Query 031382
Match_columns 160
No_of_seqs 166 out of 272
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 13:18:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031382.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031382hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14617 CMS1: U3-containing 9 100.0 8.8E-40 1.9E-44 275.6 9.9 138 13-157 48-189 (252)
2 KOG3089 Predicted DEAD-box-con 99.9 6.3E-24 1.4E-28 177.8 1.5 135 10-157 71-208 (271)
3 KOG0331 ATP-dependent RNA heli 99.2 2.9E-11 6.3E-16 111.3 5.0 64 93-157 162-227 (519)
4 COG0513 SrmB Superfamily II DN 99.1 8E-11 1.7E-15 107.3 5.2 58 99-157 102-162 (513)
5 KOG0339 ATP-dependent RNA heli 98.9 1.2E-09 2.5E-14 101.4 5.0 63 94-157 294-358 (731)
6 KOG0345 ATP-dependent RNA heli 98.8 1.6E-08 3.5E-13 92.8 7.9 126 23-157 13-143 (567)
7 KOG0334 RNA helicase [RNA proc 98.8 8.3E-09 1.8E-13 100.6 5.4 63 94-157 436-500 (997)
8 KOG0347 RNA helicase [RNA proc 98.8 6.7E-09 1.5E-13 96.9 4.5 60 97-157 264-325 (731)
9 KOG0329 ATP-dependent RNA heli 98.8 4.6E-09 1E-13 91.2 3.2 68 89-157 103-173 (387)
10 KOG0341 DEAD-box protein abstr 98.7 1.2E-08 2.5E-13 92.7 5.7 63 94-157 244-314 (610)
11 KOG0349 Putative DEAD-box RNA 98.7 2E-08 4.3E-13 92.3 5.1 68 89-157 279-351 (725)
12 PRK11776 ATP-dependent RNA hel 98.7 2.3E-08 5E-13 88.8 5.0 62 95-157 71-135 (460)
13 KOG0338 ATP-dependent RNA heli 98.7 3.5E-08 7.5E-13 91.7 5.7 63 94-157 250-314 (691)
14 KOG0330 ATP-dependent RNA heli 98.6 2.8E-08 6.2E-13 89.6 4.9 64 93-157 126-191 (476)
15 PRK11634 ATP-dependent RNA hel 98.6 2.6E-08 5.7E-13 93.2 4.6 62 95-157 73-137 (629)
16 KOG0335 ATP-dependent RNA heli 98.6 4.3E-08 9.4E-13 89.8 4.6 62 95-157 151-214 (482)
17 KOG0333 U5 snRNP-like RNA heli 98.6 3.7E-08 8.1E-13 91.6 3.9 62 95-157 321-384 (673)
18 PRK04837 ATP-dependent RNA hel 98.6 6.5E-08 1.4E-12 85.0 4.8 63 94-157 81-145 (423)
19 PTZ00110 helicase; Provisional 98.5 8.3E-08 1.8E-12 88.1 5.0 62 95-157 202-265 (545)
20 KOG0326 ATP-dependent RNA heli 98.5 2.5E-08 5.4E-13 88.7 1.2 71 86-157 143-215 (459)
21 KOG0328 Predicted ATP-dependen 98.5 9.6E-08 2.1E-12 83.9 3.0 64 93-157 92-157 (400)
22 KOG0348 ATP-dependent RNA heli 98.4 1.8E-07 3.8E-12 87.4 4.1 63 94-157 209-274 (708)
23 KOG0342 ATP-dependent RNA heli 98.4 4.1E-07 8.9E-12 83.8 6.3 63 94-157 152-217 (543)
24 PRK04537 ATP-dependent RNA hel 98.4 2.7E-07 5.9E-12 85.4 5.0 62 95-157 83-146 (572)
25 PRK10590 ATP-dependent RNA hel 98.4 3.6E-07 7.8E-12 81.6 5.1 62 95-157 74-137 (456)
26 PLN00206 DEAD-box ATP-dependen 98.4 3.2E-07 6.9E-12 83.6 4.7 62 95-157 195-258 (518)
27 PRK11192 ATP-dependent RNA hel 98.4 4.1E-07 8.9E-12 80.0 5.1 63 94-157 71-135 (434)
28 KOG4284 DEAD box protein [Tran 98.3 7.2E-07 1.6E-11 85.0 4.0 64 92-157 89-155 (980)
29 KOG0336 ATP-dependent RNA heli 98.3 1E-06 2.2E-11 80.6 4.8 64 93-157 291-355 (629)
30 KOG0343 RNA Helicase [RNA proc 98.2 1.5E-06 3.3E-11 81.6 4.2 60 95-157 140-202 (758)
31 PRK01297 ATP-dependent RNA hel 98.1 3.4E-06 7.3E-11 75.5 4.6 62 95-157 161-225 (475)
32 KOG0337 ATP-dependent RNA heli 98.0 7.6E-06 1.7E-10 74.9 5.6 63 94-157 88-152 (529)
33 KOG0340 ATP-dependent RNA heli 98.0 6.1E-06 1.3E-10 74.2 4.5 68 89-157 68-137 (442)
34 KOG0350 DEAD-box ATP-dependent 98.0 7.6E-06 1.7E-10 76.0 4.3 62 95-157 214-282 (620)
35 PTZ00424 helicase 45; Provisio 97.8 2.8E-05 6E-10 67.1 5.5 62 95-157 95-158 (401)
36 KOG0346 RNA helicase [RNA proc 97.8 2E-05 4.3E-10 72.5 4.6 66 92-158 89-158 (569)
37 PRK09401 reverse gyrase; Revie 97.8 5.9E-05 1.3E-09 75.6 8.1 62 96-157 123-191 (1176)
38 PRK12899 secA preprotein trans 97.8 3.9E-05 8.4E-10 75.5 6.4 55 99-156 138-194 (970)
39 cd00268 DEADc DEAD-box helicas 97.6 0.0001 2.2E-09 57.6 5.2 61 95-156 68-130 (203)
40 KOG0327 Translation initiation 97.6 1.5E-05 3.2E-10 71.6 0.5 70 88-158 86-158 (397)
41 TIGR01054 rgy reverse gyrase. 97.4 0.00015 3.2E-09 72.7 4.9 61 96-157 121-190 (1171)
42 PRK14701 reverse gyrase; Provi 97.4 0.0002 4.3E-09 74.0 5.4 61 96-157 122-190 (1638)
43 TIGR02621 cas3_GSU0051 CRISPR- 97.4 0.00018 3.9E-09 70.2 4.6 59 94-153 59-143 (844)
44 PRK10917 ATP-dependent DNA hel 97.4 0.00022 4.7E-09 67.4 5.0 61 96-157 310-376 (681)
45 PF00270 DEAD: DEAD/DEAH box h 97.3 0.00036 7.8E-09 52.3 4.4 60 97-157 45-107 (169)
46 TIGR00643 recG ATP-dependent D 97.2 0.0004 8.7E-09 65.0 4.2 61 96-157 284-350 (630)
47 TIGR03817 DECH_helic helicase/ 97.1 0.00055 1.2E-08 65.6 4.5 60 96-157 81-141 (742)
48 TIGR00963 secA preprotein tran 96.8 0.0027 5.9E-08 61.4 6.6 56 98-156 99-156 (745)
49 PRK13104 secA preprotein trans 96.8 0.0027 5.9E-08 62.5 6.6 57 97-156 124-182 (896)
50 PRK09751 putative ATP-dependen 96.7 0.002 4.2E-08 66.4 5.0 62 95-157 36-111 (1490)
51 PRK10689 transcription-repair 96.7 0.0023 4.9E-08 64.4 5.1 61 95-156 648-714 (1147)
52 PRK13767 ATP-dependent helicas 96.6 0.0028 6.1E-08 61.8 4.7 63 94-157 82-158 (876)
53 PRK09200 preprotein translocas 96.4 0.0073 1.6E-07 58.8 6.7 60 96-157 119-180 (790)
54 PRK12898 secA preprotein trans 95.9 0.01 2.3E-07 56.7 4.7 59 95-156 143-203 (656)
55 TIGR00580 mfd transcription-re 95.8 0.011 2.4E-07 58.4 4.7 58 96-154 500-563 (926)
56 TIGR03714 secA2 accessory Sec 95.8 0.018 3.9E-07 56.0 5.9 61 97-157 112-176 (762)
57 PRK05580 primosome assembly pr 95.7 0.017 3.6E-07 55.0 5.2 61 96-158 190-254 (679)
58 KOG0344 ATP-dependent RNA heli 95.4 0.007 1.5E-07 57.1 1.5 65 93-157 206-274 (593)
59 PRK12904 preprotein translocas 95.3 0.043 9.3E-07 53.9 6.7 56 98-156 124-181 (830)
60 TIGR00614 recQ_fam ATP-depende 94.9 0.033 7.2E-07 50.1 4.3 58 97-157 52-113 (470)
61 PLN03137 ATP-dependent DNA hel 94.8 0.039 8.4E-07 56.0 4.8 58 97-157 501-564 (1195)
62 PHA02558 uvsW UvsW helicase; P 94.7 0.027 5.8E-07 51.4 3.1 55 95-157 157-213 (501)
63 PRK02362 ski2-like helicase; P 94.5 0.025 5.3E-07 53.9 2.6 57 96-156 67-124 (737)
64 PRK00254 ski2-like helicase; P 94.5 0.036 7.8E-07 52.7 3.7 57 96-156 68-125 (720)
65 KOG0332 ATP-dependent RNA heli 94.5 0.018 3.8E-07 52.7 1.4 65 87-156 151-218 (477)
66 PHA02653 RNA helicase NPH-II; 93.7 0.15 3.2E-06 49.0 6.0 59 95-155 221-284 (675)
67 PRK01172 ski2-like helicase; P 93.6 0.058 1.3E-06 50.7 3.1 56 97-156 66-122 (674)
68 PRK13107 preprotein translocas 92.5 0.38 8.1E-06 47.9 6.9 54 99-156 126-182 (908)
69 TIGR01970 DEAH_box_HrpB ATP-de 92.2 0.1 2.2E-06 51.1 2.6 58 96-157 45-102 (819)
70 PRK11664 ATP-dependent RNA hel 92.0 0.077 1.7E-06 51.8 1.6 56 97-157 49-105 (812)
71 cd00046 DEXDc DEAD-like helica 92.0 0.4 8.7E-06 33.1 4.9 61 95-156 29-90 (144)
72 smart00487 DEXDc DEAD-like hel 91.4 0.4 8.7E-06 35.3 4.6 60 96-156 54-116 (201)
73 TIGR00595 priA primosomal prot 89.8 0.47 1E-05 43.8 4.5 59 97-157 26-88 (505)
74 TIGR01389 recQ ATP-dependent D 88.2 0.87 1.9E-05 42.2 5.1 57 98-157 55-115 (591)
75 PRK13766 Hef nuclease; Provisi 87.4 0.96 2.1E-05 43.0 5.0 59 96-156 58-118 (773)
76 PRK11057 ATP-dependent DNA hel 87.4 0.82 1.8E-05 42.9 4.4 58 97-157 66-127 (607)
77 COG1197 Mfd Transcription-repa 86.8 1.2 2.7E-05 45.3 5.5 57 95-152 642-704 (1139)
78 COG1200 RecG RecG-like helicas 84.6 1.7 3.7E-05 42.1 5.1 56 97-153 312-373 (677)
79 TIGR00614 recQ_fam ATP-depende 83.0 2.7 6E-05 37.9 5.5 55 96-153 226-284 (470)
80 TIGR01054 rgy reverse gyrase. 82.3 2.2 4.7E-05 43.6 5.0 52 97-152 327-382 (1171)
81 PRK11776 ATP-dependent RNA hel 80.3 3.4 7.3E-05 36.9 5.1 54 97-153 243-300 (460)
82 TIGR01587 cas3_core CRISPR-ass 79.5 3 6.4E-05 35.5 4.3 25 95-119 28-52 (358)
83 PRK04837 ATP-dependent RNA hel 79.2 3.9 8.5E-05 36.1 5.1 55 96-153 255-313 (423)
84 PRK09401 reverse gyrase; Revie 78.7 2.8 6E-05 42.9 4.4 51 97-152 329-383 (1176)
85 TIGR01587 cas3_core CRISPR-ass 78.2 5.3 0.00012 34.0 5.5 57 96-153 222-286 (358)
86 PRK10590 ATP-dependent RNA hel 77.5 5.3 0.00012 35.8 5.5 56 95-153 244-303 (456)
87 PRK04537 ATP-dependent RNA hel 75.5 5 0.00011 37.6 4.9 55 96-153 257-315 (572)
88 TIGR01970 DEAH_box_HrpB ATP-de 74.9 5 0.00011 39.5 4.9 55 97-152 210-269 (819)
89 PTZ00110 helicase; Provisional 74.3 6.1 0.00013 36.7 5.1 56 95-153 376-435 (545)
90 PRK11192 ATP-dependent RNA hel 73.6 8.8 0.00019 33.8 5.8 56 95-153 244-303 (434)
91 TIGR03158 cas3_cyano CRISPR-as 72.4 7.9 0.00017 33.8 5.1 54 97-153 273-326 (357)
92 PTZ00424 helicase 45; Provisio 70.8 8.9 0.00019 33.0 5.0 55 96-153 267-325 (401)
93 PRK11057 ATP-dependent DNA hel 70.1 8.1 0.00018 36.3 5.0 54 97-153 237-294 (607)
94 PRK01297 ATP-dependent RNA hel 69.1 11 0.00025 33.8 5.5 55 96-153 335-393 (475)
95 PRK11664 ATP-dependent RNA hel 67.7 9.1 0.0002 37.7 4.9 57 96-153 212-273 (812)
96 PLN00206 DEAD-box ATP-dependen 67.2 10 0.00023 34.8 5.0 56 96-153 367-426 (518)
97 TIGR01389 recQ ATP-dependent D 67.2 11 0.00024 35.0 5.1 54 97-153 225-282 (591)
98 PRK11634 ATP-dependent RNA hel 65.7 12 0.00026 35.7 5.1 55 96-153 245-303 (629)
99 PHA02653 RNA helicase NPH-II; 64.4 12 0.00026 36.2 4.9 56 97-153 396-454 (675)
100 PRK11131 ATP-dependent RNA hel 64.3 4.5 9.8E-05 42.0 2.2 44 105-157 131-175 (1294)
101 PRK14873 primosome assembly pr 64.0 14 0.0003 35.7 5.2 58 97-154 189-249 (665)
102 COG4750 LicC CTP:phosphocholin 62.5 7.4 0.00016 33.0 2.8 45 100-150 5-51 (231)
103 TIGR01967 DEAH_box_HrpA ATP-de 59.2 18 0.00039 37.7 5.4 56 97-153 280-338 (1283)
104 COG1201 Lhr Lhr-like helicases 59.0 45 0.00097 33.3 7.9 118 26-157 11-135 (814)
105 PF13986 DUF4224: Domain of un 57.3 14 0.0003 23.8 2.8 25 134-158 16-41 (47)
106 PRK11131 ATP-dependent RNA hel 55.8 21 0.00046 37.3 5.2 56 97-153 287-345 (1294)
107 COG0513 SrmB Superfamily II DN 55.0 25 0.00055 32.5 5.2 53 98-153 275-331 (513)
108 TIGR00580 mfd transcription-re 54.9 24 0.00052 35.4 5.3 56 97-153 661-720 (926)
109 PRK10689 transcription-repair 54.8 24 0.00052 36.3 5.4 56 97-153 810-869 (1147)
110 COG1111 MPH1 ERCC4-like helica 54.6 28 0.0006 33.2 5.4 55 98-154 60-116 (542)
111 cd00858 GlyRS_anticodon GlyRS 53.3 35 0.00075 25.0 4.8 51 97-151 27-85 (121)
112 PRK09694 helicase Cas3; Provis 52.1 31 0.00066 34.6 5.5 56 97-153 561-629 (878)
113 PRK14701 reverse gyrase; Provi 51.1 18 0.00038 38.6 3.9 51 97-152 331-385 (1638)
114 TIGR00631 uvrb excinuclease AB 49.7 21 0.00045 34.4 3.9 25 98-122 56-80 (655)
115 PRK10917 ATP-dependent DNA hel 47.8 35 0.00077 32.6 5.1 56 97-153 472-539 (681)
116 PRK13767 ATP-dependent helicas 47.1 41 0.00089 33.3 5.5 57 96-153 284-348 (876)
117 COG1203 CRISPR-associated heli 46.2 36 0.00078 33.0 4.9 56 95-153 439-502 (733)
118 TIGR00643 recG ATP-dependent D 45.4 39 0.00085 31.9 5.0 57 96-153 448-516 (630)
119 PF04577 DUF563: Protein of un 44.1 44 0.00095 25.8 4.3 60 95-159 101-166 (206)
120 PF07652 Flavi_DEAD: Flaviviru 43.7 23 0.00051 28.3 2.7 26 95-120 32-57 (148)
121 COG0556 UvrB Helicase subunit 43.1 28 0.00061 33.7 3.6 45 98-143 59-123 (663)
122 PRK01172 ski2-like helicase; P 43.1 58 0.0012 30.8 5.7 23 97-119 237-259 (674)
123 cd00079 HELICc Helicase superf 43.0 88 0.0019 21.6 5.4 55 96-153 28-86 (131)
124 PF06862 DUF1253: Protein of u 42.9 26 0.00056 32.5 3.3 25 95-119 36-60 (442)
125 PLN03137 ATP-dependent DNA hel 42.2 40 0.00086 35.1 4.7 54 97-153 681-738 (1195)
126 COG1097 RRP4 RNA-binding prote 41.6 20 0.00044 30.7 2.2 34 124-160 156-191 (239)
127 TIGR00631 uvrb excinuclease AB 41.2 56 0.0012 31.5 5.3 54 96-152 442-499 (655)
128 PF10996 Beta-Casp: Beta-Casp 39.5 52 0.0011 23.6 3.9 62 95-156 19-91 (126)
129 COG0514 RecQ Superfamily II DN 39.2 52 0.0011 31.7 4.7 54 97-153 231-288 (590)
130 PF14617 CMS1: U3-containing 9 38.9 28 0.00061 29.8 2.7 67 12-83 51-118 (252)
131 PRK05298 excinuclease ABC subu 38.5 60 0.0013 31.0 5.1 55 95-152 445-503 (652)
132 cd00860 ThrRS_anticodon ThrRS 38.2 1E+02 0.0022 20.4 5.0 51 98-151 3-59 (91)
133 COG1111 MPH1 ERCC4-like helica 35.3 92 0.002 29.8 5.6 59 94-153 364-433 (542)
134 COG3897 Predicted methyltransf 35.1 26 0.00057 29.7 1.9 22 135-156 161-183 (218)
135 COG1110 Reverse gyrase [DNA re 35.0 76 0.0017 32.9 5.3 56 97-154 126-190 (1187)
136 KOG2340 Uncharacterized conser 33.9 41 0.00089 32.7 3.1 25 95-119 292-316 (698)
137 TIGR03117 cas_csf4 CRISPR-asso 33.6 37 0.00081 32.8 2.9 25 96-120 46-70 (636)
138 PF03129 HGTP_anticodon: Antic 33.4 1.1E+02 0.0024 20.7 4.6 42 107-151 16-60 (94)
139 TIGR02621 cas3_GSU0051 CRISPR- 33.2 64 0.0014 32.4 4.5 23 97-119 273-295 (844)
140 KOG0333 U5 snRNP-like RNA heli 33.0 53 0.0011 31.9 3.7 58 93-153 514-575 (673)
141 KOG0352 ATP-dependent DNA heli 31.7 1.8E+02 0.004 27.8 6.9 55 96-153 255-313 (641)
142 COG1204 Superfamily II helicas 31.0 53 0.0011 32.4 3.5 57 96-156 76-133 (766)
143 cd00133 PTS_IIB PTS_IIB: subun 30.7 76 0.0017 20.3 3.3 54 98-154 1-55 (84)
144 PRK05298 excinuclease ABC subu 28.3 75 0.0016 30.4 3.9 25 98-122 59-83 (652)
145 PF08616 SPA: Stabilization of 28.2 1.2E+02 0.0027 22.5 4.4 59 97-156 26-90 (113)
146 KOG0952 DNA/RNA helicase MER3/ 28.1 69 0.0015 33.3 3.8 47 95-142 348-394 (1230)
147 cd00859 HisRS_anticodon HisRS 28.1 1.7E+02 0.0037 18.8 5.3 52 97-151 2-59 (91)
148 TIGR03817 DECH_helic helicase/ 27.8 1.4E+02 0.003 29.1 5.7 57 96-153 271-337 (742)
149 PRK02362 ski2-like helicase; P 26.7 1.2E+02 0.0026 29.2 5.0 23 97-119 244-266 (737)
150 KOG3089 Predicted DEAD-box-con 26.5 85 0.0018 27.3 3.5 35 93-131 136-170 (271)
151 PRK12898 secA preprotein trans 26.3 1.2E+02 0.0025 29.7 4.8 55 95-153 473-529 (656)
152 PF02863 Arg_repressor_C: Argi 25.4 82 0.0018 21.4 2.7 25 95-119 46-70 (70)
153 PF02302 PTS_IIB: PTS system, 25.2 44 0.00095 22.7 1.4 55 98-154 1-56 (90)
154 TIGR02855 spore_yabG sporulati 24.8 71 0.0015 28.2 2.8 63 95-160 152-233 (283)
155 PF05582 Peptidase_U57: YabG p 24.7 71 0.0015 28.2 2.8 64 94-160 152-234 (287)
156 COG2062 SixA Phosphohistidine 24.6 68 0.0015 25.8 2.5 22 98-119 48-69 (163)
157 cd02071 MM_CoA_mut_B12_BD meth 24.6 1.8E+02 0.0038 21.3 4.6 55 95-151 49-108 (122)
158 PF01113 DapB_N: Dihydrodipico 23.4 72 0.0016 23.6 2.3 19 97-115 68-86 (124)
159 PF02994 Transposase_22: L1 tr 23.3 1.5E+02 0.0032 26.5 4.7 68 92-160 244-325 (370)
160 PRK07246 bifunctional ATP-depe 22.8 85 0.0019 31.0 3.3 25 96-120 291-316 (820)
161 cd00738 HGTP_anticodon HGTP an 22.4 2.4E+02 0.0052 18.6 4.9 43 106-151 17-62 (94)
162 PF09164 VitD-bind_III: Vitami 22.0 32 0.0007 24.2 0.2 22 25-47 16-37 (68)
163 KOG0344 ATP-dependent RNA heli 21.9 1.5E+02 0.0032 28.7 4.6 58 95-153 386-446 (593)
164 TIGR00036 dapB dihydrodipicoli 21.8 72 0.0016 26.9 2.3 14 141-154 88-101 (266)
165 cd05566 PTS_IIB_galactitol PTS 21.7 1.6E+02 0.0035 20.0 3.7 54 98-153 2-56 (89)
166 TIGR00348 hsdR type I site-spe 21.5 2.8E+02 0.0061 26.6 6.4 58 94-156 291-349 (667)
167 TIGR03158 cas3_cyano CRISPR-as 21.0 2E+02 0.0043 25.1 4.9 23 97-119 40-62 (357)
168 TIGR00640 acid_CoA_mut_C methy 20.7 2.2E+02 0.0047 21.7 4.5 54 95-150 52-110 (132)
No 1
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=100.00 E-value=8.8e-40 Score=275.63 Aligned_cols=138 Identities=37% Similarity=0.516 Sum_probs=124.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhCCCCCccccccccccchhcccccccccccchhhhhhhhhhhhHHHHhhhh--hhccC
Q 031382 13 SASASASASEQLSFFLNEFQSANGIQLSSLELESIKESSILELSRSLDQDSKSLGMHMKAAFGSLWKEVLTEG--QLLEG 90 (160)
Q Consensus 13 ~~~~~~sp~~~a~~l~~~~~~~~~~~LS~lELedl~es~fl~~~~~~~~dt~~l~~~~~~~~~p~~~~~~~~~--~l~k~ 90 (160)
.+++.++|+.++|||+++++++|+ |||+|||||++ ++++.+.||++|.+++++.++|+|++.||+. .+.+.
T Consensus 48 ~~~~~~~~~~lad~l~~~~k~~~~-dLS~lELedl~------i~~s~f~dt~~~~~~r~l~nL~~fLk~~~~~~~~l~~~ 120 (252)
T PF14617_consen 48 ESIAKMDPELLADYLAQKIKRFNP-DLSSLELEDLY------IPESAFLDTSSFTKPRTLDNLPSFLKQFSPKKKKLSKK 120 (252)
T ss_pred cccccCCHHHHHHHHHHHHHHhCC-CcCeeeccccc------cCHHhcccccccCCCcccchHHHHHHHhccchhhhhhc
Confidence 467889999999999999999876 99999999972 4555555688999999999999999999863 47888
Q ss_pred CCCCCCCeEEEEcCchhhHHHHHHHHhhh-hcccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCcee
Q 031382 91 KIDPGSPAVLIISSSALRSIELLKGLRSL-TKECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 91 ~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~-~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
+.++|+|++||||+||+||+||+|+|+.| +++|.|+|||||||||+|||++|+ +.++|+|||||||.
T Consensus 121 ~~~~gsP~~lvvs~SalRa~dl~R~l~~~~~k~~~v~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~ 189 (252)
T PF14617_consen 121 PKEKGSPHVLVVSSSALRAADLIRALRSFKGKDCKVAKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLS 189 (252)
T ss_pred ccCCCCCEEEEEcchHHHHHHHHHHHHhhccCCchHHHHHHhhccHHHHHHHHHhCCceEEEeChHHHH
Confidence 89999999999999999999999999999 578999999999999999999999 68999999999984
No 2
>KOG3089 consensus Predicted DEAD-box-containing helicase [General function prediction only]
Probab=99.88 E-value=6.3e-24 Score=177.75 Aligned_cols=135 Identities=27% Similarity=0.367 Sum_probs=115.1
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHHhhCCCCCccccccccccchhcccccccccccchhhhhhhhhhhhHHHHhhhhhhcc
Q 031382 10 HHPSASASASASEQLSFFLNEFQSANGIQLSSLELESIKESSILELSRSLDQDSKSLGMHMKAAFGSLWKEVLTEGQLLE 89 (160)
Q Consensus 10 ~~~~~~~~~sp~~~a~~l~~~~~~~~~~~LS~lELedl~es~fl~~~~~~~~dt~~l~~~~~~~~~p~~~~~~~~~~l~k 89 (160)
-..+++..+|||.+.+||++.|++.++ ||+.+||+++ .++|.+ ..||+.|.+.+...+.|.|.+.++.
T Consensus 71 ~~~~~~~i~sPe~l~~ll~~yi~s~~~-dl~~~EL~~~-~~k~~~-----~~dt~~f~~~~~~~n~P~~Iq~~~~----- 138 (271)
T KOG3089|consen 71 LAKSEPKIGSPEDLQKLLKDYISSRRL-DLELEELNLP-DSKFLK-----ANDTTHFLSSYLKGNCPKWIQLRKN----- 138 (271)
T ss_pred HhccCCCCCChHHHHHHHHHHHHhhcC-cchhhhhcch-HHHHHh-----hhhhhhhchHhhhcccHHHHHhccC-----
Confidence 357889999999999999999999997 9999999986 345555 4568889888888888999986652
Q ss_pred CCCCCC-CCeEEEEcCchhhHHHHHHHHhhhhc-ccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCcee
Q 031382 90 GKIDPG-SPAVLIISSSALRSIELLKGLRSLTK-ECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 90 ~~~~~~-sP~~lIl~~Sa~ra~dv~r~l~~~~k-~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
+.++. -|..+|+|.|+.||+++.+.++.|.+ +.+|+||||||+++++|+++++ +.++++|||||||.
T Consensus 139 -~~kK~vf~~~lI~c~sa~Ral~~~k~~k~f~~s~~Kv~klf~khi~~~~~~k~~k~~~v~~gIgTp~Ri~ 208 (271)
T KOG3089|consen 139 -HSKKKVFVLMLIICSSAVRALELIKSMKAFRGSDGKVIKLFAKHIKVQAQVKLLKKRVVHLGIGTPGRIK 208 (271)
T ss_pred -CchhhhhHHHHHHHHHHHHHHhccchHHhhccCCchhHHHHHHHHHHHHHHHHHhhcceeEeecCcHHHH
Confidence 22222 48899999999999999999999954 7899999999999999999999 55799999999983
No 3
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.16 E-value=2.9e-11 Score=111.30 Aligned_cols=64 Identities=19% Similarity=0.299 Sum_probs=58.1
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhhcccc--hhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLTKECH--AVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~--v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..+.|.+|||+||||+|.||.+..+.|.+.+. +.-+||+ .....|++.|++||+|+|||||||+
T Consensus 162 ~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG-~~~~~Q~~~l~~gvdiviaTPGRl~ 227 (519)
T KOG0331|consen 162 RGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGG-APKGPQLRDLERGVDVVIATPGRLI 227 (519)
T ss_pred CCCCCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCC-CCccHHHHHHhcCCcEEEeCChHHH
Confidence 45699999999999999999999999976655 7778987 8999999999999999999999985
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.10 E-value=8e-11 Score=107.33 Aligned_cols=58 Identities=24% Similarity=0.442 Sum_probs=53.4
Q ss_pred EEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 99 VLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 99 ~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+|||+||||+|.||.+.++.|.+ ..+++-++|+ ..+..|++.|+.|++|+|||||||+
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG-~~~~~q~~~l~~~~~ivVaTPGRll 162 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGG-VSIRKQIEALKRGVDIVVATPGRLL 162 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECC-CCHHHHHHHHhcCCCEEEECccHHH
Confidence 99999999999999999999965 4567889987 7999999999999999999999985
No 5
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.91 E-value=1.2e-09 Score=101.38 Aligned_cols=63 Identities=19% Similarity=0.244 Sum_probs=58.2
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...|.++||+||||+|.||..+.++|.| +.+++.+|++ ....||++.|+.|..|+|+|||||+
T Consensus 294 g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygG-gsk~eQ~k~Lk~g~EivVaTPgRli 358 (731)
T KOG0339|consen 294 GEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGG-GSKWEQSKELKEGAEIVVATPGRLI 358 (731)
T ss_pred CCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecC-CcHHHHHHhhhcCCeEEEechHHHH
Confidence 5789999999999999999999999965 4778999998 6999999999999999999999985
No 6
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.79 E-value=1.6e-08 Score=92.78 Aligned_cols=126 Identities=21% Similarity=0.271 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHh-hCCCCCccccccccccchhcccccccccccchhhhhhhhhhhhHHHHhhhhhhccCCCCCCCCeEEE
Q 031382 23 QLSFFLNEFQSA-NGIQLSSLELESIKESSILELSRSLDQDSKSLGMHMKAAFGSLWKEVLTEGQLLEGKIDPGSPAVLI 101 (160)
Q Consensus 23 ~a~~l~~~~~~~-~~~~LS~lELedl~es~fl~~~~~~~~dt~~l~~~~~~~~~p~~~~~~~~~~l~k~~~~~~sP~~lI 101 (160)
+..|+...+.+. |+ .++++....++ .|+.-.+=.....++=++. ++|+--.++.+.. .+.+.+++...+||
T Consensus 13 L~~~l~~~l~~~GF~-~mTpVQa~tIP--lll~~KDVvveavTGSGKT--lAFllP~le~i~r---r~~~~~~~~vgalI 84 (567)
T KOG0345|consen 13 LSPWLLEALDESGFE-KMTPVQAATIP--LLLKNKDVVVEAVTGSGKT--LAFLLPMLEIIYR---REAKTPPGQVGALI 84 (567)
T ss_pred ccHHHHHHHHhcCCc-ccCHHHHhhhH--HHhcCCceEEEcCCCCCch--hhHHHHHHHHHHh---hccCCCccceeEEE
Confidence 445555666555 55 78988888753 1222222111112333443 3333223443320 12333445678999
Q ss_pred EcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCcee
Q 031382 102 ISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 102 l~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
|+||||+|.||...+..|.. +..+.-+.|+ ..++++++.++ ++++|+|||||||.
T Consensus 85 IsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG-~~v~~Di~~fkee~~nIlVgTPGRL~ 143 (567)
T KOG0345|consen 85 ISPTRELARQIREVAQPFLEHLPNLNCELLVGG-RSVEEDIKTFKEEGPNILVGTPGRLL 143 (567)
T ss_pred ecCcHHHHHHHHHHHHHHHHhhhccceEEEecC-ccHHHHHHHHHHhCCcEEEeCchhHH
Confidence 99999999999999999832 3333445555 79999999998 78999999999984
No 7
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.76 E-value=8.3e-09 Score=100.59 Aligned_cols=63 Identities=19% Similarity=0.366 Sum_probs=56.7
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...|.+||+||||++|.||.|+++.|.+ +.+++-.|+ |..+.+||..|++|..|+||||||++
T Consensus 436 gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vyg-g~~~~~qiaelkRg~eIvV~tpGRmi 500 (997)
T KOG0334|consen 436 GDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYG-GSGISQQIAELKRGAEIVVCTPGRMI 500 (997)
T ss_pred CCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecC-CccHHHHHHHHhcCCceEEeccchhh
Confidence 3579999999999999999999999954 567777886 58999999999999999999999985
No 8
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=98.76 E-value=6.7e-09 Score=96.91 Aligned_cols=60 Identities=20% Similarity=0.375 Sum_probs=54.3
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhh--cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLT--KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~--k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
|.+|||+||||+|+||...|.... ...+|+-++|+ +.+..|-+.|+.+.+|||+||||+.
T Consensus 264 ~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GG-LavqKQqRlL~~~p~IVVATPGRlw 325 (731)
T KOG0347|consen 264 PIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGG-LAVQKQQRLLNQRPDIVVATPGRLW 325 (731)
T ss_pred ceeEEecChHHHHHHHHHHHHHhccccCeEEEEeech-hHHHHHHHHHhcCCCEEEecchHHH
Confidence 459999999999999999999873 46789999997 8999999999999999999999973
No 9
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.76 E-value=4.6e-09 Score=91.20 Aligned_cols=68 Identities=21% Similarity=0.335 Sum_probs=59.9
Q ss_pred cCCCCCCCCeEEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 89 EGKIDPGSPAVLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 89 k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+....+|...+||+|-|||+|-||.++...|+| +.+|+-+||+ +.|+.+.+.|++-.||+|||||||+
T Consensus 103 qiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG-~~Ikkdee~lk~~PhivVgTPGril 173 (387)
T KOG0329|consen 103 QIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGG-LFIKKDEELLKNCPHIVVGTPGRIL 173 (387)
T ss_pred hcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcc-eeccccHHHHhCCCeEEEcCcHHHH
Confidence 344567889999999999999999999999975 4678888887 8999999999998899999999985
No 10
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.75 E-value=1.2e-08 Score=92.68 Aligned_cols=63 Identities=22% Similarity=0.268 Sum_probs=52.9
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--------ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--------ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--------~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...|..||+|||||+|-|++.-+..|.. ..+..-..|+ +.+.+|.+.++.||||+|+|||||+
T Consensus 244 ~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG-~~v~eql~~v~~GvHivVATPGRL~ 314 (610)
T KOG0341|consen 244 GEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGG-VPVREQLDVVRRGVHIVVATPGRLM 314 (610)
T ss_pred CCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcC-ccHHHHHHHHhcCeeEEEcCcchHH
Confidence 4679999999999999999988888721 2344545565 8999999999999999999999985
No 11
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=98.68 E-value=2e-08 Score=92.25 Aligned_cols=68 Identities=19% Similarity=0.315 Sum_probs=56.2
Q ss_pred cCCCCCCCCeEEEEcCchhhHHHHHHHHhhhhcc-----cchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 89 EGKIDPGSPAVLIISSSALRSIELLKGLRSLTKE-----CHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 89 k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~-----~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..+...++|+++|+.||||+|-|++..++.|+.. .+..-+.++ .-.++|.+.|+.|++|+||||||+.
T Consensus 279 ~~k~~pNap~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmigg-v~~r~Q~~ql~~g~~ivvGtpgRl~ 351 (725)
T KOG0349|consen 279 SAKPAPNAPEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGG-VLKRTQCKQLKDGTHIVVGTPGRLL 351 (725)
T ss_pred ccccCCCCcceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhh-HHhHHHHHHhhcCceeeecCchhhh
Confidence 3445578999999999999999999999988543 244455555 5789999999999999999999974
No 12
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.67 E-value=2.3e-08 Score=88.75 Aligned_cols=62 Identities=18% Similarity=0.303 Sum_probs=55.2
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..+++|||+||+++|.|+.+.++.+.+ +.++..++|+ ..+++|++.|+.+++|+||||||+.
T Consensus 71 ~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg-~~~~~~~~~l~~~~~IvV~Tp~rl~ 135 (460)
T PRK11776 71 FRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGG-VPMGPQIDSLEHGAHIIVGTPGRIL 135 (460)
T ss_pred CCceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECC-CChHHHHHHhcCCCCEEEEChHHHH
Confidence 467999999999999999999998843 5678888887 6999999999999999999999985
No 13
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.65 E-value=3.5e-08 Score=91.68 Aligned_cols=63 Identities=17% Similarity=0.293 Sum_probs=51.3
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.-..++|||+||||+|+||+...+++.. ++.|.-..| ...+..|-..|+.+.+|||+||||++
T Consensus 250 ~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vG-GL~lk~QE~~LRs~PDIVIATPGRlI 314 (691)
T KOG0338|consen 250 VAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVG-GLDLKAQEAVLRSRPDIVIATPGRLI 314 (691)
T ss_pred CcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeec-CccHHHHHHHHhhCCCEEEecchhHH
Confidence 4567999999999999999887777643 233443344 58999999999999999999999985
No 14
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.65 E-value=2.8e-08 Score=89.63 Aligned_cols=64 Identities=17% Similarity=0.223 Sum_probs=56.1
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
++..|.+|||+||||+|.||...+..+.. +.+|.-|-|+ +....|-..|-+++||+|||||||+
T Consensus 126 ~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG-~~m~~q~~~L~kkPhilVaTPGrL~ 191 (476)
T KOG0330|consen 126 EPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGG-MDMMLQANQLSKKPHILVATPGRLW 191 (476)
T ss_pred CCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecC-chHHHHHHHhhcCCCEEEeCcHHHH
Confidence 34669999999999999999999999943 4667778887 5999999999999999999999985
No 15
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.64 E-value=2.6e-08 Score=93.25 Aligned_cols=62 Identities=19% Similarity=0.447 Sum_probs=55.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.|++|||+||+++|.|+++.++.|.+ +..++.++++ .+++.|++.|+.+++|+||||||++
T Consensus 73 ~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG-~~~~~q~~~l~~~~~IVVgTPgrl~ 137 (629)
T PRK11634 73 KAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGG-QRYDVQLRALRQGPQIVVGTPGRLL 137 (629)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECC-cCHHHHHHHhcCCCCEEEECHHHHH
Confidence 569999999999999999999998843 4667888887 6999999999999999999999985
No 16
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.59 E-value=4.3e-08 Score=89.78 Aligned_cols=62 Identities=18% Similarity=0.281 Sum_probs=56.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..|.+|||+||||+|.|++.+-++|.. ..++...|++ .++..|...++++++|+|+|||||.
T Consensus 151 ~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg-~~~~~q~~~~~~gcdIlvaTpGrL~ 214 (482)
T KOG0335|consen 151 VYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGG-TDLGAQLRFIKRGCDILVATPGRLK 214 (482)
T ss_pred CCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCC-cchhhhhhhhccCccEEEecCchhh
Confidence 579999999999999999999999943 3567889988 7999999999999999999999984
No 17
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=98.58 E-value=3.7e-08 Score=91.56 Aligned_cols=62 Identities=19% Similarity=0.234 Sum_probs=56.9
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..|.++|+.|||++|.||-.+..+|.+ +++++.+.|+| ..+||==.|..|+.|+|||||||+
T Consensus 321 ~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~-s~EEq~fqls~gceiviatPgrLi 384 (673)
T KOG0333|consen 321 EGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGL-SFEEQGFQLSMGCEIVIATPGRLI 384 (673)
T ss_pred cCceeeeechHHHHHHHHHHHHHHhcccccceEEEEeccc-chhhhhhhhhccceeeecCchHHH
Confidence 569999999999999999999999954 58899999997 999998888999999999999985
No 18
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.56 E-value=6.5e-08 Score=85.01 Aligned_cols=63 Identities=17% Similarity=0.284 Sum_probs=53.9
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...|++|||+||+++|.|+.+.++.+.+ +.++.-++++ ...++|.+.|+.+++|+|||||||.
T Consensus 81 ~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg-~~~~~~~~~l~~~~~IlV~TP~~l~ 145 (423)
T PRK04837 81 VNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGG-DGYDKQLKVLESGVDILIGTTGRLI 145 (423)
T ss_pred cCCceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECC-CCHHHHHHHhcCCCCEEEECHHHHH
Confidence 3569999999999999999999988843 3556667776 6899999999999999999999984
No 19
>PTZ00110 helicase; Provisional
Probab=98.54 E-value=8.3e-08 Score=88.13 Aligned_cols=62 Identities=15% Similarity=0.255 Sum_probs=54.2
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..|++|||+||+++|.|+.+.++.|.. ..+++.+|++ ....+|...|+++++|+|||||||+
T Consensus 202 ~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg-~~~~~q~~~l~~~~~IlVaTPgrL~ 265 (545)
T PTZ00110 202 DGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGG-VPKRGQIYALRRGVEILIACPGRLI 265 (545)
T ss_pred CCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCC-CCHHHHHHHHHcCCCEEEECHHHHH
Confidence 469999999999999999999999953 3556778887 5888999999999999999999974
No 20
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.53 E-value=2.5e-08 Score=88.68 Aligned_cols=71 Identities=14% Similarity=0.197 Sum_probs=56.6
Q ss_pred hhccCCCCCCCCeEEEEcCchhhHHHHHHHHhhhhccc--chhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 86 QLLEGKIDPGSPAVLIISSSALRSIELLKGLRSLTKEC--HAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 86 ~l~k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~--~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.|.+.+.++...|++|+.||||+|.|+.+..+.++|.. +|.-.-|+ ..+.++|=.|..+||++|||||||+
T Consensus 143 ~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~~i~vmvttGG-T~lrDDI~Rl~~~VH~~vgTPGRIl 215 (459)
T KOG0326|consen 143 VLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHLGIKVMVTTGG-TSLRDDIMRLNQTVHLVVGTPGRIL 215 (459)
T ss_pred hhhhcCccccceeEEEEeecchhhHHHHHHHHHHhcccCeEEEEecCC-cccccceeeecCceEEEEcCChhHH
Confidence 34455667788999999999999999998888886543 33333344 5799999999999999999999985
No 21
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=98.46 E-value=9.6e-08 Score=83.89 Aligned_cols=64 Identities=17% Similarity=0.273 Sum_probs=50.9
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.....|+|||+||||+|.|+.+.+..+.. +.++-...|+ -.+.|+|+.|.-|.++++|||||+.
T Consensus 92 ~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg-~n~gedikkld~G~hvVsGtPGrv~ 157 (400)
T KOG0328|consen 92 SVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGG-KNLGEDIKKLDYGQHVVSGTPGRVL 157 (400)
T ss_pred ccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecC-CccchhhhhhcccceEeeCCCchHH
Confidence 34568999999999999999999888843 2223333343 3699999999999999999999974
No 22
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.43 E-value=1.8e-07 Score=87.38 Aligned_cols=63 Identities=24% Similarity=0.359 Sum_probs=51.0
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhccc---chhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTKEC---HAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~---~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...|.+|||.||||+|.|++.-+.++-+.+ -..-|.|+- |-....+.|++|++|.|||||||.
T Consensus 209 s~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGE-kkKSEKARLRKGiNILIgTPGRLv 274 (708)
T KOG0348|consen 209 SDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGE-KKKSEKARLRKGINILIGTPGRLV 274 (708)
T ss_pred cCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeeccc-ccccHHHHHhcCceEEEcCchHHH
Confidence 456999999999999999999999985432 234466764 666677888999999999999984
No 23
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.42 E-value=4.1e-07 Score=83.78 Aligned_cols=63 Identities=21% Similarity=0.216 Sum_probs=48.3
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.-..+||||||||+|+|+..+++.+.+ ...+.-+.|+.-.--||-++ .++++|.|+|||||+
T Consensus 152 r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl-~k~~niliATPGRLl 217 (543)
T KOG0342|consen 152 RNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKL-VKGCNILIATPGRLL 217 (543)
T ss_pred CCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHh-hccccEEEeCCchHH
Confidence 3556899999999999999988888733 34567777776444455444 459999999999985
No 24
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.42 E-value=2.7e-07 Score=85.37 Aligned_cols=62 Identities=21% Similarity=0.334 Sum_probs=54.8
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..|++|||+||+++|.|+++.++.|.+ +.++..++++ ...++|.+.|+.+++|+|||||||+
T Consensus 83 ~~~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg-~~~~~q~~~l~~~~dIiV~TP~rL~ 146 (572)
T PRK04537 83 EDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGG-VDYDKQRELLQQGVDVIIATPGRLI 146 (572)
T ss_pred CCceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECC-CCHHHHHHHHhCCCCEEEECHHHHH
Confidence 468999999999999999999999854 3567888887 7999999999999999999999974
No 25
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.39 E-value=3.6e-07 Score=81.57 Aligned_cols=62 Identities=19% Similarity=0.345 Sum_probs=53.8
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..+++|||+||+++|.|+.+.++.+.+ +.+++.+++. ..+++|+..|+.+++|+|||||||+
T Consensus 74 ~~~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg-~~~~~~~~~l~~~~~IiV~TP~rL~ 137 (456)
T PRK10590 74 RPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGG-VSINPQMMKLRGGVDVLVATPGRLL 137 (456)
T ss_pred CCceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECC-cCHHHHHHHHcCCCcEEEEChHHHH
Confidence 346999999999999999999999854 3566778877 6999999999999999999999984
No 26
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.39 E-value=3.2e-07 Score=83.56 Aligned_cols=62 Identities=16% Similarity=0.306 Sum_probs=53.1
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcc--cchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKE--CHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~--~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..|++|||+||+++|.|+.+.++.+.+. .+++-++++ ....+|+..|+.+++|+|||||||.
T Consensus 195 ~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG-~~~~~q~~~l~~~~~IiV~TPgrL~ 258 (518)
T PLN00206 195 RNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGG-DAMPQQLYRIQQGVELIVGTPGRLI 258 (518)
T ss_pred CCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECC-cchHHHHHHhcCCCCEEEECHHHHH
Confidence 5699999999999999999999988543 455667776 4789999999999999999999973
No 27
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.38 E-value=4.1e-07 Score=79.97 Aligned_cols=63 Identities=17% Similarity=0.357 Sum_probs=54.3
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.+.+++|||+||+++|.|+.+.++.|.+ +.++..++|+ ....+|...+..+.+|+|||||||+
T Consensus 71 ~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg-~~~~~~~~~l~~~~~IlV~Tp~rl~ 135 (434)
T PRK11192 71 SGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGG-VAYMNHAEVFSENQDIVVATPGRLL 135 (434)
T ss_pred CCCceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECC-CCHHHHHHHhcCCCCEEEEChHHHH
Confidence 4568999999999999999999998843 4567777776 5899999999999999999999985
No 28
>KOG4284 consensus DEAD box protein [Transcription]
Probab=98.26 E-value=7.2e-07 Score=85.03 Aligned_cols=64 Identities=13% Similarity=0.212 Sum_probs=49.8
Q ss_pred CCCCCCeEEEEcCchhhHHHHHHHHhhhhc---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 92 IDPGSPAVLIISSSALRSIELLKGLRSLTK---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 92 ~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
....+||++||+||||.|+||..-++.+.+ +.++.-+.|+ ..+..+...|+ .++|+|||||||.
T Consensus 89 ~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGG-T~~~~d~~rlk-~~rIvIGtPGRi~ 155 (980)
T KOG4284|consen 89 SRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGG-TAHKLDLIRLK-QTRIVIGTPGRIA 155 (980)
T ss_pred cccCcceeEEEecchhhhhHHHHHHHHhcccccCcceEEEecC-chhhhhhhhhh-hceEEecCchHHH
Confidence 345789999999999999999998888743 3334445555 57777777776 6679999999984
No 29
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.26 E-value=1e-06 Score=80.64 Aligned_cols=64 Identities=20% Similarity=0.328 Sum_probs=55.0
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..++|.+||++||||+|+|+--+.+.++ ++.+.+-+|+. -+=.+||+.|++|+.|+++||||+.
T Consensus 291 qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygg-gnR~eqie~lkrgveiiiatPgrln 355 (629)
T KOG0336|consen 291 QRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGG-GNRNEQIEDLKRGVEIIIATPGRLN 355 (629)
T ss_pred ccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecC-CCchhHHHHHhcCceEEeeCCchHh
Confidence 4689999999999999999998888873 44455667776 4899999999999999999999973
No 30
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=98.18 E-value=1.5e-06 Score=81.60 Aligned_cols=60 Identities=23% Similarity=0.271 Sum_probs=43.0
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcc--cchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKE--CHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~--~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
..--+|||+||||+|.|+...|++..+. ....-+.|+ -.++. +..+ ++++|.|||||||+
T Consensus 140 DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG-~~~k~--E~eRi~~mNILVCTPGRLL 202 (758)
T KOG0343|consen 140 DGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGG-KDVKF--ELERISQMNILVCTPGRLL 202 (758)
T ss_pred CCceeEEecchHHHHHHHHHHHHHHhhccccccceeecC-chhHH--HHHhhhcCCeEEechHHHH
Confidence 4457999999999999999999987442 122334444 23333 3344 68999999999986
No 31
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.09 E-value=3.4e-06 Score=75.52 Aligned_cols=62 Identities=26% Similarity=0.417 Sum_probs=51.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
|.|++|||+||+++|.|+.+.++.+.+ +.++.-+.++ ...+.|++.+. .+.+|+|+||+||+
T Consensus 161 ~~~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg-~~~~~~~~~~~~~~~~Iiv~TP~~Ll 225 (475)
T PRK01297 161 GEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGG-MDFDKQLKQLEARFCDILVATPGRLL 225 (475)
T ss_pred CCceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEcc-CChHHHHHHHhCCCCCEEEECHHHHH
Confidence 579999999999999999999998854 3445556655 68999999987 57899999999974
No 32
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.03 E-value=7.6e-06 Score=74.85 Aligned_cols=63 Identities=25% Similarity=0.323 Sum_probs=55.4
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
...-+++|++||+++|+|+.+-++.+.+ +.+++-+++. -+++||-..|..+.+|+++||||++
T Consensus 88 ~~g~RalilsptreLa~qtlkvvkdlgrgt~lr~s~~~gg-D~~eeqf~~l~~npDii~ATpgr~~ 152 (529)
T KOG0337|consen 88 QTGLRALILSPTRELALQTLKVVKDLGRGTKLRQSLLVGG-DSIEEQFILLNENPDIIIATPGRLL 152 (529)
T ss_pred ccccceeeccCcHHHHHHHHHHHHHhccccchhhhhhccc-chHHHHHHHhccCCCEEEecCceee
Confidence 4567999999999999999999999854 3567778887 4999999999999999999999985
No 33
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.00 E-value=6.1e-06 Score=74.15 Aligned_cols=68 Identities=18% Similarity=0.244 Sum_probs=54.7
Q ss_pred cCCCCCCCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 89 EGKIDPGSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 89 k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+-++.+.+-.++|++||||+|.|+++.+.-+++ ..++.-++++ +.+-.|-..|..+.|++|+||||+.
T Consensus 68 rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG-~d~i~qa~~L~~rPHvVvatPGRla 137 (442)
T KOG0340|consen 68 RLSEDPYGIFALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGG-TDMIMQAAILSDRPHVVVATPGRLA 137 (442)
T ss_pred hhccCCCcceEEEecchHHHHHHHHHHHHHhcccccceEEEEEcc-HHHhhhhhhcccCCCeEecCccccc
Confidence 334556788999999999999999999988743 3444555555 7788888888899999999999985
No 34
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.96 E-value=7.6e-06 Score=76.05 Aligned_cols=62 Identities=18% Similarity=0.322 Sum_probs=50.4
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhc-----CCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKN-----RVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~-----~v~I~VGTPgRl~ 157 (160)
..-++|||.|++++|+||++.+..+.. +..|.-+=+.| ++++..+.|-+ +++|+|.|||||+
T Consensus 214 ~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~-sl~~E~~qL~~~~~~~~~DIlVaTPGRLV 282 (620)
T KOG0350|consen 214 KRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQN-SLEDEARQLASDPPECRIDILVATPGRLV 282 (620)
T ss_pred cceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEeccccc-chHHHHHHHhcCCCccccceEEcCchHHH
Confidence 346999999999999999999999942 34466666665 89998888842 5799999999985
No 35
>PTZ00424 helicase 45; Provisional
Probab=97.84 E-value=2.8e-05 Score=67.06 Aligned_cols=62 Identities=19% Similarity=0.264 Sum_probs=51.1
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.+++|||+|++++|.|+.+.++.+.. ...+..++++ ....+++..++.+.+|+||||+|+.
T Consensus 95 ~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~Ivv~Tp~~l~ 158 (401)
T PTZ00424 95 NACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGG-TVVRDDINKLKAGVHMVVGTPGRVY 158 (401)
T ss_pred CCceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECC-cCHHHHHHHHcCCCCEEEECcHHHH
Confidence 467899999999999999998888743 2344556665 5788999999999999999999964
No 36
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=97.82 E-value=2e-05 Score=72.54 Aligned_cols=66 Identities=20% Similarity=0.249 Sum_probs=50.3
Q ss_pred CCCCCCeEEEEcCchhhHHHHHHHHhhhh----cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCceee
Q 031382 92 IDPGSPAVLIISSSALRSIELLKGLRSLT----KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLVI 158 (160)
Q Consensus 92 ~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~----k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~~ 158 (160)
.....|.++||.||+|+|.|++..+.++. +..+++-+-. .+.=.++-.+|....+|+|||||||+.
T Consensus 89 ~~e~~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s-~~sdsv~~~~L~d~pdIvV~TP~~ll~ 158 (569)
T KOG0346|consen 89 DGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLAS-SMSDSVNSVALMDLPDIVVATPAKLLR 158 (569)
T ss_pred cccccceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhc-ccchHHHHHHHccCCCeEEeChHHHHH
Confidence 45578999999999999999999999884 3444555532 234444456777889999999999864
No 37
>PRK09401 reverse gyrase; Reviewed
Probab=97.82 E-value=5.9e-05 Score=75.62 Aligned_cols=62 Identities=21% Similarity=0.256 Sum_probs=46.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcc--cchhhhhccC-CC---HHHHHHHHhc-CCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKE--CHAVKLFSKH-MK---VEEQVSLLKN-RVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~--~~v~KLFaKh-~K---i~eQi~~Lk~-~v~I~VGTPgRl~ 157 (160)
.+++|||+||+++|.|+.+.++.|... +.+..+++.. ++ .+++.+.+++ +.+|+|||||||.
T Consensus 123 g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~ 191 (1176)
T PRK09401 123 GKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLS 191 (1176)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHH
Confidence 589999999999999999999999542 3344444432 11 4666777774 5899999999985
No 38
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.80 E-value=3.9e-05 Score=75.47 Aligned_cols=55 Identities=15% Similarity=0.143 Sum_probs=47.8
Q ss_pred EEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 99 VLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 99 ~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
++||+||+++|.|+++.++.+.+ +.+|.-++++ +.+++|.+.+ +++|+||||||+
T Consensus 138 v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG-~~~~eq~~~y--~~DIVygTPgRL 194 (970)
T PRK12899 138 VHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSG-SPLEKRKEIY--QCDVVYGTASEF 194 (970)
T ss_pred eEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCC-CCHHHHHHHc--CCCEEEECCChh
Confidence 88999999999999999999854 3567777876 7999998777 599999999998
No 39
>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=97.62 E-value=0.0001 Score=57.57 Aligned_cols=61 Identities=23% Similarity=0.402 Sum_probs=49.2
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
+.|++||++|+++++.|+...++.+.+ +..+..+.++ ....++.+.++.+.+|+||||+++
T Consensus 68 ~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~iiv~T~~~l 130 (203)
T cd00268 68 DGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGG-TSIDKQIRKLKRGPHIVVATPGRL 130 (203)
T ss_pred CCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECC-CCHHHHHHHhcCCCCEEEEChHHH
Confidence 569999999999999999999999843 3445555554 567777777777899999999876
No 40
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=97.62 E-value=1.5e-05 Score=71.61 Aligned_cols=70 Identities=16% Similarity=0.196 Sum_probs=51.6
Q ss_pred ccCCCCCCCCeEEEEcCchhhHHHHHHHHhhhh--cccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCceee
Q 031382 88 LEGKIDPGSPAVLIISSSALRSIELLKGLRSLT--KECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRLVI 158 (160)
Q Consensus 88 ~k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~--k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl~~ 158 (160)
...+-+....++||+.||+|+|.|+.+..+.+. .+..|.-+-++ .....|...++ .+.+|+||||||+..
T Consensus 86 q~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~v~~~igg-~~~~~~~~~i~~~~~hivvGTpgrV~d 158 (397)
T KOG0327|consen 86 QQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSVHACIGG-TNVRREDQALLKDKPHIVVGTPGRVFD 158 (397)
T ss_pred hhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhcccceeeeeecCc-ccchhhhhhhhccCceeecCCchhHHH
Confidence 344556678999999999999999997777763 23344545554 45665665665 689999999999863
No 41
>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=97.44 E-value=0.00015 Score=72.74 Aligned_cols=61 Identities=20% Similarity=0.245 Sum_probs=46.0
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcc--cchhh---hhccCCCHHHHH---HHHhc-CCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKE--CHAVK---LFSKHMKVEEQV---SLLKN-RVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~--~~v~K---LFaKh~Ki~eQi---~~Lk~-~v~I~VGTPgRl~ 157 (160)
.+++|||+||+++|.|+.+.++.+... ..+.. +.++ ++..+|. +.+++ +.+|+|||||||.
T Consensus 121 g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg-~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~ 190 (1171)
T TIGR01054 121 GKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSR-LPTKEKKEFMERIENGDFDILITTTMFLS 190 (1171)
T ss_pred CCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCC-CCHHHHHHHHHHHhcCCCCEEEECHHHHH
Confidence 589999999999999999999998542 22222 3454 6776654 44554 5999999999985
No 42
>PRK14701 reverse gyrase; Provisional
Probab=97.41 E-value=0.0002 Score=73.97 Aligned_cols=61 Identities=16% Similarity=0.231 Sum_probs=48.0
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc----ccchhhhhccCCCHHHHHHH---HhcC-CcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK----ECHAVKLFSKHMKVEEQVSL---LKNR-VNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k----~~~v~KLFaKh~Ki~eQi~~---Lk~~-v~I~VGTPgRl~ 157 (160)
.+++|||+||+++|.|+.+.++.+.. +++++-+.++ +..++|.+. |++| .+|+|||||||.
T Consensus 122 g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~-~s~~e~~~~~~~l~~g~~dILV~TPgrL~ 190 (1638)
T PRK14701 122 GKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSN-LRKKEKEEFLERIENGDFDILVTTAQFLA 190 (1638)
T ss_pred CCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCC-CCHHHHHHHHHHHhcCCCCEEEECCchhH
Confidence 47999999999999999999999843 3445556565 677777544 5554 899999999986
No 43
>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=97.39 E-value=0.00018 Score=70.15 Aligned_cols=59 Identities=12% Similarity=0.057 Sum_probs=51.2
Q ss_pred CCCCeEEEEc-CchhhHHHHHHHHhhhhc-------------------------ccchhhhhccCCCHHHHHHHHhcCCc
Q 031382 94 PGSPAVLIIS-SSALRSIELLKGLRSLTK-------------------------ECHAVKLFSKHMKVEEQVSLLKNRVN 147 (160)
Q Consensus 94 ~~sP~~lIl~-~Sa~ra~dv~r~l~~~~k-------------------------~~~v~KLFaKh~Ki~eQi~~Lk~~v~ 147 (160)
...|+.||++ |+||+|.|+++.++.+.+ .+++.-+||+ ..+++|++.|+.+++
T Consensus 59 ~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG-~~~~~q~~~l~~~p~ 137 (844)
T TIGR02621 59 AKVPRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQ-FADNDEWMLDPHRPA 137 (844)
T ss_pred ccccceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECC-CChHHHHHhcCCCCc
Confidence 4678899855 999999999999999854 2567888987 699999999999999
Q ss_pred EEEeCC
Q 031382 148 FAGGTP 153 (160)
Q Consensus 148 I~VGTP 153 (160)
|+|||+
T Consensus 138 IIVgT~ 143 (844)
T TIGR02621 138 VIVGTV 143 (844)
T ss_pred EEEECH
Confidence 999998
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.38 E-value=0.00022 Score=67.45 Aligned_cols=61 Identities=11% Similarity=0.163 Sum_probs=48.3
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCH---HHHHHHHhcC-CcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKV---EEQVSLLKNR-VNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki---~eQi~~Lk~~-v~I~VGTPgRl~ 157 (160)
.++++|++||+++|.|+++.++.+-+ +.++.-+.|+ .+. +++.+.+++| ++|+||||+|+.
T Consensus 310 g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~-~~~~~r~~~~~~l~~g~~~IvVgT~~ll~ 376 (681)
T PRK10917 310 GYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGS-LKGKERREILEAIASGEADIVIGTHALIQ 376 (681)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCC-CCHHHHHHHHHHHhCCCCCEEEchHHHhc
Confidence 47899999999999999999999743 3667777776 565 4455566655 999999999874
No 45
>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=97.29 E-value=0.00036 Score=52.30 Aligned_cols=60 Identities=23% Similarity=0.335 Sum_probs=49.2
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHH-HHHHHHhcCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVE-EQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~-eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
..+||++|+++++.|+.+.++.+.. +.++..++++ .+.. ++...+..+.+|+|+||.++.
T Consensus 45 ~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ilv~T~~~l~ 107 (169)
T PF00270_consen 45 ARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGG-QSISEDQREVLSNQADILVTTPEQLL 107 (169)
T ss_dssp SEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTT-SCHHHHHHHHHHTTSSEEEEEHHHHH
T ss_pred ceEEEEeeccccccccccccccccccccccccccccc-ccccccccccccccccccccCcchhh
Confidence 4999999999999999999999844 3566777776 4655 666777778999999999864
No 46
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.17 E-value=0.0004 Score=65.01 Aligned_cols=61 Identities=13% Similarity=0.209 Sum_probs=48.2
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHH---HHHHHhc-CCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEE---QVSLLKN-RVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~e---Qi~~Lk~-~v~I~VGTPgRl~ 157 (160)
.++++|++||+++|.|+++.++.+-+ +.++.-+.++ ++..+ +.+.+.+ .++|+||||+++.
T Consensus 284 g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~-~~~~~r~~~~~~i~~g~~~IiVgT~~ll~ 350 (630)
T TIGR00643 284 GYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGS-LKGKRRKELLETIASGQIHLVVGTHALIQ 350 (630)
T ss_pred CCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecC-CCHHHHHHHHHHHhCCCCCEEEecHHHHh
Confidence 46999999999999999999998743 4667777766 56555 5566664 4899999999874
No 47
>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=97.10 E-value=0.00055 Score=65.59 Aligned_cols=60 Identities=13% Similarity=0.226 Sum_probs=47.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.+++|||+||+++|.|+.+.++.|. .+.++..+.|. .. .+|.+.++.+.+|+|+||++|.
T Consensus 81 ~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gd-t~-~~~r~~i~~~~~IivtTPd~L~ 141 (742)
T TIGR03817 81 RATALYLAPTKALAADQLRAVRELTLRGVRPATYDGD-TP-TEERRWAREHARYVLTNPDMLH 141 (742)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCC-CC-HHHHHHHhcCCCEEEEChHHHH
Confidence 5899999999999999999999984 23455544443 45 5566778888999999999874
No 48
>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=96.82 E-value=0.0027 Score=61.39 Aligned_cols=56 Identities=14% Similarity=0.135 Sum_probs=45.4
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 98 AVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
+++|+|||.++|.|.++.++.+.+ +.+|+-+.++ ++.+++...+ ..+|++|||||+
T Consensus 99 ~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~-~~~~~r~~~y--~~dIvyGT~~rl 156 (745)
T TIGR00963 99 GVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSG-MSPEERREAY--ACDITYGTNNEL 156 (745)
T ss_pred CEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCC-CCHHHHHHhc--CCCEEEECCCch
Confidence 699999999999999999999844 3667777765 6766655554 479999999998
No 49
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.81 E-value=0.0027 Score=62.46 Aligned_cols=57 Identities=11% Similarity=0.148 Sum_probs=46.2
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
..++|||||+++|.|.++.+..+.+ +..|.-++++ +..+++.+.+ .++|++|||||+
T Consensus 124 ~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg-~~~~~r~~~y--~~dIvygT~grl 182 (896)
T PRK13104 124 RGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPD-MSHKEKQEAY--KADIVYGTNNEY 182 (896)
T ss_pred CCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCC-CCHHHHHHHh--CCCEEEECChhh
Confidence 3599999999999999999999743 3556667776 6777776655 589999999997
No 50
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=96.72 E-value=0.002 Score=66.36 Aligned_cols=62 Identities=16% Similarity=0.131 Sum_probs=49.8
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhh-----------h---cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSL-----------T---KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~-----------~---k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.+++|+|+|++++|.|+.+.|+.. . -+.+|..+-|. ...+++.+.+++..+|+|+||+|+.
T Consensus 36 ~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~vrtGD-t~~~eR~rll~~ppdILVTTPEsL~ 111 (1490)
T PRK09751 36 KTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRTGD-TPAQERSKLTRNPPDILITTPESLY 111 (1490)
T ss_pred CCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEEEEECC-CCHHHHHHHhcCCCCEEEecHHHHH
Confidence 4589999999999999999998751 0 13455555554 6889999999999999999999985
No 51
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.69 E-value=0.0023 Score=64.38 Aligned_cols=61 Identities=18% Similarity=0.243 Sum_probs=44.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHh----cCCcEEEeCCCce
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTPSRL 156 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTPgRl 156 (160)
..++++||+||+++|.|+++.++.+-+ .+++.-+ .+.....+|.+.++ .+++|+||||+.+
T Consensus 648 ~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l-~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL 714 (1147)
T PRK10689 648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEML-SRFRSAKEQTQILAEAAEGKIDILIGTHKLL 714 (1147)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEE-ECCCCHHHHHHHHHHHHhCCCCEEEECHHHH
Confidence 358999999999999999999987422 2333333 34457777776654 3589999999754
No 52
>PRK13767 ATP-dependent helicase; Provisional
Probab=96.56 E-value=0.0028 Score=61.78 Aligned_cols=63 Identities=16% Similarity=0.121 Sum_probs=48.2
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhh-------h----c---ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSL-------T----K---ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~-------~----k---~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.+.+++|+|+|++++|.|+.+.+... . . +.++..+.|. ....++.+.++++.+|+|+||+|+.
T Consensus 82 ~~~~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gd-t~~~~r~~~l~~~p~IlVtTPE~L~ 158 (876)
T PRK13767 82 EDKVYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGD-TSSYEKQKMLKKPPHILITTPESLA 158 (876)
T ss_pred CCCeEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCC-CCHHHHHHHHhCCCCEEEecHHHHH
Confidence 35689999999999999999876632 1 1 2344445444 5788888899989999999999974
No 53
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=96.43 E-value=0.0073 Score=58.82 Aligned_cols=60 Identities=12% Similarity=0.043 Sum_probs=46.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.++++|+|||+++|.|.++.++.+-. +.+|+-+.++ ++..+|.+.. -+++|++|||||+-
T Consensus 119 G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~-~~~~~~r~~~-y~~dIvygT~~~l~ 180 (790)
T PRK09200 119 GKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSD-IDDASEKKAI-YEADIIYTTNSELG 180 (790)
T ss_pred CCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCC-CCcHHHHHHh-cCCCEEEECCcccc
Confidence 46899999999999999999999833 4556666665 5545554433 47999999999983
No 54
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=95.91 E-value=0.01 Score=56.71 Aligned_cols=59 Identities=10% Similarity=-0.032 Sum_probs=47.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhh--cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLT--KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~--k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
..++++|||||+++|.|.++.++.|- -+.+|.-++++ ++ .|.+.+..+++|++||.+-+
T Consensus 143 ~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~gg-~~--~~~r~~~y~~dIvygT~~e~ 203 (656)
T PRK12898 143 AGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVED-QS--PDERRAAYGADITYCTNKEL 203 (656)
T ss_pred cCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeCC-CC--HHHHHHHcCCCEEEECCCch
Confidence 34899999999999999999999973 24667778876 44 45666667899999999865
No 55
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=95.85 E-value=0.011 Score=58.42 Aligned_cols=58 Identities=12% Similarity=0.154 Sum_probs=41.0
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCH---HHHHHHHhc-CCcEEEeCCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKV---EEQVSLLKN-RVNFAGGTPS 154 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki---~eQi~~Lk~-~v~I~VGTPg 154 (160)
.++++||+||+++|.|+++.++.+-+ +.++.-|- +.... +++++.|+. .++|+||||.
T Consensus 500 g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Ls-g~~~~~e~~~~~~~l~~g~~dIVIGTp~ 563 (926)
T TIGR00580 500 GKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLS-RFRSAKEQNEILKELASGKIDILIGTHK 563 (926)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEe-ccccHHHHHHHHHHHHcCCceEEEchHH
Confidence 37999999999999999999998532 23344343 33343 344555665 4899999993
No 56
>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=95.79 E-value=0.018 Score=55.97 Aligned_cols=61 Identities=5% Similarity=-0.045 Sum_probs=42.6
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhcc--CCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSK--HMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaK--h~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.++||||++++|.|.++.++.+.+ +..|.-.++. +-....+.+....+.+|++|||||+.
T Consensus 112 ~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~y~~dIvygTp~~Lg 176 (762)
T TIGR03714 112 KGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKIYNSDIVYTTNSALG 176 (762)
T ss_pred CceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHhCCCCEEEECchhhh
Confidence 4699999999999999999988632 2223322221 11355555555568999999999983
No 57
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.69 E-value=0.017 Score=54.99 Aligned_cols=61 Identities=16% Similarity=0.192 Sum_probs=44.1
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCCCceee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTPSRLVI 158 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTPgRl~~ 158 (160)
..++|||+|+.++|.|+.+.++..-+ .+++-+.++ +.-.++.+.. . ..++|+||||+++.+
T Consensus 190 g~~vLvLvPt~~L~~Q~~~~l~~~fg-~~v~~~~s~-~s~~~r~~~~~~~~~g~~~IVVgTrsal~~ 254 (679)
T PRK05580 190 GKQALVLVPEIALTPQMLARFRARFG-APVAVLHSG-LSDGERLDEWRKAKRGEAKVVIGARSALFL 254 (679)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhC-CCEEEEECC-CCHHHHHHHHHHHHcCCCCEEEeccHHhcc
Confidence 36899999999999999999987422 345555544 5555554432 3 458999999998764
No 58
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.39 E-value=0.007 Score=57.11 Aligned_cols=65 Identities=18% Similarity=0.222 Sum_probs=46.3
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhh--cc-cchhhhhccCCCHH-HHHHHHhcCCcEEEeCCCcee
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLT--KE-CHAVKLFSKHMKVE-EQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~--k~-~~v~KLFaKh~Ki~-eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.+..-+++||.|++++|.|++|+++.|+ .+ .--+..|.+...-. .+-.......+|.|+||.||.
T Consensus 206 ~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~ 274 (593)
T KOG0344|consen 206 HKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIV 274 (593)
T ss_pred CccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHH
Confidence 3456799999999999999999999996 21 22344555543333 333333467899999999963
No 59
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=95.34 E-value=0.043 Score=53.91 Aligned_cols=56 Identities=14% Similarity=0.132 Sum_probs=46.4
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 98 AVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
.+-|+|||.++|.|.++.+..+-+ +.+|.-+.++ ++.+++.+.+. ++|++|||||+
T Consensus 124 ~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~~-~~~~er~~~y~--~dI~ygT~~el 181 (830)
T PRK12904 124 GVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILSG-MSPEERREAYA--ADITYGTNNEF 181 (830)
T ss_pred CEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcCC-CCHHHHHHhcC--CCeEEECCcch
Confidence 366999999999999999999843 4566777775 78888887764 89999999998
No 60
>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=94.91 E-value=0.033 Score=50.15 Aligned_cols=58 Identities=21% Similarity=0.180 Sum_probs=42.1
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTPgRl~ 157 (160)
+.+|||+|+++++.|..+.++.+ +..+..+ ......+++...+ + ..++|+++||+|+.
T Consensus 52 ~~~lVi~P~~~L~~dq~~~l~~~--gi~~~~l-~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~ 113 (470)
T TIGR00614 52 GITLVISPLISLMEDQVLQLKAS--GIPATFL-NSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCS 113 (470)
T ss_pred CcEEEEecHHHHHHHHHHHHHHc--CCcEEEE-eCCCCHHHHHHHHHHHhcCCCCEEEECHHHHc
Confidence 57999999999999999999876 3333433 3334555554433 4 35899999999975
No 61
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=94.80 E-value=0.039 Score=56.00 Aligned_cols=58 Identities=21% Similarity=0.224 Sum_probs=45.3
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh------cCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK------NRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk------~~v~I~VGTPgRl~ 157 (160)
..+|||+|+++++.|-...|... +.+++-|.+. +...+|.+.++ ..++|+++||+||.
T Consensus 501 GiTLVISPLiSLmqDQV~~L~~~--GI~Aa~L~s~-~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~ 564 (1195)
T PLN03137 501 GITLVISPLVSLIQDQIMNLLQA--NIPAASLSAG-MEWAEQLEILQELSSEYSKYKLLYVTPEKVA 564 (1195)
T ss_pred CcEEEEeCHHHHHHHHHHHHHhC--CCeEEEEECC-CCHHHHHHHHHHHHhcCCCCCEEEEChHHhh
Confidence 58999999999999777777665 4445555554 78888888775 25799999999984
No 62
>PHA02558 uvsW UvsW helicase; Provisional
Probab=94.67 E-value=0.027 Score=51.38 Aligned_cols=55 Identities=16% Similarity=0.108 Sum_probs=40.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+.+++|||+||++++.|+.+.++.|.. ...+..++++..+ ....+|.|+||+++.
T Consensus 157 ~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~--------~~~~~I~VaT~qsl~ 213 (501)
T PHA02558 157 YEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAK--------DTDAPIVVSTWQSAV 213 (501)
T ss_pred CCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecCccc--------CCCCCEEEeeHHHHh
Confidence 345899999999999999999999842 2234455555321 135799999999874
No 63
>PRK02362 ski2-like helicase; Provisional
Probab=94.54 E-value=0.025 Score=53.90 Aligned_cols=57 Identities=9% Similarity=0.059 Sum_probs=41.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc-ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK-ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k-~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
..++|+|+|++++|.|..+.++.|.+ +.+|..+.|. +...+ +.+ ...+|+|+||+|+
T Consensus 67 ~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~tGd-~~~~~--~~l-~~~~IiV~Tpek~ 124 (737)
T PRK02362 67 GGKALYIVPLRALASEKFEEFERFEELGVRVGISTGD-YDSRD--EWL-GDNDIIVATSEKV 124 (737)
T ss_pred CCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEEeCC-cCccc--ccc-CCCCEEEECHHHH
Confidence 35799999999999999999998843 4556656554 33322 233 3579999999986
No 64
>PRK00254 ski2-like helicase; Provisional
Probab=94.54 E-value=0.036 Score=52.67 Aligned_cols=57 Identities=7% Similarity=0.036 Sum_probs=42.4
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc-ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK-ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k-~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
..++|+|+|++++|.|..+.++.|.+ +.+|..+.|.. ... .+.+ ...+|+|+||+|+
T Consensus 68 ~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~-~~~--~~~~-~~~~IiV~Tpe~~ 125 (720)
T PRK00254 68 GGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDY-DST--DEWL-GKYDIIIATAEKF 125 (720)
T ss_pred CCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCC-CCc--hhhh-ccCCEEEEcHHHH
Confidence 36899999999999999999988732 45666666653 322 2233 4689999999986
No 65
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.47 E-value=0.018 Score=52.67 Aligned_cols=65 Identities=12% Similarity=0.135 Sum_probs=41.0
Q ss_pred hccCCCCCCCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cC--CcEEEeCCCce
Q 031382 87 LLEGKIDPGSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NR--VNFAGGTPSRL 156 (160)
Q Consensus 87 l~k~~~~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~--v~I~VGTPgRl 156 (160)
|+.-+...-.||+|-|+||||+|-|+.+.+...+|.+.+-.-|+ +.+- +.-+ +. -+|+|||||-+
T Consensus 151 Lsrvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~ya----ir~s-k~~rG~~i~eqIviGTPGtv 218 (477)
T KOG0332|consen 151 LSRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYA----IRGS-KAKRGNKLTEQIVIGTPGTV 218 (477)
T ss_pred HHhcCccccCCCceeeCchHHHHHHHHHHHHHhcCceeeeEEEE----ecCc-ccccCCcchhheeeCCCccH
Confidence 44555666889999999999999999887777654432221222 1110 1111 12 37999999964
No 66
>PHA02653 RNA helicase NPH-II; Provisional
Probab=93.68 E-value=0.15 Score=48.99 Aligned_cols=59 Identities=5% Similarity=-0.142 Sum_probs=44.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc-----ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCc
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK-----ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSR 155 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k-----~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgR 155 (160)
..++++|++|++++|.|+...+...-+ +++|.-.|++. . ++|+....++.+|+|+||+-
T Consensus 221 ~~~~ilvt~PrreLa~qi~~~i~~~vg~~~~~g~~v~v~~Gg~-~-~~~~~t~~k~~~Ilv~T~~L 284 (675)
T PHA02653 221 IERPIVLSLPRVALVRLHSITLLKSLGFDEIDGSPISLKYGSI-P-DELINTNPKPYGLVFSTHKL 284 (675)
T ss_pred CCcEEEEECcHHHHHHHHHHHHHHHhCccccCCceEEEEECCc-c-hHHhhcccCCCCEEEEeCcc
Confidence 467999999999999999998876432 24456678874 3 45555554688999999974
No 67
>PRK01172 ski2-like helicase; Provisional
Probab=93.61 E-value=0.058 Score=50.67 Aligned_cols=56 Identities=11% Similarity=0.026 Sum_probs=40.2
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc-ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK-ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k-~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
.++|+++|++++|.|+++.++.|.. +.+|..+.+.. .. +.+.+ ...+|+|+||+|+
T Consensus 66 ~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~-~~--~~~~~-~~~dIiv~Tpek~ 122 (674)
T PRK01172 66 LKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIGDY-DD--PPDFI-KRYDVVILTSEKA 122 (674)
T ss_pred CcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeCCC-CC--Chhhh-ccCCEEEECHHHH
Confidence 5799999999999999999988732 34455555542 22 22233 3679999999985
No 68
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=92.47 E-value=0.38 Score=47.92 Aligned_cols=54 Identities=11% Similarity=0.041 Sum_probs=39.5
Q ss_pred EEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhc-CCcEEEeCCCce
Q 031382 99 VLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKN-RVNFAGGTPSRL 156 (160)
Q Consensus 99 ~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~-~v~I~VGTPgRl 156 (160)
+.||||+.++|.+.++.++.+-. +..|.-+.++ +..+ +..+. +.+|++|||||+
T Consensus 126 VhIvT~ndyLA~RD~e~m~~l~~~lGlsv~~i~~~-~~~~---~r~~~Y~~dI~YgT~~e~ 182 (908)
T PRK13107 126 VHVITVNDYLARRDAENNRPLFEFLGLTVGINVAG-LGQQ---EKKAAYNADITYGTNNEF 182 (908)
T ss_pred EEEEeCCHHHHHHHHHHHHHHHHhcCCeEEEecCC-CCHH---HHHhcCCCCeEEeCCCcc
Confidence 99999999999999999998732 2344444443 4442 23333 789999999998
No 69
>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=92.16 E-value=0.1 Score=51.14 Aligned_cols=58 Identities=12% Similarity=0.080 Sum_probs=37.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
.++++|+.|+|+.|.|+++.+...-+ ..+....|-.+..+. .+..+.+|.|+||||++
T Consensus 45 ~~~ilvlqPrR~aA~qiA~rva~~~~-~~~g~~VGy~vr~~~---~~s~~t~I~v~T~G~Ll 102 (819)
T TIGR01970 45 GGKIIMLEPRRLAARSAAQRLASQLG-EAVGQTVGYRVRGEN---KVSRRTRLEVVTEGILT 102 (819)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhC-CCcCcEEEEEEcccc---ccCCCCcEEEECCcHHH
Confidence 36899999999999999988854311 111112222222222 23456899999999974
No 70
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=92.01 E-value=0.077 Score=51.81 Aligned_cols=56 Identities=11% Similarity=0.127 Sum_probs=35.2
Q ss_pred CeEEEEcCchhhHHHHHHHHhhh-hcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSL-TKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~-~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+++||+.|+|+.|.|+++.+... ... +....|--+..+. ......+|.|+||||++
T Consensus 49 ~~ilvlqPrR~aA~qia~rva~~l~~~--~g~~VGy~vr~~~---~~~~~t~I~v~T~G~Ll 105 (812)
T PRK11664 49 GKIIMLEPRRLAARNVAQRLAEQLGEK--PGETVGYRMRAES---KVGPNTRLEVVTEGILT 105 (812)
T ss_pred CeEEEECChHHHHHHHHHHHHHHhCcc--cCceEEEEecCcc---ccCCCCcEEEEChhHHH
Confidence 58999999999999999888543 211 1111111111111 12345789999999974
No 71
>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=91.99 E-value=0.4 Score=33.10 Aligned_cols=61 Identities=20% Similarity=0.292 Sum_probs=42.3
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhc-ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTK-ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k-~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
+.+.+||++|+..++.|..+.+..+.. ...+. ++.......++......+.+|.++|++++
T Consensus 29 ~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~i~t~~~~ 90 (144)
T cd00046 29 KGGQVLVLAPTRELANQVAERLKELFGEGIKVG-YLIGGTSIKQQEKLLSGKTDIVVGTPGRL 90 (144)
T ss_pred cCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEE-EEecCcchhHHHHHhcCCCCEEEECcHHH
Confidence 468999999999999999988888742 22232 23332344444444456899999999875
No 72
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=91.45 E-value=0.4 Score=35.31 Aligned_cols=60 Identities=22% Similarity=0.265 Sum_probs=42.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhccc--chhhhhccCCCHHHHHHHHhcCC-cEEEeCCCce
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKEC--HAVKLFSKHMKVEEQVSLLKNRV-NFAGGTPSRL 156 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~--~v~KLFaKh~Ki~eQi~~Lk~~v-~I~VGTPgRl 156 (160)
...+||++|+...+.|+.+.+..+.... .....+.. ....++++.+..+. +|+++||+++
T Consensus 54 ~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~v~~~t~~~l 116 (201)
T smart00487 54 GKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGG-DSKREQLRKLESGKTDILVTTPGRL 116 (201)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCC-cchHHHHHHHhcCCCCEEEeChHHH
Confidence 4579999999999999999988874321 11222333 24577777777665 9999999865
No 73
>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=89.85 E-value=0.47 Score=43.84 Aligned_cols=59 Identities=19% Similarity=0.245 Sum_probs=40.1
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHH---Hhc-CCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSL---LKN-RVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~---Lk~-~v~I~VGTPgRl~ 157 (160)
.++|||+|+..++.|+.+.++..-+ .+++-+.++ +.-.+..+. +.+ .++|+|||++.+.
T Consensus 26 ~~vLvlvP~i~L~~Q~~~~l~~~f~-~~v~vlhs~-~~~~er~~~~~~~~~g~~~IVVGTrsalf 88 (505)
T TIGR00595 26 KSVLVLVPEIALTPQMIQRFKYRFG-SQVAVLHSG-LSDSEKLQAWRKVKNGEILVVIGTRSALF 88 (505)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHHhC-CcEEEEECC-CCHHHHHHHHHHHHcCCCCEEECChHHHc
Confidence 4899999999999999999987422 234444443 343333222 333 5899999998765
No 74
>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=88.24 E-value=0.87 Score=42.22 Aligned_cols=57 Identities=19% Similarity=0.201 Sum_probs=42.2
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCCCcee
Q 031382 98 AVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTPSRLV 157 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTPgRl~ 157 (160)
.+|||+|+..++.|..+.++.+ +..+..+ ......+++.+.+ . ..++|+++||.|+.
T Consensus 55 ~~lVisPl~sL~~dq~~~l~~~--gi~~~~~-~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~ 115 (591)
T TIGR01389 55 LTVVISPLISLMKDQVDQLRAA--GVAAAYL-NSTLSAKEQQDIEKALVNGELKLLYVAPERLE 115 (591)
T ss_pred cEEEEcCCHHHHHHHHHHHHHc--CCcEEEE-eCCCCHHHHHHHHHHHhCCCCCEEEEChhHhc
Confidence 5899999999999999999987 3334433 3445666655443 3 46899999999974
No 75
>PRK13766 Hef nuclease; Provisional
Probab=87.44 E-value=0.96 Score=43.05 Aligned_cols=59 Identities=17% Similarity=0.181 Sum_probs=41.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
...+|||+||..++-|..+.++.+.+ ..++..+-| ..+-.+..+ +-.+.+|+|+||+.+
T Consensus 58 ~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g-~~~~~~r~~-~~~~~~iiv~T~~~l 118 (773)
T PRK13766 58 GGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTG-EVSPEKRAE-LWEKAKVIVATPQVI 118 (773)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeC-CCCHHHHHH-HHhCCCEEEECHHHH
Confidence 35899999999999999999998732 234444443 345544333 334679999999765
No 76
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=87.42 E-value=0.82 Score=42.87 Aligned_cols=58 Identities=16% Similarity=0.201 Sum_probs=41.4
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCCCcee
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTPSRLV 157 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTPgRl~ 157 (160)
..+|||+|+++++.|..+.++.+. ..+. .+......+++...+ . ..++|+++||+|+.
T Consensus 66 g~tlVisPl~sL~~dqv~~l~~~g--i~~~-~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~ 127 (607)
T PRK11057 66 GLTLVVSPLISLMKDQVDQLLANG--VAAA-CLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLM 127 (607)
T ss_pred CCEEEEecHHHHHHHHHHHHHHcC--CcEE-EEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhc
Confidence 369999999999999999998872 2222 233334556555443 3 35899999999986
No 77
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=86.78 E-value=1.2 Score=45.31 Aligned_cols=57 Identities=18% Similarity=0.286 Sum_probs=41.1
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhh-hhcc-cchhhhhccCCCHHHHHHHHh---c-CCcEEEeC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRS-LTKE-CHAVKLFSKHMKVEEQVSLLK---N-RVNFAGGT 152 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~-~~k~-~~v~KLFaKh~Ki~eQi~~Lk---~-~v~I~VGT 152 (160)
+..|+.||+||-++|-|=++-++. |.+. ++|. +-++...-+||-+.|+ + .|+|+|||
T Consensus 642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~-~LSRF~s~kE~~~il~~la~G~vDIvIGT 704 (1139)
T COG1197 642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIE-VLSRFRSAKEQKEILKGLAEGKVDIVIGT 704 (1139)
T ss_pred CCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEE-EecccCCHHHHHHHHHHHhcCCccEEEec
Confidence 449999999999999999988876 4332 2232 2355556677766664 4 58999999
No 78
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=84.64 E-value=1.7 Score=42.14 Aligned_cols=56 Identities=14% Similarity=0.200 Sum_probs=43.4
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCC---HHHHHHHHhcC-CcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMK---VEEQVSLLKNR-VNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~K---i~eQi~~Lk~~-v~I~VGTP 153 (160)
=|+....||-++|-|-++.++++-+ +.+|+-|-|+ +| -++..+.|.+| ++|+|||=
T Consensus 312 ~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~-~kgk~r~~~l~~l~~G~~~ivVGTH 373 (677)
T COG1200 312 YQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGS-LKGKARKEILEQLASGEIDIVVGTH 373 (677)
T ss_pred CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecc-cchhHHHHHHHHHhCCCCCEEEEcc
Confidence 3899999999999999999999732 5677777765 55 34445555667 89999994
No 79
>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=82.97 E-value=2.7 Score=37.88 Aligned_cols=55 Identities=13% Similarity=0.158 Sum_probs=42.3
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
.+.+||.|+|+..|-++++.|+.. +..++.+.|+ +.-++..+.++ ..++|+|+|-
T Consensus 226 ~~~~IIF~~s~~~~e~la~~L~~~--g~~~~~~H~~-l~~~eR~~i~~~F~~g~~~vLVaT~ 284 (470)
T TIGR00614 226 GKSGIIYCPSRKKSEQVTASLQNL--GIAAGAYHAG-LEISARDDVHHKFQRDEIQVVVATV 284 (470)
T ss_pred CCceEEEECcHHHHHHHHHHHHhc--CCCeeEeeCC-CCHHHHHHHHHHHHcCCCcEEEEec
Confidence 456799999999999999999876 4456777765 67666555553 4689999994
No 80
>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=82.25 E-value=2.2 Score=43.59 Aligned_cols=52 Identities=13% Similarity=0.135 Sum_probs=39.9
Q ss_pred CeEEEEcCch---hhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHhc-CCcEEEeC
Q 031382 97 PAVLIISSSA---LRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKN-RVNFAGGT 152 (160)
Q Consensus 97 P~~lIl~~Sa---~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~-~v~I~VGT 152 (160)
+.+||.|+|. +.|-++++.|+.. +.++.-+.|+ +. ++.++..++ .++|.|||
T Consensus 327 ~~~IVFv~t~~~~~~a~~l~~~L~~~--g~~a~~lhg~-~~-~~~l~~Fr~G~~~vLVat 382 (1171)
T TIGR01054 327 TGGIVYVSIDYGKEKAEEIAEFLENH--GVKAVAYHAT-KP-KEDYEKFAEGEIDVLIGV 382 (1171)
T ss_pred CCEEEEEeccccHHHHHHHHHHHHhC--CceEEEEeCC-CC-HHHHHHHHcCCCCEEEEe
Confidence 5789999999 9999999999875 4455667665 33 455666664 58999998
No 81
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=80.32 E-value=3.4 Score=36.90 Aligned_cols=54 Identities=13% Similarity=0.198 Sum_probs=41.5
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh---c-CCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK---N-RVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk---~-~v~I~VGTP 153 (160)
..+||.|+|+..|..+++.|+.. +..+..+++. +.-+++-..++ + .++|+|+|-
T Consensus 243 ~~~lVF~~t~~~~~~l~~~L~~~--~~~v~~~hg~-~~~~eR~~~l~~F~~g~~~vLVaTd 300 (460)
T PRK11776 243 ESCVVFCNTKKECQEVADALNAQ--GFSALALHGD-LEQRDRDQVLVRFANRSCSVLVATD 300 (460)
T ss_pred CceEEEECCHHHHHHHHHHHHhC--CCcEEEEeCC-CCHHHHHHHHHHHHcCCCcEEEEec
Confidence 46999999999999999999886 4456777765 67666655553 3 479999984
No 82
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=79.46 E-value=3 Score=35.55 Aligned_cols=25 Identities=12% Similarity=0.155 Sum_probs=22.5
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhh
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
...+++++.|++.+|.|+++.++.+
T Consensus 28 ~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 28 KADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred CCCeEEEEeehHHHHHHHHHHHHHH
Confidence 3468999999999999999999986
No 83
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=79.25 E-value=3.9 Score=36.05 Aligned_cols=55 Identities=13% Similarity=0.160 Sum_probs=41.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
..++||.|+++..|-.+.+.|+.. +.++.-+.++ +.-+++.+.++ ..++|+|+|-
T Consensus 255 ~~~~lVF~~t~~~~~~l~~~L~~~--g~~v~~lhg~-~~~~~R~~~l~~F~~g~~~vLVaTd 313 (423)
T PRK04837 255 PDRAIIFANTKHRCEEIWGHLAAD--GHRVGLLTGD-VAQKKRLRILEEFTRGDLDILVATD 313 (423)
T ss_pred CCeEEEEECCHHHHHHHHHHHHhC--CCcEEEecCC-CChhHHHHHHHHHHcCCCcEEEEec
Confidence 468999999999999999999875 3455666654 66666666553 3589999994
No 84
>PRK09401 reverse gyrase; Reviewed
Probab=78.70 E-value=2.8 Score=42.92 Aligned_cols=51 Identities=24% Similarity=0.193 Sum_probs=40.0
Q ss_pred CeEEEEcCchhh---HHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHhc-CCcEEEeC
Q 031382 97 PAVLIISSSALR---SIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKN-RVNFAGGT 152 (160)
Q Consensus 97 P~~lIl~~Sa~r---a~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~-~v~I~VGT 152 (160)
+.+||.|+|... |-++++.|+.. +.++..+.|+ +++.++..++ .++|.|||
T Consensus 329 ~~~LIFv~t~~~~~~ae~l~~~L~~~--gi~v~~~hg~---l~~~l~~F~~G~~~VLVat 383 (1176)
T PRK09401 329 DGGLIFVPSDKGKEYAEELAEYLEDL--GINAELAISG---FERKFEKFEEGEVDVLVGV 383 (1176)
T ss_pred CCEEEEEecccChHHHHHHHHHHHHC--CCcEEEEeCc---HHHHHHHHHCCCCCEEEEe
Confidence 579999999777 99999999876 4566667665 3777777775 58999997
No 85
>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=78.23 E-value=5.3 Score=33.98 Aligned_cols=57 Identities=19% Similarity=0.217 Sum_probs=39.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHH-------HHHHh-cCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQ-------VSLLK-NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQ-------i~~Lk-~~v~I~VGTP 153 (160)
..++||+|+|...|..+++.|+.......+.-+-|+ +.-++. ++.++ ....|+|+|.
T Consensus 222 ~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~-~~~~~r~~~~~~~~~~f~~~~~~ilvaT~ 286 (358)
T TIGR01587 222 GGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSR-FTEKDRAKKEAELLEEMKKNEKFVIVATQ 286 (358)
T ss_pred CCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECC-CCHHHHHHHHHHHHHHhcCCCCeEEEECc
Confidence 368999999999999999999876333345556555 332222 34455 3578999996
No 86
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=77.49 E-value=5.3 Score=35.84 Aligned_cols=56 Identities=13% Similarity=0.114 Sum_probs=41.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---hc-CCcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---KN-RVNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k~-~v~I~VGTP 153 (160)
...++||.|+|+..|..+++.|+.. ...+..+.++ +.-++..+.+ ++ .++|+|+|-
T Consensus 244 ~~~~~lVF~~t~~~~~~l~~~L~~~--g~~~~~lhg~-~~~~~R~~~l~~F~~g~~~iLVaTd 303 (456)
T PRK10590 244 NWQQVLVFTRTKHGANHLAEQLNKD--GIRSAAIHGN-KSQGARTRALADFKSGDIRVLVATD 303 (456)
T ss_pred CCCcEEEEcCcHHHHHHHHHHHHHC--CCCEEEEECC-CCHHHHHHHHHHHHcCCCcEEEEcc
Confidence 3468999999999999999999875 3445666665 6666655555 33 579999994
No 87
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=75.47 E-value=5 Score=37.59 Aligned_cols=55 Identities=11% Similarity=0.109 Sum_probs=42.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh---c-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK---N-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk---~-~v~I~VGTP 153 (160)
..++||.|.|...|-.|++.|... +..+..+.++ +.-+++.+.++ + .++|+|+|-
T Consensus 257 ~~k~LVF~nt~~~ae~l~~~L~~~--g~~v~~lhg~-l~~~eR~~il~~Fr~G~~~VLVaTd 315 (572)
T PRK04537 257 GARTMVFVNTKAFVERVARTLERH--GYRVGVLSGD-VPQKKRESLLNRFQKGQLEILVATD 315 (572)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHc--CCCEEEEeCC-CCHHHHHHHHHHHHcCCCeEEEEeh
Confidence 468999999999999999999876 3456666665 67777666664 3 579999994
No 88
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=74.92 E-value=5 Score=39.53 Aligned_cols=55 Identities=13% Similarity=0.169 Sum_probs=46.3
Q ss_pred CeEEEEcCchhhHHHHHHHHhh-hhcccchhhhhccCCCHHHHHHHHhc---C-CcEEEeC
Q 031382 97 PAVLIISSSALRSIELLKGLRS-LTKECHAVKLFSKHMKVEEQVSLLKN---R-VNFAGGT 152 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~-~~k~~~v~KLFaKh~Ki~eQi~~Lk~---~-v~I~VGT 152 (160)
..+||.+|+...+-.+++.|+. +..+..|..|+|. +..++|.+.++. | ..|+|+|
T Consensus 210 g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~-L~~~eq~~~~~~~~~G~rkVlVAT 269 (819)
T TIGR01970 210 GSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGE-LSLAAQDRAIKPDPQGRRKVVLAT 269 (819)
T ss_pred CcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCC-CCHHHHHHHHhhcccCCeEEEEec
Confidence 4699999999999999999986 3346778999987 899999999962 3 6899999
No 89
>PTZ00110 helicase; Provisional
Probab=74.33 E-value=6.1 Score=36.69 Aligned_cols=56 Identities=23% Similarity=0.157 Sum_probs=41.1
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---hc-CCcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---KN-RVNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k~-~v~I~VGTP 153 (160)
..+++||.|+|...|-.+++.|+.. +..+..+.+. ++-++..+.| ++ .++|+|+|-
T Consensus 376 ~~~k~LIF~~t~~~a~~l~~~L~~~--g~~~~~ihg~-~~~~eR~~il~~F~~G~~~ILVaTd 435 (545)
T PTZ00110 376 DGDKILIFVETKKGADFLTKELRLD--GWPALCIHGD-KKQEERTWVLNEFKTGKSPIMIATD 435 (545)
T ss_pred cCCeEEEEecChHHHHHHHHHHHHc--CCcEEEEECC-CcHHHHHHHHHHHhcCCCcEEEEcc
Confidence 4579999999999999999999864 3344556665 5666655555 43 479999994
No 90
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=73.61 E-value=8.8 Score=33.84 Aligned_cols=56 Identities=20% Similarity=0.156 Sum_probs=41.4
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---hc-CCcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---KN-RVNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k~-~v~I~VGTP 153 (160)
...++||.|.|++.|..+++.|+.. +..+.-+-+. +.-++..+.+ +. .++|+|+|-
T Consensus 244 ~~~~~lVF~~s~~~~~~l~~~L~~~--~~~~~~l~g~-~~~~~R~~~l~~f~~G~~~vLVaTd 303 (434)
T PRK11192 244 EVTRSIVFVRTRERVHELAGWLRKA--GINCCYLEGE-MVQAKRNEAIKRLTDGRVNVLVATD 303 (434)
T ss_pred CCCeEEEEeCChHHHHHHHHHHHhC--CCCEEEecCC-CCHHHHHHHHHHHhCCCCcEEEEcc
Confidence 4468999999999999999999875 3445555554 6666665555 33 479999984
No 91
>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=72.37 E-value=7.9 Score=33.82 Aligned_cols=54 Identities=13% Similarity=-0.017 Sum_probs=37.5
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTP 153 (160)
-++||+|+|...|..+++.|+...-+..+..+.+.| .-++..+.+ ..+|+|+|.
T Consensus 273 ~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~-~~~~R~~~~--~~~iLVaTd 326 (357)
T TIGR03158 273 ERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFA-PKKDRERAM--QFDILLGTS 326 (357)
T ss_pred CeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCC-CHHHHHHhc--cCCEEEEec
Confidence 379999999999999999999753233455566664 333333322 578888885
No 92
>PTZ00424 helicase 45; Provisional
Probab=70.75 E-value=8.9 Score=33.03 Aligned_cols=55 Identities=9% Similarity=0.093 Sum_probs=40.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---hc-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---KN-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k~-~v~I~VGTP 153 (160)
..++||.|+|+..|-.+++.++.. +..+..+.+. +.-+++...+ ++ .++|+|+|-
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~--~~~~~~~h~~-~~~~~R~~i~~~f~~g~~~vLvaT~ 325 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHER--DFTVSCMHGD-MDQKDRDLIMREFRSGSTRVLITTD 325 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHC--CCcEEEEeCC-CCHHHHHHHHHHHHcCCCCEEEEcc
Confidence 357899999999999999988875 3445666665 6666555544 33 589999995
No 93
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=70.14 E-value=8.1 Score=36.29 Aligned_cols=54 Identities=11% Similarity=0.105 Sum_probs=40.4
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
..+||.|+|+..|-++++.|+.. +..+..+.|+ +.-++..+.++ ..++|+|+|.
T Consensus 237 ~~~IIFc~tr~~~e~la~~L~~~--g~~v~~~Ha~-l~~~~R~~i~~~F~~g~~~VLVaT~ 294 (607)
T PRK11057 237 KSGIIYCNSRAKVEDTAARLQSR--GISAAAYHAG-LDNDVRADVQEAFQRDDLQIVVATV 294 (607)
T ss_pred CCEEEEECcHHHHHHHHHHHHhC--CCCEEEecCC-CCHHHHHHHHHHHHCCCCCEEEEec
Confidence 57899999999999999999876 3445656554 66555555443 3589999996
No 94
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=69.07 E-value=11 Score=33.82 Aligned_cols=55 Identities=11% Similarity=0.117 Sum_probs=40.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh---c-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK---N-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk---~-~v~I~VGTP 153 (160)
..++||.|.++..|-.+.+.|+.. +..+..+.|. +.-+++.+.++ + .++|+|+|-
T Consensus 335 ~~~~IVF~~s~~~~~~l~~~L~~~--~~~~~~~~g~-~~~~~R~~~~~~Fr~G~~~vLvaT~ 393 (475)
T PRK01297 335 WERVMVFANRKDEVRRIEERLVKD--GINAAQLSGD-VPQHKRIKTLEGFREGKIRVLVATD 393 (475)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHc--CCCEEEEECC-CCHHHHHHHHHHHhCCCCcEEEEcc
Confidence 358999999999999999999775 3344555544 67777655553 3 479999985
No 95
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=67.67 E-value=9.1 Score=37.70 Aligned_cols=57 Identities=14% Similarity=0.142 Sum_probs=46.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhh-hhcccchhhhhccCCCHHHHHHHHh---cC-CcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRS-LTKECHAVKLFSKHMKVEEQVSLLK---NR-VNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~-~~k~~~v~KLFaKh~Ki~eQi~~Lk---~~-v~I~VGTP 153 (160)
.-.+||.+|+...+..+++.|+. +..+..+..|+|. +..++|.+.++ +| ..|+|+|.
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~-l~~~eq~~~~~~~~~G~rkVlvATn 273 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGA-LSLAEQQKAILPAPAGRRKVVLATN 273 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCC-CCHHHHHHHhccccCCCeEEEEecc
Confidence 35799999999999999999987 3345678889987 79999988886 23 68999994
No 96
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=67.16 E-value=10 Score=34.77 Aligned_cols=56 Identities=20% Similarity=0.267 Sum_probs=41.3
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
.|.+||.|+|+..|-.+++.|+... +.++..+.|+ +..++....++ ..++|+|+|.
T Consensus 367 ~~~~iVFv~s~~~a~~l~~~L~~~~-g~~~~~~Hg~-~~~~eR~~il~~Fr~G~~~ILVaTd 426 (518)
T PLN00206 367 KPPAVVFVSSRLGADLLANAITVVT-GLKALSIHGE-KSMKERREVMKSFLVGEVPVIVATG 426 (518)
T ss_pred CCCEEEEcCCchhHHHHHHHHhhcc-CcceEEeeCC-CCHHHHHHHHHHHHCCCCCEEEEec
Confidence 4789999999999999999887532 2345556655 67777766664 3589999994
No 97
>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=67.16 E-value=11 Score=35.00 Aligned_cols=54 Identities=19% Similarity=0.134 Sum_probs=38.9
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
..+||.|+|+..|.++++.|+.. +..+..+.|+ +.-++....++ ..++|+|+|-
T Consensus 225 ~~~IIf~~sr~~~e~la~~L~~~--g~~~~~~H~~-l~~~~R~~i~~~F~~g~~~vlVaT~ 282 (591)
T TIGR01389 225 QSGIIYASSRKKVEELAERLESQ--GISALAYHAG-LSNKVRAENQEDFLYDDVKVMVATN 282 (591)
T ss_pred CCEEEEECcHHHHHHHHHHHHhC--CCCEEEEECC-CCHHHHHHHHHHHHcCCCcEEEEec
Confidence 46899999999999999999875 3344555554 66554444433 4689999984
No 98
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=65.68 E-value=12 Score=35.67 Aligned_cols=55 Identities=18% Similarity=0.184 Sum_probs=40.0
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTP 153 (160)
..++||.|+|+..|.++++.|... +..+..+.+ .+.-+++.+.+ + ..++|+|+|-
T Consensus 245 ~~~~IVF~~tk~~a~~l~~~L~~~--g~~~~~lhg-d~~q~~R~~il~~Fr~G~~~ILVATd 303 (629)
T PRK11634 245 FDAAIIFVRTKNATLEVAEALERN--GYNSAALNG-DMNQALREQTLERLKDGRLDILIATD 303 (629)
T ss_pred CCCEEEEeccHHHHHHHHHHHHhC--CCCEEEeeC-CCCHHHHHHHHHHHhCCCCCEEEEcc
Confidence 368999999999999999999875 233455554 46666555554 4 3589999994
No 99
>PHA02653 RNA helicase NPH-II; Provisional
Probab=64.37 E-value=12 Score=36.22 Aligned_cols=56 Identities=14% Similarity=0.059 Sum_probs=42.6
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHH-HHHHHH-hc-CCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVE-EQVSLL-KN-RVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~-eQi~~L-k~-~v~I~VGTP 153 (160)
-.+||.+|+...|..+.+.|+....+..+..|+|+ +.-. ++++.+ ++ ..+|+|+|.
T Consensus 396 g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~-Lsq~eq~l~~ff~~gk~kILVATd 454 (675)
T PHA02653 396 SSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGK-VPNIDEILEKVYSSKNPSIIISTP 454 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCC-cCHHHHHHHHHhccCceeEEeccC
Confidence 37999999999999999999875334667889887 5544 445666 44 478999985
No 100
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=64.25 E-value=4.5 Score=41.98 Aligned_cols=44 Identities=14% Similarity=0.116 Sum_probs=28.7
Q ss_pred chhhHHHHHHHHhh-hhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 105 SALRSIELLKGLRS-LTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 105 Sa~ra~dv~r~l~~-~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
+++.|.+|++++.. +.. ..|=.+..++|+ ..+.+|.++|||||+
T Consensus 131 ArsLA~RVA~El~~~lG~------~VGY~vrf~~~~---s~~t~I~v~TpG~LL 175 (1294)
T PRK11131 131 ARTVANRIAEELETELGG------CVGYKVRFNDQV---SDNTMVKLMTDGILL 175 (1294)
T ss_pred HHHHHHHHHHHHhhhhcc------eeceeecCcccc---CCCCCEEEEChHHHH
Confidence 56778888877775 321 112123455555 357899999999985
No 101
>PRK14873 primosome assembly protein PriA; Provisional
Probab=63.96 E-value=14 Score=35.75 Aligned_cols=58 Identities=17% Similarity=0.089 Sum_probs=38.7
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH--hcC-CcEEEeCCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL--KNR-VNFAGGTPS 154 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L--k~~-v~I~VGTPg 154 (160)
-++|||.|.-.++-|+.+.|+..-++..|+-|-++=-.-+.--.++ .+| ++|+|||-+
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRS 249 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRS 249 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcce
Confidence 4799999999999999999997533334555644421222222333 244 899999954
No 102
>COG4750 LicC CTP:phosphocholine cytidylyltransferase involved in choline phosphorylation for cell surface LPS epitopes [Cell envelope biogenesis, outer membrane]
Probab=62.51 E-value=7.4 Score=33.04 Aligned_cols=45 Identities=13% Similarity=0.211 Sum_probs=29.6
Q ss_pred EEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCC-cEEE
Q 031382 100 LIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRV-NFAG 150 (160)
Q Consensus 100 lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v-~I~V 150 (160)
|+-++..-|+..+..+.-+ ..+|+||+ --||.||++|+ .|+ +|+|
T Consensus 5 IlAAG~gsR~~plT~~tpK-----~LlkV~g~-plIErqI~~L~e~gI~dI~I 51 (231)
T COG4750 5 ILAAGLGSRFVPLTQSTPK-----SLLKVNGE-PLIERQIEQLREAGIDDITI 51 (231)
T ss_pred EEecccccccccccccCCh-----HHHHhcCc-ccHHHHHHHHHHCCCceEEE
Confidence 3344556666666544332 25999998 57999999998 565 4443
No 103
>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=59.25 E-value=18 Score=37.72 Aligned_cols=56 Identities=14% Similarity=0.182 Sum_probs=46.7
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCHHHHHHHHhc--CCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKVEEQVSLLKN--RVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki~eQi~~Lk~--~v~I~VGTP 153 (160)
-.+||.+|+...+-++++.|+... +++.|..|||. +..++|.+.++. +-.|+|+|.
T Consensus 280 GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~-Ls~~eQ~~vf~~~~~rkIVLATN 338 (1283)
T TIGR01967 280 GDILIFLPGEREIRDAAEILRKRNLRHTEILPLYAR-LSNKEQQRVFQPHSGRRIVLATN 338 (1283)
T ss_pred CCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCC-CCHHHHHHHhCCCCCceEEEecc
Confidence 479999999999999999998763 35668899997 899999999873 358999885
No 104
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=59.01 E-value=45 Score=33.30 Aligned_cols=118 Identities=18% Similarity=0.146 Sum_probs=70.5
Q ss_pred HHHHHHHHhhCCCCCcccccccc-----ccchhcccccccccccchhhhhhhhhhhhHHHHhhhhhhccCCCCCCCCeEE
Q 031382 26 FFLNEFQSANGIQLSSLELESIK-----ESSILELSRSLDQDSKSLGMHMKAAFGSLWKEVLTEGQLLEGKIDPGSPAVL 100 (160)
Q Consensus 26 ~l~~~~~~~~~~~LS~lELedl~-----es~fl~~~~~~~~dt~~l~~~~~~~~~p~~~~~~~~~~l~k~~~~~~sP~~l 100 (160)
++...|++++. ++++....-++ ++-.+ ++ -++-|+...+ ++|.+-+.+..+ .....+..++|
T Consensus 11 ~v~~~~~~~~~-~~t~~Q~~a~~~i~~G~nvLi-iA------PTGsGKTeAA-fLpil~~l~~~~----~~~~~~~i~~l 77 (814)
T COG1201 11 RVREWFKRKFT-SLTPPQRYAIPEIHSGENVLI-IA------PTGSGKTEAA-FLPVINELLSLG----KGKLEDGIYAL 77 (814)
T ss_pred HHHHHHHHhcC-CCCHHHHHHHHHHhCCCceEE-Ec------CCCCChHHHH-HHHHHHHHHhcc----CCCCCCceEEE
Confidence 34444444443 78877776652 11111 11 2556776665 568876544321 23444668999
Q ss_pred EEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCcee
Q 031382 101 IISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLV 157 (160)
Q Consensus 101 Il~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~ 157 (160)
-|+|=+.++.|+.+-|+.... +.+| ..=-+-.+=.+--+++++..||.|-||.=+.
T Consensus 78 YIsPLkALn~Di~~rL~~~~~~~G~~v-~vRhGDT~~~er~r~~~~PPdILiTTPEsL~ 135 (814)
T COG1201 78 YISPLKALNNDIRRRLEEPLRELGIEV-AVRHGDTPQSEKQKMLKNPPHILITTPESLA 135 (814)
T ss_pred EeCcHHHHHHHHHHHHHHHHHHcCCcc-ceecCCCChHHhhhccCCCCcEEEeChhHHH
Confidence 999999999999999998722 2222 1111112334444566788999999997543
No 105
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=57.26 E-value=14 Score=23.76 Aligned_cols=25 Identities=20% Similarity=0.409 Sum_probs=22.6
Q ss_pred CHHHHHHHHh-cCCcEEEeCCCceee
Q 031382 134 KVEEQVSLLK-NRVNFAGGTPSRLVI 158 (160)
Q Consensus 134 Ki~eQi~~Lk-~~v~I~VGTPgRl~~ 158 (160)
.-..|++.|+ .|+.++++--||.+|
T Consensus 16 ~~~~Q~~~L~~~Gi~~~~~~~G~p~V 41 (47)
T PF13986_consen 16 RPSKQIRWLRRNGIPFVVRADGRPIV 41 (47)
T ss_pred CHHHHHHHHHHCCCeeEECCCCCEEe
Confidence 5788999998 799999999999887
No 106
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=55.76 E-value=21 Score=37.26 Aligned_cols=56 Identities=16% Similarity=0.235 Sum_probs=45.8
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCHHHHHHHHh-c-CCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKVEEQVSLLK-N-RVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki~eQi~~Lk-~-~v~I~VGTP 153 (160)
-.+||.+|+...+-++++.|+... +...|..|||. +.-++|.+.++ . +.+|+|+|.
T Consensus 287 GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~-Ls~~eQ~~Vf~~~g~rkIIVATN 345 (1294)
T PRK11131 287 GDILIFMSGEREIRDTADALNKLNLRHTEILPLYAR-LSNSEQNRVFQSHSGRRIVLATN 345 (1294)
T ss_pred CCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccC-CCHHHHHHHhcccCCeeEEEecc
Confidence 469999999999999999998763 23447789987 89999999887 3 468999985
No 107
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=55.01 E-value=25 Score=32.47 Aligned_cols=53 Identities=21% Similarity=0.208 Sum_probs=41.3
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCC
Q 031382 98 AVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTP 153 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTP 153 (160)
++||.|.|..+|-.++..|+.. +.++..|.|. +.-++-.+.| + ..++|.|+|-
T Consensus 275 ~~IVF~~tk~~~~~l~~~l~~~--g~~~~~lhG~-l~q~~R~~~l~~F~~g~~~vLVaTD 331 (513)
T COG0513 275 RVIVFVRTKRLVEELAESLRKR--GFKVAALHGD-LPQEERDRALEKFKDGELRVLVATD 331 (513)
T ss_pred eEEEEeCcHHHHHHHHHHHHHC--CCeEEEecCC-CCHHHHHHHHHHHHcCCCCEEEEec
Confidence 6999999999999999999987 3567888876 6655544444 4 3589999984
No 108
>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=54.85 E-value=24 Score=35.43 Aligned_cols=56 Identities=16% Similarity=0.090 Sum_probs=41.3
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHH---HHh-cCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVS---LLK-NRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~---~Lk-~~v~I~VGTP 153 (160)
.+++|+|++.+.+-.+++.|+.+-.+.+|+-+-|+ ++-++-.+ ..+ ..++|.|+|-
T Consensus 661 ~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~-m~~~eRe~im~~F~~Gk~~ILVaT~ 720 (926)
T TIGR00580 661 GQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQ-MTENELEEVMLEFYKGEFQVLVCTT 720 (926)
T ss_pred CeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCC-CCHHHHHHHHHHHHcCCCCEEEECC
Confidence 58999999999999999999986445567777666 55443333 334 3589999994
No 109
>PRK10689 transcription-repair coupling factor; Provisional
Probab=54.85 E-value=24 Score=36.26 Aligned_cols=56 Identities=16% Similarity=0.112 Sum_probs=41.7
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---h-cCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---K-NRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k-~~v~I~VGTP 153 (160)
-+++|+|++.+.+..+++.|+..-.+.+|+-+-|+ ++-++..+.+ + ..++|.|+|-
T Consensus 810 gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~-m~q~eRe~im~~Fr~Gk~~VLVaTd 869 (1147)
T PRK10689 810 GQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQ-MRERELERVMNDFHHQRFNVLVCTT 869 (1147)
T ss_pred CeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCC-CCHHHHHHHHHHHHhcCCCEEEECc
Confidence 58999999999999999999886444566666665 6655544444 3 4689999994
No 110
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=54.61 E-value=28 Score=33.18 Aligned_cols=55 Identities=20% Similarity=0.219 Sum_probs=41.1
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhc--ccchhhhhccCCCHHHHHHHHhcCCcEEEeCCC
Q 031382 98 AVLIISSSALRSIELLKGLRSLTK--ECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPS 154 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k--~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPg 154 (160)
.+|+|+||.=++.|=++.++++.+ ...++.| -+++.-++-...- ..-+|+|+||.
T Consensus 60 kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l-tGev~p~~R~~~w-~~~kVfvaTPQ 116 (542)
T COG1111 60 KVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL-TGEVRPEEREELW-AKKKVFVATPQ 116 (542)
T ss_pred eEEEecCCchHHHHHHHHHHHHhCCChhheeee-cCCCChHHHHHHH-hhCCEEEeccH
Confidence 799999999999999999999843 2334444 5556766554443 36689999995
No 111
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=53.32 E-value=35 Score=25.04 Aligned_cols=51 Identities=12% Similarity=-0.047 Sum_probs=32.9
Q ss_pred CeEEEEcCc-----hhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCc--EEEe
Q 031382 97 PAVLIISSS-----ALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVN--FAGG 151 (160)
Q Consensus 97 P~~lIl~~S-----a~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~--I~VG 151 (160)
++++|++.+ ...|.+++..|+.. +.+|.--+. -++..|++.-+ .|+. |+||
T Consensus 27 ~~v~Ii~~~~~~~~~~~a~~la~~LR~~--gi~v~~d~~--~sl~kqlk~A~k~g~~~~iiiG 85 (121)
T cd00858 27 IKVAVLPLVKRDELVEIAKEISEELREL--GFSVKYDDS--GSIGRRYARQDEIGTPFCVTVD 85 (121)
T ss_pred cEEEEEecCCcHHHHHHHHHHHHHHHHC--CCEEEEeCC--CCHHHHHHHhHhcCCCEEEEEC
Confidence 566777655 34677888888865 333333343 58999998875 5654 5555
No 112
>PRK09694 helicase Cas3; Provisional
Probab=52.09 E-value=31 Score=34.57 Aligned_cols=56 Identities=16% Similarity=0.221 Sum_probs=36.0
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCH------HHH-HHHH-hcC----CcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKV------EEQ-VSLL-KNR----VNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki------~eQ-i~~L-k~~----v~I~VGTP 153 (160)
-++||+|+|..+|.++++.|+... .+.++.-+-++ +.. +++ ++.+ +++ -.|+|+|.
T Consensus 561 ~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsr-f~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQ 629 (878)
T PRK09694 561 AQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHAR-FTLNDRREKEQRVIENFGKNGKRNQGRILVATQ 629 (878)
T ss_pred CEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCC-CCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECc
Confidence 478999999999999999999752 22344544444 332 222 2333 333 36899984
No 113
>PRK14701 reverse gyrase; Provisional
Probab=51.09 E-value=18 Score=38.63 Aligned_cols=51 Identities=16% Similarity=0.100 Sum_probs=36.5
Q ss_pred CeEEEEcCchhh---HHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCcEEEeC
Q 031382 97 PAVLIISSSALR---SIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGT 152 (160)
Q Consensus 97 P~~lIl~~Sa~r---a~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGT 152 (160)
+.+||.|+|+.. |-++++.|+.. +.++..+.|+ -++-++..+ ..++|.|||
T Consensus 331 ~~gIVF~~t~~~~e~ae~la~~L~~~--Gi~a~~~h~~---R~~~l~~F~~G~~~VLVaT 385 (1638)
T PRK14701 331 KGGLIFVPIDEGAEKAEEIEKYLLED--GFKIELVSAK---NKKGFDLFEEGEIDYLIGV 385 (1638)
T ss_pred CCeEEEEeccccchHHHHHHHHHHHC--CCeEEEecch---HHHHHHHHHcCCCCEEEEe
Confidence 578999999875 47888888875 4556666664 333344444 569999999
No 114
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=49.74 E-value=21 Score=34.38 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=22.2
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhcc
Q 031382 98 AVLIISSSALRSIELLKGLRSLTKE 122 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k~ 122 (160)
.+|||+++..+|.|++++|+.|-++
T Consensus 56 p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 56 PTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred CEEEEECCHHHHHHHHHHHHHhCCC
Confidence 3799999999999999999999444
No 115
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=47.84 E-value=35 Score=32.64 Aligned_cols=56 Identities=14% Similarity=0.157 Sum_probs=38.2
Q ss_pred CeEEEEcCc--------hhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh---c-CCcEEEeCC
Q 031382 97 PAVLIISSS--------ALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK---N-RVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~S--------a~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk---~-~v~I~VGTP 153 (160)
-+++|+||. ...|.++++.|+..-++.+|.-+-|+ ++-++..+.++ + .++|+|+|.
T Consensus 472 ~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~-m~~~eR~~i~~~F~~g~~~ILVaT~ 539 (681)
T PRK10917 472 RQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGR-MKPAEKDAVMAAFKAGEIDILVATT 539 (681)
T ss_pred CcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCC-CCHHHHHHHHHHHHcCCCCEEEECc
Confidence 489999994 34566777777765333567777776 66665555553 3 579999994
No 116
>PRK13767 ATP-dependent helicase; Provisional
Probab=47.08 E-value=41 Score=33.29 Aligned_cols=57 Identities=18% Similarity=0.155 Sum_probs=37.1
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhc----ccchhhhhccCCCHHHHHH---HHhc-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTK----ECHAVKLFSKHMKVEEQVS---LLKN-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k----~~~v~KLFaKh~Ki~eQi~---~Lk~-~v~I~VGTP 153 (160)
..++||.|+|+..|..+++.|+.... ...+.-+-|. +.-++... .+++ .++|+|+|.
T Consensus 284 ~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~-ls~~~R~~ve~~fk~G~i~vLVaTs 348 (876)
T PRK13767 284 HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSS-LSREVRLEVEEKLKRGELKVVVSST 348 (876)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCC-CCHHHHHHHHHHHHcCCCeEEEECC
Confidence 35799999999999999999987421 1223333333 44444333 3354 479999996
No 117
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=46.25 E-value=36 Score=32.97 Aligned_cols=56 Identities=27% Similarity=0.308 Sum_probs=38.5
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCC------HHHHHHHH-h-cCCcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMK------VEEQVSLL-K-NRVNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~K------i~eQi~~L-k-~~v~I~VGTP 153 (160)
..-.++||+.|-.+|+.+++.|+.-.. ++.-|=++ +. +++.++.+ + +...|+|||.
T Consensus 439 ~~~kvlvI~NTV~~Aie~Y~~Lk~~~~--~v~LlHSR-f~~~dR~~ke~~l~~~~~~~~~~IvVaTQ 502 (733)
T COG1203 439 EGKKVLVIVNTVDRAIELYEKLKEKGP--KVLLLHSR-FTLKDREEKERELKKLFKQNEGFIVVATQ 502 (733)
T ss_pred cCCcEEEEEecHHHHHHHHHHHHhcCC--CEEEEecc-cchhhHHHHHHHHHHHHhccCCeEEEEee
Confidence 456899999999999999999998643 23333233 33 33334433 4 4679999995
No 118
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=45.36 E-value=39 Score=31.93 Aligned_cols=57 Identities=14% Similarity=0.194 Sum_probs=39.0
Q ss_pred CCeEEEEcCch--------hhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh----cCCcEEEeCC
Q 031382 96 SPAVLIISSSA--------LRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK----NRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa--------~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk----~~v~I~VGTP 153 (160)
..+++|+||.. ..|.++++.|+..-.+.+|.-+.|+ ++-++..+.++ ...+|+|+|.
T Consensus 448 g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~-m~~~eR~~i~~~F~~g~~~ILVaT~ 516 (630)
T TIGR00643 448 GRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGR-MKSDEKEAVMEEFREGEVDILVATT 516 (630)
T ss_pred CCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCC-CCHHHHHHHHHHHHcCCCCEEEECc
Confidence 36899999875 3466777777764344566777766 77666655553 3589999995
No 119
>PF04577 DUF563: Protein of unknown function (DUF563); InterPro: IPR007657 This is a family of uncharacterised glycosyltransferases belonging to glycosyltransferase family 61. Sequences are further processed into a mature form.; GO: 0016757 transferase activity, transferring glycosyl groups
Probab=44.11 E-value=44 Score=25.76 Aligned_cols=60 Identities=32% Similarity=0.386 Sum_probs=38.1
Q ss_pred CCCeEEEEcC--chhhHH----HHHHHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCceeec
Q 031382 95 GSPAVLIISS--SALRSI----ELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRLVIN 159 (160)
Q Consensus 95 ~sP~~lIl~~--Sa~ra~----dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl~~~ 159 (160)
..|.+++++- ++-|.+ +|.+.++.+ +..++ +-.++.+.||++.+. +++|+||.-|=-+.|
T Consensus 101 ~~p~i~~i~R~~~~~R~i~Ne~el~~~l~~~--~~~~v--~~~~~s~~eqv~~~~-~a~viig~hGs~l~n 166 (206)
T PF04577_consen 101 KRPRILYISRRKSGSRRILNEDELLEILKKY--GFEVV--DPEDLSFEEQVKLFA-SAKVIIGPHGSALTN 166 (206)
T ss_pred CCCeEEEEecCCCCCCcCcCHHHHHHHHhhC--CeEEE--eCCCCCHHHHHHHhc-CCCEEEecCchHhhe
Confidence 3567778877 455544 333444433 22233 234679999999887 899999988754444
No 120
>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=43.68 E-value=23 Score=28.26 Aligned_cols=26 Identities=19% Similarity=0.374 Sum_probs=21.6
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhh
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLT 120 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~ 120 (160)
..-++|||.|||-.|..+.++|+...
T Consensus 32 ~~~rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 32 RRLRVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TT--EEEEESSHHHHHHHHHHTTTSS
T ss_pred ccCeEEEecccHHHHHHHHHHHhcCC
Confidence 34689999999999999999999863
No 121
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=43.10 E-value=28 Score=33.68 Aligned_cols=45 Identities=18% Similarity=0.394 Sum_probs=33.3
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhcccchhhhh--------------------ccCCCHHHHHHHHh
Q 031382 98 AVLIISSSALRSIELLKGLRSLTKECHAVKLF--------------------SKHMKVEEQVSLLK 143 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLF--------------------aKh~Ki~eQi~~Lk 143 (160)
-+||+++..-+|+|++.++|.|-.+. .+.+| -|-..|.++|+.|+
T Consensus 59 PtLV~AhNKTLAaQLy~Efk~fFP~N-aVEYFVSYYDYYQPEAYvp~tDtyIEKdasiNdeId~mR 123 (663)
T COG0556 59 PTLVLAHNKTLAAQLYSEFKEFFPEN-AVEYFVSYYDYYQPEAYVPSTDTYIEKDASINDEIDRLR 123 (663)
T ss_pred CeEEEecchhHHHHHHHHHHHhCcCc-ceEEEeeeccccCcccccCCCCceEecccchHHHHHHHH
Confidence 37999999999999999999983221 12222 34445999999986
No 122
>PRK01172 ski2-like helicase; Provisional
Probab=43.08 E-value=58 Score=30.81 Aligned_cols=23 Identities=22% Similarity=0.121 Sum_probs=20.3
Q ss_pred CeEEEEcCchhhHHHHHHHHhhh
Q 031382 97 PAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
-++||.|+|+..|..+++.|...
T Consensus 237 ~~vLVF~~sr~~~~~~a~~L~~~ 259 (674)
T PRK01172 237 GQVLVFVSSRKNAEDYAEMLIQH 259 (674)
T ss_pred CcEEEEeccHHHHHHHHHHHHHh
Confidence 47899999999999999888764
No 123
>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=42.97 E-value=88 Score=21.60 Aligned_cols=55 Identities=22% Similarity=0.141 Sum_probs=34.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHH---HHHHhc-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQ---VSLLKN-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQ---i~~Lk~-~v~I~VGTP 153 (160)
...+||.|++...+.++.+.|+.. ...+.-+.++ ++-++. ++.+++ ...|+++|.
T Consensus 28 ~~~~lvf~~~~~~~~~~~~~l~~~--~~~~~~~~~~-~~~~~~~~~~~~f~~~~~~ili~t~ 86 (131)
T cd00079 28 GGKVLIFCPSKKMLDELAELLRKP--GIKVAALHGD-GSQEEREEVLKDFREGEIVVLVATD 86 (131)
T ss_pred CCcEEEEeCcHHHHHHHHHHHHhc--CCcEEEEECC-CCHHHHHHHHHHHHcCCCcEEEEcC
Confidence 457899999999999999999863 2223333333 443332 333343 457888875
No 124
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=42.92 E-value=26 Score=32.49 Aligned_cols=25 Identities=28% Similarity=0.382 Sum_probs=23.0
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhh
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
-.|.+|||+|+|.-|.++.+.|-.+
T Consensus 36 tRPkVLIL~P~R~~A~~~V~~Li~l 60 (442)
T PF06862_consen 36 TRPKVLILLPFRNSALRIVETLISL 60 (442)
T ss_pred CCceEEEEcccHHHHHHHHHHHHHH
Confidence 4799999999999999999988877
No 125
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=42.15 E-value=40 Score=35.10 Aligned_cols=54 Identities=15% Similarity=0.162 Sum_probs=39.5
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH----hcCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL----KNRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L----k~~v~I~VGTP 153 (160)
..+||.|.|+..|-+++..|+.+ +.++..+-|+ +.-++....+ +..++|+|+|-
T Consensus 681 esgIIYC~SRke~E~LAe~L~~~--Gika~~YHAG-Ls~eeR~~vqe~F~~Gei~VLVATd 738 (1195)
T PLN03137 681 ECGIIYCLSRMDCEKVAERLQEF--GHKAAFYHGS-MDPAQRAFVQKQWSKDEINIICATV 738 (1195)
T ss_pred CCceeEeCchhHHHHHHHHHHHC--CCCeeeeeCC-CCHHHHHHHHHHHhcCCCcEEEEec
Confidence 46899999999999999999876 3445556554 6655544444 34689999994
No 126
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=41.57 E-value=20 Score=30.74 Aligned_cols=34 Identities=15% Similarity=0.306 Sum_probs=25.1
Q ss_pred chhhhhccCCCHHHHHHHHh--cCCcEEEeCCCceeecC
Q 031382 124 HAVKLFSKHMKVEEQVSLLK--NRVNFAGGTPSRLVINC 160 (160)
Q Consensus 124 ~v~KLFaKh~Ki~eQi~~Lk--~~v~I~VGTPgRl~~~~ 160 (160)
+|-.++++...+ ++.|+ .+++|+||--|||-|+|
T Consensus 156 kVpRvig~~~sm---~~~l~~~~~~~I~VG~NG~IWV~~ 191 (239)
T COG1097 156 KVPRVIGKKGSM---LNMLKEKTGCEIIVGQNGRIWVDG 191 (239)
T ss_pred hcceEecCCCcH---HHHhhhhcCeEEEEecCCEEEecC
Confidence 345566664444 55664 68999999999999987
No 127
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=41.16 E-value=56 Score=31.49 Aligned_cols=54 Identities=20% Similarity=0.223 Sum_probs=36.1
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHH---HHh-cCCcEEEeC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVS---LLK-NRVNFAGGT 152 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~---~Lk-~~v~I~VGT 152 (160)
.-++||+|+|..+|-++.+.|+.. +.+++-+-+. ++-.+..+ .++ ..++|+|||
T Consensus 442 g~~vLIf~~tk~~ae~L~~~L~~~--gi~~~~lh~~-~~~~eR~~~l~~fr~G~i~VLV~t 499 (655)
T TIGR00631 442 NERVLVTTLTKKMAEDLTDYLKEL--GIKVRYLHSE-IDTLERVEIIRDLRLGEFDVLVGI 499 (655)
T ss_pred CCEEEEEECCHHHHHHHHHHHhhh--ccceeeeeCC-CCHHHHHHHHHHHhcCCceEEEEc
Confidence 457999999999999999999986 2333333232 34333333 344 357999887
No 128
>PF10996 Beta-Casp: Beta-Casp domain; InterPro: IPR022712 The beta-CASP domain is found C-terminal to the beta-lactamase domain in pre-mRNA 3'-end-processing endonuclease. The active site of this enzyme is located at the interface of these two domains []. ; PDB: 2YCB_B 2XR1_B 2I7T_A 2I7V_A 2I7X_A 3A4Y_A 3IE2_D 3IE1_B 3IE0_D 2DKF_D ....
Probab=39.52 E-value=52 Score=23.63 Aligned_cols=62 Identities=18% Similarity=0.168 Sum_probs=38.6
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhh-------h--ccCCCHHHHHHHHh--cCCcEEEeCCCce
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKL-------F--SKHMKVEEQVSLLK--NRVNFAGGTPSRL 156 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KL-------F--aKh~Ki~eQi~~Lk--~~v~I~VGTPgRl 156 (160)
..-.+.+.+|.+.++.++++....+-.+.-.-++ | .++++.-++.+.|. .+..|+++|+|=+
T Consensus 19 ~~~pI~~~s~~a~~~~~~~~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~p~Vvias~gml 91 (126)
T PF10996_consen 19 RDVPIYVDSPMAAKVLEYYKSYPEWLSESIQRKFEDKEDNPFDNFKFVKSVDESKELNALSGPKVVIASSGML 91 (126)
T ss_dssp TTSEEEEESTCHHHHHHHHHHCGGGS-HHHHHHHHTTSTTTTTTEEEEESHHHHHHHHHSCSSEEEEESSTTS
T ss_pred CCCcEEEEChHHHHHHHHHHHHHHHHCHHHHHHHHhcCCCCCCCeEEecccccccccccCCCCeEEEeCCCCC
Confidence 4467888888999999999988776321101111 2 12334444444453 4889999999843
No 129
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=39.21 E-value=52 Score=31.69 Aligned_cols=54 Identities=17% Similarity=0.115 Sum_probs=41.5
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCC----HHHHHHHHhcCCcEEEeCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMK----VEEQVSLLKNRVNFAGGTP 153 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~K----i~eQi~~Lk~~v~I~VGTP 153 (160)
-..||-|.||--|-++++.|+.- +.+++.+-|+ +. ...|-+++...+.|+|+|=
T Consensus 231 ~~GIIYc~sRk~~E~ia~~L~~~--g~~a~~YHaG-l~~~eR~~~q~~f~~~~~~iiVAT~ 288 (590)
T COG0514 231 KSGIIYCLTRKKVEELAEWLRKN--GISAGAYHAG-LSNEERERVQQAFLNDEIKVMVATN 288 (590)
T ss_pred CCeEEEEeeHHhHHHHHHHHHHC--CCceEEecCC-CCHHHHHHHHHHHhcCCCcEEEEec
Confidence 34799999999999999999987 3445666554 43 4556667777899999994
No 130
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=38.88 E-value=28 Score=29.83 Aligned_cols=67 Identities=16% Similarity=0.089 Sum_probs=49.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhhCCCCCccccccccccchhcccc-cccccccchhhhhhhhhhhhHHHHhh
Q 031382 12 PSASASASASEQLSFFLNEFQSANGIQLSSLELESIKESSILELSR-SLDQDSKSLGMHMKAAFGSLWKEVLT 83 (160)
Q Consensus 12 ~~~~~~~sp~~~a~~l~~~~~~~~~~~LS~lELedl~es~fl~~~~-~~~~dt~~l~~~~~~~~~p~~~~~~~ 83 (160)
+..++..-.+-++.++.....+-....|+++-+.+ ++|++++. ...+++++|.+|++.. |.|...++
T Consensus 51 ~~~~~~~lad~l~~~~k~~~~dLS~lELedl~i~~---s~f~dt~~~~~~r~l~nL~~fLk~~--~~~~~~l~ 118 (252)
T PF14617_consen 51 AKMDPELLADYLAQKIKRFNPDLSSLELEDLYIPE---SAFLDTSSFTKPRTLDNLPSFLKQF--SPKKKKLS 118 (252)
T ss_pred ccCCHHHHHHHHHHHHHHhCCCcCeeeccccccCH---HhcccccccCCCcccchHHHHHHHh--ccchhhhh
Confidence 34455566788888888887777778999999988 57777765 4577889999998864 44444443
No 131
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=38.49 E-value=60 Score=31.05 Aligned_cols=55 Identities=20% Similarity=0.205 Sum_probs=36.9
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHH---HHh-cCCcEEEeC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVS---LLK-NRVNFAGGT 152 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~---~Lk-~~v~I~VGT 152 (160)
..-++||+|.|..+|-.+.+.|... +.+++-+-+. ++-.+... .++ .++.|+|||
T Consensus 445 ~g~~viIf~~t~~~ae~L~~~L~~~--gi~~~~~h~~-~~~~~R~~~l~~f~~g~i~vlV~t 503 (652)
T PRK05298 445 KGERVLVTTLTKRMAEDLTDYLKEL--GIKVRYLHSD-IDTLERVEIIRDLRLGEFDVLVGI 503 (652)
T ss_pred CCCEEEEEeCCHHHHHHHHHHHhhc--ceeEEEEECC-CCHHHHHHHHHHHHcCCceEEEEe
Confidence 4568999999999999999999886 3333333333 34433333 334 357899887
No 132
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=38.18 E-value=1e+02 Score=20.42 Aligned_cols=51 Identities=14% Similarity=0.162 Sum_probs=33.0
Q ss_pred eEEEEcCc---hhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCc--EEEe
Q 031382 98 AVLIISSS---ALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVN--FAGG 151 (160)
Q Consensus 98 ~~lIl~~S---a~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~--I~VG 151 (160)
+++|++.+ ...|..++..|+.- +.+|.-.+.+ .++..|+++-+ .|+. |+||
T Consensus 3 ~v~ii~~~~~~~~~a~~~~~~Lr~~--g~~v~~d~~~-~~~~~~~~~a~~~g~~~~iiig 59 (91)
T cd00860 3 QVVVIPVTDEHLDYAKEVAKKLSDA--GIRVEVDLRN-EKLGKKIREAQLQKIPYILVVG 59 (91)
T ss_pred EEEEEeeCchHHHHHHHHHHHHHHC--CCEEEEECCC-CCHHHHHHHHHHcCCCEEEEEC
Confidence 44566554 34788888888865 3344434444 68999999976 6764 5556
No 133
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=35.32 E-value=92 Score=29.80 Aligned_cols=59 Identities=19% Similarity=0.284 Sum_probs=46.0
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhc-------cCCCHHHHHHHHh---cC-CcEEEeCC
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFS-------KHMKVEEQVSLLK---NR-VNFAGGTP 153 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFa-------Kh~Ki~eQi~~Lk---~~-v~I~VGTP 153 (160)
++.-++||.+--|.-|-.|.+.|..+....+ +.+.| +.|.-++|.+.++ +| .++.|+|-
T Consensus 364 ~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~-~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTS 433 (542)
T COG1111 364 NGDSRVIVFTEYRDTAEEIVNFLKKIGIKAR-VRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATS 433 (542)
T ss_pred CCCceEEEEehhHhHHHHHHHHHHhcCCcce-eEEeeccccccccccCHHHHHHHHHHHhcCCceEEEEcc
Confidence 4558999999999999999999999854432 34544 5588999998885 45 59999983
No 134
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=35.12 E-value=26 Score=29.70 Aligned_cols=22 Identities=18% Similarity=0.128 Sum_probs=15.6
Q ss_pred HHHHHHHHh-cCCcEEEeCCCce
Q 031382 135 VEEQVSLLK-NRVNFAGGTPSRL 156 (160)
Q Consensus 135 i~eQi~~Lk-~~v~I~VGTPgRl 156 (160)
+..=...|+ +|.-|+||+|||=
T Consensus 161 l~~~~~~l~~~g~~vlvgdp~R~ 183 (218)
T COG3897 161 LIPWKDRLAEAGAAVLVGDPGRA 183 (218)
T ss_pred HHHHHHHHHhCCCEEEEeCCCCC
Confidence 333344444 7999999999994
No 135
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=34.96 E-value=76 Score=32.93 Aligned_cols=56 Identities=13% Similarity=0.224 Sum_probs=38.6
Q ss_pred CeEEEEcCchhhHHHHHHHHhhhhc-----ccchhhhhccCCCHHHHHHH---Hhc-CCcEEEeCCC
Q 031382 97 PAVLIISSSALRSIELLKGLRSLTK-----ECHAVKLFSKHMKVEEQVSL---LKN-RVNFAGGTPS 154 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~~k-----~~~v~KLFaKh~Ki~eQi~~---Lk~-~v~I~VGTPg 154 (160)
-.++||-||..++.|+++-|.+|.. +..++ |-+.++-++--+. +++ ..+|.|.|-+
T Consensus 126 kr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~--yh~~l~~~ekee~le~i~~gdfdIlitTs~ 190 (1187)
T COG1110 126 KRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV--YHSALPTKEKEEALERIESGDFDILITTSQ 190 (1187)
T ss_pred CeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee--eccccchHHHHHHHHHHhcCCccEEEEeHH
Confidence 7899999999999999999999942 22232 3333443333333 344 5899999964
No 136
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.89 E-value=41 Score=32.67 Aligned_cols=25 Identities=28% Similarity=0.308 Sum_probs=22.4
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhh
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
..|.+|||+|+|+-|.+|..-|.++
T Consensus 292 tRpkVLivvpfRe~A~riVn~lis~ 316 (698)
T KOG2340|consen 292 TRPKVLIVVPFRESAYRIVNLLISL 316 (698)
T ss_pred CCceEEEEecchHHHHHHHHHHHHH
Confidence 5799999999999999998888776
No 137
>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=33.58 E-value=37 Score=32.78 Aligned_cols=25 Identities=20% Similarity=0.141 Sum_probs=22.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhh
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLT 120 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~ 120 (160)
..++||+|||++++.|+.++++.+.
T Consensus 46 ~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 46 DQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred CceEEEECCcHHHHHHHHHHHHHHH
Confidence 3789999999999999999988885
No 138
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=33.41 E-value=1.1e+02 Score=20.72 Aligned_cols=42 Identities=14% Similarity=0.001 Sum_probs=27.6
Q ss_pred hhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCC--cEEEe
Q 031382 107 LRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRV--NFAGG 151 (160)
Q Consensus 107 ~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v--~I~VG 151 (160)
..|.++.+.|+.. +.++.--+ .+.++..|++.-. .|+ -|+||
T Consensus 16 ~~a~~l~~~L~~~--gi~v~~d~-~~~~~~k~~~~a~~~g~p~~iiiG 60 (94)
T PF03129_consen 16 EYAQELANKLRKA--GIRVELDD-SDKSLGKQIKYADKLGIPFIIIIG 60 (94)
T ss_dssp HHHHHHHHHHHHT--TSEEEEES-SSSTHHHHHHHHHHTTESEEEEEE
T ss_pred HHHHHHHHHHHHC--CCEEEEEC-CCCchhHHHHHHhhcCCeEEEEEC
Confidence 4577778777775 23333233 5679999999886 555 55666
No 139
>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=33.22 E-value=64 Score=32.35 Aligned_cols=23 Identities=13% Similarity=0.183 Sum_probs=21.1
Q ss_pred CeEEEEcCchhhHHHHHHHHhhh
Q 031382 97 PAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
-++||+|+|..+|..+++.|+..
T Consensus 273 ~~vLVF~NTv~~Aq~L~~~L~~~ 295 (844)
T TIGR02621 273 GAILVFCRTVKHVRKVFAKLPKE 295 (844)
T ss_pred CcEEEEECCHHHHHHHHHHHHhc
Confidence 47999999999999999999875
No 140
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=32.97 E-value=53 Score=31.87 Aligned_cols=58 Identities=16% Similarity=0.146 Sum_probs=44.5
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH---hc-CCcEEEeCC
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL---KN-RVNFAGGTP 153 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L---k~-~v~I~VGTP 153 (160)
.+..|.+||...+-.-|--|++.|.+.+ .++.-|-+.| +.++--..| +. ..+|.|+|-
T Consensus 514 ~~~~ppiIIFvN~kk~~d~lAk~LeK~g--~~~~tlHg~k-~qeQRe~aL~~fr~~t~dIlVaTD 575 (673)
T KOG0333|consen 514 SNFDPPIIIFVNTKKGADALAKILEKAG--YKVTTLHGGK-SQEQRENALADFREGTGDILVATD 575 (673)
T ss_pred hCCCCCEEEEEechhhHHHHHHHHhhcc--ceEEEeeCCc-cHHHHHHHHHHHHhcCCCEEEEec
Confidence 3579999999999999999999999873 5567787775 555554444 54 579999995
No 141
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=31.67 E-value=1.8e+02 Score=27.85 Aligned_cols=55 Identities=13% Similarity=0.096 Sum_probs=40.2
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCC----HHHHHHHHhcCCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMK----VEEQVSLLKNRVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~K----i~eQi~~Lk~~v~I~VGTP 153 (160)
+--.||-|-||+-|-|++=.|..- ++....+-|+ .| -+-|-++.+..+.|+++|-
T Consensus 255 ~GCGIVYCRTR~~cEq~AI~l~~~--Gi~A~AYHAG-LK~~ERTeVQe~WM~~~~PvI~AT~ 313 (641)
T KOG0352|consen 255 TGCGIVYCRTRNECEQVAIMLEIA--GIPAMAYHAG-LKKKERTEVQEKWMNNEIPVIAATV 313 (641)
T ss_pred CcceEEEeccHHHHHHHHHHhhhc--CcchHHHhcc-cccchhHHHHHHHhcCCCCEEEEEe
Confidence 456899999999999998776653 3333333343 44 5678889999999999984
No 142
>COG1204 Superfamily II helicase [General function prediction only]
Probab=31.04 E-value=53 Score=32.39 Aligned_cols=57 Identities=16% Similarity=0.125 Sum_probs=38.6
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhhh-cccchhhhhccCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 96 SPAVLIISSSALRSIELLKGLRSLT-KECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~~-k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
.-.++-|+|.+-+|.+.+++++.|. -+.+|.-+=+- +.... +.| .+.+|+|+||-.+
T Consensus 76 ~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD-~~~~~--~~l-~~~~ViVtT~EK~ 133 (766)
T COG1204 76 GGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGD-YDLDD--ERL-ARYDVIVTTPEKL 133 (766)
T ss_pred CCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCC-cccch--hhh-ccCCEEEEchHHh
Confidence 4578999999999999999999552 23445444332 22222 233 3789999999654
No 143
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=30.67 E-value=76 Score=20.30 Aligned_cols=54 Identities=17% Similarity=0.133 Sum_probs=28.7
Q ss_pred eEEEEcCchhhHHH-HHHHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCC
Q 031382 98 AVLIISSSALRSIE-LLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPS 154 (160)
Q Consensus 98 ~~lIl~~Sa~ra~d-v~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPg 154 (160)
.++++|+++.-... +...|++.-++..+..-+.. ..+++- .-...+++++.||.
T Consensus 1 ~il~vc~~G~~~s~~l~~~l~~~~~~~~~~~~~~~-~~~~~~--~~~~~~dliitt~~ 55 (84)
T cd00133 1 KILVVCGSGIGSSSMLAEKLEKAAKELGIEVKVEA-QGLSEV--IDLADADLIISTVP 55 (84)
T ss_pred CEEEECCCcHhHHHHHHHHHHHHHHHCCCeEEEEE-cccchh--hhcCCccEEEECCc
Confidence 37899999854433 45556654222222222221 233332 12367899999985
No 144
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=28.35 E-value=75 Score=30.43 Aligned_cols=25 Identities=12% Similarity=0.283 Sum_probs=22.4
Q ss_pred eEEEEcCchhhHHHHHHHHhhhhcc
Q 031382 98 AVLIISSSALRSIELLKGLRSLTKE 122 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~~k~ 122 (160)
.+|||+|+...|.+++++|+.|-++
T Consensus 59 ~vLIVt~~~~~A~~l~~dL~~~~~~ 83 (652)
T PRK05298 59 PTLVLAHNKTLAAQLYSEFKEFFPE 83 (652)
T ss_pred CEEEEECCHHHHHHHHHHHHHhcCC
Confidence 5999999999999999999998444
No 145
>PF08616 SPA: Stabilization of polarity axis
Probab=28.23 E-value=1.2e+02 Score=22.49 Aligned_cols=59 Identities=19% Similarity=0.308 Sum_probs=39.0
Q ss_pred CeEEEEcCchhh--HHHHHHHHhhhhcccchhhhhc----cCCCHHHHHHHHhcCCcEEEeCCCce
Q 031382 97 PAVLIISSSALR--SIELLKGLRSLTKECHAVKLFS----KHMKVEEQVSLLKNRVNFAGGTPSRL 156 (160)
Q Consensus 97 P~~lIl~~Sa~r--a~dv~r~l~~~~k~~~v~KLFa----Kh~Ki~eQi~~Lk~~v~I~VGTPgRl 156 (160)
-+++|++++..- +++...++-.+-........|. =.+.|.+ ++.|+....+++||-+-+
T Consensus 26 krivv~s~~~~~~~~s~~Vlal~~Li~p~~~~~~~~~~~~PY~~i~~-~~~l~~~~~~I~GvtNP~ 90 (113)
T PF08616_consen 26 KRIVVYSPSPSAGEVSEFVLALCSLISPGQDLRYFSNRYFPYFTISD-LDELKSCPGYIAGVTNPI 90 (113)
T ss_pred CCEEEECCCCCHHHHHHHHHHHHHHHCcccchhcccccccceeechh-hhhhccCCCEEEEeCCHH
Confidence 457888776655 9999999999833222233321 1235666 778887778999987643
No 146
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=28.14 E-value=69 Score=33.31 Aligned_cols=47 Identities=23% Similarity=0.218 Sum_probs=33.1
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHH
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLL 142 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~L 142 (160)
..-|++|++.||-+++..++.|..-...+...++|... ...+|++.|
T Consensus 348 ~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~-~~~k~l~el 394 (1230)
T KOG0952|consen 348 EGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPS-PRNKQLKEL 394 (1230)
T ss_pred cCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCC-hhhHHHHHH
Confidence 45699999999999999999998865445556666653 333344433
No 147
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=28.14 E-value=1.7e+02 Score=18.79 Aligned_cols=52 Identities=17% Similarity=0.181 Sum_probs=31.8
Q ss_pred CeEEEEcCchh---hHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCc--EEEe
Q 031382 97 PAVLIISSSAL---RSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVN--FAGG 151 (160)
Q Consensus 97 P~~lIl~~Sa~---ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~--I~VG 151 (160)
++++|++.+.+ .|.+++..|+.- +..|--.+.. .++++++++-+ .|+. +++|
T Consensus 2 ~~v~i~~~~~~~~~~a~~i~~~Lr~~--g~~v~~~~~~-~~~~~~~~~a~~~~~~~~i~i~ 59 (91)
T cd00859 2 VDVYVVPLGEGALSEALELAEQLRDA--GIKAEIDYGG-RKLKKQFKYADRSGARFAVILG 59 (91)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHHHC--CCEEEEecCC-CCHHHHHHHHHHcCCCEEEEEc
Confidence 35677765554 588888888864 2333222332 36889988876 5664 4555
No 148
>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=27.83 E-value=1.4e+02 Score=29.15 Aligned_cols=57 Identities=14% Similarity=0.029 Sum_probs=37.6
Q ss_pred CCeEEEEcCchhhHHHHHHHHhhh-hc-----ccchhhhhccCCCHHHHHHH---Hhc-CCcEEEeCC
Q 031382 96 SPAVLIISSSALRSIELLKGLRSL-TK-----ECHAVKLFSKHMKVEEQVSL---LKN-RVNFAGGTP 153 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv~r~l~~~-~k-----~~~v~KLFaKh~Ki~eQi~~---Lk~-~v~I~VGTP 153 (160)
..++||.|.|+..|-.+++.++.. .+ ..+|.-+-|+ +.-++-.+. +++ .++++|+|.
T Consensus 271 ~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg-~~~~eR~~ie~~f~~G~i~vLVaTd 337 (742)
T TIGR03817 271 GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAG-YLPEDRRELERALRDGELLGVATTN 337 (742)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecC-CCHHHHHHHHHHHHcCCceEEEECc
Confidence 358999999999999999998874 21 2234444444 343333333 344 479999995
No 149
>PRK02362 ski2-like helicase; Provisional
Probab=26.68 E-value=1.2e+02 Score=29.21 Aligned_cols=23 Identities=22% Similarity=0.104 Sum_probs=19.9
Q ss_pred CeEEEEcCchhhHHHHHHHHhhh
Q 031382 97 PAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
-++||.|+|+..|..+++.|...
T Consensus 244 ~~~LVF~~sr~~~~~~a~~L~~~ 266 (737)
T PRK02362 244 GQCLVFVSSRRNAEGFAKRAASA 266 (737)
T ss_pred CCeEEEEeCHHHHHHHHHHHHHH
Confidence 46899999999999998888764
No 150
>KOG3089 consensus Predicted DEAD-box-containing helicase [General function prediction only]
Probab=26.47 E-value=85 Score=27.29 Aligned_cols=35 Identities=9% Similarity=0.123 Sum_probs=30.7
Q ss_pred CCCCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhcc
Q 031382 93 DPGSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSK 131 (160)
Q Consensus 93 ~~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaK 131 (160)
-++.|.-+|...+.++|++++|+|.-. +..|+|.+
T Consensus 136 ~~~~~kK~vf~~~lI~c~sa~Ral~~~----k~~k~f~~ 170 (271)
T KOG3089|consen 136 RKNHSKKKVFVLMLIICSSAVRALELI----KSMKAFRG 170 (271)
T ss_pred ccCCchhhhhHHHHHHHHHHHHHHhcc----chHHhhcc
Confidence 368899999999999999999999987 35999987
No 151
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=26.32 E-value=1.2e+02 Score=29.68 Aligned_cols=55 Identities=27% Similarity=0.209 Sum_probs=34.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHH-HHHHHh-cCCcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEE-QVSLLK-NRVNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~e-Qi~~Lk-~~v~I~VGTP 153 (160)
+.| +||.|.|...|-.+++.|+.. +.++.-|-|+. .-.| .+..-+ ....|.|+|-
T Consensus 473 ~~p-vLIft~t~~~se~L~~~L~~~--gi~~~~Lhg~~-~~rE~~ii~~ag~~g~VlVATd 529 (656)
T PRK12898 473 GRP-VLVGTRSVAASERLSALLREA--GLPHQVLNAKQ-DAEEAAIVARAGQRGRITVATN 529 (656)
T ss_pred CCC-EEEEeCcHHHHHHHHHHHHHC--CCCEEEeeCCc-HHHHHHHHHHcCCCCcEEEEcc
Confidence 456 899999999999999999886 34445555542 2222 111112 2346777773
No 152
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=25.45 E-value=82 Score=21.39 Aligned_cols=25 Identities=32% Similarity=0.460 Sum_probs=21.8
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhh
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
|.=.++|+|.+.+-|.++.+.++++
T Consensus 46 gdDTilvi~~~~~~a~~l~~~l~~l 70 (70)
T PF02863_consen 46 GDDTILVICRSEEDAEELEEKLKEL 70 (70)
T ss_dssp ESSEEEEEESTTSHHHHHHHHHHTT
T ss_pred CCCEEEEEeCCHHHHHHHHHHHHhC
Confidence 5568999999999999999988764
No 153
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=25.17 E-value=44 Score=22.68 Aligned_cols=55 Identities=13% Similarity=0.181 Sum_probs=28.3
Q ss_pred eEEEEcCchhhHHHHH-HHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCCC
Q 031382 98 AVLIISSSALRSIELL-KGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTPS 154 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~-r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTPg 154 (160)
.+|++|+++.-.-.+. ..+++.-++.. +....-+.. ...........++++-||.
T Consensus 1 kIlvvC~~Gi~TS~~~~~~i~~~~~~~g-i~~~~~~~~-~~~~~~~~~~~D~il~~~~ 56 (90)
T PF02302_consen 1 KILVVCGSGIGTSLMVANKIKKALKELG-IEVEVSAGS-ILEVEEIADDADLILLTPQ 56 (90)
T ss_dssp EEEEEESSSSHHHHHHHHHHHHHHHHTT-ECEEEEEEE-TTTHHHHHTT-SEEEEEES
T ss_pred CEEEECCChHHHHHHHHHHHHHHHHhcc-CceEEEEec-ccccccccCCCcEEEEcCc
Confidence 4799999998777776 66776521110 111111111 1122233456777777763
No 154
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=24.82 E-value=71 Score=28.15 Aligned_cols=63 Identities=22% Similarity=0.446 Sum_probs=35.4
Q ss_pred CCCeEEEEcCchh--------hH----------HHHHHHHhhhhcccchhhhhccCCCHHHHHH-HHhcCCcEEEeCCCc
Q 031382 95 GSPAVLIISSSAL--------RS----------IELLKGLRSLTKECHAVKLFSKHMKVEEQVS-LLKNRVNFAGGTPSR 155 (160)
Q Consensus 95 ~sP~~lIl~~Sa~--------ra----------~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~-~Lk~~v~I~VGTPgR 155 (160)
-.|-.||||.=-- .- ++-.+..|++-++-.-+=+||+ -=+-+-+ .|+.|.++|. .|+|
T Consensus 152 ~~PDIlViTGHD~~~K~~~d~~dl~~YrnSkyFVeaVk~aR~y~~~~D~LVIFAG--ACQS~yEall~AGANFAS-SP~R 228 (283)
T TIGR02855 152 VRPDILVITGHDAYSKNKGNYMDLNAYRHSKYFVETVREARKYVPSLDQLVIFAG--ACQSHFESLIRAGANFAS-SPSR 228 (283)
T ss_pred hCCCEEEEeCchhhhcCCCChhhhhhhhhhHHHHHHHHHHHhcCCCcccEEEEcc--hhHHHHHHHHHcCccccC-Cccc
Confidence 5699999986321 11 2223333333222223445555 1333433 4478999874 7999
Q ss_pred eeecC
Q 031382 156 LVINC 160 (160)
Q Consensus 156 l~~~~ 160 (160)
++|.|
T Consensus 229 VlIHa 233 (283)
T TIGR02855 229 VNIHA 233 (283)
T ss_pred eEEec
Confidence 99987
No 155
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=24.75 E-value=71 Score=28.19 Aligned_cols=64 Identities=23% Similarity=0.438 Sum_probs=35.3
Q ss_pred CCCCeEEEEcCchh--------hH----------HHHHHHHhhhhcccchhhhhccCCCHHHHHH-HHhcCCcEEEeCCC
Q 031382 94 PGSPAVLIISSSAL--------RS----------IELLKGLRSLTKECHAVKLFSKHMKVEEQVS-LLKNRVNFAGGTPS 154 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~--------ra----------~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~-~Lk~~v~I~VGTPg 154 (160)
.-.|-+||||.==- .- ++-.+..|+|-++-.-+=+||+ -=+-+-+ .|+.|.+.|. .|+
T Consensus 152 ~~~PDIlViTGHD~~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAG--ACQS~fEall~AGANFAS-SP~ 228 (287)
T PF05582_consen 152 EYRPDILVITGHDGYLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAG--ACQSHFEALLEAGANFAS-SPK 228 (287)
T ss_pred HcCCCEEEEeCchhhhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcc--hhHHHHHHHHHcCccccC-Ccc
Confidence 35699999986321 11 2223333333222223334554 1334444 4468999874 799
Q ss_pred ceeecC
Q 031382 155 RLVINC 160 (160)
Q Consensus 155 Rl~~~~ 160 (160)
|++|.|
T Consensus 229 RVlIHa 234 (287)
T PF05582_consen 229 RVLIHA 234 (287)
T ss_pred ceEEec
Confidence 999986
No 156
>COG2062 SixA Phosphohistidine phosphatase SixA [Signal transduction mechanisms]
Probab=24.61 E-value=68 Score=25.78 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=19.0
Q ss_pred eEEEEcCchhhHHHHHHHHhhh
Q 031382 98 AVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 98 ~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
--+|||+++.||.|.++.+...
T Consensus 48 ~D~VL~Spa~Ra~QTae~v~~~ 69 (163)
T COG2062 48 PDLVLVSPAVRARQTAEIVAEH 69 (163)
T ss_pred CCEEEeChhHHHHHHHHHHHHh
Confidence 3579999999999999988775
No 157
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=24.55 E-value=1.8e+02 Score=21.34 Aligned_cols=55 Identities=24% Similarity=0.172 Sum_probs=32.0
Q ss_pred CCCeEEEEcCchhhHHHHHHH----HhhhhcccchhhhhccCCCHHHHHHHHh-cCCcEEEe
Q 031382 95 GSPAVLIISSSALRSIELLKG----LRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVNFAGG 151 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~----l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VG 151 (160)
..|.+++||.+........++ |+.- ....++++...-...++++.|+ .|++=+++
T Consensus 49 ~~~d~V~iS~~~~~~~~~~~~~~~~L~~~--~~~~i~i~~GG~~~~~~~~~~~~~G~d~~~~ 108 (122)
T cd02071 49 EDVDVIGLSSLSGGHMTLFPEVIELLREL--GAGDILVVGGGIIPPEDYELLKEMGVAEIFG 108 (122)
T ss_pred cCCCEEEEcccchhhHHHHHHHHHHHHhc--CCCCCEEEEECCCCHHHHHHHHHCCCCEEEC
Confidence 569999999876655554444 4433 1223445554345566666665 68765544
No 158
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=23.37 E-value=72 Score=23.57 Aligned_cols=19 Identities=16% Similarity=0.001 Sum_probs=9.1
Q ss_pred CeEEEEcCchhhHHHHHHH
Q 031382 97 PAVLIISSSALRSIELLKG 115 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~ 115 (160)
+.++|-..+..-+.+..+.
T Consensus 68 ~DVvIDfT~p~~~~~~~~~ 86 (124)
T PF01113_consen 68 ADVVIDFTNPDAVYDNLEY 86 (124)
T ss_dssp -SEEEEES-HHHHHHHHHH
T ss_pred CCEEEEcCChHHhHHHHHH
Confidence 5566666655555444433
No 159
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=23.27 E-value=1.5e+02 Score=26.51 Aligned_cols=68 Identities=13% Similarity=0.241 Sum_probs=43.0
Q ss_pred CCCCCCeEEEEc----CchhhHHHHHHHHhhhhcccchhhhhccCCC---------HHHHHHHHh-cCCcEEEeCCCcee
Q 031382 92 IDPGSPAVLIIS----SSALRSIELLKGLRSLTKECHAVKLFSKHMK---------VEEQVSLLK-NRVNFAGGTPSRLV 157 (160)
Q Consensus 92 ~~~~sP~~lIl~----~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~K---------i~eQi~~Lk-~~v~I~VGTPgRl~ 157 (160)
.....|+.+||- ++.++.++.+|+...+.=...-+-+|.- +. ..+-.+.|+ .|+.....=|.+|.
T Consensus 244 ~~~~~PR~iIvKfl~f~~KE~IL~aAR~~~~~~~~g~~I~if~D-lS~~~l~kRr~~~~i~~~Lr~~~i~~~~~YPakL~ 322 (370)
T PF02994_consen 244 PKGQRPRPIIVKFLRFQDKEKILKAAREKGQLTYKGKRIRIFPD-LSPETLQKRRKFNPIKKKLREKGIKYRLLYPAKLR 322 (370)
T ss_dssp TTSSS--EEEEEESSHHHHHHHHHHHHHHS-EEETTEEEEEECT-STHHHHHHHHHHHHHHHHHHHTTS--EEETTTEEE
T ss_pred CccCCcCeEEEEecCcccHHHHHHHHHhcCceeeCCCceEEeCC-CCHHHHHHHHHHHHHHHHHHHcCCCccccCcchhc
Confidence 345679999995 6788999999998876312223556654 23 333445566 79999999999998
Q ss_pred ecC
Q 031382 158 INC 160 (160)
Q Consensus 158 ~~~ 160 (160)
|.+
T Consensus 323 i~~ 325 (370)
T PF02994_consen 323 ITY 325 (370)
T ss_dssp EES
T ss_pred cee
Confidence 864
No 160
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=22.80 E-value=85 Score=31.01 Aligned_cols=25 Identities=0% Similarity=0.214 Sum_probs=20.8
Q ss_pred CCeEEEEcCchhhHHHH-HHHHhhhh
Q 031382 96 SPAVLIISSSALRSIEL-LKGLRSLT 120 (160)
Q Consensus 96 sP~~lIl~~Sa~ra~dv-~r~l~~~~ 120 (160)
..++||+|||++++.|+ .+.+..+.
T Consensus 291 ~~~vvI~t~T~~Lq~Ql~~~~i~~l~ 316 (820)
T PRK07246 291 QRQIIVSVPTKILQDQIMAEEVKAIQ 316 (820)
T ss_pred CCcEEEEeCcHHHHHHHHHHHHHHHH
Confidence 47899999999999999 46676663
No 161
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=22.36 E-value=2.4e+02 Score=18.59 Aligned_cols=43 Identities=14% Similarity=0.027 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCC--cEEEe
Q 031382 106 ALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRV--NFAGG 151 (160)
Q Consensus 106 a~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v--~I~VG 151 (160)
...|.++++.|+..+ ..+.--+. ..++..|++..+ .|+ -|+||
T Consensus 17 ~~~a~~~~~~Lr~~g--~~v~~~~~-~~~~~k~~~~a~~~g~~~~iiig 62 (94)
T cd00738 17 REYAQKLLNALLANG--IRVLYDDR-ERKIGKKFREADLRGVPFAVVVG 62 (94)
T ss_pred HHHHHHHHHHHHHCC--CEEEecCC-CcCHhHHHHHHHhCCCCEEEEEC
Confidence 357788888888752 22222233 258999998875 565 46666
No 162
>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure. It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.
Probab=22.03 E-value=32 Score=24.21 Aligned_cols=22 Identities=9% Similarity=0.164 Sum_probs=16.9
Q ss_pred HHHHHHHHHhhCCCCCccccccc
Q 031382 25 SFFLNEFQSANGIQLSSLELESI 47 (160)
Q Consensus 25 ~~l~~~~~~~~~~~LS~lELedl 47 (160)
.=|+.++++++| +.|+-||++|
T Consensus 16 KrL~e~l~~k~P-~at~~~l~~l 37 (68)
T PF09164_consen 16 KRLAERLRAKLP-DATPTELKEL 37 (68)
T ss_dssp HHHHHHHHHH-T-TS-HHHHHHH
T ss_pred HHHHHHHHHHCC-CCCHHHHHHH
Confidence 447888888887 9999999998
No 163
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.92 E-value=1.5e+02 Score=28.75 Aligned_cols=58 Identities=17% Similarity=0.165 Sum_probs=42.0
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCC--HHHHHHHHhcC-CcEEEeCC
Q 031382 95 GSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMK--VEEQVSLLKNR-VNFAGGTP 153 (160)
Q Consensus 95 ~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~K--i~eQi~~Lk~~-v~I~VGTP 153 (160)
=.|-+||..-|-+||-|+..+|..| .++.|.-+.|+|-. -++-++.++.| +-+.++|-
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~~~-~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTd 446 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELEIY-DNINVDVIHGERSQKQRDETMERFRIGKIWVLICTD 446 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhhhc-cCcceeeEecccchhHHHHHHHHHhccCeeEEEehh
Confidence 4689999999999999999999866 34455666677644 44455556644 68888873
No 164
>TIGR00036 dapB dihydrodipicolinate reductase.
Probab=21.81 E-value=72 Score=26.86 Aligned_cols=14 Identities=29% Similarity=0.389 Sum_probs=11.7
Q ss_pred HHhcCCcEEEeCCC
Q 031382 141 LLKNRVNFAGGTPS 154 (160)
Q Consensus 141 ~Lk~~v~I~VGTPg 154 (160)
.|+.|++++|||||
T Consensus 88 al~~g~~vVigttg 101 (266)
T TIGR00036 88 ALEHGVRLVVGTTG 101 (266)
T ss_pred HHHCCCCEEEECCC
Confidence 34679999999998
No 165
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=21.71 E-value=1.6e+02 Score=19.98 Aligned_cols=54 Identities=17% Similarity=0.222 Sum_probs=27.0
Q ss_pred eEEEEcCchhhHHH-HHHHHhhhhcccchhhhhccCCCHHHHHHHHhcCCcEEEeCC
Q 031382 98 AVLIISSSALRSIE-LLKGLRSLTKECHAVKLFSKHMKVEEQVSLLKNRVNFAGGTP 153 (160)
Q Consensus 98 ~~lIl~~Sa~ra~d-v~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk~~v~I~VGTP 153 (160)
.++++|+++.-..+ +...+++.-++..+..-+ .+..+.+ ++....++++++.|+
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~~~i~~~v-~~~~~~~-~~~~~~~~Dliist~ 56 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKENGIDVKV-EQCKIAE-VPSLLDDADLIVSTT 56 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHCCCceEE-EEecHHH-hhcccCCCcEEEEcC
Confidence 58999999886653 344444431221111101 1113322 222235788888887
No 166
>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=21.53 E-value=2.8e+02 Score=26.62 Aligned_cols=58 Identities=22% Similarity=0.333 Sum_probs=37.8
Q ss_pred CCCCeEEEEcCchhhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCcEEEeCCCce
Q 031382 94 PGSPAVLIISSSALRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVNFAGGTPSRL 156 (160)
Q Consensus 94 ~~sP~~lIl~~Sa~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~VGTPgRl 156 (160)
.+.|.+|||++..++.-|..+.++.+...+ + .+--...+=...|+ ..-+|+|+|...+
T Consensus 291 ~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~~-~----~~~~s~~~L~~~l~~~~~~iivtTiQk~ 349 (667)
T TIGR00348 291 LKNPKVFFVVDRRELDYQLMKEFQSLQKDC-A----ERIESIAELKRLLEKDDGGIIITTIQKF 349 (667)
T ss_pred cCCCeEEEEECcHHHHHHHHHHHHhhCCCC-C----cccCCHHHHHHHHhCCCCCEEEEEhHHh
Confidence 357999999999999999999999984322 1 11011222223344 2467888886644
No 167
>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=21.02 E-value=2e+02 Score=25.11 Aligned_cols=23 Identities=0% Similarity=0.069 Sum_probs=20.6
Q ss_pred CeEEEEcCchhhHHHHHHHHhhh
Q 031382 97 PAVLIISSSALRSIELLKGLRSL 119 (160)
Q Consensus 97 P~~lIl~~Sa~ra~dv~r~l~~~ 119 (160)
..+++++|++.++-|..+.++.+
T Consensus 40 ~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 40 NDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred CCEEEEeChHHHHHHHHHHHHHH
Confidence 35799999999999999998887
No 168
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=20.71 E-value=2.2e+02 Score=21.65 Aligned_cols=54 Identities=20% Similarity=0.011 Sum_probs=35.1
Q ss_pred CCCeEEEEcCch----hhHHHHHHHHhhhhcccchhhhhccCCCHHHHHHHHh-cCCcEEE
Q 031382 95 GSPAVLIISSSA----LRSIELLKGLRSLTKECHAVKLFSKHMKVEEQVSLLK-NRVNFAG 150 (160)
Q Consensus 95 ~sP~~lIl~~Sa----~ra~dv~r~l~~~~k~~~v~KLFaKh~Ki~eQi~~Lk-~~v~I~V 150 (160)
..+.+++||+.- +.+-++.+.|+.-. ...+++|++....+++.+.|+ .|++=++
T Consensus 52 ~~adii~iSsl~~~~~~~~~~~~~~L~~~g--~~~i~vivGG~~~~~~~~~l~~~Gvd~~~ 110 (132)
T TIGR00640 52 ADVHVVGVSSLAGGHLTLVPALRKELDKLG--RPDILVVVGGVIPPQDFDELKEMGVAEIF 110 (132)
T ss_pred cCCCEEEEcCchhhhHHHHHHHHHHHHhcC--CCCCEEEEeCCCChHhHHHHHHCCCCEEE
Confidence 458899998855 45555666665542 224677777666777777776 6885444
Done!