus 74 v~~~~~G~n~~i~ayG~tgSGKTyTl 99 (352)
T cd01364 74 LDEVLMGYNCTIFAYGQTGTGKTYTM 99 (352)
T ss_pred HHHHhCCCeEEEEECCCCCCCCcEEe
Confidence 334567887 677799999999653
No 487
>PRK06217 hypothetical protein; Validated
Probab=82.42 E-value=1 Score=31.61 Aligned_cols=16 Identities=19% Similarity=0.187 Sum_probs=13.3
Q ss_pred CeEEEcCCCCchhHHh
Q psy7268 78 SAILVAETGCGKTLSF 93 (134)
Q Consensus 78 dvli~a~tGsGKT~~~ 93 (134)
.|++.|.+|||||...
T Consensus 3 ~I~i~G~~GsGKSTla 18 (183)
T PRK06217 3 RIHITGASGSGTTTLG 18 (183)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3789999999999653
No 488
>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=82.41 E-value=0.99 Score=31.99 Aligned_cols=15 Identities=27% Similarity=0.295 Sum_probs=12.3
Q ss_pred eEEEcCCCCchhHHh
Q psy7268 79 AILVAETGCGKTLSF 93 (134)
Q Consensus 79 vli~a~tGsGKT~~~ 93 (134)
+.+.|++|||||...
T Consensus 2 igi~G~~GsGKSTl~ 16 (198)
T cd02023 2 IGIAGGSGSGKTTVA 16 (198)
T ss_pred EEEECCCCCCHHHHH
Confidence 467899999999663
No 489
>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=82.40 E-value=0.94 Score=32.44 Aligned_cols=20 Identities=30% Similarity=0.438 Sum_probs=16.7
Q ss_pred HcCCCeEEEcCCCCchhHHh
Q psy7268 74 LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~ 93 (134)
..|.-+.+.|++|+|||..+
T Consensus 26 ~~G~~~~l~G~nGsGKSTLl 45 (214)
T TIGR02673 26 RKGEFLFLTGPSGAGKTTLL 45 (214)
T ss_pred cCCCEEEEECCCCCCHHHHH
Confidence 46778899999999999654
No 490
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=82.40 E-value=1 Score=35.39 Aligned_cols=19 Identities=32% Similarity=0.688 Sum_probs=16.1
Q ss_pred HcCCCeEEEcCCCCchhHH
Q psy7268 74 LSGKSAILVAETGCGKTLS 92 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~ 92 (134)
..|.-+.+.||+|+|||..
T Consensus 27 ~~Gef~vllGPSGcGKSTl 45 (338)
T COG3839 27 EDGEFVVLLGPSGCGKSTL 45 (338)
T ss_pred cCCCEEEEECCCCCCHHHH
Confidence 3677799999999999965
No 491
>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=82.26 E-value=0.93 Score=32.48 Aligned_cols=20 Identities=35% Similarity=0.615 Sum_probs=16.4
Q ss_pred HcCCCeEEEcCCCCchhHHh
Q psy7268 74 LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~ 93 (134)
..|.-+.+.|++|+|||...
T Consensus 24 ~~Ge~~~i~G~nGsGKSTLl 43 (213)
T cd03259 24 EPGEFLALLGPSGCGKTTLL 43 (213)
T ss_pred cCCcEEEEECCCCCCHHHHH
Confidence 36778899999999999543
No 492
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=82.26 E-value=1 Score=28.96 Aligned_cols=23 Identities=22% Similarity=0.306 Sum_probs=15.7
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHH
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQIL 102 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~ 102 (134)
|.+.|++|.|||...- .++..+.
T Consensus 1 I~i~G~~G~GKS~l~~-~l~~~l~ 23 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAK-ELAKDLL 23 (107)
T ss_pred CEEECCCCCCHHHHHH-HHHHHHH
Confidence 4678999999997753 3344443
No 493
>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=82.23 E-value=4.1 Score=32.15 Aligned_cols=40 Identities=20% Similarity=0.175 Sum_probs=31.1
Q ss_pred eEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHH
Q psy7268 79 AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRE 127 (134)
Q Consensus 79 vli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~ 127 (134)
.++.|..|||||.+..+-++..+.... .+.+++++.++..
T Consensus 4 ~i~~GgrgSGKS~~~~~~~~~~~~~~~---------~~~~~~~~r~~~~ 43 (396)
T TIGR01547 4 IIAKGGRRSGKTFAIALKLVEKLAINK---------KQQNILAARKVQN 43 (396)
T ss_pred EEEeCCCCcccHHHHHHHHHHHHHhcC---------CCcEEEEEehhhh
Confidence 578899999999999888888877631 3456888877765
No 494
>PLN02199 shikimate kinase
Probab=82.22 E-value=1.7 Score=33.66 Aligned_cols=23 Identities=39% Similarity=0.455 Sum_probs=19.2
Q ss_pred HHHHcCCCeEEEcCCCCchhHHh
Q psy7268 71 PTLLSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 71 ~~~~~g~dvli~a~tGsGKT~~~ 93 (134)
-..+.|+++++.|.+|+|||...
T Consensus 97 ~~~l~~~~I~LIG~~GSGKSTVg 119 (303)
T PLN02199 97 KPYLNGRSMYLVGMMGSGKTTVG 119 (303)
T ss_pred HHHcCCCEEEEECCCCCCHHHHH
Confidence 34557899999999999999774
No 495
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=82.13 E-value=0.98 Score=28.83 Aligned_cols=13 Identities=31% Similarity=0.703 Sum_probs=11.6
Q ss_pred eEEEcCCCCchhH
Q psy7268 79 AILVAETGCGKTL 91 (134)
Q Consensus 79 vli~a~tGsGKT~ 91 (134)
+++.|+.|+|||.
T Consensus 2 I~V~G~~g~GKTs 14 (119)
T PF08477_consen 2 IVVLGDSGVGKTS 14 (119)
T ss_dssp EEEECSTTSSHHH
T ss_pred EEEECcCCCCHHH
Confidence 6889999999993
No 496
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=82.10 E-value=1.7 Score=35.90 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=16.4
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.+..|++.|++|+||+...
T Consensus 218 ~~~pvli~Ge~GtGK~~lA 236 (534)
T TIGR01817 218 SNSTVLLRGESGTGKELIA 236 (534)
T ss_pred cCCCEEEECCCCccHHHHH
Confidence 5668999999999999764
No 497
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=81.99 E-value=2.6 Score=36.94 Aligned_cols=24 Identities=25% Similarity=0.457 Sum_probs=17.8
Q ss_pred CCeEEEcCCCCchhHHhHHHHHHHH
Q psy7268 77 KSAILVAETGCGKTLSFLAPLVQQI 101 (134)
Q Consensus 77 ~dvli~a~tGsGKT~~~~lpil~~~ 101 (134)
.+++|.|+||+|||...- .++...
T Consensus 450 ~N~~I~G~sGsGKS~l~k-~l~~~~ 473 (844)
T PRK13721 450 YNMAVCGTSGAGKTGLIQ-PLIRSV 473 (844)
T ss_pred ccEEEEcCCCCCHHHHHH-HHHHhh
Confidence 479999999999997653 444444
No 498
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=81.96 E-value=0.98 Score=32.80 Aligned_cols=20 Identities=25% Similarity=0.644 Sum_probs=16.6
Q ss_pred HcCCCeEEEcCCCCchhHHh
Q psy7268 74 LSGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 74 ~~g~dvli~a~tGsGKT~~~ 93 (134)
..|.-+.+.||+|+|||.-+
T Consensus 31 ~~Ge~~~i~G~nGsGKSTLl 50 (225)
T PRK10247 31 RAGEFKLITGPSGCGKSTLL 50 (225)
T ss_pred cCCCEEEEECCCCCCHHHHH
Confidence 36788999999999999643
No 499
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=81.92 E-value=2 Score=36.68 Aligned_cols=19 Identities=37% Similarity=0.592 Sum_probs=16.0
Q ss_pred cCCCeEEEcCCCCchhHHh
Q psy7268 75 SGKSAILVAETGCGKTLSF 93 (134)
Q Consensus 75 ~g~dvli~a~tGsGKT~~~ 93 (134)
.+..|+|.|++|+|||...
T Consensus 398 ~~~pVLI~GE~GTGK~~lA 416 (686)
T PRK15429 398 SDSTVLILGETGTGKELIA 416 (686)
T ss_pred CCCCEEEECCCCcCHHHHH
Confidence 4568999999999999754
No 500
>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=81.84 E-value=3.2 Score=37.39 Aligned_cols=61 Identities=26% Similarity=0.235 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHc--------CCCeEEEcCCCCchhHHhHHHHHHHHHhhcCCCCCCCCCCCcEEEEEcCcHHHHHHhc
Q psy7268 63 TEIQKYSIPTLLS--------GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133 (134)
Q Consensus 63 t~iQ~~~i~~~~~--------g~dvli~a~tGsGKT~~~~lpil~~~~~~~~~~~~~~~~~~~~~lil~Pt~~La~Qi~ 133 (134)
...|-.|+..+.. |--++-.|.||+|||++= .=|+..+... ..++|..|-.-.|.|..|.+
T Consensus 410 F~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aN-ARImyaLsd~---------~~g~RfsiALGLRTLTLQTG 478 (1110)
T TIGR02562 410 FRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLAN-ARAMYALRDD---------KQGARFAIALGLRSLTLQTG 478 (1110)
T ss_pred cchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHH-HHHHHHhCCC---------CCCceEEEEccccceeccch
Confidence 4589999987663 333566699999999874 2233333221 25667777667777766643
Done!