Query 042424
Match_columns 138
No_of_seqs 185 out of 1377
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 06:03:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042424hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0948 Nuclear exosomal RNA h 99.9 1.2E-23 2.6E-28 187.0 8.6 103 36-138 96-227 (1041)
2 COG4581 Superfamily II RNA hel 99.8 1.7E-20 3.7E-25 172.3 8.2 84 55-138 134-221 (1041)
3 COG1204 Superfamily II helicas 99.8 3.4E-19 7.3E-24 161.1 10.7 83 55-137 47-137 (766)
4 KOG0947 Cytoplasmic exosomal R 99.8 1E-19 2.2E-24 165.0 7.2 83 56-138 313-395 (1248)
5 KOG0952 DNA/RNA helicase MER3/ 99.8 1.1E-18 2.3E-23 159.4 7.2 82 54-135 125-224 (1230)
6 PRK02362 ski2-like helicase; P 99.7 1E-16 2.2E-21 144.1 11.0 83 54-137 38-128 (737)
7 PRK01172 ski2-like helicase; P 99.6 2.2E-15 4.9E-20 134.0 10.8 84 54-137 36-126 (674)
8 PRK00254 ski2-like helicase; P 99.6 5.1E-15 1.1E-19 132.8 10.6 84 54-137 38-129 (720)
9 PF00270 DEAD: DEAD/DEAH box h 99.6 1.1E-14 2.4E-19 106.5 10.2 83 55-137 14-110 (169)
10 PRK11192 ATP-dependent RNA hel 99.5 1.5E-13 3.2E-18 116.1 9.7 83 55-137 38-138 (434)
11 PRK10590 ATP-dependent RNA hel 99.5 1.3E-13 2.9E-18 117.7 9.4 83 55-137 38-140 (456)
12 PRK04837 ATP-dependent RNA hel 99.5 1.3E-13 2.8E-18 116.3 8.6 83 55-137 45-148 (423)
13 TIGR03817 DECH_helic helicase/ 99.5 7.9E-14 1.7E-18 126.0 7.7 123 10-135 5-142 (742)
14 PRK04537 ATP-dependent RNA hel 99.5 1.5E-13 3.3E-18 120.9 8.9 83 55-137 46-149 (572)
15 TIGR01587 cas3_core CRISPR-ass 99.5 1.8E-13 3.8E-18 112.4 8.7 80 58-137 2-109 (358)
16 PRK13767 ATP-dependent helicas 99.5 2E-13 4.2E-18 125.3 9.4 83 55-137 47-161 (876)
17 PRK11776 ATP-dependent RNA hel 99.5 2.6E-13 5.6E-18 115.6 9.4 83 55-137 41-138 (460)
18 PRK09751 putative ATP-dependen 99.5 1.7E-13 3.7E-18 130.6 8.5 78 60-137 1-114 (1490)
19 COG1201 Lhr Lhr-like helicases 99.5 2.1E-13 4.6E-18 123.8 8.6 84 54-137 36-138 (814)
20 PRK01297 ATP-dependent RNA hel 99.4 4.4E-13 9.6E-18 114.8 10.0 81 56-136 125-227 (475)
21 TIGR00643 recG ATP-dependent D 99.4 3.3E-13 7.1E-18 119.8 9.3 78 57-134 258-350 (630)
22 KOG0951 RNA helicase BRR2, DEA 99.4 2.7E-13 5.8E-18 126.2 8.2 85 52-136 322-425 (1674)
23 PRK10917 ATP-dependent DNA hel 99.4 5.2E-13 1.1E-17 119.6 9.5 80 56-135 283-377 (681)
24 PTZ00424 helicase 45; Provisio 99.4 5.5E-13 1.2E-17 110.7 8.9 83 55-137 65-161 (401)
25 COG1111 MPH1 ERCC4-like helica 99.4 2E-13 4.3E-18 118.0 6.2 82 56-137 30-122 (542)
26 PLN00206 DEAD-box ATP-dependen 99.4 7.9E-13 1.7E-17 114.9 10.0 83 55-137 158-261 (518)
27 cd00268 DEADc DEAD-box helicas 99.4 1.1E-12 2.5E-17 99.2 9.3 83 55-137 36-134 (203)
28 COG1205 Distinct helicase fami 99.4 6.1E-13 1.3E-17 121.8 8.8 82 56-137 86-182 (851)
29 PTZ00110 helicase; Provisional 99.4 1.4E-12 3.1E-17 114.1 8.8 83 55-137 167-268 (545)
30 COG1202 Superfamily II helicas 99.4 1.2E-12 2.6E-17 115.2 7.0 83 55-137 232-330 (830)
31 TIGR00580 mfd transcription-re 99.3 2.5E-12 5.4E-17 118.7 8.6 78 56-133 473-565 (926)
32 PRK11634 ATP-dependent RNA hel 99.3 3.6E-12 7.8E-17 113.5 9.3 83 55-137 43-140 (629)
33 TIGR00595 priA primosomal prot 99.3 5.6E-12 1.2E-16 109.7 8.5 75 59-133 1-87 (505)
34 TIGR03158 cas3_cyano CRISPR-as 99.3 1.1E-11 2.4E-16 103.3 9.4 78 57-137 16-128 (357)
35 KOG0350 DEAD-box ATP-dependent 99.3 4.1E-12 8.8E-17 110.1 6.0 82 56-137 184-285 (620)
36 KOG0354 DEAD-box like helicase 99.3 1E-11 2.2E-16 111.7 8.2 83 55-137 76-169 (746)
37 PRK13766 Hef nuclease; Provisi 99.3 2.1E-11 4.6E-16 109.8 9.7 82 56-137 30-122 (773)
38 KOG0331 ATP-dependent RNA heli 99.2 6.9E-11 1.5E-15 103.1 11.4 84 54-137 127-230 (519)
39 PHA02558 uvsW UvsW helicase; P 99.2 5.3E-11 1.1E-15 103.2 10.5 79 56-135 130-214 (501)
40 PRK05580 primosome assembly pr 99.2 3.2E-11 6.9E-16 108.2 9.2 79 56-134 163-253 (679)
41 PRK10689 transcription-repair 99.2 3.8E-11 8.3E-16 112.9 9.4 79 56-134 622-715 (1147)
42 KOG0345 ATP-dependent RNA heli 99.2 4.7E-11 1E-15 102.9 8.2 88 50-137 38-146 (567)
43 KOG0335 ATP-dependent RNA heli 99.2 7.1E-11 1.5E-15 102.0 8.7 82 55-137 111-217 (482)
44 PRK09401 reverse gyrase; Revie 99.2 1.3E-10 2.9E-15 109.5 10.9 83 54-136 94-193 (1176)
45 cd00046 DEXDc DEAD-like helica 99.2 3.6E-10 7.9E-15 77.8 10.3 80 57-136 2-93 (144)
46 COG0513 SrmB Superfamily II DN 99.2 9.7E-11 2.1E-15 102.1 8.1 84 54-137 65-165 (513)
47 TIGR00614 recQ_fam ATP-depende 99.1 2.2E-10 4.7E-15 98.4 9.6 75 56-134 27-113 (470)
48 KOG0348 ATP-dependent RNA heli 99.1 1.9E-10 4.2E-15 100.6 8.5 83 55-137 174-277 (708)
49 KOG0949 Predicted helicase, DE 99.1 6.2E-11 1.4E-15 108.8 4.5 94 44-137 511-620 (1330)
50 TIGR01054 rgy reverse gyrase. 99.1 3E-10 6.5E-15 107.2 9.2 83 54-136 92-192 (1171)
51 TIGR01389 recQ ATP-dependent D 99.1 4.6E-10 1E-14 98.8 7.8 76 56-135 29-116 (591)
52 KOG0343 RNA Helicase [RNA proc 99.1 2.8E-10 6E-15 100.0 6.3 76 60-135 111-203 (758)
53 COG1200 RecG RecG-like helicas 99.0 4.7E-10 1E-14 100.0 7.6 78 57-134 285-377 (677)
54 KOG0951 RNA helicase BRR2, DEA 99.0 4.6E-10 1E-14 105.1 7.3 88 48-136 1152-1248(1674)
55 TIGR00603 rad25 DNA repair hel 99.0 1.3E-09 2.9E-14 98.6 9.9 76 56-134 274-355 (732)
56 smart00487 DEXDc DEAD-like hel 99.0 2.2E-09 4.9E-14 78.1 9.2 82 56-137 25-120 (201)
57 PRK14701 reverse gyrase; Provi 99.0 9.8E-10 2.1E-14 106.3 8.7 82 55-136 94-192 (1638)
58 KOG0330 ATP-dependent RNA heli 99.0 1.7E-09 3.6E-14 91.8 8.1 83 54-137 97-194 (476)
59 KOG0342 ATP-dependent RNA heli 99.0 1.4E-09 3E-14 94.1 7.1 83 55-137 119-220 (543)
60 COG1061 SSL2 DNA or RNA helica 99.0 3.4E-09 7.4E-14 90.9 9.1 78 55-135 55-135 (442)
61 KOG0338 ATP-dependent RNA heli 99.0 1.9E-09 4.1E-14 94.1 7.4 82 56-137 219-317 (691)
62 PRK11057 ATP-dependent DNA hel 99.0 2.3E-09 5E-14 95.0 8.1 76 55-134 40-127 (607)
63 PRK09694 helicase Cas3; Provis 98.9 3.2E-09 7E-14 97.8 9.3 81 56-136 302-424 (878)
64 KOG0952 DNA/RNA helicase MER3/ 98.9 4.3E-10 9.3E-15 103.8 3.3 100 36-135 923-1033(1230)
65 PF04851 ResIII: Type III rest 98.9 1E-08 2.2E-13 75.1 9.8 78 56-136 26-125 (184)
66 PRK12899 secA preprotein trans 98.9 3.2E-09 6.9E-14 97.9 8.4 82 56-137 108-199 (970)
67 PRK11664 ATP-dependent RNA hel 98.9 7.1E-09 1.5E-13 94.9 9.7 82 56-137 21-108 (812)
68 KOG0346 RNA helicase [RNA proc 98.8 6.8E-09 1.5E-13 89.3 7.1 84 54-137 55-160 (569)
69 PLN03137 ATP-dependent DNA hel 98.8 1.2E-08 2.5E-13 95.9 9.1 76 55-134 475-564 (1195)
70 TIGR01970 DEAH_box_HrpB ATP-de 98.8 1.7E-08 3.6E-13 92.6 9.9 83 55-137 17-105 (819)
71 COG4098 comFA Superfamily II D 98.8 1.2E-08 2.6E-13 85.7 8.1 80 56-135 117-198 (441)
72 PRK13104 secA preprotein trans 98.8 1E-08 2.2E-13 94.2 8.3 78 56-133 96-182 (896)
73 PRK09200 preprotein translocas 98.8 9.3E-09 2E-13 93.8 7.9 77 57-133 93-179 (790)
74 TIGR00963 secA preprotein tran 98.8 1.1E-08 2.4E-13 92.7 8.3 77 56-133 70-156 (745)
75 TIGR03714 secA2 accessory Sec 98.8 3.4E-08 7.3E-13 89.8 9.6 77 57-133 85-175 (762)
76 COG1197 Mfd Transcription-repa 98.8 1.8E-08 3.9E-13 94.2 8.0 78 57-134 617-709 (1139)
77 PRK12898 secA preprotein trans 98.7 2.1E-08 4.6E-13 89.9 6.9 76 58-133 119-203 (656)
78 TIGR02621 cas3_GSU0051 CRISPR- 98.7 3.1E-08 6.7E-13 90.9 6.5 77 57-134 33-147 (844)
79 KOG0344 ATP-dependent RNA heli 98.7 1.8E-08 3.9E-13 88.5 4.7 82 55-136 173-276 (593)
80 COG1198 PriA Primosomal protei 98.7 3.2E-08 6.9E-13 89.7 6.3 74 56-129 218-303 (730)
81 PRK11448 hsdR type I restricti 98.7 8.1E-08 1.8E-12 90.6 9.2 81 56-136 434-525 (1123)
82 KOG0339 ATP-dependent RNA heli 98.7 7.7E-08 1.7E-12 84.3 7.7 81 56-137 261-361 (731)
83 KOG0340 ATP-dependent RNA heli 98.7 3.3E-08 7.2E-13 83.3 5.3 82 55-137 44-140 (442)
84 KOG0347 RNA helicase [RNA proc 98.6 3.1E-08 6.8E-13 87.2 4.5 78 60-137 224-328 (731)
85 KOG0333 U5 snRNP-like RNA heli 98.6 9.8E-08 2.1E-12 83.7 6.8 86 51-137 278-387 (673)
86 TIGR00348 hsdR type I site-spe 98.6 1.5E-07 3.4E-12 84.5 8.1 80 56-135 264-351 (667)
87 COG1110 Reverse gyrase [DNA re 98.6 1.9E-07 4E-12 86.7 8.6 80 55-134 97-193 (1187)
88 PRK12904 preprotein translocas 98.5 2.1E-07 4.6E-12 85.3 7.1 77 56-133 95-181 (830)
89 KOG0334 RNA helicase [RNA proc 98.5 1.9E-07 4.2E-12 86.3 6.3 82 55-137 402-503 (997)
90 KOG0337 ATP-dependent RNA heli 98.4 1.8E-07 3.9E-12 80.3 3.8 80 56-136 59-154 (529)
91 COG1203 CRISPR-associated heli 98.4 9.4E-07 2E-11 80.2 7.0 52 57-108 216-271 (733)
92 PHA02653 RNA helicase NPH-II; 98.3 1.1E-06 2.3E-11 79.4 6.8 78 55-132 179-284 (675)
93 KOG0341 DEAD-box protein abstr 98.3 3.4E-07 7.4E-12 78.4 2.9 82 56-137 208-317 (610)
94 PRK14873 primosome assembly pr 98.3 1.4E-06 3E-11 78.6 6.9 72 59-130 164-248 (665)
95 PRK13107 preprotein translocas 98.3 1.9E-06 4E-11 79.6 6.5 78 56-133 96-182 (908)
96 COG4096 HsdR Type I site-speci 98.2 4.7E-06 1E-10 76.2 8.1 81 55-135 185-269 (875)
97 PF13245 AAA_19: Part of AAA d 98.2 6.3E-06 1.4E-10 54.9 6.3 45 59-103 14-62 (76)
98 PRK13103 secA preprotein trans 98.2 5.8E-06 1.3E-10 76.5 7.4 78 56-133 96-182 (913)
99 TIGR03117 cas_csf4 CRISPR-asso 98.2 4.9E-06 1.1E-10 74.8 6.8 51 56-106 17-69 (636)
100 PF00176 SNF2_N: SNF2 family N 98.1 3.4E-05 7.3E-10 60.8 10.5 78 56-134 26-119 (299)
101 TIGR01407 dinG_rel DnaQ family 98.1 1.1E-05 2.3E-10 74.3 8.0 46 56-101 265-310 (850)
102 KOG0953 Mitochondrial RNA heli 98.0 4.8E-06 1E-10 73.7 4.0 88 41-133 175-270 (700)
103 PRK12906 secA preprotein trans 98.0 1E-05 2.2E-10 74.1 5.6 77 57-133 95-180 (796)
104 KOG4284 DEAD box protein [Tran 98.0 3.6E-06 7.7E-11 75.8 2.5 81 57-137 64-158 (980)
105 KOG0336 ATP-dependent RNA heli 98.0 8.1E-06 1.8E-10 70.4 4.4 84 55-138 257-359 (629)
106 KOG0329 ATP-dependent RNA heli 97.9 1.4E-05 3.1E-10 65.5 5.2 80 57-137 81-176 (387)
107 smart00488 DEXDc2 DEAD-like he 97.9 2.2E-05 4.7E-10 64.0 6.3 51 56-106 28-84 (289)
108 smart00489 DEXDc3 DEAD-like he 97.9 2.2E-05 4.7E-10 64.0 6.3 51 56-106 28-84 (289)
109 KOG0950 DNA polymerase theta/e 97.8 3.3E-05 7.2E-10 71.5 6.3 84 54-137 239-330 (1008)
110 PRK12326 preprotein translocas 97.8 4E-05 8.8E-10 69.8 6.0 77 56-132 92-177 (764)
111 PRK07246 bifunctional ATP-depe 97.8 0.0001 2.2E-09 68.0 8.3 60 56-116 265-329 (820)
112 KOG0326 ATP-dependent RNA heli 97.7 4.3E-05 9.3E-10 64.3 3.8 82 56-137 123-218 (459)
113 PF07652 Flavi_DEAD: Flaviviru 97.7 9.8E-05 2.1E-09 55.3 5.2 48 58-105 7-55 (148)
114 KOG0352 ATP-dependent DNA heli 97.6 0.00011 2.3E-09 63.9 5.6 75 57-135 38-126 (641)
115 PRK08074 bifunctional ATP-depe 97.6 0.00022 4.7E-09 66.6 7.9 53 56-108 277-334 (928)
116 KOG0332 ATP-dependent RNA heli 97.6 0.00018 4E-09 61.4 6.3 82 56-137 130-222 (477)
117 KOG0327 Translation initiation 97.5 8.4E-05 1.8E-09 63.1 3.9 82 56-137 64-160 (397)
118 PRK04914 ATP-dependent helicas 97.5 0.00069 1.5E-08 63.6 10.0 78 56-134 170-259 (956)
119 PF12340 DUF3638: Protein of u 97.5 0.0008 1.7E-08 53.7 8.9 81 56-136 42-144 (229)
120 KOG1123 RNA polymerase II tran 97.5 4.9E-05 1.1E-09 67.1 2.0 76 56-135 321-403 (776)
121 PF13086 AAA_11: AAA domain; P 97.4 0.00028 6E-09 53.2 5.2 48 58-105 20-75 (236)
122 COG0514 RecQ Superfamily II DN 97.4 0.00029 6.3E-09 62.9 6.0 76 56-135 33-120 (590)
123 PRK11131 ATP-dependent RNA hel 97.4 0.00061 1.3E-08 65.5 8.5 80 57-137 91-178 (1294)
124 COG1199 DinG Rad3-related DNA 97.4 0.00036 7.9E-09 62.1 6.3 51 56-106 35-86 (654)
125 KOG0328 Predicted ATP-dependen 97.4 0.0001 2.2E-09 61.2 2.2 82 56-137 65-160 (400)
126 PF00580 UvrD-helicase: UvrD/R 97.3 0.00063 1.4E-08 53.8 6.5 53 55-107 13-69 (315)
127 TIGR00604 rad3 DNA repair heli 97.3 0.00047 1E-08 62.4 6.0 51 55-105 29-82 (705)
128 COG0556 UvrB Helicase subunit 97.3 0.00046 1E-08 61.2 5.7 50 56-108 33-82 (663)
129 PRK11747 dinG ATP-dependent DN 97.3 0.0009 1.9E-08 60.7 7.7 61 56-116 50-118 (697)
130 TIGR01967 DEAH_box_HrpA ATP-de 97.1 0.0012 2.7E-08 63.5 7.2 81 56-137 83-171 (1283)
131 PRK15483 type III restriction- 97.1 0.0019 4E-08 60.8 8.1 49 56-104 60-110 (986)
132 PLN03142 Probable chromatin-re 97.1 0.0023 5E-08 60.6 8.1 79 56-135 189-282 (1033)
133 KOG0353 ATP-dependent DNA heli 97.1 0.0011 2.3E-08 57.3 5.3 75 56-134 110-198 (695)
134 cd01124 KaiC KaiC is a circadi 97.0 0.0016 3.4E-08 48.3 5.6 46 58-104 2-47 (187)
135 TIGR03877 thermo_KaiC_1 KaiC d 96.8 0.003 6.4E-08 49.7 5.7 47 58-105 24-70 (237)
136 TIGR00376 DNA helicase, putati 96.8 0.0032 7E-08 56.7 6.5 50 56-105 174-223 (637)
137 PF07517 SecA_DEAD: SecA DEAD- 96.8 0.005 1.1E-07 50.1 6.9 78 56-134 91-178 (266)
138 COG0610 Type I site-specific r 96.7 0.0034 7.3E-08 59.1 6.4 81 56-137 274-365 (962)
139 PRK08727 hypothetical protein; 96.7 0.0072 1.6E-07 47.6 7.4 45 58-103 44-88 (233)
140 PF01695 IstB_IS21: IstB-like 96.7 0.0038 8.2E-08 47.5 5.4 46 55-101 47-92 (178)
141 PF12846 AAA_10: AAA-like doma 96.7 0.003 6.6E-08 49.5 4.7 40 56-95 2-41 (304)
142 PF06745 KaiC: KaiC; InterPro 96.6 0.0027 5.9E-08 49.1 4.3 47 58-105 22-69 (226)
143 CHL00122 secA preprotein trans 96.5 0.0061 1.3E-07 56.7 6.5 75 56-131 90-174 (870)
144 PF09848 DUF2075: Uncharacteri 96.5 0.0057 1.2E-07 50.8 5.7 49 59-107 5-55 (352)
145 PRK12902 secA preprotein trans 96.5 0.0072 1.6E-07 56.5 6.7 78 56-133 99-185 (939)
146 PRK04328 hypothetical protein; 96.4 0.0088 1.9E-07 47.6 5.7 47 58-105 26-72 (249)
147 PRK08181 transposase; Validate 96.3 0.011 2.4E-07 48.1 6.0 43 56-99 107-149 (269)
148 cd01120 RecA-like_NTPases RecA 96.3 0.011 2.3E-07 41.9 5.3 40 59-98 3-42 (165)
149 PRK06526 transposase; Provisio 96.3 0.0066 1.4E-07 48.8 4.6 44 56-100 99-142 (254)
150 TIGR03878 thermo_KaiC_2 KaiC d 96.3 0.0068 1.5E-07 48.5 4.7 33 59-91 40-72 (259)
151 PRK08533 flagellar accessory p 96.2 0.012 2.5E-07 46.5 5.7 46 58-104 27-72 (230)
152 PRK05973 replicative DNA helic 96.2 0.0072 1.6E-07 48.4 4.6 47 58-105 67-113 (237)
153 TIGR02237 recomb_radB DNA repa 96.2 0.011 2.3E-07 45.1 5.3 33 60-92 17-49 (209)
154 PF13604 AAA_30: AAA domain; P 96.2 0.016 3.5E-07 44.5 6.2 45 58-103 21-66 (196)
155 smart00382 AAA ATPases associa 96.2 0.005 1.1E-07 41.6 2.9 39 56-94 3-41 (148)
156 TIGR00631 uvrb excinuclease AB 96.1 0.016 3.5E-07 52.5 6.6 54 57-113 31-86 (655)
157 PF02562 PhoH: PhoH-like prote 96.1 0.0064 1.4E-07 47.7 3.5 40 56-95 20-61 (205)
158 TIGR03743 SXT_TraD conjugative 96.1 0.029 6.4E-07 50.7 8.0 60 48-108 169-230 (634)
159 cd00009 AAA The AAA+ (ATPases 96.0 0.024 5.2E-07 38.7 5.9 39 56-94 20-58 (151)
160 cd00984 DnaB_C DnaB helicase C 96.0 0.011 2.3E-07 45.9 4.5 34 58-91 16-50 (242)
161 PRK12377 putative replication 96.0 0.023 5.1E-07 45.6 6.5 45 56-101 102-146 (248)
162 COG1643 HrpA HrpA-like helicas 96.0 0.042 9E-07 51.3 8.9 82 56-137 66-154 (845)
163 TIGR03880 KaiC_arch_3 KaiC dom 96.0 0.012 2.6E-07 45.4 4.7 47 58-105 19-65 (224)
164 KOG0351 ATP-dependent DNA heli 96.0 0.0047 1E-07 58.0 2.7 76 56-135 280-369 (941)
165 TIGR02012 tigrfam_recA protein 95.9 0.017 3.8E-07 48.2 5.6 40 60-99 60-99 (321)
166 PRK04296 thymidine kinase; Pro 95.9 0.013 2.9E-07 44.7 4.6 33 59-91 6-38 (190)
167 PRK06067 flagellar accessory p 95.9 0.014 2.9E-07 45.5 4.7 47 58-105 28-74 (234)
168 PRK06835 DNA replication prote 95.9 0.014 3E-07 48.8 4.9 43 56-99 184-226 (329)
169 KOG1802 RNA helicase nonsense 95.9 0.018 4E-07 52.6 5.9 50 58-108 428-478 (935)
170 PRK09183 transposase/IS protei 95.8 0.029 6.3E-07 45.0 6.3 42 56-98 103-144 (259)
171 cd01394 radB RadB. The archaea 95.7 0.017 3.7E-07 44.3 4.6 32 59-90 23-54 (218)
172 PRK09354 recA recombinase A; P 95.7 0.02 4.4E-07 48.3 5.3 41 60-100 65-105 (349)
173 cd00983 recA RecA is a bacter 95.7 0.022 4.7E-07 47.7 5.4 41 60-100 60-100 (325)
174 COG1484 DnaC DNA replication p 95.7 0.032 6.9E-07 44.8 6.2 50 55-105 105-154 (254)
175 PF00448 SRP54: SRP54-type pro 95.7 0.026 5.6E-07 43.6 5.5 49 59-108 5-56 (196)
176 TIGR03881 KaiC_arch_4 KaiC dom 95.7 0.019 4E-07 44.4 4.7 35 57-91 22-56 (229)
177 cd03115 SRP The signal recogni 95.7 0.035 7.7E-07 41.0 5.9 47 59-105 4-52 (173)
178 TIGR03754 conj_TOL_TraD conjug 95.7 0.019 4.2E-07 52.0 5.2 51 55-105 180-232 (643)
179 TIGR02655 circ_KaiC circadian 95.7 0.025 5.4E-07 49.2 5.7 47 58-105 266-312 (484)
180 TIGR00064 ftsY signal recognit 95.6 0.041 8.8E-07 44.6 6.6 50 59-108 76-127 (272)
181 COG0467 RAD55 RecA-superfamily 95.6 0.022 4.8E-07 45.1 4.9 49 56-105 24-72 (260)
182 PF13481 AAA_25: AAA domain; P 95.6 0.035 7.5E-07 41.4 5.6 47 58-105 35-91 (193)
183 PRK09361 radB DNA repair and r 95.6 0.022 4.8E-07 43.9 4.6 34 59-92 27-60 (225)
184 PRK05642 DNA replication initi 95.6 0.021 4.6E-07 45.0 4.6 41 57-98 47-87 (234)
185 KOG1803 DNA helicase [Replicat 95.5 0.021 4.5E-07 51.4 4.7 47 58-104 204-250 (649)
186 TIGR03420 DnaA_homol_Hda DnaA 95.5 0.025 5.4E-07 43.2 4.6 41 56-97 39-79 (226)
187 PRK06921 hypothetical protein; 95.5 0.049 1.1E-06 44.0 6.5 44 56-100 118-162 (266)
188 PRK08084 DNA replication initi 95.4 0.025 5.5E-07 44.5 4.6 37 57-93 47-83 (235)
189 PRK07952 DNA replication prote 95.4 0.053 1.2E-06 43.5 6.4 42 57-99 101-142 (244)
190 cd00544 CobU Adenosylcobinamid 95.4 0.031 6.6E-07 42.3 4.6 44 59-105 3-46 (169)
191 cd01122 GP4d_helicase GP4d_hel 95.3 0.027 5.8E-07 44.5 4.4 35 57-91 32-67 (271)
192 TIGR02655 circ_KaiC circadian 95.3 0.027 5.8E-07 49.0 4.7 46 58-104 24-70 (484)
193 PRK06893 DNA replication initi 95.2 0.031 6.7E-07 43.8 4.5 35 58-92 42-76 (229)
194 COG3451 VirB4 Type IV secretor 95.2 0.027 5.8E-07 52.2 4.7 38 56-93 437-475 (796)
195 COG4889 Predicted helicase [Ge 95.2 0.051 1.1E-06 51.4 6.3 50 56-107 181-230 (1518)
196 PRK10919 ATP-dependent DNA hel 95.2 0.026 5.7E-07 51.1 4.4 54 55-108 15-72 (672)
197 PRK08116 hypothetical protein; 95.1 0.075 1.6E-06 42.9 6.6 43 58-101 117-159 (268)
198 TIGR03499 FlhF flagellar biosy 95.0 0.087 1.9E-06 42.8 6.6 52 57-108 196-251 (282)
199 PRK08903 DnaA regulatory inact 95.0 0.048 1E-06 42.1 4.8 37 56-92 43-79 (227)
200 COG3421 Uncharacterized protei 95.0 0.083 1.8E-06 48.0 6.8 77 61-137 3-96 (812)
201 PF13401 AAA_22: AAA domain; P 94.9 0.048 1E-06 37.9 4.3 52 56-107 5-62 (131)
202 PRK12724 flagellar biosynthesi 94.9 0.09 2E-06 45.7 6.7 50 58-107 226-278 (432)
203 PRK11054 helD DNA helicase IV; 94.9 0.084 1.8E-06 48.1 6.8 54 55-108 209-266 (684)
204 PRK09302 circadian clock prote 94.8 0.069 1.5E-06 46.5 6.0 47 58-105 276-322 (509)
205 cd01393 recA_like RecA is a b 94.8 0.051 1.1E-06 41.6 4.5 36 59-94 23-64 (226)
206 TIGR01075 uvrD DNA helicase II 94.8 0.075 1.6E-06 48.3 6.2 54 55-108 17-74 (715)
207 PRK05703 flhF flagellar biosyn 94.7 0.11 2.4E-06 44.7 6.8 52 57-108 223-278 (424)
208 PRK12422 chromosomal replicati 94.7 0.09 1.9E-06 45.6 6.2 41 57-98 143-183 (445)
209 TIGR02746 TraC-F-type type-IV 94.6 0.05 1.1E-06 49.6 4.8 39 55-93 430-468 (797)
210 PRK00149 dnaA chromosomal repl 94.6 0.11 2.3E-06 44.7 6.5 43 57-100 150-194 (450)
211 PF02399 Herpes_ori_bp: Origin 94.6 0.079 1.7E-06 49.2 5.9 49 58-106 52-101 (824)
212 PRK13900 type IV secretion sys 94.6 0.041 8.9E-07 45.9 3.8 34 55-89 160-193 (332)
213 PRK10416 signal recognition pa 94.5 0.13 2.7E-06 42.8 6.5 49 59-108 118-169 (318)
214 TIGR02759 TraD_Ftype type IV c 94.5 0.038 8.3E-07 49.3 3.6 41 55-95 176-216 (566)
215 KOG4439 RNA polymerase II tran 94.5 0.15 3.3E-06 46.9 7.4 77 56-133 346-442 (901)
216 COG0593 DnaA ATPase involved i 94.5 0.11 2.5E-06 44.7 6.3 53 58-111 116-177 (408)
217 TIGR00362 DnaA chromosomal rep 94.5 0.12 2.6E-06 43.6 6.5 42 58-100 139-182 (405)
218 PRK08939 primosomal protein Dn 94.5 0.12 2.6E-06 42.6 6.3 44 56-100 157-200 (306)
219 PRK14722 flhF flagellar biosyn 94.5 0.12 2.7E-06 44.0 6.4 53 56-108 138-194 (374)
220 TIGR03744 traC_PFL_4706 conjug 94.4 0.057 1.2E-06 50.5 4.7 40 55-94 475-515 (893)
221 PRK09302 circadian clock prote 94.4 0.059 1.3E-06 47.0 4.5 47 58-105 34-81 (509)
222 PRK13851 type IV secretion sys 94.4 0.035 7.5E-07 46.7 3.0 40 55-95 162-201 (344)
223 cd01131 PilT Pilus retraction 94.4 0.07 1.5E-06 40.9 4.5 32 58-90 4-37 (198)
224 COG1219 ClpX ATP-dependent pro 94.4 0.029 6.2E-07 47.6 2.4 18 56-73 98-115 (408)
225 TIGR02562 cas3_yersinia CRISPR 94.4 0.052 1.1E-06 51.7 4.3 56 60-116 436-498 (1110)
226 PF00437 T2SE: Type II/IV secr 94.3 0.041 8.9E-07 43.6 3.0 38 56-94 128-166 (270)
227 PRK11773 uvrD DNA-dependent he 94.3 0.06 1.3E-06 49.0 4.4 54 55-108 22-79 (721)
228 cd01127 TrwB Bacterial conjuga 94.3 0.063 1.4E-06 45.7 4.3 45 55-99 42-86 (410)
229 PRK10536 hypothetical protein; 94.3 0.062 1.3E-06 43.8 4.0 39 56-94 75-115 (262)
230 PRK10867 signal recognition pa 94.1 0.16 3.5E-06 44.0 6.6 50 59-108 104-156 (433)
231 PRK14974 cell division protein 94.1 0.18 3.9E-06 42.3 6.5 50 59-108 144-195 (336)
232 TIGR00959 ffh signal recogniti 94.0 0.18 3.9E-06 43.7 6.6 51 58-108 102-155 (428)
233 PF10412 TrwB_AAD_bind: Type I 94.0 0.11 2.3E-06 44.1 5.1 47 55-101 15-61 (386)
234 PF01935 DUF87: Domain of unkn 93.9 0.098 2.1E-06 40.3 4.4 37 56-92 24-61 (229)
235 PRK00771 signal recognition pa 93.8 0.19 4.2E-06 43.6 6.5 52 57-108 97-150 (437)
236 PRK13833 conjugal transfer pro 93.8 0.081 1.8E-06 44.2 4.1 34 56-90 145-181 (323)
237 PRK14086 dnaA chromosomal repl 93.8 0.14 3.1E-06 46.3 5.9 41 58-99 317-359 (617)
238 TIGR01074 rep ATP-dependent DN 93.8 0.091 2E-06 47.1 4.5 54 55-108 14-71 (664)
239 COG2804 PulE Type II secretory 93.8 0.076 1.7E-06 46.9 3.9 25 58-83 261-285 (500)
240 PF13872 AAA_34: P-loop contai 93.7 0.25 5.4E-06 41.1 6.7 89 40-135 53-149 (303)
241 PF00004 AAA: ATPase family as 93.7 0.19 4.1E-06 34.5 5.2 34 59-95 2-35 (132)
242 TIGR00929 VirB4_CagE type IV s 93.7 0.09 1.9E-06 47.7 4.4 49 55-108 434-483 (785)
243 PRK06995 flhF flagellar biosyn 93.7 0.22 4.7E-06 43.9 6.6 50 59-108 260-313 (484)
244 TIGR03783 Bac_Flav_CT_G Bacter 93.6 0.15 3.3E-06 47.5 5.7 44 55-98 438-484 (829)
245 PF07728 AAA_5: AAA domain (dy 93.6 0.11 2.5E-06 36.7 3.9 21 58-78 2-22 (139)
246 TIGR02782 TrbB_P P-type conjug 93.5 0.12 2.6E-06 42.5 4.5 40 55-95 132-174 (299)
247 PRK05298 excinuclease ABC subu 93.5 0.23 4.9E-06 45.0 6.6 54 57-113 34-89 (652)
248 PRK13873 conjugal transfer ATP 93.5 0.1 2.3E-06 48.1 4.5 48 56-108 442-490 (811)
249 PF03205 MobB: Molybdopterin g 93.5 0.14 3.1E-06 37.4 4.4 34 59-92 4-37 (140)
250 PF03796 DnaB_C: DnaB-like hel 93.4 0.14 3E-06 40.5 4.6 34 59-92 23-57 (259)
251 cd01123 Rad51_DMC1_radA Rad51_ 93.4 0.11 2.5E-06 39.9 4.0 34 59-92 23-62 (235)
252 TIGR03015 pepcterm_ATPase puta 93.4 0.11 2.4E-06 40.7 4.0 20 57-76 45-64 (269)
253 PRK12726 flagellar biosynthesi 93.4 0.21 4.6E-06 43.1 5.8 52 57-108 208-261 (407)
254 PF02456 Adeno_IVa2: Adenoviru 93.3 0.094 2E-06 44.2 3.6 38 59-96 91-130 (369)
255 PRK11889 flhF flagellar biosyn 93.3 0.28 6E-06 42.7 6.5 52 57-108 243-296 (436)
256 TIGR00176 mobB molybdopterin-g 93.3 0.16 3.4E-06 37.7 4.5 33 59-91 3-35 (155)
257 PRK12723 flagellar biosynthesi 93.3 0.25 5.5E-06 42.2 6.2 52 57-108 176-233 (388)
258 PRK13891 conjugal transfer pro 93.2 0.13 2.7E-06 48.0 4.7 39 55-93 488-527 (852)
259 PRK12903 secA preprotein trans 93.2 0.19 4.2E-06 47.2 5.7 77 56-133 92-178 (925)
260 PRK14087 dnaA chromosomal repl 93.2 0.29 6.3E-06 42.4 6.5 40 57-98 143-185 (450)
261 PRK11823 DNA repair protein Ra 93.1 0.23 5.1E-06 43.0 5.9 45 58-103 83-127 (446)
262 TIGR02538 type_IV_pilB type IV 93.1 0.11 2.5E-06 46.1 4.1 26 56-82 317-342 (564)
263 PRK13764 ATPase; Provisional 93.1 0.13 2.8E-06 46.4 4.4 31 56-87 258-288 (602)
264 PRK13700 conjugal transfer pro 93.1 0.17 3.6E-06 46.7 5.0 82 15-101 143-231 (732)
265 cd01130 VirB11-like_ATPase Typ 93.0 0.13 2.9E-06 38.8 3.7 33 56-89 26-58 (186)
266 COG3973 Superfamily I DNA and 93.0 0.3 6.4E-06 44.5 6.3 48 58-105 229-282 (747)
267 PRK14088 dnaA chromosomal repl 92.9 0.32 7E-06 42.0 6.4 42 57-99 132-175 (440)
268 TIGR01073 pcrA ATP-dependent D 92.9 0.14 3E-06 46.6 4.4 55 54-108 16-74 (726)
269 PF00154 RecA: recA bacterial 92.9 0.18 4E-06 42.2 4.7 44 60-103 58-101 (322)
270 TIGR02236 recomb_radA DNA repa 92.9 0.17 3.7E-06 41.1 4.4 35 59-93 99-139 (310)
271 PRK10436 hypothetical protein; 92.8 0.11 2.5E-06 45.3 3.5 31 56-87 219-250 (462)
272 cd01129 PulE-GspE PulE/GspE Th 92.8 0.13 2.7E-06 41.5 3.6 33 56-89 81-114 (264)
273 PRK13721 conjugal transfer ATP 92.8 0.14 3.1E-06 47.5 4.3 39 55-93 449-487 (844)
274 COG0552 FtsY Signal recognitio 92.8 1 2.3E-05 38.0 9.0 56 59-115 143-200 (340)
275 PRK09519 recA DNA recombinatio 92.7 0.21 4.6E-06 46.4 5.3 42 59-100 64-105 (790)
276 TIGR00665 DnaB replicative DNA 92.7 0.18 3.9E-06 42.9 4.5 34 59-92 199-233 (434)
277 TIGR01425 SRP54_euk signal rec 92.6 0.37 8E-06 41.8 6.4 49 59-108 104-155 (429)
278 TIGR01420 pilT_fam pilus retra 92.6 0.16 3.4E-06 42.4 3.9 38 56-94 123-162 (343)
279 PRK05800 cobU adenosylcobinami 92.5 0.2 4.2E-06 37.9 4.0 43 58-103 4-46 (170)
280 TIGR02524 dot_icm_DotB Dot/Icm 92.3 0.19 4.1E-06 42.4 4.2 24 56-80 135-158 (358)
281 TIGR03600 phage_DnaB phage rep 92.3 0.21 4.6E-06 42.4 4.5 32 59-90 198-230 (421)
282 TIGR00416 sms DNA repair prote 92.3 0.23 4.9E-06 43.2 4.6 43 59-102 98-140 (454)
283 PF13207 AAA_17: AAA domain; P 92.3 0.14 3E-06 35.2 2.8 19 59-77 3-21 (121)
284 PF05707 Zot: Zonular occluden 92.2 0.14 3.1E-06 38.9 3.0 33 59-91 4-37 (193)
285 TIGR02785 addA_Gpos recombinat 92.2 0.23 5.1E-06 48.0 5.1 61 48-108 7-70 (1232)
286 PF02534 T4SS-DNA_transf: Type 92.2 0.18 3.9E-06 43.1 3.9 56 56-113 45-100 (469)
287 PRK14729 miaA tRNA delta(2)-is 92.1 0.11 2.3E-06 43.1 2.3 15 59-73 8-22 (300)
288 TIGR02533 type_II_gspE general 92.0 0.14 3E-06 44.9 3.0 31 58-89 245-276 (486)
289 PF08423 Rad51: Rad51; InterP 91.9 0.22 4.8E-06 39.9 3.9 49 60-108 43-97 (256)
290 cd01983 Fer4_NifH The Fer4_Nif 91.9 0.42 9.2E-06 30.5 4.6 32 59-90 3-34 (99)
291 TIGR02525 plasmid_TraJ plasmid 91.8 0.26 5.6E-06 41.9 4.4 33 56-89 150-185 (372)
292 COG1419 FlhF Flagellar GTP-bin 91.8 0.45 9.8E-06 41.1 5.9 56 57-112 205-265 (407)
293 cd01121 Sms Sms (bacterial rad 91.8 0.28 6.1E-06 41.6 4.6 35 59-93 86-120 (372)
294 COG0468 RecA RecA/RadA recombi 91.7 0.27 5.8E-06 40.4 4.2 47 60-106 65-111 (279)
295 PRK08506 replicative DNA helic 91.7 0.28 6E-06 42.8 4.6 44 59-103 196-239 (472)
296 TIGR02788 VirB11 P-type DNA tr 91.7 0.17 3.7E-06 41.4 3.1 34 55-89 144-177 (308)
297 PF07724 AAA_2: AAA domain (Cd 91.7 0.25 5.3E-06 37.3 3.7 40 57-97 5-45 (171)
298 cd02028 UMPK_like Uridine mono 91.6 0.37 8.1E-06 36.3 4.7 17 59-75 3-19 (179)
299 PRK05595 replicative DNA helic 91.6 0.29 6.2E-06 42.1 4.5 34 59-92 205-239 (444)
300 PF13238 AAA_18: AAA domain; P 91.5 0.19 4.2E-06 34.3 2.8 20 59-78 2-21 (129)
301 COG1197 Mfd Transcription-repa 91.4 0.39 8.4E-06 46.2 5.5 57 74-130 794-863 (1139)
302 PRK13768 GTPase; Provisional 91.4 0.34 7.4E-06 38.6 4.5 31 59-89 6-36 (253)
303 PF10236 DAP3: Mitochondrial r 91.4 0.34 7.5E-06 39.9 4.6 41 56-96 24-64 (309)
304 COG2805 PilT Tfp pilus assembl 91.4 0.41 8.8E-06 40.3 5.0 41 58-99 128-178 (353)
305 PRK04301 radA DNA repair and r 91.4 0.32 7E-06 39.8 4.4 34 60-93 107-146 (317)
306 PHA02542 41 41 helicase; Provi 91.2 0.33 7.2E-06 42.5 4.6 32 59-90 194-225 (473)
307 PRK13894 conjugal transfer ATP 91.1 0.24 5.2E-06 41.2 3.4 40 55-95 148-190 (319)
308 TIGR02238 recomb_DMC1 meiotic 91.0 0.35 7.5E-06 40.1 4.3 48 60-107 101-154 (313)
309 PF00308 Bac_DnaA: Bacterial d 91.0 0.7 1.5E-05 36.0 5.8 33 59-92 38-73 (219)
310 PF01580 FtsK_SpoIIIE: FtsK/Sp 91.0 0.44 9.6E-06 36.1 4.6 26 56-81 39-64 (205)
311 PF05729 NACHT: NACHT domain 90.9 0.48 1E-05 33.6 4.5 40 59-98 4-48 (166)
312 PRK05748 replicative DNA helic 90.8 0.35 7.7E-06 41.5 4.3 46 58-104 206-252 (448)
313 KOG0385 Chromatin remodeling c 90.7 1.2 2.5E-05 41.8 7.6 79 56-135 187-280 (971)
314 cd02034 CooC The accessory pro 90.7 0.59 1.3E-05 33.1 4.7 32 58-89 2-33 (116)
315 PRK12727 flagellar biosynthesi 90.7 0.7 1.5E-05 41.5 6.1 50 56-105 351-404 (559)
316 PF04665 Pox_A32: Poxvirus A32 90.7 0.4 8.7E-06 38.6 4.2 35 56-91 14-49 (241)
317 TIGR01547 phage_term_2 phage t 90.6 0.86 1.9E-05 38.2 6.4 50 58-107 4-57 (396)
318 cd03114 ArgK-like The function 90.5 0.52 1.1E-05 34.6 4.4 30 59-88 3-32 (148)
319 COG0378 HypB Ni2+-binding GTPa 90.4 0.43 9.3E-06 37.6 4.1 57 60-118 18-76 (202)
320 cd01126 TraG_VirD4 The TraG/Tr 90.3 0.26 5.7E-06 41.2 3.0 53 58-113 2-55 (384)
321 KOG0387 Transcription-coupled 90.3 1.7 3.7E-05 40.7 8.4 80 55-135 224-328 (923)
322 PHA00729 NTP-binding motif con 90.3 0.9 1.9E-05 36.3 5.9 48 57-105 19-79 (226)
323 TIGR00580 mfd transcription-re 90.2 0.71 1.5E-05 43.7 6.0 56 75-130 652-720 (926)
324 PRK13830 conjugal transfer pro 90.2 0.3 6.6E-06 45.3 3.6 37 55-91 456-493 (818)
325 PRK05541 adenylylsulfate kinas 90.2 0.59 1.3E-05 34.5 4.5 31 59-89 11-41 (176)
326 cd02023 UMPK Uridine monophosp 90.1 0.48 1E-05 35.7 4.1 16 59-74 3-18 (198)
327 PF13476 AAA_23: AAA domain; P 90.0 0.32 6.9E-06 35.7 2.9 22 58-80 22-43 (202)
328 COG1074 RecB ATP-dependent exo 90.0 0.79 1.7E-05 44.2 6.2 54 55-108 16-74 (1139)
329 KOG0389 SNF2 family DNA-depend 89.9 0.54 1.2E-05 43.9 4.8 77 56-133 419-510 (941)
330 COG1200 RecG RecG-like helicas 89.8 0.78 1.7E-05 42.0 5.7 57 75-131 465-542 (677)
331 PRK00411 cdc6 cell division co 89.8 1.2 2.6E-05 37.0 6.5 34 56-89 56-91 (394)
332 TIGR02880 cbbX_cfxQ probable R 89.8 0.8 1.7E-05 37.2 5.4 18 57-74 60-77 (284)
333 PTZ00301 uridine kinase; Provi 89.7 0.62 1.4E-05 36.4 4.5 16 60-75 8-23 (210)
334 PF13671 AAA_33: AAA domain; P 89.5 0.35 7.7E-06 34.0 2.8 16 59-74 3-18 (143)
335 PF13173 AAA_14: AAA domain 89.5 0.5 1.1E-05 33.3 3.6 32 58-90 5-36 (128)
336 cd02025 PanK Pantothenate kina 89.5 0.63 1.4E-05 36.4 4.4 14 60-73 4-17 (220)
337 PLN03187 meiotic recombination 89.4 0.64 1.4E-05 39.2 4.6 48 60-107 131-184 (344)
338 PRK14494 putative molybdopteri 89.4 0.61 1.3E-05 37.2 4.3 32 60-91 6-37 (229)
339 KOG0745 Putative ATP-dependent 89.4 0.21 4.6E-06 44.0 1.8 18 56-73 227-244 (564)
340 PRK08760 replicative DNA helic 89.4 0.56 1.2E-05 41.0 4.4 45 59-104 233-278 (476)
341 COG0324 MiaA tRNA delta(2)-iso 89.3 0.27 5.9E-06 40.9 2.3 15 59-73 7-21 (308)
342 PRK00091 miaA tRNA delta(2)-is 89.2 0.34 7.4E-06 40.1 2.8 16 59-74 8-23 (307)
343 KOG1002 Nucleotide excision re 89.2 2.2 4.8E-05 38.4 7.9 78 56-135 205-290 (791)
344 CHL00181 cbbX CbbX; Provisiona 89.2 1 2.2E-05 36.7 5.6 23 57-79 61-83 (287)
345 TIGR02881 spore_V_K stage V sp 89.1 0.44 9.6E-06 37.8 3.4 22 56-77 43-64 (261)
346 PF12775 AAA_7: P-loop contain 89.1 0.33 7.2E-06 39.3 2.7 22 55-76 33-54 (272)
347 PF06309 Torsin: Torsin; Inte 89.1 0.43 9.4E-06 34.9 3.0 47 60-106 58-112 (127)
348 COG1474 CDC6 Cdc6-related prot 88.9 0.64 1.4E-05 39.4 4.4 27 56-82 43-69 (366)
349 cd01125 repA Hexameric Replica 88.9 0.71 1.5E-05 36.1 4.3 32 59-90 5-48 (239)
350 TIGR02640 gas_vesic_GvpN gas v 88.9 0.73 1.6E-05 36.8 4.4 31 56-89 22-52 (262)
351 PF13500 AAA_26: AAA domain; P 88.7 0.95 2.1E-05 34.1 4.8 33 60-92 6-38 (199)
352 KOG0392 SNF2 family DNA-depend 88.6 1.3 2.9E-05 43.2 6.6 79 56-135 995-1091(1549)
353 TIGR02784 addA_alphas double-s 88.5 1.3 2.9E-05 42.5 6.6 53 56-108 11-66 (1141)
354 PF01656 CbiA: CobQ/CobB/MinD/ 88.5 1 2.2E-05 33.1 4.8 32 59-90 3-34 (195)
355 PRK13898 type IV secretion sys 88.5 0.44 9.5E-06 44.0 3.3 39 56-94 447-485 (800)
356 COG4240 Predicted kinase [Gene 88.5 0.69 1.5E-05 37.8 4.0 31 60-90 55-86 (300)
357 TIGR02768 TraA_Ti Ti-type conj 88.5 1.1 2.4E-05 41.3 5.8 42 58-100 371-413 (744)
358 TIGR00347 bioD dethiobiotin sy 88.4 0.88 1.9E-05 33.2 4.3 30 60-89 3-32 (166)
359 TIGR01313 therm_gnt_kin carboh 88.4 0.48 1E-05 34.5 2.9 16 59-74 2-17 (163)
360 PRK14723 flhF flagellar biosyn 88.4 1.4 3.1E-05 41.0 6.4 50 59-108 189-242 (767)
361 cd02035 ArsA ArsA ATPase funct 88.3 0.89 1.9E-05 35.1 4.5 32 59-90 3-34 (217)
362 PRK10689 transcription-repair 88.3 1.4 3E-05 42.7 6.6 58 74-131 800-870 (1147)
363 cd00071 GMPK Guanosine monopho 88.3 0.44 9.6E-06 34.4 2.6 18 59-76 3-20 (137)
364 cd00561 CobA_CobO_BtuR ATP:cor 88.3 0.96 2.1E-05 34.1 4.5 29 60-88 7-35 (159)
365 KOG0920 ATP-dependent RNA heli 88.2 3.1 6.7E-05 39.5 8.6 82 56-137 189-279 (924)
366 COG3587 Restriction endonuclea 88.2 0.64 1.4E-05 43.7 4.1 43 57-100 76-121 (985)
367 PRK05986 cob(I)alamin adenolsy 88.2 1 2.2E-05 35.1 4.6 36 56-91 23-58 (191)
368 KOG0390 DNA repair protein, SN 88.1 1 2.2E-05 41.9 5.4 48 60-108 268-322 (776)
369 PF05970 PIF1: PIF1-like helic 88.1 0.68 1.5E-05 38.8 4.0 52 57-108 24-77 (364)
370 PRK12402 replication factor C 88.1 0.66 1.4E-05 37.4 3.7 23 57-79 38-60 (337)
371 COG3267 ExeA Type II secretory 87.9 0.83 1.8E-05 37.4 4.2 38 58-96 54-91 (269)
372 PRK13853 type IV secretion sys 87.7 0.51 1.1E-05 43.6 3.2 37 56-92 427-467 (789)
373 PLN02165 adenylate isopentenyl 87.6 0.42 9.2E-06 40.2 2.4 16 58-73 46-61 (334)
374 PF00485 PRK: Phosphoribulokin 87.5 0.82 1.8E-05 34.5 3.8 15 60-74 4-18 (194)
375 PF02374 ArsA_ATPase: Anion-tr 87.5 1 2.2E-05 37.0 4.6 39 59-97 5-45 (305)
376 PRK00889 adenylylsulfate kinas 87.3 1.2 2.7E-05 32.7 4.6 32 58-89 7-38 (175)
377 KOG0733 Nuclear AAA ATPase (VC 87.3 0.29 6.2E-06 44.8 1.3 20 56-75 546-565 (802)
378 PRK07667 uridine kinase; Provi 87.2 1.2 2.5E-05 33.9 4.4 14 60-73 22-35 (193)
379 PF13555 AAA_29: P-loop contai 87.2 0.72 1.6E-05 29.6 2.8 16 57-72 25-40 (62)
380 PRK05480 uridine/cytidine kina 87.1 1 2.3E-05 34.2 4.2 15 59-73 10-24 (209)
381 TIGR00750 lao LAO/AO transport 87.1 1.2 2.6E-05 36.3 4.7 32 58-89 37-68 (300)
382 PF13191 AAA_16: AAA ATPase do 87.0 1.1 2.3E-05 32.6 4.1 24 56-79 25-48 (185)
383 TIGR02928 orc1/cdc6 family rep 87.0 2.2 4.7E-05 34.9 6.3 23 56-78 41-63 (365)
384 PRK06696 uridine kinase; Valid 87.0 1.2 2.7E-05 34.4 4.6 28 60-88 27-55 (223)
385 PF03237 Terminase_6: Terminas 86.9 1.3 2.9E-05 35.1 4.9 40 59-98 1-42 (384)
386 TIGR00174 miaA tRNA isopenteny 86.6 0.63 1.4E-05 38.3 2.9 17 59-75 3-19 (287)
387 TIGR03819 heli_sec_ATPase heli 86.6 0.76 1.6E-05 38.5 3.4 40 55-95 178-217 (340)
388 PRK06762 hypothetical protein; 86.6 1.2 2.6E-05 32.4 4.1 17 59-75 6-22 (166)
389 PRK00300 gmk guanylate kinase; 86.5 0.66 1.4E-05 34.9 2.8 18 58-75 8-25 (205)
390 COG0630 VirB11 Type IV secreto 86.5 0.85 1.8E-05 37.7 3.6 34 56-90 144-177 (312)
391 cd02027 APSK Adenosine 5'-phos 86.5 1.5 3.3E-05 31.9 4.6 31 59-89 3-33 (149)
392 KOG0731 AAA+-type ATPase conta 86.5 0.27 5.8E-06 45.6 0.7 38 36-73 324-362 (774)
393 TIGR03574 selen_PSTK L-seryl-t 86.4 1.3 2.9E-05 34.7 4.6 31 59-89 3-33 (249)
394 KOG0922 DEAH-box RNA helicase 86.4 2.3 5E-05 38.9 6.5 79 57-135 68-153 (674)
395 PRK07004 replicative DNA helic 86.3 1 2.2E-05 39.1 4.2 33 59-91 217-250 (460)
396 PRK09165 replicative DNA helic 86.2 1.1 2.5E-05 39.2 4.4 45 58-103 220-279 (497)
397 cd00079 HELICc Helicase superf 86.2 4.2 9.2E-05 27.4 6.5 66 66-131 11-87 (131)
398 PRK12900 secA preprotein trans 86.2 1.4 3E-05 42.1 5.2 76 56-132 152-237 (1025)
399 PRK05636 replicative DNA helic 86.1 1.2 2.6E-05 39.3 4.5 47 44-90 248-301 (505)
400 PRK07261 topology modulation p 86.0 0.48 1E-05 35.4 1.8 17 58-74 3-19 (171)
401 TIGR02773 addB_Gpos ATP-depend 86.0 2.1 4.5E-05 41.2 6.4 49 59-108 5-56 (1158)
402 PRK00090 bioD dithiobiotin syn 86.0 1.5 3.3E-05 33.5 4.6 33 60-92 5-37 (222)
403 KOG2749 mRNA cleavage and poly 86.0 1.1 2.4E-05 38.5 4.0 34 56-89 104-137 (415)
404 PRK05342 clpX ATP-dependent pr 85.9 0.79 1.7E-05 39.5 3.2 18 56-73 109-126 (412)
405 PRK08118 topology modulation p 85.9 0.51 1.1E-05 35.3 1.8 17 57-73 3-19 (167)
406 KOG0349 Putative DEAD-box RNA 85.9 0.47 1E-05 42.0 1.8 54 83-137 286-354 (725)
407 TIGR00708 cobA cob(I)alamin ad 85.8 1.5 3.4E-05 33.5 4.5 31 59-89 9-39 (173)
408 COG1223 Predicted ATPase (AAA+ 85.7 0.98 2.1E-05 37.7 3.5 73 20-99 104-191 (368)
409 PRK13897 type IV secretion sys 85.6 1.3 2.9E-05 40.0 4.6 56 55-113 158-214 (606)
410 PRK00131 aroK shikimate kinase 85.5 1.1 2.3E-05 32.3 3.4 18 57-74 6-23 (175)
411 PRK03846 adenylylsulfate kinas 85.4 1.7 3.7E-05 33.0 4.6 31 59-89 28-58 (198)
412 PRK08233 hypothetical protein; 85.4 0.85 1.8E-05 33.3 2.8 15 60-74 8-22 (182)
413 TIGR00382 clpX endopeptidase C 85.4 0.57 1.2E-05 40.5 2.1 18 56-73 117-134 (413)
414 PF01745 IPT: Isopentenyl tran 85.3 1.4 2.9E-05 35.5 4.1 16 59-74 5-20 (233)
415 PTZ00035 Rad51 protein; Provis 85.3 1.5 3.2E-05 36.7 4.5 33 60-92 123-161 (337)
416 PHA03333 putative ATPase subun 85.3 2.4 5.2E-05 39.3 6.1 50 58-107 190-240 (752)
417 PRK06851 hypothetical protein; 85.2 1.4 3.1E-05 37.5 4.4 37 56-92 215-252 (367)
418 TIGR03263 guanyl_kin guanylate 85.2 0.79 1.7E-05 33.7 2.6 17 59-75 5-21 (180)
419 KOG1131 RNA polymerase II tran 85.1 2.6 5.7E-05 38.1 6.1 53 54-106 34-90 (755)
420 PF02283 CobU: Cobinamide kina 85.0 2.4 5.2E-05 32.0 5.2 44 59-105 2-45 (167)
421 TIGR01448 recD_rel helicase, p 85.0 2.4 5.2E-05 39.0 6.0 43 57-100 340-385 (720)
422 TIGR00554 panK_bact pantothena 84.9 1.2 2.5E-05 36.7 3.6 14 60-73 67-80 (290)
423 PHA00350 putative assembly pro 84.9 1.2 2.6E-05 38.4 3.8 29 59-87 5-34 (399)
424 TIGR02688 conserved hypothetic 84.8 3.6 7.7E-05 36.1 6.7 46 54-103 208-254 (449)
425 PF06414 Zeta_toxin: Zeta toxi 84.8 1.1 2.4E-05 34.1 3.3 19 59-77 19-37 (199)
426 cd01428 ADK Adenylate kinase ( 84.7 1 2.2E-05 33.3 3.0 18 58-75 2-19 (194)
427 cd02019 NK Nucleoside/nucleoti 84.7 2.3 5E-05 26.9 4.3 16 59-74 3-18 (69)
428 TIGR01447 recD exodeoxyribonuc 84.6 3.1 6.8E-05 37.4 6.5 48 57-104 162-214 (586)
429 COG0419 SbcC ATPase involved i 84.6 0.68 1.5E-05 43.3 2.4 21 59-80 29-49 (908)
430 PF01583 APS_kinase: Adenylyls 84.6 2.1 4.6E-05 32.2 4.6 30 60-89 7-36 (156)
431 PHA02244 ATPase-like protein 84.6 1.7 3.7E-05 37.3 4.6 20 56-75 120-139 (383)
432 PF02492 cobW: CobW/HypB/UreG, 84.5 1.7 3.8E-05 32.4 4.2 35 59-94 4-38 (178)
433 PRK08840 replicative DNA helic 84.4 1.6 3.5E-05 38.1 4.5 44 59-103 221-265 (464)
434 PF03029 ATP_bind_1: Conserved 84.4 1.1 2.4E-05 35.5 3.2 32 60-92 1-32 (238)
435 PRK10865 protein disaggregatio 84.3 1.3 2.9E-05 41.4 4.1 17 58-74 601-617 (857)
436 PLN03025 replication factor C 84.2 1.3 2.8E-05 36.2 3.7 24 56-79 35-58 (319)
437 PRK08006 replicative DNA helic 84.2 1.7 3.7E-05 38.0 4.5 59 44-103 207-272 (471)
438 PRK06904 replicative DNA helic 84.1 1.7 3.6E-05 38.0 4.5 46 59-105 225-271 (472)
439 PRK00080 ruvB Holliday junctio 84.1 1 2.3E-05 36.9 3.1 20 56-75 52-71 (328)
440 PRK07773 replicative DNA helic 84.1 1.5 3.3E-05 41.1 4.4 34 58-91 220-254 (886)
441 cd00550 ArsA_ATPase Oxyanion-t 84.1 1.7 3.6E-05 34.6 4.2 32 59-90 4-35 (254)
442 TIGR02322 phosphon_PhnN phosph 84.0 1.1 2.4E-05 33.0 2.9 16 59-74 5-20 (179)
443 TIGR00643 recG ATP-dependent D 83.8 3.8 8.3E-05 36.9 6.7 56 75-130 440-516 (630)
444 cd01672 TMPK Thymidine monopho 83.8 2.3 5E-05 31.1 4.6 31 59-89 4-34 (200)
445 PRK08356 hypothetical protein; 83.7 0.93 2E-05 34.3 2.4 17 59-75 9-25 (195)
446 PRK14530 adenylate kinase; Pro 83.7 1.3 2.8E-05 34.0 3.3 19 57-75 5-23 (215)
447 PRK06321 replicative DNA helic 83.6 1.8 4E-05 37.9 4.5 33 59-91 230-263 (472)
448 PRK14737 gmk guanylate kinase; 83.6 0.98 2.1E-05 34.4 2.5 19 59-77 8-26 (186)
449 cd02020 CMPK Cytidine monophos 83.5 1.3 2.8E-05 31.0 3.0 15 59-73 3-17 (147)
450 TIGR01587 cas3_core CRISPR-ass 83.5 5.4 0.00012 32.6 7.1 55 76-130 215-286 (358)
451 PRK03992 proteasome-activating 83.5 1.1 2.5E-05 37.9 3.1 21 56-76 166-186 (389)
452 TIGR00041 DTMP_kinase thymidyl 83.4 4 8.6E-05 30.3 5.8 30 59-89 7-37 (195)
453 COG2256 MGS1 ATPase related to 83.2 3 6.5E-05 36.3 5.5 41 56-99 49-89 (436)
454 PRK09435 membrane ATPase/prote 83.1 2.2 4.7E-05 35.8 4.6 30 60-89 61-90 (332)
455 PLN03186 DNA repair protein RA 83.1 2.2 4.8E-05 35.9 4.6 48 60-107 128-181 (342)
456 cd02037 MRP-like MRP (Multiple 82.9 2.2 4.9E-05 31.2 4.2 29 60-89 5-34 (169)
457 COG3640 CooC CO dehydrogenase 82.9 2.3 4.9E-05 34.6 4.4 31 59-89 4-35 (255)
458 PTZ00293 thymidine kinase; Pro 82.9 2.4 5.3E-05 33.4 4.6 34 59-92 8-41 (211)
459 PF00910 RNA_helicase: RNA hel 82.9 1.6 3.5E-05 30.0 3.2 20 60-79 3-22 (107)
460 TIGR00455 apsK adenylylsulfate 82.8 2.7 5.9E-05 31.2 4.7 31 59-89 22-52 (184)
461 TIGR00235 udk uridine kinase. 82.8 1.1 2.4E-05 34.1 2.6 15 59-73 10-24 (207)
462 PRK14493 putative bifunctional 82.8 2.2 4.7E-05 34.8 4.3 30 59-89 5-34 (274)
463 COG1192 Soj ATPases involved i 82.6 1.7 3.7E-05 34.0 3.6 30 60-89 8-38 (259)
464 PRK13850 type IV secretion sys 82.5 2 4.3E-05 39.4 4.4 56 55-113 139-195 (670)
465 PRK10078 ribose 1,5-bisphospho 82.5 0.96 2.1E-05 33.9 2.1 18 57-74 4-21 (186)
466 PF02367 UPF0079: Uncharacteri 82.4 0.44 9.6E-06 34.5 0.2 37 59-98 19-55 (123)
467 PRK01184 hypothetical protein; 82.4 1.1 2.5E-05 33.2 2.4 16 59-74 5-20 (184)
468 PRK06620 hypothetical protein; 82.4 0.91 2E-05 35.4 2.0 17 57-73 46-62 (214)
469 PRK06749 replicative DNA helic 82.2 2.2 4.8E-05 36.8 4.4 34 59-92 190-223 (428)
470 cd00464 SK Shikimate kinase (S 82.1 1.5 3.4E-05 31.0 3.0 17 58-74 2-18 (154)
471 PRK04537 ATP-dependent RNA hel 82.1 4.4 9.5E-05 36.2 6.4 49 83-131 257-316 (572)
472 KOG0732 AAA+-type ATPase conta 82.1 0.74 1.6E-05 44.1 1.6 76 4-79 240-323 (1080)
473 TIGR01968 minD_bact septum sit 82.1 2.4 5.3E-05 32.6 4.3 29 60-89 7-36 (261)
474 PRK10875 recD exonuclease V su 82.1 4.2 9.2E-05 36.9 6.3 48 57-104 169-220 (615)
475 cd03116 MobB Molybdenum is an 82.0 2.8 6.1E-05 31.3 4.4 31 59-89 5-35 (159)
476 PLN02840 tRNA dimethylallyltra 82.0 1.3 2.8E-05 38.5 2.9 15 59-73 25-39 (421)
477 TIGR00635 ruvB Holliday juncti 81.9 1.5 3.2E-05 35.2 3.1 20 56-75 31-50 (305)
478 PF00625 Guanylate_kin: Guanyl 81.9 1.7 3.7E-05 32.4 3.3 20 57-76 4-23 (183)
479 PRK12901 secA preprotein trans 81.9 2.6 5.7E-05 40.6 5.1 76 56-132 183-269 (1112)
480 cd02021 GntK Gluconate kinase 81.9 1.5 3.2E-05 31.3 2.8 16 59-74 3-18 (150)
481 COG1875 NYN ribonuclease and A 81.7 1.2 2.6E-05 38.5 2.5 39 60-98 250-291 (436)
482 cd02029 PRK_like Phosphoribulo 81.7 2.7 5.9E-05 34.6 4.5 30 59-89 3-33 (277)
483 PRK09270 nucleoside triphospha 81.6 2.3 4.9E-05 33.1 4.0 14 60-73 38-51 (229)
484 PRK06547 hypothetical protein; 81.6 1.5 3.4E-05 33.0 2.9 17 59-75 19-35 (172)
485 PRK10751 molybdopterin-guanine 81.5 2.7 5.9E-05 32.1 4.2 18 60-77 11-28 (173)
486 TIGR02639 ClpA ATP-dependent C 81.4 5.3 0.00012 36.6 6.8 41 56-96 204-250 (731)
487 TIGR00764 lon_rel lon-related 81.4 2.3 5.1E-05 38.3 4.4 36 56-92 38-75 (608)
488 TIGR01242 26Sp45 26S proteasom 81.3 1.4 3.1E-05 36.7 2.9 21 56-76 157-177 (364)
489 KOG2028 ATPase related to the 81.3 2.3 5.1E-05 37.1 4.2 48 56-103 163-210 (554)
490 PRK10917 ATP-dependent DNA hel 81.3 5.1 0.00011 36.5 6.6 56 75-130 463-539 (681)
491 PRK06217 hypothetical protein; 81.2 0.98 2.1E-05 33.8 1.7 16 58-73 4-19 (183)
492 PRK13822 conjugal transfer cou 81.2 2.5 5.5E-05 38.5 4.6 56 55-113 224-280 (641)
493 COG2874 FlaH Predicted ATPases 81.1 4.7 0.0001 32.4 5.6 41 59-99 32-75 (235)
494 TIGR02767 TraG-Ti Ti-type conj 81.1 3.1 6.7E-05 37.8 5.1 55 56-113 212-268 (623)
495 PRK13880 conjugal transfer cou 81.1 1.8 3.9E-05 39.3 3.6 57 55-113 175-232 (636)
496 COG3857 AddB ATP-dependent nuc 81.0 5.1 0.00011 38.6 6.6 48 59-107 5-52 (1108)
497 PF02463 SMC_N: RecF/RecN/SMC 81.0 1.1 2.3E-05 34.2 1.9 17 57-73 26-42 (220)
498 TIGR00609 recB exodeoxyribonuc 80.8 5.2 0.00011 38.5 6.7 53 56-108 10-67 (1087)
499 cd00227 CPT Chloramphenicol (C 80.8 1.7 3.7E-05 32.2 2.9 19 58-76 5-23 (175)
500 PRK06731 flhF flagellar biosyn 80.5 3.3 7.2E-05 33.7 4.7 44 57-100 77-123 (270)
No 1
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.89 E-value=1.2e-23 Score=186.96 Aligned_cols=103 Identities=67% Similarity=0.965 Sum_probs=94.9
Q ss_pred CCcccccccCCC--CccCCCC---------------------------CCCceEECcCCCchHHHHHHHHHHHHHcCCcE
Q 042424 36 RSCVHEVAVPSC--YTLTTDE---------------------------TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRV 86 (138)
Q Consensus 36 ~~~~~~~~~p~~--y~~~~~~---------------------------~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rv 86 (138)
+.|.|+++.|++ |.|+..+ ..+.+++|-|++|||++|+|||+++|+.++|+
T Consensus 96 ~~c~HeVavP~~~dY~p~~~~~~~~~pAk~YPF~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~kQRV 175 (1041)
T KOG0948|consen 96 EGCRHEVAVPPNYDYTPLLPKIFGKPPAKTYPFTLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREKQRV 175 (1041)
T ss_pred ccceeeeecCCccccCccccccCCCCcccCCCcccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhcCeE
Confidence 589999999977 7774321 13566999999999999999999999999999
Q ss_pred EEEechHHHHHHHHHHHHHhcCceEEEecCCcCCCCCCEEEecHHHHHHhhC
Q 042424 87 IYTSSLKALSNQKYRELHKEFKDVGLMTGDVTLSPNASCLVMTTEILRGMLY 138 (138)
Q Consensus 87 iyv~P~kaLv~Q~~~~l~~~f~~v~~~tGd~~~~~~~~IiVtTpe~l~~lL~ 138 (138)
||.+|.+||.||+|++|...|++||++|||.++|+++.|+|+|.|+|++|||
T Consensus 176 IYTSPIKALSNQKYREl~~EF~DVGLMTGDVTInP~ASCLVMTTEILRsMLY 227 (1041)
T KOG0948|consen 176 IYTSPIKALSNQKYRELLEEFKDVGLMTGDVTINPDASCLVMTTEILRSMLY 227 (1041)
T ss_pred EeeChhhhhcchhHHHHHHHhcccceeecceeeCCCCceeeeHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999998
No 2
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.82 E-value=1.7e-20 Score=172.30 Aligned_cols=84 Identities=67% Similarity=0.993 Sum_probs=80.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcCce----EEEecCCcCCCCCCEEEecH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFKDV----GLMTGDVTLSPNASCLVMTT 130 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~~v----~~~tGd~~~~~~~~IiVtTp 130 (138)
..+.++|||||||||++++|||..++++|.|++|++|.|||+||+|++|...|++| |++|||..+|++++|+|+|.
T Consensus 134 ~esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~~~fgdv~~~vGL~TGDv~IN~~A~clvMTT 213 (1041)
T COG4581 134 GESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLLAKFGDVADMVGLMTGDVSINPDAPCLVMTT 213 (1041)
T ss_pred CCcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHHHHhhhhhhhccceecceeeCCCCceEEeeH
Confidence 35778999999999999999999999999999999999999999999999999966 99999999999999999999
Q ss_pred HHHHHhhC
Q 042424 131 EILRGMLY 138 (138)
Q Consensus 131 e~l~~lL~ 138 (138)
|+|.+|||
T Consensus 214 EILRnMly 221 (1041)
T COG4581 214 EILRNMLY 221 (1041)
T ss_pred HHHHHHhc
Confidence 99999998
No 3
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.79 E-value=3.4e-19 Score=161.05 Aligned_cols=83 Identities=33% Similarity=0.486 Sum_probs=76.0
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHH--HhcC-ceEEEecCCcCCC----CCCEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELH--KEFK-DVGLMTGDVTLSP----NASCL 126 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~--~~f~-~v~~~tGd~~~~~----~~~Ii 126 (138)
+.|.++|+|||||||++|+++|.+.+.+ +.++||++|++||++|++++|+ +.|+ +|++.|||...+. +++||
T Consensus 47 ~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~~~~~l~~~~Vi 126 (766)
T COG1204 47 DENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDLDDERLARYDVI 126 (766)
T ss_pred CCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCcccchhhhccCCEE
Confidence 7899999999999999999999999987 5999999999999999999999 4466 8999999988554 89999
Q ss_pred EecHHHHHHhh
Q 042424 127 VMTTEILRGML 137 (138)
Q Consensus 127 VtTpe~l~~lL 137 (138)
|+|||+|++++
T Consensus 127 VtT~EK~Dsl~ 137 (766)
T COG1204 127 VTTPEKLDSLT 137 (766)
T ss_pred EEchHHhhHhh
Confidence 99999999875
No 4
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.79 E-value=1e-19 Score=164.99 Aligned_cols=83 Identities=58% Similarity=0.883 Sum_probs=79.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcCceEEEecCCcCCCCCCEEEecHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFKDVGLMTGDVTLSPNASCLVMTTEILRG 135 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~~v~~~tGd~~~~~~~~IiVtTpe~l~~ 135 (138)
.+..+.|+|+||||++|+|||..+..++.|.||.+|.|||.||++++|++.|++||++|||..+++++.|+|||.|+|++
T Consensus 313 ~SVFVAAHTSAGKTvVAEYAialaq~h~TR~iYTSPIKALSNQKfRDFk~tF~DvgLlTGDvqinPeAsCLIMTTEILRs 392 (1248)
T KOG0947|consen 313 DSVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKALSNQKFRDFKETFGDVGLLTGDVQINPEASCLIMTTEILRS 392 (1248)
T ss_pred CeEEEEecCCCCcchHHHHHHHHHHhhccceEecchhhhhccchHHHHHHhccccceeecceeeCCCcceEeehHHHHHH
Confidence 35569999999999999999999988999999999999999999999999999999999999999999999999999999
Q ss_pred hhC
Q 042424 136 MLY 138 (138)
Q Consensus 136 lL~ 138 (138)
|||
T Consensus 393 MLY 395 (1248)
T KOG0947|consen 393 MLY 395 (1248)
T ss_pred HHh
Confidence 998
No 5
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.76 E-value=1.1e-18 Score=159.41 Aligned_cols=82 Identities=24% Similarity=0.399 Sum_probs=74.8
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc----------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD----------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL 119 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~----------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~ 119 (138)
.+.|.+||||||||||.+|+++|++.++. +-++|||+|+||||.++++.|.++|. .|..+|||...
T Consensus 125 SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~ql 204 (1230)
T KOG0952|consen 125 SNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQL 204 (1230)
T ss_pred CCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCcchh
Confidence 66899999999999999999999999883 57999999999999999999999987 78899999865
Q ss_pred CC----CCCEEEecHHHHHH
Q 042424 120 SP----NASCLVMTTEILRG 135 (138)
Q Consensus 120 ~~----~~~IiVtTpe~l~~ 135 (138)
.. +++|||+|||+||-
T Consensus 205 ~~tei~~tqiiVTTPEKwDv 224 (1230)
T KOG0952|consen 205 TKTEIADTQIIVTTPEKWDV 224 (1230)
T ss_pred hHHHHHhcCEEEecccceee
Confidence 43 89999999999985
No 6
>PRK02362 ski2-like helicase; Provisional
Probab=99.70 E-value=1e-16 Score=144.05 Aligned_cols=83 Identities=29% Similarity=0.471 Sum_probs=74.2
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhc---C-ceEEEecCCcCCC----CCCE
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEF---K-DVGLMTGDVTLSP----NASC 125 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f---~-~v~~~tGd~~~~~----~~~I 125 (138)
..+|.++++|||||||+++++++++++..+.++||++|+++|++|++++|++ | + .|+.++||...+. +.+|
T Consensus 38 ~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~-~~~~g~~v~~~tGd~~~~~~~l~~~~I 116 (737)
T PRK02362 38 DGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFER-FEELGVRVGISTGDYDSRDEWLGDNDI 116 (737)
T ss_pred CCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHH-hhcCCCEEEEEeCCcCccccccCCCCE
Confidence 4578899999999999999999999998899999999999999999999997 5 4 7889999876543 6899
Q ss_pred EEecHHHHHHhh
Q 042424 126 LVMTTEILRGML 137 (138)
Q Consensus 126 iVtTpe~l~~lL 137 (138)
+|+|||+|++++
T Consensus 117 iV~Tpek~~~ll 128 (737)
T PRK02362 117 IVATSEKVDSLL 128 (737)
T ss_pred EEECHHHHHHHH
Confidence 999999999875
No 7
>PRK01172 ski2-like helicase; Provisional
Probab=99.62 E-value=2.2e-15 Score=133.96 Aligned_cols=84 Identities=26% Similarity=0.368 Sum_probs=72.7
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhc--C-ceEEEecCCcCCC----CCCEE
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEF--K-DVGLMTGDVTLSP----NASCL 126 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f--~-~v~~~tGd~~~~~----~~~Ii 126 (138)
...+.++++|||||||+++++++.+++..+.++||++|+++|++|++++|++.. + .|+..+|+...+. ..+|+
T Consensus 36 ~~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~~~~~~dIi 115 (674)
T PRK01172 36 KGENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIGDYDDPPDFIKRYDVV 115 (674)
T ss_pred cCCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeCCCCCChhhhccCCEE
Confidence 346788999999999999999999998889999999999999999999998732 2 6788889875443 68999
Q ss_pred EecHHHHHHhh
Q 042424 127 VMTTEILRGML 137 (138)
Q Consensus 127 VtTpe~l~~lL 137 (138)
|+|||+|++++
T Consensus 116 v~Tpek~~~l~ 126 (674)
T PRK01172 116 ILTSEKADSLI 126 (674)
T ss_pred EECHHHHHHHH
Confidence 99999999875
No 8
>PRK00254 ski2-like helicase; Provisional
Probab=99.60 E-value=5.1e-15 Score=132.80 Aligned_cols=84 Identities=30% Similarity=0.437 Sum_probs=71.6
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHh--cC-ceEEEecCCcCCC----CCCE
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKE--FK-DVGLMTGDVTLSP----NASC 125 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~--f~-~v~~~tGd~~~~~----~~~I 125 (138)
..+|.++++|||||||+++++++++.+. .+.++||++|+++|++|++++|++. ++ .|+.++||...+. +.+|
T Consensus 38 ~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~~~~~~~~~~~~I 117 (720)
T PRK00254 38 EGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDYDSTDEWLGKYDI 117 (720)
T ss_pred CCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCCCCchhhhccCCE
Confidence 4578889999999999999998888765 5889999999999999999999862 23 7888999876442 6799
Q ss_pred EEecHHHHHHhh
Q 042424 126 LVMTTEILRGML 137 (138)
Q Consensus 126 iVtTpe~l~~lL 137 (138)
+|+|||+|++++
T Consensus 118 iV~Tpe~~~~ll 129 (720)
T PRK00254 118 IIATAEKFDSLL 129 (720)
T ss_pred EEEcHHHHHHHH
Confidence 999999999875
No 9
>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=99.59 E-value=1.1e-14 Score=106.49 Aligned_cols=83 Identities=27% Similarity=0.365 Sum_probs=70.4
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCC--cEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC--------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQ--RVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS-------- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~--rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~-------- 120 (138)
.++.++.+|||+|||+++..++...+.+++ +++|++|+++|++|.++++++.+. ++..++|+...+
T Consensus 14 ~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (169)
T PF00270_consen 14 GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVLS 93 (169)
T ss_dssp TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHHH
T ss_pred CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccccccccccccccccccccccccccc
Confidence 356789999999999999988888777644 999999999999999999999776 577778876532
Q ss_pred CCCCEEEecHHHHHHhh
Q 042424 121 PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 ~~~~IiVtTpe~l~~lL 137 (138)
.+++|+|+||++|..++
T Consensus 94 ~~~~ilv~T~~~l~~~~ 110 (169)
T PF00270_consen 94 NQADILVTTPEQLLDLI 110 (169)
T ss_dssp TTSSEEEEEHHHHHHHH
T ss_pred ccccccccCcchhhccc
Confidence 36999999999998765
No 10
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.49 E-value=1.5e-13 Score=116.09 Aligned_cols=83 Identities=22% Similarity=0.203 Sum_probs=68.1
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC---
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS--- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~--- 120 (138)
.++.++++|||+|||+++++++++.+.. +.++||++|+++|+.|.++.++.... +++.++|+...+
T Consensus 38 g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~ 117 (434)
T PRK11192 38 GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHA 117 (434)
T ss_pred CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHH
Confidence 3678899999999999999988887642 35899999999999999998887443 678888876432
Q ss_pred ----CCCCEEEecHHHHHHhh
Q 042424 121 ----PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 ----~~~~IiVtTpe~l~~lL 137 (138)
.+.+|+|+||++|..++
T Consensus 118 ~~l~~~~~IlV~Tp~rl~~~~ 138 (434)
T PRK11192 118 EVFSENQDIVVATPGRLLQYI 138 (434)
T ss_pred HHhcCCCCEEEEChHHHHHHH
Confidence 26789999999998764
No 11
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.48 E-value=1.3e-13 Score=117.70 Aligned_cols=83 Identities=17% Similarity=0.125 Sum_probs=67.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcC---------CcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDK---------QRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~---------~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~- 120 (138)
.++.++++|||+|||+++++++++.+..+ .++||++||++|+.|+++.+++.+. .+..+.|+...+
T Consensus 38 g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~ 117 (456)
T PRK10590 38 GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINP 117 (456)
T ss_pred CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHH
Confidence 36788999999999999999998887531 3799999999999999999988543 445566766543
Q ss_pred ------CCCCEEEecHHHHHHhh
Q 042424 121 ------PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 ------~~~~IiVtTpe~l~~lL 137 (138)
...+|+|+||++|.+++
T Consensus 118 ~~~~l~~~~~IiV~TP~rL~~~~ 140 (456)
T PRK10590 118 QMMKLRGGVDVLVATPGRLLDLE 140 (456)
T ss_pred HHHHHcCCCcEEEEChHHHHHHH
Confidence 26799999999998764
No 12
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.48 E-value=1.3e-13 Score=116.34 Aligned_cols=83 Identities=17% Similarity=0.071 Sum_probs=66.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc----------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD----------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~----------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~- 119 (138)
..+.++++|||||||+++++++++.+.. +.++||++|+++|+.|+++++..... .++.+.|+...
T Consensus 45 g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~ 124 (423)
T PRK04837 45 GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYD 124 (423)
T ss_pred CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHH
Confidence 4678899999999999999888877632 35799999999999999998877433 56777775432
Q ss_pred ------CCCCCEEEecHHHHHHhh
Q 042424 120 ------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ------~~~~~IiVtTpe~l~~lL 137 (138)
+.+.+|+|+||+++..++
T Consensus 125 ~~~~~l~~~~~IlV~TP~~l~~~l 148 (423)
T PRK04837 125 KQLKVLESGVDILIGTTGRLIDYA 148 (423)
T ss_pred HHHHHhcCCCCEEEECHHHHHHHH
Confidence 225799999999998764
No 13
>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=99.48 E-value=7.9e-14 Score=125.99 Aligned_cols=123 Identities=14% Similarity=0.172 Sum_probs=86.1
Q ss_pred CCCCCCCCCCCCCCcchhhhhcCCCCCCcccccccCCCCc----cCCCCCCCceEECcCCCchHHHHHHHHHHHHHc--C
Q 042424 10 RKAPKADSHVRGTPKEESTKKQRNPTRSCVHEVAVPSCYT----LTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRD--K 83 (138)
Q Consensus 10 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~p~~y~----~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~--~ 83 (138)
+..|+.+-.+...|...+......+.+.- ...|...| +.....+|.++++|||||||+++.+++++++.+ +
T Consensus 5 ~~~p~~~a~~~~~~~~l~~~l~~~L~~~g---~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~ 81 (742)
T TIGR03817 5 EHLPARAGRTAPWPAWAHPDVVAALEAAG---IHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPR 81 (742)
T ss_pred eecCCCCcccCCCCCcCCHHHHHHHHHcC---CCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCC
Confidence 45677777777777665544222221110 00111111 111234688899999999999999999988854 5
Q ss_pred CcEEEEechHHHHHHHHHHHHHhc--C-ceEEEecCCcCC------CCCCEEEecHHHHHH
Q 042424 84 QRVIYTSSLKALSNQKYRELHKEF--K-DVGLMTGDVTLS------PNASCLVMTTEILRG 135 (138)
Q Consensus 84 ~rviyv~P~kaLv~Q~~~~l~~~f--~-~v~~~tGd~~~~------~~~~IiVtTpe~l~~ 135 (138)
.++||++||++|++|++++|++.. + .+..++||...+ .+++|||+||+++..
T Consensus 82 ~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gdt~~~~r~~i~~~~~IivtTPd~L~~ 142 (742)
T TIGR03817 82 ATALYLAPTKALAADQLRAVRELTLRGVRPATYDGDTPTEERRWAREHARYVLTNPDMLHR 142 (742)
T ss_pred cEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCCCCHHHHHHHhcCCCEEEEChHHHHH
Confidence 689999999999999999999843 2 678889987542 368999999999874
No 14
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.47 E-value=1.5e-13 Score=120.92 Aligned_cols=83 Identities=16% Similarity=0.095 Sum_probs=68.1
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc----------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD----------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~----------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~ 120 (138)
.++.++++|||||||+++++++++.+.. +.++||++||++|++|+++++.+... .+..++|+...+
T Consensus 46 G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~ 125 (572)
T PRK04537 46 GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYD 125 (572)
T ss_pred CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHH
Confidence 4678899999999999999988887632 35899999999999999999988443 577788876532
Q ss_pred -------CCCCEEEecHHHHHHhh
Q 042424 121 -------PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 -------~~~~IiVtTpe~l~~lL 137 (138)
.+.+|||+||++|..+|
T Consensus 126 ~q~~~l~~~~dIiV~TP~rL~~~l 149 (572)
T PRK04537 126 KQRELLQQGVDVIIATPGRLIDYV 149 (572)
T ss_pred HHHHHHhCCCCEEEECHHHHHHHH
Confidence 25789999999998765
No 15
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.47 E-value=1.8e-13 Score=112.44 Aligned_cols=80 Identities=21% Similarity=0.228 Sum_probs=64.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcC---------------
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTL--------------- 119 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~--------------- 119 (138)
.++++|||||||+++++++++++.. +.+++|++|+++|++|++++|.+.|+ .++.++|+...
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGSNLGLLHSSSSFKRIKEMGDSEEFEHL 81 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCcccEEeeccHHHHHHhccCCchhHHHH
Confidence 3699999999999999888877753 68999999999999999999999887 56655543210
Q ss_pred ----------CCCCCEEEecHHHHHHhh
Q 042424 120 ----------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ----------~~~~~IiVtTpe~l~~lL 137 (138)
-+..+|+|+||+++...+
T Consensus 82 ~~~~~~~~~~~~~~~I~v~T~~~l~~~~ 109 (358)
T TIGR01587 82 FPLYIHSNDKLFLDPITVCTIDQVLKSV 109 (358)
T ss_pred HHHHhhchhhhhhCCeeeCCHHHHHHHH
Confidence 125789999999987765
No 16
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.46 E-value=2e-13 Score=125.28 Aligned_cols=83 Identities=30% Similarity=0.336 Sum_probs=66.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---------CCcEEEEechHHHHHHHHHHHHHh-------c--------C-c
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---------KQRVIYTSSLKALSNQKYRELHKE-------F--------K-D 109 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---------~~rviyv~P~kaLv~Q~~~~l~~~-------f--------~-~ 109 (138)
..|.++++|||||||+++++++++.+.. +.++||++|+++|++|+++.+.+. + + .
T Consensus 47 g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~ 126 (876)
T PRK13767 47 GKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIR 126 (876)
T ss_pred CCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCee
Confidence 4688999999999999999988877642 346999999999999999876531 1 1 5
Q ss_pred eEEEecCCcCCC-------CCCEEEecHHHHHHhh
Q 042424 110 VGLMTGDVTLSP-------NASCLVMTTEILRGML 137 (138)
Q Consensus 110 v~~~tGd~~~~~-------~~~IiVtTpe~l~~lL 137 (138)
+++++||...+. ..+|+|||||.|..++
T Consensus 127 v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll 161 (876)
T PRK13767 127 VAIRTGDTSSYEKQKMLKKPPHILITTPESLAILL 161 (876)
T ss_pred EEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHh
Confidence 788899976432 5789999999998765
No 17
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.46 E-value=2.6e-13 Score=115.62 Aligned_cols=83 Identities=17% Similarity=0.172 Sum_probs=68.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcC-------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTL------- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~------- 119 (138)
..+.++++|||+|||+++.+++++.+.. +.++++++||++|+.|++++++.... .+..++|+...
T Consensus 41 g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l 120 (460)
T PRK11776 41 GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSL 120 (460)
T ss_pred CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHh
Confidence 4678899999999999999999988864 34799999999999999999987432 56777887654
Q ss_pred CCCCCEEEecHHHHHHhh
Q 042424 120 SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ~~~~~IiVtTpe~l~~lL 137 (138)
..+.+|+|+||++|..++
T Consensus 121 ~~~~~IvV~Tp~rl~~~l 138 (460)
T PRK11776 121 EHGAHIIVGTPGRILDHL 138 (460)
T ss_pred cCCCCEEEEChHHHHHHH
Confidence 237899999999998765
No 18
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.45 E-value=1.7e-13 Score=130.64 Aligned_cols=78 Identities=31% Similarity=0.356 Sum_probs=63.5
Q ss_pred EECcCCCchHHHHHHHHHHHHHc-------------CCcEEEEechHHHHHHHHHHHHH----------hc-----C-ce
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD-------------KQRVIYTSSLKALSNQKYRELHK----------EF-----K-DV 110 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~-------------~~rviyv~P~kaLv~Q~~~~l~~----------~f-----~-~v 110 (138)
|++|||||||++++++++..+.. +.++|||+|+|+|++|+++.|+. .+ + .|
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 58999999999999877666531 46899999999999999999864 11 2 68
Q ss_pred EEEecCCcCCC-------CCCEEEecHHHHHHhh
Q 042424 111 GLMTGDVTLSP-------NASCLVMTTEILRGML 137 (138)
Q Consensus 111 ~~~tGd~~~~~-------~~~IiVtTpe~l~~lL 137 (138)
++++||...+. ..+|||+|||+|+.||
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LL 114 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLML 114 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHH
Confidence 89999986532 5799999999998875
No 19
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.45 E-value=2.1e-13 Score=123.85 Aligned_cols=84 Identities=27% Similarity=0.321 Sum_probs=71.0
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc--------CCcEEEEechHHHHHHHHHHHHHhc---C-ceEEEecCCcCCC
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD--------KQRVIYTSSLKALSNQKYRELHKEF---K-DVGLMTGDVTLSP 121 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~--------~~rviyv~P~kaLv~Q~~~~l~~~f---~-~v~~~tGd~~~~~ 121 (138)
...|.+++||||||||++|+++++..+.+ |-.+|||+|.|||.+++.+.+.... + .|.+.+||++...
T Consensus 36 ~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~e 115 (814)
T COG1201 36 SGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSE 115 (814)
T ss_pred CCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHHHcCCccceecCCCChHH
Confidence 45789999999999999999999888753 2468999999999999999987743 3 7899999987643
Q ss_pred -------CCCEEEecHHHHHHhh
Q 042424 122 -------NASCLVMTTEILRGML 137 (138)
Q Consensus 122 -------~~~IiVtTpe~l~~lL 137 (138)
-.+|+|||||.|..+|
T Consensus 116 r~r~~~~PPdILiTTPEsL~lll 138 (814)
T COG1201 116 KQKMLKNPPHILITTPESLAILL 138 (814)
T ss_pred hhhccCCCCcEEEeChhHHHHHh
Confidence 5679999999998776
No 20
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.45 E-value=4.4e-13 Score=114.82 Aligned_cols=81 Identities=19% Similarity=0.135 Sum_probs=65.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc----------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD----------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~----------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~- 120 (138)
++.++++|||||||+++++++++.+.+ +.++||++||++|+.|+++.+++... .+..++|+...+
T Consensus 125 ~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~ 204 (475)
T PRK01297 125 HDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDK 204 (475)
T ss_pred CCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHH
Confidence 578899999999999999988887643 35899999999999999999987543 566677765321
Q ss_pred -------CCCCEEEecHHHHHHh
Q 042424 121 -------PNASCLVMTTEILRGM 136 (138)
Q Consensus 121 -------~~~~IiVtTpe~l~~l 136 (138)
...+|||+||++|..+
T Consensus 205 ~~~~~~~~~~~Iiv~TP~~Ll~~ 227 (475)
T PRK01297 205 QLKQLEARFCDILVATPGRLLDF 227 (475)
T ss_pred HHHHHhCCCCCEEEECHHHHHHH
Confidence 2578999999999765
No 21
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.45 E-value=3.3e-13 Score=119.81 Aligned_cols=78 Identities=26% Similarity=0.333 Sum_probs=69.0
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----------C
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS-----------P 121 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~-----------~ 121 (138)
+.++++|||||||++++++++.++..|.+++|++||++|+.|+++.|++.+. ++++++|+.... .
T Consensus 258 ~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g 337 (630)
T TIGR00643 258 NRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASG 337 (630)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCC
Confidence 5689999999999999999999998999999999999999999999999765 688899986532 2
Q ss_pred CCCEEEecHHHHH
Q 042424 122 NASCLVMTTEILR 134 (138)
Q Consensus 122 ~~~IiVtTpe~l~ 134 (138)
+.+|||+||..+.
T Consensus 338 ~~~IiVgT~~ll~ 350 (630)
T TIGR00643 338 QIHLVVGTHALIQ 350 (630)
T ss_pred CCCEEEecHHHHh
Confidence 5799999999875
No 22
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.44 E-value=2.7e-13 Score=126.23 Aligned_cols=85 Identities=25% Similarity=0.312 Sum_probs=72.3
Q ss_pred CCCCCCceEECcCCCchHHHHHHHHHHHHHcC-----------CcEEEEechHHHHHHHHHHHHHhcC----ceEEEecC
Q 042424 52 TDETTHGTLTNPVYNGKTAVAEYAIAMAFRDK-----------QRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGD 116 (138)
Q Consensus 52 ~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~-----------~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd 116 (138)
+....|.++|||||+|||.+|++.|++.+..+ .+++|++|++||+.++...|.+++. .|+-+|||
T Consensus 322 l~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD 401 (1674)
T KOG0951|consen 322 LRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGD 401 (1674)
T ss_pred hcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEeccc
Confidence 34557899999999999999999999888642 3799999999999999999999876 68889999
Q ss_pred CcCC----CCCCEEEecHHHHHHh
Q 042424 117 VTLS----PNASCLVMTTEILRGM 136 (138)
Q Consensus 117 ~~~~----~~~~IiVtTpe~l~~l 136 (138)
.... ...+|||||||+||-+
T Consensus 402 ~~l~~~qieeTqVIV~TPEK~DiI 425 (1674)
T KOG0951|consen 402 SQLGKEQIEETQVIVTTPEKWDII 425 (1674)
T ss_pred ccchhhhhhcceeEEeccchhhhh
Confidence 7643 3789999999999743
No 23
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.43 E-value=5.2e-13 Score=119.58 Aligned_cols=80 Identities=26% Similarity=0.334 Sum_probs=70.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-----------C
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL-----------S 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~-----------~ 120 (138)
.+.++++|||||||++++++++.++..|.+++|++||++|++|+++.|++.+. ++++++|+.+. +
T Consensus 283 ~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~ 362 (681)
T PRK10917 283 MNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIAS 362 (681)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhC
Confidence 36789999999999999999999998899999999999999999999998764 68899998763 1
Q ss_pred CCCCEEEecHHHHHH
Q 042424 121 PNASCLVMTTEILRG 135 (138)
Q Consensus 121 ~~~~IiVtTpe~l~~ 135 (138)
.+.+|+|+||..+..
T Consensus 363 g~~~IvVgT~~ll~~ 377 (681)
T PRK10917 363 GEADIVIGTHALIQD 377 (681)
T ss_pred CCCCEEEchHHHhcc
Confidence 268999999987753
No 24
>PTZ00424 helicase 45; Provisional
Probab=99.43 E-value=5.5e-13 Score=110.74 Aligned_cols=83 Identities=13% Similarity=0.023 Sum_probs=65.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-------C
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL-------S 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~-------~ 120 (138)
..+.++++|||||||+++++++.+.+.. +.++||++|+++|++|.++.+..... .+..+.|+... .
T Consensus 65 ~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 144 (401)
T PTZ00424 65 GYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLK 144 (401)
T ss_pred CCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHHHHHHc
Confidence 3577899999999999999888887753 57899999999999999998887543 34555665432 1
Q ss_pred CCCCEEEecHHHHHHhh
Q 042424 121 PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 ~~~~IiVtTpe~l~~lL 137 (138)
.+.+|+|+||+++..++
T Consensus 145 ~~~~Ivv~Tp~~l~~~l 161 (401)
T PTZ00424 145 AGVHMVVGTPGRVYDMI 161 (401)
T ss_pred CCCCEEEECcHHHHHHH
Confidence 25689999999988764
No 25
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.43 E-value=2e-13 Score=118.03 Aligned_cols=82 Identities=23% Similarity=0.263 Sum_probs=73.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP------NAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~------~~~ 124 (138)
.|.+++.|||-|||.+|.+.|...+.. ++++||++||+-|+.|+++.+++.++ .+..+||....+. +++
T Consensus 30 ~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~~~k 109 (542)
T COG1111 30 KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAKKK 109 (542)
T ss_pred cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHhhCC
Confidence 699999999999999999999988875 55899999999999999999999877 6899999987652 899
Q ss_pred EEEecHHHHHHhh
Q 042424 125 CLVMTTEILRGML 137 (138)
Q Consensus 125 IiVtTpe~l~~lL 137 (138)
|+|+||+.+.|-|
T Consensus 110 VfvaTPQvveNDl 122 (542)
T COG1111 110 VFVATPQVVENDL 122 (542)
T ss_pred EEEeccHHHHhHH
Confidence 9999999987754
No 26
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.42 E-value=7.9e-13 Score=114.89 Aligned_cols=83 Identities=17% Similarity=0.067 Sum_probs=63.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHH----------cCCcEEEEechHHHHHHHHHHHHHhcC----c-eEEEecCCc-
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFR----------DKQRVIYTSSLKALSNQKYRELHKEFK----D-VGLMTGDVT- 118 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~----------~~~rviyv~P~kaLv~Q~~~~l~~~f~----~-v~~~tGd~~- 118 (138)
.++.++++|||||||++++++++.++. .+.++||++||++|+.|.++.++.... . +.++.|+..
T Consensus 158 g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~ 237 (518)
T PLN00206 158 GRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMP 237 (518)
T ss_pred CCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchH
Confidence 467889999999999999988876652 246899999999999999988877433 2 334445432
Q ss_pred -----CCCCCCEEEecHHHHHHhh
Q 042424 119 -----LSPNASCLVMTTEILRGML 137 (138)
Q Consensus 119 -----~~~~~~IiVtTpe~l~~lL 137 (138)
.....+|||+||++|..+|
T Consensus 238 ~q~~~l~~~~~IiV~TPgrL~~~l 261 (518)
T PLN00206 238 QQLYRIQQGVELIVGTPGRLIDLL 261 (518)
T ss_pred HHHHHhcCCCCEEEECHHHHHHHH
Confidence 1236899999999998775
No 27
>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=99.42 E-value=1.1e-12 Score=99.21 Aligned_cols=83 Identities=18% Similarity=0.100 Sum_probs=66.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-----CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-----KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS----- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-----~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~----- 120 (138)
.++.++++|||+|||+++.+++.+.+.. +.+++|++|+++|+.|+.+.+++... .+..++|+....
T Consensus 36 ~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (203)
T cd00268 36 GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRK 115 (203)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHH
Confidence 4778899999999999988777666653 45899999999999999999988533 566677765432
Q ss_pred --CCCCEEEecHHHHHHhh
Q 042424 121 --PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 --~~~~IiVtTpe~l~~lL 137 (138)
.+++|+|+||+.|..++
T Consensus 116 ~~~~~~iiv~T~~~l~~~l 134 (203)
T cd00268 116 LKRGPHIVVATPGRLLDLL 134 (203)
T ss_pred hcCCCCEEEEChHHHHHHH
Confidence 27899999999988765
No 28
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.41 E-value=6.1e-13 Score=121.84 Aligned_cols=82 Identities=21% Similarity=0.230 Sum_probs=71.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcCCC------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTLSP------ 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~~~------ 121 (138)
+|.+|++|||||||.+++++|++.+.+ ..++||+.||+||++.+.++|++... .++.++||+....
T Consensus 86 ~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~ 165 (851)
T COG1205 86 RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIR 165 (851)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHh
Confidence 688999999999999999999998876 45779999999999999999998433 5678999987543
Q ss_pred -CCCEEEecHHHHHHhh
Q 042424 122 -NASCLVMTTEILRGML 137 (138)
Q Consensus 122 -~~~IiVtTpe~l~~lL 137 (138)
..+||+|||.+|+.+|
T Consensus 166 ~pp~IllTNpdMLh~~l 182 (851)
T COG1205 166 NPPDILLTNPDMLHYLL 182 (851)
T ss_pred CCCCEEEeCHHHHHHHh
Confidence 7899999999999854
No 29
>PTZ00110 helicase; Provisional
Probab=99.38 E-value=1.4e-12 Score=114.13 Aligned_cols=83 Identities=14% Similarity=0.036 Sum_probs=63.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc--------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC---
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD--------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL--- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~--------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~--- 119 (138)
.++.++++|||||||++++++++..+.. +..+|+++||++|+.|+++++++... .+..+.|+...
T Consensus 167 G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q 246 (545)
T PTZ00110 167 GRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQ 246 (545)
T ss_pred CCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHH
Confidence 3678899999999999998877655432 45799999999999999999988432 34455555432
Q ss_pred ----CCCCCEEEecHHHHHHhh
Q 042424 120 ----SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ----~~~~~IiVtTpe~l~~lL 137 (138)
....+|+|+||++|..+|
T Consensus 247 ~~~l~~~~~IlVaTPgrL~d~l 268 (545)
T PTZ00110 247 IYALRRGVEILIACPGRLIDFL 268 (545)
T ss_pred HHHHHcCCCEEEECHHHHHHHH
Confidence 226899999999998765
No 30
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.36 E-value=1.2e-12 Score=115.16 Aligned_cols=83 Identities=25% Similarity=0.357 Sum_probs=66.4
Q ss_pred CCCceEECcCCCchHHHHHHHHHH-HHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCC-----------c
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAM-AFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDV-----------T 118 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~-~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~-----------~ 118 (138)
..|.++..+|+||||+++++|-.. ++..|++.+|++|..||+||+|++|+++|+ .+.+..|-. .
T Consensus 232 G~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~pv~~~ 311 (830)
T COG1202 232 GENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVD 311 (830)
T ss_pred CCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHhhcccceEEEEechhhhcccCCccccC
Confidence 367789999999999999876554 455699999999999999999999999987 233332321 2
Q ss_pred CCCCCCEEEecHHHHHHhh
Q 042424 119 LSPNASCLVMTTEILRGML 137 (138)
Q Consensus 119 ~~~~~~IiVtTpe~l~~lL 137 (138)
...+++|||.|+|-++.+|
T Consensus 312 t~~dADIIVGTYEGiD~lL 330 (830)
T COG1202 312 TSPDADIIVGTYEGIDYLL 330 (830)
T ss_pred CCCCCcEEEeechhHHHHH
Confidence 2349999999999999886
No 31
>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=99.35 E-value=2.5e-12 Score=118.72 Aligned_cols=78 Identities=22% Similarity=0.222 Sum_probs=66.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS----------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~----------- 120 (138)
.+.++++|||+|||++++.+++.++..|.+++|++||++|+.|+++.|++.|. .+++++|.....
T Consensus 473 ~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~ 552 (926)
T TIGR00580 473 MDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELAS 552 (926)
T ss_pred CCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHc
Confidence 46789999999999999999999988899999999999999999999999876 567788765421
Q ss_pred CCCCEEEecHHHH
Q 042424 121 PNASCLVMTTEIL 133 (138)
Q Consensus 121 ~~~~IiVtTpe~l 133 (138)
.+.+|||+||..+
T Consensus 553 g~~dIVIGTp~ll 565 (926)
T TIGR00580 553 GKIDILIGTHKLL 565 (926)
T ss_pred CCceEEEchHHHh
Confidence 1578999999655
No 32
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.35 E-value=3.6e-12 Score=113.51 Aligned_cols=83 Identities=16% Similarity=0.086 Sum_probs=66.0
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcC-------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTL------- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~------- 119 (138)
..+.++++|||+|||+++.+++++.+.. +.++||++||++|+.|+++++.+... .+..+.|+...
T Consensus 43 g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l 122 (629)
T PRK11634 43 GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRAL 122 (629)
T ss_pred CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHh
Confidence 3677899999999999999988887753 45899999999999999999877432 45555565533
Q ss_pred CCCCCEEEecHHHHHHhh
Q 042424 120 SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ~~~~~IiVtTpe~l~~lL 137 (138)
....+|||+||++|..+|
T Consensus 123 ~~~~~IVVgTPgrl~d~l 140 (629)
T PRK11634 123 RQGPQIVVGTPGRLLDHL 140 (629)
T ss_pred cCCCCEEEECHHHHHHHH
Confidence 236899999999998765
No 33
>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=99.31 E-value=5.6e-12 Score=109.73 Aligned_cols=75 Identities=21% Similarity=0.166 Sum_probs=65.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CCCCEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PNASCL 126 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~~~Ii 126 (138)
+|.+|||||||.+++.++.+++.+|++++|++|+++|+.|+++.|++.|+ ++.+++|+.... .+.+||
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IV 80 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVV 80 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEE
Confidence 37899999999999988888888899999999999999999999999898 788898876431 267899
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
|+|+..+
T Consensus 81 VGTrsal 87 (505)
T TIGR00595 81 IGTRSAL 87 (505)
T ss_pred ECChHHH
Confidence 9999765
No 34
>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=99.31 E-value=1.1e-11 Score=103.30 Aligned_cols=78 Identities=13% Similarity=0.044 Sum_probs=61.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--------ceEEEecCCcCC--------
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--------DVGLMTGDVTLS-------- 120 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--------~v~~~tGd~~~~-------- 120 (138)
+.++++|||||||++++++++. .+.+++|++|+++|++|++++|++.+. .+..++|+...+
T Consensus 16 ~~~i~apTGsGKT~~~~~~~l~---~~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~~g~~~~d~~~~~~~~ 92 (357)
T TIGR03158 16 IIFNTAPTGAGKTLAWLTPLLH---GENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHVSKATLKDIKEYANDK 92 (357)
T ss_pred EEEEECCCCCCHHHHHHHHHHH---cCCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEecCCchHHHHHhhhhh
Confidence 3568999999999999887763 467899999999999999999999762 355667762211
Q ss_pred -------------------CCCCEEEecHHHHHHhh
Q 042424 121 -------------------PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 -------------------~~~~IiVtTpe~l~~lL 137 (138)
....|++|||++|+.++
T Consensus 93 ~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~ll 128 (357)
T TIGR03158 93 VGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLT 128 (357)
T ss_pred cccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHH
Confidence 13668999999998765
No 35
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.29 E-value=4.1e-12 Score=110.06 Aligned_cols=82 Identities=22% Similarity=0.255 Sum_probs=67.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc----CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD----KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~----~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~------- 120 (138)
++..+.||||||||+++...|.+++.+ .-|+++|+|++.|+.|.++.|.+... .|+.++|.....
T Consensus 184 rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~ 263 (620)
T KOG0350|consen 184 RDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLA 263 (620)
T ss_pred CceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHh
Confidence 455599999999999999999999865 46899999999999999999998654 577777765432
Q ss_pred --C---CCCEEEecHHHHHHhh
Q 042424 121 --P---NASCLVMTTEILRGML 137 (138)
Q Consensus 121 --~---~~~IiVtTpe~l~~lL 137 (138)
+ ..+|+|+||.+|..-|
T Consensus 264 ~~~~~~~~DIlVaTPGRLVDHl 285 (620)
T KOG0350|consen 264 SDPPECRIDILVATPGRLVDHL 285 (620)
T ss_pred cCCCccccceEEcCchHHHHhc
Confidence 1 5699999999997655
No 36
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.28 E-value=1e-11 Score=111.69 Aligned_cols=83 Identities=23% Similarity=0.249 Sum_probs=68.4
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCC-cCCC------CC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDV-TLSP------NA 123 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~-~~~~------~~ 123 (138)
..|.++++|||+|||++|.+.|..+++. +.++||++|++-|++|+...|...+. .+....||. .... ..
T Consensus 76 gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~~T~~l~~~~~~~~r~~i~~s~ 155 (746)
T KOG0354|consen 76 GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSVTGQLGDTVPRSNRGEIVASK 155 (746)
T ss_pred cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCcccceeeccCccCCCchhhhhccc
Confidence 4799999999999999999999999885 79999999999999999988887443 454444543 3221 78
Q ss_pred CEEEecHHHHHHhh
Q 042424 124 SCLVMTTEILRGML 137 (138)
Q Consensus 124 ~IiVtTpe~l~~lL 137 (138)
+|+|+||+.+.+.|
T Consensus 156 ~vff~TpQil~ndL 169 (746)
T KOG0354|consen 156 RVFFRTPQILENDL 169 (746)
T ss_pred ceEEeChHhhhhhc
Confidence 89999999998876
No 37
>PRK13766 Hef nuclease; Provisional
Probab=99.27 E-value=2.1e-11 Score=109.76 Aligned_cols=82 Identities=24% Similarity=0.310 Sum_probs=69.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC------CCCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS------PNAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~------~~~~ 124 (138)
+|.++++|||+|||+++.+.+...+. .++++||++|+++|++|+.+.|++.++ .+..++|+...+ .+++
T Consensus 30 ~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~~~~ 109 (773)
T PRK13766 30 KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWEKAK 109 (773)
T ss_pred CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHhCCC
Confidence 58899999999999999888877764 378999999999999999999999765 577888886543 1789
Q ss_pred EEEecHHHHHHhh
Q 042424 125 CLVMTTEILRGML 137 (138)
Q Consensus 125 IiVtTpe~l~~lL 137 (138)
|+|+||+.+.+.+
T Consensus 110 iiv~T~~~l~~~l 122 (773)
T PRK13766 110 VIVATPQVIENDL 122 (773)
T ss_pred EEEECHHHHHHHH
Confidence 9999999987643
No 38
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.24 E-value=6.9e-11 Score=103.07 Aligned_cols=84 Identities=14% Similarity=0.050 Sum_probs=66.5
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc---------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD---------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS 120 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~---------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~ 120 (138)
..++.+..+-||||||+.+++.+.+.+.. +-++|+++|||+|+.|..+++.+.-. ....+.|+....
T Consensus 127 ~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~ 206 (519)
T KOG0331|consen 127 SGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKG 206 (519)
T ss_pred cCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCcc
Confidence 34677799999999999999877777664 56799999999999999999999433 233344555543
Q ss_pred -------CCCCEEEecHHHHHHhh
Q 042424 121 -------PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 -------~~~~IiVtTpe~l~~lL 137 (138)
...+|+|+||.++..+|
T Consensus 207 ~Q~~~l~~gvdiviaTPGRl~d~l 230 (519)
T KOG0331|consen 207 PQLRDLERGVDVVIATPGRLIDLL 230 (519)
T ss_pred HHHHHHhcCCcEEEeCChHHHHHH
Confidence 27899999999998876
No 39
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.24 E-value=5.3e-11 Score=103.16 Aligned_cols=79 Identities=14% Similarity=0.139 Sum_probs=60.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCC-cEEEEechHHHHHHHHHHHHHhcC----ce-EEEecCCcCCCCCCEEEec
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQ-RVIYTSSLKALSNQKYRELHKEFK----DV-GLMTGDVTLSPNASCLVMT 129 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~-rviyv~P~kaLv~Q~~~~l~~~f~----~v-~~~tGd~~~~~~~~IiVtT 129 (138)
.+.++++|||+|||+++...+...+..++ ++++++|+++|++|+.++|++... .+ ++..| .....+.+|+|+|
T Consensus 130 ~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g-~~~~~~~~I~VaT 208 (501)
T PHA02558 130 NRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSG-TAKDTDAPIVVST 208 (501)
T ss_pred CceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecC-cccCCCCCEEEee
Confidence 56789999999999998654444444444 999999999999999999998432 33 34444 3444578999999
Q ss_pred HHHHHH
Q 042424 130 TEILRG 135 (138)
Q Consensus 130 pe~l~~ 135 (138)
++.+..
T Consensus 209 ~qsl~~ 214 (501)
T PHA02558 209 WQSAVK 214 (501)
T ss_pred HHHHhh
Confidence 999865
No 40
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.24 E-value=3.2e-11 Score=108.23 Aligned_cols=79 Identities=19% Similarity=0.156 Sum_probs=68.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PNA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~~ 123 (138)
.+.++.+|||||||.+++.++..++..|+++++++|+++|+.|+++.|++.|+ .+.+++|+.... .+.
T Consensus 163 ~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~ 242 (679)
T PRK05580 163 SPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEA 242 (679)
T ss_pred CcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCC
Confidence 45679999999999999989988888899999999999999999999999887 788898876431 257
Q ss_pred CEEEecHHHHH
Q 042424 124 SCLVMTTEILR 134 (138)
Q Consensus 124 ~IiVtTpe~l~ 134 (138)
+|+|+|+..+.
T Consensus 243 ~IVVgTrsal~ 253 (679)
T PRK05580 243 KVVIGARSALF 253 (679)
T ss_pred CEEEeccHHhc
Confidence 89999997653
No 41
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.22 E-value=3.8e-11 Score=112.91 Aligned_cols=79 Identities=20% Similarity=0.254 Sum_probs=65.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS----------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~----------- 120 (138)
.+.++++|||+|||.+++.+++.++.+|.++++++||++|+.|+++.|++.|. .+..++|.....
T Consensus 622 ~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~ 701 (1147)
T PRK10689 622 MDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAE 701 (1147)
T ss_pred CCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHh
Confidence 46789999999999999988888888899999999999999999999998775 466677654321
Q ss_pred CCCCEEEecHHHHH
Q 042424 121 PNASCLVMTTEILR 134 (138)
Q Consensus 121 ~~~~IiVtTpe~l~ 134 (138)
.+.+|||+||+.+.
T Consensus 702 g~~dIVVgTp~lL~ 715 (1147)
T PRK10689 702 GKIDILIGTHKLLQ 715 (1147)
T ss_pred CCCCEEEECHHHHh
Confidence 25789999998654
No 42
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.21 E-value=4.7e-11 Score=102.88 Aligned_cols=88 Identities=15% Similarity=0.089 Sum_probs=69.9
Q ss_pred cCCCCCCCceEECcCCCchHHHHHHHHHHHHHc------CC--cEEEEechHHHHHHHHHHHHHhcC-----ceEEEecC
Q 042424 50 LTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRD------KQ--RVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGD 116 (138)
Q Consensus 50 ~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~------~~--rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd 116 (138)
|++..+.+.++-+|||||||+++++.++..+.+ .. .+++++|||+|+.|+.+..+.... ++.++.|.
T Consensus 38 Plll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG 117 (567)
T KOG0345|consen 38 PLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEHLPNLNCELLVGG 117 (567)
T ss_pred HHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecC
Confidence 344455777899999999999999999998832 22 589999999999999988776322 57777777
Q ss_pred CcCCC--------CCCEEEecHHHHHHhh
Q 042424 117 VTLSP--------NASCLVMTTEILRGML 137 (138)
Q Consensus 117 ~~~~~--------~~~IiVtTpe~l~~lL 137 (138)
..... +++|+|+||.+|..++
T Consensus 118 ~~v~~Di~~fkee~~nIlVgTPGRL~di~ 146 (567)
T KOG0345|consen 118 RSVEEDIKTFKEEGPNILVGTPGRLLDIL 146 (567)
T ss_pred ccHHHHHHHHHHhCCcEEEeCchhHHHHH
Confidence 65532 7889999999998875
No 43
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.19 E-value=7.1e-11 Score=102.01 Aligned_cols=82 Identities=23% Similarity=0.254 Sum_probs=64.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-------------CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-------------KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGD 116 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-------------~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd 116 (138)
.+..+.||+||||||.++++.+...+.+ .-++++++||++|++|.|.+-++ |. .+....|+
T Consensus 111 Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k-~~~~s~~~~~~~ygg 189 (482)
T KOG0335|consen 111 GRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARK-FSYLSGMKSVVVYGG 189 (482)
T ss_pred CCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHh-hcccccceeeeeeCC
Confidence 4566799999999999999888877653 15799999999999999999888 43 34444454
Q ss_pred CcC-------CCCCCEEEecHHHHHHhh
Q 042424 117 VTL-------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 117 ~~~-------~~~~~IiVtTpe~l~~lL 137 (138)
.+. ...++|+|+||.+|.+++
T Consensus 190 ~~~~~q~~~~~~gcdIlvaTpGrL~d~~ 217 (482)
T KOG0335|consen 190 TDLGAQLRFIKRGCDILVATPGRLKDLI 217 (482)
T ss_pred cchhhhhhhhccCccEEEecCchhhhhh
Confidence 332 238999999999998875
No 44
>PRK09401 reverse gyrase; Reviewed
Probab=99.18 E-value=1.3e-10 Score=109.51 Aligned_cols=83 Identities=17% Similarity=0.090 Sum_probs=61.8
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC----------
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL---------- 119 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~---------- 119 (138)
..++.++++|||+|||.+++..+.....++.+++|++||++|+.|+++.|++... .+..+.|....
T Consensus 94 ~g~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~ 173 (1176)
T PRK09401 94 LGESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLE 173 (1176)
T ss_pred CCCcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHH
Confidence 3467889999999999765544333334589999999999999999999998543 34555544321
Q ss_pred ---CCCCCEEEecHHHHHHh
Q 042424 120 ---SPNASCLVMTTEILRGM 136 (138)
Q Consensus 120 ---~~~~~IiVtTpe~l~~l 136 (138)
..+.+|+|+||+.+...
T Consensus 174 ~l~~~~~~IlV~Tp~rL~~~ 193 (1176)
T PRK09401 174 RLKEGDFDILVTTSQFLSKN 193 (1176)
T ss_pred HHhcCCCCEEEECHHHHHHH
Confidence 12589999999998764
No 45
>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=99.18 E-value=3.6e-10 Score=77.79 Aligned_cols=80 Identities=25% Similarity=0.281 Sum_probs=64.0
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH--cCCcEEEEechHHHHHHHHHHHHHhcC---ceEEEecCCcC-------CCCCC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR--DKQRVIYTSSLKALSNQKYRELHKEFK---DVGLMTGDVTL-------SPNAS 124 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~--~~~rviyv~P~kaLv~Q~~~~l~~~f~---~v~~~tGd~~~-------~~~~~ 124 (138)
+.++.+|||+|||.++...+.+.+. ..++++|++|+++|++|..+.+...+. .+..+.+.... ..+.+
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQEKLLSGKTD 81 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHHHHhcCCCC
Confidence 4579999999999999877777665 468999999999999999999988763 46666654432 24889
Q ss_pred EEEecHHHHHHh
Q 042424 125 CLVMTTEILRGM 136 (138)
Q Consensus 125 IiVtTpe~l~~l 136 (138)
|+++|++.+...
T Consensus 82 i~i~t~~~~~~~ 93 (144)
T cd00046 82 IVVGTPGRLLDE 93 (144)
T ss_pred EEEECcHHHHHH
Confidence 999999987643
No 46
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=9.7e-11 Score=102.09 Aligned_cols=84 Identities=19% Similarity=0.141 Sum_probs=67.8
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHH--cC-C-c-EEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcCCC--
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFR--DK-Q-R-VIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTLSP-- 121 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~--~~-~-r-viyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~~~-- 121 (138)
..++.+..++||+|||+++.+++++.+. .. . . +|+++|||+|+.|.++++.+.-. .+..+.|......
T Consensus 65 ~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~ 144 (513)
T COG0513 65 AGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQI 144 (513)
T ss_pred CCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHH
Confidence 3477889999999999999999999887 22 2 2 89999999999999999988422 3567777765332
Q ss_pred -----CCCEEEecHHHHHHhh
Q 042424 122 -----NASCLVMTTEILRGML 137 (138)
Q Consensus 122 -----~~~IiVtTpe~l~~lL 137 (138)
..+|||+||.++.+++
T Consensus 145 ~~l~~~~~ivVaTPGRllD~i 165 (513)
T COG0513 145 EALKRGVDIVVATPGRLLDLI 165 (513)
T ss_pred HHHhcCCCEEEECccHHHHHH
Confidence 5899999999998876
No 47
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.15 E-value=2.2e-10 Score=98.41 Aligned_cols=75 Identities=13% Similarity=0.094 Sum_probs=61.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PNA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~~ 123 (138)
++.++++|||+|||+++.++++ ..+..+|+++|+++|+.|+++.|+. ++ .+..++|+...+ ...
T Consensus 27 ~dvlv~apTGsGKTl~y~lp~l---~~~~~~lVi~P~~~L~~dq~~~l~~-~gi~~~~l~~~~~~~~~~~i~~~~~~~~~ 102 (470)
T TIGR00614 27 RDCFVVMPTGGGKSLCYQLPAL---CSDGITLVISPLISLMEDQVLQLKA-SGIPATFLNSSQSKEQQKNVLTDLKDGKI 102 (470)
T ss_pred CCEEEEcCCCCcHhHHHHHHHH---HcCCcEEEEecHHHHHHHHHHHHHH-cCCcEEEEeCCCCHHHHHHHHHHHhcCCC
Confidence 5778999999999999887764 3477899999999999999999987 55 677777765432 257
Q ss_pred CEEEecHHHHH
Q 042424 124 SCLVMTTEILR 134 (138)
Q Consensus 124 ~IiVtTpe~l~ 134 (138)
+|+++|||.+.
T Consensus 103 ~il~~TPe~l~ 113 (470)
T TIGR00614 103 KLLYVTPEKCS 113 (470)
T ss_pred CEEEECHHHHc
Confidence 89999999874
No 48
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.13 E-value=1.9e-10 Score=100.59 Aligned_cols=83 Identities=20% Similarity=0.174 Sum_probs=65.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---------CCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---------KQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTL 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---------~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~ 119 (138)
.++.+|.++||||||+++++.+.+.|.. |.-+++++|||+|+.|.|+.+++... ...++.|+...
T Consensus 174 grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkK 253 (708)
T KOG0348|consen 174 GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKK 253 (708)
T ss_pred CcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccc
Confidence 3566799999999999999999988753 56689999999999999999999655 22334444433
Q ss_pred C------CCCCEEEecHHHHHHhh
Q 042424 120 S------PNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ~------~~~~IiVtTpe~l~~lL 137 (138)
. ...+|+|+||.+|..-|
T Consensus 254 SEKARLRKGiNILIgTPGRLvDHL 277 (708)
T KOG0348|consen 254 SEKARLRKGINILIGTPGRLVDHL 277 (708)
T ss_pred cHHHHHhcCceEEEcCchHHHHHH
Confidence 2 28999999999987654
No 49
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.10 E-value=6.2e-11 Score=108.85 Aligned_cols=94 Identities=28% Similarity=0.429 Sum_probs=77.2
Q ss_pred cCCCCccCCC----CCCCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC---------
Q 042424 44 VPSCYTLTTD----ETTHGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK--------- 108 (138)
Q Consensus 44 ~p~~y~~~~~----~~~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~--------- 108 (138)
.|+.||--+. .+.+.+|+|||++|||+++.|+|...++. .+-+||++|++||++|...+...+|.
T Consensus 511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~s 590 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRGVS 590 (1330)
T ss_pred CCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccchh
Confidence 5667873322 23567899999999999999999999985 67899999999999999999999885
Q ss_pred ceEEEecCCcCCC-CCCEEEecHHHHHHhh
Q 042424 109 DVGLMTGDVTLSP-NASCLVMTTEILRGML 137 (138)
Q Consensus 109 ~v~~~tGd~~~~~-~~~IiVtTpe~l~~lL 137 (138)
-.|.++-|..+++ +++|+||.||.+.++|
T Consensus 591 l~g~ltqEYsinp~nCQVLITvPecleslL 620 (1330)
T KOG0949|consen 591 LLGDLTQEYSINPWNCQVLITVPECLESLL 620 (1330)
T ss_pred hHhhhhHHhcCCchhceEEEEchHHHHHHh
Confidence 1345566666664 9999999999999987
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=99.10 E-value=3e-10 Score=107.17 Aligned_cols=83 Identities=14% Similarity=0.091 Sum_probs=61.9
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-------ceEEEecCCcCC------
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-------DVGLMTGDVTLS------ 120 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-------~v~~~tGd~~~~------ 120 (138)
..++.++++|||+|||+.++.++.....++.+++|++||++|+.|+++.|++.+. .++.++|+....
T Consensus 92 ~G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~ 171 (1171)
T TIGR01054 92 RGDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFM 171 (1171)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHH
Confidence 3467789999999999855433333334588999999999999999999998543 134567765431
Q ss_pred -----CCCCEEEecHHHHHHh
Q 042424 121 -----PNASCLVMTTEILRGM 136 (138)
Q Consensus 121 -----~~~~IiVtTpe~l~~l 136 (138)
.+.+|+|+||..+...
T Consensus 172 ~~l~~~~~dIlV~Tp~rL~~~ 192 (1171)
T TIGR01054 172 ERIENGDFDILITTTMFLSKN 192 (1171)
T ss_pred HHHhcCCCCEEEECHHHHHHH
Confidence 2489999999998754
No 51
>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=99.05 E-value=4.6e-10 Score=98.76 Aligned_cols=76 Identities=14% Similarity=0.118 Sum_probs=61.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PNA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~~ 123 (138)
++.++++|||+|||+++.++++ ..++.++|++|+++|+.|+++.|+. ++ .+..++|+...+ ...
T Consensus 29 ~dvlv~~PTG~GKTl~y~lpal---~~~g~~lVisPl~sL~~dq~~~l~~-~gi~~~~~~s~~~~~~~~~~~~~l~~~~~ 104 (591)
T TIGR01389 29 RDVLVVMPTGGGKSLCYQVPAL---LLKGLTVVISPLISLMKDQVDQLRA-AGVAAAYLNSTLSAKEQQDIEKALVNGEL 104 (591)
T ss_pred CCEEEEcCCCccHhHHHHHHHH---HcCCcEEEEcCCHHHHHHHHHHHHH-cCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Confidence 5778999999999999976654 3467899999999999999999988 55 777777765432 257
Q ss_pred CEEEecHHHHHH
Q 042424 124 SCLVMTTEILRG 135 (138)
Q Consensus 124 ~IiVtTpe~l~~ 135 (138)
+|+++|||++.+
T Consensus 105 ~il~~tpe~l~~ 116 (591)
T TIGR01389 105 KLLYVAPERLEQ 116 (591)
T ss_pred CEEEEChhHhcC
Confidence 899999999854
No 52
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.05 E-value=2.8e-10 Score=99.99 Aligned_cols=76 Identities=22% Similarity=0.166 Sum_probs=64.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHc-------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC------C
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD-------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP------N 122 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~-------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~------~ 122 (138)
=.+-||||||++++..++++|.+ |--+|+|+|||+|+.|.+..+.+.-. +.|++.|...... .
T Consensus 111 GAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~~ 190 (758)
T KOG0343|consen 111 GAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERISQ 190 (758)
T ss_pred cccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHHHhhhc
Confidence 45669999999999999988754 67899999999999999999998533 7899988766543 8
Q ss_pred CCEEEecHHHHHH
Q 042424 123 ASCLVMTTEILRG 135 (138)
Q Consensus 123 ~~IiVtTpe~l~~ 135 (138)
.+|+||||.+|+-
T Consensus 191 mNILVCTPGRLLQ 203 (758)
T KOG0343|consen 191 MNILVCTPGRLLQ 203 (758)
T ss_pred CCeEEechHHHHH
Confidence 8999999999874
No 53
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.05 E-value=4.7e-10 Score=100.01 Aligned_cols=78 Identities=26% Similarity=0.316 Sum_probs=69.8
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----------C
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS-----------P 121 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~-----------~ 121 (138)
+++|.+.-|||||+||++|++.++..|..+..++||.-|++|+|+.+.+.|. +|+++||..+-. -
T Consensus 285 ~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G 364 (677)
T COG1200 285 NRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASG 364 (677)
T ss_pred HHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCC
Confidence 6779999999999999999999999999999999999999999999999886 689999977532 2
Q ss_pred CCCEEEecHHHHH
Q 042424 122 NASCLVMTTEILR 134 (138)
Q Consensus 122 ~~~IiVtTpe~l~ 134 (138)
+.+|+|.|..-+.
T Consensus 365 ~~~ivVGTHALiQ 377 (677)
T COG1200 365 EIDIVVGTHALIQ 377 (677)
T ss_pred CCCEEEEcchhhh
Confidence 7899999987654
No 54
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.03 E-value=4.6e-10 Score=105.11 Aligned_cols=88 Identities=24% Similarity=0.383 Sum_probs=74.7
Q ss_pred CccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcCCC-
Q 042424 48 YTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTLSP- 121 (138)
Q Consensus 48 y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~~~- 121 (138)
|..+...+.+.++++|+|+|||.||++|+++ -....+++|++|..+++..++++|.+.|+ .+..++|+...+.
T Consensus 1152 f~~~y~~nd~v~vga~~gsgkt~~ae~a~l~-~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~~l~ge~s~~lk 1230 (1674)
T KOG0951|consen 1152 FTSLYNTNDNVLVGAPNGSGKTACAELALLR-PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIVKLTGETSLDLK 1230 (1674)
T ss_pred EeeeecccceEEEecCCCCchhHHHHHHhcC-CccceEEEEecchHHHHHHHHHHHHHhhccccCceEEecCCccccchH
Confidence 4445556678889999999999999999976 12368999999999999999999999997 4667789887765
Q ss_pred ---CCCEEEecHHHHHHh
Q 042424 122 ---NASCLVMTTEILRGM 136 (138)
Q Consensus 122 ---~~~IiVtTpe~l~~l 136 (138)
..+|+|+|||+|+.+
T Consensus 1231 l~~~~~vii~tpe~~d~l 1248 (1674)
T KOG0951|consen 1231 LLQKGQVIISTPEQWDLL 1248 (1674)
T ss_pred HhhhcceEEechhHHHHH
Confidence 899999999999875
No 55
>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=99.03 E-value=1.3e-09 Score=98.58 Aligned_cols=76 Identities=17% Similarity=0.139 Sum_probs=63.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC--CCCEEEec
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP--NASCLVMT 129 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~--~~~IiVtT 129 (138)
++.+|+.|||+|||++++.++... ++++|+++|+..|++|+.++|.+.+. .++.++|+..... ..+|+|+|
T Consensus 274 r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~I~~~tg~~k~~~~~~~~VvVtT 350 (732)
T TIGR00603 274 RSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQICRFTSDAKERFHGEAGVVVST 350 (732)
T ss_pred CCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHhcCCCCceEEEEecCcccccccCCcEEEEE
Confidence 467899999999999998766532 68899999999999999999998543 6788888765543 57899999
Q ss_pred HHHHH
Q 042424 130 TEILR 134 (138)
Q Consensus 130 pe~l~ 134 (138)
++.+.
T Consensus 351 Yq~l~ 355 (732)
T TIGR00603 351 YSMVA 355 (732)
T ss_pred HHHhh
Confidence 98874
No 56
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.02 E-value=2.2e-09 Score=78.10 Aligned_cols=82 Identities=30% Similarity=0.302 Sum_probs=63.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCc------CCCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVT------LSPN 122 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~------~~~~ 122 (138)
.+.++++|||+|||.++..++.+.+..+ .+++|++|+.+++.|..+++++.+. ....+.+... ...+
T Consensus 25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (201)
T smart00487 25 RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESG 104 (201)
T ss_pred CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHHhcC
Confidence 5667999999999998887777776654 8999999999999999999998763 2344444332 1223
Q ss_pred C-CEEEecHHHHHHhh
Q 042424 123 A-SCLVMTTEILRGML 137 (138)
Q Consensus 123 ~-~IiVtTpe~l~~lL 137 (138)
. +|+++|++.+...+
T Consensus 105 ~~~v~~~t~~~l~~~~ 120 (201)
T smart00487 105 KTDILVTTPGRLLDLL 120 (201)
T ss_pred CCCEEEeChHHHHHHH
Confidence 3 99999999887653
No 57
>PRK14701 reverse gyrase; Provisional
Probab=99.01 E-value=9.8e-10 Score=106.28 Aligned_cols=82 Identities=11% Similarity=0.102 Sum_probs=61.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcCC--------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTLS-------- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~~-------- 120 (138)
.++.++++|||+|||+++.........+|.++++++||++|+.|+++.|+.... .+..++|+....
T Consensus 94 G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~ 173 (1638)
T PRK14701 94 GKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLER 173 (1638)
T ss_pred CCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHH
Confidence 467789999999999965544333334678999999999999999999998432 345566765422
Q ss_pred ---CCCCEEEecHHHHHHh
Q 042424 121 ---PNASCLVMTTEILRGM 136 (138)
Q Consensus 121 ---~~~~IiVtTpe~l~~l 136 (138)
.+.+|+|+||+.+...
T Consensus 174 l~~g~~dILV~TPgrL~~~ 192 (1638)
T PRK14701 174 IENGDFDILVTTAQFLARN 192 (1638)
T ss_pred HhcCCCCEEEECCchhHHh
Confidence 1579999999988653
No 58
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.98 E-value=1.7e-09 Score=91.76 Aligned_cols=83 Identities=17% Similarity=0.141 Sum_probs=67.7
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcC------
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTL------ 119 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~------ 119 (138)
..++.+..|-||||||..+.+.|.++|-+ --++++++|+|+|+.|+...|.. ++ .|.++.|....
T Consensus 97 ~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~-Lg~~iglr~~~lvGG~~m~~q~~~ 175 (476)
T KOG0330|consen 97 GGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEA-LGSGIGLRVAVLVGGMDMMLQANQ 175 (476)
T ss_pred CCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHH-hccccCeEEEEEecCchHHHHHHH
Confidence 34667788899999999999999999865 35799999999999999999988 54 46666676542
Q ss_pred -CCCCCEEEecHHHHHHhh
Q 042424 120 -SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 -~~~~~IiVtTpe~l~~lL 137 (138)
....+|||+||.+|...|
T Consensus 176 L~kkPhilVaTPGrL~dhl 194 (476)
T KOG0330|consen 176 LSKKPHILVATPGRLWDHL 194 (476)
T ss_pred hhcCCCEEEeCcHHHHHHH
Confidence 348899999999987654
No 59
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.97 E-value=1.4e-09 Score=94.11 Aligned_cols=83 Identities=20% Similarity=0.208 Sum_probs=68.1
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-------CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcCC--
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-------KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTLS-- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-------~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~~-- 120 (138)
.++.+..|-||+|||+++++...+.+.+ +-.+++++|||.|+.|.+.+.++.+. .|++..|.....
T Consensus 119 gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e 198 (543)
T KOG0342|consen 119 GKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVE 198 (543)
T ss_pred CccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHH
Confidence 3577799999999999999888777654 56799999999999999999888654 577777776532
Q ss_pred -----CCCCEEEecHHHHHHhh
Q 042424 121 -----PNASCLVMTTEILRGML 137 (138)
Q Consensus 121 -----~~~~IiVtTpe~l~~lL 137 (138)
..++|+|+||.+|...|
T Consensus 199 ~~kl~k~~niliATPGRLlDHl 220 (543)
T KOG0342|consen 199 ADKLVKGCNILIATPGRLLDHL 220 (543)
T ss_pred HHHhhccccEEEeCCchHHhHh
Confidence 28999999999998754
No 60
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.95 E-value=3.4e-09 Score=90.88 Aligned_cols=78 Identities=28% Similarity=0.279 Sum_probs=63.3
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC---ceEEEecCCcCCCCCCEEEecHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK---DVGLMTGDVTLSPNASCLVMTTE 131 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~---~v~~~tGd~~~~~~~~IiVtTpe 131 (138)
.++.++++|||+|||+++..++... +.++++|+|++.|+.|+++.+.+.+. .+|.+.|+........|.|+|.+
T Consensus 55 ~~~gvivlpTGaGKT~va~~~~~~~---~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~~g~~~~~~~~~~~~~i~vat~q 131 (442)
T COG1061 55 ERRGVIVLPTGAGKTVVAAEAIAEL---KRSTLVLVPTKELLDQWAEALKKFLLLNDEIGIYGGGEKELEPAKVTVATVQ 131 (442)
T ss_pred CCceEEEeCCCCCHHHHHHHHHHHh---cCCEEEEECcHHHHHHHHHHHHHhcCCccccceecCceeccCCCcEEEEEhH
Confidence 5678899999999999999888765 45599999999999999998888776 47888775433222679999998
Q ss_pred HHHH
Q 042424 132 ILRG 135 (138)
Q Consensus 132 ~l~~ 135 (138)
.+..
T Consensus 132 tl~~ 135 (442)
T COG1061 132 TLAR 135 (442)
T ss_pred HHhh
Confidence 8765
No 61
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.95 E-value=1.9e-09 Score=94.07 Aligned_cols=82 Identities=21% Similarity=0.165 Sum_probs=67.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc------CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC----
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD------KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP---- 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~------~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~---- 121 (138)
+...-||-||+|||.++.+.++..|.. -.|+|+++||+.|+-|.+...++.-. .||+..|......
T Consensus 219 kDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~ 298 (691)
T KOG0338|consen 219 KDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAV 298 (691)
T ss_pred chhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHH
Confidence 344478899999999999999888753 36899999999999999988887432 6888889876543
Q ss_pred ---CCCEEEecHHHHHHhh
Q 042424 122 ---NASCLVMTTEILRGML 137 (138)
Q Consensus 122 ---~~~IiVtTpe~l~~lL 137 (138)
..+|+|+||.+|..-|
T Consensus 299 LRs~PDIVIATPGRlIDHl 317 (691)
T KOG0338|consen 299 LRSRPDIVIATPGRLIDHL 317 (691)
T ss_pred HhhCCCEEEecchhHHHHh
Confidence 7899999999997654
No 62
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=98.95 E-value=2.3e-09 Score=95.05 Aligned_cols=76 Identities=14% Similarity=0.076 Sum_probs=59.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PN 122 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~ 122 (138)
.++.++++|||+|||+++.++++ ..+..+|+++|+++|+.|+.+.|+. ++ .+..+.+....+ .+
T Consensus 40 g~dvlv~apTGsGKTl~y~lpal---~~~g~tlVisPl~sL~~dqv~~l~~-~gi~~~~~~s~~~~~~~~~~~~~~~~g~ 115 (607)
T PRK11057 40 GRDCLVVMPTGGGKSLCYQIPAL---VLDGLTLVVSPLISLMKDQVDQLLA-NGVAAACLNSTQTREQQLEVMAGCRTGQ 115 (607)
T ss_pred CCCEEEEcCCCchHHHHHHHHHH---HcCCCEEEEecHHHHHHHHHHHHHH-cCCcEEEEcCCCCHHHHHHHHHHHhCCC
Confidence 36788999999999999876654 3467899999999999999999988 55 555555543221 25
Q ss_pred CCEEEecHHHHH
Q 042424 123 ASCLVMTTEILR 134 (138)
Q Consensus 123 ~~IiVtTpe~l~ 134 (138)
.+++++|||++.
T Consensus 116 ~~il~~tPe~l~ 127 (607)
T PRK11057 116 IKLLYIAPERLM 127 (607)
T ss_pred CcEEEEChHHhc
Confidence 689999999986
No 63
>PRK09694 helicase Cas3; Provisional
Probab=98.95 E-value=3.2e-09 Score=97.81 Aligned_cols=81 Identities=17% Similarity=0.115 Sum_probs=62.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHHHHHHHHHHHHH----hcC--ceEEEecCCcCC-------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKALSNQKYRELHK----EFK--DVGLMTGDVTLS------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~kaLv~Q~~~~l~~----~f~--~v~~~tGd~~~~------- 120 (138)
+..+|.+|||+|||.+++.++...+..+ .+++|..||+++++|+++++.+ .|. ++.+.+|....+
T Consensus 302 gl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~v~L~Hg~a~l~~~~~~~~ 381 (878)
T PRK09694 302 GLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPNLILAHGNSRFNHLFQSLK 381 (878)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCceEeecCcchhhhhhhhhh
Confidence 4457999999999999988776655543 7999999999999999999875 343 577766643210
Q ss_pred ---------------------------CCCCEEEecHHHHHHh
Q 042424 121 ---------------------------PNASCLVMTTEILRGM 136 (138)
Q Consensus 121 ---------------------------~~~~IiVtTpe~l~~l 136 (138)
.-++|+|||..++...
T Consensus 382 ~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a 424 (878)
T PRK09694 382 SRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLIS 424 (878)
T ss_pred cccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHH
Confidence 0279999999998854
No 64
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.94 E-value=4.3e-10 Score=103.84 Aligned_cols=100 Identities=27% Similarity=0.250 Sum_probs=82.0
Q ss_pred CCcccccccCCC-CccCCCCCCCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC----
Q 042424 36 RSCVHEVAVPSC-YTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK---- 108 (138)
Q Consensus 36 ~~~~~~~~~p~~-y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~---- 108 (138)
..|.|....+.. |..+.....+..+.+|||+|||++++.++++++.. +.+++|++|.++|+.+..++|.+++.
T Consensus 923 ~~~~~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~~g~ 1002 (1230)
T KOG0952|consen 923 ALYKYFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDELPGI 1002 (1230)
T ss_pred HhhcccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcccCCc
Confidence 557665444444 33343445677899999999999999999999885 79999999999999999999999875
Q ss_pred ceEEEecCCcCCC----CCCEEEecHHHHHH
Q 042424 109 DVGLMTGDVTLSP----NASCLVMTTEILRG 135 (138)
Q Consensus 109 ~v~~~tGd~~~~~----~~~IiVtTpe~l~~ 135 (138)
.+.-++||...+. +++|+|+|||+|+.
T Consensus 1003 k~ie~tgd~~pd~~~v~~~~~~ittpek~dg 1033 (1230)
T KOG0952|consen 1003 KVIELTGDVTPDVKAVREADIVITTPEKWDG 1033 (1230)
T ss_pred eeEeccCccCCChhheecCceEEcccccccC
Confidence 4777889887773 89999999999874
No 65
>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=98.94 E-value=1e-08 Score=75.15 Aligned_cols=78 Identities=19% Similarity=0.171 Sum_probs=55.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcCc-eEEEe--------cC------C---
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFKD-VGLMT--------GD------V--- 117 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~~-v~~~t--------Gd------~--- 117 (138)
++.++.+|||||||.++..++.+... ++++++|+++|++|..++|...... ..... ++ .
T Consensus 26 ~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (184)
T PF04851_consen 26 RRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDDFGSEKYNFFEKSIKPAYDSKEFISIQDDIS 102 (184)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHHHSTTSEEEEE--GGGCCE-SEEETTTTEEE
T ss_pred CCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccccc
Confidence 56779999999999999876665544 9999999999999999999663331 11110 00 0
Q ss_pred ----cCCCCCCEEEecHHHHHHh
Q 042424 118 ----TLSPNASCLVMTTEILRGM 136 (138)
Q Consensus 118 ----~~~~~~~IiVtTpe~l~~l 136 (138)
..+.+.+++++|.+.|...
T Consensus 103 ~~~~~~~~~~~i~~~~~~~l~~~ 125 (184)
T PF04851_consen 103 DKSESDNNDKDIILTTYQSLQSD 125 (184)
T ss_dssp HHHHHCBSS-SEEEEEHHHHHHH
T ss_pred cccccccccccchhhHHHHHHhh
Confidence 0122788999999998764
No 66
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.93 E-value=3.2e-09 Score=97.88 Aligned_cols=82 Identities=12% Similarity=0.068 Sum_probs=68.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
.+.+..++||+|||+++.++++..+..+..+++|+|++.|+.|.++.+...+. +++.+.|+..... .++|+
T Consensus 108 ~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y~~DIV 187 (970)
T PRK12899 108 KGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIYQCDVV 187 (970)
T ss_pred CCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHcCCCEE
Confidence 56789999999999999988887666677799999999999999999988654 6777777765432 68999
Q ss_pred EecHHHH-HHhh
Q 042424 127 VMTTEIL-RGML 137 (138)
Q Consensus 127 VtTpe~l-~~lL 137 (138)
|+||.+| ..+|
T Consensus 188 ygTPgRLgfDyL 199 (970)
T PRK12899 188 YGTASEFGFDYL 199 (970)
T ss_pred EECCChhHHHHh
Confidence 9999999 5544
No 67
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.90 E-value=7.1e-09 Score=94.94 Aligned_cols=82 Identities=18% Similarity=0.226 Sum_probs=65.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEe-cCCcCCCCCCEEEec
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMT-GDVTLSPNASCLVMT 129 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~t-Gd~~~~~~~~IiVtT 129 (138)
++.++++|||||||..+.+++++....+.+++++.|++.++.|.++.+.+.++ .||... |+...+.+.+|+|+|
T Consensus 21 ~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~~~~~~~~t~I~v~T 100 (812)
T PRK11664 21 PQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAESKVGPNTRLEVVT 100 (812)
T ss_pred CCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecCccccCCCCcEEEEC
Confidence 56779999999999999877776533346899999999999999999987665 465544 343445577899999
Q ss_pred HHHHHHhh
Q 042424 130 TEILRGML 137 (138)
Q Consensus 130 pe~l~~lL 137 (138)
+.+|..+|
T Consensus 101 ~G~Llr~l 108 (812)
T PRK11664 101 EGILTRMI 108 (812)
T ss_pred hhHHHHHH
Confidence 99998765
No 68
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.85 E-value=6.8e-09 Score=89.34 Aligned_cols=84 Identities=17% Similarity=0.094 Sum_probs=62.1
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc---------CCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCc
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD---------KQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVT 118 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~---------~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~ 118 (138)
...+.+..|-||||||.+++..+++.+-. |-.+++++||++|+.|.|..+.+.-. .+.-++.+..
T Consensus 55 EgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~s 134 (569)
T KOG0346|consen 55 EGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMS 134 (569)
T ss_pred cCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccc
Confidence 44677789999999999999998887632 45789999999999999999887322 1111222221
Q ss_pred C-------CCCCCEEEecHHHHHHhh
Q 042424 119 L-------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 119 ~-------~~~~~IiVtTpe~l~~lL 137 (138)
. ....+|+|+||.++..++
T Consensus 135 dsv~~~~L~d~pdIvV~TP~~ll~~~ 160 (569)
T KOG0346|consen 135 DSVNSVALMDLPDIVVATPAKLLRHL 160 (569)
T ss_pred hHHHHHHHccCCCeEEeChHHHHHHH
Confidence 1 127889999999998764
No 69
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.84 E-value=1.2e-08 Score=95.88 Aligned_cols=76 Identities=13% Similarity=0.100 Sum_probs=59.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-------------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS------------- 120 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~------------- 120 (138)
.++.++++|||+|||+++.++++. .+..+|+|+|+++|+.++...+.. .+ .+..+.|.....
T Consensus 475 GrDVLVimPTGSGKSLcYQLPAL~---~~GiTLVISPLiSLmqDQV~~L~~-~GI~Aa~L~s~~s~~eq~~ilr~l~s~~ 550 (1195)
T PLN03137 475 GYDVFVLMPTGGGKSLTYQLPALI---CPGITLVISPLVSLIQDQIMNLLQ-ANIPAASLSAGMEWAEQLEILQELSSEY 550 (1195)
T ss_pred CCCEEEEcCCCccHHHHHHHHHHH---cCCcEEEEeCHHHHHHHHHHHHHh-CCCeEEEEECCCCHHHHHHHHHHHHhcC
Confidence 367889999999999999877653 467899999999999988888776 44 566666654321
Q ss_pred CCCCEEEecHHHHH
Q 042424 121 PNASCLVMTTEILR 134 (138)
Q Consensus 121 ~~~~IiVtTpe~l~ 134 (138)
...+||++|||+|.
T Consensus 551 g~~~ILyvTPERL~ 564 (1195)
T PLN03137 551 SKYKLLYVTPEKVA 564 (1195)
T ss_pred CCCCEEEEChHHhh
Confidence 25789999999974
No 70
>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=98.84 E-value=1.7e-08 Score=92.60 Aligned_cols=83 Identities=20% Similarity=0.228 Sum_probs=66.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEe-cCCcCCCCCCEEEe
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMT-GDVTLSPNASCLVM 128 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~t-Gd~~~~~~~~IiVt 128 (138)
+.+.++++|||||||..+..++++....+.+++++.|++.++.|.++++.+.++ .||... ++.....+.+|+|+
T Consensus 17 ~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~~~~~s~~t~I~v~ 96 (819)
T TIGR01970 17 HPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRGENKVSRRTRLEVV 96 (819)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEccccccCCCCcEEEE
Confidence 356779999999999999988887765567999999999999999999987665 355332 34344457889999
Q ss_pred cHHHHHHhh
Q 042424 129 TTEILRGML 137 (138)
Q Consensus 129 Tpe~l~~lL 137 (138)
|+.+|..+|
T Consensus 97 T~G~Llr~l 105 (819)
T TIGR01970 97 TEGILTRMI 105 (819)
T ss_pred CCcHHHHHH
Confidence 999998765
No 71
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.84 E-value=1.2e-08 Score=85.70 Aligned_cols=80 Identities=25% Similarity=0.228 Sum_probs=74.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCCCCCCEEEecHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLSPNASCLVMTTEIL 133 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~~~~~IiVtTpe~l 133 (138)
...++.|-||||||.+.+-+|.+++++|.++.+.+|....+-+.+.+|+..|. ++..+.||......++++|+|..+|
T Consensus 117 ~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~S~~~fr~plvVaTtHQL 196 (441)
T COG4098 117 EDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGDSDSYFRAPLVVATTHQL 196 (441)
T ss_pred CcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhccCCeeeEecCCchhccccEEEEehHHH
Confidence 46779999999999999999999999999999999999999999999999998 7889999988888899999999998
Q ss_pred HH
Q 042424 134 RG 135 (138)
Q Consensus 134 ~~ 135 (138)
..
T Consensus 197 lr 198 (441)
T COG4098 197 LR 198 (441)
T ss_pred HH
Confidence 64
No 72
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.84 E-value=1e-08 Score=94.24 Aligned_cols=78 Identities=15% Similarity=0.112 Sum_probs=66.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
...+..++||+|||+++.+++......|+.+.+++|+..|+.|.++.+...+. .|+.++|+...+. .++|+
T Consensus 96 ~G~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg~~~~~r~~~y~~dIv 175 (896)
T PRK13104 96 EGNIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPDMSHKEKQEAYKADIV 175 (896)
T ss_pred cCccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCHHHHHHHhCCCEE
Confidence 45578999999999999887776556688999999999999999999998765 7888888765432 78999
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
++||..|
T Consensus 176 ygT~grl 182 (896)
T PRK13104 176 YGTNNEY 182 (896)
T ss_pred EECChhh
Confidence 9999997
No 73
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.83 E-value=9.3e-09 Score=93.83 Aligned_cols=77 Identities=19% Similarity=0.189 Sum_probs=65.8
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCc-CC-----CCCCEE
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVT-LS-----PNASCL 126 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~-~~-----~~~~Ii 126 (138)
..+..+.||+|||+++.+++......|..+.+++|++.||.|.++.+...+. +|+++.|+.. .. -.++|+
T Consensus 93 G~Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~~~~~~~r~~~y~~dIv 172 (790)
T PRK09200 93 GNIAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSDIDDASEKKAIYEADII 172 (790)
T ss_pred CceeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCcHHHHHHhcCCCEE
Confidence 4489999999999999988875556799999999999999999999988765 7888888776 22 278999
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
++||..|
T Consensus 173 ygT~~~l 179 (790)
T PRK09200 173 YTTNSEL 179 (790)
T ss_pred EECCccc
Confidence 9999887
No 74
>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=98.83 E-value=1.1e-08 Score=92.66 Aligned_cols=77 Identities=16% Similarity=0.107 Sum_probs=64.3
Q ss_pred CCceEECcCCCchHHHHHHHHH-HHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIA-MAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~-~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~I 125 (138)
...+..++||+|||+++.+++. .++ .|+.+.+++|+..||.|.++.+...|. +|+.++|+..... .++|
T Consensus 70 ~G~Iaem~TGeGKTLva~lpa~l~aL-~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~~~~~~r~~~y~~dI 148 (745)
T TIGR00963 70 KGKIAEMKTGEGKTLTATLPAYLNAL-TGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSGMSPEERREAYACDI 148 (745)
T ss_pred CCceeeecCCCccHHHHHHHHHHHHH-hCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCCCCHHHHHHhcCCCE
Confidence 4458999999999999998774 554 588999999999999999999998765 7888888765322 6899
Q ss_pred EEecHHHH
Q 042424 126 LVMTTEIL 133 (138)
Q Consensus 126 iVtTpe~l 133 (138)
+++||..|
T Consensus 149 vyGT~~rl 156 (745)
T TIGR00963 149 TYGTNNEL 156 (745)
T ss_pred EEECCCch
Confidence 99999977
No 75
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.78 E-value=3.4e-08 Score=89.82 Aligned_cols=77 Identities=16% Similarity=0.120 Sum_probs=61.7
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhc---C-ceEEEecCCc---CC-------CC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEF---K-DVGLMTGDVT---LS-------PN 122 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f---~-~v~~~tGd~~---~~-------~~ 122 (138)
..++.++||+|||+++.+++......|..+++++|++.|+.|.++.+...+ + +|+...++.. .+ -.
T Consensus 85 G~Iaem~TGeGKTLta~Lpa~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~y~ 164 (762)
T TIGR03714 85 GNIAEMKTGEGKTLTATMPLYLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKIYN 164 (762)
T ss_pred CceeEecCCcchHHHHHHHHHHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHhCC
Confidence 468999999999999998776555568899999999999999999887654 3 6777655411 11 17
Q ss_pred CCEEEecHHHH
Q 042424 123 ASCLVMTTEIL 133 (138)
Q Consensus 123 ~~IiVtTpe~l 133 (138)
++|+++||..|
T Consensus 165 ~dIvygTp~~L 175 (762)
T TIGR03714 165 SDIVYTTNSAL 175 (762)
T ss_pred CCEEEECchhh
Confidence 89999999998
No 76
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.78 E-value=1.8e-08 Score=94.18 Aligned_cols=78 Identities=21% Similarity=0.222 Sum_probs=66.4
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-----------CC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL-----------SP 121 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~-----------~~ 121 (138)
+++||+.-|-|||.||+-|++.|...|+.|.++|||+-|++|+|+.|+++|. +|.+++.-.+. +-
T Consensus 617 DRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G 696 (1139)
T COG1197 617 DRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEG 696 (1139)
T ss_pred hheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcC
Confidence 5679999999999999999999999999999999999999999999999997 67777543221 12
Q ss_pred CCCEEEecHHHHH
Q 042424 122 NASCLVMTTEILR 134 (138)
Q Consensus 122 ~~~IiVtTpe~l~ 134 (138)
..||||.|..-|.
T Consensus 697 ~vDIvIGTHrLL~ 709 (1139)
T COG1197 697 KVDIVIGTHRLLS 709 (1139)
T ss_pred CccEEEechHhhC
Confidence 7899999987654
No 77
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.74 E-value=2.1e-08 Score=89.91 Aligned_cols=76 Identities=17% Similarity=0.073 Sum_probs=65.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-----CCCCEEEe
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS-----PNASCLVM 128 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~-----~~~~IiVt 128 (138)
.+..+.||+|||+++.+++......|..+++++|++.|+.|.++.+.+.|. +|+.+.|+.... -.++|+++
T Consensus 119 ~Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~gg~~~~~r~~~y~~dIvyg 198 (656)
T PRK12898 119 RLAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVEDQSPDERRAAYGADITYC 198 (656)
T ss_pred CeeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeCCCCHHHHHHHcCCCEEEE
Confidence 389999999999999988887777799999999999999999999998654 788888876432 27899999
Q ss_pred cHHHH
Q 042424 129 TTEIL 133 (138)
Q Consensus 129 Tpe~l 133 (138)
|...|
T Consensus 199 T~~e~ 203 (656)
T PRK12898 199 TNKEL 203 (656)
T ss_pred CCCch
Confidence 98765
No 78
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=98.69 E-value=3.1e-08 Score=90.89 Aligned_cols=77 Identities=17% Similarity=0.241 Sum_probs=53.3
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc----CCcEEEEechHHHHHHHHHHHHHhcC------------------------
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD----KQRVIYTSSLKALSNQKYRELHKEFK------------------------ 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~----~~rviyv~P~kaLv~Q~~~~l~~~f~------------------------ 108 (138)
+.++.+|||||||.++...++ .+.. -+++||++|+++|++|.++++.+...
T Consensus 33 ~v~~~apTGSGKTaa~aafll-~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~ 111 (844)
T TIGR02621 33 PESCSTPTGLGKTSIIAAWLL-AVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKD 111 (844)
T ss_pred cceEecCCCCcccHHHHHhhc-cccccccccceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhcccccccc
Confidence 455789999999985431111 2221 35788899999999999999887431
Q ss_pred ---ceEEEecCCcCCC-------CCCEEEecHHHHH
Q 042424 109 ---DVGLMTGDVTLSP-------NASCLVMTTEILR 134 (138)
Q Consensus 109 ---~v~~~tGd~~~~~-------~~~IiVtTpe~l~ 134 (138)
.+..+.|....+. ..+|||+|++++.
T Consensus 112 ~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~ 147 (844)
T TIGR02621 112 RPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIG 147 (844)
T ss_pred CCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHc
Confidence 2455577765432 5789999987764
No 79
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.68 E-value=1.8e-08 Score=88.53 Aligned_cols=82 Identities=21% Similarity=0.235 Sum_probs=62.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc--------CCcEEEEechHHHHHHHHHHHHHhc--C----ceEEEecCCcC-
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD--------KQRVIYTSSLKALSNQKYRELHKEF--K----DVGLMTGDVTL- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~--------~~rviyv~P~kaLv~Q~~~~l~~~f--~----~v~~~tGd~~~- 119 (138)
.++.+.|+|||||||+.+.+.+++.|.. |-+++++.|+++|+.|.|+++++.- . .+..+..+...
T Consensus 173 ~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~ 252 (593)
T KOG0344|consen 173 KRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPS 252 (593)
T ss_pred ccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchh
Confidence 4678899999999999999999888753 5789999999999999999999843 1 23333333111
Q ss_pred -------CCCCCEEEecHHHHHHh
Q 042424 120 -------SPNASCLVMTTEILRGM 136 (138)
Q Consensus 120 -------~~~~~IiVtTpe~l~~l 136 (138)
+..++|+|.||-++..+
T Consensus 253 qk~a~~~~~k~dili~TP~ri~~~ 276 (593)
T KOG0344|consen 253 QKPAFLSDEKYDILISTPMRIVGL 276 (593)
T ss_pred hccchhHHHHHHHHhcCHHHHHHH
Confidence 12789999999886544
No 80
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.68 E-value=3.2e-08 Score=89.67 Aligned_cols=74 Identities=22% Similarity=0.178 Sum_probs=65.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----C------CC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----P------NA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----~------~~ 123 (138)
...++-+.||||||.+.+.+|..+|.+|+.+|+++|-.+|..|..++|+.+|+ +|+++++..... | ++
T Consensus 218 ~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~ 297 (730)
T COG1198 218 APFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEA 297 (730)
T ss_pred cceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCc
Confidence 34569999999999999999999999999999999999999999999999999 888888766432 1 77
Q ss_pred CEEEec
Q 042424 124 SCLVMT 129 (138)
Q Consensus 124 ~IiVtT 129 (138)
.|+|.|
T Consensus 298 ~vVIGt 303 (730)
T COG1198 298 RVVIGT 303 (730)
T ss_pred eEEEEe
Confidence 888887
No 81
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.68 E-value=8.1e-08 Score=90.62 Aligned_cols=81 Identities=16% Similarity=0.098 Sum_probs=60.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC--c--e-EEE--e--cCCcCCCCCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK--D--V-GLM--T--GDVTLSPNAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~--~--v-~~~--t--Gd~~~~~~~~ 124 (138)
++.+++.|||+|||+++...+.+.++. .+|+||++|+++|++|..+.|..... . + .+. . ++...+.+.+
T Consensus 434 r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~~~~~i~~i~~L~~~~~~~~~~ 513 (1123)
T PRK11448 434 REILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGDQTFASIYDIKGLEDKFPEDETK 513 (1123)
T ss_pred CCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccccchhhhhchhhhhhhcccCCCC
Confidence 567899999999999988777666554 47999999999999999999988321 1 1 111 1 2222344789
Q ss_pred EEEecHHHHHHh
Q 042424 125 CLVMTTEILRGM 136 (138)
Q Consensus 125 IiVtTpe~l~~l 136 (138)
|+|+|.+.|.+.
T Consensus 514 I~iaTiQtl~~~ 525 (1123)
T PRK11448 514 VHVATVQGMVKR 525 (1123)
T ss_pred EEEEEHHHHHHh
Confidence 999999988654
No 82
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.66 E-value=7.7e-08 Score=84.27 Aligned_cols=81 Identities=21% Similarity=0.192 Sum_probs=61.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--------CCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcC--
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--------KQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTL-- 119 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--------~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~-- 119 (138)
+..+=.|-||||||-++.+.++.++.. |--.+|++||++|+.|++.+-++ |+ .|+++.|....
T Consensus 261 rdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKk-f~K~ygl~~v~~ygGgsk~eQ 339 (731)
T KOG0339|consen 261 RDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKK-FGKAYGLRVVAVYGGGSKWEQ 339 (731)
T ss_pred ccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHH-hhhhccceEEEeecCCcHHHH
Confidence 334456779999999998877766532 45689999999999999988777 53 45666554432
Q ss_pred ----CCCCCEEEecHHHHHHhh
Q 042424 120 ----SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ----~~~~~IiVtTpe~l~~lL 137 (138)
...+.||||||++|..|+
T Consensus 340 ~k~Lk~g~EivVaTPgRlid~V 361 (731)
T KOG0339|consen 340 SKELKEGAEIVVATPGRLIDMV 361 (731)
T ss_pred HHhhhcCCeEEEechHHHHHHH
Confidence 238999999999998875
No 83
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.66 E-value=3.3e-08 Score=83.26 Aligned_cols=82 Identities=18% Similarity=0.151 Sum_probs=67.3
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCc-------C
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVT-------L 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~-------~ 119 (138)
.++.+=+|-||||||..+.+.|++.|.. |.=++++.||+.|+-|+.+.|.- .+ .+.++.|... .
T Consensus 44 Grdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~a-lGk~l~lK~~vivGG~d~i~qa~~L 122 (442)
T KOG0340|consen 44 GRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIA-LGKLLNLKVSVIVGGTDMIMQAAIL 122 (442)
T ss_pred ccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHH-hcccccceEEEEEccHHHhhhhhhc
Confidence 3566679999999999999999999875 67789999999999999999987 44 5777777653 2
Q ss_pred CCCCCEEEecHHHHHHhh
Q 042424 120 SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 ~~~~~IiVtTpe~l~~lL 137 (138)
..+.+++|+||+++...|
T Consensus 123 ~~rPHvVvatPGRlad~l 140 (442)
T KOG0340|consen 123 SDRPHVVVATPGRLADHL 140 (442)
T ss_pred ccCCCeEecCcccccccc
Confidence 348899999999986543
No 84
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=98.63 E-value=3.1e-08 Score=87.20 Aligned_cols=78 Identities=17% Similarity=0.184 Sum_probs=61.1
Q ss_pred EECcCCCchHHHHHHHHHHHHH--------------cCCc--EEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFR--------------DKQR--VIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL 119 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~--------------~~~r--viyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~ 119 (138)
=.|-||||||+++-..|...+. ++.+ ++++.|||+|+.|+.+.|..... .+..++|....
T Consensus 224 GaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLav 303 (731)
T KOG0347|consen 224 GAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAV 303 (731)
T ss_pred cccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHH
Confidence 3456999999999777766321 1345 89999999999999999887554 57778888653
Q ss_pred -------CCCCCEEEecHHHHHHhh
Q 042424 120 -------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 -------~~~~~IiVtTpe~l~~lL 137 (138)
+...+|+|+||.+|..|+
T Consensus 304 qKQqRlL~~~p~IVVATPGRlweli 328 (731)
T KOG0347|consen 304 QKQQRLLNQRPDIVVATPGRLWELI 328 (731)
T ss_pred HHHHHHHhcCCCEEEecchHHHHHH
Confidence 337899999999998876
No 85
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=98.60 E-value=9.8e-08 Score=83.70 Aligned_cols=86 Identities=17% Similarity=0.119 Sum_probs=64.9
Q ss_pred CCCCCCCceEECcCCCchHHHHHHHHHHHHHc------------CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEE
Q 042424 51 TTDETTHGTLTNPVYNGKTAVAEYAIAMAFRD------------KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLM 113 (138)
Q Consensus 51 ~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~------------~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~ 113 (138)
+...+++.+..+-||||||..++..++..+.+ |..+++++||+.|+.|+.++-.+ |. .+..+
T Consensus 278 l~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~k-f~~~lg~r~vsv 356 (673)
T KOG0333|consen 278 LGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNK-FGKPLGIRTVSV 356 (673)
T ss_pred chhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHH-hcccccceEEEE
Confidence 34456788899999999998887666554322 78999999999999999999877 54 33333
Q ss_pred ecCCcC-------CCCCCEEEecHHHHHHhh
Q 042424 114 TGDVTL-------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 114 tGd~~~-------~~~~~IiVtTpe~l~~lL 137 (138)
.|.... ...+.|+|+||.+|+..|
T Consensus 357 igg~s~EEq~fqls~gceiviatPgrLid~L 387 (673)
T KOG0333|consen 357 IGGLSFEEQGFQLSMGCEIVIATPGRLIDSL 387 (673)
T ss_pred ecccchhhhhhhhhccceeeecCchHHHHHH
Confidence 344433 238999999999998765
No 86
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=98.59 E-value=1.5e-07 Score=84.47 Aligned_cols=80 Identities=16% Similarity=0.231 Sum_probs=59.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH--cCCcEEEEechHHHHHHHHHHHHHhcCc-eEEEe--cCC---cCCCCCCEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR--DKQRVIYTSSLKALSNQKYRELHKEFKD-VGLMT--GDV---TLSPNASCLV 127 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~--~~~rviyv~P~kaLv~Q~~~~l~~~f~~-v~~~t--Gd~---~~~~~~~IiV 127 (138)
++.+++.|||||||+++.+++...+. ...++|+++|.+.|.+|..++|...... +.... ++. -.+.+.+|+|
T Consensus 264 ~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~~~~~~~s~~~L~~~l~~~~~~iiv 343 (667)
T TIGR00348 264 RGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQKDCAERIESIAELKRLLEKDDGGIII 343 (667)
T ss_pred ceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCCCCCcccCCHHHHHHHHhCCCCCEEE
Confidence 56889999999999999887776654 3579999999999999999999984322 11110 000 0122578999
Q ss_pred ecHHHHHH
Q 042424 128 MTTEILRG 135 (138)
Q Consensus 128 tTpe~l~~ 135 (138)
+|.+.|..
T Consensus 344 tTiQk~~~ 351 (667)
T TIGR00348 344 TTIQKFDK 351 (667)
T ss_pred EEhHHhhh
Confidence 99999874
No 87
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.59 E-value=1.9e-07 Score=86.72 Aligned_cols=80 Identities=21% Similarity=0.200 Sum_probs=58.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEE-EecCCcC---------
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGL-MTGDVTL--------- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~-~tGd~~~--------- 119 (138)
+.+..+.||||.|||...+.+-+..-.+|+|++|++||+.|+.|.++.+++.-. .+-+ ++|..+.
T Consensus 97 g~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~ 176 (1187)
T COG1110 97 GKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALER 176 (1187)
T ss_pred CCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHH
Confidence 356779999999999988643333335689999999999999999999998432 2222 5555332
Q ss_pred --CCCCCEEEecHHHHH
Q 042424 120 --SPNASCLVMTTEILR 134 (138)
Q Consensus 120 --~~~~~IiVtTpe~l~ 134 (138)
+.|.+|+|+|..-+.
T Consensus 177 i~~gdfdIlitTs~FL~ 193 (1187)
T COG1110 177 IESGDFDILITTSQFLS 193 (1187)
T ss_pred HhcCCccEEEEeHHHHH
Confidence 127999999987553
No 88
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.52 E-value=2.1e-07 Score=85.31 Aligned_cols=77 Identities=16% Similarity=0.091 Sum_probs=64.5
Q ss_pred CCceEECcCCCchHHHHHHHHH-HHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIA-MAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~-~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~I 125 (138)
...+..+.||+|||+++.+++. .++ .|+.+-+++|+.-||.|.++.+...|. +|++++|+.+... .++|
T Consensus 95 ~G~Iaem~TGeGKTLva~lpa~l~aL-~G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~~~~~~er~~~y~~dI 173 (830)
T PRK12904 95 EGKIAEMKTGEGKTLVATLPAYLNAL-TGKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILSGMSPEERREAYAADI 173 (830)
T ss_pred CCchhhhhcCCCcHHHHHHHHHHHHH-cCCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcCCCCHHHHHHhcCCCe
Confidence 3457899999999999988775 555 477899999999999999999998765 7888888765432 7899
Q ss_pred EEecHHHH
Q 042424 126 LVMTTEIL 133 (138)
Q Consensus 126 iVtTpe~l 133 (138)
+++|+..|
T Consensus 174 ~ygT~~el 181 (830)
T PRK12904 174 TYGTNNEF 181 (830)
T ss_pred EEECCcch
Confidence 99999988
No 89
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.51 E-value=1.9e-07 Score=86.32 Aligned_cols=82 Identities=20% Similarity=0.151 Sum_probs=62.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc--------CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcC--
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD--------KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTL-- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~--------~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~-- 119 (138)
.+..+-.+-||||||+.+++.++++... |--+|+++||+.|+.|+++++++... -|.++ |...+
T Consensus 402 GrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vy-gg~~~~~ 480 (997)
T KOG0334|consen 402 GRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVY-GGSGISQ 480 (997)
T ss_pred CcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEec-CCccHHH
Confidence 3566688999999999998888876542 56799999999999999999988332 23344 33332
Q ss_pred -----CCCCCEEEecHHHHHHhh
Q 042424 120 -----SPNASCLVMTTEILRGML 137 (138)
Q Consensus 120 -----~~~~~IiVtTpe~l~~lL 137 (138)
+..+.|+||||.++..+|
T Consensus 481 qiaelkRg~eIvV~tpGRmiD~l 503 (997)
T KOG0334|consen 481 QIAELKRGAEIVVCTPGRMIDIL 503 (997)
T ss_pred HHHHHhcCCceEEeccchhhhhH
Confidence 337999999999988765
No 90
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.43 E-value=1.8e-07 Score=80.31 Aligned_cols=80 Identities=18% Similarity=0.154 Sum_probs=63.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc----CCcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcC------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD----KQRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTL------ 119 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~----~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~------ 119 (138)
+..+-.+-||||||.+++..++++|.. |.|+++++|++.|+.|..+.+.+ ++ .+.++.||...
T Consensus 59 ~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkd-lgrgt~lr~s~~~ggD~~eeqf~~l 137 (529)
T KOG0337|consen 59 RDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKD-LGRGTKLRQSLLVGGDSIEEQFILL 137 (529)
T ss_pred cccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHH-hccccchhhhhhcccchHHHHHHHh
Confidence 334456779999999999999998875 57999999999999999998888 54 23355566532
Q ss_pred CCCCCEEEecHHHHHHh
Q 042424 120 SPNASCLVMTTEILRGM 136 (138)
Q Consensus 120 ~~~~~IiVtTpe~l~~l 136 (138)
+.+.+||++||.++..+
T Consensus 138 ~~npDii~ATpgr~~h~ 154 (529)
T KOG0337|consen 138 NENPDIIIATPGRLLHL 154 (529)
T ss_pred ccCCCEEEecCceeeee
Confidence 34899999999987654
No 91
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.36 E-value=9.4e-07 Score=80.23 Aligned_cols=52 Identities=29% Similarity=0.369 Sum_probs=42.7
Q ss_pred CceEECcCCCchHHHHH-HHHHHHHH---cCCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAE-YAIAMAFR---DKQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~-~ai~~~l~---~~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
..++.+|||+|||.+++ ++...... ...|++|+.|++++++++++++++.++
T Consensus 216 ~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~ 271 (733)
T COG1203 216 LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFG 271 (733)
T ss_pred cEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhc
Confidence 44599999999999997 44444333 268999999999999999999998766
No 92
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.34 E-value=1.1e-06 Score=79.43 Aligned_cols=78 Identities=15% Similarity=0.086 Sum_probs=55.4
Q ss_pred CCCceEECcCCCchHHHH---------HHHHHHHH---H---cCCcEEEEechHHHHHHHHHHHHHhcC-------ceEE
Q 042424 55 TTHGTLTNPVYNGKTAVA---------EYAIAMAF---R---DKQRVIYTSSLKALSNQKYRELHKEFK-------DVGL 112 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva---------~~ai~~~l---~---~~~rviyv~P~kaLv~Q~~~~l~~~f~-------~v~~ 112 (138)
.++.+++|+||||||... +++.+..+ . .+.+++++.|+++|+.|+..++.+..+ .+.+
T Consensus 179 gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~vg~~~~~g~~v~v 258 (675)
T PHA02653 179 RKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSLGFDEIDGSPISL 258 (675)
T ss_pred CCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHhCccccCCceEEE
Confidence 467789999999999872 22233322 2 246899999999999999999986443 3566
Q ss_pred EecCCcCC------CCCCEEEecHHH
Q 042424 113 MTGDVTLS------PNASCLVMTTEI 132 (138)
Q Consensus 113 ~tGd~~~~------~~~~IiVtTpe~ 132 (138)
..|+.... ...+|+|+|+..
T Consensus 259 ~~Gg~~~~~~~t~~k~~~Ilv~T~~L 284 (675)
T PHA02653 259 KYGSIPDELINTNPKPYGLVFSTHKL 284 (675)
T ss_pred EECCcchHHhhcccCCCCEEEEeCcc
Confidence 77776421 145799999754
No 93
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.31 E-value=3.4e-07 Score=78.35 Aligned_cols=82 Identities=20% Similarity=0.114 Sum_probs=60.7
Q ss_pred CCceEECcCCCchHHHHHHH-HHHHHHc----------CCcEEEEechHHHHHHHHHHHHHhcC----------ceEEEe
Q 042424 56 THGTLTNPVYNGKTAVAEYA-IAMAFRD----------KQRVIYTSSLKALSNQKYRELHKEFK----------DVGLMT 114 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~a-i~~~l~~----------~~rviyv~P~kaLv~Q~~~~l~~~f~----------~v~~~t 114 (138)
++.+=.+-||||||+++.+. |+.+|.+ |--.++++|.+.|+.|.+.-+...+. ..+++.
T Consensus 208 RDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~Lci 287 (610)
T KOG0341|consen 208 RDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCI 287 (610)
T ss_pred CceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhh
Confidence 34445566999999999653 3344433 56689999999999999988877543 355666
Q ss_pred cCCcCC-------CCCCEEEecHHHHHHhh
Q 042424 115 GDVTLS-------PNASCLVMTTEILRGML 137 (138)
Q Consensus 115 Gd~~~~-------~~~~IiVtTpe~l~~lL 137 (138)
|..... ...+|+|+||.+|-.||
T Consensus 288 GG~~v~eql~~v~~GvHivVATPGRL~DmL 317 (610)
T KOG0341|consen 288 GGVPVREQLDVVRRGVHIVVATPGRLMDML 317 (610)
T ss_pred cCccHHHHHHHHhcCeeEEEcCcchHHHHH
Confidence 766543 37899999999998886
No 94
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.31 E-value=1.4e-06 Score=78.58 Aligned_cols=72 Identities=13% Similarity=0.033 Sum_probs=61.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC-----------CCCCE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS-----------PNASC 125 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~-----------~~~~I 125 (138)
++.+.+|||||.+++.++..++..|+.+|+++|..+|+.|..+.|++.|+ .|.++++..... .+..|
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~I 243 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARV 243 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcE
Confidence 34444699999999999999999999999999999999999999999996 688898766432 15789
Q ss_pred EEecH
Q 042424 126 LVMTT 130 (138)
Q Consensus 126 iVtTp 130 (138)
+|.|-
T Consensus 244 ViGtR 248 (665)
T PRK14873 244 VVGTR 248 (665)
T ss_pred EEEcc
Confidence 99883
No 95
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.26 E-value=1.9e-06 Score=79.65 Aligned_cols=78 Identities=15% Similarity=0.083 Sum_probs=64.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
...+..++||.|||+++.+++......|+.+.+|.|+.-|+.|-++.+...|. +|+.+.|+..... +++|+
T Consensus 96 ~G~IaEm~TGEGKTL~a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~m~~l~~~lGlsv~~i~~~~~~~~r~~~Y~~dI~ 175 (908)
T PRK13107 96 SNRIAEMRTGEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAENNRPLFEFLGLTVGINVAGLGQQEKKAAYNADIT 175 (908)
T ss_pred CCccccccCCCCchHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHhcCCCCeE
Confidence 45678999999999999877766556788899999999999999988887664 7888777654322 79999
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
++||..|
T Consensus 176 YgT~~e~ 182 (908)
T PRK13107 176 YGTNNEF 182 (908)
T ss_pred EeCCCcc
Confidence 9999987
No 96
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.22 E-value=4.7e-06 Score=76.19 Aligned_cols=81 Identities=19% Similarity=0.186 Sum_probs=63.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCCCCCCEEEecH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLSPNASCLVMTT 130 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~~~~~IiVtTp 130 (138)
..+.+|+..||+|||..|...|.+.++. -+|+||++-.++|++|-+..|.+.+. .......+...+.+++|.|+|.
T Consensus 185 ~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~~n~i~~~~~~~s~~i~lsTy 264 (875)
T COG4096 185 QNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTKMNKIEDKKGDTSSEIYLSTY 264 (875)
T ss_pred CceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCccceeeeecccCCcceeEEEeeh
Confidence 3557799999999999998777777665 48999999999999999999988543 3333333445555789999999
Q ss_pred HHHHH
Q 042424 131 EILRG 135 (138)
Q Consensus 131 e~l~~ 135 (138)
+.+-.
T Consensus 265 qt~~~ 269 (875)
T COG4096 265 QTMTG 269 (875)
T ss_pred HHHHh
Confidence 88754
No 97
>PF13245 AAA_19: Part of AAA domain
Probab=98.19 E-value=6.3e-06 Score=54.86 Aligned_cols=45 Identities=22% Similarity=0.273 Sum_probs=39.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc----CCcEEEEechHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD----KQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~----~~rviyv~P~kaLv~Q~~~~l 103 (138)
+|.+|.|+|||..+...+...+.. ++++++++|+++.+++..+.+
T Consensus 14 vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 14 VVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 469999999998887777776654 789999999999999988887
No 98
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.15 E-value=5.8e-06 Score=76.51 Aligned_cols=78 Identities=15% Similarity=0.066 Sum_probs=66.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
...+....||+|||++|.+++.-+...|+.+.+++|+.-|+.|.++.+...|. +|+.++++..... .++|+
T Consensus 96 ~G~iaEM~TGEGKTLvA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i~~~~~~~err~~Y~~dI~ 175 (913)
T PRK13103 96 EGKIAEMRTGEGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPFQPPEEKRAAYAADIT 175 (913)
T ss_pred cCccccccCCCCChHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEECCCCCHHHHHHHhcCCEE
Confidence 45668889999999999988876667799999999999999999999998875 7888888765432 79999
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
++|...|
T Consensus 176 YGT~~e~ 182 (913)
T PRK13103 176 YGTNNEF 182 (913)
T ss_pred EEccccc
Confidence 9998775
No 99
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.15 E-value=4.9e-06 Score=74.75 Aligned_cols=51 Identities=24% Similarity=0.224 Sum_probs=43.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH--cCCcEEEEechHHHHHHHHHHHHHh
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR--DKQRVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~--~~~rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
...++.+|||+|||++++++++..+. .+.++|+.+||++|.+|.+++|...
T Consensus 17 ~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l 69 (636)
T TIGR03117 17 RIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERL 69 (636)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHH
Confidence 45669999999999999987765544 3799999999999999999987753
No 100
>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=98.13 E-value=3.4e-05 Score=60.85 Aligned_cols=78 Identities=26% Similarity=0.268 Sum_probs=54.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC-----CcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCC-------cC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK-----QRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDV-------TL 119 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~-----~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~-------~~ 119 (138)
++.+|+-..|.|||+.++..+......+ +++|+|+|. ++..|+.++|.+.+. .+..+.|+. ..
T Consensus 26 ~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 104 (299)
T PF00176_consen 26 RGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIYDGDSERRRLSKNQ 104 (299)
T ss_dssp -EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEESSSCHHHHTTSSS
T ss_pred CCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccccccccccccccccccccccccccc
Confidence 5667888999999999886665443332 249999999 899999999999773 566666665 22
Q ss_pred CCCCCEEEecHHHHH
Q 042424 120 SPNASCLVMTTEILR 134 (138)
Q Consensus 120 ~~~~~IiVtTpe~l~ 134 (138)
..+.+++|+|++.+.
T Consensus 105 ~~~~~vvi~ty~~~~ 119 (299)
T PF00176_consen 105 LPKYDVVITTYETLR 119 (299)
T ss_dssp CCCSSEEEEEHHHHH
T ss_pred cccceeeeccccccc
Confidence 337889999999887
No 101
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.09 E-value=1.1e-05 Score=74.33 Aligned_cols=46 Identities=17% Similarity=0.145 Sum_probs=39.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYR 101 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~ 101 (138)
...++.||||+|||+.+++++......++++++.+||++|.+|...
T Consensus 265 ~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~ 310 (850)
T TIGR01407 265 EKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLE 310 (850)
T ss_pred CcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHH
Confidence 5566999999999999998776554467899999999999999865
No 102
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=98.02 E-value=4.8e-06 Score=73.67 Aligned_cols=88 Identities=19% Similarity=0.305 Sum_probs=65.5
Q ss_pred ccccCCCCccCCCCCCCce--EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCC
Q 042424 41 EVAVPSCYTLTTDETTHGT--LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDV 117 (138)
Q Consensus 41 ~~~~p~~y~~~~~~~~~~~--l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~ 117 (138)
....|..|.|.....++.+ -++||.||||.-|+ +.+...++.+|.-|.+.|+.+.++++++ .+ .+.++||+.
T Consensus 175 DLt~P~~WyP~AR~~~RkIi~H~GPTNSGKTy~AL----qrl~~aksGvycGPLrLLA~EV~~r~na-~gipCdL~TGeE 249 (700)
T KOG0953|consen 175 DLTNPANWYPEARKIRRKIIMHVGPTNSGKTYRAL----QRLKSAKSGVYCGPLRLLAHEVYDRLNA-LGIPCDLLTGEE 249 (700)
T ss_pred ccCCCcccCchhHhhhheEEEEeCCCCCchhHHHH----HHHhhhccceecchHHHHHHHHHHHhhh-cCCCccccccce
Confidence 3445777776655445544 79999999996544 4445568999999999999999999988 55 889999975
Q ss_pred cCCC-----CCCEEEecHHHH
Q 042424 118 TLSP-----NASCLVMTTEIL 133 (138)
Q Consensus 118 ~~~~-----~~~IiVtTpe~l 133 (138)
.... .++.+-||.|+.
T Consensus 250 ~~~~~~~~~~a~hvScTVEM~ 270 (700)
T KOG0953|consen 250 RRFVLDNGNPAQHVSCTVEMV 270 (700)
T ss_pred eeecCCCCCcccceEEEEEEe
Confidence 4322 367888887764
No 103
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.98 E-value=1e-05 Score=74.15 Aligned_cols=77 Identities=18% Similarity=0.151 Sum_probs=64.6
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEEE
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCLV 127 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~IiV 127 (138)
..+....||+|||++|.+++..+...|+.+-+++|+--|+.|.++.+...|. +|+.++|+.+... .++|+-
T Consensus 95 G~iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl~vg~i~~~~~~~~r~~~y~~dI~Y 174 (796)
T PRK12906 95 GNIAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATEMGELYRWLGLTVGLNLNSMSPDEKRAAYNCDITY 174 (796)
T ss_pred CCcccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHHHHHHhcCCeEEEeCCCCCHHHHHHHhcCCCee
Confidence 4478899999999999988877777899999999999999999999988765 8899988765432 788888
Q ss_pred ecHHHH
Q 042424 128 MTTEIL 133 (138)
Q Consensus 128 tTpe~l 133 (138)
+|...|
T Consensus 175 ~t~~e~ 180 (796)
T PRK12906 175 STNSEL 180 (796)
T ss_pred cCCccc
Confidence 886544
No 104
>KOG4284 consensus DEAD box protein [Transcription]
Probab=97.98 E-value=3.6e-06 Score=75.80 Aligned_cols=81 Identities=10% Similarity=0.087 Sum_probs=64.3
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcCCC------C
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTLSP------N 122 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~~~------~ 122 (138)
+.++.+-.|.|||+++-.+..+.|.. .-.+++|+|||.|+-|+...+.+... .+.++.|+..... .
T Consensus 64 DliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk~ 143 (980)
T KOG4284|consen 64 DLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRLKQ 143 (980)
T ss_pred ceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCcceEEEecCchhhhhhhhhhh
Confidence 56799999999999987555555542 46789999999999999999988532 6777778765432 7
Q ss_pred CCEEEecHHHHHHhh
Q 042424 123 ASCLVMTTEILRGML 137 (138)
Q Consensus 123 ~~IiVtTpe~l~~lL 137 (138)
++|+|.||.++..|+
T Consensus 144 ~rIvIGtPGRi~qL~ 158 (980)
T KOG4284|consen 144 TRIVIGTPGRIAQLV 158 (980)
T ss_pred ceEEecCchHHHHHH
Confidence 889999999987653
No 105
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.97 E-value=8.1e-06 Score=70.44 Aligned_cols=84 Identities=14% Similarity=0.068 Sum_probs=62.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHH-Hc--------CCcEEEEechHHHHHHHHHHHHHh-cC---ceEEEecCCcC--
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAF-RD--------KQRVIYTSSLKALSNQKYRELHKE-FK---DVGLMTGDVTL-- 119 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l-~~--------~~rviyv~P~kaLv~Q~~~~l~~~-f~---~v~~~tGd~~~-- 119 (138)
....+-.+-||+|||+++++.-+.++ .+ +-+++++.|++.|+-|.--+..+. |. .|+++.|....
T Consensus 257 G~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~eq 336 (629)
T KOG0336|consen 257 GIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNEQ 336 (629)
T ss_pred CcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCchhH
Confidence 35666888999999999986433222 11 568999999999999998776662 22 68888775432
Q ss_pred ----CCCCCEEEecHHHHHHhhC
Q 042424 120 ----SPNASCLVMTTEILRGMLY 138 (138)
Q Consensus 120 ----~~~~~IiVtTpe~l~~lL~ 138 (138)
....+||++||.+|..+.|
T Consensus 337 ie~lkrgveiiiatPgrlndL~~ 359 (629)
T KOG0336|consen 337 IEDLKRGVEIIIATPGRLNDLQM 359 (629)
T ss_pred HHHHhcCceEEeeCCchHhhhhh
Confidence 2378999999999988754
No 106
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.95 E-value=1.4e-05 Score=65.48 Aligned_cols=80 Identities=19% Similarity=0.162 Sum_probs=64.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc--C-CcEEEEechHHHHHHHHHHHHHhcC------ceEEEecCCcCCC------
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD--K-QRVIYTSSLKALSNQKYRELHKEFK------DVGLMTGDVTLSP------ 121 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~--~-~rviyv~P~kaLv~Q~~~~l~~~f~------~v~~~tGd~~~~~------ 121 (138)
..+..|-.|-|||.++.++-++.+.- | -.+++++.|++|+-|+.+++.+ |+ .|.+.-|...+..
T Consensus 81 dvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~r-fskymP~vkvaVFfGG~~Ikkdee~lk 159 (387)
T KOG0329|consen 81 DVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYER-FSKYMPSVKVSVFFGGLFIKKDEELLK 159 (387)
T ss_pred hhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHH-HHhhCCCceEEEEEcceeccccHHHHh
Confidence 44577889999999999998888764 4 4689999999999999888766 54 5778888776543
Q ss_pred -CCCEEEecHHHHHHhh
Q 042424 122 -NASCLVMTTEILRGML 137 (138)
Q Consensus 122 -~~~IiVtTpe~l~~lL 137 (138)
..+|+|+||.++..+.
T Consensus 160 ~~PhivVgTPGrilALv 176 (387)
T KOG0329|consen 160 NCPHIVVGTPGRILALV 176 (387)
T ss_pred CCCeEEEcCcHHHHHHH
Confidence 5679999999998763
No 107
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.94 E-value=2.2e-05 Score=64.04 Aligned_cols=51 Identities=25% Similarity=0.257 Sum_probs=41.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-cCC-----cEEEEechHHHHHHHHHHHHHh
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-DKQ-----RVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~~~-----rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
.+.++.+|||+|||+.++.+++..+. .+. +++|.++|.++.+|...++++.
T Consensus 28 ~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 28 KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 56779999999999999976654433 343 8999999999999998888764
No 108
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.94 E-value=2.2e-05 Score=64.04 Aligned_cols=51 Identities=25% Similarity=0.257 Sum_probs=41.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-cCC-----cEEEEechHHHHHHHHHHHHHh
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-DKQ-----RVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~~~-----rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
.+.++.+|||+|||+.++.+++..+. .+. +++|.++|.++.+|...++++.
T Consensus 28 ~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 28 KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 56779999999999999976654433 343 8999999999999998888764
No 109
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.84 E-value=3.3e-05 Score=71.55 Aligned_cols=84 Identities=19% Similarity=0.184 Sum_probs=64.3
Q ss_pred CCCCceEECcCCCchHHHHHHHH-HHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC---CCCCE
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAI-AMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS---PNASC 125 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai-~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~---~~~~I 125 (138)
...|.+.++||++|||++++.-| ...+...+.+++++|+.+.+.++...++..+. .|.-+.|..... ..-.|
T Consensus 239 e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~~G~~ve~y~g~~~p~~~~k~~sv 318 (1008)
T KOG0950|consen 239 ERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSIDLGFPVEEYAGRFPPEKRRKRESV 318 (1008)
T ss_pred cccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccccCCcchhhcccCCCCCcccceee
Confidence 34788899999999999998544 44456789999999999999999999888433 333344543322 26789
Q ss_pred EEecHHHHHHhh
Q 042424 126 LVMTTEILRGML 137 (138)
Q Consensus 126 iVtTpe~l~~lL 137 (138)
.|||.|+-++++
T Consensus 319 ~i~tiEkansli 330 (1008)
T KOG0950|consen 319 AIATIEKANSLI 330 (1008)
T ss_pred eeeehHhhHhHH
Confidence 999999988765
No 110
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.80 E-value=4e-05 Score=69.78 Aligned_cols=77 Identities=16% Similarity=0.094 Sum_probs=63.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
...+....||.|||+++.+++......|+.+.++.|+--|+.|-++.+...|. +|+.++++.+... +++|+
T Consensus 92 ~G~VaEM~TGEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~~~~~err~aY~~DIt 171 (764)
T PRK12326 92 AGDVIEMATGEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLYEALGLTVGWITEESTPEERRAAYACDVT 171 (764)
T ss_pred CCCcccccCCCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEEECCCCCHHHHHHHHcCCCE
Confidence 34567889999999999877776667799999999999999999999988775 7888888765432 78888
Q ss_pred EecHHH
Q 042424 127 VMTTEI 132 (138)
Q Consensus 127 VtTpe~ 132 (138)
-+|...
T Consensus 172 YgTn~e 177 (764)
T PRK12326 172 YASVNE 177 (764)
T ss_pred EcCCcc
Confidence 887654
No 111
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.77 E-value=0.0001 Score=67.96 Aligned_cols=60 Identities=20% Similarity=0.216 Sum_probs=44.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH-HHHHH---hcC-ceEEEecC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY-RELHK---EFK-DVGLMTGD 116 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~-~~l~~---~f~-~v~~~tGd 116 (138)
...++.|+||+|||++++++++... ++.++|+.+||++|.+|.. +++.. .++ ++..+.|.
T Consensus 265 ~~~~~eA~tGtGKT~ayllp~l~~~-~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~~~~~~~kg~ 329 (820)
T PRK07246 265 PASFIEAQTGIGKTYGYLLPLLAQS-DQRQIIVSVPTKILQDQIMAEEVKAIQEVFHIDCHSLKGP 329 (820)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHhc-CCCcEEEEeCcHHHHHHHHHHHHHHHHHhcCCcEEEEECC
Confidence 4566999999999999998866532 5789999999999999995 44443 333 45555543
No 112
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.66 E-value=4.3e-05 Score=64.28 Aligned_cols=82 Identities=16% Similarity=0.042 Sum_probs=63.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhc---C-ceEEEecCCcCCC-------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEF---K-DVGLMTGDVTLSP------- 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f---~-~v~~~tGd~~~~~------- 121 (138)
++.+..+-.|.|||-++...++..+.. .-.+++++|+++|+-|..+...+.- + .|.+.+|......
T Consensus 123 rdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~ 202 (459)
T KOG0326|consen 123 RDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQ 202 (459)
T ss_pred hhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHHHhcccCeEEEEecCCcccccceeeecC
Confidence 556678889999999888888877654 3568999999999999887666532 2 5666678775432
Q ss_pred CCCEEEecHHHHHHhh
Q 042424 122 NASCLVMTTEILRGML 137 (138)
Q Consensus 122 ~~~IiVtTpe~l~~lL 137 (138)
.-+++|+||.++.++.
T Consensus 203 ~VH~~vgTPGRIlDL~ 218 (459)
T KOG0326|consen 203 TVHLVVGTPGRILDLA 218 (459)
T ss_pred ceEEEEcCChhHHHHH
Confidence 6789999999988763
No 113
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.65 E-value=9.8e-05 Score=55.32 Aligned_cols=48 Identities=19% Similarity=0.216 Sum_probs=38.0
Q ss_pred ceEECcCCCchHHHHH-HHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|...+|+|||.-.+ -.+.+++.++.|+|++.|||.+++++++.|+.
T Consensus 7 ~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~ 55 (148)
T PF07652_consen 7 TVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKG 55 (148)
T ss_dssp EEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTT
T ss_pred eEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhc
Confidence 3588999999999655 56667888999999999999999999999876
No 114
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=97.61 E-value=0.00011 Score=63.92 Aligned_cols=75 Identities=21% Similarity=0.216 Sum_probs=54.2
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE------------ecCCc-CCCC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM------------TGDVT-LSPN 122 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~------------tGd~~-~~~~ 122 (138)
+.-+|.|||+||++++-+..+ -.+.-.|+++|+.||+.++.+.|.+ +. .+.-+ .+|.. ..++
T Consensus 38 DVyVsMPTGaGKSLCyQLPaL---~~~gITIV~SPLiALIkDQiDHL~~-LKVp~~SLNSKlSt~ER~ri~~DL~~ekp~ 113 (641)
T KOG0352|consen 38 DVYVSMPTGAGKSLCYQLPAL---VHGGITIVISPLIALIKDQIDHLKR-LKVPCESLNSKLSTVERSRIMGDLAKEKPT 113 (641)
T ss_pred cEEEeccCCCchhhhhhchHH---HhCCeEEEehHHHHHHHHHHHHHHh-cCCchhHhcchhhHHHHHHHHHHHHhcCCc
Confidence 334999999999999976553 2356889999999999999999887 43 22222 13332 3447
Q ss_pred CCEEEecHHHHHH
Q 042424 123 ASCLVMTTEILRG 135 (138)
Q Consensus 123 ~~IiVtTpe~l~~ 135 (138)
..++-.|||+...
T Consensus 114 ~K~LYITPE~AAt 126 (641)
T KOG0352|consen 114 IKMLYITPEGAAT 126 (641)
T ss_pred eeEEEEchhhhhh
Confidence 8899999998643
No 115
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.60 E-value=0.00022 Score=66.56 Aligned_cols=53 Identities=21% Similarity=0.215 Sum_probs=41.9
Q ss_pred CCceEECcCCCchHHHHHHHHH-HHHHcCCcEEEEechHHHHHHHHH----HHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIA-MAFRDKQRVIYTSSLKALSNQKYR----ELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~-~~l~~~~rviyv~P~kaLv~Q~~~----~l~~~f~ 108 (138)
...++.||||.|||+.++++.. .+...++++|+-.+|++|-+|... .+++.++
T Consensus 277 ~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~kDiP~L~~~~~ 334 (928)
T PRK08074 277 EHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEKDIPLLQKIFP 334 (928)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHhhHHHHHHHcC
Confidence 5566999999999999986554 444468999999999999999875 3455444
No 116
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.57 E-value=0.00018 Score=61.42 Aligned_cols=82 Identities=12% Similarity=0.101 Sum_probs=60.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC--ce--EE-EecC-CcCC--CCCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK--DV--GL-MTGD-VTLS--PNAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~--~v--~~-~tGd-~~~~--~~~~ 124 (138)
+|.+-.+-.|+|||.++.++|+....- .-.++.++|++.|+.|+.+.+.+.-. .+ .. +-|. .... -..+
T Consensus 130 ~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~rG~~i~eq 209 (477)
T KOG0332|consen 130 QNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKRGNKLTEQ 209 (477)
T ss_pred hhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHHHHHHHHHhcCceeeeEEEEecCcccccCCcchhh
Confidence 566778889999999999999877653 45788889999999999999998432 22 11 1222 1111 1789
Q ss_pred EEEecHHHHHHhh
Q 042424 125 CLVMTTEILRGML 137 (138)
Q Consensus 125 IiVtTpe~l~~lL 137 (138)
|+|.||..+..++
T Consensus 210 IviGTPGtv~Dlm 222 (477)
T KOG0332|consen 210 IVIGTPGTVLDLM 222 (477)
T ss_pred eeeCCCccHHHHH
Confidence 9999999887764
No 117
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=97.54 E-value=8.4e-05 Score=63.08 Aligned_cols=82 Identities=16% Similarity=0.083 Sum_probs=62.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-------CC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL-------SP 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~-------~~ 121 (138)
.+....+.+|+|||.++..++++.+.. ...++.++|++.|+.|..+.....+. +|-.+.|.... ..
T Consensus 64 ~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~ 143 (397)
T KOG0327|consen 64 HDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLK 143 (397)
T ss_pred CceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhc
Confidence 567799999999999988888877543 35689999999999999977777443 34444443322 12
Q ss_pred -CCCEEEecHHHHHHhh
Q 042424 122 -NASCLVMTTEILRGML 137 (138)
Q Consensus 122 -~~~IiVtTpe~l~~lL 137 (138)
...|+|.||.+...+|
T Consensus 144 ~~~hivvGTpgrV~dml 160 (397)
T KOG0327|consen 144 DKPHIVVGTPGRVFDML 160 (397)
T ss_pred cCceeecCCchhHHHhh
Confidence 4689999999888776
No 118
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.52 E-value=0.00069 Score=63.59 Aligned_cols=78 Identities=22% Similarity=0.268 Sum_probs=60.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcC-------CC--CC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTL-------SP--NA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~-------~~--~~ 123 (138)
.+.+|.=..|-|||.-|.+.+...+..| +++++|+|. +|..|+..++.++|+ ...++.++... ++ ..
T Consensus 170 ~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~-sL~~QW~~El~~kF~l~~~i~~~~~~~~~~~~~~~pf~~~ 248 (956)
T PRK04914 170 PRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPE-TLQHQWLVEMLRRFNLRFSLFDEERYAEAQHDADNPFETE 248 (956)
T ss_pred CCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCH-HHHHHHHHHHHHHhCCCeEEEcCcchhhhcccccCccccC
Confidence 4667888999999999987777666554 699999998 899999999998887 55555443211 21 57
Q ss_pred CEEEecHHHHH
Q 042424 124 SCLVMTTEILR 134 (138)
Q Consensus 124 ~IiVtTpe~l~ 134 (138)
+++|++.+.+.
T Consensus 249 ~~vI~S~~~l~ 259 (956)
T PRK04914 249 QLVICSLDFLR 259 (956)
T ss_pred cEEEEEHHHhh
Confidence 89999998664
No 119
>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=97.51 E-value=0.0008 Score=53.74 Aligned_cols=81 Identities=21% Similarity=0.245 Sum_probs=60.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC---ceEEEe----cCCcCC--------
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK---DVGLMT----GDVTLS-------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~---~v~~~t----Gd~~~~-------- 120 (138)
.|.+...-.|.|||-|..-.+.-++.+|.+.+.++=-++|.+|.++.++.+++ +-.+++ -+...+
T Consensus 42 ~n~v~QlnMGeGKTsVI~Pmla~~LAdg~~LvrviVpk~Ll~q~~~~L~~~lg~l~~r~i~~lpFsR~~~~~~~~~~~~~ 121 (229)
T PF12340_consen 42 KNSVMQLNMGEGKTSVIVPMLALALADGSRLVRVIVPKALLEQMRQMLRSRLGGLLNRRIYHLPFSRSTPLTPETLEKIR 121 (229)
T ss_pred CCeEeeecccCCccchHHHHHHHHHcCCCcEEEEEcCHHHHHHHHHHHHHHHHHHhCCeeEEecccCCCCCCHHHHHHHH
Confidence 57789999999999999866666778888877766677999999999999887 212221 111111
Q ss_pred -------CCCCEEEecHHHHHHh
Q 042424 121 -------PNASCLVMTTEILRGM 136 (138)
Q Consensus 121 -------~~~~IiVtTpe~l~~l 136 (138)
.+..|+|+|||.+.++
T Consensus 122 ~l~~~~~~~~gill~~PEhilSf 144 (229)
T PF12340_consen 122 QLLEECMRSGGILLATPEHILSF 144 (229)
T ss_pred HHHHHHHHcCCEEEeChHHHHHH
Confidence 1667999999998875
No 120
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=97.50 E-value=4.9e-05 Score=67.07 Aligned_cols=76 Identities=18% Similarity=0.172 Sum_probs=62.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCCcCCC--CCCEEEe
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDVTLSP--NASCLVM 128 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~~~~~--~~~IiVt 128 (138)
++.+|..|.|+|||++..-|+. .-++++|+++..---++|+.+.|.. |. .++..|.|.+..+ ++.|+|+
T Consensus 321 RSGiIVLPCGAGKtLVGvTAa~---tikK~clvLcts~VSVeQWkqQfk~-wsti~d~~i~rFTsd~Ke~~~~~~gvvvs 396 (776)
T KOG1123|consen 321 RSGIIVLPCGAGKTLVGVTAAC---TIKKSCLVLCTSAVSVEQWKQQFKQ-WSTIQDDQICRFTSDAKERFPSGAGVVVT 396 (776)
T ss_pred cCceEEEecCCCCceeeeeeee---eecccEEEEecCccCHHHHHHHHHh-hcccCccceEEeeccccccCCCCCcEEEE
Confidence 5678999999999999875552 2378999999998899999988877 43 6899999987644 8889999
Q ss_pred cHHHHHH
Q 042424 129 TTEILRG 135 (138)
Q Consensus 129 Tpe~l~~ 135 (138)
|+-++.+
T Consensus 397 TYsMva~ 403 (776)
T KOG1123|consen 397 TYSMVAY 403 (776)
T ss_pred eeehhhh
Confidence 9877643
No 121
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.43 E-value=0.00028 Score=53.20 Aligned_cols=48 Identities=21% Similarity=0.225 Sum_probs=38.3
Q ss_pred ceEECcCCCchHHHHHHHHHHH--------HHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMA--------FRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~--------l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.||.|+|||.+...++... ...++++++++|+.+-+++..+.|.+
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred EEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 5699999999997766555554 23489999999999999999999988
No 122
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=97.43 E-value=0.00029 Score=62.94 Aligned_cols=76 Identities=13% Similarity=0.152 Sum_probs=57.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcCC-----------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTLS-----------PNA 123 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~~-----------~~~ 123 (138)
.+.++..|||+||++|+-.+.+- . .+-.|+|+|..||-.++.+.++. .+ .+..+.+....+ ..-
T Consensus 33 ~d~lvvmPTGgGKSlCyQiPAll--~-~G~TLVVSPLiSLM~DQV~~l~~-~Gi~A~~lnS~l~~~e~~~v~~~l~~g~~ 108 (590)
T COG0514 33 KDTLVVMPTGGGKSLCYQIPALL--L-EGLTLVVSPLISLMKDQVDQLEA-AGIRAAYLNSTLSREERQQVLNQLKSGQL 108 (590)
T ss_pred CcEEEEccCCCCcchHhhhHHHh--c-CCCEEEECchHHHHHHHHHHHHH-cCceeehhhcccCHHHHHHHHHHHhcCce
Confidence 67889999999999998654431 2 45899999999999999999988 54 444444432221 256
Q ss_pred CEEEecHHHHHH
Q 042424 124 SCLVMTTEILRG 135 (138)
Q Consensus 124 ~IiVtTpe~l~~ 135 (138)
+++.-+||++.+
T Consensus 109 klLyisPErl~~ 120 (590)
T COG0514 109 KLLYISPERLMS 120 (590)
T ss_pred eEEEECchhhcC
Confidence 899999998864
No 123
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=97.42 E-value=0.00061 Score=65.53 Aligned_cols=80 Identities=20% Similarity=0.132 Sum_probs=50.4
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEec----hHHHHHHHHHHHHHhcC-ceEEEe-cCCcCCCCCCEEEe
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSS----LKALSNQKYRELHKEFK-DVGLMT-GDVTLSPNASCLVM 128 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P----~kaLv~Q~~~~l~~~f~-~v~~~t-Gd~~~~~~~~IiVt 128 (138)
-.+++|+||||||...=..+. .+..| .+++.+-| .++|+.+.++++...++ .||.-. .+.....+.+|+|+
T Consensus 91 VviI~GeTGSGKTTqlPq~ll-e~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY~vrf~~~~s~~t~I~v~ 169 (1294)
T PRK11131 91 VVIVAGETGSGKTTQLPKICL-ELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKLM 169 (1294)
T ss_pred eEEEECCCCCCHHHHHHHHHH-HcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcceeceeecCccccCCCCCEEEE
Confidence 345889999999995322222 12223 34555557 46888888888776555 455422 12233447899999
Q ss_pred cHHHHHHhh
Q 042424 129 TTEILRGML 137 (138)
Q Consensus 129 Tpe~l~~lL 137 (138)
||.+|...+
T Consensus 170 TpG~LL~~l 178 (1294)
T PRK11131 170 TDGILLAEI 178 (1294)
T ss_pred ChHHHHHHH
Confidence 999998754
No 124
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.40 E-value=0.00036 Score=62.09 Aligned_cols=51 Identities=27% Similarity=0.215 Sum_probs=42.9
Q ss_pred CCceEECcCCCchHHHHHH-HHHHHHHcCCcEEEEechHHHHHHHHHHHHHh
Q 042424 56 THGTLTNPVYNGKTAVAEY-AIAMAFRDKQRVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~-ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
...++.+|||.|||+..+. ++..+...++++++..+|++|-+|..++....
T Consensus 35 ~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 35 EGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 3477999999999999985 55555556899999999999999999887764
No 125
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=97.36 E-value=0.0001 Score=61.24 Aligned_cols=82 Identities=13% Similarity=0.057 Sum_probs=63.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcC-------CC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTL-------SP 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~-------~~ 121 (138)
++.+..+-.|.|||..+-..+++.+.- ...+++++||++|+.|..+.+...-+ .+-.+.|..+. +-
T Consensus 65 rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld~ 144 (400)
T KOG0328|consen 65 RDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDY 144 (400)
T ss_pred cceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhcc
Confidence 567799999999998877777776653 45799999999999999999988322 34444554432 33
Q ss_pred CCCEEEecHHHHHHhh
Q 042424 122 NASCLVMTTEILRGML 137 (138)
Q Consensus 122 ~~~IiVtTpe~l~~lL 137 (138)
..++++.||.+...|+
T Consensus 145 G~hvVsGtPGrv~dmi 160 (400)
T KOG0328|consen 145 GQHVVSGTPGRVLDMI 160 (400)
T ss_pred cceEeeCCCchHHHHH
Confidence 7889999999988775
No 126
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.34 E-value=0.00063 Score=53.76 Aligned_cols=53 Identities=13% Similarity=0.103 Sum_probs=44.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcC----CcEEEEechHHHHHHHHHHHHHhc
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDK----QRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~----~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
.++.+|.|..|||||.+...-+.+.+..+ .+++++..|++.+++...++.+.+
T Consensus 13 ~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l 69 (315)
T PF00580_consen 13 EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELL 69 (315)
T ss_dssp SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhc
Confidence 35677999999999999987777777654 789999999999999999998854
No 127
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.30 E-value=0.00047 Score=62.43 Aligned_cols=51 Identities=25% Similarity=0.247 Sum_probs=44.1
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHH-cC--CcEEEEechHHHHHHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFR-DK--QRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~-~~--~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
..+.++.+|||.|||++.+.+.+..+. .+ .+++|.+.|.+=..|..+++++
T Consensus 29 ~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 29 GDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 357789999999999999977766655 34 7999999999999999999988
No 128
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.30 E-value=0.00046 Score=61.21 Aligned_cols=50 Identities=28% Similarity=0.288 Sum_probs=41.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+...|-+-||||||+.....|.+ -++-.++++|.|.|+.|.|.+|++.|.
T Consensus 33 ~~QtLLGvTGSGKTfT~AnVI~~---~~rPtLV~AhNKTLAaQLy~Efk~fFP 82 (663)
T COG0556 33 KHQTLLGVTGSGKTFTMANVIAK---VQRPTLVLAHNKTLAAQLYSEFKEFFP 82 (663)
T ss_pred eeeEEeeeccCCchhHHHHHHHH---hCCCeEEEecchhHHHHHHHHHHHhCc
Confidence 45669999999999665555533 278899999999999999999999886
No 129
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.30 E-value=0.0009 Score=60.75 Aligned_cols=61 Identities=21% Similarity=0.166 Sum_probs=46.0
Q ss_pred CCceEECcCCCchHHHHHH-HHHHHHHcCCcEEEEechHHHHHHHHHH----HHHhcC---ceEEEecC
Q 042424 56 THGTLTNPVYNGKTAVAEY-AIAMAFRDKQRVIYTSSLKALSNQKYRE----LHKEFK---DVGLMTGD 116 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~-ai~~~l~~~~rviyv~P~kaLv~Q~~~~----l~~~f~---~v~~~tGd 116 (138)
...++-||||.|||+.+++ ++..+...++++|+-..|++|=+|.... +++.++ ++.++.|-
T Consensus 50 ~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~kDlP~l~~~l~~~~~~~llKGr 118 (697)
T PRK11747 50 RILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSKDLPLLLKISGLDFKFTLAKGR 118 (697)
T ss_pred ceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhhhhhHHHHHcCCCceEEEEcCc
Confidence 4466999999999999986 5555666799999999999999999632 344443 45666553
No 130
>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=97.14 E-value=0.0012 Score=63.49 Aligned_cols=81 Identities=16% Similarity=0.075 Sum_probs=54.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHHHHHHHHHHHHHhcC-ceEEEec-----CCcCCCCCCEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKALSNQKYRELHKEFK-DVGLMTG-----DVTLSPNASCLV 127 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tG-----d~~~~~~~~IiV 127 (138)
.-.+|+|+||||||...=..++.. ..+ .+++.+-|.+--+...++++.+.++ .+|...| +...+.+..|++
T Consensus 83 ~vvii~g~TGSGKTTqlPq~lle~-~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~vR~~~~~s~~T~I~~ 161 (1283)
T TIGR01967 83 QVVIIAGETGSGKTTQLPKICLEL-GRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFHDQVSSNTLVKL 161 (1283)
T ss_pred ceEEEeCCCCCCcHHHHHHHHHHc-CCCCCceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeEEcCCcccCCCceeee
Confidence 345699999999999653333322 122 4566777888877777777777666 3333333 334455788999
Q ss_pred ecHHHHHHhh
Q 042424 128 MTTEILRGML 137 (138)
Q Consensus 128 tTpe~l~~lL 137 (138)
+|+.+|...+
T Consensus 162 ~TdGiLLr~l 171 (1283)
T TIGR01967 162 MTDGILLAET 171 (1283)
T ss_pred ccccHHHHHh
Confidence 9999998654
No 131
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.13 E-value=0.0019 Score=60.77 Aligned_cols=49 Identities=12% Similarity=0.036 Sum_probs=40.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-C-CcEEEEechHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-K-QRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-~-~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.+..+..+||+|||.+++..|...... | .+.|++||+.|+-+...+.|+
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhh
Confidence 355599999999999999888776554 4 679999999999988876665
No 132
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.07 E-value=0.0023 Score=60.58 Aligned_cols=79 Identities=11% Similarity=0.048 Sum_probs=58.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-c--CCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcC----------C
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-D--KQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTL----------S 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~--~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~----------~ 120 (138)
.+.+|+=..|.|||+.++..+..... . .+.+|+|+|. +|+.|+.++|.+.+. .+..++|+... .
T Consensus 189 ~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~l~v~~~~G~~~eR~~~~~~~~~~ 267 (1033)
T PLN03142 189 INGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPVLRAVKFHGNPEERAHQREELLVA 267 (1033)
T ss_pred CCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCCCceEEEeCCHHHHHHHHHHHhcc
Confidence 56788888999999988655443322 2 3678999996 788999999998655 66777776421 1
Q ss_pred CCCCEEEecHHHHHH
Q 042424 121 PNASCLVMTTEILRG 135 (138)
Q Consensus 121 ~~~~IiVtTpe~l~~ 135 (138)
.+.+|+|+|++.+..
T Consensus 268 ~~~dVvITSYe~l~~ 282 (1033)
T PLN03142 268 GKFDVCVTSFEMAIK 282 (1033)
T ss_pred cCCCcceecHHHHHH
Confidence 267899999998754
No 133
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=97.05 E-value=0.0011 Score=57.30 Aligned_cols=75 Identities=13% Similarity=0.185 Sum_probs=55.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCc-------------CCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVT-------------LSP 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~-------------~~~ 121 (138)
....+..|||.||+++.-+..+ ..++-+++++|..+|.+++.-.++. ++ +..++..... .+.
T Consensus 110 ed~~lil~tgggkslcyqlpal---~adg~alvi~plislmedqil~lkq-lgi~as~lnansske~~k~v~~~i~nkds 185 (695)
T KOG0353|consen 110 EDAFLILPTGGGKSLCYQLPAL---CADGFALVICPLISLMEDQILQLKQ-LGIDASMLNANSSKEEAKRVEAAITNKDS 185 (695)
T ss_pred CceEEEEeCCCccchhhhhhHH---hcCCceEeechhHHHHHHHHHHHHH-hCcchhhccCcccHHHHHHHHHHHcCCCc
Confidence 5667999999999999876653 4478899999999999999988887 65 4334332221 122
Q ss_pred CCCEEEecHHHHH
Q 042424 122 NASCLVMTTEILR 134 (138)
Q Consensus 122 ~~~IiVtTpe~l~ 134 (138)
...+|-.|||++.
T Consensus 186 e~kliyvtpekia 198 (695)
T KOG0353|consen 186 EFKLIYVTPEKIA 198 (695)
T ss_pred eeEEEEecHHHHH
Confidence 5568999999875
No 134
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=97.05 E-value=0.0016 Score=48.32 Aligned_cols=46 Identities=13% Similarity=0.067 Sum_probs=34.6
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.+|.+|+|+|||.++...+...++.|.+++|+... .-.++..+.+.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e-~~~~~~~~~~~ 47 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLE-ESPEELIENAE 47 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECC-CCHHHHHHHHH
Confidence 35899999999999987777777889999999754 33455554443
No 135
>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=96.82 E-value=0.003 Score=49.70 Aligned_cols=47 Identities=15% Similarity=0.107 Sum_probs=36.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+|+|+|||..+...+...+.+|.+++|++- ..-.+|..+.+..
T Consensus 24 ~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~-ee~~~~i~~~~~~ 70 (237)
T TIGR03877 24 VLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL-EEHPVQVRRNMAQ 70 (237)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEe-eCCHHHHHHHHHH
Confidence 4599999999999999777777788999999984 3455555555544
No 136
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.81 E-value=0.0032 Score=56.73 Aligned_cols=50 Identities=18% Similarity=0.100 Sum_probs=44.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
...+|.+|.|+|||.+....+.+++..|.++++++|+..-+++..+.+.+
T Consensus 174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHh
Confidence 34569999999999998877878778899999999999999999999987
No 137
>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=96.78 E-value=0.005 Score=50.14 Aligned_cols=78 Identities=21% Similarity=0.185 Sum_probs=60.0
Q ss_pred CCceEECcCCCchHHHHHH-HHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEY-AIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~-ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~I 125 (138)
.+.++..-||-|||+++.+ |+..+ -.|+.|=++....-|+..-++.+...|. +|+..+++...+. +++|
T Consensus 91 ~G~laEm~TGEGKTli~~l~a~~~A-L~G~~V~vvT~NdyLA~RD~~~~~~~y~~LGlsv~~~~~~~~~~~r~~~Y~~dI 169 (266)
T PF07517_consen 91 KGRLAEMKTGEGKTLIAALPAALNA-LQGKGVHVVTSNDYLAKRDAEEMRPFYEFLGLSVGIITSDMSSEERREAYAADI 169 (266)
T ss_dssp TTSEEEESTTSHHHHHHHHHHHHHH-TTSS-EEEEESSHHHHHHHHHHHHHHHHHTT--EEEEETTTEHHHHHHHHHSSE
T ss_pred cceeEEecCCCCcHHHHHHHHHHHH-HhcCCcEEEeccHHHhhccHHHHHHHHHHhhhccccCccccCHHHHHHHHhCcc
Confidence 4568999999999999964 55444 4588898889999999999988887664 7888887665332 6889
Q ss_pred EEecHHHHH
Q 042424 126 LVMTTEILR 134 (138)
Q Consensus 126 iVtTpe~l~ 134 (138)
+-+|...|.
T Consensus 170 ~Y~t~~~~~ 178 (266)
T PF07517_consen 170 VYGTNSEFG 178 (266)
T ss_dssp EEEEHHHHH
T ss_pred cccccchhh
Confidence 999988775
No 138
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.75 E-value=0.0034 Score=59.07 Aligned_cols=81 Identities=17% Similarity=0.227 Sum_probs=59.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHHHHHHHhcCceEEE---ecCCc-----C-CCCCC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKYRELHKEFKDVGLM---TGDVT-----L-SPNAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~~~l~~~f~~v~~~---tGd~~-----~-~~~~~ 124 (138)
.+++|.=-||||||+..+++....+.. ..+++||+-.+.|-.|..++|+. |+.+... ..+.. . +....
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~-~~~~~~~~~~~~s~~~Lk~~l~~~~~~ 352 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQS-FGKVAFNDPKAESTSELKELLEDGKGK 352 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHH-HHHhhhhcccccCHHHHHHHHhcCCCc
Confidence 346678889999999998877776653 68899999999999999999998 5522111 11111 0 11568
Q ss_pred EEEecHHHHHHhh
Q 042424 125 CLVMTTEILRGML 137 (138)
Q Consensus 125 IiVtTpe~l~~lL 137 (138)
|||||-++|...+
T Consensus 353 ii~TTIQKf~~~~ 365 (962)
T COG0610 353 IIVTTIQKFNKAV 365 (962)
T ss_pred EEEEEecccchhh
Confidence 9999999987653
No 139
>PRK08727 hypothetical protein; Validated
Probab=96.74 E-value=0.0072 Score=47.56 Aligned_cols=45 Identities=27% Similarity=0.212 Sum_probs=30.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
..++||+|+|||..+-.....+..+|.+++|+. ...+.....+.+
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-~~~~~~~~~~~~ 88 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-LQAAAGRLRDAL 88 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-HHHhhhhHHHHH
Confidence 459999999999887655555556688888875 444444433333
No 140
>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=96.70 E-value=0.0038 Score=47.50 Aligned_cols=46 Identities=22% Similarity=0.198 Sum_probs=32.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYR 101 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~ 101 (138)
..+.++.+|+|.|||..|...+..++.+|.+++|+ ....|+++...
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~-~~~~L~~~l~~ 92 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFI-TASDLLDELKQ 92 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE-EHHHHHHHHHC
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEe-ecCceeccccc
Confidence 35677999999999999877766777777777775 56677776543
No 141
>PF12846 AAA_10: AAA-like domain
Probab=96.66 E-value=0.003 Score=49.50 Aligned_cols=40 Identities=18% Similarity=0.205 Sum_probs=32.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKAL 95 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaL 95 (138)
++.+++|+||+|||......+.+.+..|.+++++=|.-..
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~ 41 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDY 41 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchH
Confidence 5778999999999998887777777889888888665433
No 142
>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=96.65 E-value=0.0027 Score=49.08 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=33.3
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+|+|+|||..+...+...+.+ |.+++|++-. .-.++..+.+..
T Consensus 22 ~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~e-e~~~~l~~~~~s 69 (226)
T PF06745_consen 22 VLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFE-EPPEELIENMKS 69 (226)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESS-S-HHHHHHHHHT
T ss_pred EEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEec-CCHHHHHHHHHH
Confidence 4599999999999999877777788 9999999843 233455555543
No 143
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=96.55 E-value=0.0061 Score=56.68 Aligned_cols=75 Identities=16% Similarity=0.126 Sum_probs=58.2
Q ss_pred CCceEECcCCCchHHHHHHHH-HHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEYAI-AMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai-~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~I 125 (138)
...+....||.|||+++.+++ +.++ .|+.|-+|.+..-|+.+-++.+...|. +||...++..... .++|
T Consensus 90 ~G~IaEm~TGEGKTL~a~l~ayl~aL-~G~~VhVvT~NdyLA~RD~e~m~pvy~~LGLsvg~i~~~~~~~err~aY~~DI 168 (870)
T CHL00122 90 DGKIAEMKTGEGKTLVATLPAYLNAL-TGKGVHIVTVNDYLAKRDQEWMGQIYRFLGLTVGLIQEGMSSEERKKNYLKDI 168 (870)
T ss_pred CCccccccCCCCchHHHHHHHHHHHh-cCCceEEEeCCHHHHHHHHHHHHHHHHHcCCceeeeCCCCChHHHHHhcCCCC
Confidence 567789999999999997655 4444 589999999999999998888777654 7888776654332 6788
Q ss_pred EEecHH
Q 042424 126 LVMTTE 131 (138)
Q Consensus 126 iVtTpe 131 (138)
+-+|.-
T Consensus 169 tYgTn~ 174 (870)
T CHL00122 169 TYVTNS 174 (870)
T ss_pred EecCCc
Confidence 888764
No 144
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=96.52 E-value=0.0057 Score=50.83 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=42.0
Q ss_pred eEECcCCCchHHHHHHHHHHH--HHcCCcEEEEechHHHHHHHHHHHHHhc
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA--FRDKQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~--l~~~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
+|.+..|+|||++++..+... ...+.+++|++...+|.+...+.+.+..
T Consensus 5 ~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~ 55 (352)
T PF09848_consen 5 LITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKY 55 (352)
T ss_pred EEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhc
Confidence 589999999999998777665 4568999999999999998888887655
No 145
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.51 E-value=0.0072 Score=56.51 Aligned_cols=78 Identities=17% Similarity=0.101 Sum_probs=60.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCCC-----CCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLSP-----NASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~~-----~~~Ii 126 (138)
...+....||-|||++|.+++.-.-..|+.+-+|.+.-=|+..=++.+...|. +||...++..... .++|+
T Consensus 99 ~G~IAEM~TGEGKTL~atlpaylnAL~GkgVhVVTvNdYLA~RDae~m~~vy~~LGLtvg~i~~~~~~~err~aY~~DIt 178 (939)
T PRK12902 99 EGQIAEMKTGEGKTLVATLPSYLNALTGKGVHVVTVNDYLARRDAEWMGQVHRFLGLSVGLIQQDMSPEERKKNYACDIT 178 (939)
T ss_pred CCceeeecCCCChhHHHHHHHHHHhhcCCCeEEEeCCHHHHHhHHHHHHHHHHHhCCeEEEECCCCChHHHHHhcCCCeE
Confidence 45678899999999999765554434588899999999999988877776554 8888877654432 89999
Q ss_pred EecHHHH
Q 042424 127 VMTTEIL 133 (138)
Q Consensus 127 VtTpe~l 133 (138)
-+|+..|
T Consensus 179 YgTn~e~ 185 (939)
T PRK12902 179 YATNSEL 185 (939)
T ss_pred EecCCcc
Confidence 9998765
No 146
>PRK04328 hypothetical protein; Provisional
Probab=96.37 E-value=0.0088 Score=47.58 Aligned_cols=47 Identities=15% Similarity=0.154 Sum_probs=34.9
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+|+|+|||..+...+...+.+|.+++|+. +..-.++..+.+..
T Consensus 26 ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis-~ee~~~~i~~~~~~ 72 (249)
T PRK04328 26 VLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA-LEEHPVQVRRNMRQ 72 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE-eeCCHHHHHHHHHH
Confidence 449999999999999987887788899999987 33344444444433
No 147
>PRK08181 transposase; Validated
Probab=96.29 E-value=0.011 Score=48.07 Aligned_cols=43 Identities=21% Similarity=0.190 Sum_probs=32.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
.+.+++||+|+|||..+......++.+|.+++|+. ...|+++.
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~-~~~L~~~l 149 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR-TTDLVQKL 149 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee-HHHHHHHH
Confidence 56779999999999988755556666788887764 45677655
No 148
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.28 E-value=0.011 Score=41.87 Aligned_cols=40 Identities=18% Similarity=0.184 Sum_probs=31.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q 98 (138)
+|++|+|+|||.++...+.....++.+++|+..-..+...
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~ 42 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEEL 42 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHH
Confidence 5899999999999876666665678889998876555443
No 149
>PRK06526 transposase; Provisional
Probab=96.28 E-value=0.0066 Score=48.82 Aligned_cols=44 Identities=18% Similarity=0.144 Sum_probs=32.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~ 100 (138)
.|.+++||+|+|||..+......+...|.+++|+.. ..|+++..
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~-~~l~~~l~ 142 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA-AQWVARLA 142 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH-HHHHHHHH
Confidence 577899999999999987666666677888877544 34665553
No 150
>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=96.28 E-value=0.0068 Score=48.55 Aligned_cols=33 Identities=15% Similarity=0.191 Sum_probs=28.3
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
+|++|+|+|||..+...+.+.+.+|.+++|+.-
T Consensus 40 lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~ 72 (259)
T TIGR03878 40 NITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV 72 (259)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence 499999999999999767666677999999884
No 151
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.24 E-value=0.012 Score=46.45 Aligned_cols=46 Identities=11% Similarity=0.096 Sum_probs=34.1
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.++.+|+|+|||..+...+...+.+|.+++|+.... -..|..+.+.
T Consensus 27 ~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~-~~~~~~~~~~ 72 (230)
T PRK08533 27 ILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQL-TTTEFIKQMM 72 (230)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHH
Confidence 459999999999998877776667889999998543 3344444443
No 152
>PRK05973 replicative DNA helicase; Provisional
Probab=96.24 E-value=0.0072 Score=48.37 Aligned_cols=47 Identities=13% Similarity=0.033 Sum_probs=34.9
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.|++|+|||..++..+..+..+|.+++|++--.. .+|..+++..
T Consensus 67 ~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 67 VLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHH
Confidence 3599999999999998666666677999999875543 3555555544
No 153
>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=96.23 E-value=0.011 Score=45.07 Aligned_cols=33 Identities=24% Similarity=0.350 Sum_probs=28.2
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
+++|+|+|||.++...+.+....|.+++|+.-.
T Consensus 17 i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e 49 (209)
T TIGR02237 17 IYGPPGSGKTNICMILAVNAARQGKKVVYIDTE 49 (209)
T ss_pred EECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence 999999999999987666666778899998775
No 154
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.19 E-value=0.016 Score=44.48 Aligned_cols=45 Identities=22% Similarity=0.267 Sum_probs=32.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.+|.+|.|+|||.+... +..++. .|.++++++||...+.+..+..
T Consensus 21 ~~l~G~aGtGKT~~l~~-~~~~~~~~g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 21 SVLQGPAGTGKTTLLKA-LAEALEAAGKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp EEEEESTTSTHHHHHHH-HHHHHHHTT--EEEEESSHHHHHHHHHHH
T ss_pred EEEEECCCCCHHHHHHH-HHHHHHhCCCeEEEECCcHHHHHHHHHhh
Confidence 35899999999987544 444444 5899999999988888766663
No 155
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.17 E-value=0.005 Score=41.60 Aligned_cols=39 Identities=21% Similarity=0.088 Sum_probs=26.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ka 94 (138)
.+.++.+|+|+|||.++...+......+..++++.+...
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~ 41 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDI 41 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEc
Confidence 345699999999998876554433222336888887754
No 156
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.09 E-value=0.016 Score=52.49 Aligned_cols=54 Identities=28% Similarity=0.311 Sum_probs=43.0
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-c-eEEE
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-D-VGLM 113 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~-v~~~ 113 (138)
+.++.+-||||||++....+.. .++.+|+|+|.+.++.|.+++|+..|. + |-.+
T Consensus 31 ~~~l~Gvtgs~kt~~~a~~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f 86 (655)
T TIGR00631 31 HQTLLGVTGSGKTFTMANVIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFFPENAVEYF 86 (655)
T ss_pred cEEEECCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhCCCCeEEEE
Confidence 4569999999999876543322 378899999999999999999999776 3 5544
No 157
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.08 E-value=0.0064 Score=47.74 Aligned_cols=40 Identities=20% Similarity=0.164 Sum_probs=27.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKAL 95 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~kaL 95 (138)
...++.+|.|+|||++|..+.++.+.+| .+++|+-|....
T Consensus 20 ~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 20 DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCC
Confidence 3455999999999999997777777765 689999888753
No 158
>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=96.06 E-value=0.029 Score=50.69 Aligned_cols=60 Identities=22% Similarity=0.181 Sum_probs=45.9
Q ss_pred CccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH--HHHHHHHHHHHHhcC
Q 042424 48 YTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK--ALSNQKYRELHKEFK 108 (138)
Q Consensus 48 y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k--aLv~Q~~~~l~~~f~ 108 (138)
|.++....++.++.++||+|||......+.+.++.|..++++=|-- .|....+...+. ++
T Consensus 169 ~l~~~~~~~H~lv~G~TGsGKT~l~~~l~~q~i~~g~~viv~DpKgD~~l~~~~~~~~~~-~G 230 (634)
T TIGR03743 169 YLPLGHRVGHTLVLGTTGVGKTRLAELLITQDIRRGDVVIVIDPKGDADLKRRMRAEAKR-AG 230 (634)
T ss_pred EeecCCCCCcEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCchHHHHHHHHHHHH-hC
Confidence 3344344588999999999999998888888888888888888874 377766666555 44
No 159
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=96.03 E-value=0.024 Score=38.74 Aligned_cols=39 Identities=23% Similarity=0.241 Sum_probs=28.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ka 94 (138)
...++.+|+|+|||.++...+......+..++++.....
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~ 58 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDL 58 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhh
Confidence 456699999999998887666655455677777766543
No 160
>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=96.03 E-value=0.011 Score=45.93 Aligned_cols=34 Identities=21% Similarity=0.092 Sum_probs=28.0
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEec
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSS 91 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P 91 (138)
.+|+|++|+|||.++...+.+...+ |.+++|+.-
T Consensus 16 ~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~ 50 (242)
T cd00984 16 IIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL 50 (242)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC
Confidence 3599999999999998666666665 999999983
No 161
>PRK12377 putative replication protein; Provisional
Probab=96.00 E-value=0.023 Score=45.62 Aligned_cols=45 Identities=13% Similarity=0.070 Sum_probs=31.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYR 101 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~ 101 (138)
.+.++++|+|+|||..+......++.+|..++|+ +...|..+...
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i-~~~~l~~~l~~ 146 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVV-TVPDVMSRLHE 146 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEE-EHHHHHHHHHH
Confidence 4567999999999998865555555567777665 45566665543
No 162
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.99 E-value=0.042 Score=51.30 Aligned_cols=82 Identities=17% Similarity=0.110 Sum_probs=61.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHhcC-----ceEE-EecCCcCCCCCCEEEe
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKEFK-----DVGL-MTGDVTLSPNASCLVM 128 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~-~tGd~~~~~~~~IiVt 128 (138)
.-.+|++|||||||.--=..++.+-. .++++..+=|.+--+.-.++++.+.++ .||. +-.|.....+..|-++
T Consensus 66 ~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s~~Trik~m 145 (845)
T COG1643 66 QVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKVM 145 (845)
T ss_pred CEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCCCCceeEEe
Confidence 44569999999999876555555432 357889999998777777888877776 3543 3355666778899999
Q ss_pred cHHHHHHhh
Q 042424 129 TTEILRGML 137 (138)
Q Consensus 129 Tpe~l~~lL 137 (138)
|..+|..++
T Consensus 146 TdGiLlrei 154 (845)
T COG1643 146 TDGILLREI 154 (845)
T ss_pred ccHHHHHHH
Confidence 999998765
No 163
>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=95.99 E-value=0.012 Score=45.42 Aligned_cols=47 Identities=11% Similarity=0.087 Sum_probs=35.7
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.++.+++|+|||..+...+...+.+|.+++|+.--. -.+|..+.+..
T Consensus 19 ~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 19 IVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHH
Confidence 349999999999999877777778899999987654 34555555544
No 164
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.98 E-value=0.0047 Score=58.02 Aligned_cols=76 Identities=17% Similarity=0.119 Sum_probs=56.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEEecCCcC-------------CC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLMTGDVTL-------------SP 121 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~tGd~~~-------------~~ 121 (138)
....+..|||+||++|+-+.. +..++-.|+|+|..+|...+...|.. .+ ....++++... +.
T Consensus 280 kd~fvlmpTG~GKSLCYQlPA---~l~~gitvVISPL~SLm~DQv~~L~~-~~I~a~~L~s~q~~~~~~~i~q~l~~~~~ 355 (941)
T KOG0351|consen 280 KDCFVLMPTGGGKSLCYQLPA---LLLGGVTVVISPLISLMQDQVTHLSK-KGIPACFLSSIQTAAERLAILQKLANGNP 355 (941)
T ss_pred CceEEEeecCCceeeEeeccc---cccCCceEEeccHHHHHHHHHHhhhh-cCcceeeccccccHHHHHHHHHHHhCCCC
Confidence 566799999999999984433 23467889999999999999988844 32 44555555443 12
Q ss_pred CCCEEEecHHHHHH
Q 042424 122 NASCLVMTTEILRG 135 (138)
Q Consensus 122 ~~~IiVtTpe~l~~ 135 (138)
..+|+-.|||++..
T Consensus 356 ~ikilYvtPE~v~~ 369 (941)
T KOG0351|consen 356 IIKILYVTPEKVVA 369 (941)
T ss_pred eEEEEEeCHHHhhc
Confidence 56799999998753
No 165
>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=95.94 E-value=0.017 Score=48.17 Aligned_cols=40 Identities=28% Similarity=0.255 Sum_probs=33.5
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
|.+|.|+|||..++.++..+.+.|.+++|+-.-.++-.+.
T Consensus 60 I~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~ 99 (321)
T TIGR02012 60 IYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVY 99 (321)
T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHH
Confidence 9999999999999988888888899999987666555443
No 166
>PRK04296 thymidine kinase; Provisional
Probab=95.93 E-value=0.013 Score=44.66 Aligned_cols=33 Identities=9% Similarity=-0.028 Sum_probs=27.7
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
++++|.|+|||..++-.+.++..+|.+++++-|
T Consensus 6 litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 489999999999888777776677899998866
No 167
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.92 E-value=0.014 Score=45.53 Aligned_cols=47 Identities=9% Similarity=0.135 Sum_probs=34.5
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.++.+|+|+|||..+...+...+.+|.+++|+.=-.+. ++..+.+..
T Consensus 28 ~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 28 ILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCH-HHHHHHHHH
Confidence 34999999999999987777777789999998864332 344444433
No 168
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.90 E-value=0.014 Score=48.78 Aligned_cols=43 Identities=16% Similarity=0.127 Sum_probs=31.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
.+.++.||||+|||..+......++.+|.+++|+. ...|..+.
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t-~~~l~~~l 226 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT-ADELIEIL 226 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE-HHHHHHHH
Confidence 56679999999999987755555566788887764 45565554
No 169
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.89 E-value=0.018 Score=52.59 Aligned_cols=50 Identities=18% Similarity=0.185 Sum_probs=43.1
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.+|.+|.|.|||+++.-.+.+..++ +..+++++|...-++|.++.+.+ .+
T Consensus 428 sLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~-tg 478 (935)
T KOG1802|consen 428 SLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHK-TG 478 (935)
T ss_pred eeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHh-cC
Confidence 3499999999999998777766654 78999999999999999999988 44
No 170
>PRK09183 transposase/IS protein; Provisional
Probab=95.82 E-value=0.029 Score=45.04 Aligned_cols=42 Identities=29% Similarity=0.140 Sum_probs=30.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q 98 (138)
.+.++.+|+|+|||..+......+...|.+++|+. ...|..+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~-~~~l~~~ 144 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT-AADLLLQ 144 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe-HHHHHHH
Confidence 46679999999999998754555556788888764 3445543
No 171
>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=95.75 E-value=0.017 Score=44.28 Aligned_cols=32 Identities=22% Similarity=0.245 Sum_probs=27.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
.|+++.|+|||..+...+......|.+++|+.
T Consensus 23 ~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 23 QVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 39999999999999877766667788999983
No 172
>PRK09354 recA recombinase A; Provisional
Probab=95.75 E-value=0.02 Score=48.31 Aligned_cols=41 Identities=27% Similarity=0.231 Sum_probs=35.1
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~ 100 (138)
|.+|.|+|||..++.++..+...|.+++|+-.-.++-.+.+
T Consensus 65 I~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a 105 (349)
T PRK09354 65 IYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYA 105 (349)
T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHH
Confidence 99999999999999988888888999999987777665433
No 173
>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=95.74 E-value=0.022 Score=47.68 Aligned_cols=41 Identities=29% Similarity=0.228 Sum_probs=34.0
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~ 100 (138)
+.+|.|+|||..++..+..+...|.+++|+-.-.++-.+.+
T Consensus 60 I~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a 100 (325)
T cd00983 60 IYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYA 100 (325)
T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHH
Confidence 99999999999999888888788999999987665554433
No 174
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.73 E-value=0.032 Score=44.81 Aligned_cols=50 Identities=14% Similarity=-0.000 Sum_probs=36.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
..+.++.||.|.|||.++......++ +.+.-++++++..|+.+....+.+
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~~~el~~~Lk~~~~~ 154 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFITAPDLLSKLKAAFDE 154 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEEHHHHHHHHHHHHhc
Confidence 35778999999999998875555555 444555567888898888776664
No 175
>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=95.73 E-value=0.026 Score=43.61 Aligned_cols=49 Identities=16% Similarity=0.248 Sum_probs=35.0
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
++.+|||+|||.... +|.....+ ++++.+++ .+|.=+.++.+.+.+.++
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~~l~ 56 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRIGAVEQLKTYAEILG 56 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHHHHT
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCccHHHHHHHHHHHhc
Confidence 489999999999887 55554444 77765554 357888888888888775
No 176
>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=95.71 E-value=0.019 Score=44.40 Aligned_cols=35 Identities=26% Similarity=0.245 Sum_probs=28.2
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
..++.+|+|+|||..+...+...+.+|.+++|+.-
T Consensus 22 ~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~ 56 (229)
T TIGR03881 22 FVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT 56 (229)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc
Confidence 34599999999999998655566677889999874
No 177
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.67 E-value=0.035 Score=41.00 Aligned_cols=47 Identities=17% Similarity=0.168 Sum_probs=30.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS--SLKALSNQKYRELHK 105 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~ 105 (138)
++.+|+|+|||.++..........|.+++++. +.+.-..+....+.+
T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~ 52 (173)
T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGE 52 (173)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHHHhcc
Confidence 48999999999998754444445577877765 555444444444433
No 178
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=95.67 E-value=0.019 Score=52.00 Aligned_cols=51 Identities=25% Similarity=0.273 Sum_probs=41.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH--HHHHHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK--ALSNQKYRELHK 105 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k--aLv~Q~~~~l~~ 105 (138)
.++.++.++||+|||....+.+.+.++.|..++++=|-. .|....+...+.
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i~~g~~vi~fDpkgD~el~~~~~~~~~~ 232 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDIRRGDVVIVFDPKGDADLLKRMYAEAKR 232 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHH
Confidence 478889999999999999999999998899999998885 455555544444
No 179
>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=95.66 E-value=0.025 Score=49.24 Aligned_cols=47 Identities=21% Similarity=0.140 Sum_probs=37.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+|+|+|||..++..+...+++|.+++|++ +.+-.+|..++...
T Consensus 266 ~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s-~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 266 ILATGATGTGKTLLVSKFLENACANKERAILFA-YEESRAQLLRNAYS 312 (484)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE-eeCCHHHHHHHHHH
Confidence 449999999999999988888888899999987 44555666666544
No 180
>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=95.64 E-value=0.041 Score=44.63 Aligned_cols=50 Identities=14% Similarity=0.137 Sum_probs=34.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
++++|+|+|||..+..........|++++++. ++++-+.++.+.|.+..+
T Consensus 76 ~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~ 127 (272)
T TIGR00064 76 LFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLG 127 (272)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCC
Confidence 48899999999988633333345677877665 466666677777777554
No 181
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.64 E-value=0.022 Score=45.15 Aligned_cols=49 Identities=20% Similarity=0.196 Sum_probs=37.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
...++.++.|+|||..+...+...++.|.+++|++-- ...++..+.+..
T Consensus 24 ~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~-e~~~~l~~~~~~ 72 (260)
T COG0467 24 SVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTE-ESPEELLENARS 72 (260)
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEec-CCHHHHHHHHHH
Confidence 3456999999999999998888877889999998754 344455555544
No 182
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.58 E-value=0.035 Score=41.40 Aligned_cols=47 Identities=28% Similarity=0.261 Sum_probs=30.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH----------cCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR----------DKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~----------~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.++.||+|+|||.++...+.+... ++.+++|+..-.. ..+..+++..
T Consensus 35 ~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 35 TLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp EEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 459999999999999865555544 4578999876655 4455555554
No 183
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.58 E-value=0.022 Score=43.94 Aligned_cols=34 Identities=24% Similarity=0.326 Sum_probs=28.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
.+++|+|+|||.++...+...+..+.+++|+.=-
T Consensus 27 ~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 27 QIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 4999999999999986666666778899988654
No 184
>PRK05642 DNA replication initiation factor; Validated
Probab=95.58 E-value=0.021 Score=44.96 Aligned_cols=41 Identities=12% Similarity=-0.003 Sum_probs=27.8
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q 98 (138)
+..++||+|+|||..+..+..+...++.+++|+.- ..+...
T Consensus 47 ~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~-~~~~~~ 87 (234)
T PRK05642 47 LIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL-AELLDR 87 (234)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH-HHHHhh
Confidence 44699999999999854333333445788888664 455543
No 185
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=95.50 E-value=0.021 Score=51.37 Aligned_cols=47 Identities=19% Similarity=0.202 Sum_probs=41.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.++.+|.|.|||..-...|.+++.+|+++++.+|+..-++...+++.
T Consensus 204 ~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 204 LIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred eEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhc
Confidence 34999999999999988999999999999999999988888877644
No 186
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=95.49 E-value=0.025 Score=43.23 Aligned_cols=41 Identities=24% Similarity=0.185 Sum_probs=29.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSN 97 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~ 97 (138)
.+.++.||+|+|||.++.....++...+..++|+ ....+..
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i-~~~~~~~ 79 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAAAEERGKSAIYL-PLAELAQ 79 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEE-eHHHHHH
Confidence 4566999999999999876666655556666664 4545544
No 187
>PRK06921 hypothetical protein; Provisional
Probab=95.48 E-value=0.049 Score=43.98 Aligned_cols=44 Identities=18% Similarity=0.027 Sum_probs=30.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~ 100 (138)
.+.++.+|+|+|||..+......++.+ |..++|+.. ..+..+..
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~-~~l~~~l~ 162 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF-VEGFGDLK 162 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH-HHHHHHHH
Confidence 456799999999999876444444455 777777664 45555443
No 188
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.43 E-value=0.025 Score=44.50 Aligned_cols=37 Identities=19% Similarity=-0.021 Sum_probs=27.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK 93 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k 93 (138)
+.+++||+|+|||..+......+...|.+++|+.-..
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 4569999999999987654544445678888875543
No 189
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.40 E-value=0.053 Score=43.46 Aligned_cols=42 Identities=10% Similarity=0.050 Sum_probs=29.3
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
..++++++|+|||..+...+.+....|.+++|+ +...|....
T Consensus 101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~i-t~~~l~~~l 142 (244)
T PRK07952 101 SFIFSGKPGTGKNHLAAAICNELLLRGKSVLII-TVADIMSAM 142 (244)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE-EHHHHHHHH
Confidence 456999999999998875555555567777666 455555433
No 190
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=95.36 E-value=0.031 Score=42.33 Aligned_cols=44 Identities=20% Similarity=0.234 Sum_probs=33.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
+|.+++|||||..|+..+.. .+.+++|++-.+++-.+..+++.+
T Consensus 3 li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 3 LVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHH
Confidence 58999999999988754432 578999999998887666665433
No 191
>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=95.33 E-value=0.027 Score=44.53 Aligned_cols=35 Identities=23% Similarity=-0.066 Sum_probs=27.2
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEec
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSS 91 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P 91 (138)
-.+|.+|+|+|||..+...+.++... |.+++|+.-
T Consensus 32 ~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~ 67 (271)
T cd01122 32 LIILTAGTGVGKTTFLREYALDLITQHGVRVGTISL 67 (271)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEc
Confidence 34599999999999887555555555 889999874
No 192
>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=95.28 E-value=0.027 Score=49.03 Aligned_cols=46 Identities=7% Similarity=0.021 Sum_probs=33.0
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.+|++|+|+|||..+...+.+.+.+ |.+++|+.=- .-.++..+...
T Consensus 24 ~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~ 70 (484)
T TIGR02655 24 TLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNAR 70 (484)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHH
Confidence 4599999999999999766666565 8999999843 33344444333
No 193
>PRK06893 DNA replication initiation factor; Validated
Probab=95.25 E-value=0.031 Score=43.79 Aligned_cols=35 Identities=11% Similarity=0.052 Sum_probs=27.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
..++||+|+|||..+......+..++.+++|+.-.
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 35999999999998876666666678888887653
No 194
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=95.22 E-value=0.027 Score=52.19 Aligned_cols=38 Identities=18% Similarity=0.295 Sum_probs=31.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC-CcEEEEechH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK-QRVIYTSSLK 93 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~-~rviyv~P~k 93 (138)
++.+|+||||+|||+...+.++++.+.+ .+++++=+-+
T Consensus 437 ghT~I~G~tGaGKTvLl~~llaq~~k~~~~~iv~fDk~~ 475 (796)
T COG3451 437 GHTLIIGPTGAGKTVLLSFLLAQALKYGNPQIVAFDKDN 475 (796)
T ss_pred CCeEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEcCCC
Confidence 5888999999999999999998888876 7777766543
No 195
>COG4889 Predicted helicase [General function prediction only]
Probab=95.19 E-value=0.051 Score=51.38 Aligned_cols=50 Identities=22% Similarity=0.213 Sum_probs=39.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhc
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
.+.-|....|.|||+.++-.. .++. ..+++|++|..+|..|..++|...-
T Consensus 181 ~RGkLIMAcGTGKTfTsLkis-Eala-~~~iL~LvPSIsLLsQTlrew~~~~ 230 (1518)
T COG4889 181 DRGKLIMACGTGKTFTSLKIS-EALA-AARILFLVPSISLLSQTLREWTAQK 230 (1518)
T ss_pred cCCcEEEecCCCccchHHHHH-HHHh-hhheEeecchHHHHHHHHHHHhhcc
Confidence 455577888999999887433 3333 3899999999999999999998754
No 196
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=95.16 E-value=0.026 Score=51.09 Aligned_cols=54 Identities=15% Similarity=0.102 Sum_probs=45.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-C---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-K---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.++.+|.|..|||||.+...-+.+.+.. | .+++.+.-|+.-++++.+++.+.++
T Consensus 15 ~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 15 TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 3667799999999999998888887764 3 6899999999999999999987554
No 197
>PRK08116 hypothetical protein; Validated
Probab=95.15 E-value=0.075 Score=42.91 Aligned_cols=43 Identities=23% Similarity=0.157 Sum_probs=29.6
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYR 101 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~ 101 (138)
.++.|++|+|||..+.......+.++..++|+ +...|.++...
T Consensus 117 l~l~G~~GtGKThLa~aia~~l~~~~~~v~~~-~~~~ll~~i~~ 159 (268)
T PRK08116 117 LLLWGSVGTGKTYLAACIANELIEKGVPVIFV-NFPQLLNRIKS 159 (268)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE-EHHHHHHHHHH
Confidence 66999999999998875444444556666665 45566665543
No 198
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.00 E-value=0.087 Score=42.76 Aligned_cols=52 Identities=15% Similarity=0.181 Sum_probs=32.0
Q ss_pred CceEECcCCCchHHHHH-HHHHHHHHcC-CcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAE-YAIAMAFRDK-QRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~-~ai~~~l~~~-~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
..++++|||+|||..+. ++...+.+.| .++.++. ++++-+.++...|.+.++
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~ 251 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILG 251 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhC
Confidence 34499999999999886 4443333334 5554443 335555566666666554
No 199
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.97 E-value=0.048 Score=42.10 Aligned_cols=37 Identities=14% Similarity=0.044 Sum_probs=27.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
.+.++++|+|+|||..+.....++...+..++|+.-.
T Consensus 43 ~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~ 79 (227)
T PRK08903 43 RFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA 79 (227)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence 3456999999999998875555555667777777654
No 200
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.97 E-value=0.083 Score=48.01 Aligned_cols=77 Identities=10% Similarity=0.075 Sum_probs=53.6
Q ss_pred ECcCCCchHHHHHHHHHHHHHcC-CcEEEEechHHHHHHHHHHHHHhcC-----ceEEEecCC-----------cCCCCC
Q 042424 61 TNPVYNGKTAVAEYAIAMAFRDK-QRVIYTSSLKALSNQKYRELHKEFK-----DVGLMTGDV-----------TLSPNA 123 (138)
Q Consensus 61 ~aPTGsGKTlva~~ai~~~l~~~-~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~tGd~-----------~~~~~~ 123 (138)
-..||||||++..-.|+++..+| +..+|.|....+++..-..|.+-.. +-.+..+|. ..+.+.
T Consensus 3 ~matgsgkt~~ma~lil~~y~kgyr~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~fsehnd~i 82 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKKGYRNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNNFSEHNDAI 82 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHhchhhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecccCccCCce
Confidence 35799999999988888888888 5689999988888877666654221 111111221 123367
Q ss_pred CEEEecHHHHHHhh
Q 042424 124 SCLVMTTEILRGML 137 (138)
Q Consensus 124 ~IiVtTpe~l~~lL 137 (138)
.|..+|.+.|.+.+
T Consensus 83 ei~fttiq~l~~d~ 96 (812)
T COG3421 83 EIYFTTIQGLFSDF 96 (812)
T ss_pred EEEEeehHHHHHHH
Confidence 89999999998754
No 201
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=94.94 E-value=0.048 Score=37.85 Aligned_cols=52 Identities=15% Similarity=0.164 Sum_probs=28.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-----CCcEEEE-echHHHHHHHHHHHHHhc
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-----KQRVIYT-SSLKALSNQKYRELHKEF 107 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-----~~rviyv-~P~kaLv~Q~~~~l~~~f 107 (138)
+..++.||+|+|||.++...+...... ...++++ +|...-....++.+.+.+
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l 62 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEAL 62 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHh
Confidence 345699999999999987666554332 3444443 333332444555554444
No 202
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.91 E-value=0.09 Score=45.66 Aligned_cols=50 Identities=12% Similarity=0.133 Sum_probs=33.9
Q ss_pred ceEECcCCCchHHHHH-HHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhc
Q 042424 58 GTLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEF 107 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f 107 (138)
.++++|+|+|||..+. +|....+..|.++.++. ++++.+.++.+.+.+..
T Consensus 226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~l 278 (432)
T PRK12724 226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTM 278 (432)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhc
Confidence 3499999999999997 44444455677665443 44677777666665544
No 203
>PRK11054 helD DNA helicase IV; Provisional
Probab=94.89 E-value=0.084 Score=48.14 Aligned_cols=54 Identities=7% Similarity=0.050 Sum_probs=45.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc----CCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD----KQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~----~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
..+.+|.|..|||||.+...-+.+.+.. ..++++++.++..++++.+++.+.++
T Consensus 209 ~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 209 EDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred CCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 3567799999999999988777666654 46899999999999999999988665
No 204
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.85 E-value=0.069 Score=46.51 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=36.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+|+|+|||..+...+..++..|.+++|++-.. -.+|..+.+..
T Consensus 276 ~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~-~~~~i~~~~~~ 322 (509)
T PRK09302 276 ILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEE-SRAQLIRNARS 322 (509)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC-CHHHHHHHHHH
Confidence 348999999999999977777788899999997543 35555555543
No 205
>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=94.79 E-value=0.051 Score=41.64 Aligned_cols=36 Identities=19% Similarity=0.142 Sum_probs=28.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcC------CcEEEEechHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDK------QRVIYTSSLKA 94 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~------~rviyv~P~ka 94 (138)
.|.+|+|+|||.++...+...+..+ .+++|+..-..
T Consensus 23 ~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 23 EIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred EEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 3999999999999987666665555 78899877543
No 206
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=94.78 E-value=0.075 Score=48.28 Aligned_cols=54 Identities=11% Similarity=0.036 Sum_probs=45.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-C---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-K---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.++.+|.|..|||||.+...-+.+.+.. | .+++.+.-|+..+.++.+++.+.++
T Consensus 17 ~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 17 PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 3567899999999999998888887764 3 6899999999999999999988553
No 207
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.70 E-value=0.11 Score=44.72 Aligned_cols=52 Identities=19% Similarity=0.201 Sum_probs=32.7
Q ss_pred CceEECcCCCchHHHHH-HHHHHH-HHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAE-YAIAMA-FRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~-~ai~~~-l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
..++.+|||+|||..+. +|...+ +..|.++.++. |+++-+.++.+.|.+.++
T Consensus 223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~ 278 (424)
T PRK05703 223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMG 278 (424)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhC
Confidence 45599999999998886 555444 34466665554 345545556666655443
No 208
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=94.67 E-value=0.09 Score=45.57 Aligned_cols=41 Identities=20% Similarity=0.260 Sum_probs=28.7
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q 98 (138)
+..+.||+|+|||..+..........+.+++|+.. ..+.++
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~-~~f~~~ 183 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS-ELFTEH 183 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH-HHHHHH
Confidence 35699999999999876444444446889998865 334433
No 209
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=94.65 E-value=0.05 Score=49.60 Aligned_cols=39 Identities=10% Similarity=-0.014 Sum_probs=31.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK 93 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k 93 (138)
+.|.+|.|+||||||+..-..+.+.+..|.+++++=|-.
T Consensus 430 n~n~~I~G~tGsGKS~~~~~l~~~~~~~g~~v~iiD~~~ 468 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQELIVDNLSRGGKVWVIDVGR 468 (797)
T ss_pred ccceEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 357889999999999998776677777788888887753
No 210
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.61 E-value=0.11 Score=44.67 Aligned_cols=43 Identities=19% Similarity=0.164 Sum_probs=28.5
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~ 100 (138)
+.+++||+|+|||..+......+..+ +.+++|+.. ..+.++..
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~-~~~~~~~~ 194 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS-EKFTNDFV 194 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH-HHHHHHHH
Confidence 35699999999999876544444444 567777744 44554443
No 211
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=94.60 E-value=0.079 Score=49.20 Aligned_cols=49 Identities=18% Similarity=0.223 Sum_probs=40.9
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHh
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
.+|-+|.|+|||..-.-.+.+.+. .+.++++|+-.++|+.+.+.+|++.
T Consensus 52 ~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 52 LVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred EEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 349999999999866666666553 4799999999999999999999874
No 212
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.59 E-value=0.041 Score=45.94 Aligned_cols=34 Identities=18% Similarity=0.168 Sum_probs=24.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
..+.++++|||||||... .++...+....|++.+
T Consensus 160 ~~nili~G~tgSGKTTll-~aL~~~ip~~~ri~ti 193 (332)
T PRK13900 160 KKNIIISGGTSTGKTTFT-NAALREIPAIERLITV 193 (332)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHhhCCCCCeEEEe
Confidence 467889999999999875 4555555556676655
No 213
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.52 E-value=0.13 Score=42.79 Aligned_cols=49 Identities=12% Similarity=0.102 Sum_probs=32.5
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
.+++|+|+|||..+. +|.. ...+|++++++. ++++-+-++...|.+..+
T Consensus 118 ~lvGpnGsGKTTt~~kLA~~-l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~ 169 (318)
T PRK10416 118 LVVGVNGVGKTTTIGKLAHK-YKAQGKKVLLAAGDTFRAAAIEQLQVWGERVG 169 (318)
T ss_pred EEECCCCCcHHHHHHHHHHH-HHhcCCeEEEEecCccchhhHHHHHHHHHHcC
Confidence 489999999999886 4433 234577777664 346666566666666443
No 214
>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=94.51 E-value=0.038 Score=49.27 Aligned_cols=41 Identities=15% Similarity=0.090 Sum_probs=29.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKAL 95 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaL 95 (138)
..+.++.|+||||||.+....+.+...+|.++|++=|.=..
T Consensus 176 ~~h~li~G~tGsGKs~~i~~ll~~~~~~g~~~ii~D~~g~~ 216 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIYDKGCTF 216 (566)
T ss_pred ccceEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCe
Confidence 46888999999999976545455545568888887776443
No 215
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.51 E-value=0.15 Score=46.95 Aligned_cols=77 Identities=18% Similarity=0.198 Sum_probs=55.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHH-----HHc-----CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecCCcCC-
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMA-----FRD-----KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGDVTLS- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~-----l~~-----~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd~~~~- 120 (138)
...+|.-.-|-|||+.-.-.|.+. .+. ..+.++|+|- +|+.|++.++.++.. +|.+++|+...+
T Consensus 346 ~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa-Sli~qW~~Ev~~rl~~n~LsV~~~HG~n~r~i 424 (901)
T KOG4439|consen 346 SGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA-SLIHQWEAEVARRLEQNALSVYLYHGPNKREI 424 (901)
T ss_pred CCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH-HHHHHHHHHHHHHHhhcceEEEEecCCccccC
Confidence 346688889999999544333222 111 1248999997 799999999999886 688889986432
Q ss_pred -----CCCCEEEecHHHH
Q 042424 121 -----PNASCLVMTTEIL 133 (138)
Q Consensus 121 -----~~~~IiVtTpe~l 133 (138)
.+.+|||||+...
T Consensus 425 ~~~~L~~YDvViTTY~lv 442 (901)
T KOG4439|consen 425 SAKELRKYDVVITTYNLV 442 (901)
T ss_pred CHHHHhhcceEEEeeecc
Confidence 1889999998654
No 216
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=94.50 E-value=0.11 Score=44.74 Aligned_cols=53 Identities=21% Similarity=0.275 Sum_probs=39.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechH-------HHHHHHHHHHHHhcCceE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLK-------ALSNQKYRELHKEFKDVG 111 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~k-------aLv~Q~~~~l~~~f~~v~ 111 (138)
..|.||+|+|||...-.+...++.. +.+++|+..-. ++-+...++|++.| ++.
T Consensus 116 lfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y-~~d 177 (408)
T COG0593 116 LFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY-SLD 177 (408)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh-ccC
Confidence 4599999999999765555555555 45889988865 77777788888888 543
No 217
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=94.49 E-value=0.12 Score=43.61 Aligned_cols=42 Identities=21% Similarity=0.181 Sum_probs=27.6
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~~ 100 (138)
.++.||+|+|||..+.........+ +.+++|+.. ..+.++..
T Consensus 139 l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~-~~~~~~~~ 182 (405)
T TIGR00362 139 LFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS-EKFTNDFV 182 (405)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH-HHHHHHHH
Confidence 4699999999999885444443333 678888754 34444433
No 218
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.46 E-value=0.12 Score=42.62 Aligned_cols=44 Identities=7% Similarity=-0.111 Sum_probs=30.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~ 100 (138)
.+..+.||+|.|||.++......+..+|.+++|+. .-.|+.+..
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~-~~~l~~~lk 200 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH-FPEFIRELK 200 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE-HHHHHHHHH
Confidence 35569999999999988755555556677776653 234555543
No 219
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.46 E-value=0.12 Score=43.97 Aligned_cols=53 Identities=21% Similarity=0.147 Sum_probs=32.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHH-HHcC-CcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMA-FRDK-QRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~-l~~~-~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
...++.+|||+|||..+.....+. .+.| .++.++. .++.=+.++.+.|.+.++
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~g 194 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILG 194 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcC
Confidence 345699999999999986433333 3445 4554443 224445666666666554
No 220
>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=94.44 E-value=0.057 Score=50.50 Aligned_cols=40 Identities=15% Similarity=0.200 Sum_probs=32.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKA 94 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~ka 94 (138)
+.|.+|.||||||||+..-..+.+.+.. +.+++++=|=.+
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~~~~v~IiD~g~s 515 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVHRPRLFIVEAGNS 515 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCCC
Confidence 5788999999999999988777777764 788888777554
No 221
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.43 E-value=0.059 Score=46.96 Aligned_cols=47 Identities=11% Similarity=0.112 Sum_probs=33.9
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.+|.+++|+|||..+...+.+.+.+ |.+++|+.=. .-.+|..+.+..
T Consensus 34 ~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~e-e~~~~i~~~~~~ 81 (509)
T PRK09302 34 TLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFE-ESPEDIIRNVAS 81 (509)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEcc-CCHHHHHHHHHH
Confidence 3499999999999998666666666 8899888533 344555555544
No 222
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.42 E-value=0.035 Score=46.71 Aligned_cols=40 Identities=23% Similarity=0.258 Sum_probs=27.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKAL 95 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaL 95 (138)
..|.++++|||||||... .++...+....+++.+=...+|
T Consensus 162 ~~nilI~G~tGSGKTTll-~aLl~~i~~~~rivtiEd~~El 201 (344)
T PRK13851 162 RLTMLLCGPTGSGKTTMS-KTLISAIPPQERLITIEDTLEL 201 (344)
T ss_pred CCeEEEECCCCccHHHHH-HHHHcccCCCCCEEEECCCccc
Confidence 467889999999999865 4455545455676665555544
No 223
>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=94.42 E-value=0.07 Score=40.88 Aligned_cols=32 Identities=13% Similarity=0.196 Sum_probs=20.4
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH-c-CCcEEEEe
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR-D-KQRVIYTS 90 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~-~-~~rviyv~ 90 (138)
.++++|||||||..... +...+. . +.+++.+-
T Consensus 4 ilI~GptGSGKTTll~~-ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 4 VLVTGPTGSGKSTTLAA-MIDYINKNKTHHILTIE 37 (198)
T ss_pred EEEECCCCCCHHHHHHH-HHHHhhhcCCcEEEEEc
Confidence 35999999999998643 343443 2 44555443
No 224
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.029 Score=47.58 Aligned_cols=18 Identities=33% Similarity=0.412 Sum_probs=15.8
Q ss_pred CCceEECcCCCchHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~ 73 (138)
-|.++.+|||||||+.|-
T Consensus 98 SNILLiGPTGsGKTlLAq 115 (408)
T COG1219 98 SNILLIGPTGSGKTLLAQ 115 (408)
T ss_pred ccEEEECCCCCcHHHHHH
Confidence 577799999999999874
No 225
>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=94.36 E-value=0.052 Score=51.71 Aligned_cols=56 Identities=23% Similarity=0.282 Sum_probs=42.9
Q ss_pred EECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC----ceEEEecC
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK----DVGLMTGD 116 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~----~v~~~tGd 116 (138)
=-|.||||||++= .-|+++|.. |-|..+..-.|+|.-|.-+.++++++ +..++.|+
T Consensus 436 NMASTGcGKT~aN-ARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L~~ddLAVlIGs 498 (1110)
T TIGR02562 436 NMASTGCGKTLAN-ARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNLSDDDLAVLIGG 498 (1110)
T ss_pred EecCCCcchHHHH-HHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCCCccceEEEECH
Confidence 4577999999864 344455654 56999999999999999999999886 45665543
No 226
>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=94.29 E-value=0.041 Score=43.65 Aligned_cols=38 Identities=16% Similarity=0.231 Sum_probs=25.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC-CcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK-QRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~-~rviyv~P~ka 94 (138)
++.+++||||||||... .+++..+... .+++.+-...+
T Consensus 128 ~~ili~G~tGSGKTT~l-~all~~i~~~~~~iv~iEd~~E 166 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLL-NALLEEIPPEDERIVTIEDPPE 166 (270)
T ss_dssp EEEEEEESTTSSHHHHH-HHHHHHCHTTTSEEEEEESSS-
T ss_pred eEEEEECCCccccchHH-HHHhhhccccccceEEeccccc
Confidence 56779999999999876 4444555444 67776654433
No 227
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=94.28 E-value=0.06 Score=49.04 Aligned_cols=54 Identities=11% Similarity=0.034 Sum_probs=45.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-C---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-K---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.++.+|.|..|||||.+...-+.+.+.. | .+++.+.-|+..++++.+++.+..+
T Consensus 22 ~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 22 LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 4677899999999999998888877763 3 6899999999999999999988554
No 228
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=94.28 E-value=0.063 Score=45.72 Aligned_cols=45 Identities=16% Similarity=0.101 Sum_probs=34.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
.++.++.++||||||.+....+.+.+..+.++|++=|.-.+....
T Consensus 42 ~~h~~i~g~tGsGKt~~i~~l~~~~~~~~~~~vi~D~kg~~~~~~ 86 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQIRELLASIRARGDRAIIYDPNGGFVSKF 86 (410)
T ss_pred hccEEEEcCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCcchhHhh
Confidence 467889999999999875555556566788999998887765443
No 229
>PRK10536 hypothetical protein; Provisional
Probab=94.27 E-value=0.062 Score=43.80 Aligned_cols=39 Identities=26% Similarity=0.141 Sum_probs=27.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~ka 94 (138)
...++.+|+|+|||+++..+..+++..+ .+++++=|...
T Consensus 75 ~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 75 QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 3455999999999999987666655433 45666656543
No 230
>PRK10867 signal recognition particle protein; Provisional
Probab=94.13 E-value=0.16 Score=44.00 Aligned_cols=50 Identities=14% Similarity=0.189 Sum_probs=33.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc-CCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
++++|+|+|||.++.....+...+ |.+++++. ++++-+.++.+.|.+..+
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~g 156 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIG 156 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcC
Confidence 499999999999887333333344 77776654 457777667777766443
No 231
>PRK14974 cell division protein FtsY; Provisional
Probab=94.07 E-value=0.18 Score=42.35 Aligned_cols=50 Identities=12% Similarity=0.088 Sum_probs=32.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec--hHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS--LKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P--~kaLv~Q~~~~l~~~f~ 108 (138)
++++|+|+|||..+.........+|.+++++.. +|+=+.++.+.+.+.++
T Consensus 144 ~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lg 195 (336)
T PRK14974 144 VFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLG 195 (336)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcC
Confidence 499999999999876444443445777776653 34545455556666554
No 232
>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=94.02 E-value=0.18 Score=43.68 Aligned_cols=51 Identities=12% Similarity=0.149 Sum_probs=33.4
Q ss_pred ceEECcCCCchHHHHH-HHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 58 GTLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
.++++|+|+|||.++. +|..-+.+.|.+++++. ++++-+.++.+.+.+..+
T Consensus 102 i~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~g 155 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVG 155 (428)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcC
Confidence 3499999999999987 44432224577776554 346666666666666443
No 233
>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=93.98 E-value=0.11 Score=44.09 Aligned_cols=47 Identities=17% Similarity=0.173 Sum_probs=32.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYR 101 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~ 101 (138)
.++.++.+.||||||.+....+.+.+.+|.++|+.=|.-......++
T Consensus 15 ~~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~~~~f~~ 61 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEFTERFYR 61 (386)
T ss_dssp GG-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHHHHHH--
T ss_pred hCcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchHHHHhcC
Confidence 36788999999999986666666666778899888888776555444
No 234
>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=93.94 E-value=0.098 Score=40.35 Aligned_cols=37 Identities=14% Similarity=0.178 Sum_probs=30.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHH-HcCCcEEEEech
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAF-RDKQRVIYTSSL 92 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l-~~~~rviyv~P~ 92 (138)
++.+|.|-||||||...-..+.+.+ ..+.+++++=|.
T Consensus 24 ~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~~ 61 (229)
T PF01935_consen 24 RHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIFDPH 61 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEcCC
Confidence 6778999999999998877777776 567777777665
No 235
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=93.85 E-value=0.19 Score=43.58 Aligned_cols=52 Identities=13% Similarity=0.098 Sum_probs=33.7
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEec--hHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS--LKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P--~kaLv~Q~~~~l~~~f~ 108 (138)
..++++++|+|||.++.....+....|.+++++.- +++-+.++.+.+.+..+
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~g 150 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIG 150 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcC
Confidence 34599999999999987444444445777766543 35555566666665443
No 236
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=93.85 E-value=0.081 Score=44.18 Aligned_cols=34 Identities=18% Similarity=0.230 Sum_probs=22.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH---cCCcEEEEe
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR---DKQRVIYTS 90 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~---~~~rviyv~ 90 (138)
.|.+++++||||||... .++...+. .+.|++.+=
T Consensus 145 ~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiE 181 (323)
T PRK13833 145 LNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILE 181 (323)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEec
Confidence 57789999999999876 44544442 245555443
No 237
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=93.84 E-value=0.14 Score=46.26 Aligned_cols=41 Identities=27% Similarity=0.141 Sum_probs=26.7
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH--cCCcEEEEechHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR--DKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~--~~~rviyv~P~kaLv~Q~ 99 (138)
.+|++++|+|||..+-.....+.. .+.+++|+.- ..++++.
T Consensus 317 L~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita-eef~~el 359 (617)
T PRK14086 317 LFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS-EEFTNEF 359 (617)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH-HHHHHHH
Confidence 569999999999876533333333 3677877754 4455444
No 238
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=93.76 E-value=0.091 Score=47.06 Aligned_cols=54 Identities=15% Similarity=0.110 Sum_probs=45.3
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc-C---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD-K---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~-~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.++.+|.|..|||||.+...-+.+.+.+ + .+++.|..++..+.++-+++.+.++
T Consensus 14 ~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 14 TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 3567899999999999998888887753 3 6789999999999999999988654
No 239
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.75 E-value=0.076 Score=46.85 Aligned_cols=25 Identities=28% Similarity=0.295 Sum_probs=18.8
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcC
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDK 83 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~ 83 (138)
.++++|||||||.. +|+++..+++.
T Consensus 261 iLvTGPTGSGKTTT-LY~~L~~ln~~ 285 (500)
T COG2804 261 ILVTGPTGSGKTTT-LYAALSELNTP 285 (500)
T ss_pred EEEeCCCCCCHHHH-HHHHHHHhcCC
Confidence 44999999999975 56666666653
No 240
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=93.75 E-value=0.25 Score=41.10 Aligned_cols=89 Identities=20% Similarity=0.160 Sum_probs=61.9
Q ss_pred cccccCCCCccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcCC-cEEEEechHHHHHHHHHHHHHhcC---ceEEE--
Q 042424 40 HEVAVPSCYTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQ-RVIYTSSLKALSNQKYRELHKEFK---DVGLM-- 113 (138)
Q Consensus 40 ~~~~~p~~y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~-rviyv~P~kaLv~Q~~~~l~~~f~---~v~~~-- 113 (138)
|+..+|.+++ ...++.=-||.||--...-.|++.+.+|+ |.|+++-.-.|-.+..++|++.-. .+-.+
T Consensus 53 h~~~Lp~~~R------~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~DIG~~~i~v~~l~~ 126 (303)
T PF13872_consen 53 HEQILPGGSR------AGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLRDIGADNIPVHPLNK 126 (303)
T ss_pred HHhhcccccC------cEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHHHhCCCcccceechh
Confidence 4445666653 22336666999999988888888877764 699999999999999999998432 12111
Q ss_pred --ecCCcCCCCCCEEEecHHHHHH
Q 042424 114 --TGDVTLSPNASCLVMTTEILRG 135 (138)
Q Consensus 114 --tGd~~~~~~~~IiVtTpe~l~~ 135 (138)
.|+. ...+..||.+|+-.|..
T Consensus 127 ~~~~~~-~~~~~GvlF~TYs~L~~ 149 (303)
T PF13872_consen 127 FKYGDI-IRLKEGVLFSTYSTLIS 149 (303)
T ss_pred hccCcC-CCCCCCccchhHHHHHh
Confidence 1221 22366799999988764
No 241
>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=93.72 E-value=0.19 Score=34.50 Aligned_cols=34 Identities=21% Similarity=0.145 Sum_probs=23.7
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKAL 95 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaL 95 (138)
++.+|.|+|||.++...+... +..++.+......
T Consensus 2 ll~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~ 35 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELI 35 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHH
T ss_pred EEECcCCCCeeHHHHHHHhhc---ccccccccccccc
Confidence 589999999998886555432 5566666655544
No 242
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=93.68 E-value=0.09 Score=47.71 Aligned_cols=49 Identities=14% Similarity=0.198 Sum_probs=37.7
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCC-cEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQ-RVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~-rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+.|.+|.|+||+|||+..-+.+.+.+..|. +++++=|-.+ ++.+.+.++
T Consensus 434 ~~n~~I~G~tGsGKS~~~~~l~~~~~~~~~~~v~iiD~~~~-----~~~~~~~~g 483 (785)
T TIGR00929 434 LGHTLIFGPTGSGKTTLLNFLLAQMQKYGGMTIFAFDKDRG-----MEIFIRAFG 483 (785)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhhccCCCeEEEEeCCCC-----hHHhhhccC
Confidence 578889999999999988777777766666 8888888765 444555554
No 243
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.68 E-value=0.22 Score=43.89 Aligned_cols=50 Identities=22% Similarity=0.248 Sum_probs=34.2
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCC-cEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQ-RVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~-rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
.+.+|||+|||..+. ++......+|. ++.++. +++.=+.++.+.|.+.++
T Consensus 260 ~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilG 313 (484)
T PRK06995 260 ALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILG 313 (484)
T ss_pred EEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhC
Confidence 499999999999886 55444445554 554332 446667788888877665
No 244
>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=93.58 E-value=0.15 Score=47.49 Aligned_cols=44 Identities=9% Similarity=0.224 Sum_probs=34.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEec---hHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS---LKALSNQ 98 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P---~kaLv~Q 98 (138)
++|..|.|+||+|||......+.+.+..|.+++++=+ ++.|++-
T Consensus 438 n~N~~I~G~sGsGKS~l~~~l~~~~~~~g~~vviiD~g~sy~~l~~~ 484 (829)
T TIGR03783 438 NRNKFILGPSGSGKSFFTNHLVRQYYEQGTHILLVDTGNSYQGLCEL 484 (829)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHHhcCCEEEEECCCccHHHHHHH
Confidence 4788999999999999998888887788888877755 4555443
No 245
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=93.56 E-value=0.11 Score=36.74 Aligned_cols=21 Identities=33% Similarity=0.321 Sum_probs=16.7
Q ss_pred ceEECcCCCchHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAM 78 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~ 78 (138)
.+|.+|+|+|||.++......
T Consensus 2 vlL~G~~G~GKt~l~~~la~~ 22 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAAL 22 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 469999999999998755443
No 246
>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=93.54 E-value=0.12 Score=42.49 Aligned_cols=40 Identities=20% Similarity=0.268 Sum_probs=26.4
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKAL 95 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaL 95 (138)
..+.++++|||||||.... ++...+.. +.|++.+=-..+|
T Consensus 132 ~~~ilI~G~tGSGKTTll~-al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 132 RKNILVVGGTGSGKTTLAN-ALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHhhccCCCceEEEECCchhh
Confidence 3677899999999998764 34444432 4666665554444
No 247
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.50 E-value=0.23 Score=45.00 Aligned_cols=54 Identities=28% Similarity=0.302 Sum_probs=41.9
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEE
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLM 113 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~ 113 (138)
+.++.+.+||||+++....+ . ..++.+|+|+|....+.|.+++|+..|+ .|..+
T Consensus 34 ~~ll~Gl~gs~ka~lia~l~-~--~~~r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f 89 (652)
T PRK05298 34 HQTLLGVTGSGKTFTMANVI-A--RLQRPTLVLAHNKTLAAQLYSEFKEFFPENAVEYF 89 (652)
T ss_pred cEEEEcCCCcHHHHHHHHHH-H--HhCCCEEEEECCHHHHHHHHHHHHHhcCCCeEEEe
Confidence 45699999999998754322 1 2378999999999999999999999776 35544
No 248
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=93.48 E-value=0.1 Score=48.13 Aligned_cols=48 Identities=15% Similarity=0.066 Sum_probs=34.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+|.+|.||||||||+..-+.+.+.++ .|.+++++=+-++ ++.+.+.++
T Consensus 442 gn~~I~G~tGsGKS~l~~~l~~~~~~~~g~~v~i~D~~~s-----~~~l~~alG 490 (811)
T PRK13873 442 GHTLVVGPTGAGKSVLLALMALQFRRYPGAQVFAFDFGGS-----IRAATLAMG 490 (811)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhhcCCCeEEEEeCCCC-----HHHHHHhcC
Confidence 58899999999999998776666665 4777777766442 344444454
No 249
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=93.45 E-value=0.14 Score=37.42 Aligned_cols=34 Identities=24% Similarity=0.214 Sum_probs=26.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
.+++|.+||||..+...+....++|.++.++...
T Consensus 4 ~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~ 37 (140)
T PF03205_consen 4 QVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHT 37 (140)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-
T ss_pred EEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEc
Confidence 4899999999999998888887788888776554
No 250
>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=93.44 E-value=0.14 Score=40.53 Aligned_cols=34 Identities=26% Similarity=0.075 Sum_probs=28.2
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc-CCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv~P~ 92 (138)
+|.|++|.|||..++..+.++..+ +..++|++.-
T Consensus 23 vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlE 57 (259)
T PF03796_consen 23 VIAARPGVGKTAFALQIALNAALNGGYPVLYFSLE 57 (259)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESS
T ss_pred EEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCC
Confidence 499999999999999777766665 6899998864
No 251
>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=93.42 E-value=0.11 Score=39.90 Aligned_cols=34 Identities=12% Similarity=0.150 Sum_probs=25.5
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc------CCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD------KQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~------~~rviyv~P~ 92 (138)
.|++|.|+|||..+...+...+.. +.+++|+.--
T Consensus 23 ~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e 62 (235)
T cd01123 23 EIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTE 62 (235)
T ss_pred EEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCC
Confidence 399999999999998655554333 3788888753
No 252
>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=93.42 E-value=0.11 Score=40.67 Aligned_cols=20 Identities=25% Similarity=0.217 Sum_probs=16.0
Q ss_pred CceEECcCCCchHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai 76 (138)
..+++||.|+|||.++....
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~ 64 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLL 64 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHH
Confidence 34699999999998876544
No 253
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.36 E-value=0.21 Score=43.08 Aligned_cols=52 Identities=10% Similarity=0.100 Sum_probs=33.3
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
..++++|+|+|||..+.-...+...+|.++.++. |+++=+.++.+.+.+..+
T Consensus 208 ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lg 261 (407)
T PRK12726 208 IISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLD 261 (407)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCC
Confidence 3459999999999888643344556677765544 445545555555655443
No 254
>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=93.34 E-value=0.094 Score=44.20 Aligned_cols=38 Identities=16% Similarity=0.289 Sum_probs=24.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALS 96 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv 96 (138)
+|.+||||||+-...-.|--.+.+ -..|+||+|.+-.+
T Consensus 91 ~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mI 130 (369)
T PF02456_consen 91 VVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMI 130 (369)
T ss_pred EEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCC
Confidence 399999999996433222111121 57899999986543
No 255
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.31 E-value=0.28 Score=42.68 Aligned_cols=52 Identities=17% Similarity=0.098 Sum_probs=31.9
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
...+.+|||+|||..+.........+|.++.++. +.++-+-++.+.+.+..+
T Consensus 243 vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lg 296 (436)
T PRK11889 243 TIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIG 296 (436)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcC
Confidence 3459999999999988633333345576765544 345444444555555443
No 256
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=93.28 E-value=0.16 Score=37.75 Aligned_cols=33 Identities=21% Similarity=0.220 Sum_probs=23.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
.+++++|||||.++...+.....+|.++.++-+
T Consensus 3 ~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~ 35 (155)
T TIGR00176 3 QIVGPKNSGKTTLIERLVKALKARGYRVATIKH 35 (155)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCeEEEEec
Confidence 388999999999887655544345667766654
No 257
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.26 E-value=0.25 Score=42.22 Aligned_cols=52 Identities=12% Similarity=0.085 Sum_probs=34.3
Q ss_pred CceEECcCCCchHHHHH-HHHHHHHH---cCCcEEE--EechHHHHHHHHHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAE-YAIAMAFR---DKQRVIY--TSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~-~ai~~~l~---~~~rviy--v~P~kaLv~Q~~~~l~~~f~ 108 (138)
..++.+|||+|||..+. +|....+. +|.++.+ +=++++-+.++.+.+.+.++
T Consensus 176 vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lg 233 (388)
T PRK12723 176 VFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMG 233 (388)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCC
Confidence 34599999999999986 44333332 3455533 33557777777888877665
No 258
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=93.25 E-value=0.13 Score=48.00 Aligned_cols=39 Identities=15% Similarity=0.020 Sum_probs=30.0
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLK 93 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~k 93 (138)
.++.+|.||||||||+..-+.+.+..+ .+.+++++=|-+
T Consensus 488 ~gh~~I~G~tGsGKS~l~~~L~~~~~k~~~~~v~i~D~~~ 527 (852)
T PRK13891 488 LGHTFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGM 527 (852)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEEcCCc
Confidence 467889999999999998776666655 467777766654
No 259
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=93.20 E-value=0.19 Score=47.21 Aligned_cols=77 Identities=17% Similarity=0.143 Sum_probs=53.3
Q ss_pred CCceEECcCCCchHHHHHHHHH-HHHHcCCcEEEEechHHHHHHHHHHHHHhc---C-ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIA-MAFRDKQRVIYTSSLKALSNQKYRELHKEF---K-DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~-~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f---~-~v~~~tGd~~~~~-----~~~I 125 (138)
...+.-..||-|||++|.+++. .+| .|+.|-+|...-=|+..=++.+...| + +||+...+...+. .++|
T Consensus 92 ~G~IAEMkTGEGKTLvAtLpayLnAL-~GkgVhVVTvNdYLA~RDae~mg~vy~fLGLsvG~i~~~~~~~~rr~aY~~DI 170 (925)
T PRK12903 92 LGSVAEMKTGEGKTITSIAPVYLNAL-TGKGVIVSTVNEYLAERDAEEMGKVFNFLGLSVGINKANMDPNLKREAYACDI 170 (925)
T ss_pred cCCeeeecCCCCccHHHHHHHHHHHh-cCCceEEEecchhhhhhhHHHHHHHHHHhCCceeeeCCCCChHHHHHhccCCC
Confidence 3456889999999999987554 444 47777666666668876666655544 4 8888776554322 7888
Q ss_pred EEecHHHH
Q 042424 126 LVMTTEIL 133 (138)
Q Consensus 126 iVtTpe~l 133 (138)
+-+|.-.|
T Consensus 171 tYgTn~E~ 178 (925)
T PRK12903 171 TYSVHSEL 178 (925)
T ss_pred eeecCccc
Confidence 88887553
No 260
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=93.18 E-value=0.29 Score=42.44 Aligned_cols=40 Identities=18% Similarity=0.073 Sum_probs=27.4
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH---cCCcEEEEechHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR---DKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~---~~~rviyv~P~kaLv~Q 98 (138)
+..+.|++|+|||..+ .|+.+.+. .+.+++|+... .+.++
T Consensus 143 pl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~~-~f~~~ 185 (450)
T PRK14087 143 PLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSGD-EFARK 185 (450)
T ss_pred ceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEHH-HHHHH
Confidence 3559999999999776 55555543 36788887663 34433
No 261
>PRK11823 DNA repair protein RadA; Provisional
Probab=93.14 E-value=0.23 Score=42.96 Aligned_cols=45 Identities=16% Similarity=0.047 Sum_probs=32.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.++.+++|+|||..++..+.....++.+++|+.-..+ .+|...+.
T Consensus 83 ~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees-~~qi~~ra 127 (446)
T PRK11823 83 VLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES-ASQIKLRA 127 (446)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc-HHHHHHHH
Confidence 3499999999999998666555566889999985433 34544433
No 262
>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=93.13 E-value=0.11 Score=46.12 Aligned_cols=26 Identities=23% Similarity=0.234 Sum_probs=19.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD 82 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~ 82 (138)
+..++++|||||||... ++++..+..
T Consensus 317 Glilv~G~tGSGKTTtl-~a~l~~~~~ 342 (564)
T TIGR02538 317 GMVLVTGPTGSGKTVSL-YTALNILNT 342 (564)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHhhCC
Confidence 34569999999999875 556566653
No 263
>PRK13764 ATPase; Provisional
Probab=93.11 E-value=0.13 Score=46.38 Aligned_cols=31 Identities=19% Similarity=0.243 Sum_probs=21.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVI 87 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rvi 87 (138)
.+.++++|||||||... .++...+....+.+
T Consensus 258 ~~ILIsG~TGSGKTTll-~AL~~~i~~~~riV 288 (602)
T PRK13764 258 EGILIAGAPGAGKSTFA-QALAEFYADMGKIV 288 (602)
T ss_pred CEEEEECCCCCCHHHHH-HHHHHHHhhCCCEE
Confidence 56779999999999876 44555555444444
No 264
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=93.06 E-value=0.17 Score=46.65 Aligned_cols=82 Identities=15% Similarity=0.157 Sum_probs=53.3
Q ss_pred CCCCCCCC-----CcchhhhhcCC--CCCCcccccccCCCCccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcCCcEE
Q 042424 15 ADSHVRGT-----PKEESTKKQRN--PTRSCVHEVAVPSCYTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVI 87 (138)
Q Consensus 15 ~~~~~~~~-----p~~~~~~~~~~--~~~~~~~~~~~p~~y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rvi 87 (138)
+|...+|. |++..+..+.. .++.+..-+-+|.+. ..++.++.+-||+|||.+....+.+...+|.|+|
T Consensus 143 ~d~~irG~~l~~~~~~l~k~lk~~~~~s~i~I~gvPip~~~-----E~~H~li~GttGSGKS~~i~~LL~~ir~RGdrAI 217 (732)
T PRK13700 143 ENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDS-----EIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVV 217 (732)
T ss_pred hhhhcCcceecCCHHHHHHHHHhcCCCCCeeEccccCCcch-----hhcceEEeCCCCCCHHHHHHHHHHHHHHcCCeEE
Confidence 45555664 44444443332 344444444444443 2367889999999999977666666666799999
Q ss_pred EEechHHHHHHHHH
Q 042424 88 YTSSLKALSNQKYR 101 (138)
Q Consensus 88 yv~P~kaLv~Q~~~ 101 (138)
+.=|.=+.+...|+
T Consensus 218 IyD~~GeFv~~FY~ 231 (732)
T PRK13700 218 IYDRSGEFVKSYYD 231 (732)
T ss_pred EEeCCCchHHHhcC
Confidence 98888777765554
No 265
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=92.97 E-value=0.13 Score=38.77 Aligned_cols=33 Identities=18% Similarity=0.222 Sum_probs=21.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.+.++++|||||||.... ++...+....+++.+
T Consensus 26 ~~i~I~G~tGSGKTTll~-aL~~~i~~~~~~i~i 58 (186)
T cd01130 26 KNILISGGTGSGKTTLLN-ALLAFIPPDERIITI 58 (186)
T ss_pred CEEEEECCCCCCHHHHHH-HHHhhcCCCCCEEEE
Confidence 456799999999998653 344444444555544
No 266
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=92.96 E-value=0.3 Score=44.51 Aligned_cols=48 Identities=17% Similarity=0.133 Sum_probs=38.1
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc------CCcEEEEechHHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD------KQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~------~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
.++.+..|||||.+|+.-++..+.. ++.++++.|.+-+.+=..+.|=+
T Consensus 229 lVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPe 282 (747)
T COG3973 229 LVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPE 282 (747)
T ss_pred EEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhchh
Confidence 4499999999999999877777653 45599999999887766665554
No 267
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.94 E-value=0.32 Score=41.96 Aligned_cols=42 Identities=21% Similarity=0.146 Sum_probs=27.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKALSNQK 99 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~kaLv~Q~ 99 (138)
+.+++||+|+|||..+-......... +.+++|+... .+.++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~-~f~~~~ 175 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE-KFLNDL 175 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH-HHHHHH
Confidence 45699999999998875333333332 5688887653 344444
No 268
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=92.93 E-value=0.14 Score=46.56 Aligned_cols=55 Identities=13% Similarity=0.058 Sum_probs=45.5
Q ss_pred CCCCceEECcCCCchHHHHHHHHHHHHHc-C---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 54 ETTHGTLTNPVYNGKTAVAEYAIAMAFRD-K---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~~ai~~~l~~-~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
..++.+|.|..|||||.+...-+.+.+.. + .+++.+.=|+.-+.++.+++.+.++
T Consensus 16 ~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 16 TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 34677899999999999998888888764 3 6899999999999999988887543
No 269
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=92.91 E-value=0.18 Score=42.16 Aligned_cols=44 Identities=27% Similarity=0.266 Sum_probs=33.2
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
+.+|.|+|||..++.++..+.+.+..++|+-+-.+|-...++.+
T Consensus 58 i~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~a~~l 101 (322)
T PF00154_consen 58 IYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEYAESL 101 (322)
T ss_dssp EEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHHHHHT
T ss_pred EeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhhHHHhc
Confidence 99999999999999999888777888888888777765555443
No 270
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=92.85 E-value=0.17 Score=41.12 Aligned_cols=35 Identities=11% Similarity=0.088 Sum_probs=25.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHH------cCCcEEEEechH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFR------DKQRVIYTSSLK 93 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~------~~~rviyv~P~k 93 (138)
.+++|.|+|||.++...+..+.. .+.+++|+.---
T Consensus 99 ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~ 139 (310)
T TIGR02236 99 EVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN 139 (310)
T ss_pred EEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence 39999999999999866655432 134899998444
No 271
>PRK10436 hypothetical protein; Provisional
Probab=92.84 E-value=0.11 Score=45.28 Aligned_cols=31 Identities=19% Similarity=0.241 Sum_probs=20.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-CCcEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVI 87 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rvi 87 (138)
+..++++|||||||... ++++..+.+ +.+++
T Consensus 219 GliLvtGpTGSGKTTtL-~a~l~~~~~~~~~i~ 250 (462)
T PRK10436 219 GLILVTGPTGSGKTVTL-YSALQTLNTAQINIC 250 (462)
T ss_pred CeEEEECCCCCChHHHH-HHHHHhhCCCCCEEE
Confidence 34559999999999865 555555544 34443
No 272
>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=92.84 E-value=0.13 Score=41.53 Aligned_cols=33 Identities=18% Similarity=0.177 Sum_probs=21.3
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc-CCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv 89 (138)
+..++++|||||||.... +++..+.. +.+++.+
T Consensus 81 GlilisG~tGSGKTT~l~-all~~i~~~~~~iiti 114 (264)
T cd01129 81 GIILVTGPTGSGKTTTLY-SALSELNTPEKNIITV 114 (264)
T ss_pred CEEEEECCCCCcHHHHHH-HHHhhhCCCCCeEEEE
Confidence 345699999999998764 34444443 4555554
No 273
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=92.78 E-value=0.14 Score=47.45 Aligned_cols=39 Identities=10% Similarity=-0.009 Sum_probs=30.0
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK 93 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k 93 (138)
+.|.+|.|+||||||+..-..+.+.+..|.+++++=|-.
T Consensus 449 N~N~~I~G~sGsGKS~l~k~l~~~~~~~g~~viiiD~~~ 487 (844)
T PRK13721 449 NYNMAVCGTSGAGKTGLIQPLIRSVLDSGGFAVVFDMGD 487 (844)
T ss_pred cccEEEEcCCCCCHHHHHHHHHHhhhccCCEEEEEeCCC
Confidence 468899999999999988766666556677777766653
No 274
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=92.76 E-value=1 Score=38.01 Aligned_cols=56 Identities=13% Similarity=0.152 Sum_probs=42.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec--hHHHHHHHHHHHHHhcCceEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS--LKALSNQKYRELHKEFKDVGLMTG 115 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P--~kaLv~Q~~~~l~~~f~~v~~~tG 115 (138)
++++-.|+|||...--...+...+|+++++.+- +||=+-++.+.|-++.+ |.++.+
T Consensus 143 l~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~g-v~vI~~ 200 (340)
T COG0552 143 LFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLG-VPVISG 200 (340)
T ss_pred EEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhC-CeEEcc
Confidence 399999999999876544555567888877763 59999999999999764 444443
No 275
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=92.74 E-value=0.21 Score=46.38 Aligned_cols=42 Identities=26% Similarity=0.207 Sum_probs=34.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~ 100 (138)
.+.+|.|+|||..++..+..+...|.+++|+-.--++..+.+
T Consensus 64 eI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A 105 (790)
T PRK09519 64 EIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYA 105 (790)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHH
Confidence 399999999999999878777778899999988777764433
No 276
>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=92.69 E-value=0.18 Score=42.90 Aligned_cols=34 Identities=26% Similarity=0.171 Sum_probs=26.0
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~ 92 (138)
+|.|++|+|||..++..+.+. ...|..++|++.-
T Consensus 199 vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlE 233 (434)
T TIGR00665 199 ILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLE 233 (434)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCc
Confidence 499999999999998555554 4468888888654
No 277
>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=92.64 E-value=0.37 Score=41.85 Aligned_cols=49 Identities=12% Similarity=0.078 Sum_probs=33.7
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCCcEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
.+++|+|+|||..+. +|.. ...+|.+++++. ++++-+-++.+.+.+..+
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~-l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~ 155 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYY-YQRKGFKPCLVCADTFRAGAFDQLKQNATKAR 155 (429)
T ss_pred EEECCCCCCHHHHHHHHHHH-HHHCCCCEEEEcCcccchhHHHHHHHHhhccC
Confidence 499999999998876 5543 335577876665 357666666666666543
No 278
>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=92.56 E-value=0.16 Score=42.36 Aligned_cols=38 Identities=13% Similarity=0.095 Sum_probs=24.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv~P~ka 94 (138)
+..++++|||||||.... ++...+.. +.+++.+--..+
T Consensus 123 g~ili~G~tGSGKTT~l~-al~~~i~~~~~~~i~tiEdp~E 162 (343)
T TIGR01420 123 GLILVTGPTGSGKSTTLA-SMIDYINKNAAGHIITIEDPIE 162 (343)
T ss_pred cEEEEECCCCCCHHHHHH-HHHHhhCcCCCCEEEEEcCChh
Confidence 456699999999998764 44444442 456666544333
No 279
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=92.48 E-value=0.2 Score=37.87 Aligned_cols=43 Identities=19% Similarity=0.271 Sum_probs=31.5
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.++.+|+|||||..|+..+. ..+.+++|++..+..-++..+++
T Consensus 4 ili~G~~~sGKS~~a~~l~~---~~~~~~~~iat~~~~~~e~~~ri 46 (170)
T PRK05800 4 ILVTGGARSGKSRFAERLAA---QSGLQVLYIATAQPFDDEMAARI 46 (170)
T ss_pred EEEECCCCccHHHHHHHHHH---HcCCCcEeCcCCCCChHHHHHHH
Confidence 45999999999998874443 23567889888777666665555
No 280
>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=92.34 E-value=0.19 Score=42.41 Aligned_cols=24 Identities=21% Similarity=0.145 Sum_probs=17.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAF 80 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l 80 (138)
+..++++|||||||... .++...+
T Consensus 135 glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 135 GIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred CEEEEECCCCCCHHHHH-HHHHHHH
Confidence 44569999999999865 4555554
No 281
>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=92.34 E-value=0.21 Score=42.41 Aligned_cols=32 Identities=22% Similarity=0.252 Sum_probs=25.7
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~ 90 (138)
+|.|++|+|||..++..+.+. +.+|.+++|++
T Consensus 198 viag~pg~GKT~~al~ia~~~a~~~g~~v~~fS 230 (421)
T TIGR03600 198 VIGARPSMGKTTLALNIAENVALREGKPVLFFS 230 (421)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence 499999999999998555444 46788998887
No 282
>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=92.28 E-value=0.23 Score=43.23 Aligned_cols=43 Identities=14% Similarity=0.117 Sum_probs=32.3
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRE 102 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~ 102 (138)
+|.+++|+|||..++..+.....++.+++|+.--.+ .+|...+
T Consensus 98 lI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~r 140 (454)
T TIGR00416 98 LIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMR 140 (454)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHH
Confidence 499999999999998766666566789999986543 3454443
No 283
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=92.26 E-value=0.14 Score=35.19 Aligned_cols=19 Identities=21% Similarity=0.342 Sum_probs=15.5
Q ss_pred eEECcCCCchHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIA 77 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~ 77 (138)
+|+||+|||||.++-....
T Consensus 3 ~I~G~~gsGKST~a~~La~ 21 (121)
T PF13207_consen 3 IISGPPGSGKSTLAKELAE 21 (121)
T ss_dssp EEEESTTSSHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 5899999999998865443
No 284
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=92.22 E-value=0.14 Score=38.92 Aligned_cols=33 Identities=21% Similarity=0.114 Sum_probs=19.8
Q ss_pred eEECcCCCchHHHHHHH-HHHHHHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYA-IAMAFRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a-i~~~l~~~~rviyv~P 91 (138)
+++|..|||||+.+... +..++++|++++.=+|
T Consensus 4 ~~~G~pGsGKS~~av~~~i~~~l~~gr~V~tni~ 37 (193)
T PF05707_consen 4 LITGKPGSGKSYYAVSYVIIPALKKGRPVYTNIP 37 (193)
T ss_dssp EEE--TTSSHHHHHHHHHHH-GGGS---EEE--T
T ss_pred EEEcCCCCcHhHHHHHHHHHHHHhCCCEEEEccC
Confidence 48999999999998755 7777777777666444
No 285
>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=92.21 E-value=0.23 Score=48.01 Aligned_cols=61 Identities=13% Similarity=0.127 Sum_probs=46.3
Q ss_pred CccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcC---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 48 YTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDK---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 48 y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
++++.....+.+|+|.-|||||.+..--+.+.+..| .++++|.=|++-+.++-.++++.+.
T Consensus 7 ~~ai~~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~ 70 (1232)
T TIGR02785 7 WQAIYTRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQ 70 (1232)
T ss_pred HHHHhCCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHH
Confidence 344444456788999999999999876555555544 4699999999999998888887553
No 286
>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=92.21 E-value=0.18 Score=43.12 Aligned_cols=56 Identities=20% Similarity=0.083 Sum_probs=40.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcCceEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFKDVGLM 113 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~~v~~~ 113 (138)
.+.++.||||||||....... .+..+..+|++=|--.|....+..+++...+|-++
T Consensus 45 ~h~lvig~tgSGKt~~~viP~--ll~~~~s~iV~D~KgEl~~~t~~~r~~~G~~V~vl 100 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPN--LLNYPGSMIVTDPKGELYEKTAGYRKKRGYKVYVL 100 (469)
T ss_pred eEEEEEeCCCCCccceeeHhH--HHhccCCEEEEECCCcHHHHHHHHHHHCCCEEEEe
Confidence 367899999999998765432 24455688999999999887777666643355554
No 287
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=92.15 E-value=0.11 Score=43.13 Aligned_cols=15 Identities=20% Similarity=0.246 Sum_probs=13.4
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
+|++|||||||-.|+
T Consensus 8 ~I~GpTasGKS~LAl 22 (300)
T PRK14729 8 FIFGPTAVGKSNILF 22 (300)
T ss_pred EEECCCccCHHHHHH
Confidence 499999999998876
No 288
>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=91.99 E-value=0.14 Score=44.95 Aligned_cols=31 Identities=23% Similarity=0.330 Sum_probs=20.4
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc-CCcEEEE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD-KQRVIYT 89 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~-~~rviyv 89 (138)
.++++|||||||... ++++..+.. +.+++.+
T Consensus 245 ilitGptGSGKTTtL-~a~L~~l~~~~~~iiTi 276 (486)
T TIGR02533 245 ILVTGPTGSGKTTTL-YAALSRLNTPERNILTV 276 (486)
T ss_pred EEEEcCCCCCHHHHH-HHHHhccCCCCCcEEEE
Confidence 459999999999876 444454543 4455444
No 289
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=91.91 E-value=0.22 Score=39.91 Aligned_cols=49 Identities=14% Similarity=0.209 Sum_probs=34.1
Q ss_pred EECcCCCchHHHHHHHHHHHH-H-----cCCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 60 LTNPVYNGKTAVAEYAIAMAF-R-----DKQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l-~-----~~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+++|.|+|||-+++.....+. . .+.+++|+--.-...-+...++.+.|+
T Consensus 43 i~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~~~ 97 (256)
T PF08423_consen 43 IVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAERFG 97 (256)
T ss_dssp EEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHHTT
T ss_pred EEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhhccc
Confidence 999999999999985444432 2 157899997666666666666666553
No 290
>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=91.88 E-value=0.42 Score=30.51 Aligned_cols=32 Identities=25% Similarity=0.211 Sum_probs=22.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
++++..|+|||.++...+....+.|.+++++-
T Consensus 3 ~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 3 VVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 36777799999998755444434577877765
No 291
>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=91.83 E-value=0.26 Score=41.91 Aligned_cols=33 Identities=15% Similarity=0.248 Sum_probs=21.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc---CCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv 89 (138)
+..++++|||||||... .++...+.. +.+++.+
T Consensus 150 GlilI~G~TGSGKTT~l-~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 150 GLGLICGETGSGKSTLA-ASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CEEEEECCCCCCHHHHH-HHHHHHHHhcCCCceEEEE
Confidence 45669999999999875 455555432 3455444
No 292
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=91.83 E-value=0.45 Score=41.10 Aligned_cols=56 Identities=18% Similarity=0.203 Sum_probs=37.2
Q ss_pred CceEECcCCCchHHHHH-HHHHHHHHc-CCcE-EEEe-chHHHHHHHHHHHHHhcC-ceEE
Q 042424 57 HGTLTNPVYNGKTAVAE-YAIAMAFRD-KQRV-IYTS-SLKALSNQKYRELHKEFK-DVGL 112 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~-~ai~~~l~~-~~rv-iyv~-P~kaLv~Q~~~~l~~~f~-~v~~ 112 (138)
-.++.||||.|||..-. +|....+.. ++++ |+.. .+|.=+.++.+.+.+.++ .+.+
T Consensus 205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v 265 (407)
T COG1419 205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV 265 (407)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE
Confidence 34599999999998765 666555333 3443 3333 457778888888888776 4433
No 293
>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=91.76 E-value=0.28 Score=41.61 Aligned_cols=35 Identities=17% Similarity=0.135 Sum_probs=27.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLK 93 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~k 93 (138)
++.+++|+|||..++..+......+.+++|+.-..
T Consensus 86 LI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE 120 (372)
T cd01121 86 LIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE 120 (372)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc
Confidence 49999999999999866655556678999987643
No 294
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=91.75 E-value=0.27 Score=40.40 Aligned_cols=47 Identities=21% Similarity=0.306 Sum_probs=40.4
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHh
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
+.+|-|||||.+++.++..+...|.+++|+--.-+|--+..+.+...
T Consensus 65 iyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~l~~~ 111 (279)
T COG0468 65 IYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVD 111 (279)
T ss_pred EecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence 99999999999999999999888999999988777776666666654
No 295
>PRK08506 replicative DNA helicase; Provisional
Probab=91.74 E-value=0.28 Score=42.80 Aligned_cols=44 Identities=16% Similarity=0.096 Sum_probs=32.2
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
+|.|.+|.|||..++..+.++..+|.+++|++.- -=.+|...++
T Consensus 196 vIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlE-Ms~~ql~~Rl 239 (472)
T PRK08506 196 IIAARPSMGKTTLCLNMALKALNQDKGVAFFSLE-MPAEQLMLRM 239 (472)
T ss_pred EEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCc-CCHHHHHHHH
Confidence 4999999999999987777777778888888654 2334444444
No 296
>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=91.69 E-value=0.17 Score=41.43 Aligned_cols=34 Identities=15% Similarity=0.218 Sum_probs=21.8
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
..+.++++|||||||.... ++...+....+++.+
T Consensus 144 ~~~ili~G~tGsGKTTll~-al~~~~~~~~~iv~i 177 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLK-SLVDEIPKDERIITI 177 (308)
T ss_pred CCEEEEECCCCCCHHHHHH-HHHccCCccccEEEE
Confidence 3577799999999998753 333333334455544
No 297
>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=91.67 E-value=0.25 Score=37.34 Aligned_cols=40 Identities=23% Similarity=0.200 Sum_probs=24.9
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSN 97 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~ 97 (138)
+.++.+|||+|||.++... .+.+. .+.+-++.+-...+..
T Consensus 5 ~~ll~GpsGvGKT~la~~l-a~~l~~~~~~~~~~~d~s~~~~ 45 (171)
T PF07724_consen 5 NFLLAGPSGVGKTELAKAL-AELLFVGSERPLIRIDMSEYSE 45 (171)
T ss_dssp EEEEESSTTSSHHHHHHHH-HHHHT-SSCCEEEEEEGGGHCS
T ss_pred EEEEECCCCCCHHHHHHHH-HHHhccCCccchHHHhhhcccc
Confidence 4569999999999877532 23344 4455555555444443
No 298
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=91.62 E-value=0.37 Score=36.34 Aligned_cols=17 Identities=29% Similarity=0.384 Sum_probs=14.3
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
.++|++|||||..+...
T Consensus 3 ~i~G~sgsGKttla~~l 19 (179)
T cd02028 3 GIAGPSGSGKTTFAKKL 19 (179)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 48999999999998633
No 299
>PRK05595 replicative DNA helicase; Provisional
Probab=91.61 E-value=0.29 Score=42.12 Aligned_cols=34 Identities=24% Similarity=0.133 Sum_probs=26.7
Q ss_pred eEECcCCCchHHHHHHHHHH-HHHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAM-AFRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~-~l~~~~rviyv~P~ 92 (138)
+|.|.+|.|||..++..+.+ ++++|.+++|++.-
T Consensus 205 viaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlE 239 (444)
T PRK05595 205 LIAARPSMGKTTFALNIAEYAALREGKSVAIFSLE 239 (444)
T ss_pred EEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecC
Confidence 48999999999999854443 55678899888664
No 300
>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=91.47 E-value=0.19 Score=34.32 Aligned_cols=20 Identities=20% Similarity=0.157 Sum_probs=15.7
Q ss_pred eEECcCCCchHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAM 78 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~ 78 (138)
.|+|++|||||.++.....+
T Consensus 2 ~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 48999999999999644433
No 301
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=91.43 E-value=0.39 Score=46.20 Aligned_cols=57 Identities=19% Similarity=0.181 Sum_probs=47.6
Q ss_pred HHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC-----------CCCCEEEecH
Q 042424 74 YAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS-----------PNASCLVMTT 130 (138)
Q Consensus 74 ~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~-----------~~~~IiVtTp 130 (138)
-||++-+.+|+++.||.|..+-++++.+++++... +|++.+|....+ .+.+|+|||.
T Consensus 794 eAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TT 863 (1139)
T COG1197 794 EAILRELLRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTT 863 (1139)
T ss_pred HHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEee
Confidence 46666667799999999999999999999999765 789989877542 3899999995
No 302
>PRK13768 GTPase; Provisional
Probab=91.38 E-value=0.34 Score=38.63 Aligned_cols=31 Identities=13% Similarity=0.013 Sum_probs=22.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
++.+|.|+|||..+..........|.+++++
T Consensus 6 ~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i 36 (253)
T PRK13768 6 FFLGTAGSGKTTLTKALSDWLEEQGYDVAIV 36 (253)
T ss_pred EEECCCCccHHHHHHHHHHHHHhcCCceEEE
Confidence 4899999999998864333333457777665
No 303
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=91.37 E-value=0.34 Score=39.89 Aligned_cols=41 Identities=22% Similarity=0.195 Sum_probs=29.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALS 96 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv 96 (138)
.+.+|.|+.|+|||..-..++..|+.+|--++||---..++
T Consensus 24 ~r~vL~G~~GsGKS~~L~q~~~~A~~~~wiVl~vp~a~~~~ 64 (309)
T PF10236_consen 24 NRYVLTGERGSGKSVLLAQAVHYARENGWIVLYVPSAQDWV 64 (309)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCEEEEEcCCHHHHh
Confidence 45569999999999998899988877644444443334443
No 304
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=91.37 E-value=0.41 Score=40.34 Aligned_cols=41 Identities=24% Similarity=0.267 Sum_probs=27.9
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHc--CCcEEE-------E-echHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIY-------T-SSLKALSNQK 99 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~--~~rviy-------v-~P~kaLv~Q~ 99 (138)
.++++|||||||.. +.+|...+++ ...+|- + -..++|++|.
T Consensus 128 ILVTGpTGSGKSTT-lAamId~iN~~~~~HIlTIEDPIE~vh~skkslI~QR 178 (353)
T COG2805 128 ILVTGPTGSGKSTT-LAAMIDYINKHKAKHILTIEDPIEYVHESKKSLINQR 178 (353)
T ss_pred EEEeCCCCCcHHHH-HHHHHHHHhccCCcceEEecCchHhhhcchHhhhhHH
Confidence 34999999999865 4567777765 334432 2 3458888886
No 305
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=91.36 E-value=0.32 Score=39.85 Aligned_cols=34 Identities=12% Similarity=0.132 Sum_probs=25.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHc------CCcEEEEechH
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD------KQRVIYTSSLK 93 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~------~~rviyv~P~k 93 (138)
|++|+|+|||..+...+..+... +.+++|+.---
T Consensus 107 i~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~ 146 (317)
T PRK04301 107 FYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG 146 (317)
T ss_pred EECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence 99999999999998666655432 35788887543
No 306
>PHA02542 41 41 helicase; Provisional
Probab=91.24 E-value=0.33 Score=42.49 Aligned_cols=32 Identities=25% Similarity=0.148 Sum_probs=26.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
++.|++|.|||.+++..+.++...|.+++|++
T Consensus 194 iIaarPgmGKTtfalniA~~~a~~g~~Vl~fS 225 (473)
T PHA02542 194 VLLAGVNVGKSLGLCSLAADYLQQGYNVLYIS 225 (473)
T ss_pred EEEcCCCccHHHHHHHHHHHHHhcCCcEEEEe
Confidence 48999999999999865555556788888876
No 307
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=91.10 E-value=0.24 Score=41.19 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=24.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHH---HcCCcEEEEechHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAF---RDKQRVIYTSSLKAL 95 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l---~~~~rviyv~P~kaL 95 (138)
..+.++++|||||||.... ++...+ ....|++.+=.+.+|
T Consensus 148 ~~~ilI~G~tGSGKTTll~-aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 148 HRNILVIGGTGSGKTTLVN-AIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHhhhhcCCCceEEEEcCCCcc
Confidence 3677899999999996653 343332 224555554444433
No 308
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=91.05 E-value=0.35 Score=40.09 Aligned_cols=48 Identities=17% Similarity=0.282 Sum_probs=31.2
Q ss_pred EECcCCCchHHHHHHHHHHH-HH-----cCCcEEEEechHHHHHHHHHHHHHhc
Q 042424 60 LTNPVYNGKTAVAEYAIAMA-FR-----DKQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~-l~-----~~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
+++|.|+|||.+++..+..+ +. .+.+++|+.---++--+...++.+.|
T Consensus 101 I~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~ 154 (313)
T TIGR02238 101 VFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERF 154 (313)
T ss_pred EECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHc
Confidence 99999999999997544333 22 25789999865554434444444434
No 309
>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=90.99 E-value=0.7 Score=36.05 Aligned_cols=33 Identities=36% Similarity=0.329 Sum_probs=23.2
Q ss_pred eEECcCCCchHHHHHHHHHHHHH---cCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFR---DKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~---~~~rviyv~P~ 92 (138)
.|.+|+|+|||.. +.|+...+. .+.+++|+...
T Consensus 38 ~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~~~ 73 (219)
T PF00308_consen 38 FLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLSAE 73 (219)
T ss_dssp EEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEEHH
T ss_pred EEECCCCCCHHHH-HHHHHHHHHhccccccceeecHH
Confidence 5999999999995 455555543 26788888653
No 310
>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=90.98 E-value=0.44 Score=36.08 Aligned_cols=26 Identities=12% Similarity=0.075 Sum_probs=18.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR 81 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~ 81 (138)
.+.++.+.||||||.+....+...+.
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 57889999999999987655555554
No 311
>PF05729 NACHT: NACHT domain
Probab=90.90 E-value=0.48 Score=33.59 Aligned_cols=40 Identities=13% Similarity=0.111 Sum_probs=25.3
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcC-----CcEEEEechHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDK-----QRVIYTSSLKALSNQ 98 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~-----~rviyv~P~kaLv~Q 98 (138)
+|.|+.|+|||.++...+......+ ..+++....+.+..+
T Consensus 4 ~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (166)
T PF05729_consen 4 WISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDS 48 (166)
T ss_pred EEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhc
Confidence 5999999999998865554443332 135555555555443
No 312
>PRK05748 replicative DNA helicase; Provisional
Probab=90.83 E-value=0.35 Score=41.54 Aligned_cols=46 Identities=15% Similarity=-0.051 Sum_probs=31.0
Q ss_pred ceEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
.+|.|++|.|||..++..+.+. .+.|..++|++.- --.+|..+++.
T Consensus 206 ivIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlE-ms~~~l~~R~l 252 (448)
T PRK05748 206 IIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLE-MGAESLVMRML 252 (448)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCC-CCHHHHHHHHH
Confidence 3499999999999998655554 3558888877543 23344444443
No 313
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=90.75 E-value=1.2 Score=41.78 Aligned_cols=79 Identities=15% Similarity=0.110 Sum_probs=56.6
Q ss_pred CCceEECcCCCchHHHHH--HHHHHHHHc-CCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC----------
Q 042424 56 THGTLTNPVYNGKTAVAE--YAIAMAFRD-KQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS---------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~--~ai~~~l~~-~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~---------- 120 (138)
-|.++.=--|-|||+-.. ++.+...+. .+.-++++|.-.|. .+.++|++... ++.++.||....
T Consensus 187 ingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~-NW~~Ef~rf~P~l~~~~~~Gdk~eR~~~~r~~~~~ 265 (971)
T KOG0385|consen 187 INGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLD-NWMNEFKRFTPSLNVVVYHGDKEERAALRRDIMLP 265 (971)
T ss_pred cccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHH-HHHHHHHHhCCCcceEEEeCCHHHHHHHHHHhhcc
Confidence 367788889999998664 343333222 47789999997664 57788888443 678888986432
Q ss_pred CCCCEEEecHHHHHH
Q 042424 121 PNASCLVMTTEILRG 135 (138)
Q Consensus 121 ~~~~IiVtTpe~l~~ 135 (138)
...+|+|||+|+...
T Consensus 266 ~~fdV~iTsYEi~i~ 280 (971)
T KOG0385|consen 266 GRFDVCITSYEIAIK 280 (971)
T ss_pred CCCceEeehHHHHHh
Confidence 178999999998753
No 314
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=90.69 E-value=0.59 Score=33.08 Aligned_cols=32 Identities=19% Similarity=0.081 Sum_probs=22.4
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.++++..|+|||.++........+++.+++++
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~i 33 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAI 33 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 35899999999999875544443456776544
No 315
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.69 E-value=0.7 Score=41.46 Aligned_cols=50 Identities=16% Similarity=0.171 Sum_probs=29.3
Q ss_pred CCceEECcCCCchHHHHH-HHHHHHHHc-CCcEEEEe--chHHHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAE-YAIAMAFRD-KQRVIYTS--SLKALSNQKYRELHK 105 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~-~ai~~~l~~-~~rviyv~--P~kaLv~Q~~~~l~~ 105 (138)
+..++++|||+|||..+. ++....... ++++.++. +++.-+.++.+.+.+
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~ 404 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGR 404 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhc
Confidence 344599999999998885 444333333 45565543 345545454444444
No 316
>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=90.68 E-value=0.4 Score=38.57 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=22.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC-CcEEEEec
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK-QRVIYTSS 91 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~-~rviyv~P 91 (138)
-+.++.|++|||||......+.. +.+. ..+++++|
T Consensus 14 fr~viIG~sGSGKT~li~~lL~~-~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKSLLYY-LRHKFDHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh-hcccCCEEEEEec
Confidence 36679999999999877655543 3333 34444445
No 317
>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=90.60 E-value=0.86 Score=38.19 Aligned_cols=50 Identities=8% Similarity=0.140 Sum_probs=37.7
Q ss_pred ceEECcCCCchHHHHH-HHHHHHHH--cCCcEEEEechHH-HHHHHHHHHHHhc
Q 042424 58 GTLTNPVYNGKTAVAE-YAIAMAFR--DKQRVIYTSSLKA-LSNQKYRELHKEF 107 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~-~ai~~~l~--~~~rviyv~P~ka-Lv~Q~~~~l~~~f 107 (138)
.++.+..|||||.++. ..+..++. .+.+++++-++.. |-+-.+.++.+.+
T Consensus 4 ~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i 57 (396)
T TIGR01547 4 IIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLL 57 (396)
T ss_pred EEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHH
Confidence 3588999999999986 45555566 5788999999855 6666777777543
No 318
>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=90.46 E-value=0.52 Score=34.59 Aligned_cols=30 Identities=20% Similarity=0.159 Sum_probs=19.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIY 88 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviy 88 (138)
.++++.|+|||..+..........|.++++
T Consensus 3 ~~~G~~GsGKTt~~~~l~~~~~~~g~~v~i 32 (148)
T cd03114 3 GITGVPGAGKSTLIDALITALRARGKRVAV 32 (148)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHCCCEEEE
Confidence 478999999999876444333334554433
No 319
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=90.40 E-value=0.43 Score=37.56 Aligned_cols=57 Identities=21% Similarity=0.299 Sum_probs=34.5
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCc
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVT 118 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~ 118 (138)
+.+|.|||||.+.+..+.. +++..++.++.- --+.++-++.+++..+ -+++.||+..
T Consensus 18 v~Gp~GSGKTaLie~~~~~-L~~~~~~aVI~~-Di~t~~Da~~l~~~~g~~i~~v~TG~~C 76 (202)
T COG0378 18 VGGPPGSGKTALIEKTLRA-LKDEYKIAVITG-DIYTKEDADRLRKLPGEPIIGVETGKGC 76 (202)
T ss_pred ecCCCCcCHHHHHHHHHHH-HHhhCCeEEEec-eeechhhHHHHHhCCCCeeEEeccCCcc
Confidence 8999999999887766654 344444444332 2233344555555344 4678888544
No 320
>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=90.33 E-value=0.26 Score=41.23 Aligned_cols=53 Identities=9% Similarity=-0.066 Sum_probs=38.0
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM 113 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~ 113 (138)
.++.||||||||...... ..+..+..+|++=|--++.+.....+++ .+ .|-++
T Consensus 2 ~lv~g~tGsGKt~~~viP--~ll~~~~s~vv~D~Kge~~~~t~~~r~~-~G~~V~v~ 55 (384)
T cd01126 2 VLVFAPTRSGKGVGFVIP--NLLTWPGSVVVLDPKGENFELTSEHRRA-LGRKVFVF 55 (384)
T ss_pred eeEecCCCCCCccEEEcc--chhcCCCCEEEEccchhHHHHHHHHHHH-cCCeEEEE
Confidence 469999999999865422 2234468899999999998877766655 44 55555
No 321
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=90.33 E-value=1.7 Score=40.69 Aligned_cols=80 Identities=16% Similarity=0.154 Sum_probs=55.5
Q ss_pred CCCceEECcCCCchHHHH--HHHHHHHH-HcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCc-----------
Q 042424 55 TTHGTLTNPVYNGKTAVA--EYAIAMAF-RDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVT----------- 118 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva--~~ai~~~l-~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~----------- 118 (138)
....+|.=.-|-|||.-. +++.++.- +--+.+|+|+|. +|+.|+.++|+..|. .|.+++|...
T Consensus 224 ~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~-Tii~qW~~E~~~w~p~~rv~ilh~t~s~~r~~~~~~~~ 302 (923)
T KOG0387|consen 224 RAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPA-TIIHQWMKEFQTWWPPFRVFILHGTGSGARYDASHSSH 302 (923)
T ss_pred cCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccH-HHHHHHHHHHHHhCcceEEEEEecCCcccccccchhhh
Confidence 345678788999999643 33333221 113789999998 688999999999776 6777765322
Q ss_pred ---------CCCCCCEEEecHHHHHH
Q 042424 119 ---------LSPNASCLVMTTEILRG 135 (138)
Q Consensus 119 ---------~~~~~~IiVtTpe~l~~ 135 (138)
...+..|+|||++.|.-
T Consensus 303 ~~~~~L~r~~~~~~~ilitty~~~r~ 328 (923)
T KOG0387|consen 303 KKDKLLIRKVATDGGILITTYDGFRI 328 (923)
T ss_pred hhhhhheeeecccCcEEEEehhhhcc
Confidence 01277899999998754
No 322
>PHA00729 NTP-binding motif containing protein
Probab=90.31 E-value=0.9 Score=36.25 Aligned_cols=48 Identities=15% Similarity=0.056 Sum_probs=31.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHH-------------HcCCcEEEEechHHHHHHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAF-------------RDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l-------------~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
+.+++|++|+|||.+|........ ..+ +-.+++...+|.++....+.+
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~-~~~~fid~~~Ll~~L~~a~~~ 79 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYV-QNSYFFELPDALEKIQDAIDN 79 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcC-CcEEEEEHHHHHHHHHHHHhc
Confidence 667999999999998864333321 223 345556777777777655443
No 323
>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=90.24 E-value=0.71 Score=43.68 Aligned_cols=56 Identities=20% Similarity=0.200 Sum_probs=45.6
Q ss_pred HHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC-----------CCCCEEEecH
Q 042424 75 AIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS-----------PNASCLVMTT 130 (138)
Q Consensus 75 ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~-----------~~~~IiVtTp 130 (138)
++...+.+++++++++|++.=++..++.|++.+. .|+.++|+.... .+.+|+|||.
T Consensus 652 ~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~ 720 (926)
T TIGR00580 652 AIRRELLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTT 720 (926)
T ss_pred HHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECC
Confidence 4555566789999999999999999999998664 789999987542 2789999996
No 324
>PRK13830 conjugal transfer protein TrbE; Provisional
Probab=90.21 E-value=0.3 Score=45.34 Aligned_cols=37 Identities=16% Similarity=0.179 Sum_probs=26.3
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEec
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSS 91 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P 91 (138)
.++.+|++|||+|||....+.+.+.++ .+.+++++=+
T Consensus 456 ~g~~~i~G~tGsGKS~l~~~l~~~~~~~~~~~v~~~D~ 493 (818)
T PRK13830 456 VGHTLIFGPTGSGKSTLLALIAAQFRRYAGAQIFAFDK 493 (818)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhcccccCCCEEEEECC
Confidence 367889999999999988755555444 3556655544
No 325
>PRK05541 adenylylsulfate kinase; Provisional
Probab=90.17 E-value=0.59 Score=34.52 Aligned_cols=31 Identities=26% Similarity=0.183 Sum_probs=20.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
+++++.|||||.++.......-..+..++++
T Consensus 11 ~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 11 WITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4999999999999854433322234444444
No 326
>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=90.15 E-value=0.48 Score=35.70 Aligned_cols=16 Identities=38% Similarity=0.347 Sum_probs=13.8
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
.|+||+|||||.++..
T Consensus 3 gi~G~~GsGKSTl~~~ 18 (198)
T cd02023 3 GIAGGSGSGKTTVAEE 18 (198)
T ss_pred EEECCCCCCHHHHHHH
Confidence 4899999999998853
No 327
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=90.00 E-value=0.32 Score=35.71 Aligned_cols=22 Identities=27% Similarity=0.381 Sum_probs=16.5
Q ss_pred ceEECcCCCchHHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAF 80 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l 80 (138)
.+++||+|+|||.+. -||..++
T Consensus 22 ~vi~G~Ng~GKStil-~ai~~~L 43 (202)
T PF13476_consen 22 NVIYGPNGSGKSTIL-EAIRYAL 43 (202)
T ss_dssp EEEEESTTSSHHHHH-HHHHHHH
T ss_pred EEEECCCCCCHHHHH-HHHHHHH
Confidence 459999999999887 3444444
No 328
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=89.97 E-value=0.79 Score=44.16 Aligned_cols=54 Identities=13% Similarity=0.119 Sum_probs=44.9
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcC-----CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDK-----QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~-----~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
..+.+|.|-.|||||.+-..-+++.+..+ .++++|.-|++=+.++..++.+.+.
T Consensus 16 ~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~L~ 74 (1139)
T COG1074 16 GQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDRLK 74 (1139)
T ss_pred CCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHHHH
Confidence 45778999999999999876666666552 4799999999999999999988765
No 329
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=89.92 E-value=0.54 Score=43.90 Aligned_cols=77 Identities=18% Similarity=0.123 Sum_probs=53.6
Q ss_pred CCceEECcCCCchHHHH--HHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC-----------
Q 042424 56 THGTLTNPVYNGKTAVA--EYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS----------- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva--~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~----------- 120 (138)
-+++|.=--|-|||.-+ ++|.+..+...+.=++|||.-.| +.+.++|++.+. .|-.+.|.+...
T Consensus 419 l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTl-eNWlrEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~ 497 (941)
T KOG0389|consen 419 LNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTL-ENWLREFAKWCPSLKVEPYYGSQDERRELRERIKKNK 497 (941)
T ss_pred ccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhH-HHHHHHHHHhCCceEEEeccCcHHHHHHHHHHHhccC
Confidence 35677777999999644 45554433334667899999555 668899999666 566677765321
Q ss_pred CCCCEEEecHHHH
Q 042424 121 PNASCLVMTTEIL 133 (138)
Q Consensus 121 ~~~~IiVtTpe~l 133 (138)
.+.+|+|||+..+
T Consensus 498 ~~ydVllTTY~la 510 (941)
T KOG0389|consen 498 DDYDVLLTTYNLA 510 (941)
T ss_pred CCccEEEEEeecc
Confidence 2789999998654
No 330
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=89.84 E-value=0.78 Score=41.98 Aligned_cols=57 Identities=23% Similarity=0.295 Sum_probs=44.2
Q ss_pred HHHHHHHcCCcEEEEechHH--------HHHHHHHHHHHhcC--ceEEEecCCcCCC-----------CCCEEEecHH
Q 042424 75 AIAMAFRDKQRVIYTSSLKA--------LSNQKYRELHKEFK--DVGLMTGDVTLSP-----------NASCLVMTTE 131 (138)
Q Consensus 75 ai~~~l~~~~rviyv~P~ka--------Lv~Q~~~~l~~~f~--~v~~~tGd~~~~~-----------~~~IiVtTpe 131 (138)
.|...+.+|.++.+|+|..+ -+.+.+.+++..|. .||+++|-.+.+. ..+|+|+|..
T Consensus 465 ~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTV 542 (677)
T COG1200 465 RIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTV 542 (677)
T ss_pred HHHHHHHcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeE
Confidence 55566678999999999964 56678888887676 6999999776432 6789999964
No 331
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=89.82 E-value=1.2 Score=36.99 Aligned_cols=34 Identities=18% Similarity=0.105 Sum_probs=24.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc--CCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD--KQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~--~~rviyv 89 (138)
.+.+|+||+|+|||.+....+.+.-.. +..++|+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYI 91 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 456799999999999887766654333 3556666
No 332
>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=89.80 E-value=0.8 Score=37.16 Aligned_cols=18 Identities=39% Similarity=0.313 Sum_probs=15.5
Q ss_pred CceEECcCCCchHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ 74 (138)
+.++.+|+|+|||.+|..
T Consensus 60 ~vll~G~pGTGKT~lA~~ 77 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALR 77 (284)
T ss_pred eEEEEcCCCCCHHHHHHH
Confidence 567999999999999853
No 333
>PTZ00301 uridine kinase; Provisional
Probab=89.71 E-value=0.62 Score=36.39 Aligned_cols=16 Identities=13% Similarity=0.291 Sum_probs=13.9
Q ss_pred EECcCCCchHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYA 75 (138)
Q Consensus 60 l~aPTGsGKTlva~~a 75 (138)
|+||+|||||.+|...
T Consensus 8 IaG~SgSGKTTla~~l 23 (210)
T PTZ00301 8 ISGASGSGKSSLSTNI 23 (210)
T ss_pred EECCCcCCHHHHHHHH
Confidence 9999999999998533
No 334
>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=89.52 E-value=0.35 Score=33.97 Aligned_cols=16 Identities=31% Similarity=0.449 Sum_probs=13.8
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
+++||.|||||.++..
T Consensus 3 i~~G~pgsGKSt~a~~ 18 (143)
T PF13671_consen 3 ILCGPPGSGKSTLAKR 18 (143)
T ss_dssp EEEESTTSSHHHHHHH
T ss_pred EEECCCCCCHHHHHHH
Confidence 5899999999998753
No 335
>PF13173 AAA_14: AAA domain
Probab=89.52 E-value=0.5 Score=33.31 Aligned_cols=32 Identities=22% Similarity=0.255 Sum_probs=23.6
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
.+|.||-|+|||.+....+.... ...+++|+.
T Consensus 5 ~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~ 36 (128)
T PF13173_consen 5 IILTGPRGVGKTTLLKQLAKDLL-PPENILYIN 36 (128)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc-ccccceeec
Confidence 45999999999998876665543 456777763
No 336
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=89.49 E-value=0.63 Score=36.39 Aligned_cols=14 Identities=29% Similarity=0.427 Sum_probs=12.9
Q ss_pred EECcCCCchHHHHH
Q 042424 60 LTNPVYNGKTAVAE 73 (138)
Q Consensus 60 l~aPTGsGKTlva~ 73 (138)
|+||+|||||..+.
T Consensus 4 I~G~sGSGKTTla~ 17 (220)
T cd02025 4 IAGSVAVGKSTTAR 17 (220)
T ss_pred eeCCCCCCHHHHHH
Confidence 88999999999985
No 337
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=89.45 E-value=0.64 Score=39.19 Aligned_cols=48 Identities=15% Similarity=0.205 Sum_probs=31.0
Q ss_pred EECcCCCchHHHHHHHHHHH-HH--c---CCcEEEEechHHHHHHHHHHHHHhc
Q 042424 60 LTNPVYNGKTAVAEYAIAMA-FR--D---KQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~-l~--~---~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
|++|.|+|||.++...+..+ +. . +.+++|+----++--+...++.+.|
T Consensus 131 I~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~ 184 (344)
T PLN03187 131 AFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERF 184 (344)
T ss_pred EecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHc
Confidence 99999999999998444333 31 1 3689999875544444444444434
No 338
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=89.43 E-value=0.61 Score=37.16 Aligned_cols=32 Identities=19% Similarity=0.082 Sum_probs=23.9
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
+++++|+|||.++...+.+...+|.++.++=+
T Consensus 6 ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~ 37 (229)
T PRK14494 6 VIGFKDSGKTTLIEKILKNLKERGYRVATAKH 37 (229)
T ss_pred EECCCCChHHHHHHHHHHHHHhCCCeEEEEEe
Confidence 88999999999987655554345778777744
No 339
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=89.41 E-value=0.21 Score=43.98 Aligned_cols=18 Identities=33% Similarity=0.422 Sum_probs=15.7
Q ss_pred CCceEECcCCCchHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~ 73 (138)
-|.++.+|||||||+++-
T Consensus 227 SNvLllGPtGsGKTllaq 244 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTLLAQ 244 (564)
T ss_pred ccEEEECCCCCchhHHHH
Confidence 577899999999999873
No 340
>PRK08760 replicative DNA helicase; Provisional
Probab=89.40 E-value=0.56 Score=41.01 Aligned_cols=45 Identities=24% Similarity=0.107 Sum_probs=30.4
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
+|.|.+|.|||..++..+..+ .+.|.+++|++.--+ .+|...++.
T Consensus 233 vIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs-~~ql~~Rl~ 278 (476)
T PRK08760 233 ILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLI 278 (476)
T ss_pred EEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCC-HHHHHHHHH
Confidence 489999999999998555544 455788888765432 244444443
No 341
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=89.35 E-value=0.27 Score=40.93 Aligned_cols=15 Identities=40% Similarity=0.585 Sum_probs=13.0
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
+|++||++|||-.|.
T Consensus 7 ~I~GPTAsGKT~lai 21 (308)
T COG0324 7 VIAGPTASGKTALAI 21 (308)
T ss_pred EEECCCCcCHHHHHH
Confidence 599999999997665
No 342
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=89.20 E-value=0.34 Score=40.10 Aligned_cols=16 Identities=38% Similarity=0.480 Sum_probs=14.0
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
+|++|||||||.+|.-
T Consensus 8 ~i~GptgsGKt~la~~ 23 (307)
T PRK00091 8 VIVGPTASGKTALAIE 23 (307)
T ss_pred EEECCCCcCHHHHHHH
Confidence 4999999999998863
No 343
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=89.18 E-value=2.2 Score=38.44 Aligned_cols=78 Identities=18% Similarity=0.170 Sum_probs=53.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC---ceEEEecCCcCCC-----CCCEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK---DVGLMTGDVTLSP-----NASCLV 127 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~---~v~~~tGd~~~~~-----~~~IiV 127 (138)
...++.---|-|||.-+...++.- -++...++++|+.|| .|+.+++...-. .|-++.|...... +.+++.
T Consensus 205 ~GGiLADEMGMGKTIQtIaLllae-~~ra~tLVvaP~VAl-mQW~nEI~~~T~gslkv~~YhG~~R~~nikel~~YDvVL 282 (791)
T KOG1002|consen 205 AGGILADEMGMGKTIQTIALLLAE-VDRAPTLVVAPTVAL-MQWKNEIERHTSGSLKVYIYHGAKRDKNIKELMNYDVVL 282 (791)
T ss_pred ccceehhhhccchHHHHHHHHHhc-cccCCeeEEccHHHH-HHHHHHHHHhccCceEEEEEecccccCCHHHhhcCcEEE
Confidence 455666678999997665333221 246789999999998 477777766333 5777788543221 889999
Q ss_pred ecHHHHHH
Q 042424 128 MTTEILRG 135 (138)
Q Consensus 128 tTpe~l~~ 135 (138)
+|+..+.+
T Consensus 283 Tty~vvEs 290 (791)
T KOG1002|consen 283 TTYAVVES 290 (791)
T ss_pred EecHHHHH
Confidence 99987765
No 344
>CHL00181 cbbX CbbX; Provisional
Probab=89.18 E-value=1 Score=36.72 Aligned_cols=23 Identities=30% Similarity=0.252 Sum_probs=17.9
Q ss_pred CceEECcCCCchHHHHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMA 79 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~ 79 (138)
+.++.+|+|+|||.+|......+
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~ 83 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADIL 83 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 45799999999999997544433
No 345
>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=89.14 E-value=0.44 Score=37.80 Aligned_cols=22 Identities=27% Similarity=0.141 Sum_probs=17.8
Q ss_pred CCceEECcCCCchHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIA 77 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~ 77 (138)
.+.++.+|+|+|||.+|.....
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHH
Confidence 4667999999999999965443
No 346
>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=89.14 E-value=0.33 Score=39.33 Aligned_cols=22 Identities=23% Similarity=0.240 Sum_probs=17.4
Q ss_pred CCCceEECcCCCchHHHHHHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai 76 (138)
..+.+++||+|+|||.+....+
T Consensus 33 ~~pvLl~G~~GtGKT~li~~~l 54 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQNFL 54 (272)
T ss_dssp TEEEEEESSTTSSHHHHHHHHH
T ss_pred CCcEEEECCCCCchhHHHHhhh
Confidence 4667899999999998765544
No 347
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=89.05 E-value=0.43 Score=34.92 Aligned_cols=47 Identities=11% Similarity=0.047 Sum_probs=31.0
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCc---EEE-----EechHHHHHHHHHHHHHh
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQR---VIY-----TSSLKALSNQKYRELHKE 106 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~r---viy-----v~P~kaLv~Q~~~~l~~~ 106 (138)
+-+|||.|||.++.+...+...+|.+ +-. =.|...-+.+.-+++++.
T Consensus 58 fHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~ 112 (127)
T PF06309_consen 58 FHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSW 112 (127)
T ss_pred eecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHH
Confidence 78999999999998777665565433 222 234556666666666653
No 348
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=88.95 E-value=0.64 Score=39.37 Aligned_cols=27 Identities=19% Similarity=0.255 Sum_probs=22.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD 82 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~ 82 (138)
.|.++.+|||+|||.++.+.+.+....
T Consensus 43 ~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 43 SNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred ccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 457799999999999998888776544
No 349
>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=88.92 E-value=0.71 Score=36.05 Aligned_cols=32 Identities=38% Similarity=0.546 Sum_probs=23.7
Q ss_pred eEECcCCCchHHHHH-HHHHHHH-----------HcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAF-----------RDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l-----------~~~~rviyv~ 90 (138)
++.+|.|+|||..++ +|+.-+. ..+.+++|+.
T Consensus 5 ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~ 48 (239)
T cd01125 5 ALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS 48 (239)
T ss_pred EEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE
Confidence 599999999999997 4443321 1357899998
No 350
>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=88.86 E-value=0.73 Score=36.78 Aligned_cols=31 Identities=23% Similarity=0.176 Sum_probs=21.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.+.++.+|+|+|||.++..... .+ |...+.+
T Consensus 22 ~~vLL~G~~GtGKT~lA~~la~-~l--g~~~~~i 52 (262)
T TIGR02640 22 YPVHLRGPAGTGKTTLAMHVAR-KR--DRPVMLI 52 (262)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH-Hh--CCCEEEE
Confidence 5667999999999999864322 22 5555554
No 351
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=88.72 E-value=0.95 Score=34.14 Aligned_cols=33 Identities=21% Similarity=0.058 Sum_probs=24.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
...-|++|||.+++..+....++|.++-|+=|.
T Consensus 6 ~~t~t~vGKT~vslgL~~~l~~~g~~v~~~KPi 38 (199)
T PF13500_consen 6 TGTDTGVGKTVVSLGLARALRRRGIKVGYFKPI 38 (199)
T ss_dssp EESSSSSSHHHHHHHHHHHHHHTTSEEEEEEEE
T ss_pred EeCCCCCCHHHHHHHHHHHHHhCCCceEEEeee
Confidence 556689999999986665555668888777665
No 352
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=88.64 E-value=1.3 Score=43.23 Aligned_cols=79 Identities=23% Similarity=0.220 Sum_probs=57.9
Q ss_pred CCceEECcCCCchHHHHH--HHHHHHHHc------CCc-EEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC----
Q 042424 56 THGTLTNPVYNGKTAVAE--YAIAMAFRD------KQR-VIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS---- 120 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~--~ai~~~l~~------~~r-viyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~---- 120 (138)
-++++|=.-|-|||+-.. .|--++.++ ... .++|+|. +|+.-+..+|.+.|. +|-.+.|.-...
T Consensus 995 LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf~pfL~v~~yvg~p~~r~~lR 1073 (1549)
T KOG0392|consen 995 LHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKFFPFLKVLQYVGPPAERRELR 1073 (1549)
T ss_pred ccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHHhcchhhhhhhcCChHHHHHHH
Confidence 478899999999999765 333333332 222 7999998 689999999999766 666666653322
Q ss_pred ---CCCCEEEecHHHHHH
Q 042424 121 ---PNASCLVMTTEILRG 135 (138)
Q Consensus 121 ---~~~~IiVtTpe~l~~ 135 (138)
.+++|||+.++.+.+
T Consensus 1074 ~q~~~~~iiVtSYDv~Rn 1091 (1549)
T KOG0392|consen 1074 DQYKNANIIVTSYDVVRN 1091 (1549)
T ss_pred hhccccceEEeeHHHHHH
Confidence 278999999999885
No 353
>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=88.52 E-value=1.3 Score=42.46 Aligned_cols=53 Identities=13% Similarity=0.149 Sum_probs=43.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC---CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK---QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~---~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.+.+|.|+-|||||.+-..-+...+..| .+++.|.-|+.=+.++..++.+.+.
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L~ 66 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRLG 66 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHHH
Confidence 5667999999999998876666666543 7899999999999999888887664
No 354
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=88.52 E-value=1 Score=33.06 Aligned_cols=32 Identities=19% Similarity=0.163 Sum_probs=21.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
+.+.--|+|||.++.........+|++++++=
T Consensus 3 v~~~kGG~GKTt~a~~la~~la~~g~~VlliD 34 (195)
T PF01656_consen 3 VTSGKGGVGKTTIAANLAQALARKGKKVLLID 34 (195)
T ss_dssp EEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEcCCCCccHHHHHHHHHhccccccccccccc
Confidence 36677899999999743333334688887763
No 355
>PRK13898 type IV secretion system ATPase VirB4; Provisional
Probab=88.50 E-value=0.44 Score=43.99 Aligned_cols=39 Identities=21% Similarity=0.336 Sum_probs=29.8
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKA 94 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ka 94 (138)
++.++.||||+|||...-+.+.+....+.+++++=|-.+
T Consensus 447 ~~~~i~G~tGsGKS~l~~~l~~~~~~~~~~i~~~D~~~~ 485 (800)
T PRK13898 447 GHTLIIGPTGAGKTVLMNFLCAQAMKFSPRMFFFDKDRG 485 (800)
T ss_pred CEEEEECCCCCcHHHHHHHHHhhcccCCCeEEEeCCCcC
Confidence 678899999999999886655555455778888877554
No 356
>COG4240 Predicted kinase [General function prediction only]
Probab=88.48 E-value=0.69 Score=37.80 Aligned_cols=31 Identities=16% Similarity=0.291 Sum_probs=22.9
Q ss_pred EECcCCCchHHHHHHHHHHHHHcC-CcEEEEe
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDK-QRVIYTS 90 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~-~rviyv~ 90 (138)
+++|-|||||..+........++| .++++++
T Consensus 55 isGpQGSGKStls~~i~~~L~~kg~ert~~lS 86 (300)
T COG4240 55 ISGPQGSGKSTLSALIVRLLAAKGLERTATLS 86 (300)
T ss_pred eecCCCCchhhHHHHHHHHHHHhcccceEEee
Confidence 999999999999876555444555 5776654
No 357
>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=88.47 E-value=1.1 Score=41.30 Aligned_cols=42 Identities=17% Similarity=0.105 Sum_probs=31.0
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKY 100 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~ 100 (138)
.+|.++.|+|||.+.-.. ..++. .|.++++++||-.-+....
T Consensus 371 ~il~G~aGTGKTtll~~i-~~~~~~~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 371 AVVVGRAGTGKSTMLKAA-REAWEAAGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred EEEEecCCCCHHHHHHHH-HHHHHhCCCeEEEEeCcHHHHHHHH
Confidence 459999999999876543 33444 5899999999966555443
No 358
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=88.42 E-value=0.88 Score=33.20 Aligned_cols=30 Identities=20% Similarity=0.019 Sum_probs=22.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
..+-||+|||.++...+....++|.++.|+
T Consensus 3 ~~t~~~~GKT~va~~L~~~l~~~g~~V~~~ 32 (166)
T TIGR00347 3 TGTDTGVGKTVASSALAAKLKKAGYSVGYY 32 (166)
T ss_pred ecCCCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 456789999999986555544568888886
No 359
>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=88.40 E-value=0.48 Score=34.47 Aligned_cols=16 Identities=25% Similarity=0.302 Sum_probs=13.5
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
++++|+|||||.++..
T Consensus 2 ~l~G~~GsGKSTla~~ 17 (163)
T TIGR01313 2 VLMGVAGSGKSTIASA 17 (163)
T ss_pred EEECCCCCCHHHHHHH
Confidence 5899999999988753
No 360
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.39 E-value=1.4 Score=40.97 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=31.4
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCC-cEEEEe--chHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQ-RVIYTS--SLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~-rviyv~--P~kaLv~Q~~~~l~~~f~ 108 (138)
.+.+|||+|||..+. ++......+|+ ++.++. +++.=+.++.+.+.+.++
T Consensus 189 ~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~g 242 (767)
T PRK14723 189 ALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILG 242 (767)
T ss_pred EEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCC
Confidence 399999999988775 55444345554 554433 235445566667777554
No 361
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=88.31 E-value=0.89 Score=35.13 Aligned_cols=32 Identities=22% Similarity=0.190 Sum_probs=23.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
++++..|.|||.++........+.|.|++++.
T Consensus 3 ~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~ 34 (217)
T cd02035 3 FFTGKGGVGKTTIAAATAVRLAEEGKKVLLVS 34 (217)
T ss_pred EEeCCCCchHHHHHHHHHHHHHHCCCcEEEEE
Confidence 47899999999998744444446788877763
No 362
>PRK10689 transcription-repair coupling factor; Provisional
Probab=88.31 E-value=1.4 Score=42.66 Aligned_cols=58 Identities=17% Similarity=0.079 Sum_probs=46.3
Q ss_pred HHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCCC-----------CCCEEEecHH
Q 042424 74 YAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLSP-----------NASCLVMTTE 131 (138)
Q Consensus 74 ~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~~-----------~~~IiVtTpe 131 (138)
.++...+.++.++++++|++.-++..++.+++.+. .|..++|+...+. +.+|+|||.-
T Consensus 800 ~~il~el~r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdI 870 (1147)
T PRK10689 800 EAILREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTI 870 (1147)
T ss_pred HHHHHHHhcCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECch
Confidence 45555566788999999999999999999998764 7888999875432 7889999963
No 363
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=88.28 E-value=0.44 Score=34.39 Aligned_cols=18 Identities=22% Similarity=0.368 Sum_probs=14.2
Q ss_pred eEECcCCCchHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai 76 (138)
+|++|||||||.++...+
T Consensus 3 ~i~GpsGsGKstl~~~L~ 20 (137)
T cd00071 3 VLSGPSGVGKSTLLKRLL 20 (137)
T ss_pred EEECCCCCCHHHHHHHHH
Confidence 589999999998765433
No 364
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=88.26 E-value=0.96 Score=34.11 Aligned_cols=29 Identities=24% Similarity=0.009 Sum_probs=24.2
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEE
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIY 88 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviy 88 (138)
+..++|.|||.+|.--..++..+|.++++
T Consensus 7 vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~ 35 (159)
T cd00561 7 VYTGNGKGKTTAALGLALRALGHGYRVGV 35 (159)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 77888999999998666667788888887
No 365
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=88.21 E-value=3.1 Score=39.51 Aligned_cols=82 Identities=20% Similarity=0.109 Sum_probs=51.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHH-HHcC--CcEEEEechHHHHHHHHHHHHHhc----C-ceEEEe-cCCcCCCCCCEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMA-FRDK--QRVIYTSSLKALSNQKYRELHKEF----K-DVGLMT-GDVTLSPNASCL 126 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~-l~~~--~rviyv~P~kaLv~Q~~~~l~~~f----~-~v~~~t-Gd~~~~~~~~Ii 126 (138)
.-.++++-||+|||.=.-..|+.. +..| .+++..-|.|--|-..+++....- + .||--. .+.....+..++
T Consensus 189 qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~VGYqvrl~~~~s~~t~L~ 268 (924)
T KOG0920|consen 189 QVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGEEVGYQVRLESKRSRETRLL 268 (924)
T ss_pred ceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCCeeeEEEeeecccCCceeEE
Confidence 445699999999998876555444 4443 568888898655555555554322 2 343222 122223368899
Q ss_pred EecHHHHHHhh
Q 042424 127 VMTTEILRGML 137 (138)
Q Consensus 127 VtTpe~l~~lL 137 (138)
.||...|+..|
T Consensus 269 fcTtGvLLr~L 279 (924)
T KOG0920|consen 269 FCTTGVLLRRL 279 (924)
T ss_pred EecHHHHHHHh
Confidence 99999988765
No 366
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=88.19 E-value=0.64 Score=43.75 Aligned_cols=43 Identities=12% Similarity=0.029 Sum_probs=32.5
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHc--C-CcEEEEechHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRD--K-QRVIYTSSLKALSNQKY 100 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~--~-~rviyv~P~kaLv~Q~~ 100 (138)
|.-|..-||.|||++++-.|.. |++ | -+.|+|||+.|+-+-++
T Consensus 76 NiDI~METGTGKTy~Ylrtmfe-Lhk~YG~~KFIivVPs~AIkeGv~ 121 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFE-LHKKYGLFKFIIVVPSLAIKEGVF 121 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHH-HHHHhCceeEEEEeccHHHHhhhH
Confidence 4448899999999999755543 333 5 68999999999876643
No 367
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=88.18 E-value=1 Score=35.13 Aligned_cols=36 Identities=14% Similarity=-0.096 Sum_probs=28.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEec
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS 91 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P 91 (138)
++..+..++|-|||.+|+--..+++.+|.+++++==
T Consensus 23 g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQF 58 (191)
T PRK05986 23 GLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQF 58 (191)
T ss_pred CeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence 455699999999999998666677778887766543
No 368
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=88.11 E-value=1 Score=41.89 Aligned_cols=48 Identities=19% Similarity=0.138 Sum_probs=39.0
Q ss_pred EECcCCCchHHHHHHHHHHHHHc--C-----CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD--K-----QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~--~-----~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+.=--|+|||+...-.|...+++ + .+.|+|+|- +|++-++++|.+...
T Consensus 268 mAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkkEF~KWl~ 322 (776)
T KOG0390|consen 268 MADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKKEFGKWLG 322 (776)
T ss_pred eeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccH-HHHHHHHHHHHHhcc
Confidence 44447999999988777777765 5 789999997 799999999999665
No 369
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=88.10 E-value=0.68 Score=38.79 Aligned_cols=52 Identities=19% Similarity=0.165 Sum_probs=34.1
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH--HHHHHHhcC
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK--YRELHKEFK 108 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~--~~~l~~~f~ 108 (138)
+..|.+|-|+|||.+....+......++.+++++||-.-|... -..+...|+
T Consensus 24 ~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~ 77 (364)
T PF05970_consen 24 NFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFFG 77 (364)
T ss_pred EEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhccCCcchHHhcC
Confidence 3459999999999886544443333477889999985544444 344555454
No 370
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=88.05 E-value=0.66 Score=37.41 Aligned_cols=23 Identities=26% Similarity=0.183 Sum_probs=17.9
Q ss_pred CceEECcCCCchHHHHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMA 79 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~ 79 (138)
+.++.||.|+|||.++.......
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l 60 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALAREL 60 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 45699999999999886555443
No 371
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=87.94 E-value=0.83 Score=37.42 Aligned_cols=38 Identities=24% Similarity=0.267 Sum_probs=27.1
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALS 96 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv 96 (138)
..++++-|||||+..- ++...+..+..++++.|-..+.
T Consensus 54 ~~vtGevGsGKTv~~R-al~~s~~~d~~~~v~i~~~~~s 91 (269)
T COG3267 54 LAVTGEVGSGKTVLRR-ALLASLNEDQVAVVVIDKPTLS 91 (269)
T ss_pred EEEEecCCCchhHHHH-HHHHhcCCCceEEEEecCcchh
Confidence 4599999999999998 6666656666666555544333
No 372
>PRK13853 type IV secretion system protein VirB4; Provisional
Probab=87.73 E-value=0.51 Score=43.58 Aligned_cols=37 Identities=19% Similarity=0.298 Sum_probs=24.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHH----cCCcEEEEech
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFR----DKQRVIYTSSL 92 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~----~~~rviyv~P~ 92 (138)
++.+|.||||||||...-+.+.+..+ .+.+++++=+-
T Consensus 427 g~~~I~G~tGsGKS~l~~~l~~~~~~~~~~~~~~v~i~D~~ 467 (789)
T PRK13853 427 GMTAIFGPIGRGKTTLMTFILAMLEQSMVDRAGAVVFFDKD 467 (789)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCccccCCCCceEEEeCCC
Confidence 67889999999999987644432212 25566665443
No 373
>PLN02165 adenylate isopentenyltransferase
Probab=87.61 E-value=0.42 Score=40.24 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=14.0
Q ss_pred ceEECcCCCchHHHHH
Q 042424 58 GTLTNPVYNGKTAVAE 73 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~ 73 (138)
.+|.+|||||||.++.
T Consensus 46 ivIiGPTGSGKStLA~ 61 (334)
T PLN02165 46 VVIMGATGSGKSRLSV 61 (334)
T ss_pred EEEECCCCCcHHHHHH
Confidence 3599999999999886
No 374
>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=87.54 E-value=0.82 Score=34.54 Aligned_cols=15 Identities=33% Similarity=0.530 Sum_probs=13.4
Q ss_pred EECcCCCchHHHHHH
Q 042424 60 LTNPVYNGKTAVAEY 74 (138)
Q Consensus 60 l~aPTGsGKTlva~~ 74 (138)
|+||+|||||.+|..
T Consensus 4 I~G~sgSGKTTla~~ 18 (194)
T PF00485_consen 4 IAGPSGSGKTTLAKR 18 (194)
T ss_dssp EEESTTSSHHHHHHH
T ss_pred EECCCCCCHHHHHHH
Confidence 899999999998853
No 375
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=87.45 E-value=1 Score=37.04 Aligned_cols=39 Identities=26% Similarity=0.189 Sum_probs=26.7
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe--chHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS--SLKALSN 97 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~--P~kaLv~ 97 (138)
++++.-|.|||.+|.....++-++|+|+++++ |..+|.+
T Consensus 5 ~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~L~d 45 (305)
T PF02374_consen 5 FFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHSLSD 45 (305)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTHHHH
T ss_pred EEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCccHHH
Confidence 48899999999999743334446789988874 5555543
No 376
>PRK00889 adenylylsulfate kinase; Provisional
Probab=87.33 E-value=1.2 Score=32.75 Aligned_cols=32 Identities=19% Similarity=-0.060 Sum_probs=21.1
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
..+.++.|||||.++.......-..|..++++
T Consensus 7 i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 7 VWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 34999999999999864443332345555554
No 377
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=87.30 E-value=0.29 Score=44.77 Aligned_cols=20 Identities=30% Similarity=0.232 Sum_probs=15.9
Q ss_pred CCceEECcCCCchHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~a 75 (138)
...++++|.|+|||++|-..
T Consensus 546 sGvLL~GPPGCGKTLlAKAV 565 (802)
T KOG0733|consen 546 SGVLLCGPPGCGKTLLAKAV 565 (802)
T ss_pred CceEEeCCCCccHHHHHHHH
Confidence 44569999999999987543
No 378
>PRK07667 uridine kinase; Provisional
Probab=87.18 E-value=1.2 Score=33.90 Aligned_cols=14 Identities=21% Similarity=0.290 Sum_probs=13.1
Q ss_pred EECcCCCchHHHHH
Q 042424 60 LTNPVYNGKTAVAE 73 (138)
Q Consensus 60 l~aPTGsGKTlva~ 73 (138)
++|+.|||||.++.
T Consensus 22 I~G~~gsGKStla~ 35 (193)
T PRK07667 22 IDGLSRSGKTTFVA 35 (193)
T ss_pred EECCCCCCHHHHHH
Confidence 99999999999885
No 379
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=87.16 E-value=0.72 Score=29.60 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=13.6
Q ss_pred CceEECcCCCchHHHH
Q 042424 57 HGTLTNPVYNGKTAVA 72 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva 72 (138)
..++++|+|||||.+.
T Consensus 25 ~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLL 40 (62)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3669999999999765
No 380
>PRK05480 uridine/cytidine kinase; Provisional
Probab=87.15 E-value=1 Score=34.19 Aligned_cols=15 Identities=33% Similarity=0.355 Sum_probs=13.3
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
.|+||+|||||..+.
T Consensus 10 ~I~G~sGsGKTTl~~ 24 (209)
T PRK05480 10 GIAGGSGSGKTTVAS 24 (209)
T ss_pred EEECCCCCCHHHHHH
Confidence 399999999998884
No 381
>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=87.09 E-value=1.2 Score=36.30 Aligned_cols=32 Identities=19% Similarity=0.020 Sum_probs=21.2
Q ss_pred ceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
..+++|+|+|||............+|.++.++
T Consensus 37 i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i 68 (300)
T TIGR00750 37 VGITGTPGAGKSTLLEALGMELRRRGLKVAVI 68 (300)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 34999999999997764443333456666543
No 382
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=87.02 E-value=1.1 Score=32.58 Aligned_cols=24 Identities=21% Similarity=0.116 Sum_probs=14.6
Q ss_pred CCceEECcCCCchHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMA 79 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~ 79 (138)
+..+|.|+.|+|||.+....+.+.
T Consensus 25 ~~~ll~G~~G~GKT~ll~~~~~~~ 48 (185)
T PF13191_consen 25 RNLLLTGESGSGKTSLLRALLDRL 48 (185)
T ss_dssp --EEE-B-TTSSHHHHHHHHHHHH
T ss_pred cEEEEECCCCCCHHHHHHHHHHHH
Confidence 455699999999998865444333
No 383
>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=87.00 E-value=2.2 Score=34.95 Aligned_cols=23 Identities=26% Similarity=0.325 Sum_probs=18.1
Q ss_pred CCceEECcCCCchHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAM 78 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~ 78 (138)
.+.+|+||+|+|||.++...+.+
T Consensus 41 ~~i~I~G~~GtGKT~l~~~~~~~ 63 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTKYVMKE 63 (365)
T ss_pred CcEEEECCCCCCHHHHHHHHHHH
Confidence 45669999999999888655544
No 384
>PRK06696 uridine kinase; Validated
Probab=86.96 E-value=1.2 Score=34.41 Aligned_cols=28 Identities=25% Similarity=0.278 Sum_probs=18.7
Q ss_pred EECcCCCchHHHHHHHHHHHHHc-CCcEEE
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRD-KQRVIY 88 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~-~~rviy 88 (138)
|+|++|||||.+|... ...+.. |..++.
T Consensus 27 I~G~sgsGKSTlA~~L-~~~l~~~g~~v~~ 55 (223)
T PRK06696 27 IDGITASGKTTFADEL-AEEIKKRGRPVIR 55 (223)
T ss_pred EECCCCCCHHHHHHHH-HHHHHHcCCeEEE
Confidence 9999999999988533 334443 444443
No 385
>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=86.94 E-value=1.3 Score=35.14 Aligned_cols=40 Identities=15% Similarity=0.145 Sum_probs=23.6
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCC-cEEEEechHHHHHH
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQ-RVIYTSSLKALSNQ 98 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~-rviyv~P~kaLv~Q 98 (138)
++.++-|+|||.+.. .++.+++.... +.++++++..-+.+
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~ 42 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARD 42 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHH
Confidence 367899999999976 56666666542 55555566444444
No 386
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=86.63 E-value=0.63 Score=38.31 Aligned_cols=17 Identities=24% Similarity=0.262 Sum_probs=14.3
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
+|++|||+|||.++.-.
T Consensus 3 ~i~G~t~~GKs~la~~l 19 (287)
T TIGR00174 3 FIMGPTAVGKSQLAIQL 19 (287)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 58999999999988633
No 387
>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=86.59 E-value=0.76 Score=38.52 Aligned_cols=40 Identities=15% Similarity=0.185 Sum_probs=25.2
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHH
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKAL 95 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaL 95 (138)
..+.+++++||||||.... ++...+....+++++=-..+|
T Consensus 178 ~~~ili~G~tGsGKTTll~-al~~~i~~~~riv~iEd~~El 217 (340)
T TIGR03819 178 RLAFLISGGTGSGKTTLLS-ALLALVAPDERIVLVEDAAEL 217 (340)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHccCCCCCcEEEECCccee
Confidence 3678899999999997653 233333445566665444444
No 388
>PRK06762 hypothetical protein; Provisional
Probab=86.58 E-value=1.2 Score=32.43 Aligned_cols=17 Identities=24% Similarity=0.278 Sum_probs=14.2
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
+++|+.|||||.+|...
T Consensus 6 ~i~G~~GsGKST~A~~L 22 (166)
T PRK06762 6 IIRGNSGSGKTTIAKQL 22 (166)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 49999999999988533
No 389
>PRK00300 gmk guanylate kinase; Provisional
Probab=86.54 E-value=0.66 Score=34.93 Aligned_cols=18 Identities=22% Similarity=0.285 Sum_probs=14.4
Q ss_pred ceEECcCCCchHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~a 75 (138)
.++.+|+|||||.++...
T Consensus 8 i~i~G~sGsGKstl~~~l 25 (205)
T PRK00300 8 IVLSGPSGAGKSTLVKAL 25 (205)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 359999999999877543
No 390
>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=86.54 E-value=0.85 Score=37.72 Aligned_cols=34 Identities=15% Similarity=0.146 Sum_probs=22.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
.+.+++++||||||.. +.|+...+-...|++.+=
T Consensus 144 ~siii~G~t~sGKTt~-lnall~~Ip~~~rivtIE 177 (312)
T COG0630 144 KSIIICGGTASGKTTL-LNALLDFIPPEERIVTIE 177 (312)
T ss_pred CcEEEECCCCCCHHHH-HHHHHHhCCchhcEEEEe
Confidence 5677999999999975 344444444444444443
No 391
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=86.53 E-value=1.5 Score=31.93 Aligned_cols=31 Identities=23% Similarity=0.154 Sum_probs=19.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
+++++.|||||..+..........+..++++
T Consensus 3 ~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 3 WLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 4899999999998864333322335455544
No 392
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.51 E-value=0.27 Score=45.59 Aligned_cols=38 Identities=24% Similarity=0.200 Sum_probs=29.1
Q ss_pred CCcccccccCCCCccCCCCC-CCceEECcCCCchHHHHH
Q 042424 36 RSCVHEVAVPSCYTLTTDET-THGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 36 ~~~~~~~~~p~~y~~~~~~~-~~~~l~aPTGsGKTlva~ 73 (138)
.+..++.-+|..|+.+..-. +..+|++|.|+|||+.|-
T Consensus 324 ~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 324 MEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred HHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHH
Confidence 35667778899898665443 456699999999999764
No 393
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=86.43 E-value=1.3 Score=34.69 Aligned_cols=31 Identities=19% Similarity=0.053 Sum_probs=20.5
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
+++|+.|||||.+|.....+.-..+..++++
T Consensus 3 vl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 3 ILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 5899999999999864333322235555555
No 394
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=86.42 E-value=2.3 Score=38.88 Aligned_cols=79 Identities=16% Similarity=0.148 Sum_probs=49.0
Q ss_pred CceEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHHHHhcC-----ceEEEe-cCCcCCCCCCEEEec
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYRELHKEFK-----DVGLMT-GDVTLSPNASCLVMT 129 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-----~v~~~t-Gd~~~~~~~~IiVtT 129 (138)
-.+|.+.||||||.=.=..+..+ +...+++.+.=|.|--+--.+++..+.++ .||.-. =|.....+..|..+|
T Consensus 68 vlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~IRFed~ts~~TrikymT 147 (674)
T KOG0922|consen 68 VLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRFEDSTSKDTRIKYMT 147 (674)
T ss_pred EEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCCCcCceeeeEEEecccCCCceeEEEec
Confidence 35599999999997654444333 33345588888987666666666666554 454321 111222366778888
Q ss_pred HHHHHH
Q 042424 130 TEILRG 135 (138)
Q Consensus 130 pe~l~~ 135 (138)
-..|+.
T Consensus 148 DG~LLR 153 (674)
T KOG0922|consen 148 DGMLLR 153 (674)
T ss_pred chHHHH
Confidence 777654
No 395
>PRK07004 replicative DNA helicase; Provisional
Probab=86.33 E-value=1 Score=39.15 Aligned_cols=33 Identities=21% Similarity=-0.007 Sum_probs=24.7
Q ss_pred eEECcCCCchHHHHHHHHHH-HHHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAM-AFRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~-~l~~~~rviyv~P 91 (138)
+|.|.+|.|||..++..+.+ ++..|..++|++.
T Consensus 217 viaarpg~GKT~~al~ia~~~a~~~~~~v~~fSl 250 (460)
T PRK07004 217 IVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSM 250 (460)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeC
Confidence 48999999999999844443 4556888877754
No 396
>PRK09165 replicative DNA helicase; Provisional
Probab=86.19 E-value=1.1 Score=39.24 Aligned_cols=45 Identities=22% Similarity=0.010 Sum_probs=28.3
Q ss_pred ceEECcCCCchHHHHHHHHHHHH-H--------------cCCcEEEEechHHHHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAF-R--------------DKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l-~--------------~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.+|.|++|.|||..++..+.+.. . +|.+++|++--. =.+|...++
T Consensus 220 ivIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEM-s~~ql~~R~ 279 (497)
T PRK09165 220 IILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEM-SAEQLATRI 279 (497)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcC-CHHHHHHHH
Confidence 34999999999999974444332 2 256777775432 334555444
No 397
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=86.18 E-value=4.2 Score=27.40 Aligned_cols=66 Identities=17% Similarity=0.113 Sum_probs=43.5
Q ss_pred CchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcCceEEEecCCcCC-----------CCCCEEEecHH
Q 042424 66 NGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFKDVGLMTGDVTLS-----------PNASCLVMTTE 131 (138)
Q Consensus 66 sGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~~v~~~tGd~~~~-----------~~~~IiVtTpe 131 (138)
.+|-......+......+.++|+.++++.-+++.++.|.+....+..++|+...+ .+..|+++|..
T Consensus 11 ~~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~ 87 (131)
T cd00079 11 DEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDV 87 (131)
T ss_pred HHHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcCh
Confidence 3554433333333323478999999999999999999987333788888875421 14568887754
No 398
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=86.16 E-value=1.4 Score=42.14 Aligned_cols=76 Identities=13% Similarity=0.052 Sum_probs=45.5
Q ss_pred CCceEECcCCCchHHHHHH-HHHHHHHcCCcEEEEechHHHHHHHHHHHHHh---cC-ceEEEecCCcCCC-----CCCE
Q 042424 56 THGTLTNPVYNGKTAVAEY-AIAMAFRDKQRVIYTSSLKALSNQKYRELHKE---FK-DVGLMTGDVTLSP-----NASC 125 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~-ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~---f~-~v~~~tGd~~~~~-----~~~I 125 (138)
...+.-..||-|||++|-+ +.+.||. |+.|-+|.-.-=|+..=++.+... ++ +||.+..+..... .++|
T Consensus 152 ~G~IAEM~TGEGKTLvatlp~yLnAL~-G~gVHvVTvNDYLA~RDaewm~p~y~flGLtVg~i~~~~~~~~Rr~aY~~DI 230 (1025)
T PRK12900 152 SGKISEMATGEGKTLVSTLPTFLNALT-GRGVHVVTVNDYLAQRDKEWMNPVFEFHGLSVGVILNTMRPEERREQYLCDI 230 (1025)
T ss_pred cCCccccCCCCCcchHhHHHHHHHHHc-CCCcEEEeechHhhhhhHHHHHHHHHHhCCeeeeeCCCCCHHHHHHhCCCcc
Confidence 3456778899999999975 4555554 444433333333665544444443 44 7887755443321 7788
Q ss_pred EEecHHH
Q 042424 126 LVMTTEI 132 (138)
Q Consensus 126 iVtTpe~ 132 (138)
.-+|.--
T Consensus 231 tYgTn~E 237 (1025)
T PRK12900 231 TYGTNNE 237 (1025)
T ss_pred eecCCCc
Confidence 8777643
No 399
>PRK05636 replicative DNA helicase; Provisional
Probab=86.11 E-value=1.2 Score=39.32 Aligned_cols=47 Identities=13% Similarity=0.123 Sum_probs=30.4
Q ss_pred cCCCCccCCCC-----CCCc-eEECcCCCchHHHHHHHHHH-HHHcCCcEEEEe
Q 042424 44 VPSCYTLTTDE-----TTHG-TLTNPVYNGKTAVAEYAIAM-AFRDKQRVIYTS 90 (138)
Q Consensus 44 ~p~~y~~~~~~-----~~~~-~l~aPTGsGKTlva~~ai~~-~l~~~~rviyv~ 90 (138)
+|.||..+... .+.. +|.|.+|.|||..++..+.. ++++|..++|++
T Consensus 248 i~TG~~~LD~~t~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fS 301 (505)
T PRK05636 248 IPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFS 301 (505)
T ss_pred eecChHHHhhhcCCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE
Confidence 56666544321 1333 48999999999999854444 345677887773
No 400
>PRK07261 topology modulation protein; Provisional
Probab=85.98 E-value=0.48 Score=35.41 Aligned_cols=17 Identities=18% Similarity=0.118 Sum_probs=14.6
Q ss_pred ceEECcCCCchHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ 74 (138)
.+|+|++|||||..+..
T Consensus 3 i~i~G~~GsGKSTla~~ 19 (171)
T PRK07261 3 IAIIGYSGSGKSTLARK 19 (171)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 45899999999999864
No 401
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=85.98 E-value=2.1 Score=41.21 Aligned_cols=49 Identities=12% Similarity=0.131 Sum_probs=38.2
Q ss_pred eEECcCCCchHHHHHHHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHhcC
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
.|.|+.|||||.+...-|.+.+.. +.+.++++|... .-++-+++.+.++
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~l~~~~~~~~~illVPeq~-TF~~e~rl~~~~~ 56 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQKIKENPLGKPIILIVPDQM-TFQMEQALLNDIE 56 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHHHhhCCCCCcEEEEcCCcc-cHHHHHHHHHhcc
Confidence 488999999999999888888754 679999999874 5556666665443
No 402
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=85.97 E-value=1.5 Score=33.53 Aligned_cols=33 Identities=15% Similarity=-0.044 Sum_probs=23.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
...-|++|||.++...+....++|.++.|.=|.
T Consensus 5 ~~t~t~~GKT~vs~~L~~~l~~~g~~v~~~KPv 37 (222)
T PRK00090 5 TGTDTDVGKTVVTAALAQALREAGYSVAGYKPV 37 (222)
T ss_pred EeCCCCcCHHHHHHHHHHHHHHcCCceEEEeeE
Confidence 456789999999976555544567777776653
No 403
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=85.96 E-value=1.1 Score=38.49 Aligned_cols=34 Identities=15% Similarity=0.334 Sum_probs=26.4
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.+.++.+||.+|||.++...+-.+++.|++-+|+
T Consensus 104 Prv~vVGp~d~GKsTl~r~L~nyavk~gr~Plfv 137 (415)
T KOG2749|consen 104 PRVMVVGPTDVGKSTLCRILLNYAVKQGRRPLFV 137 (415)
T ss_pred CEEEEECCCccchHHHHHHHHHHHHHcCCcceEE
Confidence 3456999999999999987777777776665443
No 404
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=85.94 E-value=0.79 Score=39.45 Aligned_cols=18 Identities=33% Similarity=0.412 Sum_probs=16.1
Q ss_pred CCceEECcCCCchHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~ 73 (138)
.+.++.+|||+|||.+|.
T Consensus 109 ~~iLl~Gp~GtGKT~lAr 126 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQ 126 (412)
T ss_pred ceEEEEcCCCCCHHHHHH
Confidence 567899999999999985
No 405
>PRK08118 topology modulation protein; Reviewed
Probab=85.92 E-value=0.51 Score=35.26 Aligned_cols=17 Identities=24% Similarity=0.194 Sum_probs=14.4
Q ss_pred CceEECcCCCchHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~ 73 (138)
+.+|++|.|||||.+|-
T Consensus 3 rI~I~G~~GsGKSTlak 19 (167)
T PRK08118 3 KIILIGSGGSGKSTLAR 19 (167)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 34699999999999875
No 406
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=85.85 E-value=0.47 Score=41.97 Aligned_cols=54 Identities=19% Similarity=0.261 Sum_probs=38.6
Q ss_pred CCcEEEEechHHHHHHHHHHHHHhcC------ceE--E-EecCCcC------CCCCCEEEecHHHHHHhh
Q 042424 83 KQRVIYTSSLKALSNQKYRELHKEFK------DVG--L-MTGDVTL------SPNASCLVMTTEILRGML 137 (138)
Q Consensus 83 ~~rviyv~P~kaLv~Q~~~~l~~~f~------~v~--~-~tGd~~~------~~~~~IiVtTpe~l~~lL 137 (138)
.-.++++-|.++|++|.++.+.+ |. .+. + +.|.... ....+|+|.||.+++.++
T Consensus 286 ap~avivepsrelaEqt~N~i~~-Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~i 354 (725)
T KOG0349|consen 286 APEAVIVEPSRELAEQTHNQIEE-FKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPI 354 (725)
T ss_pred CcceeEecCcHHHHHHHHhhHHH-HHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhh
Confidence 35789999999999999997666 43 233 3 3333221 226789999999998775
No 407
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=85.80 E-value=1.5 Score=33.50 Aligned_cols=31 Identities=19% Similarity=0.020 Sum_probs=25.7
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.+..++|-|||.+|+-...+++.+|.+++++
T Consensus 9 ~v~~g~GkGKtt~a~g~a~ra~~~g~~v~iv 39 (173)
T TIGR00708 9 IVHTGNGKGKTTAAFGMALRALGHGKKVGVI 39 (173)
T ss_pred EEECCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence 3888999999999986666777888888766
No 408
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=85.68 E-value=0.98 Score=37.72 Aligned_cols=73 Identities=21% Similarity=0.257 Sum_probs=41.8
Q ss_pred CCCCcchhhhhcCCCC-----------CCcc---cccccCCCCccCCCCCCCceEECcCCCchHHHHHHHHHHHHHcC-C
Q 042424 20 RGTPKEESTKKQRNPT-----------RSCV---HEVAVPSCYTLTTDETTHGTLTNPVYNGKTAVAEYAIAMAFRDK-Q 84 (138)
Q Consensus 20 ~~~p~~~~~~~~~~~~-----------~~~~---~~~~~p~~y~~~~~~~~~~~l~aPTGsGKTlva~~ai~~~l~~~-~ 84 (138)
-.+|.+++....+.+. ..|. .....|..|.-- ..+|.+..+|+|.|||.+|- ++... +
T Consensus 104 l~~~~~~~~e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~W--APknVLFyGppGTGKTm~Ak-----alane~k 176 (368)
T COG1223 104 LETPREEDREIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDW--APKNVLFYGPPGTGKTMMAK-----ALANEAK 176 (368)
T ss_pred ecCcchhhhhhhccccHhhhhchHHHHHHHHHHHHHhhChHHhccc--CcceeEEECCCCccHHHHHH-----HHhcccC
Confidence 4567777776555443 2232 233455543322 13788899999999997653 33332 3
Q ss_pred cEEEEechHHHHHHH
Q 042424 85 RVIYTSSLKALSNQK 99 (138)
Q Consensus 85 rviyv~P~kaLv~Q~ 99 (138)
--++.+--..|+-++
T Consensus 177 vp~l~vkat~liGeh 191 (368)
T COG1223 177 VPLLLVKATELIGEH 191 (368)
T ss_pred CceEEechHHHHHHH
Confidence 345556656665444
No 409
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=85.61 E-value=1.3 Score=40.01 Aligned_cols=56 Identities=14% Similarity=-0.083 Sum_probs=40.4
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM 113 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~ 113 (138)
..+.++.||||||||......-+ +..+..+|++=|--++........++ ++ .|-++
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnL--L~~~~S~VV~DpKGEl~~~Ta~~R~~-~G~~V~vf 214 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNL--LFWEDSVVVHDIKLENYELTSGWREK-QGQKVFVW 214 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhH--HhCCCCEEEEeCcHHHHHHHHHHHHH-CCCeEEEE
Confidence 36788999999999987654332 23467888888888888777755544 66 56655
No 410
>PRK00131 aroK shikimate kinase; Reviewed
Probab=85.50 E-value=1.1 Score=32.34 Aligned_cols=18 Identities=17% Similarity=0.185 Sum_probs=15.1
Q ss_pred CceEECcCCCchHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ 74 (138)
..++++|.|||||.++..
T Consensus 6 ~i~l~G~~GsGKstla~~ 23 (175)
T PRK00131 6 NIVLIGFMGAGKSTIGRL 23 (175)
T ss_pred eEEEEcCCCCCHHHHHHH
Confidence 455999999999999863
No 411
>PRK03846 adenylylsulfate kinase; Provisional
Probab=85.45 E-value=1.7 Score=32.97 Aligned_cols=31 Identities=16% Similarity=-0.047 Sum_probs=19.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.++++.|||||.++..........|..++++
T Consensus 28 ~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 28 WFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 3999999999987753333222345555555
No 412
>PRK08233 hypothetical protein; Provisional
Probab=85.41 E-value=0.85 Score=33.34 Aligned_cols=15 Identities=27% Similarity=0.308 Sum_probs=13.1
Q ss_pred EECcCCCchHHHHHH
Q 042424 60 LTNPVYNGKTAVAEY 74 (138)
Q Consensus 60 l~aPTGsGKTlva~~ 74 (138)
+.+++|||||..+..
T Consensus 8 I~G~~GsGKtTla~~ 22 (182)
T PRK08233 8 IAAVSGGGKTTLTER 22 (182)
T ss_pred EECCCCCCHHHHHHH
Confidence 889999999998853
No 413
>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=85.41 E-value=0.57 Score=40.47 Aligned_cols=18 Identities=33% Similarity=0.412 Sum_probs=16.0
Q ss_pred CCceEECcCCCchHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~ 73 (138)
.+.++.+|||+|||.+|.
T Consensus 117 ~~iLL~GP~GsGKT~lAr 134 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQ 134 (413)
T ss_pred ceEEEECCCCcCHHHHHH
Confidence 567799999999999985
No 414
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=85.35 E-value=1.4 Score=35.45 Aligned_cols=16 Identities=38% Similarity=0.418 Sum_probs=12.6
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
++.+|||+|||-.|..
T Consensus 5 ~i~GpT~tGKt~~ai~ 20 (233)
T PF01745_consen 5 LIVGPTGTGKTALAIA 20 (233)
T ss_dssp EEE-STTSSHHHHHHH
T ss_pred EEECCCCCChhHHHHH
Confidence 5899999999987753
No 415
>PTZ00035 Rad51 protein; Provisional
Probab=85.31 E-value=1.5 Score=36.69 Aligned_cols=33 Identities=18% Similarity=0.223 Sum_probs=23.4
Q ss_pred EECcCCCchHHHHHHHHHHHHH------cCCcEEEEech
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFR------DKQRVIYTSSL 92 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~------~~~rviyv~P~ 92 (138)
|++|.|+|||..+...+..... .+.+++|+---
T Consensus 123 I~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE 161 (337)
T PTZ00035 123 LFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTE 161 (337)
T ss_pred EECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEcc
Confidence 9999999999999744433321 35688887643
No 416
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=85.27 E-value=2.4 Score=39.27 Aligned_cols=50 Identities=16% Similarity=0.194 Sum_probs=40.3
Q ss_pred ceEECcCCCchHHHHHHHHHHHHH-cCCcEEEEechHHHHHHHHHHHHHhc
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
.++.+|=|.|||.+...++...+. .|.+++|++|...-+.+.++++++.+
T Consensus 190 tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~l 240 (752)
T PHA03333 190 TAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVV 240 (752)
T ss_pred eEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHH
Confidence 458999999999998755554444 58999999999999999888876654
No 417
>PRK06851 hypothetical protein; Provisional
Probab=85.24 E-value=1.4 Score=37.49 Aligned_cols=37 Identities=16% Similarity=0.119 Sum_probs=28.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcE-EEEech
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRV-IYTSSL 92 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rv-iyv~P~ 92 (138)
+..+|.+++|+|||.+....+..+..+|.++ +|=+|.
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~ 252 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGF 252 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence 3455999999999999987777777788766 444444
No 418
>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=85.22 E-value=0.79 Score=33.72 Aligned_cols=17 Identities=18% Similarity=0.329 Sum_probs=13.9
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
++.+|+|||||.++...
T Consensus 5 ~l~G~~GsGKsTl~~~L 21 (180)
T TIGR03263 5 VISGPSGVGKSTLVKAL 21 (180)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 59999999999876533
No 419
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=85.10 E-value=2.6 Score=38.14 Aligned_cols=53 Identities=25% Similarity=0.266 Sum_probs=39.0
Q ss_pred CCCCceEECcCCCchHHHHH-HHHHHHHHc---CCcEEEEechHHHHHHHHHHHHHh
Q 042424 54 ETTHGTLTNPVYNGKTAVAE-YAIAMAFRD---KQRVIYTSSLKALSNQKYRELHKE 106 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~-~ai~~~l~~---~~rviyv~P~kaLv~Q~~~~l~~~ 106 (138)
..++.++-.|+|.|||+.-+ +.+...+.. -.+.||.+-|..=++....+++..
T Consensus 34 akGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~l 90 (755)
T KOG1131|consen 34 AKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKRL 90 (755)
T ss_pred cCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHHH
Confidence 34788999999999998765 344444443 478999998887777777777654
No 420
>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity. The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.
Probab=85.04 E-value=2.4 Score=31.97 Aligned_cols=44 Identities=16% Similarity=0.243 Sum_probs=33.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
++++...||||-.|+..+ ...+.+.+|++-.++.=.++.+++.+
T Consensus 2 lv~GG~rSGKS~~Ae~la---~~~~~~~~YiAT~~~~D~em~~RI~~ 45 (167)
T PF02283_consen 2 LVTGGARSGKSSFAERLA---LSFGGPVTYIATARPFDEEMRERIAR 45 (167)
T ss_dssp EEEESTTSSHHHHHHHHH---TS--SCEEEEESSHHHHHHHHHHHHH
T ss_pred EEeCCCCcchHHHHHHHH---HhcCCCcEEEeCCCCCCHHHHHHHHH
Confidence 588999999998887443 23468999999999997777777765
No 421
>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=84.99 E-value=2.4 Score=38.98 Aligned_cols=43 Identities=16% Similarity=-0.048 Sum_probs=30.3
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH-cC--CcEEEEechHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR-DK--QRVIYTSSLKALSNQKY 100 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~-~~--~rviyv~P~kaLv~Q~~ 100 (138)
-.+|+++.|+|||.+....+ .++. .+ .+++.++||-.-+....
T Consensus 340 ~~iitGgpGTGKTt~l~~i~-~~~~~~~~~~~v~l~ApTg~AA~~L~ 385 (720)
T TIGR01448 340 VVILTGGPGTGKTTITRAII-ELAEELGGLLPVGLAAPTGRAAKRLG 385 (720)
T ss_pred eEEEECCCCCCHHHHHHHHH-HHHHHcCCCceEEEEeCchHHHHHHH
Confidence 35699999999998875333 3343 35 68889999966665443
No 422
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=84.94 E-value=1.2 Score=36.74 Aligned_cols=14 Identities=29% Similarity=0.427 Sum_probs=13.0
Q ss_pred EECcCCCchHHHHH
Q 042424 60 LTNPVYNGKTAVAE 73 (138)
Q Consensus 60 l~aPTGsGKTlva~ 73 (138)
|.||+|||||..+.
T Consensus 67 IaG~~GSGKSTlar 80 (290)
T TIGR00554 67 IAGSVAVGKSTTAR 80 (290)
T ss_pred EECCCCCCHHHHHH
Confidence 99999999999884
No 423
>PHA00350 putative assembly protein
Probab=84.93 E-value=1.2 Score=38.39 Aligned_cols=29 Identities=28% Similarity=0.291 Sum_probs=23.8
Q ss_pred eEECcCCCchHHHHH-HHHHHHHHcCCcEE
Q 042424 59 TLTNPVYNGKTAVAE-YAIAMAFRDKQRVI 87 (138)
Q Consensus 59 ~l~aPTGsGKTlva~-~ai~~~l~~~~rvi 87 (138)
++.+..|||||+.+. +.|..++++|++++
T Consensus 5 l~tG~pGSGKT~~aV~~~i~palk~GR~V~ 34 (399)
T PHA00350 5 AIVGRPGSYKSYEAVVYHIIPALKDGRKVI 34 (399)
T ss_pred EEecCCCCchhHHHHHHHHHHHHHCCCEEE
Confidence 489999999999997 57888888886543
No 424
>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=84.84 E-value=3.6 Score=36.11 Aligned_cols=46 Identities=9% Similarity=-0.065 Sum_probs=29.8
Q ss_pred CCCCceEECcCCCchHHHHH-HHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 54 ETTHGTLTNPVYNGKTAVAE-YAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 54 ~~~~~~l~aPTGsGKTlva~-~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.+.|.++.+|+|.|||.++. ++...++..| -|+ -.-.|..+.....
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~-T~a~Lf~~L~~~~ 254 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPYVILISG---GTI-TVAKLFYNISTRQ 254 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcC-cHHHHHHHHHHHH
Confidence 34788999999999998875 4555456666 222 2334555555433
No 425
>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=84.83 E-value=1.1 Score=34.05 Aligned_cols=19 Identities=16% Similarity=0.256 Sum_probs=14.6
Q ss_pred eEECcCCCchHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIA 77 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~ 77 (138)
++.|+.|||||.++...+.
T Consensus 19 i~aG~~GsGKSt~~~~~~~ 37 (199)
T PF06414_consen 19 IIAGQPGSGKSTLARQLLE 37 (199)
T ss_dssp EEES-TTSTTHHHHHHHHH
T ss_pred EEeCCCCCCHHHHHHHhhh
Confidence 3899999999998876554
No 426
>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=84.74 E-value=1 Score=33.35 Aligned_cols=18 Identities=33% Similarity=0.202 Sum_probs=14.8
Q ss_pred ceEECcCCCchHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~a 75 (138)
.+|.+|.|||||.++...
T Consensus 2 I~i~G~pGsGKst~a~~L 19 (194)
T cd01428 2 ILLLGPPGSGKGTQAERL 19 (194)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 469999999999888543
No 427
>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=84.67 E-value=2.3 Score=26.93 Aligned_cols=16 Identities=31% Similarity=0.364 Sum_probs=13.5
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
.++++.|||||.++..
T Consensus 3 ~i~G~~gsGKst~~~~ 18 (69)
T cd02019 3 AITGGSGSGKSTVAKK 18 (69)
T ss_pred EEECCCCCCHHHHHHH
Confidence 4899999999988753
No 428
>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=84.65 E-value=3.1 Score=37.43 Aligned_cols=48 Identities=15% Similarity=0.138 Sum_probs=31.6
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH--c---CCcEEEEechHHHHHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR--D---KQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~--~---~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
-.+|+++.|+|||.+....+..... . +.++++++||---+....+.+.
T Consensus 162 ~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~ 214 (586)
T TIGR01447 162 FSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLR 214 (586)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHH
Confidence 3459999999999987533332222 1 1579999999655555555443
No 429
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=84.60 E-value=0.68 Score=43.33 Aligned_cols=21 Identities=29% Similarity=0.525 Sum_probs=15.5
Q ss_pred eEECcCCCchHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAF 80 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l 80 (138)
+|+||||||||.+.. ||..||
T Consensus 29 lI~G~nGsGKSSIld-AI~~AL 49 (908)
T COG0419 29 LIVGPNGAGKSSILD-AITFAL 49 (908)
T ss_pred EEECCCCCcHHHHHH-HHHHHH
Confidence 499999999997753 444444
No 430
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=84.57 E-value=2.1 Score=32.19 Aligned_cols=30 Identities=27% Similarity=0.175 Sum_probs=20.6
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
+++-.|||||.+|...-.+....|.++.++
T Consensus 7 ltGlsGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 7 LTGLSGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp EESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 899999999988765444433456666665
No 431
>PHA02244 ATPase-like protein
Probab=84.57 E-value=1.7 Score=37.32 Aligned_cols=20 Identities=25% Similarity=0.149 Sum_probs=16.6
Q ss_pred CCceEECcCCCchHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~a 75 (138)
.+.+|.+|||+|||.++...
T Consensus 120 ~PVLL~GppGtGKTtLA~aL 139 (383)
T PHA02244 120 IPVFLKGGAGSGKNHIAEQI 139 (383)
T ss_pred CCEEEECCCCCCHHHHHHHH
Confidence 56779999999999887643
No 432
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=84.49 E-value=1.7 Score=32.43 Aligned_cols=35 Identities=20% Similarity=0.156 Sum_probs=24.1
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKA 94 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ka 94 (138)
++++.-|||||......+. ...++.|+.++..--.
T Consensus 4 ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g 38 (178)
T PF02492_consen 4 IITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFG 38 (178)
T ss_dssp EEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTT
T ss_pred EEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEcccc
Confidence 5899999999987655554 3456788877766433
No 433
>PRK08840 replicative DNA helicase; Provisional
Probab=84.37 E-value=1.6 Score=38.06 Aligned_cols=44 Identities=18% Similarity=0.088 Sum_probs=29.6
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
+|.|.+|.|||..++..+.++ ..+|..++|++.-.+ .+|...++
T Consensus 221 viaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs-~~ql~~Rl 265 (464)
T PRK08840 221 IVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMP-AEQLMMRM 265 (464)
T ss_pred EEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCC-HHHHHHHH
Confidence 489999999999997544444 456788888765432 44444444
No 434
>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=84.36 E-value=1.1 Score=35.55 Aligned_cols=32 Identities=22% Similarity=0.401 Sum_probs=18.2
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
|.||-|||||..+. ++.+.+...+|-++++..
T Consensus 1 ViGpaGSGKTT~~~-~~~~~~~~~~~~~~~vNL 32 (238)
T PF03029_consen 1 VIGPAGSGKTTFCK-GLSEWLESNGRDVYIVNL 32 (238)
T ss_dssp -EESTTSSHHHHHH-HHHHHHTTT-S-EEEEE-
T ss_pred CCCCCCCCHHHHHH-HHHHHHHhccCCceEEEc
Confidence 57999999997553 444445544455555543
No 435
>PRK10865 protein disaggregation chaperone; Provisional
Probab=84.25 E-value=1.3 Score=41.39 Aligned_cols=17 Identities=24% Similarity=0.190 Sum_probs=14.7
Q ss_pred ceEECcCCCchHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ 74 (138)
.+++||||+|||.+|..
T Consensus 601 ~Lf~Gp~G~GKT~lA~a 617 (857)
T PRK10865 601 FLFLGPTGVGKTELCKA 617 (857)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 46999999999999854
No 436
>PLN03025 replication factor C subunit; Provisional
Probab=84.24 E-value=1.3 Score=36.22 Aligned_cols=24 Identities=21% Similarity=0.066 Sum_probs=18.2
Q ss_pred CCceEECcCCCchHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMA 79 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~ 79 (138)
.+.+++||.|+|||..+.......
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l 58 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHEL 58 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHH
Confidence 346799999999998886554443
No 437
>PRK08006 replicative DNA helicase; Provisional
Probab=84.18 E-value=1.7 Score=38.02 Aligned_cols=59 Identities=17% Similarity=0.049 Sum_probs=35.5
Q ss_pred cCCCCccCCC---C--CCC-ceEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHH
Q 042424 44 VPSCYTLTTD---E--TTH-GTLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 44 ~p~~y~~~~~---~--~~~-~~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
+|.||..+.. + .+. .+|.|.+|.|||..++..+.++ ..+|..++|++.-. =.+|...++
T Consensus 207 i~TG~~~LD~~~~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM-~~~ql~~Rl 272 (471)
T PRK08006 207 VNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEM-PGEQIMMRM 272 (471)
T ss_pred ccCCCHHHHHhhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccC-CHHHHHHHH
Confidence 5666654322 1 123 3489999999999998544444 45678888876542 233444443
No 438
>PRK06904 replicative DNA helicase; Validated
Probab=84.15 E-value=1.7 Score=38.04 Aligned_cols=46 Identities=17% Similarity=0.051 Sum_probs=30.8
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEechHHHHHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSSLKALSNQKYRELHK 105 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P~kaLv~Q~~~~l~~ 105 (138)
+|.|.+|.|||..++..+.++ ...|..++|++.- -=.+|...++-.
T Consensus 225 iIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlE-Ms~~ql~~Rlla 271 (472)
T PRK06904 225 IVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLE-MPAEQIMMRMLA 271 (472)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEecc-CCHHHHHHHHHH
Confidence 489999999999987544444 3457788877554 344555555443
No 439
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=84.13 E-value=1 Score=36.86 Aligned_cols=20 Identities=35% Similarity=0.321 Sum_probs=16.5
Q ss_pred CCceEECcCCCchHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~a 75 (138)
.+.++++|.|+|||.++...
T Consensus 52 ~~~ll~GppG~GKT~la~~i 71 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANII 71 (328)
T ss_pred CcEEEECCCCccHHHHHHHH
Confidence 45679999999999988743
No 440
>PRK07773 replicative DNA helicase; Validated
Probab=84.11 E-value=1.5 Score=41.14 Aligned_cols=34 Identities=18% Similarity=-0.006 Sum_probs=25.2
Q ss_pred ceEECcCCCchHHHHHHHHHHH-HHcCCcEEEEec
Q 042424 58 GTLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSS 91 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P 91 (138)
.+|.|++|.|||..++..+.+. .+.+..++|++-
T Consensus 220 ivIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSl 254 (886)
T PRK07773 220 IIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSL 254 (886)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence 3499999999999998555444 445777877764
No 441
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=84.09 E-value=1.7 Score=34.58 Aligned_cols=32 Identities=16% Similarity=0.121 Sum_probs=23.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEe
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTS 90 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~ 90 (138)
++++..|.|||.++......+.+.|+|++++.
T Consensus 4 ~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd 35 (254)
T cd00550 4 FFGGKGGVGKTTISAATAVRLAEQGKKVLLVS 35 (254)
T ss_pred EEECCCCchHHHHHHHHHHHHHHCCCCceEEe
Confidence 47888999999999744444446688887763
No 442
>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=84.03 E-value=1.1 Score=33.04 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=14.1
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
+|.+|.|||||.++-.
T Consensus 5 ~i~G~sGsGKttl~~~ 20 (179)
T TIGR02322 5 YVVGPSGAGKDTLLDY 20 (179)
T ss_pred EEECCCCCCHHHHHHH
Confidence 5999999999999863
No 443
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=83.78 E-value=3.8 Score=36.87 Aligned_cols=56 Identities=25% Similarity=0.345 Sum_probs=40.9
Q ss_pred HHHHHHHcCCcEEEEechH--------HHHHHHHHHHHHhcC--ceEEEecCCcCC-----------CCCCEEEecH
Q 042424 75 AIAMAFRDKQRVIYTSSLK--------ALSNQKYRELHKEFK--DVGLMTGDVTLS-----------PNASCLVMTT 130 (138)
Q Consensus 75 ai~~~l~~~~rviyv~P~k--------aLv~Q~~~~l~~~f~--~v~~~tGd~~~~-----------~~~~IiVtTp 130 (138)
.+...+.++.++++++|+. .-+++.++.+.+.|. .|+.++|+.+.. .+.+|+|||.
T Consensus 440 ~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~ 516 (630)
T TIGR00643 440 FIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATT 516 (630)
T ss_pred HHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECc
Confidence 3444456688999999975 346677788887665 789999987542 2678999996
No 444
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=83.78 E-value=2.3 Score=31.13 Aligned_cols=31 Identities=19% Similarity=0.076 Sum_probs=20.5
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
++.||-|||||..+.....+.-..|.+++.+
T Consensus 4 ~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~ 34 (200)
T cd01672 4 VFEGIDGAGKTTLIELLAERLEARGYEVVLT 34 (200)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 4899999999998864333222346666555
No 445
>PRK08356 hypothetical protein; Provisional
Probab=83.74 E-value=0.93 Score=34.33 Aligned_cols=17 Identities=29% Similarity=0.468 Sum_probs=14.9
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
++++|.|||||.++.+.
T Consensus 9 ~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 9 GVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 48999999999999755
No 446
>PRK14530 adenylate kinase; Provisional
Probab=83.71 E-value=1.3 Score=33.97 Aligned_cols=19 Identities=16% Similarity=-0.022 Sum_probs=15.5
Q ss_pred CceEECcCCCchHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~a 75 (138)
+.+|.+|+|||||.++...
T Consensus 5 ~I~i~G~pGsGKsT~~~~L 23 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNL 23 (215)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4569999999999988643
No 447
>PRK06321 replicative DNA helicase; Provisional
Probab=83.59 E-value=1.8 Score=37.86 Aligned_cols=33 Identities=27% Similarity=0.125 Sum_probs=24.3
Q ss_pred eEECcCCCchHHHHHHHHHHH-HHcCCcEEEEec
Q 042424 59 TLTNPVYNGKTAVAEYAIAMA-FRDKQRVIYTSS 91 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~-l~~~~rviyv~P 91 (138)
+|.|.+|.|||..++..+.++ ...|..++|++.
T Consensus 230 iiaarPgmGKTafal~ia~~~a~~~g~~v~~fSL 263 (472)
T PRK06321 230 ILAARPAMGKTALALNIAENFCFQNRLPVGIFSL 263 (472)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec
Confidence 489999999999998544443 345778877754
No 448
>PRK14737 gmk guanylate kinase; Provisional
Probab=83.59 E-value=0.98 Score=34.42 Aligned_cols=19 Identities=11% Similarity=0.258 Sum_probs=15.5
Q ss_pred eEECcCCCchHHHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIA 77 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~ 77 (138)
+|++|.|+|||.++-..+.
T Consensus 8 vl~GpsG~GK~tl~~~l~~ 26 (186)
T PRK14737 8 IISSVAGGGKSTIIQALLE 26 (186)
T ss_pred EEECCCCCCHHHHHHHHHh
Confidence 4999999999988765544
No 449
>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=83.53 E-value=1.3 Score=31.02 Aligned_cols=15 Identities=33% Similarity=0.607 Sum_probs=13.4
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
++++++|||||.+|.
T Consensus 3 ~i~G~~GsGKst~a~ 17 (147)
T cd02020 3 AIDGPAGSGKSTVAK 17 (147)
T ss_pred EEECCCCCCHHHHHH
Confidence 489999999999886
No 450
>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=83.53 E-value=5.4 Score=32.57 Aligned_cols=55 Identities=11% Similarity=0.160 Sum_probs=41.9
Q ss_pred HHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEEecCCcCC---------------CCCCEEEecH
Q 042424 76 IAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLMTGDVTLS---------------PNASCLVMTT 130 (138)
Q Consensus 76 i~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~tGd~~~~---------------~~~~IiVtTp 130 (138)
+...+..+++++++++++.-++..++.|++... .+..++|+.... .+..|+|||.
T Consensus 215 l~~~~~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~ 286 (358)
T TIGR01587 215 LLEFIKKGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQ 286 (358)
T ss_pred HHHHhhCCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECc
Confidence 334445689999999999999999999988554 588888875321 1556999996
No 451
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=83.46 E-value=1.1 Score=37.86 Aligned_cols=21 Identities=29% Similarity=0.200 Sum_probs=16.7
Q ss_pred CCceEECcCCCchHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai 76 (138)
.+.++.+|+|+|||+++....
T Consensus 166 ~gvLL~GppGtGKT~lAkaia 186 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVA 186 (389)
T ss_pred CceEEECCCCCChHHHHHHHH
Confidence 456799999999998876443
No 452
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=83.39 E-value=4 Score=30.31 Aligned_cols=30 Identities=20% Similarity=0.207 Sum_probs=20.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHH-cCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv 89 (138)
++.|+-|||||..+.... +++. .|.+++++
T Consensus 7 vieG~~GsGKsT~~~~L~-~~l~~~g~~v~~~ 37 (195)
T TIGR00041 7 VIEGIDGAGKTTQANLLK-KLLQENGYDVLFT 37 (195)
T ss_pred EEECCCCCCHHHHHHHHH-HHHHHcCCeEEEE
Confidence 499999999998886432 3444 36666554
No 453
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=83.23 E-value=3 Score=36.32 Aligned_cols=41 Identities=17% Similarity=0.077 Sum_probs=27.0
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQK 99 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~ 99 (138)
.+.++.+|.|+|||.+|.+... ..+.....+..+.+=+.+.
T Consensus 49 ~SmIl~GPPG~GKTTlA~liA~---~~~~~f~~~sAv~~gvkdl 89 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLIAG---TTNAAFEALSAVTSGVKDL 89 (436)
T ss_pred ceeEEECCCCCCHHHHHHHHHH---hhCCceEEeccccccHHHH
Confidence 6788999999999998764332 2245555555555444443
No 454
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=83.13 E-value=2.2 Score=35.82 Aligned_cols=30 Identities=17% Similarity=0.057 Sum_probs=20.0
Q ss_pred EECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
+++|.|+|||......+......|.++.++
T Consensus 61 i~G~~GaGKSTl~~~l~~~l~~~g~~v~vi 90 (332)
T PRK09435 61 ITGVPGVGKSTFIEALGMHLIEQGHKVAVL 90 (332)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 999999999998764444333445555433
No 455
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=83.07 E-value=2.2 Score=35.87 Aligned_cols=48 Identities=13% Similarity=0.237 Sum_probs=31.4
Q ss_pred EECcCCCchHHHHHHHHHHHHH---c---CCcEEEEechHHHHHHHHHHHHHhc
Q 042424 60 LTNPVYNGKTAVAEYAIAMAFR---D---KQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~l~---~---~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
++++.|+|||..++..+..+.. . +.+++|+----++--+...++.+.|
T Consensus 128 i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~~~ 181 (342)
T PLN03186 128 IYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERF 181 (342)
T ss_pred EECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHHHHc
Confidence 9999999999999744433321 1 3489998766655444444544444
No 456
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=82.92 E-value=2.2 Score=31.23 Aligned_cols=29 Identities=24% Similarity=0.125 Sum_probs=20.6
Q ss_pred EECcCCCchHHHHH-HHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAE-YAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~-~ai~~~l~~~~rviyv 89 (138)
.+.--|.|||.++. +|.. .-..|.|++++
T Consensus 5 ~s~kgG~GKTt~a~~LA~~-la~~g~~vllv 34 (169)
T cd02037 5 MSGKGGVGKSTVAVNLALA-LAKLGYKVGLL 34 (169)
T ss_pred ecCCCcCChhHHHHHHHHH-HHHcCCcEEEE
Confidence 45667899999997 4443 33568888777
No 457
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=82.91 E-value=2.3 Score=34.61 Aligned_cols=31 Identities=19% Similarity=0.193 Sum_probs=23.5
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcC-CcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDK-QRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~-~rviyv 89 (138)
++|+--|+|||.++.+.+.+.+.++ .+++.|
T Consensus 4 aI~GKGG~GKTtiaalll~~l~~~~~~~VLvV 35 (255)
T COG3640 4 AITGKGGVGKTTIAALLLKRLLSKGGYNVLVV 35 (255)
T ss_pred EEecCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 5899999999999987555556665 666655
No 458
>PTZ00293 thymidine kinase; Provisional
Probab=82.90 E-value=2.4 Score=33.44 Aligned_cols=34 Identities=12% Similarity=0.205 Sum_probs=27.4
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
++++|-+||||.-.+..+.+....|++++++-|.
T Consensus 8 vi~GpMfSGKTteLLr~i~~y~~ag~kv~~~kp~ 41 (211)
T PTZ00293 8 VIIGPMFSGKTTELMRLVKRFTYSEKKCVVIKYS 41 (211)
T ss_pred EEECCCCChHHHHHHHHHHHHHHcCCceEEEEec
Confidence 4899999999976666676666678899888885
No 459
>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=82.85 E-value=1.6 Score=29.99 Aligned_cols=20 Identities=20% Similarity=0.140 Sum_probs=15.5
Q ss_pred EECcCCCchHHHHHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIAMA 79 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~~~ 79 (138)
+.+|.|.|||..+...+...
T Consensus 3 i~G~~G~GKS~l~~~l~~~l 22 (107)
T PF00910_consen 3 IYGPPGIGKSTLAKELAKDL 22 (107)
T ss_pred EECCCCCCHHHHHHHHHHHH
Confidence 78999999999997544333
No 460
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=82.83 E-value=2.7 Score=31.22 Aligned_cols=31 Identities=23% Similarity=0.054 Sum_probs=19.8
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.++++.|+|||.++..........|..++++
T Consensus 22 ~i~G~~GsGKstla~~l~~~l~~~~~~~~~l 52 (184)
T TIGR00455 22 WLTGLSGSGKSTIANALEKKLESKGYRVYVL 52 (184)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 3999999999988754333322334445554
No 461
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=82.83 E-value=1.1 Score=34.14 Aligned_cols=15 Identities=33% Similarity=0.322 Sum_probs=13.1
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
.|++|+|||||..+.
T Consensus 10 ~I~G~sGsGKSTl~~ 24 (207)
T TIGR00235 10 GIGGGSGSGKTTVAR 24 (207)
T ss_pred EEECCCCCCHHHHHH
Confidence 399999999998774
No 462
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=82.77 E-value=2.2 Score=34.79 Aligned_cols=30 Identities=20% Similarity=0.113 Sum_probs=21.5
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.++++.|||||.++...+....++| ++.++
T Consensus 5 ~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~I 34 (274)
T PRK14493 5 SIVGYKATGKTTLVERLVDRLSGRG-RVGTV 34 (274)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhCC-CEEEE
Confidence 3889999999999876665544456 55444
No 463
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=82.60 E-value=1.7 Score=34.02 Aligned_cols=30 Identities=30% Similarity=0.254 Sum_probs=20.1
Q ss_pred EECcCCCchHHHHH-HHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAE-YAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~-~ai~~~l~~~~rviyv 89 (138)
..---|.|||.++. +|..-+...|+|++++
T Consensus 8 ~n~KGGvGKTT~a~nLa~~La~~~~~kVLli 38 (259)
T COG1192 8 ANQKGGVGKTTTAVNLAAALAKRGGKKVLLI 38 (259)
T ss_pred EecCCCccHHHHHHHHHHHHHHhcCCcEEEE
Confidence 44557899999997 4554443455777665
No 464
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=82.53 E-value=2 Score=39.37 Aligned_cols=56 Identities=18% Similarity=0.051 Sum_probs=38.3
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM 113 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~ 113 (138)
..+.++.||||||||......- .+..+..+|++=|--++.+......++ .+ .|-++
T Consensus 139 ~~hvlviApTgSGKgvg~VIPn--LL~~~gS~VV~DpKGE~~~~Ta~~R~~-~G~~V~~F 195 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPT--LLTFKGSVIALDVKGELFELTSRARKA-SGDAVFKF 195 (670)
T ss_pred CceEEEEecCCCCceeeehHhH--HhcCCCCEEEEeCCchHHHHHHHHHHh-CCCEEEEe
Confidence 3577899999999998764322 234467888888888888776654444 66 35443
No 465
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=82.51 E-value=0.96 Score=33.93 Aligned_cols=18 Identities=22% Similarity=0.126 Sum_probs=14.7
Q ss_pred CceEECcCCCchHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ 74 (138)
..+|.+|.|||||.++-.
T Consensus 4 ~i~l~G~sGsGKsTl~~~ 21 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAA 21 (186)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 346999999999988753
No 466
>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=82.39 E-value=0.44 Score=34.50 Aligned_cols=37 Identities=27% Similarity=0.222 Sum_probs=22.3
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQ 98 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q 98 (138)
++.++-|||||...- ++.+++ |..-.+.+||=+|++.
T Consensus 19 ~L~GdLGaGKTtf~r-~l~~~l--g~~~~V~SPTF~l~~~ 55 (123)
T PF02367_consen 19 LLSGDLGAGKTTFVR-GLARAL--GIDEEVTSPTFSLVNE 55 (123)
T ss_dssp EEEESTTSSHHHHHH-HHHHHT--T--S----TTTTSEEE
T ss_pred EEECCCCCCHHHHHH-HHHHHc--CCCCCcCCCCeEEEEE
Confidence 399999999998765 444444 4444788999887643
No 467
>PRK01184 hypothetical protein; Provisional
Probab=82.37 E-value=1.1 Score=33.15 Aligned_cols=16 Identities=13% Similarity=0.090 Sum_probs=13.8
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
.+++|.|||||.++.+
T Consensus 5 ~l~G~~GsGKsT~a~~ 20 (184)
T PRK01184 5 GVVGMPGSGKGEFSKI 20 (184)
T ss_pred EEECCCCCCHHHHHHH
Confidence 4899999999998763
No 468
>PRK06620 hypothetical protein; Validated
Probab=82.36 E-value=0.91 Score=35.37 Aligned_cols=17 Identities=24% Similarity=0.327 Sum_probs=14.3
Q ss_pred CceEECcCCCchHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~ 73 (138)
..+++||.|+|||..+.
T Consensus 46 ~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 46 TLLIKGPSSSGKTYLTK 62 (214)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 35699999999998765
No 469
>PRK06749 replicative DNA helicase; Provisional
Probab=82.16 E-value=2.2 Score=36.80 Aligned_cols=34 Identities=26% Similarity=-0.024 Sum_probs=25.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEech
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSL 92 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~ 92 (138)
+|.|.+|.|||..++..+.++..+|..++|++.-
T Consensus 190 iIaarPgmGKTafal~ia~~~a~~g~~v~~fSlE 223 (428)
T PRK06749 190 VLGARPSMGKTAFALNVGLHAAKSGAAVGLFSLE 223 (428)
T ss_pred EEEeCCCCCchHHHHHHHHHHHhcCCCEEEEEee
Confidence 4899999999999985555555667788777543
No 470
>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=82.14 E-value=1.5 Score=31.02 Aligned_cols=17 Identities=29% Similarity=0.225 Sum_probs=14.4
Q ss_pred ceEECcCCCchHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEY 74 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ 74 (138)
.+++++.|||||.++..
T Consensus 2 i~l~G~~GsGKstla~~ 18 (154)
T cd00464 2 IVLIGMMGAGKTTVGRL 18 (154)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 46899999999998853
No 471
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=82.14 E-value=4.4 Score=36.16 Aligned_cols=49 Identities=27% Similarity=0.304 Sum_probs=39.8
Q ss_pred CCcEEEEechHHHHHHHHHHHHHhcCceEEEecCCcCC-----------CCCCEEEecHH
Q 042424 83 KQRVIYTSSLKALSNQKYRELHKEFKDVGLMTGDVTLS-----------PNASCLVMTTE 131 (138)
Q Consensus 83 ~~rviyv~P~kaLv~Q~~~~l~~~f~~v~~~tGd~~~~-----------~~~~IiVtTpe 131 (138)
+.++|++++++..+++.++.|.+..-.+..++|+.... .+.+|||||..
T Consensus 257 ~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv 316 (572)
T PRK04537 257 GARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDV 316 (572)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehh
Confidence 67899999999999999999987433899999986542 26789999953
No 472
>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]
Probab=82.07 E-value=0.74 Score=44.13 Aligned_cols=76 Identities=18% Similarity=0.114 Sum_probs=42.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCcchhhh-hc------CCCCCCcccccccCCCCccCCCCCCC-ceEECcCCCchHHHHHHH
Q 042424 4 SQTPGKRKAPKADSHVRGTPKEESTK-KQ------RNPTRSCVHEVAVPSCYTLTTDETTH-GTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~p~~~~~~-~~------~~~~~~~~~~~~~p~~y~~~~~~~~~-~~l~aPTGsGKTlva~~a 75 (138)
+|+-+.++.+..|.+..+.-.-..-. .. .+..+-+.-...+|.-|+.+.....+ .++++|.|+|||+++...
T Consensus 240 ~~~~~~~~~~~~d~dp~~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araL 319 (1080)
T KOG0732|consen 240 LQTAGLRVQKEADSDPLSVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARAL 319 (1080)
T ss_pred cccchhhcccccccCchhhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhh
Confidence 45666666666666554432211111 00 00113344455566667655444444 569999999999998755
Q ss_pred HHHH
Q 042424 76 IAMA 79 (138)
Q Consensus 76 i~~~ 79 (138)
+..+
T Consensus 320 a~~~ 323 (1080)
T KOG0732|consen 320 AAAC 323 (1080)
T ss_pred hhhh
Confidence 4444
No 473
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=82.06 E-value=2.4 Score=32.64 Aligned_cols=29 Identities=21% Similarity=0.192 Sum_probs=20.4
Q ss_pred EECcCCCchHHHHH-HHHHHHHHcCCcEEEE
Q 042424 60 LTNPVYNGKTAVAE-YAIAMAFRDKQRVIYT 89 (138)
Q Consensus 60 l~aPTGsGKTlva~-~ai~~~l~~~~rviyv 89 (138)
.++-.|.|||.++. +|..- .+.|.|++++
T Consensus 7 ~s~kGGvGKTt~a~~lA~~l-a~~g~~vlli 36 (261)
T TIGR01968 7 TSGKGGVGKTTTTANLGTAL-ARLGKKVVLI 36 (261)
T ss_pred ecCCCCccHHHHHHHHHHHH-HHcCCeEEEE
Confidence 66778999999987 44432 2457777765
No 474
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=82.06 E-value=4.2 Score=36.87 Aligned_cols=48 Identities=15% Similarity=0.151 Sum_probs=32.6
Q ss_pred CceEECcCCCchHHHHHHHHHHHHH--c--CCcEEEEechHHHHHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFR--D--KQRVIYTSSLKALSNQKYRELH 104 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~--~--~~rviyv~P~kaLv~Q~~~~l~ 104 (138)
-.+|+++.|+|||.+....+...++ . ..+++.++||---+....+.+.
T Consensus 169 ~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 169 ISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 3559999999999887533332222 2 3578889999766666665554
No 475
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=82.04 E-value=2.8 Score=31.28 Aligned_cols=31 Identities=23% Similarity=0.104 Sum_probs=20.6
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv 89 (138)
.++++.|||||.+....+...-..|.++-++
T Consensus 5 ~i~G~~gsGKTTli~~L~~~l~~~g~~V~~i 35 (159)
T cd03116 5 GFVGYSGSGKTTLLEKLIPALSARGLRVAVI 35 (159)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 3899999999998875554432345555333
No 476
>PLN02840 tRNA dimethylallyltransferase
Probab=82.04 E-value=1.3 Score=38.48 Aligned_cols=15 Identities=27% Similarity=0.448 Sum_probs=13.6
Q ss_pred eEECcCCCchHHHHH
Q 042424 59 TLTNPVYNGKTAVAE 73 (138)
Q Consensus 59 ~l~aPTGsGKTlva~ 73 (138)
+|.+|||||||.++.
T Consensus 25 ~I~GptgsGKTtla~ 39 (421)
T PLN02840 25 VISGPTGAGKSRLAL 39 (421)
T ss_pred EEECCCCCCHHHHHH
Confidence 499999999999886
No 477
>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=81.95 E-value=1.5 Score=35.19 Aligned_cols=20 Identities=35% Similarity=0.295 Sum_probs=16.0
Q ss_pred CCceEECcCCCchHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~a 75 (138)
.+.++++|.|+|||..+...
T Consensus 31 ~~~ll~Gp~G~GKT~la~~i 50 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHII 50 (305)
T ss_pred CeEEEECCCCCCHHHHHHHH
Confidence 35679999999999887643
No 478
>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=81.91 E-value=1.7 Score=32.39 Aligned_cols=20 Identities=30% Similarity=0.345 Sum_probs=15.7
Q ss_pred CceEECcCCCchHHHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai 76 (138)
..+|++|+|+||+.++...+
T Consensus 4 ~ivl~Gpsg~GK~~l~~~L~ 23 (183)
T PF00625_consen 4 PIVLVGPSGSGKSTLAKRLI 23 (183)
T ss_dssp EEEEESSTTSSHHHHHHHHH
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 35699999999997765444
No 479
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=81.88 E-value=2.6 Score=40.56 Aligned_cols=76 Identities=16% Similarity=0.019 Sum_probs=45.2
Q ss_pred CCceEECcCCCchHHHHHH-HHHHHHHcCCcEEEEechHHHHHHHHHHHHHh---cC-ceEEEec-CCcCCC-----CCC
Q 042424 56 THGTLTNPVYNGKTAVAEY-AIAMAFRDKQRVIYTSSLKALSNQKYRELHKE---FK-DVGLMTG-DVTLSP-----NAS 124 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~-ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~---f~-~v~~~tG-d~~~~~-----~~~ 124 (138)
...+.-..||-|||++|-+ +.+.||. |+.+-+|...-=|+..=++.+... ++ +||.+.. +..... .++
T Consensus 183 ~G~IAEM~TGEGKTLvAtlp~yLnAL~-GkgVHvVTVNDYLA~RDaewmgply~fLGLsvg~i~~~~~~~~~rr~aY~~D 261 (1112)
T PRK12901 183 QGKIAEMATGEGKTLVATLPVYLNALT-GNGVHVVTVNDYLAKRDSEWMGPLYEFHGLSVDCIDKHQPNSEARRKAYNAD 261 (1112)
T ss_pred CCceeeecCCCCchhHHHHHHHHHHHc-CCCcEEEEechhhhhccHHHHHHHHHHhCCceeecCCCCCCHHHHHHhCCCc
Confidence 4556788999999999975 5555554 555444444444666555444443 34 7877644 212111 677
Q ss_pred EEEecHHH
Q 042424 125 CLVMTTEI 132 (138)
Q Consensus 125 IiVtTpe~ 132 (138)
|.-+|.-.
T Consensus 262 ItYgTn~E 269 (1112)
T PRK12901 262 ITYGTNNE 269 (1112)
T ss_pred ceecCCCc
Confidence 77777543
No 480
>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=81.86 E-value=1.5 Score=31.32 Aligned_cols=16 Identities=19% Similarity=0.221 Sum_probs=13.9
Q ss_pred eEECcCCCchHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEY 74 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ 74 (138)
+++++.|||||.++-.
T Consensus 3 ~l~G~~GsGKST~a~~ 18 (150)
T cd02021 3 VVMGVSGSGKSTVGKA 18 (150)
T ss_pred EEEcCCCCCHHHHHHH
Confidence 4899999999998864
No 481
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=81.73 E-value=1.2 Score=38.52 Aligned_cols=39 Identities=21% Similarity=0.271 Sum_probs=29.3
Q ss_pred EECcCCCchHHHHHH-HHHHHHHcC--CcEEEEechHHHHHH
Q 042424 60 LTNPVYNGKTAVAEY-AIAMAFRDK--QRVIYTSSLKALSNQ 98 (138)
Q Consensus 60 l~aPTGsGKTlva~~-ai~~~l~~~--~rviyv~P~kaLv~Q 98 (138)
+.++-|+|||+.|+. ++.+.+.++ +++|+.=|+..+.++
T Consensus 250 L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~d 291 (436)
T COG1875 250 LGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGED 291 (436)
T ss_pred eeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccc
Confidence 899999999999985 455555543 678888888777643
No 482
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=81.68 E-value=2.7 Score=34.60 Aligned_cols=30 Identities=17% Similarity=0.150 Sum_probs=18.9
Q ss_pred eEECcCCCchHHHHHHHHHHHHH-cCCcEEEE
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFR-DKQRVIYT 89 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~-~~~rviyv 89 (138)
.++|++|||||.++.. +.+.+. .|.++.++
T Consensus 3 gItG~SGSGKTTv~~~-l~~~l~~~g~~v~vI 33 (277)
T cd02029 3 AVTGSSGAGTTTVKRA-FEHIFAREGIHPAVV 33 (277)
T ss_pred EEECCCCCCHHHHHHH-HHHHHHhcCCceEEE
Confidence 3899999999999852 222333 24444444
No 483
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=81.65 E-value=2.3 Score=33.06 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=12.9
Q ss_pred EECcCCCchHHHHH
Q 042424 60 LTNPVYNGKTAVAE 73 (138)
Q Consensus 60 l~aPTGsGKTlva~ 73 (138)
|.+|+|||||..+.
T Consensus 38 i~G~~GsGKTTl~~ 51 (229)
T PRK09270 38 IAGPPGAGKSTLAE 51 (229)
T ss_pred EECCCCCCHHHHHH
Confidence 99999999999875
No 484
>PRK06547 hypothetical protein; Provisional
Probab=81.56 E-value=1.5 Score=33.00 Aligned_cols=17 Identities=24% Similarity=0.194 Sum_probs=14.0
Q ss_pred eEECcCCCchHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYA 75 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~a 75 (138)
+|.++.|||||.++...
T Consensus 19 ~i~G~~GsGKTt~a~~l 35 (172)
T PRK06547 19 LIDGRSGSGKTTLAGAL 35 (172)
T ss_pred EEECCCCCCHHHHHHHH
Confidence 38899999999988543
No 485
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=81.48 E-value=2.7 Score=32.07 Aligned_cols=18 Identities=22% Similarity=0.174 Sum_probs=14.5
Q ss_pred EECcCCCchHHHHHHHHH
Q 042424 60 LTNPVYNGKTAVAEYAIA 77 (138)
Q Consensus 60 l~aPTGsGKTlva~~ai~ 77 (138)
++++.|||||......+.
T Consensus 11 ivG~sgsGKTTLi~~li~ 28 (173)
T PRK10751 11 IAAWSGTGKTTLLKKLIP 28 (173)
T ss_pred EECCCCChHHHHHHHHHH
Confidence 999999999988764443
No 486
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=81.41 E-value=5.3 Score=36.64 Aligned_cols=41 Identities=27% Similarity=0.205 Sum_probs=26.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHc------CCcEEEEechHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRD------KQRVIYTSSLKALS 96 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~------~~rviyv~P~kaLv 96 (138)
.|.++.+|.|+|||.++.....+.... ...-+|.+..-+|+
T Consensus 204 ~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~ 250 (731)
T TIGR02639 204 NNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLL 250 (731)
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHh
Confidence 578899999999999987544443222 12334455554554
No 487
>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=81.38 E-value=2.3 Score=38.33 Aligned_cols=36 Identities=14% Similarity=0.105 Sum_probs=24.1
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC--CcEEEEech
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK--QRVIYTSSL 92 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~--~rviyv~P~ 92 (138)
.+.++++|+|+|||.++.... ..+... ..++|+...
T Consensus 38 ~~~ll~G~pG~GKT~la~~la-~~l~~~~~~~~~~~~n~ 75 (608)
T TIGR00764 38 RNVLLIGEPGVGKSMLAKAMA-ELLPDEELEDILVYPNP 75 (608)
T ss_pred CCEEEECCCCCCHHHHHHHHH-HHcCchhheeEEEEeCC
Confidence 577799999999999886433 444443 445555444
No 488
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=81.35 E-value=1.4 Score=36.67 Aligned_cols=21 Identities=29% Similarity=0.200 Sum_probs=16.5
Q ss_pred CCceEECcCCCchHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai 76 (138)
...++.+|.|+|||.++....
T Consensus 157 ~gvLL~GppGtGKT~lakaia 177 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLAKAVA 177 (364)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 446799999999998876443
No 489
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=81.29 E-value=2.3 Score=37.08 Aligned_cols=48 Identities=21% Similarity=0.164 Sum_probs=31.9
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHH
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYREL 103 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l 103 (138)
.+.++.+|.|.|||..|-+.+...-.+..+.|-++-+.+-+++...-|
T Consensus 163 pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~if 210 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIF 210 (554)
T ss_pred CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHH
Confidence 467799999999998886655433223455666677766665554444
No 490
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=81.26 E-value=5.1 Score=36.46 Aligned_cols=56 Identities=25% Similarity=0.376 Sum_probs=40.9
Q ss_pred HHHHHHHcCCcEEEEechH--------HHHHHHHHHHHHhcC--ceEEEecCCcCC-----------CCCCEEEecH
Q 042424 75 AIAMAFRDKQRVIYTSSLK--------ALSNQKYRELHKEFK--DVGLMTGDVTLS-----------PNASCLVMTT 130 (138)
Q Consensus 75 ai~~~l~~~~rviyv~P~k--------aLv~Q~~~~l~~~f~--~v~~~tGd~~~~-----------~~~~IiVtTp 130 (138)
.+...+.+|.++++++|+. .-+.+.++.|++.|. .|+.++|+.... .+.+|+|||.
T Consensus 463 ~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~ 539 (681)
T PRK10917 463 RIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATT 539 (681)
T ss_pred HHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECc
Confidence 3444456789999999953 335677888888775 799999986532 1678999996
No 491
>PRK06217 hypothetical protein; Validated
Probab=81.24 E-value=0.98 Score=33.79 Aligned_cols=16 Identities=19% Similarity=0.194 Sum_probs=14.0
Q ss_pred ceEECcCCCchHHHHH
Q 042424 58 GTLTNPVYNGKTAVAE 73 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~ 73 (138)
.+|.+++|||||.++.
T Consensus 4 I~i~G~~GsGKSTla~ 19 (183)
T PRK06217 4 IHITGASGSGTTTLGA 19 (183)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4699999999999885
No 492
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=81.18 E-value=2.5 Score=38.46 Aligned_cols=56 Identities=13% Similarity=0.064 Sum_probs=39.6
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM 113 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~ 113 (138)
..+.++.||||+|||...... ..+..+..+|++=|--++...... +++.++ +|-++
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIP--nLL~~~gS~VV~DpKgEl~~~Ta~-~R~~~G~~V~vf 280 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVP--TALKWGGPLVVLDPSTEVAPMVSE-HRRDAGREVIVL 280 (641)
T ss_pred CceEEEEeCCCCCccceEehh--hhhcCCCCEEEEeCcHHHHHHHHH-HHHHCCCeEEEE
Confidence 367889999999999865433 234557788888898888776554 455566 56555
No 493
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=81.14 E-value=4.7 Score=32.41 Aligned_cols=41 Identities=17% Similarity=0.197 Sum_probs=31.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEec---hHHHHHHH
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS---LKALSNQK 99 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P---~kaLv~Q~ 99 (138)
++-++.|+|||+.+...+.=.|..|.++.|++- .+..+.|+
T Consensus 32 lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm 75 (235)
T COG2874 32 LIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQM 75 (235)
T ss_pred EEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHH
Confidence 389999999999987666666778899888864 34444444
No 494
>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=81.13 E-value=3.1 Score=37.84 Aligned_cols=55 Identities=11% Similarity=0.007 Sum_probs=39.7
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC--ceEEE
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK--DVGLM 113 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~--~v~~~ 113 (138)
.+.++.||||||||+..... ..+..+..+|++=|--++...... +++.++ .|-++
T Consensus 212 ~H~lv~ApTgsGKgvg~VIP--nLL~~~gS~VV~DpKgE~~~~Ta~-~R~~~Gg~~V~vf 268 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVP--TALKYGGPLVCLDPSTEVAPMVCE-HRRQAGNRKVIVL 268 (623)
T ss_pred ceEEEEeCCCCCccceeehh--hhhcCCCCEEEEEChHHHHHHHHH-HHHHcCCCcEEEE
Confidence 57889999999999865433 345667889999998888776664 454454 55555
No 495
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=81.11 E-value=1.8 Score=39.30 Aligned_cols=57 Identities=16% Similarity=-0.034 Sum_probs=37.5
Q ss_pred CCCceEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhcC-ceEEE
Q 042424 55 TTHGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEFK-DVGLM 113 (138)
Q Consensus 55 ~~~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f~-~v~~~ 113 (138)
..+.++.||||||||......- .+..+..+|++=|--++......-.++..+ .|-++
T Consensus 175 ~~HvlviapTgSGKgvg~ViPn--LL~~~~S~VV~D~KGE~~~~Tag~R~~~~G~~V~~f 232 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPT--LLSWGHSSVITDLKGELWALTAGWRQKHAKNKVLRF 232 (636)
T ss_pred CceEEEEecCCCCCceEEEccc--hhhCCCCEEEEeCcHHHHHHHHHHHHHhCCCeEEEE
Confidence 3678899999999998654222 134578888888888887555443334334 45443
No 496
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=81.04 E-value=5.1 Score=38.62 Aligned_cols=48 Identities=23% Similarity=0.273 Sum_probs=40.0
Q ss_pred eEECcCCCchHHHHHHHHHHHHHcCCcEEEEechHHHHHHHHHHHHHhc
Q 042424 59 TLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSSLKALSNQKYRELHKEF 107 (138)
Q Consensus 59 ~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P~kaLv~Q~~~~l~~~f 107 (138)
++.+-+|+|||....-.+...+.+|++++|++|. ++.-|+-+++-+..
T Consensus 5 ~lyg~~gtgkT~~l~~e~~~~~~~gkpviyIvP~-q~sFe~E~~~L~~~ 52 (1108)
T COG3857 5 LLYGRAGTGKTEILTEEIQEELEKGKPVIYIVPS-QMSFEKEKEILERL 52 (1108)
T ss_pred eehhhccccHHHHHHHHHHHHHHcCCcEEEEccc-chhHHHHHHHHhCc
Confidence 5788899999988888888888899999999998 56677777776644
No 497
>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=81.02 E-value=1.1 Score=34.21 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=14.0
Q ss_pred CceEECcCCCchHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAE 73 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~ 73 (138)
-.++++|+|+|||.+..
T Consensus 26 ~~~i~G~NGsGKS~ile 42 (220)
T PF02463_consen 26 LNVIVGPNGSGKSNILE 42 (220)
T ss_dssp EEEEEESTTSSHHHHHH
T ss_pred CEEEEcCCCCCHHHHHH
Confidence 34699999999998764
No 498
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.80 E-value=5.2 Score=38.48 Aligned_cols=53 Identities=8% Similarity=0.034 Sum_probs=42.5
Q ss_pred CCceEECcCCCchHHHHHHHHHHHHHcC-----CcEEEEechHHHHHHHHHHHHHhcC
Q 042424 56 THGTLTNPVYNGKTAVAEYAIAMAFRDK-----QRVIYTSSLKALSNQKYRELHKEFK 108 (138)
Q Consensus 56 ~~~~l~aPTGsGKTlva~~ai~~~l~~~-----~rviyv~P~kaLv~Q~~~~l~~~f~ 108 (138)
+..+|.|.-|+|||........+.+..+ .++++|.=|++=+.+...++++++.
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~rL~ 67 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRGRIH 67 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHHHHH
Confidence 5678999999999998765555555433 6799999999999999999988764
No 499
>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=80.79 E-value=1.7 Score=32.17 Aligned_cols=19 Identities=21% Similarity=0.142 Sum_probs=15.3
Q ss_pred ceEECcCCCchHHHHHHHH
Q 042424 58 GTLTNPVYNGKTAVAEYAI 76 (138)
Q Consensus 58 ~~l~aPTGsGKTlva~~ai 76 (138)
.++++|.|||||.++....
T Consensus 5 i~l~G~~gsGKst~a~~l~ 23 (175)
T cd00227 5 IILNGGSSAGKSSIARALQ 23 (175)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 3599999999999986433
No 500
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=80.47 E-value=3.3 Score=33.69 Aligned_cols=44 Identities=18% Similarity=0.085 Sum_probs=26.9
Q ss_pred CceEECcCCCchHHHHHHHHHHHHHcCCcEEEEec--hH-HHHHHHH
Q 042424 57 HGTLTNPVYNGKTAVAEYAIAMAFRDKQRVIYTSS--LK-ALSNQKY 100 (138)
Q Consensus 57 ~~~l~aPTGsGKTlva~~ai~~~l~~~~rviyv~P--~k-aLv~Q~~ 100 (138)
..++.+|+|+|||..+.........++.++.++.- .+ +.++|..
T Consensus 77 ~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~ 123 (270)
T PRK06731 77 TIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 123 (270)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHH
Confidence 45599999999999876444333344566655443 22 4555543
Done!