Query 001127
Match_columns 1148
No_of_seqs 479 out of 2395
Neff 7.8
Searched_HMMs 46136
Date Thu Mar 28 16:34:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001127.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001127hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02773 addB_Gpos ATP-depend 100.0 6.5E-78 1.4E-82 790.9 58.3 733 264-1069 4-888 (1158)
2 TIGR02774 rexB_recomb ATP-depe 100.0 3E-77 6.5E-82 766.3 56.6 713 277-1069 24-841 (1076)
3 TIGR01074 rep ATP-dependent DN 100.0 8.7E-74 1.9E-78 717.9 65.2 612 247-939 1-637 (664)
4 PRK11773 uvrD DNA-dependent he 100.0 1.2E-73 2.7E-78 717.1 65.7 614 242-940 4-641 (721)
5 TIGR01073 pcrA ATP-dependent D 100.0 1.6E-72 3.5E-77 709.9 64.6 611 245-940 2-637 (726)
6 PRK10919 ATP-dependent DNA hel 100.0 3.1E-72 6.6E-77 695.8 65.3 609 247-938 2-636 (672)
7 TIGR01075 uvrD DNA helicase II 100.0 3.2E-72 6.9E-77 705.4 64.6 611 245-940 2-636 (715)
8 COG3857 AddB ATP-dependent nuc 100.0 1.7E-72 3.7E-77 672.3 50.9 741 265-1089 5-876 (1108)
9 COG0210 UvrD Superfamily I DNA 100.0 1.3E-60 2.9E-65 598.3 59.2 612 247-942 2-645 (655)
10 TIGR02785 addA_Gpos recombinat 100.0 1.2E-56 2.6E-61 587.7 63.9 633 248-919 2-880 (1232)
11 TIGR02784 addA_alphas double-s 100.0 1.4E-52 3.1E-57 550.6 68.9 437 433-918 346-874 (1141)
12 TIGR00609 recB exodeoxyribonuc 100.0 2.8E-51 6E-56 531.7 55.4 591 258-918 6-737 (1087)
13 PRK13909 putative recombinatio 100.0 5.4E-49 1.2E-53 503.8 56.6 228 433-666 278-526 (910)
14 PRK10876 recB exonuclease V su 100.0 5.6E-49 1.2E-53 510.2 54.6 425 433-918 333-819 (1181)
15 COG1074 RecB ATP-dependent exo 100.0 1.8E-47 4E-52 496.4 52.8 440 433-923 335-841 (1139)
16 PRK11054 helD DNA helicase IV; 100.0 8.7E-48 1.9E-52 472.6 46.5 340 246-623 195-570 (684)
17 TIGR02786 addB_alphas double-s 100.0 6.6E-44 1.4E-48 460.4 54.4 691 279-1063 39-846 (1021)
18 TIGR03623 probable DNA repair 100.0 5.4E-37 1.2E-41 394.8 54.2 632 281-1068 2-705 (874)
19 PF13361 UvrD_C: UvrD-like hel 100.0 4.2E-32 9.1E-37 314.9 26.3 339 538-918 1-350 (351)
20 PF00580 UvrD-helicase: UvrD/R 100.0 4.2E-32 9.1E-37 310.7 22.1 272 248-532 1-314 (315)
21 TIGR01450 recC exodeoxyribonuc 99.9 6.3E-24 1.4E-28 275.9 45.9 336 577-941 350-738 (1067)
22 PRK11069 recC exonuclease V su 99.9 2.7E-24 6E-29 278.6 38.8 334 577-940 371-756 (1122)
23 TIGR00376 DNA helicase, putati 99.9 5.2E-25 1.1E-29 270.8 25.6 150 474-631 360-545 (637)
24 KOG1803 DNA helicase [Replicat 99.9 6.6E-25 1.4E-29 251.8 11.1 374 206-656 136-567 (649)
25 PF04257 Exonuc_V_gamma: Exode 99.9 3.9E-21 8.5E-26 244.1 43.1 435 475-941 210-728 (805)
26 KOG2108 3'-5' DNA helicase [Re 99.9 6.4E-24 1.4E-28 252.6 1.0 381 241-665 7-420 (853)
27 KOG1805 DNA replication helica 99.8 4.7E-19 1E-23 211.9 17.3 152 474-633 795-993 (1100)
28 COG3973 Superfamily I DNA and 99.8 4.7E-18 1E-22 194.9 24.1 148 474-634 527-676 (747)
29 KOG1802 RNA helicase nonsense 99.8 7.8E-19 1.7E-23 201.4 10.3 175 474-656 567-776 (935)
30 COG3972 Superfamily I DNA and 99.8 7E-18 1.5E-22 188.9 15.5 148 473-624 293-485 (660)
31 COG1330 RecC Exonuclease V gam 99.4 1.4E-09 2.9E-14 136.1 42.7 329 577-940 338-723 (1078)
32 PRK10875 recD exonuclease V su 99.4 3.2E-12 6.9E-17 156.2 18.8 55 248-302 153-223 (615)
33 TIGR01447 recD exodeoxyribonuc 99.3 7.6E-12 1.7E-16 152.8 12.4 83 475-560 259-369 (586)
34 KOG2108 3'-5' DNA helicase [Re 99.3 1E-12 2.3E-17 157.8 1.5 246 23-301 14-270 (853)
35 TIGR01448 recD_rel helicase, p 99.2 8.7E-11 1.9E-15 147.7 17.3 82 475-560 416-500 (720)
36 KOG1807 Helicases [Replication 99.0 3.4E-08 7.4E-13 116.8 20.8 168 475-652 720-911 (1025)
37 PF13086 AAA_11: AAA domain; P 98.8 1.9E-08 4E-13 109.8 11.4 54 247-300 1-75 (236)
38 PF13604 AAA_30: AAA domain; P 98.8 3E-08 6.5E-13 105.6 10.7 78 475-559 93-175 (196)
39 PF13087 AAA_12: AAA domain; P 98.7 1E-07 2.2E-12 101.9 11.5 108 523-635 4-134 (200)
40 COG3893 Inactivated superfamil 98.6 2.7E-06 6E-11 99.7 21.4 330 580-942 306-666 (697)
41 COG1112 Superfamily I DNA and 98.6 1.4E-06 3.1E-11 112.6 21.5 170 475-652 488-684 (767)
42 PF13538 UvrD_C_2: UvrD-like h 98.6 2.3E-08 5E-13 95.0 3.1 51 849-915 54-104 (104)
43 PF13245 AAA_19: Part of AAA d 98.4 2.8E-07 6.2E-12 82.0 4.8 50 262-318 10-75 (76)
44 PF09848 DUF2075: Uncharacteri 98.3 9.6E-06 2.1E-10 94.7 14.8 88 474-561 82-182 (352)
45 TIGR02768 TraA_Ti Ti-type conj 98.2 3.3E-05 7.2E-10 98.1 18.4 143 475-635 439-585 (744)
46 PRK13889 conjugal transfer rel 98.2 5.7E-05 1.2E-09 97.2 19.8 144 475-635 433-578 (988)
47 PRK13826 Dtr system oriT relax 98.0 0.00017 3.7E-09 93.3 19.4 63 246-318 380-455 (1102)
48 PF02562 PhoH: PhoH-like prote 97.7 2E-05 4.4E-10 83.6 3.7 69 477-547 121-195 (205)
49 PRK14712 conjugal transfer nic 97.7 0.00071 1.5E-08 90.3 17.3 81 476-560 931-1013(1623)
50 PRK13709 conjugal transfer nic 97.6 0.0011 2.3E-08 89.9 18.2 78 477-558 1064-1143(1747)
51 PRK10536 hypothetical protein; 97.5 0.001 2.2E-08 72.8 13.3 69 477-547 178-252 (262)
52 KOG1806 DEAD box containing he 97.2 0.006 1.3E-07 75.7 15.9 158 475-638 991-1182(1320)
53 TIGR02760 TraI_TIGR conjugativ 97.2 0.0033 7.1E-08 87.5 15.4 63 246-319 1018-1098(1960)
54 KOG1804 RNA helicase [RNA proc 97.1 0.00031 6.7E-09 87.0 3.8 175 474-652 441-649 (775)
55 TIGR02760 TraI_TIGR conjugativ 97.0 0.01 2.3E-07 82.7 16.8 65 247-321 429-507 (1960)
56 PF12705 PDDEXK_1: PD-(D/E)XK 97.0 0.00036 7.9E-09 76.6 2.2 44 989-1032 1-53 (257)
57 PF01443 Viral_helicase1: Vira 96.1 0.0029 6.2E-08 69.3 2.5 78 475-555 62-139 (234)
58 KOG1801 tRNA-splicing endonucl 95.7 0.037 8E-07 71.4 10.0 161 474-637 535-722 (827)
59 COG0507 RecD ATP-dependent exo 95.7 0.008 1.7E-07 76.9 4.0 51 848-916 619-669 (696)
60 PF01443 Viral_helicase1: Vira 94.0 0.014 3.1E-07 63.7 -0.1 50 852-915 184-233 (234)
61 smart00487 DEXDc DEAD-like hel 93.9 0.1 2.3E-06 54.4 6.2 58 246-303 7-79 (201)
62 PF05970 PIF1: PIF1-like helic 93.9 0.063 1.4E-06 63.1 4.9 48 247-294 1-66 (364)
63 PF00270 DEAD: DEAD/DEAH box h 93.7 0.099 2.2E-06 53.7 5.5 56 249-304 1-70 (169)
64 TIGR02768 TraA_Ti Ti-type conj 93.6 0.051 1.1E-06 69.5 3.8 66 246-321 351-429 (744)
65 PHA03311 helicase-primase subu 93.2 0.3 6.4E-06 60.2 9.0 50 264-319 74-129 (828)
66 PRK13826 Dtr system oriT relax 92.9 0.078 1.7E-06 69.4 3.8 141 475-635 468-611 (1102)
67 COG1875 NYN ribonuclease and A 92.7 0.27 5.8E-06 55.8 7.1 68 478-547 354-427 (436)
68 PRK13889 conjugal transfer rel 92.4 0.084 1.8E-06 68.7 3.1 64 247-320 346-422 (988)
69 cd00046 DEXDc DEAD-like helica 92.2 0.46 9.9E-06 46.3 7.5 41 263-303 2-55 (144)
70 PTZ00424 helicase 45; Provisio 90.7 0.68 1.5E-05 55.1 8.3 58 245-302 48-120 (401)
71 cd00268 DEADc DEAD-box helicas 90.1 0.59 1.3E-05 49.7 6.4 56 247-302 21-93 (203)
72 PF04851 ResIII: Type III rest 89.3 0.34 7.4E-06 50.2 3.7 53 247-300 3-72 (184)
73 PRK09694 helicase Cas3; Provis 89.2 3.6 7.8E-05 53.5 13.4 56 247-302 286-355 (878)
74 PRK11192 ATP-dependent RNA hel 88.9 1.2 2.6E-05 53.7 8.5 58 246-303 22-98 (434)
75 PHA02558 uvsW UvsW helicase; P 88.6 1.1 2.4E-05 55.1 7.9 56 247-302 114-182 (501)
76 PRK11776 ATP-dependent RNA hel 87.4 0.97 2.1E-05 54.9 6.5 57 245-301 24-95 (460)
77 PRK11634 ATP-dependent RNA hel 87.1 1.8 3.8E-05 54.7 8.6 58 245-302 26-98 (629)
78 COG2887 RecB family exonucleas 86.4 0.62 1.3E-05 52.2 3.6 42 990-1031 1-52 (269)
79 PRK10917 ATP-dependent DNA hel 85.7 0.8 1.7E-05 58.5 4.6 57 247-303 261-335 (681)
80 PRK05580 primosome assembly pr 85.4 0.89 1.9E-05 57.9 4.8 57 247-303 144-215 (679)
81 PRK10590 ATP-dependent RNA hel 85.2 1.6 3.5E-05 53.0 6.7 58 245-302 21-99 (456)
82 COG1061 SSL2 DNA or RNA helica 84.8 2.5 5.4E-05 51.0 8.1 77 245-321 34-136 (442)
83 PLN00206 DEAD-box ATP-dependen 84.6 2.3 4.9E-05 52.6 7.8 56 246-301 142-219 (518)
84 PF07652 Flavi_DEAD: Flaviviru 83.6 2 4.3E-05 43.1 5.3 75 265-342 8-104 (148)
85 TIGR03817 DECH_helic helicase/ 83.0 2 4.2E-05 55.4 6.5 56 246-301 35-104 (742)
86 PRK04837 ATP-dependent RNA hel 82.7 2 4.3E-05 51.6 6.1 58 245-302 28-107 (423)
87 TIGR01054 rgy reverse gyrase. 82.4 1.6 3.6E-05 58.6 5.6 56 247-302 78-145 (1171)
88 PRK02362 ski2-like helicase; P 82.2 1.7 3.7E-05 56.1 5.6 57 245-301 21-90 (737)
89 PRK04537 ATP-dependent RNA hel 82.0 4.7 0.0001 50.4 9.1 59 245-303 29-109 (572)
90 TIGR00643 recG ATP-dependent D 81.9 1.3 2.7E-05 56.2 4.1 57 247-303 235-309 (630)
91 PF08696 Dna2: DNA replication 81.5 2.3 5.1E-05 45.7 5.4 61 987-1047 57-125 (209)
92 PF12684 DUF3799: PDDEXK-like 81.5 0.62 1.3E-05 51.1 1.0 39 989-1027 2-46 (237)
93 PRK09401 reverse gyrase; Revie 81.0 4 8.7E-05 55.0 8.4 56 247-302 80-147 (1176)
94 TIGR01587 cas3_core CRISPR-ass 81.0 3.1 6.7E-05 48.7 6.7 40 264-303 2-54 (358)
95 PRK01172 ski2-like helicase; P 80.8 2.2 4.7E-05 54.6 5.7 54 247-300 22-87 (674)
96 PRK00254 ski2-like helicase; P 80.5 2.2 4.7E-05 55.0 5.6 56 245-300 21-90 (720)
97 COG4096 HsdR Type I site-speci 80.3 11 0.00024 47.6 11.0 57 248-304 166-241 (875)
98 cd00544 CobU Adenosylcobinamid 80.1 2.4 5.3E-05 44.0 4.8 38 264-301 2-47 (169)
99 PRK01297 ATP-dependent RNA hel 80.1 2.9 6.2E-05 51.1 6.2 57 246-302 108-186 (475)
100 PRK13767 ATP-dependent helicas 79.5 3.1 6.7E-05 54.7 6.5 56 246-301 31-107 (876)
101 PRK11664 ATP-dependent RNA hel 79.0 2.6 5.7E-05 54.6 5.6 43 261-303 20-73 (812)
102 COG1204 Superfamily II helicas 78.4 3.3 7.1E-05 53.2 6.1 53 247-299 31-97 (766)
103 PTZ00110 helicase; Provisional 78.1 4.2 9.2E-05 50.5 6.9 57 245-301 150-226 (545)
104 COG1201 Lhr Lhr-like helicases 78.0 4.7 0.0001 51.6 7.2 59 245-303 20-98 (814)
105 TIGR00580 mfd transcription-re 77.1 2.4 5.3E-05 55.6 4.5 57 247-303 451-525 (926)
106 TIGR00614 recQ_fam ATP-depende 76.1 3.8 8.2E-05 50.0 5.6 56 245-300 9-73 (470)
107 PRK13104 secA preprotein trans 76.0 69 0.0015 41.7 16.6 52 585-643 423-474 (896)
108 KOG0952 DNA/RNA helicase MER3/ 75.8 4.1 9E-05 52.2 5.7 59 245-303 108-189 (1230)
109 TIGR01970 DEAH_box_HrpB ATP-de 75.5 3.6 7.8E-05 53.3 5.4 44 260-303 16-70 (819)
110 KOG0345 ATP-dependent RNA heli 74.3 13 0.00028 44.0 8.7 58 245-302 26-103 (567)
111 COG1110 Reverse gyrase [DNA re 73.8 5.2 0.00011 51.4 5.9 70 248-318 83-164 (1187)
112 COG1205 Distinct helicase fami 73.6 5.4 0.00012 52.0 6.3 60 245-304 68-141 (851)
113 KOG1803 DNA helicase [Replicat 72.9 1.7 3.8E-05 52.5 1.5 58 847-916 547-604 (649)
114 PHA02653 RNA helicase NPH-II; 72.1 7.1 0.00015 49.5 6.7 54 250-303 167-247 (675)
115 PRK14701 reverse gyrase; Provi 71.6 5.5 0.00012 55.3 6.0 56 247-302 79-146 (1638)
116 cd01124 KaiC KaiC is a circadi 70.0 3.8 8.3E-05 42.8 3.2 35 264-299 2-47 (187)
117 PRK05800 cobU adenosylcobinami 69.8 3.9 8.4E-05 42.6 3.1 40 263-302 3-50 (170)
118 COG1198 PriA Primosomal protei 69.7 3.9 8.5E-05 51.8 3.6 58 246-303 197-270 (730)
119 TIGR03158 cas3_cyano CRISPR-as 69.7 6.4 0.00014 46.1 5.3 41 262-302 15-63 (357)
120 KOG0330 ATP-dependent RNA heli 69.5 9.3 0.0002 44.0 6.1 57 245-301 81-152 (476)
121 PRK10689 transcription-repair 66.8 6.2 0.00013 53.1 4.8 60 244-303 597-674 (1147)
122 cd00009 AAA The AAA+ (ATPases 66.2 9.2 0.0002 37.3 5.0 14 261-274 19-32 (151)
123 COG4098 comFA Superfamily II D 65.8 11 0.00024 42.8 5.7 63 241-303 91-169 (441)
124 KOG0333 U5 snRNP-like RNA heli 65.4 12 0.00025 44.9 6.0 73 247-319 267-363 (673)
125 PF13401 AAA_22: AAA domain; P 65.3 19 0.00041 35.0 6.9 34 477-510 89-125 (131)
126 TIGR03117 cas_csf4 CRISPR-asso 65.2 7.6 0.00016 48.7 4.9 42 260-301 15-69 (636)
127 PF14532 Sigma54_activ_2: Sigm 65.2 6.6 0.00014 39.1 3.6 17 258-274 18-34 (138)
128 PRK11448 hsdR type I restricti 65.0 15 0.00032 49.5 7.8 78 247-324 413-528 (1123)
129 PF02283 CobU: Cobinamide kina 64.6 10 0.00022 39.4 4.9 39 264-302 1-47 (167)
130 PRK13709 conjugal transfer nic 64.4 4.6 0.0001 56.0 3.0 67 244-321 964-1048(1747)
131 TIGR01407 dinG_rel DnaQ family 64.4 12 0.00026 49.2 6.8 51 247-297 245-311 (850)
132 PRK11057 ATP-dependent DNA hel 63.6 9.5 0.00021 48.1 5.4 56 245-300 23-87 (607)
133 PF06745 KaiC: KaiC; InterPro 63.6 4 8.8E-05 44.3 1.9 39 260-299 18-68 (226)
134 COG4581 Superfamily II RNA hel 63.5 9.2 0.0002 50.0 5.2 62 242-303 114-187 (1041)
135 KOG0328 Predicted ATP-dependen 62.5 13 0.00027 41.1 5.2 57 245-301 47-118 (400)
136 COG0467 RAD55 RecA-superfamily 61.3 6.9 0.00015 43.6 3.3 34 259-292 21-65 (260)
137 PF00265 TK: Thymidine kinase; 61.2 8.2 0.00018 40.4 3.6 43 473-515 74-120 (176)
138 TIGR01389 recQ ATP-dependent D 61.1 12 0.00025 47.3 5.6 56 245-300 11-75 (591)
139 COG1702 PhoH Phosphate starvat 61.1 4.4 9.5E-05 46.2 1.6 36 478-513 246-282 (348)
140 KOG3079 Uridylate kinase/adeny 61.0 4.5 9.7E-05 42.1 1.5 14 262-275 9-22 (195)
141 TIGR03877 thermo_KaiC_1 KaiC d 60.7 7.9 0.00017 42.5 3.5 39 260-299 20-69 (237)
142 PRK07952 DNA replication prote 60.6 4 8.6E-05 45.1 1.1 13 262-274 100-112 (244)
143 PRK13766 Hef nuclease; Provisi 60.5 11 0.00024 49.0 5.5 56 248-303 16-83 (773)
144 COG2256 MGS1 ATPase related to 59.2 13 0.00028 43.4 4.9 71 250-320 37-118 (436)
145 PF13401 AAA_22: AAA domain; P 58.3 10 0.00022 36.8 3.6 44 261-304 4-64 (131)
146 PRK07246 bifunctional ATP-depe 58.3 16 0.00034 47.8 6.1 49 248-296 246-309 (820)
147 PRK08084 DNA replication initi 58.2 9.2 0.0002 42.0 3.5 48 241-288 21-83 (235)
148 COG0513 SrmB Superfamily II DN 58.1 17 0.00038 44.8 6.2 59 245-303 49-124 (513)
149 COG1112 Superfamily I DNA and 57.0 13 0.00028 48.3 5.2 62 241-302 268-346 (767)
150 COG2087 CobU Adenosyl cobinami 56.7 8.8 0.00019 39.3 2.7 40 263-302 2-49 (175)
151 smart00382 AAA ATPases associa 56.4 5.5 0.00012 38.4 1.3 19 476-494 79-97 (148)
152 PRK08074 bifunctional ATP-depe 56.1 15 0.00032 48.8 5.5 49 249-297 259-324 (928)
153 KOG0951 RNA helicase BRR2, DEA 55.8 17 0.00038 47.7 5.6 58 245-302 307-388 (1674)
154 TIGR02621 cas3_GSU0051 CRISPR- 55.6 16 0.00035 47.2 5.4 55 248-302 16-86 (844)
155 KOG1533 Predicted GTPase [Gene 55.5 6.9 0.00015 42.2 1.8 11 264-274 5-15 (290)
156 COG1435 Tdk Thymidine kinase [ 55.2 17 0.00037 38.4 4.6 33 476-508 83-117 (201)
157 KOG0739 AAA+-type ATPase [Post 54.9 14 0.00031 41.1 4.1 11 264-274 169-179 (439)
158 PRK05973 replicative DNA helic 54.7 12 0.00025 41.2 3.5 39 261-300 64-113 (237)
159 TIGR00372 cas4 CRISPR-associat 54.2 11 0.00023 39.3 3.0 42 990-1031 1-47 (178)
160 PRK04328 hypothetical protein; 53.9 12 0.00027 41.4 3.6 39 260-299 22-71 (249)
161 PF00004 AAA: ATPase family as 53.7 5.7 0.00012 38.5 0.9 15 477-491 60-74 (132)
162 PRK04296 thymidine kinase; Pro 53.4 19 0.00042 38.0 4.9 37 474-510 77-115 (190)
163 KOG0743 AAA+-type ATPase [Post 53.3 8.8 0.00019 45.4 2.4 17 258-274 232-248 (457)
164 smart00488 DEXDc2 DEAD-like he 53.3 22 0.00048 40.4 5.6 52 249-300 10-83 (289)
165 smart00489 DEXDc3 DEAD-like he 53.3 22 0.00048 40.4 5.6 52 249-300 10-83 (289)
166 PRK08181 transposase; Validate 53.1 11 0.00024 42.2 3.2 30 245-274 85-119 (269)
167 KOG0343 RNA Helicase [RNA proc 53.0 8.5 0.00018 46.1 2.2 56 246-301 90-164 (758)
168 TIGR00595 priA primosomal prot 52.5 8.5 0.00018 47.3 2.3 39 265-303 1-50 (505)
169 KOG1131 RNA polymerase II tran 51.5 31 0.00066 41.4 6.3 39 258-299 32-85 (755)
170 KOG0354 DEAD-box like helicase 51.3 24 0.00052 44.5 5.8 55 247-301 62-129 (746)
171 KOG0731 AAA+-type ATPase conta 51.0 12 0.00027 47.2 3.3 35 240-274 322-357 (774)
172 PRK06526 transposase; Provisio 50.1 8.5 0.00018 42.8 1.6 14 261-274 98-111 (254)
173 PF09848 DUF2075: Uncharacteri 49.8 21 0.00045 41.8 4.9 40 263-302 3-55 (352)
174 PF00308 Bac_DnaA: Bacterial d 49.7 12 0.00026 40.6 2.7 13 262-274 35-47 (219)
175 COG1484 DnaC DNA replication p 49.6 9.5 0.00021 42.4 1.9 29 260-288 104-143 (254)
176 PF02689 Herpes_Helicase: Heli 49.5 13 0.00027 46.7 3.0 37 264-300 62-104 (818)
177 TIGR00348 hsdR type I site-spe 49.4 45 0.00098 42.6 8.1 41 262-302 264-317 (667)
178 KOG0385 Chromatin remodeling c 49.4 6.7E+02 0.015 32.3 17.2 39 475-513 289-330 (971)
179 TIGR03880 KaiC_arch_3 KaiC dom 48.9 17 0.00036 39.5 3.6 39 261-300 16-65 (224)
180 TIGR03420 DnaA_homol_Hda DnaA 48.7 14 0.0003 39.9 3.0 16 259-274 36-51 (226)
181 KOG4284 DEAD box protein [Tran 47.9 66 0.0014 39.8 8.4 57 247-303 47-118 (980)
182 KOG0331 ATP-dependent RNA heli 47.6 38 0.00083 41.2 6.6 57 247-303 113-190 (519)
183 TIGR03878 thermo_KaiC_2 KaiC d 47.4 13 0.00029 41.4 2.6 27 261-287 36-73 (259)
184 PF13173 AAA_14: AAA domain 47.2 40 0.00086 33.0 5.7 36 475-511 61-99 (128)
185 PRK09183 transposase/IS protei 46.9 18 0.00038 40.5 3.5 30 245-274 82-115 (259)
186 PLN03137 ATP-dependent DNA hel 46.8 27 0.00058 46.4 5.5 55 245-299 458-521 (1195)
187 PF13207 AAA_17: AAA domain; P 46.5 9.2 0.0002 36.7 1.0 11 264-274 2-12 (121)
188 KOG0348 ATP-dependent RNA heli 46.5 36 0.00078 41.0 5.9 81 245-325 157-280 (708)
189 TIGR01359 UMP_CMP_kin_fam UMP- 46.4 9.6 0.00021 39.7 1.2 12 264-275 2-13 (183)
190 PF01078 Mg_chelatase: Magnesi 46.3 12 0.00026 40.1 1.9 32 475-506 106-137 (206)
191 cd01120 RecA-like_NTPases RecA 46.2 17 0.00037 36.4 3.0 28 264-291 2-40 (165)
192 COG0563 Adk Adenylate kinase a 45.8 10 0.00022 39.7 1.3 22 478-500 80-101 (178)
193 PF07728 AAA_5: AAA domain (dy 45.6 8.9 0.00019 38.0 0.8 30 477-506 67-96 (139)
194 PF03029 ATP_bind_1: Conserved 45.5 12 0.00025 41.3 1.7 9 266-274 1-9 (238)
195 KOG0342 ATP-dependent RNA heli 45.5 49 0.0011 39.6 6.7 59 245-303 102-179 (543)
196 KOG1802 RNA helicase nonsense 45.1 27 0.00059 43.0 4.8 58 244-301 407-477 (935)
197 PF00406 ADK: Adenylate kinase 44.7 8.7 0.00019 38.8 0.5 21 476-497 74-94 (151)
198 KOG0335 ATP-dependent RNA heli 44.3 27 0.00058 41.9 4.5 58 247-304 96-178 (482)
199 PRK14532 adenylate kinase; Pro 44.1 11 0.00023 39.6 1.2 13 263-275 2-14 (188)
200 KOG0744 AAA+-type ATPase [Post 43.7 11 0.00024 42.5 1.2 15 260-274 176-190 (423)
201 TIGR02640 gas_vesic_GvpN gas v 43.7 14 0.00031 41.2 2.1 31 478-508 108-138 (262)
202 PRK08903 DnaA regulatory inact 43.6 16 0.00035 39.6 2.5 16 260-275 41-56 (227)
203 TIGR02655 circ_KaiC circadian 43.2 20 0.00043 44.0 3.4 39 260-299 20-70 (484)
204 PRK05642 DNA replication initi 43.0 19 0.00041 39.5 2.9 13 262-274 46-58 (234)
205 PF13671 AAA_33: AAA domain; P 42.7 11 0.00024 37.2 1.0 11 264-274 2-12 (143)
206 PRK14531 adenylate kinase; Pro 42.6 13 0.00027 39.1 1.4 13 263-275 4-16 (183)
207 PF12775 AAA_7: P-loop contain 42.5 18 0.00039 40.7 2.7 34 259-292 31-75 (272)
208 KOG2028 ATPase related to the 42.3 33 0.00071 39.5 4.6 72 249-320 150-236 (554)
209 TIGR02881 spore_V_K stage V sp 42.1 13 0.00029 41.4 1.6 15 261-275 42-56 (261)
210 COG1199 DinG Rad3-related DNA 41.9 29 0.00064 44.2 4.9 53 249-301 17-86 (654)
211 PRK12377 putative replication 41.7 15 0.00033 40.6 2.0 13 262-274 102-114 (248)
212 TIGR01351 adk adenylate kinase 41.4 13 0.00028 39.9 1.4 32 477-509 79-111 (210)
213 PF05729 NACHT: NACHT domain 41.3 14 0.0003 37.3 1.5 12 263-274 2-13 (166)
214 PF00158 Sigma54_activat: Sigm 40.8 42 0.0009 34.8 4.9 32 478-510 96-128 (168)
215 PF01695 IstB_IS21: IstB-like 40.7 12 0.00026 39.2 0.9 29 260-288 46-85 (178)
216 PRK14530 adenylate kinase; Pro 40.7 14 0.0003 39.9 1.3 14 262-275 4-17 (215)
217 PRK08154 anaerobic benzoate ca 40.5 26 0.00056 40.2 3.6 35 240-274 100-146 (309)
218 cd01428 ADK Adenylate kinase ( 40.2 14 0.00031 38.8 1.3 23 477-500 78-100 (194)
219 KOG0989 Replication factor C, 39.7 19 0.00041 40.6 2.2 27 474-500 128-154 (346)
220 PRK08118 topology modulation p 39.6 14 0.00031 38.2 1.2 12 263-274 3-14 (167)
221 TIGR00604 rad3 DNA repair heli 39.5 40 0.00086 43.5 5.5 53 249-301 12-83 (705)
222 PRK06067 flagellar accessory p 39.3 27 0.00058 38.1 3.4 38 260-298 24-72 (234)
223 PF13191 AAA_16: AAA ATPase do 39.2 16 0.00035 37.7 1.6 24 478-501 153-176 (185)
224 KOG3125 Thymidine kinase [Nucl 38.2 34 0.00073 36.0 3.6 35 472-507 101-136 (234)
225 KOG1534 Putative transcription 37.9 17 0.00038 38.6 1.5 11 264-274 6-16 (273)
226 COG1643 HrpA HrpA-like helicas 37.8 40 0.00086 43.8 5.0 83 261-346 65-175 (845)
227 PLN02674 adenylate kinase 37.8 15 0.00033 40.5 1.2 22 477-499 110-131 (244)
228 PRK11747 dinG ATP-dependent DN 37.7 35 0.00076 43.8 4.5 36 262-297 50-97 (697)
229 PF13481 AAA_25: AAA domain; P 37.6 29 0.00063 36.3 3.3 41 261-302 32-93 (193)
230 PF05673 DUF815: Protein of un 37.4 43 0.00094 36.8 4.5 15 260-274 51-65 (249)
231 TIGR03881 KaiC_arch_4 KaiC dom 37.4 29 0.00063 37.7 3.3 36 261-297 20-66 (229)
232 PRK12899 secA preprotein trans 37.0 95 0.002 40.7 8.0 79 248-326 93-202 (970)
233 PTZ00293 thymidine kinase; Pro 36.9 47 0.001 35.8 4.6 40 475-515 77-120 (211)
234 PRK14712 conjugal transfer nic 36.7 17 0.00036 50.2 1.5 66 245-321 833-916 (1623)
235 TIGR02782 TrbB_P P-type conjug 36.5 36 0.00078 38.9 4.0 27 248-274 117-145 (299)
236 KOG0991 Replication factor C, 36.4 45 0.00098 36.2 4.3 13 262-274 49-61 (333)
237 COG0606 Predicted ATPase with 36.4 19 0.00041 43.1 1.6 23 475-500 283-305 (490)
238 PRK12898 secA preprotein trans 36.3 59 0.0013 41.1 6.0 80 246-326 102-211 (656)
239 KOG3347 Predicted nucleotide k 36.2 22 0.00047 36.0 1.8 16 260-275 6-21 (176)
240 PRK06620 hypothetical protein; 36.2 17 0.00037 39.3 1.2 13 262-274 45-57 (214)
241 cd01130 VirB11-like_ATPase Typ 36.2 26 0.00056 36.9 2.6 28 247-274 9-38 (186)
242 cd02019 NK Nucleoside/nucleoti 35.9 18 0.00039 31.3 1.1 11 264-274 2-12 (69)
243 PLN02200 adenylate kinase fami 35.9 18 0.00038 39.8 1.3 12 264-275 46-57 (234)
244 PRK06893 DNA replication initi 35.7 27 0.00059 38.1 2.7 12 263-274 41-52 (229)
245 TIGR01360 aden_kin_iso1 adenyl 35.5 18 0.0004 37.6 1.3 13 263-275 5-17 (188)
246 PF05496 RuvB_N: Holliday junc 35.1 24 0.00052 38.4 2.0 57 262-321 51-116 (233)
247 PF13238 AAA_18: AAA domain; P 34.9 18 0.00039 34.8 1.0 11 264-274 1-11 (129)
248 PRK03839 putative kinase; Prov 34.8 18 0.00039 37.7 1.1 12 264-275 3-14 (180)
249 TIGR02655 circ_KaiC circadian 34.7 29 0.00062 42.6 3.0 39 260-299 262-311 (484)
250 PRK00279 adk adenylate kinase; 34.7 19 0.00041 38.8 1.3 12 264-275 3-14 (215)
251 COG1222 RPT1 ATP-dependent 26S 34.4 30 0.00064 39.9 2.7 28 247-274 171-198 (406)
252 PTZ00088 adenylate kinase 1; P 34.4 19 0.00041 39.4 1.2 12 264-275 9-20 (229)
253 PRK13833 conjugal transfer pro 34.4 28 0.0006 40.2 2.6 27 248-274 129-157 (323)
254 PRK05298 excinuclease ABC subu 34.3 54 0.0012 41.8 5.4 42 263-304 34-83 (652)
255 KOG0923 mRNA splicing factor A 34.3 63 0.0014 40.1 5.5 62 240-303 256-335 (902)
256 PRK14528 adenylate kinase; Pro 34.1 20 0.00043 37.8 1.3 21 478-499 81-101 (186)
257 KOG0733 Nuclear AAA ATPase (VC 34.0 36 0.00078 41.8 3.4 14 261-274 223-236 (802)
258 PRK13894 conjugal transfer ATP 34.0 27 0.00058 40.3 2.4 27 248-274 133-161 (319)
259 PRK13342 recombination factor 33.7 40 0.00086 40.4 3.9 49 253-301 28-84 (413)
260 COG1126 GlnQ ABC-type polar am 33.6 32 0.0007 37.0 2.7 38 470-507 149-192 (240)
261 TIGR00603 rad25 DNA repair hel 33.6 65 0.0014 41.2 5.8 56 246-301 254-321 (732)
262 TIGR01650 PD_CobS cobaltochela 33.5 29 0.00063 39.9 2.6 30 478-507 137-167 (327)
263 TIGR01967 DEAH_box_HrpA ATP-de 33.5 45 0.00097 45.3 4.6 83 261-346 82-192 (1283)
264 TIGR02928 orc1/cdc6 family rep 33.1 27 0.00059 40.8 2.4 16 260-275 39-54 (365)
265 TIGR02237 recomb_radB DNA repa 33.0 28 0.00061 37.1 2.3 28 261-288 12-50 (209)
266 PRK02496 adk adenylate kinase; 32.9 21 0.00046 37.3 1.2 11 264-274 4-14 (184)
267 PRK07261 topology modulation p 32.4 22 0.00047 36.9 1.2 11 264-274 3-13 (171)
268 PRK14527 adenylate kinase; Pro 32.3 22 0.00047 37.5 1.3 13 263-275 8-20 (191)
269 TIGR02880 cbbX_cfxQ probable R 32.3 22 0.00047 40.3 1.3 14 262-275 59-72 (284)
270 PRK08727 hypothetical protein; 32.0 28 0.0006 38.2 2.0 14 261-274 41-54 (233)
271 KOG0729 26S proteasome regulat 32.0 38 0.00083 37.2 2.9 31 245-275 195-225 (435)
272 PLN03025 replication factor C 31.9 29 0.00062 40.0 2.2 36 475-510 99-138 (319)
273 KOG0987 DNA helicase PIF1/RRM3 31.9 92 0.002 38.7 6.7 53 238-290 108-177 (540)
274 cd01125 repA Hexameric Replica 31.7 41 0.00089 36.9 3.3 38 264-302 4-64 (239)
275 PRK12339 2-phosphoglycerate ki 31.7 50 0.0011 35.2 3.9 12 263-274 5-16 (197)
276 PRK08533 flagellar accessory p 31.6 42 0.00091 36.7 3.4 38 260-298 23-71 (230)
277 PRK01184 hypothetical protein; 31.4 22 0.00048 37.1 1.1 23 476-500 80-102 (184)
278 PF13479 AAA_24: AAA domain 31.1 31 0.00067 37.2 2.2 26 263-288 5-33 (213)
279 TIGR01618 phage_P_loop phage n 31.0 30 0.00066 37.6 2.1 28 261-288 12-43 (220)
280 PRK14529 adenylate kinase; Pro 30.8 23 0.0005 38.6 1.1 13 263-275 2-14 (223)
281 cd00464 SK Shikimate kinase (S 30.7 25 0.00055 35.2 1.4 12 263-274 1-12 (154)
282 PRK14087 dnaA chromosomal repl 30.7 57 0.0012 39.6 4.6 13 262-274 142-154 (450)
283 COG3854 SpoIIIAA ncharacterize 30.6 39 0.00085 36.7 2.7 14 261-274 137-150 (308)
284 COG2256 MGS1 ATPase related to 30.6 43 0.00094 39.2 3.3 38 476-513 105-142 (436)
285 PLN02459 probable adenylate ki 30.1 24 0.00053 39.3 1.2 13 263-275 31-43 (261)
286 PTZ00072 40S ribosomal protein 30.1 51 0.0011 33.0 3.2 41 593-637 28-76 (148)
287 PRK09302 circadian clock prote 30.0 46 0.001 41.1 3.7 38 261-299 273-321 (509)
288 PTZ00454 26S protease regulato 29.8 37 0.00079 40.5 2.7 26 249-274 167-192 (398)
289 PRK12402 replication factor C 29.8 33 0.00071 39.6 2.2 35 475-509 125-163 (337)
290 PF05496 RuvB_N: Holliday junc 29.6 58 0.0012 35.5 3.8 35 475-509 101-136 (233)
291 PRK06921 hypothetical protein; 29.6 40 0.00087 37.8 2.8 14 261-274 117-130 (266)
292 cd00046 DEXDc DEAD-like helica 29.4 42 0.0009 32.1 2.6 22 474-495 102-123 (144)
293 cd01122 GP4d_helicase GP4d_hel 29.4 49 0.0011 36.9 3.5 40 260-300 29-80 (271)
294 CHL00181 cbbX CbbX; Provisiona 29.3 24 0.00052 40.0 1.0 12 263-274 61-72 (287)
295 cd00984 DnaB_C DnaB helicase C 29.3 48 0.001 36.2 3.4 37 261-298 13-61 (242)
296 KOG0350 DEAD-box ATP-dependent 29.1 93 0.002 37.4 5.6 45 261-305 183-242 (620)
297 PRK06835 DNA replication prote 29.1 31 0.00068 39.9 1.9 14 261-274 183-196 (329)
298 TIGR03689 pup_AAA proteasome A 29.0 38 0.00082 41.6 2.7 27 248-274 203-229 (512)
299 PF04665 Pox_A32: Poxvirus A32 28.8 42 0.0009 37.0 2.7 12 263-274 15-26 (241)
300 PHA00729 NTP-binding motif con 28.7 25 0.00054 38.3 0.9 12 263-274 19-30 (226)
301 PRK13531 regulatory ATPase Rav 28.7 27 0.00058 42.4 1.2 17 258-274 36-52 (498)
302 PF13872 AAA_34: P-loop contai 28.5 1.1E+02 0.0024 34.8 5.9 69 246-318 36-127 (303)
303 cd02021 GntK Gluconate kinase 28.1 28 0.0006 34.9 1.1 11 264-274 2-12 (150)
304 PRK03992 proteasome-activating 28.0 41 0.00089 40.0 2.7 16 260-275 164-179 (389)
305 COG1200 RecG RecG-like helicas 28.0 63 0.0014 40.4 4.2 58 247-304 262-337 (677)
306 PF10443 RNA12: RNA12 protein; 27.8 1.9E+02 0.0042 34.5 8.0 31 261-291 17-55 (431)
307 cd01394 radB RadB. The archaea 27.8 51 0.0011 35.4 3.2 26 261-286 19-55 (218)
308 PRK12337 2-phosphoglycerate ki 27.8 52 0.0011 39.7 3.4 49 264-319 258-315 (475)
309 PRK11331 5-methylcytosine-spec 27.6 47 0.001 39.9 3.1 16 259-274 192-207 (459)
310 PRK08356 hypothetical protein; 27.5 28 0.00061 36.9 1.1 18 478-497 96-113 (195)
311 COG4639 Predicted kinase [Gene 27.5 87 0.0019 32.1 4.4 11 264-274 5-15 (168)
312 PRK08116 hypothetical protein; 27.1 35 0.00076 38.3 1.8 13 262-274 115-127 (268)
313 cd01129 PulE-GspE PulE/GspE Th 27.0 50 0.0011 36.9 3.0 28 247-274 63-93 (264)
314 TIGR00362 DnaA chromosomal rep 27.0 60 0.0013 38.7 3.9 13 262-274 137-149 (405)
315 PRK09361 radB DNA repair and r 26.8 42 0.00091 36.3 2.3 27 261-287 23-60 (225)
316 PRK13949 shikimate kinase; Pro 26.8 30 0.00066 35.8 1.1 12 263-274 3-14 (169)
317 PRK12422 chromosomal replicati 26.6 58 0.0013 39.4 3.6 13 262-274 142-154 (445)
318 PRK14526 adenylate kinase; Pro 26.6 30 0.00065 37.3 1.1 12 264-275 3-14 (211)
319 PRK00411 cdc6 cell division co 26.5 41 0.00089 39.8 2.3 16 260-275 54-69 (394)
320 PRK13947 shikimate kinase; Pro 26.5 31 0.00068 35.3 1.2 12 263-274 3-14 (171)
321 PRK00131 aroK shikimate kinase 26.5 36 0.00078 34.8 1.7 13 262-274 5-17 (175)
322 TIGR03015 pepcterm_ATPase puta 26.3 69 0.0015 35.5 4.0 23 478-500 126-148 (269)
323 COG2255 RuvB Holliday junction 26.2 49 0.0011 37.1 2.6 13 262-274 53-65 (332)
324 PRK06217 hypothetical protein; 26.1 31 0.00067 36.1 1.1 11 264-274 4-14 (183)
325 cd03115 SRP The signal recogni 26.1 43 0.00094 34.5 2.2 37 474-510 81-122 (173)
326 KOG0338 ATP-dependent RNA heli 26.1 60 0.0013 39.0 3.4 52 249-300 205-274 (691)
327 PRK08233 hypothetical protein; 26.0 31 0.00068 35.6 1.1 11 264-274 6-16 (182)
328 KOG0086 GTPase Rab4, small G p 25.7 1.4E+02 0.0029 30.2 5.2 12 263-274 11-22 (214)
329 PRK09302 circadian clock prote 25.7 53 0.0012 40.5 3.2 40 259-299 29-80 (509)
330 KOG0384 Chromodomain-helicase 25.6 56 0.0012 43.3 3.3 78 433-513 457-538 (1373)
331 PRK00149 dnaA chromosomal repl 25.5 69 0.0015 38.8 4.1 13 262-274 149-161 (450)
332 COG1474 CDC6 Cdc6-related prot 25.5 45 0.00097 39.2 2.3 17 258-274 39-55 (366)
333 PRK14088 dnaA chromosomal repl 25.3 69 0.0015 38.7 4.0 13 262-274 131-143 (440)
334 KOG0400 40S ribosomal protein 25.3 1.3E+02 0.0028 29.5 4.8 43 592-638 30-80 (151)
335 PF12846 AAA_10: AAA-like doma 25.2 41 0.00088 37.7 1.9 31 261-291 1-42 (304)
336 PRK09200 preprotein translocas 25.0 1.3E+02 0.0029 38.9 6.6 79 247-326 78-187 (790)
337 cd01121 Sms Sms (bacterial rad 24.9 57 0.0012 38.5 3.0 37 261-298 82-129 (372)
338 PRK13808 adenylate kinase; Pro 24.8 35 0.00076 39.5 1.2 12 264-275 3-14 (333)
339 TIGR02012 tigrfam_recA protein 24.6 59 0.0013 37.5 3.1 29 261-289 55-94 (321)
340 PF02689 Herpes_Helicase: Heli 24.6 26 0.00057 44.0 0.2 46 851-915 740-787 (818)
341 TIGR00963 secA preprotein tran 24.6 1.9E+02 0.0041 37.2 7.6 95 249-344 58-187 (745)
342 TIGR00635 ruvB Holliday juncti 24.5 34 0.00075 38.9 1.2 26 476-501 82-107 (305)
343 cd01126 TraG_VirD4 The TraG/Tr 24.4 56 0.0012 38.6 3.0 28 263-290 1-37 (384)
344 TIGR00631 uvrb excinuclease AB 24.3 1.1E+02 0.0023 39.1 5.6 42 263-304 31-80 (655)
345 KOG0340 ATP-dependent RNA heli 24.3 1.2E+02 0.0026 35.1 5.1 76 245-323 27-117 (442)
346 COG0556 UvrB Helicase subunit 24.3 94 0.002 37.8 4.6 46 590-642 430-475 (663)
347 TIGR01241 FtsH_fam ATP-depende 24.3 52 0.0011 40.5 2.7 15 260-274 87-101 (495)
348 smart00072 GuKc Guanylate kina 24.1 40 0.00087 35.3 1.5 13 262-274 3-15 (184)
349 PF13173 AAA_14: AAA domain 24.1 72 0.0016 31.1 3.2 32 262-293 3-44 (128)
350 TIGR01242 26Sp45 26S proteasom 24.1 53 0.0012 38.6 2.7 14 261-274 156-169 (364)
351 PRK11608 pspF phage shock prot 23.9 53 0.0011 38.0 2.5 16 259-274 27-42 (326)
352 PRK14737 gmk guanylate kinase; 23.9 39 0.00085 35.6 1.4 12 263-274 6-17 (186)
353 TIGR01313 therm_gnt_kin carboh 23.9 31 0.00067 35.2 0.5 11 264-274 1-11 (163)
354 PRK00080 ruvB Holliday junctio 23.8 35 0.00077 39.4 1.1 28 476-503 103-130 (328)
355 PRK08939 primosomal protein Dn 23.8 59 0.0013 37.3 2.8 14 261-274 156-169 (306)
356 PF00910 RNA_helicase: RNA hel 23.8 33 0.00072 32.5 0.7 11 265-275 2-12 (107)
357 PF07652 Flavi_DEAD: Flaviviru 23.8 1.1E+02 0.0024 30.9 4.4 26 474-499 94-119 (148)
358 TIGR02322 phosphon_PhnN phosph 23.7 37 0.0008 35.2 1.1 12 263-274 3-14 (179)
359 TIGR00416 sms DNA repair prote 23.7 65 0.0014 39.1 3.3 37 261-298 94-141 (454)
360 TIGR02688 conserved hypothetic 23.6 4.6E+02 0.01 31.5 10.0 64 443-514 235-316 (449)
361 KOG2028 ATPase related to the 23.6 50 0.0011 38.1 2.1 38 474-511 221-258 (554)
362 KOG0733 Nuclear AAA ATPase (VC 23.6 56 0.0012 40.2 2.6 27 249-275 533-559 (802)
363 KOG0346 RNA helicase [RNA proc 23.5 1.3E+02 0.0027 35.8 5.2 53 249-301 43-116 (569)
364 PRK09087 hypothetical protein; 23.5 39 0.00085 36.9 1.3 14 261-274 44-57 (226)
365 KOG0344 ATP-dependent RNA heli 23.4 95 0.0021 38.0 4.5 58 245-302 156-233 (593)
366 PRK14873 primosome assembly pr 23.4 46 0.001 42.3 2.1 53 243-303 150-213 (665)
367 PRK00625 shikimate kinase; Pro 23.2 37 0.00081 35.4 1.0 13 263-275 2-14 (173)
368 cd01131 PilT Pilus retraction 23.1 39 0.00085 35.9 1.2 13 262-274 2-14 (198)
369 PRK12338 hypothetical protein; 22.9 62 0.0014 37.2 2.8 11 264-274 7-17 (319)
370 TIGR02974 phageshock_pspF psp 22.8 56 0.0012 37.9 2.4 32 477-509 95-127 (329)
371 PRK06762 hypothetical protein; 22.7 39 0.00085 34.5 1.1 11 264-274 5-15 (166)
372 KOG0736 Peroxisome assembly fa 22.5 62 0.0013 41.0 2.7 12 263-274 707-718 (953)
373 PHA02244 ATPase-like protein 22.5 46 0.00099 39.0 1.6 27 475-501 180-206 (383)
374 PRK11823 DNA repair protein Ra 22.5 69 0.0015 38.8 3.2 37 261-298 80-127 (446)
375 PHA03311 helicase-primase subu 22.4 45 0.00097 42.1 1.6 42 851-912 750-792 (828)
376 PF02399 Herpes_ori_bp: Origin 22.3 1.2E+02 0.0027 38.9 5.3 41 261-301 49-101 (824)
377 cd02020 CMPK Cytidine monophos 22.0 44 0.00096 33.0 1.2 11 264-274 2-12 (147)
378 COG1875 NYN ribonuclease and A 22.0 83 0.0018 36.6 3.4 31 244-274 225-258 (436)
379 COG0529 CysC Adenylylsulfate k 21.9 1.1E+02 0.0024 32.1 4.0 28 247-274 9-36 (197)
380 TIGR03714 secA2 accessory Sec 21.8 3.6E+02 0.0078 34.9 9.3 51 586-643 404-454 (762)
381 PF00625 Guanylate_kin: Guanyl 21.6 52 0.0011 34.4 1.7 14 261-274 2-15 (183)
382 COG1618 Predicted nucleotide k 21.6 45 0.00097 34.3 1.1 26 476-501 101-129 (179)
383 PRK11131 ATP-dependent RNA hel 21.4 1E+02 0.0023 42.0 4.7 82 261-345 89-198 (1294)
384 COG1111 MPH1 ERCC4-like helica 21.3 1.2E+02 0.0026 36.7 4.7 54 250-303 18-83 (542)
385 PRK13341 recombination factor 21.2 57 0.0012 42.0 2.2 22 253-274 44-65 (725)
386 PRK04040 adenylate kinase; Pro 21.2 48 0.001 35.0 1.4 13 263-275 4-16 (188)
387 PRK13900 type IV secretion sys 21.2 83 0.0018 36.5 3.4 27 473-501 233-259 (332)
388 TIGR02525 plasmid_TraJ plasmid 21.0 69 0.0015 37.7 2.7 26 248-274 137-162 (372)
389 PRK15429 formate hydrogenlyase 21.0 96 0.0021 39.9 4.3 23 478-500 473-496 (686)
390 KOG2035 Replication factor C, 20.9 1.3E+02 0.0028 33.8 4.5 13 262-274 35-47 (351)
391 cd00227 CPT Chloramphenicol (C 20.8 47 0.001 34.4 1.2 12 263-274 4-15 (175)
392 TIGR02902 spore_lonB ATP-depen 20.7 60 0.0013 40.3 2.3 33 475-507 175-207 (531)
393 TIGR02533 type_II_gspE general 20.7 98 0.0021 37.9 4.0 28 247-274 225-255 (486)
394 KOG0327 Translation initiation 20.7 55 0.0012 38.0 1.7 56 245-300 46-116 (397)
395 KOG0347 RNA helicase [RNA proc 20.6 1.1E+02 0.0024 37.2 4.2 55 249-303 205-288 (731)
396 COG2804 PulE Type II secretory 20.6 89 0.0019 37.9 3.5 28 247-274 241-271 (500)
397 KOG0742 AAA+-type ATPase [Post 20.6 47 0.001 38.8 1.1 13 263-275 386-398 (630)
398 PF11181 YflT: Heat induced st 20.5 1.5E+02 0.0032 28.0 4.4 34 595-632 12-45 (103)
399 PRK13851 type IV secretion sys 20.5 84 0.0018 36.6 3.3 16 259-274 160-175 (344)
400 PRK10078 ribose 1,5-bisphospho 20.4 50 0.0011 34.6 1.3 13 262-274 3-15 (186)
401 COG1136 SalX ABC-type antimicr 20.4 1E+02 0.0022 33.7 3.6 14 261-274 31-44 (226)
402 CHL00195 ycf46 Ycf46; Provisio 20.4 50 0.0011 40.4 1.5 14 261-274 259-272 (489)
403 COG1936 Predicted nucleotide k 20.4 51 0.0011 34.3 1.3 11 264-274 3-13 (180)
404 PRK08561 rps15p 30S ribosomal 20.3 69 0.0015 32.3 2.1 39 595-637 33-79 (151)
405 PF06414 Zeta_toxin: Zeta toxi 20.3 54 0.0012 34.8 1.5 10 265-274 19-28 (199)
406 PF08477 Miro: Miro-like prote 20.2 47 0.001 31.5 0.9 11 264-274 2-12 (119)
407 COG0593 DnaA ATPase involved i 20.1 1.2E+02 0.0026 36.1 4.5 14 261-274 113-126 (408)
408 COG0714 MoxR-like ATPases [Gen 20.1 53 0.0012 37.9 1.6 32 477-508 114-145 (329)
No 1
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=100.00 E-value=6.5e-78 Score=790.94 Aligned_cols=733 Identities=14% Similarity=0.175 Sum_probs=574.6
Q ss_pred EEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHHHHHHHHHHHHh
Q 001127 264 LLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFSLQLCRSHAEKL 330 (1148)
Q Consensus 264 ~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~rIl~~~~~~~ 330 (1148)
-+|+|+||||| ..+.+.-.++.+|+++++++++|+.+.++..+..+++|.||||||++|+++.++..
T Consensus 4 ~fi~G~aGSGKT~~l~~ri~~~l~~~~~~~~~illVPeq~TF~~e~rl~~~~~~~~~~~v~V~SF~rLa~~ilr~~~~~~ 83 (1158)
T TIGR02773 4 RFIYGRAGTGKSTFCIDEIKQKIKENPLGKPIILIVPDQMTFQMEQALLNDIELNGSLRAQVLSFSRLAWRVFQETGGLT 83 (1158)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHhhCCCCCcEEEEcCCcccHHHHHHHHHhccccCeEEEEEeeeHHHHHHHHHHcCCcc
Confidence 37999999999 22346667777788888999999999887666788999999999999999966322
Q ss_pred cCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhh
Q 001127 331 ERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDG 410 (1148)
Q Consensus 331 ~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~ 410 (1148)
. .++++.++.+++++++..++.++ ..|..... ..+|.+.+.+.
T Consensus 84 ~-----~~ld~~g~~~ll~~il~~~~~~l---------------~~f~~~~~-----------------~~gf~~~l~~~ 126 (1158)
T TIGR02773 84 R-----TFLTQAGKEMMIRKLLEEHKDEL---------------KVYQKASR-----------------QKGFSAKLSEM 126 (1158)
T ss_pred c-----ccccHHHHHHHHHHHHHHHHhHH---------------HHHHhhcC-----------------CccHHHHHHHH
Confidence 2 58999999999999999887765 34444333 56789999999
Q ss_pred HHHHHHcCCCHHHHHhhHHH------------HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHHHHHHhccCcCE
Q 001127 411 MDVAKASGKTPAEFRKIGDE------------IGAAILENYNGILRSCNALDYHDLISCSVKLLSTFPEVFQEYQDSWKA 478 (1148)
Q Consensus 411 i~~~k~~~~~~e~l~~~~~~------------~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~ 478 (1148)
|+++|+++++|+++.+.... ..+.+|..|++.+++ +++|++|++..++..|..++.+ +..+
T Consensus 127 Iselk~~~i~pe~l~~~~~~~~~~~~l~~Kl~dl~~IY~~Ye~~l~~-~~iD~dDlL~~~~~~L~~~~~l------~~~~ 199 (1158)
T TIGR02773 127 ITEFKRYEVTPEDLRTFAEDIEDSTRLKEKLEDLSLIYQYFEERLHG-EYIDSEDQLNLLIEKLSQSEWI------KGAE 199 (1158)
T ss_pred HHHHHHcCCCHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHh-cCCChHHHHHHHHHHhccCccc------CCCE
Confidence 99999999999998654221 247899999999987 7999999999999999877765 3469
Q ss_pred EEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCc--------ccccCCCChHHHHHHHHhcCC--ceEEEeccCCCC-
Q 001127 479 IIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQS--------IFSFNGADISGFDSFRKDFLN--YKEIRLTRNYRS- 546 (1148)
Q Consensus 479 IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~Qs--------Iy~frga~~~lf~~l~~~~~~--~~~~~L~~nyRs- 546 (1148)
|+|||||||||+|+.+|+.|++ +.+++++||.+|+ ||.|++.....+..+...++. ...+.+..+++.
T Consensus 200 I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~~~~~~~~lf~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~ 279 (1158)
T TIGR02773 200 IYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPKSLEDELSLFRATSETYYRLKELAKELGIEVEEPIFLNEYRPNK 279 (1158)
T ss_pred EEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCccccCCccccchhHHHHHHHHHHHHHHcCCCcccccccccccCCC
Confidence 9999999999999999999997 5589999998887 565555555555555554431 133445556653
Q ss_pred -hhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-Cc
Q 001127 547 -TRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QV 624 (1148)
Q Consensus 547 -~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~ 624 (1148)
++.+..+...++..... .....+..|.++.+.+..+|+++|+++|++++++ +|++|+|||||+|+ +.
T Consensus 280 ~~~~l~~Lek~l~~~~~~--------~~~~~~~~I~i~~~~~~~~Eae~va~~I~~l~~~---~g~~~~DIAVL~R~~~~ 348 (1158)
T TIGR02773 280 KNKELAHLEKQFDARPFN--------AYIEEDGSISIFEANNRRAEVEGVARQILRLTRD---KQYRYQDIAILTRDLED 348 (1158)
T ss_pred CCHHHHHHHHHHhhCCCC--------CCCCCCCCeEEEEcCCHHHHHHHHHHHHHHHHHc---CCCChhheEEEeCCHHH
Confidence 66777777766654211 1123345699999999999999999999999876 69999999999999 99
Q ss_pred ChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHH-hh-hhhHH-HHHHHHHHHHHHHhh
Q 001127 625 SGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FL-LLEKE-EKKRVIDHIDKISTI 700 (1148)
Q Consensus 625 ~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~-~~~~~-~~~~~id~Leny~~~ 700 (1148)
|...+..+|.++||||+++ +.++++||++++++++|+++.++++..++.+++++ +. +.... ..+..++.|+||+.+
T Consensus 349 y~~~i~~~f~~~~IP~~i~~~~~~~~~p~i~~ila~L~l~~~~~~~e~~~rlL~~~l~~~~~~~~~~~~~i~~Len~~~~ 428 (1158)
T TIGR02773 349 YAKLVEAVFSDYEIPYFIDKKRSMTHHPLIEFIRSILEVIQKNWRYEPMFRYLKTGLLFNEFHFIDSAELIDLLENYVLE 428 (1158)
T ss_pred HHHHHHHHHHhCCCCeEEecCcccccCcHHHHHHHHHHHhhcCCCHHHHHHHHhcccccccccccccHHHHHHHHHHHHH
Confidence 9999999999999999998 68999999999999999999999999999999998 22 11111 125668999999999
Q ss_pred hccchHHHHhh--hhhcc----ccc---------hhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhc-----
Q 001127 701 RKCSFISAACD--IFGAK----ISG---------TFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMV----- 760 (1148)
Q Consensus 701 ~gi~~~~~~~~--~~~~~----~~~---------~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~----- 760 (1148)
+|++|...|.+ .|... +.. .........++.+..++..+.+.+....++.+++..+|+++
T Consensus 429 ~gi~g~~~w~~~~~w~~~~~~~l~~~~~~~~~~~~~~~~~n~~r~~~~~~l~~~~~~~~~~~~~~~~~~~L~~~l~~~~~ 508 (1158)
T TIGR02773 429 NGIKGKKRWWKEKWFSYRRFRGLSRKEAQTDEEREDQEQVNELREDIVDPLLTFEKQMKKAKTVKEFATALYEFLEELDL 508 (1158)
T ss_pred hCCCCeehhccCCCeeeecccccccccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHcCc
Confidence 99998634422 23211 000 00011122344667788888887777788999999999984
Q ss_pred HHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhh
Q 001127 761 PQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHF 840 (1148)
Q Consensus 761 ~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~ 840 (1148)
++.+..|...+...+....+.++.|+|+.++.+||++++.++++ .+++.+|.++|..++.+..
T Consensus 509 ~~~l~~w~~~~~~~g~~~~a~e~~qvw~~v~~lld~~~~~~g~e-----------------~~~l~~f~~~l~~gl~~~~ 571 (1158)
T TIGR02773 509 PDKLEKHRDYFDEDGRHEEAREYEQIWDAVIQLLDEMVEVLGNE-----------------EMDLNRFQEVIDIGLEQLE 571 (1158)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCC-----------------ccCHHHHHHHHHHHHhhCe
Confidence 33333333333333444467889999999999999999988765 7899999999999999888
Q ss_pred cccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCccc----------------ccHHHHHHHHHHH
Q 001127 841 RTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKG----------------TSVEEERRLLYVA 904 (1148)
Q Consensus 841 ~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e----------------~~l~EErrL~YVA 904 (1148)
++.+|++.|+|+|+|+|++||.+|++|||+|+|||+||.....+|++++.+ +...+|+++||+|
T Consensus 572 ~~~ip~~~d~V~v~~~~~~r~~~~k~v~vlG~ndg~~P~~~~~~~ll~d~er~~L~~~g~~l~~~~~~~~~~e~~~~y~a 651 (1158)
T TIGR02773 572 FSLIPPALDQVSVGTMDRAKSDNTKVIYLLGMNDGVMPARSKEEGILSDEERELLEQQGVELSPTSKIKIFDEQFLVYTA 651 (1158)
T ss_pred eCCCCCCcCEEEEeccccccccCcCEEEEeCCCCCcCCCCCCCCCCcCHHHHHHHHHCCCCCCCChHHHhhcCcHHHHHH
Confidence 899999999999999999999999999999999999999988888876432 4567899999999
Q ss_pred HhcccceEEEEEEeecccccccCCchhHHhhhhhhHHHHhhhhccccC---------CCchhhhhH--------------
Q 001127 905 MTRARKKLFILYVMMDANWQLLQPSRFLKEIPHHLREVQAEQSVQDQH---------ENIPEGTAQ-------------- 961 (1148)
Q Consensus 905 lTRAk~~L~LSy~~~d~~g~~~~PS~fl~~l~~~f~~~~~~~~~~~~~---------~~~~~~~~~-------------- 961 (1148)
+|||+++|||||+..+.+|++..||+||.+|..+||.+........+. .++..+...
T Consensus 652 lt~a~~~L~lSy~~~~~~g~~~~pS~~i~~l~~~fp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 731 (1158)
T TIGR02773 652 FTSASERLKISYPLADAEGKSLRPSIIIHRLKGLFPKLKESNLLYDPESDAEQLSYVSHKLPTLNELTSQLKKWKRGYPI 731 (1158)
T ss_pred hcCccceEEEEEECCCCCCCccCcCHHHHHHHHhCccccccccccCccchhhhhhHhcChHHHHHHHHHHHHHhhccCCc
Confidence 999999999999999999999999999999999998643221111000 011111111
Q ss_pred -----------------------hhhcCCCccCCCcCCCcccccccccCcccChhhhhHHhhChhhhHHHhhcCcc----
Q 001127 962 -----------------------FTINLPREENCCETDLVSTDFLNVQLSGAATESMELLEACNGNSFLRRFSVED---- 1014 (1148)
Q Consensus 962 -----------------------L~~~~~~~~p~~~~~~~~~~~L~~~~~~~SvSrlE~~~~CPf~~Fl~~~Gl~~---- 1014 (1148)
+..++.+.++...+++..++.|||+.+++|||+||+|++|||+||+ +|||++
T Consensus 732 ~~~w~~~~~~~~~~~~~~~~~~~~~~~l~~~n~~~~l~~~~~~~Lyg~~l~~SvS~le~~~~Cpf~~F~-~ygL~l~er~ 810 (1158)
T TIGR02773 732 IDVWWDVYQWYRENDKWKNGLEYVLSGLTYDNETKKLQEPKAKKLYGETIQASVSRLEKYNACPFAHFA-QYGLKLKERK 810 (1158)
T ss_pred cHHHHHHHHHHHhChhhHHHHHHHHHhhhccCCcccCCHHHHHHHhCCCcccChHHHHHHHhChHHHHH-HHhcCCCccc
Confidence 1233344455557778888999999999999999999999999999 999843
Q ss_pred -----cchhhhHHHHHHHHhhcC-----------CHHHHHHHHHHHHHH-------HHhhhhhhHHHHHHHHHHHhcc
Q 001127 1015 -----RSIISHLFHQWAKKKAFQ-----------EPKRLLNKVDFVIDE-------RLRVKKNKHKDVLRALKSCLSS 1069 (1148)
Q Consensus 1015 -----a~~iGtl~H~~le~~~~~-----------~~~~~~~~~~~~v~e-------~~~~s~~r~~~~~~~l~~~l~~ 1069 (1148)
++++|+++|++++.+... +.+++.+++++++++ .+..+++|++|+.++|++++..
T Consensus 811 ~~~l~~~~~G~~~H~~Le~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~rl~~~~~~ 888 (1158)
T TIGR02773 811 IYKLEAPDLGQIFHEALKEISDELKEEDLDWSDLTKEQCRALANEAVENLVPKIQHEILLSSKRYRYVQKRLKRIVTR 888 (1158)
T ss_pred ccCCChhhhHHHHHHHHHHHHHHHHHcCCChHhcCHHHHHHHHHHHHHHHHHHhhhhhhcCCHHHHHHHHHHHHHHHH
Confidence 789999999999987654 667788888887776 2447999999999999998864
No 2
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=100.00 E-value=3e-77 Score=766.30 Aligned_cols=713 Identities=11% Similarity=0.098 Sum_probs=575.0
Q ss_pred CCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHH
Q 001127 277 SPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLE 356 (1148)
Q Consensus 277 ~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~ 356 (1148)
+.++.+++.+|++.+++++.+|.+.++..+..+++|.+|.+|||+++++ |+... ..+++.++.|++++++..++
T Consensus 24 ~~~~~~~~lVPeq~tf~~E~~l~~~~~~~~~~~i~VlSF~RLA~~v~~e-g~~~~-----~~L~~~Gk~Mll~~il~e~~ 97 (1076)
T TIGR02774 24 AAGKRVFYIAPNSLSFEKERAVLEYLPQQASFSITVTRFAQMARYFVLN-DLPAK-----TTLDDIGLAMIFYRALAQLE 97 (1076)
T ss_pred hcCCCEEEEcCCcccHHHHHHHHhccccccEEEEEEeeeHHHHHHHHhc-CCCCC-----CcccHHHHHHHHHHHHHHcC
Confidence 3456788889999999999999999888889999999999999999999 65433 68999999999999999988
Q ss_pred -hhhHHHHhhhhccccccccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhHHH----H
Q 001127 357 -NEKILVVKRISTDMLTTDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIGDE----I 431 (1148)
Q Consensus 357 -~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~~~----~ 431 (1148)
+++ ..|....+ ++||.+.+.++++++|+++++|+++.++... .
T Consensus 98 ~~eL---------------~~f~~~~~-----------------~~GFi~~l~~~i~Elk~~~i~pe~L~~~~~~~Kl~D 145 (1076)
T TIGR02774 98 PGDL---------------KVYGRLKQ-----------------DPQFIQQLVELYKELQKSQLSILDLENLTSPDKRED 145 (1076)
T ss_pred hhhh---------------HHHHhhcC-----------------CccHHHHHHHHHHHHHHcCCCHHHHHHHhHHHhHHH
Confidence 676 66666655 7899999999999999999999999776532 2
Q ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcc---cHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEE
Q 001127 432 GAAILENYNGILRSCNALDYHDLISCSVKLLST---FPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIV 507 (1148)
Q Consensus 432 ~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~---~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lv 507 (1148)
.+.||+.|++++.++ ++|.+|++..+++.+.. ++.+.+. +|+|||||||||+|+.+|..|++ +.+++++
T Consensus 146 l~lIy~~f~~~l~~~-y~~~ed~L~~l~~~l~~~~~~~~l~~~------~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~ 218 (1076)
T TIGR02774 146 LLAIFEKVTAYLNQG-QYAQQSKLAHFIEAIESGKLDSDLKNT------VLVIDGFTRFSAEEEALVSLLHGKGVEIIIG 218 (1076)
T ss_pred HHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHhcccccHhhCCC------EEEEccCCCCCHHHHHHHHHHHHhCCEEEEE
Confidence 378999999999884 89999999999999986 4555444 99999999999999999999997 4579999
Q ss_pred cCCCCccc--ccCC-----CChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccCCCCcee
Q 001127 508 GDDDQSIF--SFNG-----ADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKI 580 (1148)
Q Consensus 508 GD~~QsIy--~frg-----a~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i 580 (1148)
+|.+|.+| +|++ +....+.++++.++. .......|||+++.|..+++.+... .+++..........+..|
T Consensus 219 l~~D~~~~~~~~~~~~LF~~s~~~L~~la~~~~i-~v~~~~~~~R~~~~L~~Le~~~~~~--~~~~~~~~~~~~~~~~~I 295 (1076)
T TIGR02774 219 AYASQKAYKSSFSEGNLYQASVKFLHDLAQKYQT-KAEFISSTHESKDSFDKLSRLLEAS--HDFSELALDLDDKDKDNL 295 (1076)
T ss_pred EEcCccccccCCCcccchHHHHHHHHHHHHHcCC-CcccCccccccCHHHHHHHHHHhhc--ccCCcccccCCCCCCCce
Confidence 99999987 4555 333445566666643 3334457899998888888744432 111222222222223459
Q ss_pred EEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHH
Q 001127 581 IIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIA 658 (1148)
Q Consensus 581 ~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~s 658 (1148)
.++.+.|..+|++.||++|++++++ |++|+||||++|+ ..|...+..+|.+++||||++ +.++++||+++++++
T Consensus 296 ~i~~a~n~~~Eve~va~~I~~lv~~----g~ry~DIaVl~rd~~~Y~~~i~~iF~~~~IP~fid~~~~~~~hPlv~~l~s 371 (1076)
T TIGR02774 296 TIWSCLTQKEEVEHVARSIRQKLYE----GYRYKDILVLLGDVDSYQLQLGKIFDQYDIPFYLGKAEPMAHHPLVQFIES 371 (1076)
T ss_pred EEEEcCCHHHHHHHHHHHHHHHHHc----CCChhheEEEcCCHHHHHHHHHHHHhhcCCCeEeCCcchhhhCcHHHHHHH
Confidence 9999999999999999999999987 8999999999999 778999999999999999998 689999999999999
Q ss_pred HHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHHhhhccchHHHHhhhhhccccchh-hhhhhHhhHHHHHHH
Q 001127 659 MLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKISTIRKCSFISAACDIFGAKISGTF-KRSQLTQGRKVLLTL 736 (1148)
Q Consensus 659 lL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~~~~gi~~~~~~~~~~~~~~~~~~-~~~~~~~~r~~~~~l 736 (1148)
+|+++..+|+++++++++|+ +.+ ....+.++.||||++++|++|.++|...|........ .......++.+.+++
T Consensus 372 ll~~~~~~~~~e~v~~~Lkt~l~~---~~~~e~id~lENyvl~~girG~~~w~~~w~~~~~~~~~~~~ln~iR~~v~~~l 448 (1076)
T TIGR02774 372 LERIKRYRFRAEDVLNLLKTGLYG---DFSQSDIDAFEQYIRYADIKGLPKFQKTFTKNHHGKFDLDRLNVLRQRILAPL 448 (1076)
T ss_pred HHHHhhcCCCHHHHHHHHccCCcC---CcCHHHHHHHHHHHHHhCCCCchhhCCccccchhhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999998 543 2224559999999999999998566666654311111 112234456788888
Q ss_pred HHHHHHHhhCCCHHHHHHHHHhhc-----HHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhcc
Q 001127 737 EMISKLVRREPSISAVITSVANMV-----PQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEE 811 (1148)
Q Consensus 737 ~~l~~~~~~~~~~~~~~~~l~~~~-----~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~ 811 (1148)
..|.+.++.. +++++.++|+++ ++++..+...+.+ . .++++.|+|+.++.+||++++++|++
T Consensus 449 ~~~~~~~~~~--~~e~~~~Ly~fL~~~~v~~~L~~~~~~~~~-~---~a~e~~QvW~~~~~lLD~~v~ilGde------- 515 (1076)
T TIGR02774 449 EELFKSRKQL--GEKLLNKFSVFLKEIALTKNLQDLATTLSE-V---EQEKQEEVWKTFTDILEQFATIFGQE------- 515 (1076)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHcChHHHHHHHHHHHHH-H---HHHHHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 8888877655 899999999994 4444333333322 1 56789999999999999999999987
Q ss_pred CCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCccc
Q 001127 812 GNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKG 891 (1148)
Q Consensus 812 ~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e 891 (1148)
.+++++|.++|.+|+.+..++.|||+.|+|+|+++.+++..+.|+||++|+|||+||.....+|+++|.+
T Consensus 516 ----------~l~l~ef~~lL~~Gl~~~~~~~IPptlDqV~v~~~~r~r~~~~K~~F~iG~ndg~~P~~~~~~gllsd~e 585 (1076)
T TIGR02774 516 ----------KLSLDDFLALLHSGMSLSQYRTVPATVDVVTVKSYDLIEPHTAPFVYAIGLTQSNFPKISQNSSLLTDEE 585 (1076)
T ss_pred ----------cCCHHHHHHHHHHHHHhCCcCCCCCCCCEEEEecccccccCCCCEEEEEeCCcCcCCCCCCCCCCCCHHH
Confidence 7999999999999999999999999999999999999999999999999999999999999999986543
Q ss_pred -------------------ccHHHHHHHHHHHHhcccceEEEEEEeecccccccCCchhHHhhhhhh-HHHHhhhhcc--
Q 001127 892 -------------------TSVEEERRLLYVAMTRARKKLFILYVMMDANWQLLQPSRFLKEIPHHL-REVQAEQSVQ-- 949 (1148)
Q Consensus 892 -------------------~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g~~~~PS~fl~~l~~~f-~~~~~~~~~~-- 949 (1148)
+++.+|++++|.|||+|+++||||||.+|.+|+.. ||+++.+|+++| |.+.......
T Consensus 586 R~~L~~~~~~~~~L~~~~~~~~~~E~f~~Y~a~t~ase~L~lSYp~~~~~g~~~-~S~~i~~l~~~f~p~~~~~~~~~~~ 664 (1076)
T TIGR02774 586 RQNLNDATEEGGHFDIASQENLKKNHYTMLSLFNSATKELVLSAPQLFNESEDK-ESPYLQELIDFGVPLREKGMNSLGE 664 (1076)
T ss_pred HHHHHhhccCCCccCchhHHHHhhchHHHHHHhccccceEEEEEEccCCCCCcC-CCHHHHHHHHHhCccccccccccch
Confidence 45668999999999999999999999999999999 999999999999 6532211100
Q ss_pred --ccCCCchhhhhH------------------------------------hhhcCCCccCCCcCCCccccccc--ccCcc
Q 001127 950 --DQHENIPEGTAQ------------------------------------FTINLPREENCCETDLVSTDFLN--VQLSG 989 (1148)
Q Consensus 950 --~~~~~~~~~~~~------------------------------------L~~~~~~~~p~~~~~~~~~~~L~--~~~~~ 989 (1148)
.....+..++.. +..++.+.+....+++...+.|| |++++
T Consensus 665 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~y~n~~~~l~~~~~~~Ly~~g~~l~ 744 (1076)
T TIGR02774 665 DKEDIGNYKALLSRVVAYNQQGEMEMTKQDLTFWSVLVRYLRKKLDQQGLEIPTITDSLSTKTLSKDVLQALYPADQPLK 744 (1076)
T ss_pred hHHHhcCHHHHHHHHHHHHHHhhccCCccchHHHHHHHHHHhChHHHHHHHHhhccccCCCCCCCHHHHHHHhcCCCcce
Confidence 000011111111 12333444555566777778999 88899
Q ss_pred cChhhhhHHhhChhhhHHHhhcCcc---------cchhhhHHHHHHHHhhcC-CHHHHHHHHHHHHHH-------HHh-h
Q 001127 990 AATESMELLEACNGNSFLRRFSVED---------RSIISHLFHQWAKKKAFQ-EPKRLLNKVDFVIDE-------RLR-V 1051 (1148)
Q Consensus 990 ~SvSrlE~~~~CPf~~Fl~~~Gl~~---------a~~iGtl~H~~le~~~~~-~~~~~~~~~~~~v~e-------~~~-~ 1051 (1148)
+|||+||+|.+|||+||+ +||++. ++++||+||+++|.+.+. +.+++.+.++++|++ ... .
T Consensus 745 ~SvS~le~~~~Cp~~~f~-~y~L~l~e~~~~~~~~~~~G~l~H~~le~~~~~~~~e~~~~~~~~~v~~~~~~~~~~~~~~ 823 (1076)
T TIGR02774 745 LSASALTTFYNNQYSYFL-RYVLGLEEEESIHPDARHHGNYLHRIFERLMKLPGEESFDQKLNQAINETSQEREFEALYQ 823 (1076)
T ss_pred ecHhHHHHHHhCcHHHHH-HHhcCCCCCCCCCCChHHhHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhhhhhhhhc
Confidence 999999999999999999 888742 689999999999999987 678888888888887 122 6
Q ss_pred hhhhHHHHHHHHHHHhcc
Q 001127 1052 KKNKHKDVLRALKSCLSS 1069 (1148)
Q Consensus 1052 s~~r~~~~~~~l~~~l~~ 1069 (1148)
+++|++|+.+++++++..
T Consensus 824 s~~r~~~~~~~l~~~~~~ 841 (1076)
T TIGR02774 824 EDAEARYTLEILLDIARS 841 (1076)
T ss_pred cCHHHHHHHHHHHHHHHH
Confidence 889999999888887664
No 3
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=100.00 E-value=8.7e-74 Score=717.90 Aligned_cols=612 Identities=29% Similarity=0.417 Sum_probs=468.2
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCce
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELT 311 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~ 311 (1148)
.||++|++||. ...++++|+|+||||| +..|++||++||||+||.+|++||.+.++.....++.
T Consensus 1 ~Ln~~Q~~av~-~~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~v~ 79 (664)
T TIGR01074 1 KLNPQQQEAVE-YVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGLT 79 (664)
T ss_pred CCCHHHHHHHh-CCCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCCeE
Confidence 48999999994 5689999999999999 4578999999999999999999999988766667899
Q ss_pred EechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHHHh
Q 001127 312 ISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAML 391 (1148)
Q Consensus 312 V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~ 391 (1148)
|+||||||+++++.++...+..+++.++++.+..+++.+++......
T Consensus 80 v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~--------------------------------- 126 (664)
T TIGR01074 80 ISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKD--------------------------------- 126 (664)
T ss_pred EEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhccc---------------------------------
Confidence 99999999999999888788888889999998888887766442211
Q ss_pred hhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH----HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHH
Q 001127 392 FFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG----DEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTFPE 467 (1148)
Q Consensus 392 ~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~----~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~ 467 (1148)
..++.+.+.+.+.++|..+++|+++.+.. ......+|..|++.+++++++||+|++..+..+|.+++.
T Consensus 127 --------~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~ 198 (664)
T TIGR01074 127 --------DKDLLDKLISTISNWKNDLLTPEQALASARGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEE 198 (664)
T ss_pred --------chhHHHHHHHHHHHHHHcCCCHHHHHHhccChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChH
Confidence 11244555666778999999999876542 234468999999999999999999999999999999999
Q ss_pred HHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCC
Q 001127 468 VFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRS 546 (1148)
Q Consensus 468 l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs 546 (1148)
+...++.+|++|+|||||||||+|+.+|..|++ +.++++|||++|+||+|||+++..|..+.+.++....+.|..||||
T Consensus 199 i~~~~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~vGD~~QsIY~frga~~~~~~~~~~~~~~~~~~~L~~NyRs 278 (664)
T TIGR01074 199 VRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRS 278 (664)
T ss_pred HHHHHHHhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEEEcCCcccccCCCCCCHHHHHHHHHhCCCCeEEECCCCCCC
Confidence 999999999999999999999999999999987 4689999999999999999999999999999987788899999999
Q ss_pred hhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcCh
Q 001127 547 TRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSG 626 (1148)
Q Consensus 547 ~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~ 626 (1148)
++.|++++|.++.++..... +........|..+.++.+.+..+|+++|+++|.+.... +|++|+|||||+|++.+.
T Consensus 279 ~~~Il~~~n~l~~~~~~~~~-~~~~~~~~~g~~v~~~~~~~~~~Ea~~ia~~I~~~~~~---~~~~~~diAVL~R~~~~~ 354 (664)
T TIGR01074 279 TGRILKAANILIANNPHVFE-KKLFSELGYGEKIKVIECNNEEHEAERIAGEIIAHKLV---NKTQYKDYAILYRGNHQS 354 (664)
T ss_pred hHHHHHHHHHHHhcCccccc-ccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHHHHc---CCCCcccEEEEEecCchH
Confidence 99999999998876553332 22222334455699999999999999999999864333 489999999999999999
Q ss_pred HHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhccch
Q 001127 627 KVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFLLLEKEEKKRVIDHIDKISTIRKCSF 705 (1148)
Q Consensus 627 ~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~~~~~~~~~~~id~Leny~~~~gi~~ 705 (1148)
..++.+|.++||||+++ +.+++++|+|+.++++|+++.++++..++.+++++...+ .....++.|++++.++++.+
T Consensus 355 ~~l~~~l~~~gIP~~~~~~~~~~~~~~v~~l~~~L~~~~~~~~~~~~~~lL~~p~~~---i~~~~~~~L~~~~~~~~~~~ 431 (664)
T TIGR01074 355 RLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSYLRLLVNPDDDAAFLRIVNTPKRE---IGPATLEKLGELAMERNKSL 431 (664)
T ss_pred HHHHHHHHHcCCCEEEeCCcccccCHHHHHHHHHHHHHcCCCcHHHHHHHhcCCCCC---CCHHHHHHHHHHHHHcCCCH
Confidence 99999999999999998 579999999999999999999999999999998873211 12344788999999999988
Q ss_pred HHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcH-HHHHHHHhhhcccccccccccch
Q 001127 706 ISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVP-QKYLLEQRAVVDFDGGKLLNEDN 784 (1148)
Q Consensus 706 ~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~-~~~l~~~~~~~~~~~~~~~~e~~ 784 (1148)
+.+..+.-. ...+..........+...+..+.... ....+.+.++.+++-+. ..++..+.. ....+.
T Consensus 432 ~~~~~~~~~---~~~l~~~~~~~l~~~~~~l~~~~~~~-~~~~~~~~l~~~~~~~~~~~~l~~~~~--------~~~~~~ 499 (664)
T TIGR01074 432 FTASFDMGL---LQTLSGRGYESLQRFTDWLVEIRRLA-ERSEPIEAVRSLIEDIDYENWLYETSP--------SPKAAE 499 (664)
T ss_pred HHHHHhhhh---ccccCHHHHHHHHHHHHHHHHHHHhc-ccCCHHHHHHHHHHHhhHHHHHHhhcc--------cchhHH
Confidence 766433210 00011000001112222222222211 11234444444443322 111211111 122456
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCC
Q 001127 785 DLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEW 864 (1148)
Q Consensus 785 q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~ 864 (1148)
+.|+.+..+++.+.+++... ..+...++.+|+..+..... ...+...++.|+|+|||+|+|||+||
T Consensus 500 ~~~~~l~~l~~~~~~~~~~~-------------~~~~~~~l~~f~~~l~~~~~-~~~~~~~~~~d~V~l~TiH~sKGLEf 565 (664)
T TIGR01074 500 MRMKNVNTLFSWFKEMLEGD-------------EEDEPMTLTQVVTRLTLRDM-LERGEDEEELDQVQLMTLHASKGLEF 565 (664)
T ss_pred HHHHHHHHHHHHHHHHHhcc-------------ccCcccCHHHHHHHHhcccc-ccccccccCCCeEEEEeeecccCccC
Confidence 77888888888887765321 00113478899888764211 11112236779999999999999999
Q ss_pred CEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEee-ccccc--ccCCchhHHhhhhhh
Q 001127 865 DIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMM-DANWQ--LLQPSRFLKEIPHHL 939 (1148)
Q Consensus 865 ~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~-d~~g~--~~~PS~fl~~l~~~f 939 (1148)
|+|||+|+++|+||..... ....++|||||||||||||+++|||||+.. +..|+ ...||+||.++...+
T Consensus 566 ~~Vfv~gl~eg~~P~~~~~------~~~~~~EErRlfYVA~TRAk~~L~Ls~~~~~~~~g~~~~~~pS~Fl~e~~~~~ 637 (664)
T TIGR01074 566 PYVFIVGMEEGILPHQSSI------EEDNVEEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLDELPQED 637 (664)
T ss_pred CeEEEeCCcCCCCCCcccc------ccchHHHHHHHHHHhhhhhhheeEEEehhhhhhcCCcCCCCCChhHHhhCHHH
Confidence 9999999999999975432 234689999999999999999999999975 33443 356999999997544
No 4
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=100.00 E-value=1.2e-73 Score=717.10 Aligned_cols=614 Identities=29% Similarity=0.455 Sum_probs=459.8
Q ss_pred HHHhhcCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcccc
Q 001127 242 SKYLQSLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKAT 306 (1148)
Q Consensus 242 ~~~~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~ 306 (1148)
..++..||++|++||. ...||++|+||||||| +.+|++||++||||+||.+|++|+.+.++..
T Consensus 4 ~~~l~~Ln~~Q~~av~-~~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~- 81 (721)
T PRK11773 4 SYLLDSLNDKQREAVA-APLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS- 81 (721)
T ss_pred HHHHHhcCHHHHHHHh-CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccC-
Confidence 3467789999999994 5689999999999999 5678999999999999999999999988743
Q ss_pred CCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHH
Q 001127 307 AKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFM 386 (1148)
Q Consensus 307 ~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~ 386 (1148)
..++.|+||||||+++|++++...++++++.+++..++..++++++..+.... ..|..
T Consensus 82 ~~~~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~---------------~~~~~------- 139 (721)
T PRK11773 82 QGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDE---------------KQWPP------- 139 (721)
T ss_pred CCCCEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCc---------------ccCCH-------
Confidence 45789999999999999999988899899999998888777777665432110 11110
Q ss_pred HHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH---HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhc
Q 001127 387 MNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG---DEIGAAILENYNGILRSCNALDYHDLISCSVKLLS 463 (1148)
Q Consensus 387 ~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~---~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~ 463 (1148)
..+...++.+|..+++++.+.... .+....+|+.|++.+++++.+||+|++..+.++|.
T Consensus 140 ------------------~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~ 201 (721)
T PRK11773 140 ------------------RQAQWYINGQKDEGLRPQHIQSYGDPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWL 201 (721)
T ss_pred ------------------HHHHHHHHHHHHcCCCHHHHHhccChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence 011233457778888888775432 23346899999999999999999999999999999
Q ss_pred ccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEecc
Q 001127 464 TFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTR 542 (1148)
Q Consensus 464 ~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~ 542 (1148)
++|.+...++.+|+||+||||||||+.|+.+|..|++ +.++++|||++|+||+|||+++..+..|.+.+++...+.|+.
T Consensus 202 ~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~dQsIY~fRGA~~~~~~~f~~~~~~~~~i~L~~ 281 (721)
T PRK11773 202 NKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQ 281 (721)
T ss_pred cCHHHHHHHHHhCCEEEEEchhcCCHHHHHHHHHHhCCCCeEEEEecCcccccccCCCChHHHHHHHHhCCCCeEEECCc
Confidence 9999999999999999999999999999999999986 568999999999999999999999999999998888899999
Q ss_pred CCCChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec
Q 001127 543 NYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR 622 (1148)
Q Consensus 543 nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~ 622 (1148)
||||++.|++++|.++.++..+.. +..+.....|..+.+..+.+..+|+.+|++.|.+++.+ |++|+|||||+|+
T Consensus 282 NyRSt~~Il~~an~li~~n~~r~~-k~~~~~~~~g~~v~~~~~~~~~~Ea~~ia~~I~~l~~~----g~~~~diAVL~R~ 356 (721)
T PRK11773 282 NYRSTANILKAANALIANNNGRLG-KELWTDGGDGEPISLYCAFNELDEARFVVERIKTWQDN----GGALSDCAILYRS 356 (721)
T ss_pred CCCCCHHHHHHHHHHHHhcccccC-cccccCCCCCCeeEEEeCCCHHHHHHHHHHHHHHHHHc----CCCcccEEEEEec
Confidence 999999999999999988765442 33344444566788888999999999999999999876 8999999999999
Q ss_pred CcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhh-hhhHHHHHHHHHHHHHHHhh
Q 001127 623 QVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFL-LLEKEEKKRVIDHIDKISTI 700 (1148)
Q Consensus 623 ~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~-~~~~~~~~~~id~Leny~~~ 700 (1148)
+.+...++.+|.++||||.+. +..++++++|+.++++|+++.++.|..++.++++... +... ..++.+..++..
T Consensus 357 ~~~~~~le~~L~~~gIPy~~~g~~~f~~~~eikd~la~Lr~~~np~d~~al~ril~~P~~gi~~----~~l~~l~~~a~~ 432 (721)
T PRK11773 357 NAQSRVLEEALLQAGIPYRIYGGMRFFERQEIKDALAYLRLIANRNDDAAFERVVNTPTRGIGD----RTLDVVRQTARD 432 (721)
T ss_pred chhHHHHHHHHHHCCCCEEEECCCCccccHHHHHHHHHHHHhcCCCcHHHHHHHhcCCCCCCCH----HHHHHHHHHHHH
Confidence 999999999999999999987 6799999999999999999999999999999887632 2222 235566666666
Q ss_pred hccchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhccccccccc
Q 001127 701 RKCSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLL 780 (1148)
Q Consensus 701 ~gi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~ 780 (1148)
.++..+..+...... ..+..........+...+..+..... ..++.++++.+++..... ..+... .+
T Consensus 433 ~~~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~i~~l~~~~~-~~~~~~~l~~i~~~~g~~--~~l~~~---~~---- 499 (721)
T PRK11773 433 RQLTLWQACRALLQE---KVLAGRAASALQRFIELIDALAQETA-DMPLHEQTDRVIKDSGLR--AMYEQE---KG---- 499 (721)
T ss_pred cCCCHHHHHHHhhhc---cccCHHHHHHHHHHHHHHHHHHHHhc-cCCHHHHHHHHHHhhhHH--HHHHhc---cc----
Confidence 676665554332110 00110111112233444444433222 235566666665543211 111100 00
Q ss_pred ccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEcccccc
Q 001127 781 NEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSK 860 (1148)
Q Consensus 781 ~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sK 860 (1148)
....+-++.+..+++.+.++.... ......++..|++.+....... ...+..|.|+|||+|+||
T Consensus 500 ~~~~~r~~nl~~l~~~~~~~~~~~-------------~~~~~~~l~~fL~~~~l~~~~~---~~~~~~~~V~LmTiH~AK 563 (721)
T PRK11773 500 EKGQARIENLEELVTATRQFSYPD-------------EDEDLTPLQAFLSHAALEAGEG---QADAHEDAVQLMTLHSAK 563 (721)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhcc-------------cccccchHHHHHHHHhcccccc---cccccCCceEEEechhcc
Confidence 011222333444544444442211 0001246888888875421111 112356889999999999
Q ss_pred CCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEeecc-cc--cccCCchhHHhhhh
Q 001127 861 GLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMMDA-NW--QLLQPSRFLKEIPH 937 (1148)
Q Consensus 861 GlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~-~g--~~~~PS~fl~~l~~ 937 (1148)
|||||+|||+|+++|.||..... +.+..++|||||||||||||+++|||||+.... .| +...||+||.+|..
T Consensus 564 GLEf~~Vfl~gl~eg~~P~~~~~-----~~~~~leEERRL~YVAiTRAk~~L~ls~~~~r~~~~~~~~~~pSrFl~ei~~ 638 (721)
T PRK11773 564 GLEFPLVFIVGMEEGLFPSQMSL-----EEGGRLEEERRLAYVGITRAMQKLTLTYAESRRLYGKEVYHRPSRFIREIPE 638 (721)
T ss_pred CCcCCEEEEeCCccCCCCCcccc-----ccchhhHHHHhHHHhhhhhhhheeEEEehhhhhhcCCCCCCCCCccHHHhCH
Confidence 99999999999999999975421 123468999999999999999999999986421 22 35679999999976
Q ss_pred hhH
Q 001127 938 HLR 940 (1148)
Q Consensus 938 ~f~ 940 (1148)
.+.
T Consensus 639 ~~~ 641 (721)
T PRK11773 639 ECV 641 (721)
T ss_pred HHh
Confidence 543
No 5
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=100.00 E-value=1.6e-72 Score=709.93 Aligned_cols=611 Identities=31% Similarity=0.466 Sum_probs=456.3
Q ss_pred hhcCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCC
Q 001127 245 LQSLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKE 309 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~ 309 (1148)
+..||++|++||. ...||++|+||||||| +..|++||++||||+||.+|++|+.+.++.. ..+
T Consensus 2 l~~Ln~~Q~~av~-~~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~-~~~ 79 (726)
T TIGR01073 2 LAHLNPEQREAVK-TTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPV-AED 79 (726)
T ss_pred ccccCHHHHHHHh-CCCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccc-cCC
Confidence 4579999999994 5689999999999999 4678999999999999999999999887753 567
Q ss_pred ceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHH
Q 001127 310 LTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNA 389 (1148)
Q Consensus 310 v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~ 389 (1148)
+.|+||||||+++|+.++...|...++.++++.++.+++.+++..+..+. ..|.
T Consensus 80 ~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~---------------~~~~----------- 133 (726)
T TIGR01073 80 IWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDP---------------KKFE----------- 133 (726)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCc---------------ccCC-----------
Confidence 89999999999999999988888889999999988888888775432221 1111
Q ss_pred HhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH----HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhccc
Q 001127 390 MLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG----DEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTF 465 (1148)
Q Consensus 390 ~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~----~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~ 465 (1148)
.+.+...++.+|+.+++++++.+.. .+....+|+.|++.+++++.+||+|++..+.++|.++
T Consensus 134 --------------~~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~ 199 (726)
T TIGR01073 134 --------------PRSILGTISNAKNELLPPEDFAKEATNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRV 199 (726)
T ss_pred --------------HHHHHHHHHHHHHcCCCHHHHHHhhcchHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcC
Confidence 0123344567888888888775432 2345789999999999999999999999999999999
Q ss_pred HHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCC
Q 001127 466 PEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNY 544 (1148)
Q Consensus 466 ~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~ny 544 (1148)
+.+...++.+|+||+||||||||+.|+.+|..|+. +.++++|||++|+||+|||+++..+..|.+.++....+.|+.||
T Consensus 200 ~~v~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~QsIY~fRgA~~~~~~~f~~~~~~~~~i~L~~Ny 279 (726)
T TIGR01073 200 PDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCVVGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNY 279 (726)
T ss_pred HHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCEEEEEeCCCccccccCCCChHHHHHHHHhCCCCeEEECccCC
Confidence 99999999999999999999999999999999987 46899999999999999999999999999999888889999999
Q ss_pred CChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCc
Q 001127 545 RSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQV 624 (1148)
Q Consensus 545 Rs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~ 624 (1148)
||++.|++++|.++.++..+.+ +.++.....|..+.++.+.+..+|+.+|++.|.+++.. .+++|+|||||+|++.
T Consensus 280 RS~~~Il~~an~li~~~~~r~~-~~l~~~~~~g~~v~~~~~~~~~~Ea~~ia~~I~~l~~~---~~~~~~diAVL~R~~~ 355 (726)
T TIGR01073 280 RSTKNILQAANEVIEHNSNRKP-KNLWTENSSGDKITYYEADTERDEAQFVAGEIDKLVKN---GERKYGDFAILYRTNA 355 (726)
T ss_pred CCCHHHHHHHHHHHHhcccccc-cccccCCCCCcceEEEeCCCHHHHHHHHHHHHHHHHHc---CCCCcCCEEEEEeCch
Confidence 9999999999999987754442 33344444566789999999999999999999999887 3589999999999999
Q ss_pred ChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhh-hhhHHHHHHHHHHHHHHHhhhc
Q 001127 625 SGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFL-LLEKEEKKRVIDHIDKISTIRK 702 (1148)
Q Consensus 625 ~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~-~~~~~~~~~~id~Leny~~~~g 702 (1148)
+...++..|.++||||.+. +..++++|+|+.++++|+++.++.|..++.++++... +.... .++.+..++...+
T Consensus 356 ~~~~l~~~L~~~gIP~~~~g~~~f~~r~eikdlla~Lr~~~np~d~~al~ril~~p~~gi~~~----~~~~l~~~~~~~~ 431 (726)
T TIGR01073 356 QSRVFEETLLKANIPYKIVGGLKFYDRKEIKDILAYLRVIANPDDDLSLLRIINVPKRGIGAS----SLEKIVNYALELN 431 (726)
T ss_pred hHHHHHHHHHHcCCCEEEeCCcccccCHHHHHHHHHHHHHhCCCchHHHHHHhCCCcCCCCHH----HHHHHHHHHHHcC
Confidence 9999999999999999987 6799999999999999999999999999999887632 33322 3455556665566
Q ss_pred cchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhccccccccccc
Q 001127 703 CSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNE 782 (1148)
Q Consensus 703 i~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e 782 (1148)
+..+.+..+.... +............+...+..+.... ...++.++++.+++...... .+..... .+
T Consensus 432 ~~l~~~l~~~~~~---~~l~~~~~~~l~~~~~~l~~~~~~~-~~~~~~~~l~~i~~~~g~~~------~l~~~~~---~~ 498 (726)
T TIGR01073 432 ISLFEAIGEIDEI---GGLAAKSANALLAFATMIENLRQQQ-EYLSPTELVEEVLDKSGYRE------MLKAEKT---EE 498 (726)
T ss_pred CCHHHHHHHhhhh---cccCHHHHHHHHHHHHHHHHHHHhh-ccCCHHHHHHHHHHhcChHH------HHHhccC---hh
Confidence 6655544321100 0000000111123333333333322 12345566666655422110 0000000 01
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCC
Q 001127 783 DNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGL 862 (1148)
Q Consensus 783 ~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGl 862 (1148)
..+-+.-+..+++.+.++-... ...++.+|++.+......... ......+.|+|||+|+||||
T Consensus 499 ~~~r~~nl~~l~~~~~~~~~~~----------------~~~~l~~fl~~~~l~~~~~~~-~~~~~~~~V~LmTiH~sKGL 561 (726)
T TIGR01073 499 AQSRLENLDEFLSVTKEFEDES----------------EDKSLIDFLTDLALVSDLDEL-EETEEGGAVTLMTLHAAKGL 561 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC----------------CcCCHHHHHHHHHhhcccccc-cccccCCceEEEeeeeccCc
Confidence 1112223333444444332110 124688888887653221111 11112488999999999999
Q ss_pred CCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEeec---ccccccCCchhHHhhhhhh
Q 001127 863 EWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMMD---ANWQLLQPSRFLKEIPHHL 939 (1148)
Q Consensus 863 E~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d---~~g~~~~PS~fl~~l~~~f 939 (1148)
|||+|||+|+++|.||..... ..+..++|||||||||||||+++|||||+... +..+...||+||.+++..+
T Consensus 562 Ef~vVfv~gl~eg~~P~~~~~-----~~~~~~eEERRL~YVAiTRAk~~L~ls~~~~r~~~~~~~~~~pSrFl~e~~~~~ 636 (726)
T TIGR01073 562 EFPVVFLIGMEEGVFPHSRSL-----MDEKELEEERRLAYVGITRAEEELYLTHATMRTLFGRIQMNPPSRFLNEIPAEL 636 (726)
T ss_pred cCCEEEEeCCcCCCCCccccc-----CCchhHHHHHhhHHhhhhhhhheEEEEehhhhhhcCCCCCCCCChhHHHhhHHH
Confidence 999999999999999975421 12346899999999999999999999998643 1223567999999997655
Q ss_pred H
Q 001127 940 R 940 (1148)
Q Consensus 940 ~ 940 (1148)
.
T Consensus 637 ~ 637 (726)
T TIGR01073 637 L 637 (726)
T ss_pred H
Confidence 3
No 6
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=100.00 E-value=3.1e-72 Score=695.81 Aligned_cols=609 Identities=28% Similarity=0.421 Sum_probs=439.2
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCce
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELT 311 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~ 311 (1148)
.||++|++||. ...||++|+||||||| +.+|++||++||||+||.+|++||.+.++.....++.
T Consensus 2 ~Ln~~Q~~av~-~~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v~ 80 (672)
T PRK10919 2 RLNPGQQQAVE-FVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGLM 80 (672)
T ss_pred CCCHHHHHHHh-CCCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccCcE
Confidence 58999999994 5689999999999999 4678999999999999999999999988754456789
Q ss_pred EechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHHHh
Q 001127 312 ISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAML 391 (1148)
Q Consensus 312 V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~ 391 (1148)
|+||||||+++++.++...|+.+++.++++.+...++.++........
T Consensus 81 i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~~~~~l~~~~~~~~~~~-------------------------------- 128 (672)
T PRK10919 81 ISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDD-------------------------------- 128 (672)
T ss_pred EEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHHHHHHHHHHHHHhcccc--------------------------------
Confidence 999999999999998888888888999998877666666553221110
Q ss_pred hhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH----HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHH
Q 001127 392 FFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG----DEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTFPE 467 (1148)
Q Consensus 392 ~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~----~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~ 467 (1148)
......+...++..+..+.+++.+.... ......+|..|++.+++.+.+||+|++..+..+|..+|.
T Consensus 129 ---------~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~ 199 (672)
T PRK10919 129 ---------KVLLQQLISTISNWKNDLKTPAQAAAGAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEE 199 (672)
T ss_pred ---------hHHHHHHHHHHHHHHHcCCCHHHHHHHhcchhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHH
Confidence 0011122233446667777777654321 234467999999999999999999999999999999999
Q ss_pred HHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCC
Q 001127 468 VFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRS 546 (1148)
Q Consensus 468 l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs 546 (1148)
+...++.+|+||+||||||+|+.|+.+|..|+. ++++++|||++|+||+|||+++..|..|.+.|++...+.|+.||||
T Consensus 200 ~~~~~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l~~VGD~~QsIY~frGA~~~~~~~f~~~~~~~~~~~L~~NyRs 279 (672)
T PRK10919 200 VRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRS 279 (672)
T ss_pred HHHHHHhcCCEEEEEchhcCCHHHHHHHHHHHcCCCEEEEEcCCcccccccCCCChHHHHHHHHhCCCCcEEECCCCCCC
Confidence 999999999999999999999999999999986 5689999999999999999999999999999988888999999999
Q ss_pred hhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcCh
Q 001127 547 TRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSG 626 (1148)
Q Consensus 547 ~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~ 626 (1148)
++.|++++|.++.++..+.. +......+.|..+.+..+.+..+|+.+|+..|...... +|++|+|||||+|++.+.
T Consensus 280 ~~~I~~~an~li~~n~~~~~-k~~~~~~~~g~~~~~~~~~~~~~ea~~i~~~i~~~~~~---~~~~~~diAVL~Rs~~~~ 355 (672)
T PRK10919 280 SGRILKAANILIANNPHVFE-KRLFSELGYGDELKVLSANNEEHEAERVTGELIAHHFV---NKTQYKDYAILYRGNHQS 355 (672)
T ss_pred cHHHHHHHHHHHhhCccccc-cccccCCCCCCceEEEcCCCHHHHHHHHHHHHHHHHHh---cCCCcCcEEEEEeCchhH
Confidence 99999999999988765442 23333344566788999999999999999988775433 489999999999999999
Q ss_pred HHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhh-hhhHHHHHHHHHHHHHHHhhhccc
Q 001127 627 KVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFL-LLEKEEKKRVIDHIDKISTIRKCS 704 (1148)
Q Consensus 627 ~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~-~~~~~~~~~~id~Leny~~~~gi~ 704 (1148)
..++..|.++||||.+. +.+++++|+|+.++++|+++.++.+..++.+++.... +... ..++.+..++...+..
T Consensus 356 ~~le~~L~~~gIP~~~~~~~~f~~~~ei~~ll~~Lr~~~~~~d~~a~~~il~~p~~gi~~----~~~~~l~~~~~~~~~~ 431 (672)
T PRK10919 356 RVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGP----ATLQKLGEWAMTRNKS 431 (672)
T ss_pred HHHHHHHHHcCCCEEEeCCcchhcCHHHHHHHHHHHHhcCCCCHHHHHHHHcCCCCCCCH----HHHHHHHHHHHHcCCC
Confidence 99999999999999997 5789999999999999999999999999988887632 2222 2344555555555555
Q ss_pred hHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHh-hcHHHHHHHHhhhcccccccccccc
Q 001127 705 FISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVAN-MVPQKYLLEQRAVVDFDGGKLLNED 783 (1148)
Q Consensus 705 ~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~-~~~~~~l~~~~~~~~~~~~~~~~e~ 783 (1148)
.+.+..+.- ....+..........+...+..+...... ... ..+..+.+ .....++..... .....
T Consensus 432 l~~~~~~~~---~~~~~~~~~~~~l~~~~~~l~~l~~~~~~-~~~-~~i~~~~~~~~~~~~l~~~~~--------~~~~~ 498 (672)
T PRK10919 432 LFTASFDMG---LSQTLSGRGYESLTRFTHWLAEIQRLAER-EPV-AAVRDLIHGIDYESWLYETSP--------SPKAA 498 (672)
T ss_pred HHHHHHhhc---cccccCHHHHHHHHHHHHHHHHHHHHhhc-cHH-HHHHHHHHHcChHHHHHHhcc--------CchhH
Confidence 544432210 00001111111122333334444332211 111 12222211 111122111000 00011
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCC
Q 001127 784 NDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLE 863 (1148)
Q Consensus 784 ~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE 863 (1148)
..-+..+..+++.+.++.... + .....++..|++.+...... ..+...+..|+|+|||+|+|||||
T Consensus 499 ~~r~~~l~~l~~~~~~~~~~~------------~-~~~~~~l~~fl~~~~l~~~~-~~~~~~~~~~~V~L~TiH~sKGLE 564 (672)
T PRK10919 499 EMRMKNVNQLFSWMTEMLEGS------------E-LDEPMTLTQVVTRFTLRDMM-ERGESEEELDQVQLMTLHASKGLE 564 (672)
T ss_pred HHHHHHHHHHHHHHHHHhhcc------------c-ccccccHHHHHHHHHhhccc-ccccccccCCcEEEEeeecccCcC
Confidence 122333333444433332110 0 00123788888777532110 001112356889999999999999
Q ss_pred CCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEeecc-cc--cccCCchhHHhhhhh
Q 001127 864 WDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMMDA-NW--QLLQPSRFLKEIPHH 938 (1148)
Q Consensus 864 ~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~-~g--~~~~PS~fl~~l~~~ 938 (1148)
||+|||+|+++|.||..... .+..++|||||||||||||+++|||||+.... .| +...||+||.++...
T Consensus 565 f~~Vfi~gl~eg~~P~~~~~------~~~~leEERRLfYVA~TRAk~~L~Ls~~~~~~~~~~~~~~~pSrFl~e~~~~ 636 (672)
T PRK10919 565 FPYVYLVGMEEGLLPHQSSI------DEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQD 636 (672)
T ss_pred CCEEEEeCCcCCCCCCcccC------CcccHHHHHHHHHHhHhhhhhheEEeehhhhhhcCCcCCCCCCcChhhCCHH
Confidence 99999999999999975422 23569999999999999999999999986431 22 346799999999654
No 7
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=100.00 E-value=3.2e-72 Score=705.35 Aligned_cols=611 Identities=29% Similarity=0.454 Sum_probs=452.1
Q ss_pred hhcCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCC
Q 001127 245 LQSLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKE 309 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~ 309 (1148)
+..||++|++||. ...+|++|+||||||| +.+|++||++||||+||.+|++||.+.++.. ..+
T Consensus 2 l~~Ln~~Q~~av~-~~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~-~~~ 79 (715)
T TIGR01075 2 LDGLNDKQREAVA-APPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTS-ARG 79 (715)
T ss_pred ccccCHHHHHHHc-CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhccc-ccC
Confidence 4679999999994 5689999999999999 4678999999999999999999999988753 457
Q ss_pred ceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHH
Q 001127 310 LTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNA 389 (1148)
Q Consensus 310 v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~ 389 (1148)
+.|+||||||+++|++++...++++++.+++..++..++++++..+.... ..|.
T Consensus 80 ~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~---------------~~~~----------- 133 (715)
T TIGR01075 80 MWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDE---------------KQWP----------- 133 (715)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCc---------------ccCC-----------
Confidence 89999999999999999988899999999998877766766654322110 0110
Q ss_pred HhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH---HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccH
Q 001127 390 MLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG---DEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTFP 466 (1148)
Q Consensus 390 ~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~---~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~ 466 (1148)
...+...++.+|..+++|+.+.... .+....+|+.|++.+++++.+||+|++..+.++|.+++
T Consensus 134 --------------~~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~ 199 (715)
T TIGR01075 134 --------------PRQAMWYINNQKDEGLRPSHIQAFDNPVERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKP 199 (715)
T ss_pred --------------HHHHHHHHHHHHHCCCCHHHHHhccChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCH
Confidence 0112234557888888888775432 23346899999999999999999999999999999999
Q ss_pred HHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCC
Q 001127 467 EVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYR 545 (1148)
Q Consensus 467 ~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyR 545 (1148)
.+...++.+|+||+||||||||+.|+.+|+.|++ ++++++|||++|+||+|||+++..+..|.+.++....+.|+.|||
T Consensus 200 ~~~~~~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~QsIY~fRGA~~~~i~~f~~~~~~~~~~~L~~NyR 279 (715)
T TIGR01075 200 HILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMIVGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYR 279 (715)
T ss_pred HHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEEEeCCcccccccCCCCHHHHHHHHHhCCCCeEEECcccCC
Confidence 9999999999999999999999999999999986 568999999999999999999999999999998888899999999
Q ss_pred ChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcC
Q 001127 546 STRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVS 625 (1148)
Q Consensus 546 s~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~ 625 (1148)
|++.|++++|.++.++..+.. +..+.....|..+.++.+.+..+|+.+|++.|.+++.. |++|+|||||+|++.+
T Consensus 280 S~~~Il~~an~li~~~~~r~~-~~~~~~~~~g~~i~~~~~~~~~~Ea~~ia~~I~~l~~~----g~~~~diAVL~R~~~~ 354 (715)
T TIGR01075 280 STANILAAANALIANNDERLG-KNLWTDGEVGEPISLYSAFNELDEARFVVSRIKTWQRN----GGALDECAVLYRSNAQ 354 (715)
T ss_pred CCHHHHHHHHHHHHhcccccc-ccccCCCCCCCceEEEeCCCHHHHHHHHHHHHHHHHHc----CCCccCEEEEEecCch
Confidence 999999999999988755442 23334444556688888999999999999999999887 8999999999999999
Q ss_pred hHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhh-hhhHHHHHHHHHHHHHHHhhhcc
Q 001127 626 GKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFL-LLEKEEKKRVIDHIDKISTIRKC 703 (1148)
Q Consensus 626 ~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~-~~~~~~~~~~id~Leny~~~~gi 703 (1148)
...++.+|.++||||.+. +..+++.++|+.++++|+++.++.|..++.+++.... +.... .++.+..++...++
T Consensus 355 ~~~le~~L~~~gIPy~~~g~~~f~~~~ei~dll~~Lr~~~np~d~~~l~ril~~p~~gi~~~----~l~~l~~~~~~~~~ 430 (715)
T TIGR01075 355 SRVLEEALLQASIPYRIYGGMRFFERQEIKDALAYLRLIANRNDDAAFERVINTPTRGIGDR----TLDVVRQAARDRGL 430 (715)
T ss_pred HHHHHHHHHHcCCCEEEeCCccccccHHHHHHHHHHHHhcCcCcHHHHHHHhcCCcCCCCHH----HHHHHHHHHHHcCC
Confidence 999999999999999997 6789999999999999999999999999999887632 23222 34555555555666
Q ss_pred chHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccccccccc
Q 001127 704 SFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNED 783 (1148)
Q Consensus 704 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~ 783 (1148)
..+..+...... .............+...+..+..... ..++.++++.+++.... ...+.... . ...
T Consensus 431 ~~~~~~~~~~~~---~~~~~~~~~~l~~f~~~i~~l~~~~~-~~~~~~~l~~i~~~~~~--~~~~~~~~---~----~~~ 497 (715)
T TIGR01075 431 TLWQAARELTQE---KVLAGRAASALQRFVELIEALANETA-DMPLHVQTDHVIKDSGL--REMYQQEK---G----EKG 497 (715)
T ss_pred CHHHHHHHhhhc---cccCHHHHHHHHHHHHHHHHHHHHhh-cCCHHHHHHHHHHHhCH--HHHHHhcc---C----hhH
Confidence 655544331100 00000011112233344444433221 23455566666543221 11111100 0 011
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCC
Q 001127 784 NDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLE 863 (1148)
Q Consensus 784 ~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE 863 (1148)
.+-+.-+..+++.+.++.... ..+...++..|++.+...... ....+..|.|+|||+|+|||||
T Consensus 498 ~~r~~nl~~l~~~~~~~~~~~-------------~~~~~~~l~~fl~~~~l~~~~---~~~~~~~~~V~lmTiH~sKGLE 561 (715)
T TIGR01075 498 QARIENLEELVTATRQFSLPE-------------NDEDMTPLTAFLSHAALEAGE---GQADAGQDAVQLMTLHSAKGLE 561 (715)
T ss_pred HHHHHHHHHHHHHHHHHhhcc-------------cccchhhHHHHHHHHHhhccc---ccccccCCcEEEEEeeeccCCc
Confidence 112223334444444432100 000023677888776432111 1112345889999999999999
Q ss_pred CCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEeecc-cc--cccCCchhHHhhhhhhH
Q 001127 864 WDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMMDA-NW--QLLQPSRFLKEIPHHLR 940 (1148)
Q Consensus 864 ~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~-~g--~~~~PS~fl~~l~~~f~ 940 (1148)
||+|||+|+++|.||..... +.+..++|||||||||||||+++|||||+.... .| ....||+||.++...+.
T Consensus 562 f~~Vfl~gl~eg~~P~~~~~-----~~~~~leEERRL~YVAiTRAk~~L~ls~~~~r~~~~~~~~~~pSrFl~e~~~~~~ 636 (715)
T TIGR01075 562 FPLVFLVGMEEGMFPSQMSL-----DEGGRLEEERRLAYVGITRAMQKLTITYAETRRLYGKEVYHIPSRFIRELPEECL 636 (715)
T ss_pred CCEEEEeCCcCCCCCCcccc-----CccccHHHHHhHHhhhhhhhhhheEEEecchhhcCCcCCCCCCCccHHHhhHHHh
Confidence 99999999999999975421 123468999999999999999999999986321 22 34679999999976553
No 8
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.7e-72 Score=672.25 Aligned_cols=741 Identities=14% Similarity=0.156 Sum_probs=568.9
Q ss_pred EEEecCCCCC----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHHHHHHHHHHHHhcCCC
Q 001127 265 LIVAGPGSGK----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFSLQLCRSHAEKLERTS 334 (1148)
Q Consensus 265 lI~G~AGSGK----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~ 334 (1148)
+|.|.+|||| ....++.++..+|++.++++++.+...++..+..++.|.+|.++|++|+.+.|+...
T Consensus 5 ~lyg~~gtgkT~~l~~e~~~~~~~gkpviyIvP~q~sFe~E~~~L~~~~~~g~~~i~V~~F~rLa~~i~~e~g~~Sk--- 81 (1108)
T COG3857 5 LLYGRAGTGKTEILTEEIQEELEKGKPVIYIVPSQMSFEKEKEILERLRQGGSFRIQVTRFKRLAYYILQETGGPSK--- 81 (1108)
T ss_pred eehhhccccHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHHhCcccCCeeeEEEEEHHHHHHHHHHhcCCcch---
Confidence 6789999999 223348899999999999999999999998889999999999999999999876544
Q ss_pred CceecChHHHHHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHH
Q 001127 335 EFLIYGHGQQRRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVA 414 (1148)
Q Consensus 335 ~~~i~~~~~~~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~ 414 (1148)
..+++.+..|++++++....+++ +.|....+ ..||.+.+.++..++
T Consensus 82 --~~L~~~g~~Mlfyk~l~e~k~~l---------------~vy~~~~~-----------------~~gF~~~l~el~~E~ 127 (1108)
T COG3857 82 --THLGDTGLSMLFYKILEELKKEL---------------KVYGSLAD-----------------KSGFIEQLAELYTEF 127 (1108)
T ss_pred --hhhhhhhHHHHHHHHHHHhHHHH---------------HHHHhhhc-----------------chhHHHHHHHHHHHH
Confidence 67899999999999998886665 44444443 668999999999999
Q ss_pred HHcCCCHHHHHhhHHH-------HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHHHHHHhccCcCEEEEecCccC
Q 001127 415 KASGKTPAEFRKIGDE-------IGAAILENYNGILRSCNALDYHDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDT 487 (1148)
Q Consensus 415 k~~~~~~e~l~~~~~~-------~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDf 487 (1148)
|++++++++++..... -...+|+++...+.. ++++++|-+..+++.+..++.+... +|+||||.+|
T Consensus 128 Kk~~lsve~L~~~~~~~~~~kl~dl~liyee~~~~l~~-~~l~~ed~l~~lad~~~~s~~L~~~------~IvIDGFt~F 200 (1108)
T COG3857 128 KKYQLSVEDLEDTADEQSLKKLHDLSLIYEEFEANLYN-NYLDPEDSLSRLADKIKKSEQLKQA------AIVIDGFTRF 200 (1108)
T ss_pred HHhcCCHHHHhcccchhhhhhhhhHHHHHHHHHHHHHh-ccCChHHHHHHHHHhcccchhhccc------eEEEeccccC
Confidence 9999999999755321 235678888777655 6999999999999999888888666 9999999999
Q ss_pred CHHHHHHHHHHHcCC-cEEEEcCCCCcccccCCCC-------hHHHHHHHHhcCCc-eEEE-eccCCC---ChhHHHHHH
Q 001127 488 SAMQYSLLQILASHN-RITIVGDDDQSIFSFNGAD-------ISGFDSFRKDFLNY-KEIR-LTRNYR---STRCIVEAA 554 (1148)
Q Consensus 488 tp~q~~lL~~L~~~~-~l~lvGD~~QsIy~frga~-------~~lf~~l~~~~~~~-~~~~-L~~nyR---s~~~I~~~a 554 (1148)
||+|+.+|..|.+++ ++++.--.++.-|.-...+ ...+.++.+..... ..+. -+.+++ ..+.+..+.
T Consensus 201 S~~E~~vIe~L~~~~~~v~I~lt~d~~~y~~~~~~~~if~~s~~~l~~L~~~a~~~~i~~~~~~~~~~~~~~~~~L~~l~ 280 (1108)
T COG3857 201 SPEEYRVIELLMKKCARVTIGLTADKKAYTKGSEEGNIFRASKKTLFRLLSKAEELNISIEQYNEVLYKFTKLQDLAHLE 280 (1108)
T ss_pred CHHHHHHHHHHHhcCceEEEEEecCchhhccCcccchHHHHhHHHHHHHHHHhhcccccchHHHHHHHhhhcchhHHHHH
Confidence 999999999999866 3333322222222211111 22222333322110 0000 011111 112222222
Q ss_pred HhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHH
Q 001127 555 SSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAF 633 (1148)
Q Consensus 555 n~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L 633 (1148)
+.+ ...++......++.+.++.|.|.++|++.||+.|+..+++ |++|+|||||+++ .+|...+..+|
T Consensus 281 ~~~--------~~~~~~~~~~~~~~i~I~qa~n~keEiEgvAr~Irq~i~e----g~rYkDiaIL~gD~~aYe~~l~~If 348 (1108)
T COG3857 281 NDF--------DQLPIEIYAKDADHISIWQASNQKEEIEGVAREIRQKIRE----GYRYKDIAILLGDPAAYELTLKEIF 348 (1108)
T ss_pred hhh--------hhccchhhccCccceehHhhhchHHHHHHHHHHHHHHhhc----CCccceeeeeeCChHHHHHHHHHHH
Confidence 222 1223333344556799999999999999999999999987 9999999999999 99999999999
Q ss_pred HHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHh--hhhhHHHHHHHHHHHHHHHhhhccchHHHHh
Q 001127 634 RERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAF--LLLEKEEKKRVIDHIDKISTIRKCSFISAAC 710 (1148)
Q Consensus 634 ~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L--~~~~~~~~~~~id~Leny~~~~gi~~~~~~~ 710 (1148)
..|+|||+++ +++|.+||++++|.++|++...+|.++++.+++|+. ++... .+.+|.+|||++++||.|...|.
T Consensus 349 ~~y~IP~fidk~~sM~~HPli~fi~Sll~~~~~NW~~e~vl~llKt~~~f~~~~---~~~iD~lEnYvl~~GI~G~~kw~ 425 (1108)
T COG3857 349 KLYEIPFFIDKKRSMADHPLIEFIESLLDIKRYNWRYEPVLNLLKTDVLFDSNE---SEDIDLLENYVLAAGIKGKKKWT 425 (1108)
T ss_pred HHcCCCeeecccchhhhCcHHHHHHHHHHHHHhccchhHHHHHHHhcccccccc---hHHHHHHHHHHHHhccccchhhh
Confidence 9999999999 589999999999999999999999999999999993 22211 16799999999999999998888
Q ss_pred hhhhccccch-hhhhhhH-hhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHH----HHHHhhhcccc-cccccccc
Q 001127 711 DIFGAKISGT-FKRSQLT-QGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKY----LLEQRAVVDFD-GGKLLNED 783 (1148)
Q Consensus 711 ~~~~~~~~~~-~~~~~~~-~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~----l~~~~~~~~~~-~~~~~~e~ 783 (1148)
+.|....-+. .....++ .+..++.+|..|.+ +.+++++.+++.+++.++.+.. +..++..++.. ....+.++
T Consensus 426 k~f~~~~~~~~~~~~~lne~r~~il~pL~~l~~-~sr~kt~~~~~~al~~~Le~~~v~e~l~~~~~e~~~~g~~~~a~~~ 504 (1108)
T COG3857 426 KLFTYEHFRKIENLERLNETRLDILHPLETLLK-MSRAKTVKELAQALYEFLEEGRVPEQLQTERQEAELNGRHVEAEEH 504 (1108)
T ss_pred hHhhHHHhhchhhHHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhHHHHHHH
Confidence 8775443222 2222222 33467788888888 7788999999999999854322 23333333333 33468899
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCC
Q 001127 784 NDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLE 863 (1148)
Q Consensus 784 ~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE 863 (1148)
.|+|+.+..++++++++++++ .+++..|.++|..|+....++.+|++.|+|.|+|++.+|...
T Consensus 505 ~qvW~~~ielLeefv~vfg~e-----------------~l~l~~Fleil~~Gle~~kf~~iP~tlDqV~I~s~dlv~~~~ 567 (1108)
T COG3857 505 EQVWNALIELLEEFVEVFGDE-----------------KLSLELFLEILHIGLESLKFRLIPATLDQVSIGSYDLVKPHT 567 (1108)
T ss_pred HHHHHHHHHHHHHHHHHhccC-----------------cccHHHHHHHHHHhhhhceeeecCCccceEEeechhhccccc
Confidence 999999999999999999887 799999999999999999999999999999999999999999
Q ss_pred CCEEEEeecCCCCCccccccCCccCccc----------------ccHHHHHHHHHHHHhcccceEEEEEEeecccccccC
Q 001127 864 WDIVFVAKANETEIPLVHEFNGAVNEKG----------------TSVEEERRLLYVAMTRARKKLFILYVMMDANWQLLQ 927 (1148)
Q Consensus 864 ~~~VfV~Glneg~~P~~~~~~g~l~d~e----------------~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g~~~~ 927 (1148)
-++||++|+|+|+||+.+...|+++|.+ ..+.+++++.|++||+|++.|++|||.++.+|
T Consensus 568 ~~~vYaiGmndg~fP~~~~~sglLSDedR~~ln~~~v~l~~~s~~n~~~~~f~~y~~~~~a~~~L~lSyp~~~~eg---- 643 (1108)
T COG3857 568 KKFVYAIGMNDGVFPAPHKNSGLLSDEDREYLNQITVELSIASKENLKKNQFTVYSLVNSAKEELVLSYPIADNEG---- 643 (1108)
T ss_pred CCeEEEEecCCCCCCCcccccCccchHHHHHHHhcccccCcchhhHHHhhhHHHHHHHhccCCcEEEEeehhhccC----
Confidence 9999999999999999999999998876 45779999999999999999999999999998
Q ss_pred CchhHHhhhhhhHHHHhhhhccccC-----C------Cchhhh----hHhh-----------------------------
Q 001127 928 PSRFLKEIPHHLREVQAEQSVQDQH-----E------NIPEGT----AQFT----------------------------- 963 (1148)
Q Consensus 928 PS~fl~~l~~~f~~~~~~~~~~~~~-----~------~~~~~~----~~L~----------------------------- 963 (1148)
||+++..+...|++.. .....+.. . +...+. .++.
T Consensus 644 ~s~~~~~~~~lf~~~~-~~~~~d~~~~~~~e~~~~i~~~~a~~s~l~~~~r~~~~~~~~~~~w~~vyr~l~k~~~~~~~~ 722 (1108)
T COG3857 644 ESPILNPVEQLFPNFG-QLPLLDIEQNNDEESLSLIGNYKATLSLLVSILRQEKDEEQVSDFWWDVYRVLSKSDHNQGLE 722 (1108)
T ss_pred cchhhchhHHhhcccc-cccccchhhhcchhhHHHHhhhHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHhhhhhhhhhh
Confidence 9999999999998554 22222111 0 000111 1110
Q ss_pred ---hcCCCccCCCcCCCcccccccccCcccChhhhhHHhhChhhhHHHhhcCcc---------cchhhhHHHHHHHHhhc
Q 001127 964 ---INLPREENCCETDLVSTDFLNVQLSGAATESMELLEACNGNSFLRRFSVED---------RSIISHLFHQWAKKKAF 1031 (1148)
Q Consensus 964 ---~~~~~~~p~~~~~~~~~~~L~~~~~~~SvSrlE~~~~CPf~~Fl~~~Gl~~---------a~~iGtl~H~~le~~~~ 1031 (1148)
..+...+..-.++.+....+||..+++||||||+|++|||+||+ +||+.+ ++|+|++||.|+++++.
T Consensus 723 ~~~s~l~~~net~~l~e~~~~~lyG~~l~~SVSrlE~f~~Cpf~yf~-~ygL~Lker~~~~l~~~dlG~~fH~v~e~i~e 801 (1108)
T COG3857 723 NPLSALSFDNETLKLGEETALQLYGEELYLSVSRLEKFYRCPFSYFL-EYGLGLKERKDIHLDARDLGNFFHRVFERISE 801 (1108)
T ss_pred hhhhhhcccccchhhhhHHHhhhcCCceEeehHHHHHHHcCcHHHHH-HHhhcccceeccCCCchhHHHHHHHHHHHHHH
Confidence 00011111114456667789999999999999999999999999 888833 99999999999999887
Q ss_pred C-----------CHHHHHHHHHHHHHH-------HHhhhhhhHHHHHHHHHHHhccchhhhHHHHHHhhccCChhh
Q 001127 1032 Q-----------EPKRLLNKVDFVIDE-------RLRVKKNKHKDVLRALKSCLSSNEAFHYAEYVLRWEKIPADQ 1089 (1148)
Q Consensus 1032 ~-----------~~~~~~~~~~~~v~e-------~~~~s~~r~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~ 1089 (1148)
. +.+.|..+...+++. .+-+|++||+|+..+|..+++. .+--.+|.+..|+=.|-+.
T Consensus 802 ~~~~~~~d~~~l~~~~~~~l~~~i~~~~~~~~~~~il~ss~r~~y~~~kL~~Ivr~-t~~iL~e~~~~~~f~pi~~ 876 (1108)
T COG3857 802 EENLENQDWNFLNEEDCERLTQKIVEVLLEKEQEQILLSSARYEYTLEKLEDIVRR-TATILAEQAKFSDFEPIGE 876 (1108)
T ss_pred hhhhccCCcccccHHHHHHHHHHHHHHhhHHHHHHHHhhhHHHHHHHHHHHHHHHH-HHHHHHhccccccceechh
Confidence 6 556677777666665 2449999999999999999986 2334556666666666543
No 9
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.3e-60 Score=598.28 Aligned_cols=612 Identities=32% Similarity=0.482 Sum_probs=449.1
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCce
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELT 311 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~ 311 (1148)
.||++|++|| ....||++|+||||||| ++.|++||++||||+||.+|++|+.+.++......+.
T Consensus 2 ~Ln~~Q~~av-~~~~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~~~ 80 (655)
T COG0210 2 KLNPEQREAV-LHPDGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEGLT 80 (655)
T ss_pred CCCHHHHHHH-hcCCCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccCcE
Confidence 6899999999 45689999999999999 5789999999999999999999999998743333489
Q ss_pred EechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHH-HhhhHHHHhhhhccccccccchhhhHHHHHHHHHH
Q 001127 312 ISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLL-ENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAM 390 (1148)
Q Consensus 312 V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~-~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~ 390 (1148)
|+|||++|.++++.++...+...++.+++..+....++.+.... .-+. ..
T Consensus 81 v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~---------------~~-------------- 131 (655)
T COG0210 81 VGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDD---------------KE-------------- 131 (655)
T ss_pred EeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhccccc---------------cc--------------
Confidence 99999999999999999999899999999988877776655422 0000 00
Q ss_pred hhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHH--------hhHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhh
Q 001127 391 LFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFR--------KIGDEIGAAILENYNGILRSCNALDYHDLISCSVKLL 462 (1148)
Q Consensus 391 ~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~--------~~~~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL 462 (1148)
.-...+...++..|..+..+.... .........+|..|++.+...+.+||+|++..++.++
T Consensus 132 -----------~~~~~~~~~i~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~ 200 (655)
T COG0210 132 -----------LLPREALRYISEAKNALLSPLEASALLLAAIKSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLL 200 (655)
T ss_pred -----------ccHHHHHHHHHHHHhhCCChhhhhhhhhhccccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 001112334557777777776554 1223556789999999999999999999999999999
Q ss_pred cccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHcC-CcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEec
Q 001127 463 STFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILASH-NRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLT 541 (1148)
Q Consensus 463 ~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~~-~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~ 541 (1148)
..+|.+...++.+|+||+||||||+++.|+.+|+.|+.. .++++|||++|+||+|||+++..+..|.++|+....+.|.
T Consensus 201 ~~~~~v~~~~~~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQsIY~frGA~~~ni~~f~~df~~~~~i~Le 280 (655)
T COG0210 201 EENPEVLEALQARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQSIYGFRGADPENILDFEKDFPAAKVIKLE 280 (655)
T ss_pred hcCHHHHHHHHhhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCccccceeCCCChHHHHHHHhhCCCCcEEEec
Confidence 999999999999999999999999999999999999984 7899999999999999999999999999999988899999
Q ss_pred cCCCChhHHHHHHHhhhhhhhhhccccccccc-CCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCC-CCCCcEEEE
Q 001127 542 RNYRSTRCIVEAASSLIQHNVKRCQLKNVQTD-NSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASI-CSYGSIAIL 619 (1148)
Q Consensus 542 ~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~-~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g-~~~~DIAVL 619 (1148)
.||||++.|+.++|.++.++..+. .+.++.. ...+..+.+..+.+..+|+.+|+..|.+++.. | ..++||||+
T Consensus 281 ~NyRSt~~Il~~An~~i~~n~~r~-~k~l~~~~~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~----~~~~~~d~aiL 355 (655)
T COG0210 281 QNYRSTPNILAAANKVIANNKKRQ-AKTLRTEVEGSGEKVVLLLANDEEDEARWIASEIDALIEI----GKVNYSDIAIL 355 (655)
T ss_pred CCCCCcHHHHHHHHHHHhcCCccC-CCcceeccCCCCCCceEEeCCChHHHHHHHHHHHHHHHHc----CCCChhhEEEE
Confidence 999999999999999999766555 4556666 67778899999999999999999999999887 5 899999999
Q ss_pred EecCcChHHHHHHHHHCCCCeEEc--CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 001127 620 YRRQVSGKVFQTAFRERKIPFNIH--GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFLLLEKEEKKRVIDHIDKI 697 (1148)
Q Consensus 620 ~r~~~~~~~l~~~L~~~gIP~~i~--~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~~~~~~~~~~~id~Leny 697 (1148)
+|.+.+...++..|...+|||.+. +..+++.++++.+++++++..++.+..++.+++.... ..........+..+
T Consensus 356 ~R~n~~s~~~e~~l~~~~ipy~i~~gg~~f~~r~eikd~l~~l~~~~n~~~~~~~~r~~~~~~---r~ig~~~~~~~~~~ 432 (655)
T COG0210 356 YRTNAQSRLIEEALRAAGIPYRIVIGGTSFFERKEIKDLLAYLRLVLNPDDDAAFLRILNLPK---RGIGDATLKKLLEL 432 (655)
T ss_pred EecCcchHHHHHHHHHcCCCeEEecCCcccccHHHHHHHHHHHHHhcCcccHHHHHHHhcccc---cCcchHHHHHHHHH
Confidence 999999999999999999999986 4789999999999999999999988788888876422 11222334555566
Q ss_pred HhhhccchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccc
Q 001127 698 STIRKCSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGG 777 (1148)
Q Consensus 698 ~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~ 777 (1148)
+...++..+..+.+.... ..+..........+...+..+....... ....+...+.+..... ..... .+
T Consensus 433 ~~~~~~~~~~~l~~~~~~---~~l~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~~----~~- 501 (655)
T COG0210 433 ARERNLSLLEALKALLSF---IRLSERGLALLLDFAELIEELREAILLS-TALELIRELLEALGYL--EALLE----AG- 501 (655)
T ss_pred HHhcCCcHHHHHHhhHhc---ccccHHHHHHHHHHHHHHHHHHHhcccC-CHHHHHHHHHHHcCHH--HHHHh----cc-
Confidence 666666654444443221 0111111111222333333333222111 2333333332221110 00000 00
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccc
Q 001127 778 KLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIH 857 (1148)
Q Consensus 778 ~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih 857 (1148)
..........-+..+.+.+..|... ..++..|+..+............ ...++|++||+|
T Consensus 502 -~~~~~~~~~~nl~~l~~~~~~~~~~------------------~~~l~~fl~~~~~~~~~~~~~~~-~~~~~V~lmT~H 561 (655)
T COG0210 502 -SLVAAEDRLENLEELLDVLKRYAEP------------------RESLRAFLSELSLLANDEEEEEP-DEDGQVNLMTIH 561 (655)
T ss_pred -chhhHHHHHhhHHHHHHHHHHhhcc------------------cchHHHHHHHHHhhccccccccc-CCCCceEEEech
Confidence 0001111112222233333333211 24677888777655332211111 122789999999
Q ss_pred cccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEeecc---cccccCCchhHHh
Q 001127 858 QSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVMMDA---NWQLLQPSRFLKE 934 (1148)
Q Consensus 858 ~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~---~g~~~~PS~fl~~ 934 (1148)
+|||+|||+|||+|+++|.||+... +.+....++|||||+|||+|||++.||+||+.... ......||+|+.+
T Consensus 562 ~aKGlEf~~Vfl~g~~eg~~P~~~~----~~~~~~~~eEERRL~YVaiTRA~~~L~~t~~~~~~~~~~~~~~~~srFi~e 637 (655)
T COG0210 562 AAKGLEFPYVFLVGLEEGLFPADRS----LDEGDEPLEEERRLLYVAITRAKKKLYLTYAASRKLWGKEVEEEPSRFVSE 637 (655)
T ss_pred hccCCCCCeEEEecccCCCCCChhh----cccCCCCccHHHHHHHHHHHHHHHhhhhhHHHHHHhcCccccCCcchHHHH
Confidence 9999999999999999999998721 11111148899999999999999999999986432 2224589999999
Q ss_pred hhhhhHHH
Q 001127 935 IPHHLREV 942 (1148)
Q Consensus 935 l~~~f~~~ 942 (1148)
++......
T Consensus 638 ~~~~~~~~ 645 (655)
T COG0210 638 LPAEDLLL 645 (655)
T ss_pred hhHHHHhh
Confidence 98766544
No 10
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=100.00 E-value=1.2e-56 Score=587.71 Aligned_cols=633 Identities=25% Similarity=0.343 Sum_probs=401.2
Q ss_pred CCHHHHHHhccCCCCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc--------
Q 001127 248 LNDQQLEAACGDMSTPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIVGKA-------- 305 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~-------- 305 (1148)
+|++|++||. ..+++++|.|+||||| +..+++||++||||.||.+|++||.+.+...
T Consensus 2 ~t~~Q~~ai~-~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~~~p~~~ 80 (1232)
T TIGR02785 2 WTDEQWQAIY-TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQKALQQEPNSK 80 (1232)
T ss_pred CCHHHHHHHh-CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHHHHhcCchhH
Confidence 6899999994 5678899999999999 4466889999999999999999999876531
Q ss_pred -------cCCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhh------HHH---Hhhhhc-
Q 001127 306 -------TAKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEK------ILV---VKRIST- 368 (1148)
Q Consensus 306 -------~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~------~~~---~~~~~~- 368 (1148)
....+.|+||||||.+++++++..++++|.|.+.++.+...+..++++.+-.+. ... ...+..
T Consensus 81 ~L~~q~~~~~~~~i~Tihsf~~~~~~~~~~~l~ldP~F~i~de~e~~ll~~e~~~~~~e~~y~~~d~~~f~~l~~~f~~~ 160 (1232)
T TIGR02785 81 HLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLIKEVVDDVFEEEYYKEDNEGFFELTDNFSGD 160 (1232)
T ss_pred HHHHHHhhccCCeEeeHHHHHHHHHHHhhhhcCCCCCceeCCHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC
Confidence 235689999999999999999999999999999998877666666655433321 100 000000
Q ss_pred -----------cc-------------ccc-ccc-------------hhhhHHHHH-----HH-----HHHhhhh------
Q 001127 369 -----------DM-------------LTT-DGH-------------FGYMRASLF-----MM-----NAMLFFS------ 394 (1148)
Q Consensus 369 -----------d~-------------l~~-~~~-------------f~~~~~~~~-----~~-----~~~~~~~------ 394 (1148)
++ +.. ... |........ .. .+.....
T Consensus 161 ~~d~~l~~~i~~ly~~~~s~p~p~~wL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (1232)
T TIGR02785 161 RSDDGLRDLILKLYDFARSTPNPEKWLNNLAEAYEVKEDFTIESKKLQQQIKDLLKNELEGLQEKLQKALELFMAEDGLA 240 (1232)
T ss_pred CCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchH
Confidence 00 000 000 000000000 00 0000000
Q ss_pred -----h-------hhh-----HHhhhHHHHHhhHHHH--HHc-----------------------------------CCC
Q 001127 395 -----M-------SSF-----KLCQYNKFERDGMDVA--KAS-----------------------------------GKT 420 (1148)
Q Consensus 395 -----~-------~~~-----~~~~f~~~l~~~i~~~--k~~-----------------------------------~~~ 420 (1148)
+ ... ....|..... .+..+ +.. ..+
T Consensus 241 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~k~lr~~~k~~~~~l~~~~~~~~ 319 (1232)
T TIGR02785 241 PKLENFQLELQNIGELIQESLAQADWNELRE-AVALFKFENLKAAKNAEEKADLKEEADKLREEAKKQIAKLKTDYFARD 319 (1232)
T ss_pred HHHHHHHHHHHHHHHHHhccccccCHHHHHH-HHHhcCccccCCCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 0 000 0001111000 00000 000 000
Q ss_pred HHHHHhhH----------HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccH----HHHHHhccCcCEEEEecCcc
Q 001127 421 PAEFRKIG----------DEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTFP----EVFQEYQDSWKAIIVDEFQD 486 (1148)
Q Consensus 421 ~e~l~~~~----------~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~----~l~~~l~~~fd~IiIDEfQD 486 (1148)
++.+.+.. ..+...+++.|++.+++++.+||+|++..+.++|.+++ .+...++.+|++|+||||||
T Consensus 320 ~~~~~~~~~~~~~~~~~L~~l~~~~~~~y~~~K~~~~~lDF~DL~~~a~~lL~~~~~~~~~v~~~l~~rf~~ILVDEfQD 399 (1232)
T TIGR02785 320 EEDYLRIMQELKPIVKALAQLVKDFIEAFGAEKREKNVLDFSDLEHYALQILSNENESPSEAAEFYREKFKEVLVDEYQD 399 (1232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHhCCCEEEEECCcC
Confidence 01110000 01225678999999999999999999999999998776 88999999999999999999
Q ss_pred CCHHHHHHHHHHHcC----CcEEEEcCCCCcccccCCCChHHHHHHHHhcCC-----ceEEEeccCCCChhHHHHHHHhh
Q 001127 487 TSAMQYSLLQILASH----NRITIVGDDDQSIFSFNGADISGFDSFRKDFLN-----YKEIRLTRNYRSTRCIVEAASSL 557 (1148)
Q Consensus 487 ftp~q~~lL~~L~~~----~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~-----~~~~~L~~nyRs~~~I~~~an~l 557 (1148)
+|+.|+.||..|++. +++++|||++|+||+||||++.+|..+.+.|+. ...+.|..||||++.|++++|.+
T Consensus 400 Tn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQSIY~FRGAdp~lf~~~~~~f~~~~~~~~~~i~L~~NfRS~~~Il~~~N~l 479 (1232)
T TIGR02785 400 TNLLQESILQLLKRGEEDEGNLFMVGDVKQSIYRFRQADPSLFLEKYHRFAQEGNEHGKRIDLAENFRSRKEVLDTTNYL 479 (1232)
T ss_pred CCHHHHHHHHHHhccCCCCCeEEEEcCCcchhhhhcCCChHHHHHHHHHhhhhccCCceEEECCcCCCCcHHHHHHHHHH
Confidence 999999999999873 689999999999999999999999988777753 46789999999999999999999
Q ss_pred hhhhhhh------ccc--------ccccccCCCCceeEEe------------------cCCCHHHHHHHHHHHHHHHhhc
Q 001127 558 IQHNVKR------CQL--------KNVQTDNSHGSKIIIK------------------ECHNEDAQCAFIIDKILEHASN 605 (1148)
Q Consensus 558 l~~~~~~------~~~--------~~~~~~~~~g~~i~l~------------------~~~~~~~E~~~Va~~I~~Lv~~ 605 (1148)
+...... +.. .........+..+.++ ...+...|+.+||+.|++++.+
T Consensus 480 F~~~~~~~~~~i~Y~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~EA~~IA~~I~~l~~~ 559 (1232)
T TIGR02785 480 FKQLMDEEVGEIDYDEEAQLKFGNAKYPENPDNKTELLLYEKLAIEEEEEEEIDEEEEILDKAQQEATMVAERIKALIKE 559 (1232)
T ss_pred HHHhccccccCcCcchhhhhccccccCCCCCCCCceeEEeecccccccccccccccccccchhHHHHHHHHHHHHHHHhc
Confidence 8764211 000 0001000011111111 1233467899999999999876
Q ss_pred C---------CCCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHH
Q 001127 606 G---------PASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRV 675 (1148)
Q Consensus 606 ~---------~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~l 675 (1148)
+ ..+|++|+|||||+|++.....+..+|.++||||.+. +..+++.|+|..++++|+++.+|.+..++.++
T Consensus 560 g~~v~d~~~~~~r~~~~~DIAIL~Rs~~~~~~i~~aL~~~GIP~~~~~~~~~f~~~EV~~llalLr~i~nP~dd~~l~~v 639 (1232)
T TIGR02785 560 GFKVYDKKTGEYRPVTYRDIVILTRSRGWNLQIMEEFKKYGIPVFVNDAENYFQTTEVRVMLSLLRVIDNPYQDIPLVAV 639 (1232)
T ss_pred CCccccccccccCCCCcCCEEEEEeccccHHHHHHHHHHcCCCEEEeCCcchhhCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence 2 1146899999999999999999999999999999997 67899999999999999999999999999998
Q ss_pred HHH-hhhhhHHHHHHHHHHHHHHHhhhccchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHH
Q 001127 676 FKA-FLLLEKEEKKRVIDHIDKISTIRKCSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVIT 754 (1148)
Q Consensus 676 lk~-L~~~~~~~~~~~id~Leny~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~ 754 (1148)
+++ ++++..... ..+... ..+..++.......... .............+...+..++... ...++.++++
T Consensus 640 L~sP~~gl~~~~L----~~l~~~--~~~~~~~~al~~~~~~~--~~~~~~~~~~l~~f~~~L~~~r~~~-~~~~~~~li~ 710 (1232)
T TIGR02785 640 LRSPIVGFDEEEL----ALIRLQ--NKDSSFYEAVKSYVKAQ--KLIEDELYEKLKNFLDSLQKWREFA-RTHSISELIW 710 (1232)
T ss_pred HcCCCCCCCHHHH----HHHHHh--CCCCCHHHHHHHHHhcc--ccccHHHHHHHHHHHHHHHHHHHHh-hhCCHHHHHH
Confidence 887 333433331 111110 01222222221110000 0000000011123344444444432 2345667777
Q ss_pred HHHhhcHHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHh
Q 001127 755 SVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISE 834 (1148)
Q Consensus 755 ~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~ 834 (1148)
.+++..... ....... ...+...-+..+++.+.+|-... ..++..|+++++.
T Consensus 711 ~i~~~~g~~---~~l~~~~--------~g~~r~anL~~L~e~a~~~e~~~-----------------~~~L~~Fl~~l~~ 762 (1232)
T TIGR02785 711 KIYNDTGYY---DYVGGLP--------NGKQRQANLYALYERARQYEKTS-----------------FKGLFQFIRFIER 762 (1232)
T ss_pred HHHHhcCHH---HHHhhCc--------cchHHHHHHHHHHHHHHHHHhcC-----------------cccHHHHHHHHHH
Confidence 766543211 1111000 01122233444555555543211 3578889998876
Q ss_pred hhhh-hhcc---cCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCccc-------cccCCccC---------------
Q 001127 835 RETE-HFRT---QRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIPLV-------HEFNGAVN--------------- 888 (1148)
Q Consensus 835 ~~~~-~~~~---~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~-------~~~~g~l~--------------- 888 (1148)
.... ...+ ..++..|.|+|||||+|||||||+|||+|++.+.-+.. +...|+-.
T Consensus 763 ~~~~~~d~~~a~~~~~~~daV~IMTIHkSKGLEFPvVfl~~l~~~fn~~d~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~ 842 (1232)
T TIGR02785 763 MQERQKDLASAVAVGEAENAVRLMTIHKSKGLEFPVVFVLGMGKQFNKQDLNSSYLLNRQLGLGITYIDPQERLSYPSLP 842 (1232)
T ss_pred HHhcccccccccccCCCCCeEEEEeeecccCCCCCEEEEeCCCCCCCccccccceEeccccCCCCceecchhccCCCcHH
Confidence 4321 1111 12345689999999999999999999999986532211 11112100
Q ss_pred -------cccccHHHHHHHHHHHHhcccceEEEEEEee
Q 001127 889 -------EKGTSVEEERRLLYVAMTRARKKLFILYVMM 919 (1148)
Q Consensus 889 -------d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~ 919 (1148)
...+.+.||+|++|||||||+++|||+.+..
T Consensus 843 ~~~~~~~~~~e~~~Ee~RlLYVAlTRAke~Lil~g~~~ 880 (1232)
T TIGR02785 843 KVAIKQKMKRELLSEEMRVLYVALTRAKEKLILVGSVK 880 (1232)
T ss_pred HHHHHHHHHHHHHHHHHhHHHhhhhhhhheEEEEecHH
Confidence 0114568999999999999999999998753
No 11
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=100.00 E-value=1.4e-52 Score=550.64 Aligned_cols=437 Identities=24% Similarity=0.304 Sum_probs=287.4
Q ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccH---HHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc---------
Q 001127 433 AAILENYNGILRSCNALDYHDLISCSVKLLSTFP---EVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS--------- 500 (1148)
Q Consensus 433 ~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~---~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~--------- 500 (1148)
..+++.|++.+++++.+||+|++..+..+|.+.+ ++...+..+|+||+||||||||+.||.||..|+.
T Consensus 346 ~~~~~~y~~~K~~~~~lDF~Dli~~a~~lL~~~~~~~~v~~~l~~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~ 425 (1141)
T TIGR02784 346 ARLLQRYDRLKKARGLLDFNDLIERTVALLARPGAGAWVHYKLDRGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGAR 425 (1141)
T ss_pred HHHHHHHHHHHHHCCCcCHHHHHHHHHHHHcCCCchHHHHHHHHcCCCEEEEECCcCCCHHHHHHHHHHHHhhccccccc
Confidence 4678999999999999999999999999997543 4777888999999999999999999999999975
Q ss_pred ---CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCC--------ceEEEeccCCCChhHHHHHHHhhhhhhhhhcccc-
Q 001127 501 ---HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLN--------YKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLK- 568 (1148)
Q Consensus 501 ---~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~--------~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~- 568 (1148)
..++++|||++|+||+|||+++.+|..+.+.++. ...+.|+.||||++.|++++|.+|.++.......
T Consensus 426 ~~~~~~lf~VGD~kQSIY~FRGAd~~~f~~~~~~~~~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~ 505 (1141)
T TIGR02784 426 SGVERTIFAVGDEKQSIYSFQGADPDRFAEERREFNRKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSA 505 (1141)
T ss_pred CCCCCeEEEEeCCcccCccccCCCHHHHHHHHHHHHHhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCC
Confidence 3579999999999999999999999988766531 2568999999999999999999997743211000
Q ss_pred -----cccc-cCCCCceeEEecCC----------------------CHHHHHHHHHHHHHHHhhcCC------CCCCCCC
Q 001127 569 -----NVQT-DNSHGSKIIIKECH----------------------NEDAQCAFIIDKILEHASNGP------ASICSYG 614 (1148)
Q Consensus 569 -----~~~~-~~~~g~~i~l~~~~----------------------~~~~E~~~Va~~I~~Lv~~~~------~~g~~~~ 614 (1148)
.... .....+.+.++... ....|+++|++.|++++..+. .+.++|+
T Consensus 506 ~~~~~~~~~~~~~~~g~v~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~ 585 (1141)
T TIGR02784 506 DSDLVVHEAIRSDLPGEVELWDLISPEEGEDPEDWTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPG 585 (1141)
T ss_pred cchhhcccccccCCCCceEEEeccCccccccccccccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCC
Confidence 0000 00111124433210 112478999999999987621 1237899
Q ss_pred cEEEEEecCcC-hHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHh-hhhhHHHHHHHH
Q 001127 615 SIAILYRRQVS-GKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAF-LLLEKEEKKRVI 691 (1148)
Q Consensus 615 DIAVL~r~~~~-~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L-~~~~~~~~~~~i 691 (1148)
|||||+|++.. ...+...|.++||||... +..++++++|+.++++|+++.++.|..++.+++++. ++..... +
T Consensus 586 DIAILvRs~~~~~~~i~~aL~~~gIP~~~~~~~~l~~~~eV~dllalLr~l~~p~D~~al~~vL~sp~~gl~~~~----L 661 (1141)
T TIGR02784 586 DILVLVRKRDAFVSALIRALKRRGIPVAGADRLKLTSHIAVQDLMALGRFVLQPEDDLSLAALLKSPLFGLDEED----L 661 (1141)
T ss_pred cEEEEEeCCchhHHHHHHHHHHCCCCEEEcCCccccccHHHHHHHHHHHHHhCcCccHHHHHHHhCcccCCCHHH----H
Confidence 99999999887 589999999999999876 578999999999999999999999999999999873 3333222 1
Q ss_pred HHHHHHHhhhccchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhh
Q 001127 692 DHIDKISTIRKCSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAV 771 (1148)
Q Consensus 692 d~Leny~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~ 771 (1148)
..+. .....+..++..+.... .....+...+..+.... ...++.+++..++...... ...
T Consensus 662 ~~l~-~~~~~~~~l~~~l~~~~-------------~~~~~~~~~L~~~~~~~-~~~~~~~~l~~il~~~~~~-----~~~ 721 (1141)
T TIGR02784 662 FALA-AGRSGGESLWARLRRRA-------------AEFAEALAVLDAWRSLA-DFITPFEFYARLLGGDGGR-----RKL 721 (1141)
T ss_pred HHHH-hhcccCchHHHHHHHHH-------------HHHHHHHHHHHHHHHHh-ccCCHHHHHHHHHcCCcHH-----HHH
Confidence 1111 00001112222211100 00112222233332221 1223444444433221100 000
Q ss_pred cccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcE
Q 001127 772 VDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSV 851 (1148)
Q Consensus 772 ~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V 851 (1148)
... ........+..+++.+.+|-.. + ..++..|+.++........ ...++..|.|
T Consensus 722 ~~~-------~~~~~~~~l~~ll~~a~~~e~~----------------~-~~~l~~Fl~~l~~~~~~~~-~~~~~~~daV 776 (1141)
T TIGR02784 722 LAR-------LGAEAEDILDEFLSFALALERT----------------G-LPGLQAFLSTLEAADPEIK-REMDQRRDEV 776 (1141)
T ss_pred Hhh-------cchhhHHHHHHHHHHHHHHHhc----------------C-CCcHHHHHHHHHhcCcccc-ccccCCCCeE
Confidence 000 0001122333344444433211 1 3589999999986532211 1123467899
Q ss_pred EEEccccccCCCCCEEEEeecCCCCCcccc-------ccCCc-------c-C----------------cccccHHHHHHH
Q 001127 852 TLTTIHQSKGLEWDIVFVAKANETEIPLVH-------EFNGA-------V-N----------------EKGTSVEEERRL 900 (1148)
Q Consensus 852 ~V~Tih~sKGlE~~~VfV~Glneg~~P~~~-------~~~g~-------l-~----------------d~e~~l~EErrL 900 (1148)
+|||||+|||||||+|||+|++.+.++... ...|. + . .......|++||
T Consensus 777 ~ImTIH~SKGLEfpvV~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~RL 856 (1141)
T TIGR02784 777 RVMTVHGAKGLEAPVVFLVDTGSAPFASQHAPKLLFTGGSGEASDGKAPLWRPPSAFDPALSAAARERLKERAEDEYRRL 856 (1141)
T ss_pred EEEeccccCCCCCCEEEEeCCCCCCCCccccccccccccCCCccccccccccccccCCCHHHHHHHHHHHHHHHHHHhhH
Confidence 999999999999999999999654333211 00010 0 0 012457899999
Q ss_pred HHHHHhcccceEEEEEEe
Q 001127 901 LYVAMTRARKKLFILYVM 918 (1148)
Q Consensus 901 ~YVAlTRAk~~L~LSy~~ 918 (1148)
+|||||||+++|||+...
T Consensus 857 LYVAlTRA~~~L~l~g~~ 874 (1141)
T TIGR02784 857 LYVAMTRAEDRLIVCGYR 874 (1141)
T ss_pred HHHhhhhhhheeEEEeec
Confidence 999999999999998754
No 12
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.8e-51 Score=531.67 Aligned_cols=591 Identities=20% Similarity=0.273 Sum_probs=359.8
Q ss_pred cCCCCCEEEEecCCCCC--------------C--CCCCCEEEEeccHHHHHHHHHHHHhhhccc----------------
Q 001127 258 GDMSTPLLIVAGPGSGK--------------G--ISPSNILAMTFTTAAASEMRDRIGSIVGKA---------------- 305 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK--------------~--~~~~~ILvltft~~Aa~ei~~RL~~~l~~~---------------- 305 (1148)
.+..|..+|.|+||||| + ..+++|||+||||+|+.+|++||.+.+...
T Consensus 6 ~pl~G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~rL~~~~~~~~~~~~~d~~~~~ 85 (1087)
T TIGR00609 6 IPLNGTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRGRIHQALRALKAALTSQELPEP 85 (1087)
T ss_pred cCCCCCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHHHHHHHHHHHhcccCCCHHHHH
Confidence 46688999999999999 2 567999999999999999999998754110
Q ss_pred ----------------------cCCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHHHHHHHHHhhhHHHH
Q 001127 306 ----------------------TAKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAIIEAVRLLENEKILVV 363 (1148)
Q Consensus 306 ----------------------~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~~il~~~~~~~~~~~ 363 (1148)
......|.|+|+||.++|++++...+...+..++.+... ++.++....-.......
T Consensus 86 l~~~~~~~~~~~~~~~L~~A~~~~D~aaI~TiHgFc~r~L~e~af~sg~~~~~~l~~d~~~--l~~~~v~d~wr~~~~~~ 163 (1087)
T TIGR00609 86 LKEAIQDEKVKQAITRLRNALATMDEAAIYTIHGFCQRMLEQHAFESDEIFDVELIEDESL--LLAEITKDFWRRNFYNL 163 (1087)
T ss_pred HHHhccccchHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHcchhhCCcchhhhhcChHH--HHHHHHHHHHHHHhcCC
Confidence 013478999999999999999998888777777665432 34444443211100000
Q ss_pred -hhhhccccccccchhhhHHHHHH-HHHHhh------hh---hhhhHHhhhHHHHHhhHHHHH-----------HcCCCH
Q 001127 364 -KRISTDMLTTDGHFGYMRASLFM-MNAMLF------FS---MSSFKLCQYNKFERDGMDVAK-----------ASGKTP 421 (1148)
Q Consensus 364 -~~~~~d~l~~~~~f~~~~~~~~~-~~~~~~------~~---~~~~~~~~f~~~l~~~i~~~k-----------~~~~~~ 421 (1148)
......++ ..+.. ...... ...... +. ........|.......+.+++ ......
T Consensus 164 ~~~~~~~~~---~~~~~-p~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (1087)
T TIGR00609 164 PFDIAQIVL---KTKKS-PQAVLTQILADLLLQSYLAFPSPPLDLEQLIKWHEQIYKDLDKLDHAVFEEIDKLNAERNNL 239 (1087)
T ss_pred CHHHHHHHH---HhhcC-HHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHhccchhHHHHHHHHHhhhhh
Confidence 00000000 00000 000000 000000 00 000001111111110010000 000000
Q ss_pred HHHH-hhHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhccc--HHHHHHhccCcCEEEEecCccCCHHHHHHHHHH
Q 001127 422 AEFR-KIGDEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTF--PEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQIL 498 (1148)
Q Consensus 422 e~l~-~~~~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~--~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L 498 (1148)
..+. .........+++.|++.+++++.+||+|++..+.++|.+. +.+...++.+|++|+|||||||+|.|+.|+..|
T Consensus 240 ~~~~~~~~~~~~~~v~~~~~~~K~~~~~ldFdDLl~~a~~lL~~~~~~~l~~~lr~ry~~vLVDEFQDTd~~Q~~il~~L 319 (1087)
T TIGR00609 240 FCLKDRVFLTLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEKLAQAIREQYPIALIDEFQDTDPQQYRIFSKL 319 (1087)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccchHHHHHHHHhCCCEEEEECCcCCCHHHHHHHHHH
Confidence 0000 1112334678899999999999999999999999999765 889999999999999999999999999999999
Q ss_pred HcCC---cEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhc----cccccc
Q 001127 499 ASHN---RITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRC----QLKNVQ 571 (1148)
Q Consensus 499 ~~~~---~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~----~~~~~~ 571 (1148)
.... ++++||||+|+||+|||+++..|..+.+.++ ..+.|.+||||++.|++++|.++....... +..++.
T Consensus 320 ~~~~~~~~L~~VGDpKQSIY~FRGAD~~~~~~~~~~~~--~~~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~ 397 (1087)
T TIGR00609 320 FIAQKTTSLFLIGDPKQAIYSFRGADIFTYLQAKSKAD--ARYTLGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVL 397 (1087)
T ss_pred HhCCCCCeEEEEECCccccccCCCCCHHHHHHHHHhcC--cEEECCCCCCCcHHHHHHHHHHHhccccccccCCCCCccc
Confidence 8633 7999999999999999999999988887776 578999999999999999999997654321 001110
Q ss_pred c-----------cCCCCceeEEecCCC--------HHHHHHHHHHHHHHHhhcC-----------CCCCCCCCcEEEEEe
Q 001127 572 T-----------DNSHGSKIIIKECHN--------EDAQCAFIIDKILEHASNG-----------PASICSYGSIAILYR 621 (1148)
Q Consensus 572 ~-----------~~~~g~~i~l~~~~~--------~~~E~~~Va~~I~~Lv~~~-----------~~~g~~~~DIAVL~r 621 (1148)
. .......+.++.... ...+++.++.+|.+++.++ ..++++|+|||||+|
T Consensus 398 a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~a~~~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvR 477 (1087)
T TIGR00609 398 AHQKNSKGSFVINGQEQPPIHFFTTEVESEGVDDYRQTIAQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVR 477 (1087)
T ss_pred chhhcCCCccccCCCCCCCeEEeecCCcccccchHHHHHHHHHHHHHHHHHHhccccccccccccCcCCCCcccEEEEEe
Confidence 0 001112344443321 2345778999999988642 114688999999999
Q ss_pred cCcChHHHHHHHHHCCCCeEEc-Cc-cccccHHHHHHHHHHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHH
Q 001127 622 RQVSGKVFQTAFRERKIPFNIH-GV-AFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKIS 698 (1148)
Q Consensus 622 ~~~~~~~l~~~L~~~gIP~~i~-~~-~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~ 698 (1148)
++.+...+..+|.+.|||+.+. +. ++++.|++..++++|+++.++.+...+.+++.+ +++...... ..+..
T Consensus 478 s~~~a~~i~~aL~~~GIP~~~~~~~~~lf~s~ev~dll~lL~~l~~P~d~~~l~~~L~sp~~g~~~~~l----~~l~~-- 551 (1087)
T TIGR00609 478 GRKEANQIRKALKKAQIPSVYLSDKSSVFATEEAQELLALLEALLEPENEGTLRAALASSIFGLSALEL----ETLNQ-- 551 (1087)
T ss_pred CCchHHHHHHHHHHCCCCEEEecCCcCccCcHHHHHHHHHHHHHHCCCChHHHHHHHhchhcCCCHHHH----HHHHc--
Confidence 9999999999999999999875 44 499999999999999999999999988888877 444433321 11110
Q ss_pred hhhccchHHHHhhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhccccccc
Q 001127 699 TIRKCSFISAACDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGK 778 (1148)
Q Consensus 699 ~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~ 778 (1148)
....| ..+.+.+..+++.+.+. .+..++..+.... ....+. ....
T Consensus 552 ---~~~~~-----------------------~~~~~~~~~~~~~~~~~-g~~~~l~~l~~~~---~~~~~l--l~~~--- 596 (1087)
T TIGR00609 552 ---DEITW-----------------------ERVVEKFREYHDIWRKI-GVLAMFQRLMLEK---GIGERL--LSQP--- 596 (1087)
T ss_pred ---chHHH-----------------------HHHHHHHHHHHHHHHHc-CHHHHHHHHHHhc---CHHHHH--hcCC---
Confidence 00000 11222223333333221 1222222211110 000000 0000
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhh-----hhcccCCCCCCcEEE
Q 001127 779 LLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETE-----HFRTQRHDNENSVTL 853 (1148)
Q Consensus 779 ~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~-----~~~~~ip~~~D~V~V 853 (1148)
+.++.+-+ +..+.+++...... ..+...++.++...... ..........|.|+|
T Consensus 597 --~ger~l~n-----l~~L~ell~~~~~~--------------~~~~~~ll~wl~~~~~~~~~~~~~~~rl~sd~~aV~I 655 (1087)
T TIGR00609 597 --GGERILTN-----LLHLAELLQEAAHQ--------------ERNKLSLLRWLEDQISNEEEEEEEIIRLESDAELVKI 655 (1087)
T ss_pred --ChHHHHHH-----HHHHHHHHHHHHHh--------------ccChhHHHHHHHHHhhccCCchhhhhccccccccEEE
Confidence 01111111 11233333322000 01122344444332111 111233466789999
Q ss_pred EccccccCCCCCEEEEeecCCCCCcccc---cc-CC--cc----C-------cccccHHHHHHHHHHHHhcccceEEEEE
Q 001127 854 TTIHQSKGLEWDIVFVAKANETEIPLVH---EF-NG--AV----N-------EKGTSVEEERRLLYVAMTRARKKLFILY 916 (1148)
Q Consensus 854 ~Tih~sKGlE~~~VfV~Glneg~~P~~~---~~-~g--~l----~-------d~e~~l~EErrL~YVAlTRAk~~L~LSy 916 (1148)
||||+|||||||+||++++.....+... .. .+ .+ . ...+.+.|+.||+|||||||+++|||.+
T Consensus 656 mTIHkSKGLEfPvVflp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~E~lRLLYVAlTRA~~~l~l~~ 735 (1087)
T TIGR00609 656 VTIHKSKGLEYPIVFLPFITDAKKSNFASLHDQHSHEYQLYDFNQSEENQKLARVERLAEDLRLLYVALTRAKKQLFIGI 735 (1087)
T ss_pred EEEEccCCCCCCEEEEeccccccCCccceeeeccCCceeecCCcccHHHHHHHHHHHHhHHHHHHHHHHHHHhHeeEEEe
Confidence 9999999999999999999765333211 00 00 01 0 0125578999999999999999999987
Q ss_pred Ee
Q 001127 917 VM 918 (1148)
Q Consensus 917 ~~ 918 (1148)
+.
T Consensus 736 ~~ 737 (1087)
T TIGR00609 736 AP 737 (1087)
T ss_pred cc
Confidence 64
No 13
>PRK13909 putative recombination protein RecB; Provisional
Probab=100.00 E-value=5.4e-49 Score=503.81 Aligned_cols=228 Identities=26% Similarity=0.343 Sum_probs=188.3
Q ss_pred HHHHHHHHHHHHHC----CCCCHHHHHHHHHHhh-cc---cHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc----
Q 001127 433 AAILENYNGILRSC----NALDYHDLISCSVKLL-ST---FPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS---- 500 (1148)
Q Consensus 433 ~~iy~~Y~~~L~~~----~~iD~~Dll~~a~~lL-~~---~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~---- 500 (1148)
..++..|++.+.+. +.+||+|++..+..+| .. .+.+...+..+|+||+||||||||+.||.+|..|..
T Consensus 278 ~~l~~~y~~~~~~~k~~~~~ldf~Dl~~~a~~lL~~~~~~~~~~~~~l~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~ 357 (910)
T PRK13909 278 FKLLQLYKEAKNELNKKKNALDFDDISKKVYELLGEEEIDKDFLYFRLDSKISHILIDEFQDTSVLQYKILLPLIDEIKS 357 (910)
T ss_pred HHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHccCCCccHHHHHHHhcCCCEEEEECccCCCHHHHHHHHHHHHHhhc
Confidence 45667777776554 9999999999999999 32 345666778899999999999999999999999863
Q ss_pred ------CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccC
Q 001127 501 ------HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDN 574 (1148)
Q Consensus 501 ------~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~ 574 (1148)
.+++++|||++|+||+|||+++++|..+.+.++. ..+.|..||||++.|++++|.++......+... .....
T Consensus 358 ~~~~~~~~~lf~VGD~kQSIY~FRGA~~~~f~~~~~~~~~-~~~~L~~NyRS~~~Iv~~~N~~f~~~~~~~~~~-~~~~~ 435 (910)
T PRK13909 358 GEGQKKFRSFFYVGDVKQSIYRFRGGKKELFDKVSKDFKQ-KVDNLDTNYRSAPLIVDFVNEVFKKKYKNYKTQ-YAEQH 435 (910)
T ss_pred ccccCCCCeEEEEcCchhhhhhhcCCChHHHHHHHHHhhh-hhcccccCCCCChHHHHHHHHHHHHHHHhhhhh-hcccc
Confidence 2479999999999999999999999999888865 668999999999999999999998754332111 11111
Q ss_pred CCCceeEEecCCCH-HHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHC-CCCeEEc-CccccccH
Q 001127 575 SHGSKIIIKECHNE-DAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAFRER-KIPFNIH-GVAFYRKK 651 (1148)
Q Consensus 575 ~~g~~i~l~~~~~~-~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~-gIP~~i~-~~~l~~~p 651 (1148)
..++.+.++...+. .++++.|+..|.+++.. |++|+|||||||++.+...+...|.+. |||+... +..++++|
T Consensus 436 ~~~g~v~i~~~~~~~~~~a~~ia~~I~~l~~~----g~~~~dIaILvR~~~~~~~l~~~L~~~~gIP~~~~~~~~l~~~~ 511 (910)
T PRK13909 436 KSGGYVEVVEVADESEELLEQLLQEIQFLLEK----GIDPDDIAILCWTNDDALEIKEFLQEQFGIKAVTESSAKLINQP 511 (910)
T ss_pred cCCCcEEEEECCCccHHHHHHHHHHHHHHHHc----CCCcCCEEEEEecCccHHHHHHHHHhcCCCCEEeCCCcccccCH
Confidence 23344666655443 44578999999999876 899999999999999999999999999 9999987 57899999
Q ss_pred HHHHHHHHHHHhCCC
Q 001127 652 VVRAIIAMLRTTLPG 666 (1148)
Q Consensus 652 ~v~~i~slL~~~~~~ 666 (1148)
+|+.++++|+++..+
T Consensus 512 ev~~ll~lL~~l~~~ 526 (910)
T PRK13909 512 EVKALIEALKYCLFG 526 (910)
T ss_pred HHHHHHHHHHHHhcC
Confidence 999999999998765
No 14
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=100.00 E-value=5.6e-49 Score=510.20 Aligned_cols=425 Identities=18% Similarity=0.265 Sum_probs=276.1
Q ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHhhccc--HHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc---CCcEEEE
Q 001127 433 AAILENYNGILRSCNALDYHDLISCSVKLLSTF--PEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS---HNRITIV 507 (1148)
Q Consensus 433 ~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~--~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~---~~~l~lv 507 (1148)
..++..|++.+++++.+||+|++..+...|.+. +.+...++.+|++|+|||||||+|.|+.+|..|.. ..++++|
T Consensus 333 ~~~~~~~~~~k~~~~~~dFdDll~~~~~~L~~~~~~~~~~~~~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~V 412 (1181)
T PRK10876 333 AEIRETVAQEKRRRGELGFDDLLSRLDSALQSEGGEALAAAIRTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLI 412 (1181)
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCChHHHHHHHHhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEE
Confidence 568999999999999999999999999999754 78999999999999999999999999999999985 3479999
Q ss_pred cCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhccc-----ccccc----------
Q 001127 508 GDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQL-----KNVQT---------- 572 (1148)
Q Consensus 508 GD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~-----~~~~~---------- 572 (1148)
|||+|+||+|||+++..+..+...+ ...+.|..||||++.|++++|.++.+....... .++..
T Consensus 413 GDpkQsIY~FRGAd~~~~l~~~~~~--~~~~~L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~ 490 (1181)
T PRK10876 413 GDPKQAIYAFRGADIFTYMKARSEV--SAHYTLDTNWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFV 490 (1181)
T ss_pred eCCccccccCCCCCchHHHHHHhcc--CCeeECCCCcCcCHHHHHHHHHHHhcccccccCCCCCcccccccccccccccc
Confidence 9999999999999997776654443 246899999999999999999999775432100 00000
Q ss_pred -cCCCCceeEEecC--------CCHHHHHHHHHHHHHHHhhcCC-----------CCCCCCCcEEEEEecCcChHHHHHH
Q 001127 573 -DNSHGSKIIIKEC--------HNEDAQCAFIIDKILEHASNGP-----------ASICSYGSIAILYRRQVSGKVFQTA 632 (1148)
Q Consensus 573 -~~~~g~~i~l~~~--------~~~~~E~~~Va~~I~~Lv~~~~-----------~~g~~~~DIAVL~r~~~~~~~l~~~ 632 (1148)
.......+.++.. .....|+++||.+|.+++..+. .++++|+|||||+|++.+...++.+
T Consensus 491 ~~~~~~~~~~l~~~~~~~~~~~~~~~~eA~~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~a 570 (1181)
T PRK10876 491 VKGETQPAMKFWLMEGEGVGVGDYQQTMAQQCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDA 570 (1181)
T ss_pred ccCCCCCceeeeecCCCccCcchHHHHHHHHHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHH
Confidence 0000011222211 1235578999999999886421 2357899999999999999999999
Q ss_pred HHHCCCCeEE-cC-ccccccHHHHHHHHHHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHHhhhccchHHHH
Q 001127 633 FRERKIPFNI-HG-VAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKISTIRKCSFISAA 709 (1148)
Q Consensus 633 L~~~gIP~~i-~~-~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~~~~gi~~~~~~ 709 (1148)
|.+.|||+.+ .+ .++|+.++++.++++|+++.+|.+...+.+++.+ +++..... ++.+. .+...|..
T Consensus 571 L~~~gIP~v~~~~~~~~f~~~Ea~dll~lL~~l~~P~d~~~l~~~L~sp~~g~~~~~----l~~L~-----~~~~~~~~- 640 (1181)
T PRK10876 571 LTLLAIPSVYLSNRDSVFETLEAQEMLWLLQAVLAPERERTLRSALATSMMGLDALD----IDALN-----NDERAWDA- 640 (1181)
T ss_pred HHhCCCCEEEecCCcCccchHHHHHHHHHHHHHhCcCccHHHHHHHhCCccCCCHHH----HHHHh-----cChHHHHH-
Confidence 9999999875 44 4899999999999999999999999999999987 33443332 22211 11111111
Q ss_pred hhhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccccccccchhHHHH
Q 001127 710 CDIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSV 789 (1148)
Q Consensus 710 ~~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~v 789 (1148)
+...+..+.+.+.+. .+..++..+..... + .... ....+ ..+.+.++
T Consensus 641 ----------------------~~~~f~~~~~~w~~~-g~~~~l~~ll~~~~--~-~~~l--~~~~~-----gerrltnl 687 (1181)
T PRK10876 641 ----------------------LVEEFDGYRQIWRKR-GVLPMLRALMSARN--I-AENL--LATAG-----GERRLTDI 687 (1181)
T ss_pred ----------------------HHHHHHHHHHHHHhC-CHHHHHHHHHHHcC--H-HHHH--hcCCc-----hHHHHHHH
Confidence 122233333333221 22233322222100 0 0000 00000 01111111
Q ss_pred HHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhh---hhhcccCCCCCCcEEEEccccccCCCCCE
Q 001127 790 LQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERET---EHFRTQRHDNENSVTLTTIHQSKGLEWDI 866 (1148)
Q Consensus 790 l~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~---~~~~~~ip~~~D~V~V~Tih~sKGlE~~~ 866 (1148)
..+.+++... .. +..+ ...+..|++....... +..........+.|+|+|||+|||||||+
T Consensus 688 -----~~L~ell~~~-~~---------~~~~-~~~L~~wL~~~~~~~~~~~~~~~~rlesd~~~V~ImTIH~SKGLEfPv 751 (1181)
T PRK10876 688 -----LHIGELLQEA-SS---------QLDS-EHALVRWLAQQILEPDSQASSQQLRLESDKHLVQIVTIHKSKGLEYPL 751 (1181)
T ss_pred -----HHHHHHHHHH-HH---------hhcC-hHHHHHHHHHHHhcCCCcchHHHhccccccCcEEEEEEeccCCcCCCE
Confidence 1222332221 00 0000 1234444433322111 00011123455889999999999999999
Q ss_pred EEEeecC-----CCCCccccccCCc---cC--------cccccHHHHHHHHHHHHhcccceEEEEEEe
Q 001127 867 VFVAKAN-----ETEIPLVHEFNGA---VN--------EKGTSVEEERRLLYVAMTRARKKLFILYVM 918 (1148)
Q Consensus 867 VfV~Gln-----eg~~P~~~~~~g~---l~--------d~e~~l~EErrL~YVAlTRAk~~L~LSy~~ 918 (1148)
||++|+. ++.+|+....... +. ...+.++||+||+|||||||+++|||+++.
T Consensus 752 Vflp~l~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~E~l~Ee~RLlYVAlTRAk~~l~l~~~~ 819 (1181)
T PRK10876 752 VWLPFITNFRVQDQAFYHDRHSFEAVLDLNAAEESVALAEEERLAEDLRLLYVALTRSVWHCSLGVAP 819 (1181)
T ss_pred EEecccccccCCccceeecCCCCeeEeecCCcHHHHHHHHHHHHHHHHHHHHHHhhhHhhhheeEecc
Confidence 9999997 5666643211110 00 012468899999999999999999998854
No 15
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.8e-47 Score=496.40 Aligned_cols=440 Identities=25% Similarity=0.367 Sum_probs=290.1
Q ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHhhccc-HHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHcC-----CcEEE
Q 001127 433 AAILENYNGILRSCNALDYHDLISCSVKLLSTF-PEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILASH-----NRITI 506 (1148)
Q Consensus 433 ~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~-~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~~-----~~l~l 506 (1148)
..+.+.|.+..+.++.+||+|++..+..+|.+. +++...++.+|++|+|||||||+|+||+||..|..+ .++|+
T Consensus 335 ~~~~~~~~~~K~~r~~ldFdDl~~~~~~lL~~~~~~l~~~lr~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~ 414 (1139)
T COG1074 335 EELIERYDAEKRQRNALDFDDLIHRLAKLLTSEGEELAESLREQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFL 414 (1139)
T ss_pred HHHHHHHHHHHHHhCcCCHHHHHHHHHHHHhcCcHHHHHHHHhcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEE
Confidence 567788888999999999999999999999987 789999999999999999999999999999999874 48999
Q ss_pred EcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcc----cccccc---cC-----
Q 001127 507 VGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQ----LKNVQT---DN----- 574 (1148)
Q Consensus 507 vGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~----~~~~~~---~~----- 574 (1148)
|||++|+||+||||++..|....+.......+.|++||||.+.++++.|.+|.+...... ..++.. ..
T Consensus 415 VGD~KQSIY~FRgAD~~~f~~a~~~~~~~~~~~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 494 (1139)
T COG1074 415 VGDPKQSIYRFRGADIFTFLEAASSEKAFARITLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGS 494 (1139)
T ss_pred ecCchHHhhhhcCCChHHHHHHhhccccCceeecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCC
Confidence 999999999999999999988776544567899999999999999999999986431110 000000 00
Q ss_pred CCCc-e--eEEec--------------CCCHHHHHHHHHHHHHHHhhcCC----CCCCCCCcEEEEEecCcChHHHHHHH
Q 001127 575 SHGS-K--IIIKE--------------CHNEDAQCAFIIDKILEHASNGP----ASICSYGSIAILYRRQVSGKVFQTAF 633 (1148)
Q Consensus 575 ~~g~-~--i~l~~--------------~~~~~~E~~~Va~~I~~Lv~~~~----~~g~~~~DIAVL~r~~~~~~~l~~~L 633 (1148)
..+. . ...+. ..-...++..|+..|+.+...+. .+.++|+||+||||+...+..+..+|
T Consensus 495 ~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL 574 (1139)
T COG1074 495 VNGEPLPALKFWEEEDDWTAPENEEDEREIADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERAL 574 (1139)
T ss_pred CCcccchhhhhhcCcccccCCCCchhHHHHHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHH
Confidence 0000 0 00111 11123467777777777765311 24799999999999999999999999
Q ss_pred HHC-CCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHHhhhccchHHHHh
Q 001127 634 RER-KIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKISTIRKCSFISAAC 710 (1148)
Q Consensus 634 ~~~-gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~~~~gi~~~~~~~ 710 (1148)
+++ +|||..+ ...++.+.++..++++|+++.+|.++.++..++++ ++++..++. ..+. .. ...+ ..|.
T Consensus 575 ~~~~~ipv~~~~r~~~~~~~e~~dll~lL~~il~P~~d~~L~a~L~Spifgl~~d~L----~~l~---~~-~~~~-~~~~ 645 (1139)
T COG1074 575 KKAGIIPVYLSNRSSLFETLEAQDLLALLRAILNPEDDLPLAALLRSPLFGLTEDDL----AALA---QD-EAEW-EFLW 645 (1139)
T ss_pred HhcCCCCEEecCcccccccHHHHHHHHHHHHHcCccccHHHHHHHhCcccCCCHHHH----HHHh---cC-cccH-HHHH
Confidence 999 8999998 56999999999999999999999999999999999 445544331 1111 11 0010 1111
Q ss_pred hhhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccccccccchhHHHHH
Q 001127 711 DIFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSVL 790 (1148)
Q Consensus 711 ~~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl 790 (1148)
..+. .......+...+..|+.+... ..+.+.++.++.-.. .+........+....
T Consensus 646 ~~~~----------~~~~~~~~~~~L~~~~~l~~~-~~~~~~i~~~l~~~~-------------~~e~~l~~~~~~~~~- 700 (1139)
T COG1074 646 ENLR----------QLADIWRFRGVLAMWRALAKI-TPLHDLIAERLLSTN-------------LGERDLTNGLHAQEL- 700 (1139)
T ss_pred HHHH----------HHHHHHHHHhHHHHHHHHHhh-ccHHHHHHHHHhccc-------------cchhccCCcHHHHHH-
Confidence 1000 000012233334444444322 223333333322111 111111122222222
Q ss_pred HHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCCCEEEEe
Q 001127 791 QYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEWDIVFVA 870 (1148)
Q Consensus 791 ~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~ 870 (1148)
++++....... +.+....|..|+..+.... ........+..+.|.|||||+|||||||+||++
T Consensus 701 ---L~~~~~~~~~~-------------e~~~~~~L~~~i~~~~~~~-~~~~~~l~~~~~~VrImTIHkSKGLEfPiVflp 763 (1139)
T COG1074 701 ---LQELLTRALSY-------------EHGLLRWLERFIALIENND-EEQARRLESDRDLVRIMTIHKSKGLEFPIVFLP 763 (1139)
T ss_pred ---HHHHHHHHHhh-------------hhccchhHHHHHHhhhcCC-HHHHHhcCCCcCeEEEEEEeccCCCCCCEEEec
Confidence 22222222210 0111346667776666521 222234556779999999999999999999999
Q ss_pred ecCCCCC-----ccccccCCc----c-Cc---------------ccccHHHHHHHHHHHHhcccceEEEEEEeecccc
Q 001127 871 KANETEI-----PLVHEFNGA----V-NE---------------KGTSVEEERRLLYVAMTRARKKLFILYVMMDANW 923 (1148)
Q Consensus 871 Glneg~~-----P~~~~~~g~----l-~d---------------~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g 923 (1148)
+.....+ |.....+|. + .. ..+.+.||+||+|||||||+++|||+......++
T Consensus 764 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~k~~~~~e~~~E~~RLLYVAlTRAk~~L~l~g~~~~~~~ 841 (1139)
T COG1074 764 FILSKRFNDSDVPLLVYYDGLRFELFDDLKSYPTPESQANKELAEEEALAEELRLLYVALTRAKEQLILIGAPSKREK 841 (1139)
T ss_pred CCCCcccccccccceeecCCCceeeEeccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHheEEEeecccccc
Confidence 9544322 222222211 0 00 1256789999999999999999999988765443
No 16
>PRK11054 helD DNA helicase IV; Provisional
Probab=100.00 E-value=8.7e-48 Score=472.63 Aligned_cols=340 Identities=28% Similarity=0.378 Sum_probs=231.0
Q ss_pred hcCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCc
Q 001127 246 QSLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKEL 310 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v 310 (1148)
..||++|++||. ...++++|+|+||||| ...|++||++|||+.||.+|++||...++ ...+
T Consensus 195 ~~L~~~Q~~av~-~~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg---~~~v 270 (684)
T PRK11054 195 SPLNPSQARAVV-NGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG---TEDI 270 (684)
T ss_pred CCCCHHHHHHHh-CCCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC---CCCc
Confidence 469999999995 4467899999999999 35789999999999999999999998876 3678
Q ss_pred eEechHHHHHHHHHHHHHHhcCCCCceecChHHHHHHHH-HHHHHHHhhhHHHHhhhhcccc---c---cccchhhhHHH
Q 001127 311 TISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRRAII-EAVRLLENEKILVVKRISTDML---T---TDGHFGYMRAS 383 (1148)
Q Consensus 311 ~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~~l~-~il~~~~~~~~~~~~~~~~d~l---~---~~~~f~~~~~~ 383 (1148)
.|+|||+||++|++++++..+.... ...++......+. .+...+..... ..+.+...+. . ....|.....
T Consensus 271 ~v~TFHSlal~Il~~~~~~~p~~s~-~~~d~~~~~~~l~~~~~~~~~~~~~-~~k~~~~wl~~~~~~~~~~~~~~~~~~- 347 (684)
T PRK11054 271 TARTFHALALHIIQQGSKKVPVISK-LENDSKARHALLIAEWRKQCSEKKA-QAKGWRQWLTEELQWDVPEGNFWDDEK- 347 (684)
T ss_pred EEEeHHHHHHHHHHHhhhcCCCcCc-cccchHHHHHHHHHHHHHHhhhccc-chhhhhhcchHHhhhcccchhhhhhhh-
Confidence 9999999999999997654321111 1123333333333 32222211100 0000000000 0 0000000000
Q ss_pred HHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhh---------H--HHHHHHHHHHHHHHHHHCCCCCHH
Q 001127 384 LFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKI---------G--DEIGAAILENYNGILRSCNALDYH 452 (1148)
Q Consensus 384 ~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~---------~--~~~~~~iy~~Y~~~L~~~~~iD~~ 452 (1148)
........+...+...+..+.++..+... . -...+.+|+.|++.+++.+++||+
T Consensus 348 ---------------~~~~l~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~iy~~Ye~~L~~~~~iDf~ 412 (684)
T PRK11054 348 ---------------LQRRLASRLERWVSLMRMHGGSQAEMIAQAPEEVRDLFQKRLKLMAPLLKAWKKALKAENAVDFS 412 (684)
T ss_pred ---------------HHHHHHHHHHHHHHHHHhcCCCHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence 00001112222222334455554433211 1 123478999999999999999999
Q ss_pred HHHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc---CCcEEEEcCCCCcccccCCCChHHHHHHH
Q 001127 453 DLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS---HNRITIVGDDDQSIFSFNGADISGFDSFR 529 (1148)
Q Consensus 453 Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~---~~~l~lvGD~~QsIy~frga~~~lf~~l~ 529 (1148)
|++..+..+|.+.+ +..+|++|+||||||+||.|+.+|+.|.. +.++++|||++|+||+|+|+++.++..|.
T Consensus 413 Dml~~A~~lL~~~~-----~~~~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~frGa~~~~~~~f~ 487 (684)
T PRK11054 413 GLIHQAVNYLEKGR-----FISPWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYRFSGADLSLTTAFH 487 (684)
T ss_pred HHHHHHHHHHhhhh-----hhhcccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCccccccCCCChHHHHHHH
Confidence 99999999997643 33579999999999999999999999975 35899999999999999999999999999
Q ss_pred HhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCC
Q 001127 530 KDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPAS 609 (1148)
Q Consensus 530 ~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~ 609 (1148)
+.++....+.|++|||+++.|++++|.++..+..... +++.+.. .|..+.+....+ ++++.+...|...+..
T Consensus 488 ~~f~~~~~~~L~~nYRs~~~I~~~An~~i~~n~~~~~-k~l~s~~-~g~~p~v~~~~~--~~~~~il~~l~~~~~~---- 559 (684)
T PRK11054 488 ERFGEGDRCHLDTTYRFNSRIGEVANRFIQQNPHQLK-KPLNSLT-KGDKKAVTLLPE--DQLEALLDKLSGYAKP---- 559 (684)
T ss_pred hhcCCCeEEEeCCCCCCCHHHHHHHHHHHHhCccccC-CcccccC-CCCCceEEEeCC--HHHHHHHHHHHHhhcC----
Confidence 9998777899999999999999999999987654332 2222222 233344444443 3677778888776533
Q ss_pred CCCCCcEEEEEecC
Q 001127 610 ICSYGSIAILYRRQ 623 (1148)
Q Consensus 610 g~~~~DIAVL~r~~ 623 (1148)
..+|+||+|++
T Consensus 560 ---~~~I~IL~R~~ 570 (684)
T PRK11054 560 ---DERILLLARYH 570 (684)
T ss_pred ---CCcEEEEEech
Confidence 47999999964
No 17
>TIGR02786 addB_alphas double-strand break repair protein AddB, alphaproteobacterial type. AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type.
Probab=100.00 E-value=6.6e-44 Score=460.42 Aligned_cols=691 Identities=9% Similarity=0.016 Sum_probs=459.4
Q ss_pred CCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHHHHH--HHHHHH-HhcCCCCceecChHHHHHHHHHHHHHH
Q 001127 279 SNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFSLQL--CRSHAE-KLERTSEFLIYGHGQQRRAIIEAVRLL 355 (1148)
Q Consensus 279 ~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~rI--l~~~~~-~~~~~~~~~i~~~~~~~~~l~~il~~~ 355 (1148)
.++.++.+|+.|+..+.+-+....+....--++|..+..+...- +...+. ...+ ...+++.+++|++.+++..+
T Consensus 39 a~~~i~~ptrr~~r~l~~~f~~~~~~~~~llP~i~~l~d~d~~~~~~~~~~~~~~~~---~~~i~~~gr~mlL~~li~~~ 115 (1021)
T TIGR02786 39 ADATIYVPTRRAARALREAFVDVLDGRAALLPRIRPLGDVDEDEALFAAEGPAILDL---PPAISPLERLLELARLIRAW 115 (1021)
T ss_pred cCeEEEeCChHHHHHHHHHHHHhcCCCCeecceeeeCCCccccccccccccccccCC---CCCCChHHHHHHHHHHHHHH
Confidence 57999999999999999999987664444445565554443221 111000 0122 24688899999999999887
Q ss_pred HhhhHHHHhhhhccccccccchh-----hhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhHHH
Q 001127 356 ENEKILVVKRISTDMLTTDGHFG-----YMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIGDE 430 (1148)
Q Consensus 356 ~~~~~~~~~~~~~d~l~~~~~f~-----~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~~~ 430 (1148)
.+++ .|. ... ...+|.+.+.+++.+++.++++++.+..+...
T Consensus 116 ~~~l----------------~~~~~~~~~~~-----------------~~~~fa~~La~lidE~~~~~v~~~~L~~l~~~ 162 (1021)
T TIGR02786 116 RDKL----------------VEDVLAPAGPA-----------------DAIWLARDLADLMDEMETEGVDWSKLDDLAEG 162 (1021)
T ss_pred HhhC----------------ccccccCCChh-----------------HHHHHHHHHHHHHHHHHHcCCCHHHHHHHhhH
Confidence 7663 111 111 26779999999999999999999998766432
Q ss_pred -----------HHHHHHHHHHHHHHHCCCCCHHH----HHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHH
Q 001127 431 -----------IGAAILENYNGILRSCNALDYHD----LISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLL 495 (1148)
Q Consensus 431 -----------~~~~iy~~Y~~~L~~~~~iD~~D----ll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL 495 (1148)
....+|+.|.+++.++|++|.+| ++...++.+..++. -..||||||.+|+|+++.+|
T Consensus 163 ~~~~~~~~kl~fL~ii~~~~~~~L~~~~~~d~~~r~~~~l~~la~~l~~~~~--------~~~viiaGftg~tp~~~~ll 234 (1021)
T TIGR02786 163 DLARHWQVTLKFLEIVTRAWPKRLAELGRSNPAARRNRLLRALAARWATNPP--------EGPVIAAGSTGSIPATADLL 234 (1021)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHhCCC--------CCCEEEEeCCCChHHHHHHH
Confidence 22678999999999999999999 88888888875442 23899999999999999999
Q ss_pred HHHHcCC-cEEE------EcCCCC--ccc-c------cCCCChHHHHHHHHhcCCc--eEEEecc--C---CC--C-hhH
Q 001127 496 QILASHN-RITI------VGDDDQ--SIF-S------FNGADISGFDSFRKDFLNY--KEIRLTR--N---YR--S-TRC 549 (1148)
Q Consensus 496 ~~L~~~~-~l~l------vGD~~Q--sIy-~------frga~~~lf~~l~~~~~~~--~~~~L~~--n---yR--s-~~~ 549 (1148)
+.|++.. .+++ ..|... .+- . |.+.....+.++.+..+.. ....+.. . +| . ++.
T Consensus 235 ~al~~~~~g~vVLPgldl~ld~~~w~~l~~~~~~~~lF~~h~q~~L~~l~~~~~i~~~~v~~l~~~~~~~~~R~~~~s~a 314 (1021)
T TIGR02786 235 AVVARLPQGAVVLPGLDLDMDEEAWQALGPAGTDPPSVFGHPQYGLKRLLDRLGVSRKEVREWGPADRGLRKRERLVSEA 314 (1021)
T ss_pred HHHHhCCCCCEECCCCCCCCCHHHHHhccccccCCCCCCCCHHHHHHHHHHHcCCChhhcccccCCCccchhHHHHhhhh
Confidence 9999743 2333 223211 120 0 0223334556666655432 2233321 1 23 1 111
Q ss_pred HH--HHHHhhhhhhhhhccccccc-ccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcCh
Q 001127 550 IV--EAASSLIQHNVKRCQLKNVQ-TDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSG 626 (1148)
Q Consensus 550 I~--~~an~ll~~~~~~~~~~~~~-~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~ 626 (1148)
+. .+...++... ..... ........+.++.+.|.++|+..||..|++++++ +|+ +||||+|+..|.
T Consensus 315 L~pa~l~~~w~~~~-----~~~~~~~~~~~~~~i~l~~a~~~~eEa~aiA~~ir~~v~~---~g~---~iAlVtpD~~la 383 (1021)
T TIGR02786 315 LRPAETTDRWGSQR-----EQPAEAGIAEAFANLSLIEAANEREEALAIALALREAVED---PGK---TAALVTPDRALA 383 (1021)
T ss_pred hCCchHHHHHHhcc-----ccccccchhhhcCCeEEEecCCHHHHHHHHHHHHHHHHhc---CCC---cEEEEeCCHhHH
Confidence 11 1222222111 11100 0111113499999999999999999999999987 565 999999999899
Q ss_pred HHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHH-hh-hh-hHHHHHHHHHHHHHHHhhhc
Q 001127 627 KVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FL-LL-EKEEKKRVIDHIDKISTIRK 702 (1148)
Q Consensus 627 ~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~-~~-~~~~~~~~id~Leny~~~~g 702 (1148)
..+...|.++||||+++ +.++.++|.+++++++++++..+|++.++++++|+ |. ++ ........++.||||++..|
T Consensus 384 r~v~a~l~r~~Ip~~~s~g~pL~~~P~~~~l~~~le~~~~~~~~~~ll~LLK~pL~~~g~~~~~~~~~~~~LEn~vLr~g 463 (1021)
T TIGR02786 384 RRVAAELKRFGIDADDSAGRPLSLTPPAVLLRLLAEAVFAPLDPVALLSLLKHPLVRLGEERDDWRAAAELLELVALRGG 463 (1021)
T ss_pred HHHHHHHHhCCCCCcccCCCchhcChHHHHHHHHHHHHhCCCCHHHHHHHhcCcccCCCCCcHHHHHHHHHHHHHHhcCC
Confidence 99999999999999998 89999999999999999999999999999999999 43 22 12334677999999999988
Q ss_pred -----cchHHHHhhh------hhccccchh----hh----h---hhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhc
Q 001127 703 -----CSFISAACDI------FGAKISGTF----KR----S---QLTQGRKVLLTLEMISKLVRREPSISAVITSVANMV 760 (1148)
Q Consensus 703 -----i~~~~~~~~~------~~~~~~~~~----~~----~---~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~ 760 (1148)
+.+...+... |.... ..| .. . .......+..++..+.+.++ .++.+++.++++++
T Consensus 464 ~~~~~i~g~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~pl~~~~~~~~--~~~~~~~~al~~~l 540 (1021)
T TIGR02786 464 TPRAGILALPAFFERRLLALGDDPEV-PAWHSALPEQSIEAARPLCELLEIAIEPLESLAGRRE--ELDAELAEATVELM 540 (1021)
T ss_pred CCCCCHHHHHHHHHHHHhhccccccc-cchhhccchhhHHHHHHHHHHHHHHhhhhhhhhcccC--CCHHHHHHHHHHHH
Confidence 7776433222 21110 011 00 0 01111223333333322222 46888888888875
Q ss_pred HHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhh
Q 001127 761 PQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHF 840 (1148)
Q Consensus 761 ~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~ 840 (1148)
..--.. ............--+.+..+|+++.+.++.. .+++.+|.+++..++.+..
T Consensus 541 e~l~~~-------~~~~~~~~~~~~~G~~~~~~ld~l~~~~~~~-----------------~~~~~~~~~ll~~~l~~~~ 596 (1021)
T TIGR02786 541 EALSRD-------EEGWLAALYEGEAGHKLASLFAELLSSAHGL-----------------DFDARDWPDVLQALMATEA 596 (1021)
T ss_pred HHhcCC-------CCCChhhhhccchHHHHHHHHHHHHHhcccC-----------------CCCHHHHHHHHHHHHhCCc
Confidence 321100 0000000000001145667888888776543 6788999999999999999
Q ss_pred cccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCccc------------ccHHHHHHHHHHHHhcc
Q 001127 841 RTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKG------------TSVEEERRLLYVAMTRA 908 (1148)
Q Consensus 841 ~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e------------~~l~EErrL~YVAlTRA 908 (1148)
++.+|++.|+|+|+.+-.+++..+|+|||+|+|||+||.....++++++.. ..+..+ .||. |.+
T Consensus 597 v~~~~~~~~~V~I~g~leaR~~~~d~vil~GlnEg~~P~~~~~d~~Ls~~~R~~lGl~l~e~r~~~~a~--~f~~--~~~ 672 (1021)
T TIGR02786 597 VRPRDGGHPRIFIWGALEARLQTADLVVIGGLNEGVWPPAPRNDPFLSRPMRHELGLPPPERRIGLSAH--DFQQ--ALG 672 (1021)
T ss_pred cCCCCCCCCceEEeChHHhCcCCCCEEEEcCCCCCcCCCCCCCCCCCCHHHHHHcCCCChHHHHHHHHH--HHHH--Hhc
Confidence 999999999999999999999999999999999999999998888886543 112222 2444 888
Q ss_pred cceEEEEEEeecccccccCCchhHHhhhhhhHHHHhhhhccccCCCchhhhhHhhhc--CCCccCCCcCCCccccccccc
Q 001127 909 RKKLFILYVMMDANWQLLQPSRFLKEIPHHLREVQAEQSVQDQHENIPEGTAQFTIN--LPREENCCETDLVSTDFLNVQ 986 (1148)
Q Consensus 909 k~~L~LSy~~~d~~g~~~~PS~fl~~l~~~f~~~~~~~~~~~~~~~~~~~~~~L~~~--~~~~~p~~~~~~~~~~~L~~~ 986 (1148)
.++|||||+..+++ ++..||+||.+|..+|+.......... ..........+... ....+...+.++... .
T Consensus 673 a~~v~lS~~~~~~~-~~~~pS~~l~rL~~l~~~~~~~~~r~~-~~~~~~w~~~l~~~~~~~~~~~p~p~pp~~~-----r 745 (1021)
T TIGR02786 673 AKEVVLTRAARSGG-APAVPSRWLQRLEALAGADVLEEMRRR-GERYLHWARALDEPQDVAPATRPAPRPPVAD-----R 745 (1021)
T ss_pred CCeEEEEeeccCCC-CCCCCCHHHHHHHHhccchhhHHHHhc-cccHHHHHHHHhcccccccccCCCCCCcccc-----c
Confidence 99999999998766 789999999999998874221110000 00000111112110 111111112222111 3
Q ss_pred CcccChhhhhHHhhChhhhHHHhhcCcc-----------cchhhhHHHHHHHHhhcC--------CHHHHHHHHHHHHHH
Q 001127 987 LSGAATESMELLEACNGNSFLRRFSVED-----------RSIISHLFHQWAKKKAFQ--------EPKRLLNKVDFVIDE 1047 (1148)
Q Consensus 987 ~~~~SvSrlE~~~~CPf~~Fl~~~Gl~~-----------a~~iGtl~H~~le~~~~~--------~~~~~~~~~~~~v~e 1047 (1148)
+.++|||+||+|.+|||+||+ +||++. ++++|++||++++.|... +.+++.+.+++++++
T Consensus 746 ~~~~SvS~le~~~~cPy~~fa-ry~L~L~~~~~~~~~~~a~~~G~l~H~vLe~f~~~~~~~~~~~~~~~l~~~~~~~~~~ 824 (1021)
T TIGR02786 746 PRHFSVTEIETLRRDPYAIYA-RHILKLRPLDPLDRDPEAADRGTLIHDILERFVREYPDPLPADAADALRKIGRAEFAS 824 (1021)
T ss_pred cCCcCHHHHHHHHhChHHHHH-HHhcCCCCCCCCCCCCCHHHhhHHHHHHHHHHHHhccccCCchHHHHHHHHHHHHHHH
Confidence 568999999999999999999 888722 779999999999998875 234577777777766
Q ss_pred -H-----HhhhhhhHHHHHHHH
Q 001127 1048 -R-----LRVKKNKHKDVLRAL 1063 (1148)
Q Consensus 1048 -~-----~~~s~~r~~~~~~~l 1063 (1148)
. ...+++|++.++..+
T Consensus 825 ~~~~~~~~~l~~~R~~~~~~~~ 846 (1021)
T TIGR02786 825 LNLPPTAEALWWPRFARAADWF 846 (1021)
T ss_pred hcCChHHHHHHHHHHHHHHHHH
Confidence 1 114677776665333
No 18
>TIGR03623 probable DNA repair protein. Members of this protein family are bacterial proteins of about 900 amino acids in length. Members show extended homology to proteins in TIGR02786, the AddB protein of double-strand break repair via homologous recombination. Members of this family, therefore, may be DNA repair proteins.
Probab=100.00 E-value=5.4e-37 Score=394.76 Aligned_cols=632 Identities=13% Similarity=0.094 Sum_probs=422.2
Q ss_pred EEEEeccHHHHHHHHHHHHh---hhccccCCCceEechHHHHHHHHHHHHHHhc-CCCCceecChHHHHHHHHHHHHHHH
Q 001127 281 ILAMTFTTAAASEMRDRIGS---IVGKATAKELTISTFHSFSLQLCRSHAEKLE-RTSEFLIYGHGQQRRAIIEAVRLLE 356 (1148)
Q Consensus 281 ILvltft~~Aa~ei~~RL~~---~l~~~~~~~v~V~Tfhs~a~rIl~~~~~~~~-~~~~~~i~~~~~~~~~l~~il~~~~ 356 (1148)
-||+|.|+..+..++.+... ..|...-..+.|.|+..|-.++..+....-. ...+..++++.+..+++.+++....
T Consensus 2 ~~vlt~n~Rla~~l~~~~~~~~~~~~~~~w~~~~i~~~~~w~~~~~~~~~~~~~~~~~~~~~L~~~~~~~lw~~ii~~~~ 81 (874)
T TIGR03623 2 ALVLTANNRLARRLRQEYARAQLAQGRKVWTTPDILPWSQWLQQLWEEALLDGDAPELPHALLSSFQEQFLWEEVIAQSE 81 (874)
T ss_pred cEEEcccHHHHHHHHHHHHHHHHHcCCccccCCCeeeHHHHHHHHHHHHHhcCCccccchhhCCHHHHHHHHHHHHHhCc
Confidence 48999999999999999874 2344555678999999998777754322211 1222357999999999999987543
Q ss_pred hhhHHHHhhhhccccccccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhH---HHHHH
Q 001127 357 NEKILVVKRISTDMLTTDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIG---DEIGA 433 (1148)
Q Consensus 357 ~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~---~~~~~ 433 (1148)
... ..| ...++.+.+.+.+..+..++++++...... .+...
T Consensus 82 ~~~---------------~ll---------------------~~~~~~~~~~~a~~~~~~~~i~~~~~~~~~~~~~~~fl 125 (874)
T TIGR03623 82 PAG---------------ALL---------------------DVDGLARLAQEAWRLLHEWGLPPDAGEASLTEETRLFL 125 (874)
T ss_pred Ccc---------------ccc---------------------CHHHHHHHHHHHHHHHHHhCCCcchhhcccChhHHHHH
Confidence 221 111 144577777777788999999987765431 11122
Q ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCCCc
Q 001127 434 AILENYNGILRSCNALDYHDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDDQS 513 (1148)
Q Consensus 434 ~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~Qs 513 (1148)
..-..|++++++.+++|.++++......+..... .....|++|+|.+|||+|..++..|...+..+.++++.+
T Consensus 126 ~w~~~f~~~l~~~~~~~~~~~~~~l~~~~~~~~~------~~~~~i~l~GF~~~tP~q~~l~~~l~~~~~~v~~~~~~~- 198 (874)
T TIGR03623 126 QWRTRFEARCRREGWIDAAQLPEQLLDLLEQGGL------RLPKQIILAGFDELTPQQQALLAALEARGVDVQQWLPES- 198 (874)
T ss_pred HHHHHHHHHHHHCCCcCHHHHHHHHHHHHhccCC------CCCccEEEEecCCCCHHHHHHHHHHHHcCceeEeccccc-
Confidence 3348999999999999999999999888865421 245589999999999999999999986432221221110
Q ss_pred ccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHH
Q 001127 514 IFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCA 593 (1148)
Q Consensus 514 Iy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~ 593 (1148)
.....+.++.|.+..+|+.
T Consensus 199 -------------------------------------------------------------~~~~~~~~~~~~~~~~E~~ 217 (874)
T TIGR03623 199 -------------------------------------------------------------GEQASAQRLACADPEAEIR 217 (874)
T ss_pred -------------------------------------------------------------CCCCcceeEecCChHHHHH
Confidence 0122377889999999999
Q ss_pred HHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHHHHCCC-------------CeEEc-CccccccHHHHHHHH
Q 001127 594 FIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAFRERKI-------------PFNIH-GVAFYRKKVVRAIIA 658 (1148)
Q Consensus 594 ~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L~~~gI-------------P~~i~-~~~l~~~p~v~~i~s 658 (1148)
.+|..|++.+.. + +-.+|||++|+ +.|...+..+|....+ ||+++ +.++.++|++..++.
T Consensus 218 ~~a~~l~~~l~~----~-p~~~iaVv~pdl~~~r~~l~~~~~~~~~p~~~~~~~~~~~~~~~is~g~~L~~~P~v~~~l~ 292 (874)
T TIGR03623 218 AAARWARQQLEA----N-PAARIGVVVPNLEALRSQLARILDDVLHPQALLPTSADAPRPFNISLGRPLAEEPLVRTALL 292 (874)
T ss_pred HHHHHHHHHHHh----C-CCCeEEEECCcHHHHHHHHHHHHHHHhCccccCCCcccCCCceeeecCcccccChHHHHHHH
Confidence 999999999776 1 22679999999 8899999999988654 58997 899999999999999
Q ss_pred HHHHhCCCCCCchHHHHHHHh-hhhhHHHHHHHHHHHHHHHhhhccch--HHHHhhhhhccccchhhhhhhHhhHHHHHH
Q 001127 659 MLRTTLPGCDDGPYRRVFKAF-LLLEKEEKKRVIDHIDKISTIRKCSF--ISAACDIFGAKISGTFKRSQLTQGRKVLLT 735 (1148)
Q Consensus 659 lL~~~~~~~d~~~~~~llk~L-~~~~~~~~~~~id~Leny~~~~gi~~--~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~ 735 (1148)
+|++..++++...+..++++. ..+..... .....|+++..+.+... .+..... +... ........+.+.
T Consensus 293 lL~l~~~~~~~~~~~~LL~sp~~~~~~~e~-~~r~~Le~~lr~~~~~~~~l~~l~~~----l~~~---~~~~~~~~l~~~ 364 (874)
T TIGR03623 293 LLELLRGKLEQAEASALLRSPYIAGAEEER-LARAQLDARLRELAEASLTLAQLLAR----AGEE---NRLQLCPLLAEL 364 (874)
T ss_pred HHHhccCccCHHHHHHHHcCcccCCchhhH-HHHHHHHHHHHHhCcCcCCHHHHHHH----HHhh---ccccccHHHHHH
Confidence 999999999999999999983 22222222 33477888776554432 1111100 0000 000000122333
Q ss_pred HHHHHHHHhhC----CCHHHHHHHHHhhcHHHHHHHHhhhccc-ccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhc
Q 001127 736 LEMISKLVRRE----PSISAVITSVANMVPQKYLLEQRAVVDF-DGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKE 810 (1148)
Q Consensus 736 l~~l~~~~~~~----~~~~~~~~~l~~~~~~~~l~~~~~~~~~-~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~ 810 (1148)
+..+.....+. ....++...+.+ ..+.+.. +......++.|+|+.+..+++++.+...
T Consensus 365 l~~l~~~~~~~~~~~~~~~~W~~~~~~---------~L~~~~~~g~~~~~~~~~q~~~~~~~lLd~~~~l~~-------- 427 (874)
T TIGR03623 365 LSAAMAFLQKPSSLRLLPSAWAARFQR---------WLKALGWPGDRALDSEEYQAVKAWEELLAEFAALDL-------- 427 (874)
T ss_pred HHHHHHHhhccccCCCCHHHHHHHHHH---------HHHHcCCCCCccccCHHHHHHHHHHHHHHHHHHhhc--------
Confidence 33333332221 112222222111 1111112 2223456677888888888888887521
Q ss_pred cCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcc
Q 001127 811 EGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEK 890 (1148)
Q Consensus 811 ~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~ 890 (1148)
++..+++.+|+++|..++.+..+...+ ....|+|++++.++|.+||+|||+|+|||.||.....++++.+.
T Consensus 428 --------~~~~~~~~~~~~lL~~~l~~~~~~p~~-~~~~v~i~g~le~~~~~f~~v~l~Glndg~~P~~~~~~~fl~~~ 498 (874)
T TIGR03623 428 --------VSPALTFSEALRLLRQLAAETLFQPET-PEAPIQVLGLLEAAGLQFDALWVMGLTDEQWPAPPRPNPFLPLA 498 (874)
T ss_pred --------cCCccCHHHHHHHHHHHHhcCccCCCC-CCCceEEeehHhhcCCCCCeEEEeeCCcCcCCCCCCCCCCCCHH
Confidence 112689999999999998876655322 45579999999999999999999999999999988777777532
Q ss_pred c-----------ccHHHHHHHHHHHHhcccceEEEEEEeecccccccCCchhHHhhhhhhHHHHhhhhccccCCCchhhh
Q 001127 891 G-----------TSVEEERRLLYVAMTRARKKLFILYVMMDANWQLLQPSRFLKEIPHHLREVQAEQSVQDQHENIPEGT 959 (1148)
Q Consensus 891 e-----------~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g~~~~PS~fl~~l~~~f~~~~~~~~~~~~~~~~~~~~ 959 (1148)
. .......+.||.++|+|+++|||||+..+++ ++..||+|+.++...++... .........
T Consensus 499 ~~~~~gl~~~~~~~~~~~~~~f~~~L~~aa~~l~lSy~~~~~~-~~~~pS~ll~~l~~~~~~~~-------~~~~~~~~~ 570 (874)
T TIGR03623 499 LQRAVGMPHASAERELDYARQVTQRLLKSAPEVVFSYPRRDGD-RELRPSPLIAHLPLKAEEDA-------ELADYQDLA 570 (874)
T ss_pred HHHhcCCCCCChHHHHHHHHHHHHHHHhcCCeEEEEeccCCCC-CccCCCHhHHhhhhhCcchh-------ccCCcHHHH
Confidence 1 1122335677899999999999999998865 68899999999987664311 001111122
Q ss_pred hHhhhcCCCccCCCcCCCcccccc-cccCcccChhhhhHHhhChhhhHHHhhcCc-----------ccchhhhHHHHHHH
Q 001127 960 AQFTINLPREENCCETDLVSTDFL-NVQLSGAATESMELLEACNGNSFLRRFSVE-----------DRSIISHLFHQWAK 1027 (1148)
Q Consensus 960 ~~L~~~~~~~~p~~~~~~~~~~~L-~~~~~~~SvSrlE~~~~CPf~~Fl~~~Gl~-----------~a~~iGtl~H~~le 1027 (1148)
..+....... +... ....++ .|+.++.|+|+||+|.+|||+||+ +||++ .+.++|+++|++++
T Consensus 571 ~~l~~~~~~~---~~~~-~~~~~l~~~~~~~~SvS~Le~~~~CP~~~f~-~~~L~l~~~~~~~~~~~~~~~G~l~H~vLe 645 (874)
T TIGR03623 571 AAVAAGSRLE---VLDD-AQAPPLAAGERISGGTGLLKAQAACPFRAFA-QHRLGARALEEPVDGLDALERGTLVHRVLE 645 (874)
T ss_pred HHHHHhhhHH---HHHh-ccCCCCCCcCcCcCcHHHHHHHHhChHHHHH-HHhcCCCCCCccccCCChhHhHHHHHHHHH
Confidence 2221111100 0000 000111 145688999999999999999999 88773 27789999999999
Q ss_pred HhhcC----------CHHHHHHHHHHHHHH---H-----HhhhhhhHHHH-HHHHHHHhc
Q 001127 1028 KKAFQ----------EPKRLLNKVDFVIDE---R-----LRVKKNKHKDV-LRALKSCLS 1068 (1148)
Q Consensus 1028 ~~~~~----------~~~~~~~~~~~~v~e---~-----~~~s~~r~~~~-~~~l~~~l~ 1068 (1148)
.+... +.+++.+.+++++++ . ....+.+++++ ..++.+++.
T Consensus 646 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rl~~~~~ 705 (874)
T TIGR03623 646 LFWERLKNQEALNALDEAELEQLIAEAIEEALAEERARHSQTFPERFLELEQERLLQLLL 705 (874)
T ss_pred HHHHHhhchhhhhhCCHHHHHHHHHHHHHHHHHHhhhhccccccHHHHHHHHHHHHHHHH
Confidence 98854 456677777777766 1 11445666666 777776665
No 19
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=100.00 E-value=4.2e-32 Score=314.92 Aligned_cols=339 Identities=27% Similarity=0.409 Sum_probs=221.3
Q ss_pred EEeccCCCChhHHHHHHHhhh-----hhhhhhcccccccccCCCC-ceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCC
Q 001127 538 IRLTRNYRSTRCIVEAASSLI-----QHNVKRCQLKNVQTDNSHG-SKIIIKECHNEDAQCAFIIDKILEHASNGPASIC 611 (1148)
Q Consensus 538 ~~L~~nyRs~~~I~~~an~ll-----~~~~~~~~~~~~~~~~~~g-~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~ 611 (1148)
+.|++||||++.|++++|.++ ........ .........+ ..+.+..+.+.+.|+++|++.|+++... |+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~e~~~i~~~I~~l~~~----~~ 75 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYE-KEIQSAENSEDGKISIIEFDNEEEEAEYIAEEIKELIRN----GI 75 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCC-CEEEESSTCEESSEEEEEESSHHHHHHHHHHHHHHHHHT----TS
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhh-hhhccccccccCCceeeccCCHHHHHHHHHHHHHHHhhc----CC
Confidence 579999999999999999999 33333332 2222322222 5689999999999999999999999887 99
Q ss_pred CCCcEEEEEecCcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHHHHhh-hhhHHHHHH
Q 001127 612 SYGSIAILYRRQVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVFKAFL-LLEKEEKKR 689 (1148)
Q Consensus 612 ~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~llk~L~-~~~~~~~~~ 689 (1148)
+|+|||||+|++.+...+...|.++||||.+. +.+++++|.++.++++|+++.++.+..++.+++++.. .... .
T Consensus 76 ~~~diAVL~R~~~~~~~i~~~L~~~gIp~~~~~~~~~~~~~~v~~l~~lL~~l~~~~~~~~l~~~l~~~~~~~~~----~ 151 (351)
T PF13361_consen 76 PPSDIAVLVRTNSQIKEIEDALKEAGIPYRISGSKSLFESPEVKDLLSLLRLLLNPNDKLALLRLLKSPFFGLSK----K 151 (351)
T ss_dssp -GGGEEEEESSGGHHHHHHHHHHHTTS-EEESSSSBGGGSHHHHHHHHHHHHHHTTTSHHHHHHHCTSTTCTTTH----H
T ss_pred CcccEEEEEECchhHHHHHHHHhhhcceeEeccccchhccchHHHHHHHHhhccCcCCHHHHHhhccCccccCCH----H
Confidence 99999999999999999999999999999987 5689999999999999999999998888888887733 3322 2
Q ss_pred HHHHHHHHHhhhccchHHHHhh-hhhccccchhhhhhhHhhHHHHHHHHHHHHHHhhCCCHHHHHHHHHhhcHH-HHHHH
Q 001127 690 VIDHIDKISTIRKCSFISAACD-IFGAKISGTFKRSQLTQGRKVLLTLEMISKLVRREPSISAVITSVANMVPQ-KYLLE 767 (1148)
Q Consensus 690 ~id~Leny~~~~gi~~~~~~~~-~~~~~~~~~~~~~~~~~~r~~~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~-~~l~~ 767 (1148)
.++.+.++....++.++.+... .... ..............+...+..+........+..+++..++..... .++..
T Consensus 152 ~l~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~ 229 (351)
T PF13361_consen 152 DLDQLENYIKEEDISLFEALQNENIKE--NEELSKKLEERLKEFLELIEELREKLKNTSSLSELLEKIIEQFGLEKLLKK 229 (351)
T ss_dssp HHHHHHHHHHHTTSHHHHHHCT-HCHH--TSCSTHHHHHHHHHHHHHHHHHHHHHHTTSBHHHHHHHHHHHTTHHHHHHC
T ss_pred HHHHHHHHHhhccccHHHHHHhhhhhh--hhhhhhHHHHHHHHhhhccccccccccccCChhhHHHHHHhhccccccccc
Confidence 3566666666566665554431 0000 000111111112345555555554444456677777666554321 11110
Q ss_pred HhhhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhc-ccCCC
Q 001127 768 QRAVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFR-TQRHD 846 (1148)
Q Consensus 768 ~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~-~~ip~ 846 (1148)
. .+.......+..+++.+.++... ......++.+|+..+..+...... ...++
T Consensus 230 ~------------~~~~~~~~~l~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 283 (351)
T PF13361_consen 230 N------------AEGERRIENLEQFLELLREYASQ--------------NEDSLESLIDFLEELILQKEELEEEQIIDP 283 (351)
T ss_dssp S------------HHHHHHHHHHHHHHHHHHHHCCC--------------SCSSCHHHHHHHHHHHHTCCCTSTT--STT
T ss_pred h------------hhhcccchhhhhccchhhhhhhh--------------hhcccccccccccccccccccccccccccc
Confidence 0 01111122222233333333110 011134555665555544333222 24556
Q ss_pred CCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEEEe
Q 001127 847 NENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILYVM 918 (1148)
Q Consensus 847 ~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~ 918 (1148)
..|+|.|+|+|+|||+|||+|||+|+++|.||..... .....++||+||||||||||++.|||+|+.
T Consensus 284 ~~~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~-----~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 284 EDDGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSI-----EDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp CCGSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHH-----HHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred cccCcEEeeheeccccCCCeEEEecccCCcChHHHHH-----hhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 7899999999999999999999999999999953211 234678899999999999999999999974
No 20
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=100.00 E-value=4.2e-32 Score=310.67 Aligned_cols=272 Identities=32% Similarity=0.472 Sum_probs=194.1
Q ss_pred CCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcccc------
Q 001127 248 LNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKAT------ 306 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~------ 306 (1148)
||++|+++|.. .+++++|.|+||||| +.+|++||++||||.|+.+|++||...++...
T Consensus 1 l~~eQ~~~i~~-~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~~~~~~~ 79 (315)
T PF00580_consen 1 LTDEQRRIIRS-TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEEEQQESSDN 79 (315)
T ss_dssp S-HHHHHHHHS--SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCCHCCTT-
T ss_pred CCHHHHHHHhC-CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCccccccccc
Confidence 79999999965 899999999999999 36889999999999999999999999876543
Q ss_pred ---------CCCceEechHHHHHHHHHHHHHHhcCCCCceecChHH-----HHHHHHHHHHHHHhhhHHHHhhhhccccc
Q 001127 307 ---------AKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQ-----QRRAIIEAVRLLENEKILVVKRISTDMLT 372 (1148)
Q Consensus 307 ---------~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~-----~~~~l~~il~~~~~~~~~~~~~~~~d~l~ 372 (1148)
..++.|.|||+||++++++++...+..+.+.+.+... ....+.+++........... .
T Consensus 80 ~~~~~~~~~~~~~~i~T~hsf~~~ll~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~---- 151 (315)
T PF00580_consen 80 ERLRRQLSNIDRIYISTFHSFCYRLLREYGYEIGIDPNFEILDEEEQEILIQRELFKEILERYEKDKLNLD----K---- 151 (315)
T ss_dssp HHHHHHHHHCTTSEEEEHHHHHHHHHHHHHGGTTSHTTTEEECHHHHHHCCHHHHHHHHHHCHSTTTTTHH----C----
T ss_pred ccccccccccchheeehhhhhhhhhhhhhhhhhhccccceeecchhcccccchhhhhHHhhhhcccccccc----c----
Confidence 4689999999999999999999998888899998877 33344443331111100000 0
Q ss_pred cccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhh------HHHHHHHHHHHHHHHHHHC
Q 001127 373 TDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKI------GDEIGAAILENYNGILRSC 446 (1148)
Q Consensus 373 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~------~~~~~~~iy~~Y~~~L~~~ 446 (1148)
..+.............. .........+...+...+...+.....+...... .......+|+.|.+.+..+
T Consensus 152 --~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~ 227 (315)
T PF00580_consen 152 --EKLEKLIKEFSKSRYIK--KIDESLSKRFIEELKEFIKRIKEKQLEPKEQEKKFEISKNEREEIAEIYEEYEEQLRER 227 (315)
T ss_dssp --CHHHHHHHHHCCCCCCC--CCCCCCHHHHHHHHHHHHHHHHHTTCCTTHHTC--TSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred --ccccccccccccccccc--ccccccchhhHHHHHHHHHHhhhhccchhhhcchhhhhhHHHHHHHHHHHHHHHHHHhc
Confidence 00000000000000000 0000001122333444455667766666554331 2344578999999999999
Q ss_pred CCCCHHHHHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHcCC-cEEEEcCCCCcccccCCCChHHH
Q 001127 447 NALDYHDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILASHN-RITIVGDDDQSIFSFNGADISGF 525 (1148)
Q Consensus 447 ~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~~~-~l~lvGD~~QsIy~frga~~~lf 525 (1148)
+.+|++|++..+..+|..++.+...+..+|++|+||||||+||.|+.+|..|.... ++++|||++|+||+|||+++..|
T Consensus 228 ~~~d~~d~~~~~~~~l~~~~~~~~~~~~~~~~i~IDE~QD~s~~Q~~il~~l~~~~~~~~~vGD~~QsIY~frga~~~~~ 307 (315)
T PF00580_consen 228 GLIDFDDLLLLALELLRKDPEIREKIRQRYDHILIDEFQDTSPLQLRILKKLFKNPENLFIVGDPNQSIYGFRGADPELF 307 (315)
T ss_dssp TCEEHHHHHHHHHHHHHHCHHHHHHHHHHSSEEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE-GGG--GGGGTB-THHH
T ss_pred CCCChHHHHHHHHHhhccCHHHHHHHHhhCCeEEeEccccCCHHHHHHHHHHHHhhceeEEeCCCCcceeecCCCCHHHH
Confidence 99999999999999999999998888899999999999999999999999999855 79999999999999999999999
Q ss_pred HHHHHhc
Q 001127 526 DSFRKDF 532 (1148)
Q Consensus 526 ~~l~~~~ 532 (1148)
..+.+.|
T Consensus 308 ~~~~~~f 314 (315)
T PF00580_consen 308 EEFKERF 314 (315)
T ss_dssp HHHHHHS
T ss_pred HHHHhhc
Confidence 9998876
No 21
>TIGR01450 recC exodeoxyribonuclease V, gamma subunit. This model describes the gamma subunit of exodeoxyribonuclease V. Species containing this protein should also have the alpha (TIGR01447) and beta (TIGR00609) subunits. Candidates from Borrelia and from the Chlamydias differ dramatically and score between trusted and noise cutoffs.
Probab=99.94 E-value=6.3e-24 Score=275.92 Aligned_cols=336 Identities=11% Similarity=0.137 Sum_probs=239.7
Q ss_pred CceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHHHHC-----CCCeEEc-Cccccc
Q 001127 577 GSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAFRER-----KIPFNIH-GVAFYR 649 (1148)
Q Consensus 577 g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L~~~-----gIP~~i~-~~~l~~ 649 (1148)
+..|.++.|.+...|++.++++|.+++++ ..|++|+||+|++|+ +.|...|+.+|..+ +|||+++ +..+.+
T Consensus 350 D~SI~i~~chs~~rEvE~l~~~il~ll~~--d~~lrprDI~Vm~pdie~Y~p~I~aVF~~~~~~~~~IP~~i~d~~~~~~ 427 (1067)
T TIGR01450 350 DRSIQFHACHSPLREVEVLHDRLLALLEE--DPTLQPRDIIVMVPDIDSYAPYIEAVFGQAPVDARFLPYSLSDRRLRQR 427 (1067)
T ss_pred CCcEEEEeCCChHHHHHHHHHHHHHHHhh--CCCCCccceEEECCChHHhhhHHHHHcCCCCCCCCcCCeEecCCccccc
Confidence 45599999999999999999999999864 259999999999999 99999999999997 8999998 678899
Q ss_pred cHHHHHHHHHHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHHhhhccch-HHHHh----------h--hhhc
Q 001127 650 KKVVRAIIAMLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKISTIRKCSF-ISAAC----------D--IFGA 715 (1148)
Q Consensus 650 ~p~v~~i~slL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~~~~gi~~-~~~~~----------~--~~~~ 715 (1148)
+|+++.++++|++....+....+.+++++ ++.-......+.++.|+||+.+.|+++ ..... + .|..
T Consensus 428 ~Plv~~~l~LL~L~~~r~~~~~vl~LL~~p~v~~~f~l~~~dl~~L~~wv~~~girWGld~~~r~~~~lp~~~~~~tw~~ 507 (1067)
T TIGR01450 428 EPLLEAFIHLLDLPESRFTASEILALLDIPPVRARFGIDEDDLETLRRWVAEAGIRWGLDAEHRRELGLPATDQHNTWRF 507 (1067)
T ss_pred CHHHHHHHHHHhCcccCCCHHHHHHHHcCHHHHHHcCCCHHHHHHHHHHHHHhCceeCCCHHHHHhcCCCCccccccHHH
Confidence 99999999999999999998999998887 221000112345899999999999983 21000 0 1110
Q ss_pred cc---------c---chhhh----hhhH-h----hHHHHHH---HHHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhh
Q 001127 716 KI---------S---GTFKR----SQLT-Q----GRKVLLT---LEMISKLVRREPSISAVITSVANMVPQKYLLEQRAV 771 (1148)
Q Consensus 716 ~~---------~---~~~~~----~~~~-~----~r~~~~~---l~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~ 771 (1148)
.+ . +.+.. .... . ...+... |..+...+....++.+....+...+..-
T Consensus 508 gl~Rlllg~a~~~~~~~~~~i~p~~~~~~~~~~llg~L~~fl~~L~~~~~~l~~~~~l~~W~~~l~~~l~~~-------- 579 (1067)
T TIGR01450 508 GLERMLLGYAMGEDAGIWQGVLPYDDVGGLQAELAGRLAEFLERLSHWRRGLAQPRPLEQWLERLRDLLDAL-------- 579 (1067)
T ss_pred HHHHHHHhcccCCCccccccccccCCccccHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH--------
Confidence 00 0 00100 0000 0 1112222 2222222233444444443333322110
Q ss_pred cccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcE
Q 001127 772 VDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSV 851 (1148)
Q Consensus 772 ~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V 851 (1148)
.. .+.....+..++|+.+..+++++.....+. .+++..|.++|..++.+...+. +...++|
T Consensus 580 ~~-~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~-----------------~l~l~~~~~~L~~~l~~~~~~~-~~~~g~V 640 (1067)
T TIGR01450 580 FA-VDDTDELALTQLEREWVDWQAEAAGAQFAQ-----------------PLPLEVVRDHLAALLDDEPTSA-RFLAGGV 640 (1067)
T ss_pred hC-CCcchHHHHHHHHHHHHHHHHHHHhCCCCC-----------------CcCHHHHHHHHHHHhcCCCccC-CccCCce
Confidence 00 011112345667777666666655433322 6899999999999988776665 7889999
Q ss_pred EEEccccccCCCCCEEEEeecCCCCCccccccCCcc-------CcccccHHHHHHHHHHHHhcccceEEEEEEeecc-cc
Q 001127 852 TLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAV-------NEKGTSVEEERRLLYVAMTRARKKLFILYVMMDA-NW 923 (1148)
Q Consensus 852 ~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l-------~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~-~g 923 (1148)
+|+|+..+++..|++|||+|||||.||......|+- .......++||++||.|++.|+++|||||+..+. +|
T Consensus 641 t~~~l~pmR~ipfkvV~lLGmnDg~fPr~~~~~~fdll~~~~~~gdrs~r~ddrylfLeallsAre~LyiSY~g~~~~d~ 720 (1067)
T TIGR01450 641 NFCTLVPMRSIPFRVVCLLGMNDGDYPRQQHPAGFDLMAREPRKGDRSRRDDDRYLFLEALLSAQEQLYISYVGRSIRDN 720 (1067)
T ss_pred EEeecCccCCCCeeEEEEeCCCCCCCCCCCCCCCCchhhcCCCCCCCcchhhHHHHHHHHHHHhHhcEEEEEcCCcCCCC
Confidence 999999999999999999999999999988766542 1123456699999999999999999999999887 88
Q ss_pred cccCCchhHHhhhhhhHH
Q 001127 924 QLLQPSRFLKEIPHHLRE 941 (1148)
Q Consensus 924 ~~~~PS~fl~~l~~~f~~ 941 (1148)
+...||++|.+|.+.|..
T Consensus 721 ~~~~PS~lV~eL~~~l~~ 738 (1067)
T TIGR01450 721 SERPPSVLLGELIDYLVQ 738 (1067)
T ss_pred CcCCCcHHHHHHHHHHHH
Confidence 899999999999988753
No 22
>PRK11069 recC exonuclease V subunit gamma; Provisional
Probab=99.94 E-value=2.7e-24 Score=278.64 Aligned_cols=334 Identities=13% Similarity=0.118 Sum_probs=234.4
Q ss_pred CceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHHHHC----CCCeEEc-Ccccccc
Q 001127 577 GSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAFRER----KIPFNIH-GVAFYRK 650 (1148)
Q Consensus 577 g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L~~~----gIP~~i~-~~~l~~~ 650 (1148)
+..|.++.|.+...|++.++++|.+++++ ..+++|+||+|++|+ +.|...|+.+|..+ +|||+++ ...+.++
T Consensus 371 D~SI~ih~chs~~REvEvL~d~Il~l~~~--d~~lrprDI~Vm~pdie~Yap~I~aVF~~~~~~~~IP~~i~d~~~~~~~ 448 (1122)
T PRK11069 371 DRSLSFHVCHSPQREVEVLHDRLLAMLEA--DPTLTPRDIIVMVADIDSYSPFIQAVFGNAPAERYLPFAISDRRARQAH 448 (1122)
T ss_pred CCcEEEEecCCHHHHHHHHHHHHHHHHhh--CCCCCcceEEEECCChHHhHHHHHHHhCCCCCCCccceEEecccccccC
Confidence 45699999999999999999999999865 258999999999999 99999999999998 8999998 5788899
Q ss_pred HHHHHHHHHHHHhCCCCCCchHHHHHHH-hhhhhHHHHHHHHHHHHHHHhhhccch-HHHHh-hhhhcc--ccchhhhhh
Q 001127 651 KVVRAIIAMLRTTLPGCDDGPYRRVFKA-FLLLEKEEKKRVIDHIDKISTIRKCSF-ISAAC-DIFGAK--ISGTFKRSQ 725 (1148)
Q Consensus 651 p~v~~i~slL~~~~~~~d~~~~~~llk~-L~~~~~~~~~~~id~Leny~~~~gi~~-~~~~~-~~~~~~--~~~~~~~~~ 725 (1148)
|++..++++|++....+....+++++++ ++........+.++.++|++.+.||++ ..... ..+... -...|...
T Consensus 449 Pli~~l~~LL~L~~~rf~~~~vl~LL~~~~v~~~f~l~~~dl~~l~~wv~~~GIrWGld~~~r~~~~lp~~~~~tW~~g- 527 (1122)
T PRK11069 449 PVLQAFISLLSLPDSRFTAEDVLALLEVPALAARFAITEEGLRYLRQWVEESGIRWGLDDDNVRELELPATGQHTWRFG- 527 (1122)
T ss_pred HHHHHHHHHHhCcccCCCHHHHHHHhcChHHHHHcCCCHHHHHHHHHHHHHcCCccCCCHHHHHhcCCCCcCcCCHHHH-
Confidence 9999999999999999999999999887 221000112455899999999999983 21111 001000 00111100
Q ss_pred hHhhHHHHHHH--------HHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccccccccchhHHHHHH-HHHHH
Q 001127 726 LTQGRKVLLTL--------EMISKLVRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQ-YLLAD 796 (1148)
Q Consensus 726 ~~~~r~~~~~l--------~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~-~lld~ 796 (1148)
..|.++... ..+........+..+++..+++++. .+..++..+...+ .-..|..+. .++++
T Consensus 528 --l~RlllG~a~~~~~~~~~~i~p~~~~~~~~~~l~g~L~~fl~--~L~~~~~~l~~~~------~~~~W~~~l~~lLd~ 597 (1122)
T PRK11069 528 --LTRMLLGYAMESAAGEWQGVLPYDESSGLIAELAGHLASLLM--QLNIWRRGLAQPR------PLEEWLPVCRQLLDD 597 (1122)
T ss_pred --HHHHHHhhccCCCCCccCcccccccccccHHHHHHHHHHHHH--HHHHHHHHHcCCC------CHHHHHHHHHHHHHH
Confidence 001111100 0011111123456778888888875 2333333332221 122444433 55555
Q ss_pred HHHHHHhhhhhhhccCCcccccccccch----HHHHHHHHHhhhhhhhcccCCCCC---------C-----------cEE
Q 001127 797 VTDFLSTKFTAAKEEGNVDQDKKGCINV----LKAFIDYISERETEHFRTQRHDNE---------N-----------SVT 852 (1148)
Q Consensus 797 l~e~l~~~~~~~~~~~~~~~~~~~~~~~----L~~f~~~L~~~~~~~~~~~ip~~~---------D-----------~V~ 852 (1148)
+....++. ..+ .+.|.+++..+........+|++. | +|+
T Consensus 598 ~~~~~~e~-----------------~~~l~~i~~~~~~l~~~~~~a~~~~~Ip~~vv~~~l~~~Ld~~~~~~~Fl~G~Vt 660 (1122)
T PRK11069 598 FFLPDAET-----------------EAALALIEQQWQAIIEEGLDAQYGDAVPLSLLRDELAQRLDQERISQRFLAGPVN 660 (1122)
T ss_pred HhCCCcch-----------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHhhcccccCcccCCceE
Confidence 44332221 233 455666676666666666676655 5 999
Q ss_pred EEccccccCCCCCEEEEeecCCCCCccccccCCc--c-----CcccccHHHHHHHHHHHHhcccceEEEEEEeecccccc
Q 001127 853 LTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGA--V-----NEKGTSVEEERRLLYVAMTRARKKLFILYVMMDANWQL 925 (1148)
Q Consensus 853 V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~--l-----~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g~~ 925 (1148)
++|+..+|...|+|||++|||||.||......|+ + ........+||++||-|+|.|+++|||||+..+..+..
T Consensus 661 f~tl~pmR~iPfkvV~lLGmndg~fPr~~~~~gfdlm~~~~~~gDr~rr~dDrylfLeAllsAre~LyiSY~g~~~~~n~ 740 (1122)
T PRK11069 661 FCTLMPMRSIPFKVVCLLGMNDGVYPRTLPPLGFDLMSQKPKRGDRSRRDDDRYLFLEALLSAQQQLYISYIGRSIQDNS 740 (1122)
T ss_pred EccCCcccCCCeeeEEEeCCCCCCCCCCCCCCCCcccccCCCCCCCccchhhHHHHHHHHHhhhhcEEEEEeCCCCCCCC
Confidence 9999999999999999999999999998876654 1 12235678999999999999999999999999877765
Q ss_pred -cCCchhHHhhhhhhH
Q 001127 926 -LQPSRFLKEIPHHLR 940 (1148)
Q Consensus 926 -~~PS~fl~~l~~~f~ 940 (1148)
..||.+|.+|.+.|.
T Consensus 741 ~~~PS~lV~eL~~~l~ 756 (1122)
T PRK11069 741 ERFPSVLVSELLEYIG 756 (1122)
T ss_pred cCCCcHHHHHHHHHHH
Confidence 889999999998875
No 23
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=99.93 E-value=5.2e-25 Score=270.80 Aligned_cols=150 Identities=13% Similarity=0.199 Sum_probs=106.0
Q ss_pred cCcCEEEEecC-ccCCHHHHHHHHHHHcCCcEEEEcCCCC---cccccC--CCChHHHHHHHHhcCCceEEEeccCCCCh
Q 001127 474 DSWKAIIVDEF-QDTSAMQYSLLQILASHNRITIVGDDDQ---SIFSFN--GADISGFDSFRKDFLNYKEIRLTRNYRST 547 (1148)
Q Consensus 474 ~~fd~IiIDEf-QDftp~q~~lL~~L~~~~~l~lvGD~~Q---sIy~fr--ga~~~lf~~l~~~~~~~~~~~L~~nyRs~ 547 (1148)
..||+|+|||+ |.+.|. +|..|..+.++++|||+.| .+++.. |...++|.++.+.++.. ...|++||||+
T Consensus 360 ~~Fd~vIIDEAsQ~~ep~---~lipl~~~~~~vLvGD~~QLpP~v~s~~~~~l~~SlferL~~~~~~~-~~~L~~QYRMh 435 (637)
T TIGR00376 360 WEFDVAVIDEASQAMEPS---CLIPLLKARKLILAGDHKQLPPTILSHDAEELELTLFERLIKEYPER-SRTLNVQYRMN 435 (637)
T ss_pred CCCCEEEEECccccchHH---HHHHHhhCCeEEEecChhhcCCccccccccccchhHHHHHHHhCCCc-eeecchhcCCC
Confidence 48999999999 666665 3345556679999999999 666544 45678999998887653 67899999999
Q ss_pred hHHHHHHHhhhhhhhhhcccc-------ccc---cc-----CCCCceeEEe---------------cCCCHHHHHHHHHH
Q 001127 548 RCIVEAASSLIQHNVKRCQLK-------NVQ---TD-----NSHGSKIIIK---------------ECHNEDAQCAFIID 597 (1148)
Q Consensus 548 ~~I~~~an~ll~~~~~~~~~~-------~~~---~~-----~~~g~~i~l~---------------~~~~~~~E~~~Va~ 597 (1148)
+.|++|++..||++.-..... ..+ .. ...+.++.++ ....+..|+..|+.
T Consensus 436 ~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~ 515 (637)
T TIGR00376 436 QKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTSKYNPGEAELVSE 515 (637)
T ss_pred HHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCccccccccCCCCCcCCHHHHHHHHH
Confidence 999999999998764321100 000 00 0001112221 12335789999999
Q ss_pred HHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHH
Q 001127 598 KILEHASNGPASICSYGSIAILYRRQVSGKVFQT 631 (1148)
Q Consensus 598 ~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~ 631 (1148)
.|..++.. |+.+.+|+||+|+++|...|..
T Consensus 516 ~v~~l~~~----g~~~~~IgVItPY~aQv~~L~~ 545 (637)
T TIGR00376 516 IIQALVKM----GVPANDIGVITPYDAQVDLLRQ 545 (637)
T ss_pred HHHHHHhc----CCCcceEEEEcccHHHHHHHHH
Confidence 99999876 8999999999998776554443
No 24
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=99.91 E-value=6.6e-25 Score=251.83 Aligned_cols=374 Identities=14% Similarity=0.173 Sum_probs=225.5
Q ss_pred cchhcccccccccCcCCcccchhhhh-------hhccC-ChhHHHHHhhcCCHHHHHHhccCCC--CCEEEEecCCCCC-
Q 001127 206 NIRMDISMDLAGDMKSSMEKTDTIQT-------IKTQN-MPDEYSKYLQSLNDQQLEAACGDMS--TPLLIVAGPGSGK- 274 (1148)
Q Consensus 206 ~~r~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~-~~~~~~~~~~~Ln~~Qr~aV~~~~~--~~~lI~G~AGSGK- 274 (1148)
-.||..+|..+.....+....++... ++... +......+...||.+|++||....+ .+..|.|||||||
T Consensus 136 y~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT 215 (649)
T KOG1803|consen 136 YRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEIKKITFFNKNLNSSQKAAVSFAINNKDLLIIHGPPGTGKT 215 (649)
T ss_pred heecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhhcccccCCccccHHHHHHHHHHhccCCceEeeCCCCCCce
Confidence 45777788777664433222221111 11111 2235566889999999999955443 4678889999999
Q ss_pred ----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHH
Q 001127 275 ----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQ 344 (1148)
Q Consensus 275 ----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~ 344 (1148)
....++||||.+||.|+++|.+||.- .+ ..-++++...++-..+....-...-.. -+..+.
T Consensus 216 ~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~~-~~---~~l~R~g~paRl~~~~~~~sld~~~~t-----~d~~~~ 286 (649)
T KOG1803|consen 216 RTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLTH-LK---LNLVRVGHPARLLESVADHSLDLLSNT-----KDNSQN 286 (649)
T ss_pred eeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhcc-cc---cchhhcCchhhhhhhhhhhHHHHHHhc-----Cchhhh
Confidence 34679999999999999999999972 11 112233333333222211110000000 000000
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhccccccccchhhhHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHH
Q 001127 345 RRAIIEAVRLLENEKILVVKRISTDMLTTDGHFGYMRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEF 424 (1148)
Q Consensus 345 ~~~l~~il~~~~~~~~~~~~~~~~d~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l 424 (1148)
...+++ .+... |. .....+.. ..
T Consensus 287 ~~~~sk---~~d~~--------------------------------------------~~-----~~~~tk~~-----~~ 309 (649)
T KOG1803|consen 287 AKDISK---DIDIL--------------------------------------------FQ-----KNTKTKND-----KL 309 (649)
T ss_pred hhhhHH---HHHHH--------------------------------------------hh-----hhhcccch-----HH
Confidence 000000 00000 00 00000000 00
Q ss_pred HhhHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcccHHHHH--HhccCcCEEEEecC-ccCCHHHHHHHHHHHcC
Q 001127 425 RKIGDEIGAAILENYNGILRSCNALDYHDLISCSVKLLSTFPEVFQ--EYQDSWKAIIVDEF-QDTSAMQYSLLQILASH 501 (1148)
Q Consensus 425 ~~~~~~~~~~iy~~Y~~~L~~~~~iD~~Dll~~a~~lL~~~~~l~~--~l~~~fd~IiIDEf-QDftp~q~~lL~~L~~~ 501 (1148)
.+..+..++.+++.++++......+++..+..++.+.-.... .....||.++|||+ |-..|++|-. +.++
T Consensus 310 ----~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~vIIDEaaQamE~~cWip---vlk~ 382 (649)
T KOG1803|consen 310 ----RKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDLVIIDEAAQAMEPQCWIP---VLKG 382 (649)
T ss_pred ----HHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCEEEEehhhhhccchhhhH---HhcC
Confidence 001122334445555555566667777777666654322111 12246999999999 7777777754 5567
Q ss_pred CcEEEEcCCCC---cccccC----CCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcc--------
Q 001127 502 NRITIVGDDDQ---SIFSFN----GADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQ-------- 566 (1148)
Q Consensus 502 ~~l~lvGD~~Q---sIy~fr----ga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~-------- 566 (1148)
.+++++|||+| .|++-. |-..++|+++.+.+++...+.|+++|||+..|+.++|..||++.-...
T Consensus 383 kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~v~~~lL 462 (649)
T KOG1803|consen 383 KKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASSVASHLL 462 (649)
T ss_pred CceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecchhhhhhh
Confidence 79999999999 344432 335689999999999888899999999999999999999998652110
Q ss_pred -------------cccccccCCCCc------eeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChH
Q 001127 567 -------------LKNVQTDNSHGS------KIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGK 627 (1148)
Q Consensus 567 -------------~~~~~~~~~~g~------~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~ 627 (1148)
.+.+..++.... .-......++..|++.|..+|.+|+.. |+.++|||||+||++|+.
T Consensus 463 ~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~----gV~p~dIaVIsPY~aQv~ 538 (649)
T KOG1803|consen 463 RDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEA----GVQPSDIAVISPYNAQVS 538 (649)
T ss_pred hcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHc----CCChhHeEEeccchHHHH
Confidence 011111111100 000112446778999999999999998 999999999999999999
Q ss_pred HHHHHHHHCCCCeEEcCccccccHHHHHH
Q 001127 628 VFQTAFRERKIPFNIHGVAFYRKKVVRAI 656 (1148)
Q Consensus 628 ~l~~~L~~~gIP~~i~~~~l~~~p~v~~i 656 (1148)
+++.........+.+.+++.|++++.+.+
T Consensus 539 llR~~~~~~~~~veV~TVD~fQGrEkdvV 567 (649)
T KOG1803|consen 539 LLREEDEEDFRDVEVGTVDGFQGREKDVV 567 (649)
T ss_pred HHhhcccccCccceeecccccccceeeEE
Confidence 99944444445577888999999887643
No 25
>PF04257 Exonuc_V_gamma: Exodeoxyribonuclease V, gamma subunit ; PDB: 1W36_F 3K70_C.
Probab=99.91 E-value=3.9e-21 Score=244.13 Aligned_cols=435 Identities=14% Similarity=0.169 Sum_probs=228.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCCcEEEE---------cCCC---Cccc---------ccCCCChHHH--------
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHNRITIV---------GDDD---QSIF---------SFNGADISGF-------- 525 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lv---------GD~~---QsIy---------~frga~~~lf-------- 525 (1148)
..+.|+|=+.....|.++.+|+.|++...|.+. ||-. +... ........++
T Consensus 210 lP~ri~vFgis~lpp~~l~~L~~Ls~~~~V~l~~lnP~~~yW~d~~~~~~~~~~~~~~~~~~~~~~~~~pLLa~~Gk~gr 289 (805)
T PF04257_consen 210 LPERIFVFGISSLPPLYLQFLQALSRHIDVHLFLLNPCREYWGDIVSEKRRARAQLKDREEDEYLEVGNPLLASWGKQGR 289 (805)
T ss_dssp --SEEEEES-----HHHHHHHHHHTTSSEEEEEEE-S-SS--S--S-TTTSTTSSSTT-SSSS-S--SSHHHHHCTHHHH
T ss_pred CCCeEEEEecCCCCHHHHHHHHHHhccCeEEEEecCCCHHHHHHHhhhHhhhhhccccCchhhhhhccchHHHHHHHHHH
Confidence 455899999999999999999999997654443 3311 1110 0000001111
Q ss_pred --HHHHHhc-CCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHH
Q 001127 526 --DSFRKDF-LNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEH 602 (1148)
Q Consensus 526 --~~l~~~~-~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~L 602 (1148)
..+.... .......+-.......-+-.+-+.++....... .... ....+..+.++.|.+...|++.+++.|.++
T Consensus 290 d~~~lL~~~~~~~~~~~~f~~~~~~tlL~~lQ~dIl~~~~~~~--~~~~-~~~~D~Si~ih~c~s~~REvE~l~d~il~~ 366 (805)
T PF04257_consen 290 DFFRLLEELDPEAQEIELFEEPKPDTLLHQLQNDILNLSEAEE--EPLE-LDENDDSIQIHSCHSPLREVEVLADQILQL 366 (805)
T ss_dssp HHHHHHTT--SSEEEEEE-----S-SHHHHHHHHHHHHHH--T--TSEE---TT--SSEEEEESSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcccccchhhccCCCcccHHHHHHHHHHhcccccc--cccC-CCCCCCCEEEEeCCCHHHHHHHHHHHHHHH
Confidence 1111111 111112221111112223344455555211111 1111 222344599999999999999999999999
Q ss_pred hhcCCCCCCCCCcEEEEEec-CcChHHHHHHH----HHCCCCeEEc-CccccccHHHHHHHHHHHHhCCCCCCchHHHHH
Q 001127 603 ASNGPASICSYGSIAILYRR-QVSGKVFQTAF----RERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLPGCDDGPYRRVF 676 (1148)
Q Consensus 603 v~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L----~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~~~d~~~~~~ll 676 (1148)
+++. .+++|+||+|++|+ +.|...|+.+| ..++|||+++ ......+|+++.++++|.+..+.+....+.+++
T Consensus 367 l~~~--~~l~p~DI~Vm~pdi~~Yap~I~aVF~~~~~~~~iP~~i~d~~~~~~~pl~~~~~~lL~l~~~rf~~~~vl~lL 444 (805)
T PF04257_consen 367 LAED--PGLRPRDILVMAPDIEDYAPYIEAVFGSASDQYRIPYFIADRSPMQEHPLVEAFLSLLDLASSRFSYEDVLDLL 444 (805)
T ss_dssp HHHS--TT--GGGEEEEESTCCCCHHHHHHHTS--TTTT----EE-SEETGGG-HHHHHHHHHGGGGG----HHHHHHHT
T ss_pred HhhC--CCCCcccEEEECCCHHHHHHHHHHHhCCCCCCCccCeEEeCcchhccCHHHHHHHHHHhhhhcCCCHHHHHHHH
Confidence 8762 48999999999999 99999999999 5899999997 467889999999999999999988888888888
Q ss_pred HHh-hhhhHHHHHHHHHHHHHHHhhhccc-hHHHHhh-h----------hhccc---------c----chh---------
Q 001127 677 KAF-LLLEKEEKKRVIDHIDKISTIRKCS-FISAACD-I----------FGAKI---------S----GTF--------- 721 (1148)
Q Consensus 677 k~L-~~~~~~~~~~~id~Leny~~~~gi~-~~~~~~~-~----------~~~~~---------~----~~~--------- 721 (1148)
++- +.-......+.++.+++++...||+ |+.+... . |...+ . ..+
T Consensus 445 ~~p~v~~~f~l~~~d~~~l~~wl~~agirWG~d~~~r~~~~~~~~~~~Tw~~gl~RLllG~~~~~~~~~~~~~~~p~~~~ 524 (805)
T PF04257_consen 445 KTPAVQRKFGLDDEDLDRLERWLEEAGIRWGLDAEHRAELGLPEDEQNTWEFGLDRLLLGYAMPEEEDTIWEGILPYDEV 524 (805)
T ss_dssp TSHHHHHCTT--HHHHHHHHHHHHHHT--S-SSCHHHHCTT----SSSSHHHHHHHHHHHHSS-S-TT--SSS----TTS
T ss_pred hChHHHhhcCCCHHHHHHHHHHHHHhCCeecCChhhhhhccCCCccccCHHHHHHHHHHHhhcccccccccccccccccc
Confidence 762 1101122234577778887777775 2211110 0 10000 0 000
Q ss_pred hhhhhHhhHHHHHHHHHHHHH---HhhCCCHHHHHHHHHhhcHHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHH
Q 001127 722 KRSQLTQGRKVLLTLEMISKL---VRREPSISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLADVT 798 (1148)
Q Consensus 722 ~~~~~~~~r~~~~~l~~l~~~---~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~l~ 798 (1148)
.........++...+..+.+. +....++.+....+..++..- . ....++.+.+..+...++.+.
T Consensus 525 ~~~~~~~lg~l~~~~~~L~~~~~~l~~~~~~~~W~~~l~~~l~~~--------f-----~~~~~~~~~~~~l~~~l~~l~ 591 (805)
T PF04257_consen 525 EGSDAELLGKLAEFIESLYKWLEELSQPRTLEEWRERLRELLDDF--------F-----AEDEEEQQALQQLRQALDDLI 591 (805)
T ss_dssp -STTHHHHHHHHHHHHHHHHHHHHSSS-B-HHHHTTHHHHHHHHH-----------------SHHHHHHHHHHHHHHHHH
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh--------c-----cCChhhHHHHHHHHHHHHHHH
Confidence 000011112233333333333 333344444433333222110 0 011234445566666666666
Q ss_pred HHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCc
Q 001127 799 DFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIP 878 (1148)
Q Consensus 799 e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P 878 (1148)
+..... .....++++.|.++|..++.....+ .+...++|+++++-.+|+..|++|+|+|+|+|.||
T Consensus 592 ~~~~~~-------------~~~~~l~~~~~~~~L~~~l~~~~~~-~~~~~G~Vtfcsl~pmR~iPfkvI~lLGmndg~FP 657 (805)
T PF04257_consen 592 EQADDA-------------GFDEPLSLEVFRELLEERLESQQGS-QGFLSGGVTFCSLMPMRSIPFKVICLLGMNDGVFP 657 (805)
T ss_dssp HHHHHT-------------T--S-B-HHHHHHHHHHHHHH-EE--TTTTSSS-EEEE--TT----EEEEEEE--BTTTSS
T ss_pred HHHHhc-------------cCCCccCHHHHHHHHHHHhhccccc-CCCCCCCeEEEeCccccCCCccEEEEeCCCCCCCC
Confidence 655443 0112489999999999998877666 56678999999999999999999999999999999
Q ss_pred cccccCCc--cC-----cccccHHHHHHHHHHHHhcccceEEEEEEeec-ccccccCCchhHHhhhhhhHH
Q 001127 879 LVHEFNGA--VN-----EKGTSVEEERRLLYVAMTRARKKLFILYVMMD-ANWQLLQPSRFLKEIPHHLRE 941 (1148)
Q Consensus 879 ~~~~~~g~--l~-----d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d-~~g~~~~PS~fl~~l~~~f~~ 941 (1148)
......|. +. .......++|++||-|++.|+++|||||+..+ .+|+...||.+|.+|.+.+..
T Consensus 658 r~~~~~~fDLm~~~~r~GDrs~r~dDrylFLeaLlSAr~~L~iSY~g~~~~dn~~~~PS~~v~ELl~~l~~ 728 (805)
T PF04257_consen 658 RRDRPDGFDLMARQPRPGDRSRRDDDRYLFLEALLSARDRLYISYVGRDIRDNSELPPSVVVSELLDYLAQ 728 (805)
T ss_dssp ------SS-HHHHS--TT---HHHHHHHHHHHHHHHEEEEEEEEEE-B-TTT--B--B-HHHHHHHHHHHT
T ss_pred CCCCCCCcchhhcCCCCCCcccchhHHHHHHHHHHhhhceEEEEEecCCCCCCCcCCCcHHHHHHHHHHHH
Confidence 98776653 11 12246789999999999999999999999976 578899999999999887653
No 26
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=99.88 E-value=6.4e-24 Score=252.58 Aligned_cols=381 Identities=18% Similarity=0.135 Sum_probs=218.5
Q ss_pred HHHHhhcCCHHHHHHhccCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc
Q 001127 241 YSKYLQSLNDQQLEAACGDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKA 305 (1148)
Q Consensus 241 ~~~~~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~ 305 (1148)
+..+...|+.+|+..+..+ -....|+++||||| ...++.|++.|+||.|++.++.++...++..
T Consensus 7 ~ds~~~~l~~~q~~~~~~~-~~~~rviagpgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~il~~~ 85 (853)
T KOG2108|consen 7 WDSLYSLLNKSQRFSALSP-LRRKRVIAGPGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAILRTS 85 (853)
T ss_pred hHHhhhhhhhhhhhhhcCC-CcccceeecCCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHHhcCC
Confidence 4456778899999987544 34467788899999 4678999999999999999999999988766
Q ss_pred cCCCceEechHHHHHHHHHHHHHHhcCCCCceecChHHHHH----HHHHHHHHHHhhhHHHH--hhhhccccccccchhh
Q 001127 306 TAKELTISTFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRR----AIIEAVRLLENEKILVV--KRISTDMLTTDGHFGY 379 (1148)
Q Consensus 306 ~~~~v~V~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~----~l~~il~~~~~~~~~~~--~~~~~d~l~~~~~f~~ 379 (1148)
.....-+.|||+.|....-..+...++..+..+.+..+-.. .+.++++.+..-..... .++..........+ .
T Consensus 86 ~~sk~Ii~~f~sia~~~~l~~~~l~~l~e~~~i~~~~~~~ail~~~~~~~l~~i~~~~ss~~r~~~l~~~~~~~~~t~-~ 164 (853)
T KOG2108|consen 86 KCSKEIIGTFHSIAVKYSLRDGPLLPLSENCRIQDLPDTYAILGDNIWALLAKIKLPSSSSNRKQRLLFPLRRPDSTV-T 164 (853)
T ss_pred CCChhhccccceeEEEEEecccccccccchhHHhcchhHHHHhhhhHHHHHHHhhchhhcchhhhhhcccccccccce-e
Confidence 66666789999976654333333333332222211110000 01111111111000000 00000000000000 0
Q ss_pred hHHHHHHHHHHhhhhhhhhHHhhhHHHHHhhHHHHHHcCCCHHHHHhhHH------H--HHHHHHHHHHHHHHHCCCCCH
Q 001127 380 MRASLFMMNAMLFFSMSSFKLCQYNKFERDGMDVAKASGKTPAEFRKIGD------E--IGAAILENYNGILRSCNALDY 451 (1148)
Q Consensus 380 ~~~~~~~~~~~~~~~~~~~~~~~f~~~l~~~i~~~k~~~~~~e~l~~~~~------~--~~~~iy~~Y~~~L~~~~~iD~ 451 (1148)
+.+.. ... ++.....+....+ + .....|..|+. ..|+
T Consensus 165 -----------------------~~n~~-----~~~-~~~~~~~~~~~e~~i~~~~~~d~~~~~~~~~qt------l~ds 209 (853)
T KOG2108|consen 165 -----------------------KPNVT-----ETL-YSIAVLLLAMFEEGINVSNRDDYEIYYYLYLQT------LEDS 209 (853)
T ss_pred -----------------------cCCcc-----cCc-ccHHHHHHHhcccccccccchhhhhhHHhhhcc------ccch
Confidence 00000 000 0000011110000 0 00111222221 6788
Q ss_pred HHHHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCCCcccccCCCChHHHHHHHHh
Q 001127 452 HDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDDQSIFSFNGADISGFDSFRKD 531 (1148)
Q Consensus 452 ~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~ 531 (1148)
++.+.....++...+. +.+.-.+++||||||+.+.|+.++. +++...++.+||++|+||+|+|+.+..+.....-
T Consensus 210 ct~~~~~~~~~q~~~~----~~n~~t~vLvdEfqd~~~~qL~p~~-~~k~~~~a~tGdt~qsIy~fa~~~a~~~~l~~~f 284 (853)
T KOG2108|consen 210 CTLAMNSLKVLQRPRV----CSNKITHVLVDEFQDILKIQLEPLQ-VLKIKAFAGTGDTDQSIYKFAGKWAEIRILYVTF 284 (853)
T ss_pred HHHHHHHHHHhhcchh----ccCCcceEEeeccccccccccchHH-HHhhhhheeecCchHHHHHHhhhhhhHHHHHHhh
Confidence 9888888777765432 2345669999999999999999988 5566689999999999999999766554433222
Q ss_pred cC--CceEEEeccCCCChhHHHHHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHH-HHHHHhhcCCC
Q 001127 532 FL--NYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIID-KILEHASNGPA 608 (1148)
Q Consensus 532 ~~--~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~-~I~~Lv~~~~~ 608 (1148)
.+ ......|-.|||+.++|...+...+.....+..........+..-...+..+....-++.++++ .+..++..+
T Consensus 285 ~~~~~~~~~~lf~n~rs~~~ih~la~~~I~~~~~~~kk~~~~~~~ps~~~~~l~~~~~~f~kA~~~~~~~~~~~vaa~-- 362 (853)
T KOG2108|consen 285 NKFIATQAERLFPNNRSCKTIHSLAYGAIGRQYQEKKKLLLRKLTPSELNSVLAEFKGGFPKAKLKCRTEENFLVAAD-- 362 (853)
T ss_pred CcHHHHHHHHHhhcccccHHHHHHHHHHHhhhhhhhhcccccccCcchhhhhhcccccccccccccCchhhhhhhccC--
Confidence 21 1233567789999999999988776544322111111111100000111111222223334444 444444332
Q ss_pred CCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHHHHHHhCC
Q 001127 609 SICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIAMLRTTLP 665 (1148)
Q Consensus 609 ~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~slL~~~~~ 665 (1148)
.-..+.|+++|++...+...++.+|.+.++|+.+- ...++...+.+..+..+++..+
T Consensus 363 ~eft~n~h~~l~cs~s~~~~~~~v~ve~~~~~k~i~~~sflds~~~r~~l~~~~~~~n 420 (853)
T KOG2108|consen 363 IEFTINDHAILWCSSSQLSSFESVLVEQREKYKLIAVASFLDSNERRLGLNYEKLHAN 420 (853)
T ss_pred ceeeecchhhhhhhhhhccchHHHHHHhcCchhheeehhhhchhhHHHHHHHHHhhcc
Confidence 23456699999999999999999999999999876 4578888888888888888764
No 27
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.80 E-value=4.7e-19 Score=211.95 Aligned_cols=152 Identities=20% Similarity=0.244 Sum_probs=111.1
Q ss_pred cCcCEEEEecCccCC-HHHHHHHHHHHcCCcEEEEcCCCCccc-------ccCCCChHHHHHHHHhcCCceEEEeccCCC
Q 001127 474 DSWKAIIVDEFQDTS-AMQYSLLQILASHNRITIVGDDDQSIF-------SFNGADISGFDSFRKDFLNYKEIRLTRNYR 545 (1148)
Q Consensus 474 ~~fd~IiIDEfQDft-p~q~~lL~~L~~~~~l~lvGD~~QsIy-------~frga~~~lf~~l~~~~~~~~~~~L~~nyR 545 (1148)
..||++||||+.... |. .|..|.-..++++|||+.|--- +-.|.+.++|.++.+.++. ....|+.+||
T Consensus 795 R~FD~cIiDEASQI~lP~---~LgPL~~s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpe-aV~~Lt~QYR 870 (1100)
T KOG1805|consen 795 RQFDYCIIDEASQILLPL---CLGPLSFSNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPE-AVSSLTLQYR 870 (1100)
T ss_pred cccCEEEEccccccccch---hhhhhhhcceEEEecccccCCccccchhhhhcCcchHHHHHHhhhCch-HHHhHHHHHh
Confidence 479999999995544 44 5666666789999999999432 3568999999999998875 4578999999
Q ss_pred ChhHHHHHHHhhhhhhhhhcccccccc--------------cC-----------CCCceeEE--------------ecCC
Q 001127 546 STRCIVEAASSLIQHNVKRCQLKNVQT--------------DN-----------SHGSKIII--------------KECH 586 (1148)
Q Consensus 546 s~~~I~~~an~ll~~~~~~~~~~~~~~--------------~~-----------~~g~~i~l--------------~~~~ 586 (1148)
|+..|+.++|.++|++.-.+..+.+.. +. .+...+.+ ...-
T Consensus 871 Mn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i 950 (1100)
T KOG1805|consen 871 MNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGI 950 (1100)
T ss_pred hcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCc
Confidence 999999999999998764443332220 00 00011112 1122
Q ss_pred CHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHH
Q 001127 587 NEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAF 633 (1148)
Q Consensus 587 ~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L 633 (1148)
++..|+..|...+..++.. |+.++||+||++|++|+.+|+..+
T Consensus 951 ~N~~EA~li~~~~~~fv~s----Gv~~~dIGIis~YraQv~Li~~~l 993 (1100)
T KOG1805|consen 951 TNHGEAKLISELVEDFVKS----GVKPSDIGIISPYRAQVELIRKIL 993 (1100)
T ss_pred CchhHHHHHHHHHHHHHHc----CCCHHHeeeeehHHHHHHHHHhhc
Confidence 3567899999999999887 999999999999998877655533
No 28
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.80 E-value=4.7e-18 Score=194.90 Aligned_cols=148 Identities=26% Similarity=0.285 Sum_probs=112.1
Q ss_pred cCcCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCCCcccccCCCC-h-HHHHHHHHhcCCceEEEeccCCCChhHHH
Q 001127 474 DSWKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDDQSIFSFNGAD-I-SGFDSFRKDFLNYKEIRLTRNYRSTRCIV 551 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~QsIy~frga~-~-~lf~~l~~~~~~~~~~~L~~nyRs~~~I~ 551 (1148)
.++.|++|||+||.++.|+..++.|+..+..+++||-.|.||...+.. + +....+.++ +...-+.|..+|||+.+|+
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i~~~~~e~~~~e~~~~~fed-~~~e~v~l~~syrSt~eI~ 605 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVIYDEAQELSPMERMDVFFED-PSFEYVGLIASYRSTAEID 605 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCceehhhhcccCHHHHHHHHHhC-CCchhhhhhhhhcChHHHH
Confidence 368899999999999999999999999999999999999999765322 2 111222222 2245678999999999999
Q ss_pred HHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHH
Q 001127 552 EAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQT 631 (1148)
Q Consensus 552 ~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~ 631 (1148)
+|+|.++.. + ....+-+..|..|.++....+++-++.+...|-++-.. .-+.|||||.+..+...+..
T Consensus 606 efan~~l~d---~---~~~~p~~rsge~p~~i~~~~ne~l~qr~~~ii~~mkk~------~~etiaVi~kt~~d~~~~~d 673 (747)
T COG3973 606 EFANSLLPD---R---FRIHPLTRSGEKPAVIMSVANEELVQRNPDIIPRMKKR------GSETIAVICKTDHDCKAVMD 673 (747)
T ss_pred HHHHHhccC---C---CccchhhcCCCCceeeeccchHHHHHhhHHHHHHHHhc------CCCceEEECCcHHHHHHHHH
Confidence 999999983 2 22334455677888888898888888888888887544 35789999998766555554
Q ss_pred HHH
Q 001127 632 AFR 634 (1148)
Q Consensus 632 ~L~ 634 (1148)
.|+
T Consensus 674 ~lr 676 (747)
T COG3973 674 SLR 676 (747)
T ss_pred HHh
Confidence 443
No 29
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=99.77 E-value=7.8e-19 Score=201.39 Aligned_cols=175 Identities=15% Similarity=0.125 Sum_probs=119.1
Q ss_pred cCcCEEEEecC-ccCCHHHHHHHHHHHcCCcEEEEcCCCCc---cc----ccCCCChHHHHHHHHhcCCceEEEeccCCC
Q 001127 474 DSWKAIIVDEF-QDTSAMQYSLLQILASHNRITIVGDDDQS---IF----SFNGADISGFDSFRKDFLNYKEIRLTRNYR 545 (1148)
Q Consensus 474 ~~fd~IiIDEf-QDftp~q~~lL~~L~~~~~l~lvGD~~Qs---Iy----~frga~~~lf~~l~~~~~~~~~~~L~~nyR 545 (1148)
-+|+.|+|||+ |.+.|..+..|. .+..++++|||+.|- |. .-.|-.-.+|.++.-.. ...+.|.++||
T Consensus 567 ~kfr~VLiDEaTQatEpe~LiPlv--lG~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg--~~P~~L~vQYR 642 (935)
T KOG1802|consen 567 FKFRTVLIDEATQATEPECLIPLV--LGAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLG--IKPIRLQVQYR 642 (935)
T ss_pred ccccEEEEecccccCCcchhhhhh--hcceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhcc--CCceEEEEeee
Confidence 47899999999 666666443332 244589999999993 11 11123345666655433 36799999999
Q ss_pred ChhHHHHHHHhhhhhhhhh--------cccccccccCCCCceeEEec------------CCCHHHHHHHHHHHHHHHhhc
Q 001127 546 STRCIVEAASSLIQHNVKR--------CQLKNVQTDNSHGSKIIIKE------------CHNEDAQCAFIIDKILEHASN 605 (1148)
Q Consensus 546 s~~~I~~~an~ll~~~~~~--------~~~~~~~~~~~~g~~i~l~~------------~~~~~~E~~~Va~~I~~Lv~~ 605 (1148)
|++.|.+|.+..|+++.-. .....-.++...+....++. ..-+..|+..+.+-|..|+++
T Consensus 643 mhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~ 722 (935)
T KOG1802|consen 643 MHPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKIITKLLKS 722 (935)
T ss_pred eChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHHHHHHHc
Confidence 9999999999999876521 11001111111111111111 122567999999999999998
Q ss_pred CCCCCCCCCcEEEEEecCcChHHHHHHHHHCCC-------CeEEcCccccccHHHHHH
Q 001127 606 GPASICSYGSIAILYRRQVSGKVFQTAFRERKI-------PFNIHGVAFYRKKVVRAI 656 (1148)
Q Consensus 606 ~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gI-------P~~i~~~~l~~~p~v~~i 656 (1148)
|+.++.|+||+++..|...|-..+...|- -+.+.+++.|++++..+|
T Consensus 723 ----gv~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfI 776 (935)
T KOG1802|consen 723 ----GVKPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFI 776 (935)
T ss_pred ----CCCHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceE
Confidence 99999999999999999999998877662 235567888888887654
No 30
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.76 E-value=7e-18 Score=188.89 Aligned_cols=148 Identities=17% Similarity=0.148 Sum_probs=95.2
Q ss_pred ccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHh------cC--CceEEEeccC
Q 001127 473 QDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKD------FL--NYKEIRLTRN 543 (1148)
Q Consensus 473 ~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~------~~--~~~~~~L~~n 543 (1148)
+.-||||+|||.|||-..-+.+...+.+ .+++++++|.-|.+-.+.-..++-+..-..+ +. .-..+.|..+
T Consensus 293 ~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~radr~DiVL~kC 372 (660)
T COG3972 293 KKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLARADRNDIVLKKC 372 (660)
T ss_pred cccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccccCccccchHHHH
Confidence 3579999999999999999999888877 5689999999998544332222211100000 00 1134789999
Q ss_pred CCChhHHHHHHHhhhhhhh----hhccccccc---------ccCCCC-----------------------ceeEEecCCC
Q 001127 544 YRSTRCIVEAASSLIQHNV----KRCQLKNVQ---------TDNSHG-----------------------SKIIIKECHN 587 (1148)
Q Consensus 544 yRs~~~I~~~an~ll~~~~----~~~~~~~~~---------~~~~~g-----------------------~~i~l~~~~~ 587 (1148)
||+.+..+-+++.+-.+.. ..+..++.| ++-+.| ....+..+.+
T Consensus 373 YRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~fi~fd~ 452 (660)
T COG3972 373 YRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLFIGFDN 452 (660)
T ss_pred hcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhheeeccCC
Confidence 9999998877766422111 000011111 111111 1123566677
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCc
Q 001127 588 EDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQV 624 (1148)
Q Consensus 588 ~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~ 624 (1148)
..+|+.||+.+|.+... .+...+||+||..+..
T Consensus 453 ~~deivwi~~qI~~~~e----deLe~dDIiVi~lDp~ 485 (660)
T COG3972 453 GPDEIVWIIIQIKEFRE----DELEQDDIIVIFLDPG 485 (660)
T ss_pred cchhhHHHHHHHHHhcc----cccccCCEEEEecCCc
Confidence 88999999999999444 4899999999998843
No 31
>COG1330 RecC Exonuclease V gamma subunit [DNA replication, recombination, and repair]
Probab=99.43 E-value=1.4e-09 Score=136.11 Aligned_cols=329 Identities=14% Similarity=0.204 Sum_probs=193.6
Q ss_pred CceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEec-CcChHHHHHHHHH----CCCCeEEc-Ccccccc
Q 001127 577 GSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRR-QVSGKVFQTAFRE----RKIPFNIH-GVAFYRK 650 (1148)
Q Consensus 577 g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~-~~~~~~l~~~L~~----~gIP~~i~-~~~l~~~ 650 (1148)
+..+.++.|.|...|++.+-..+..++.++ ..+.++||+|++++ +.|...|+.+|.. .-|||.+. +...-.+
T Consensus 338 D~Si~ih~chs~~REVevL~d~Ll~ll~~d--p~L~PrdIvVm~~dId~Y~P~I~AvFg~~~~~~~lP~~lsD~~~~~~~ 415 (1078)
T COG1330 338 DRSIQIHVCHSPKREVEVLHDKLLALLEED--PTLQPRDIVVLVPDIDSYTPYIEAVFGQAPIERHLPYSLSDRSLSQTE 415 (1078)
T ss_pred CCcEEEEecCCchhHHHHHHHHHHHHhccC--CCCCceeEEEEecchhhhhHHHHHHhCCCCcccccceeeccccccchh
Confidence 445999999999999999999999999771 23999999999999 9999999999977 35899997 5677889
Q ss_pred HHHHHHHHHHHHhCCCCCCchHHHHHHHh-----hhhhHHHHHHHHHHHHHHHhhhccch-HHHHhh-----------hh
Q 001127 651 KVVRAIIAMLRTTLPGCDDGPYRRVFKAF-----LLLEKEEKKRVIDHIDKISTIRKCSF-ISAACD-----------IF 713 (1148)
Q Consensus 651 p~v~~i~slL~~~~~~~d~~~~~~llk~L-----~~~~~~~~~~~id~Leny~~~~gi~~-~~~~~~-----------~~ 713 (1148)
|+...++.+|.+....++...+..++... ++...++ +..|...+...||++ ...... .|
T Consensus 416 pll~~~~~Ll~l~~Srf~~~eiL~LL~~p~l~~~F~i~e~~----L~~l~~wv~~~giRWGld~~~~~~l~~pa~~~ntW 491 (1078)
T COG1330 416 PLLNAFLLLLDLPESRFSAEEVLDLLDVPPLAARFGITEEE----LLTLRHWVEESGIRWGLDSTHRRELGLPATGQNTW 491 (1078)
T ss_pred HHHHHHHHHhccccccCcHHHHHHHhhCHHHHhhcCCChhh----HHHHHHHHHhcCCccccChhhhhhccCCchhhhhH
Confidence 99999999999888877777777766541 1222333 344444454555542 111000 01
Q ss_pred hcc----c--------cchhhh---------hhhHhhHHHHHHH---HHHHHHHhhCCCHHHHHHHHHhhcHHHHHHHHh
Q 001127 714 GAK----I--------SGTFKR---------SQLTQGRKVLLTL---EMISKLVRREPSISAVITSVANMVPQKYLLEQR 769 (1148)
Q Consensus 714 ~~~----~--------~~~~~~---------~~~~~~r~~~~~l---~~l~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~ 769 (1148)
... + .+.|.. ........+...+ ..+...+++...+.++...+..++.
T Consensus 492 ~~Gl~RmLlgyam~e~~~~wqg~l~~~~v~g~~~El~g~La~fl~~L~~~~~~l~q~~~~~~W~~~l~~Ll~-------- 563 (1078)
T COG1330 492 RFGLERMLLGYAMDEDAGEWQGVLPYDEVGGLRAELAGKLAHFLERLSAWYRGLSQPAYLEEWREILSDLLD-------- 563 (1078)
T ss_pred HHHHHHHHhhccccccchhhcccCccccccchHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH--------
Confidence 100 0 001110 0000111122222 2222222222222221111111100
Q ss_pred hhcccccccccccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCC--C
Q 001127 770 AVVDFDGGKLLNEDNDLRSVLQYLLADVTDFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHD--N 847 (1148)
Q Consensus 770 ~~~~~~~~~~~~e~~q~~~vl~~lld~l~e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~--~ 847 (1148)
.+. ..+.+....+..+-.....+..+...+ .+. ....+.-...++........ +.+ -
T Consensus 564 ~ff--------~~~~~~~~~l~~i~~~~~~~~~~~~~a-------~~~---~~l~~~~l~~~~~~~l~~~~---~~~~fl 622 (1078)
T COG1330 564 DFF--------LSDTDEEAALTILEFKWVPFIADSLSA-------NYL---KELPLDVLRDILAALLLDES---ISQRFL 622 (1078)
T ss_pred HHh--------cCCchhHHHHHHHHHHHHHHHHhhhhh-------ccc---cccCHHHHHHHHHHhccCCC---ccccee
Confidence 000 001111122222222333333221000 000 02333333333332222111 111 3
Q ss_pred CCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCc-c------CcccccHHHHHHHHHHHHhcccceEEEEEEeec
Q 001127 848 ENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGA-V------NEKGTSVEEERRLLYVAMTRARKKLFILYVMMD 920 (1148)
Q Consensus 848 ~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~-l------~d~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d 920 (1148)
.+.|++.|+--++...|+||.++|+|||.+|......|. + .......++++++|--|+..|++.|||||.+.+
T Consensus 623 ~G~vnfctl~PmrsiPfkvVCllGmndg~~Pr~~~~~~fdLm~~~~~~gDrsrrddDryLFLeaLisA~~~lyISYiG~s 702 (1078)
T COG1330 623 AGSVNFCTLVPMRSIPFKVVCLLGMNDGDFPRQNSPDGFDLMAKDPRKGDRSRRDDDRYLFLEALISAQEQLYISYIGRS 702 (1078)
T ss_pred eeeeeeeeeecccCcCeEEEEEccCcCCCCCcccCCcchhhhhhccccccccccchHHHHHHHHHHHhhheeEEEEeccc
Confidence 478999999999999999999999999999987665543 1 111245678999999999999999999999865
Q ss_pred c-cccccCCchhHHhhhhhhH
Q 001127 921 A-NWQLLQPSRFLKEIPHHLR 940 (1148)
Q Consensus 921 ~-~g~~~~PS~fl~~l~~~f~ 940 (1148)
. ++....||.+|.+|.+...
T Consensus 703 i~d~~~r~PSvll~eLld~i~ 723 (1078)
T COG1330 703 IRDNSERPPSVLLNELLDYID 723 (1078)
T ss_pred cccCCCCCCcHHHHHHHHHHH
Confidence 4 5667889999999988765
No 32
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.42 E-value=3.2e-12 Score=156.20 Aligned_cols=55 Identities=27% Similarity=0.293 Sum_probs=42.8
Q ss_pred CCHHHHHHhccCCCC-CEEEEecCCCCC------------C---CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 248 LNDQQLEAACGDMST-PLLIVAGPGSGK------------G---ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~-~~lI~G~AGSGK------------~---~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
..+.|+.|+.....+ -.+|.|+||||| . ..+.+|+++++|.+||..|.+.+....
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~ 223 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKAL 223 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhh
Confidence 358999999655555 457779999999 1 123579999999999999999987543
No 33
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.31 E-value=7.6e-12 Score=152.78 Aligned_cols=83 Identities=18% Similarity=0.152 Sum_probs=55.0
Q ss_pred CcCEEEEecCccCCHHHH-HHHHHHHcCCcEEEEcCCCCcccccCCCChHHHHHHHHhc---------------------
Q 001127 475 SWKAIIVDEFQDTSAMQY-SLLQILASHNRITIVGDDDQSIFSFNGADISGFDSFRKDF--------------------- 532 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~-~lL~~L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~--------------------- 532 (1148)
.+|+|||||+.-.+...+ .++.++..+++++++||++|---=-.|+- |..+....
T Consensus 259 ~~dvlIiDEaSMvd~~l~~~ll~al~~~~rlIlvGD~~QLpsV~~G~v---l~dl~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (586)
T TIGR01447 259 PLDVLVVDEASMVDLPLMAKLLKALPPNTKLILLGDKNQLPSVEAGAV---LGDLCELASIGYLFQSAQAYALCKKINSK 335 (586)
T ss_pred cccEEEEcccccCCHHHHHHHHHhcCCCCEEEEECChhhCCCCCCChh---HHHHHHhhccccchhhhhhhccccccccc
Confidence 578999999987775544 56666666789999999999422112222 22222110
Q ss_pred --C--CceEEEeccCCCChh--HHHHHHHhhhhh
Q 001127 533 --L--NYKEIRLTRNYRSTR--CIVEAASSLIQH 560 (1148)
Q Consensus 533 --~--~~~~~~L~~nyRs~~--~I~~~an~ll~~ 560 (1148)
+ ....+.|+.+||... .|..+++.+..+
T Consensus 336 ~~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I~~g 369 (586)
T TIGR01447 336 TRNPLSDNVCFLKTSHRFGKDSGIGQLAKAINSG 369 (586)
T ss_pred ccCCCCCcEEEeceeecCCCCccHHHHHHHHHcC
Confidence 0 113689999999975 699999887644
No 34
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=99.26 E-value=1e-12 Score=157.78 Aligned_cols=246 Identities=17% Similarity=0.084 Sum_probs=143.7
Q ss_pred ccccccccccccchhccccccccccccCCCCCCCCCCCCCCCCCCccccccccccccccCCCCCcccccCccceecccc-
Q 001127 23 SRVSQNFRAAKPFLDRKRQRQAVDFDRQFPNKSRDSNSIPIESPDSITSVKRVPLAEIPVSTPSLQTINGVKSVVGEFS- 101 (1148)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 101 (1148)
-+.+|+|++++| ++|+|++.. |--.+..+- ...++...++...|.+|+.+|| ++.++..++...+-
T Consensus 14 l~~~q~~~~~~~-~~~~rviag-------pgsgkt~~l--t~~v~yli~~~~ik~~eI~~~t---~tnka~~~~~~~l~~ 80 (853)
T KOG2108|consen 14 LNKSQRFSALSP-LRRKRVIAG-------PGSGKTLVL--TERVAYLINFNNIKPDEILINT---GTNKAADSIKLNLIA 80 (853)
T ss_pred hhhhhhhhhcCC-Ccccceeec-------CCCCccchh--hHHHHHHHhccCCCHHHHHHHh---cCCccHHHHHHhHHH
Confidence 468899999999 999999987 333344444 6778888889999999999987 33333332111111
Q ss_pred --cccccccccccccCCCCCcCCC------CCcccccCCCCccCCCCCcCCCCCCCcccchHHHHHHHHHHhhhhhHHHh
Q 001127 102 --GISCVLNDLSNERTNGVPLDIS------DPFITPIKQPEFFNMSESFSMPSPLDDDFDDSILQEIDAICEKSAAKDVR 173 (1148)
Q Consensus 102 --~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (1148)
..+ +.|.+-..+.-- +| +.+.+|+++++... |..++..++|| |++++|++|+.+|+++..+...
T Consensus 81 il~~~----~~sk~Ii~~f~s-ia~~~~l~~~~l~~l~e~~~i~--~~~~~~ail~~-~~~~~l~~i~~~~ss~~r~~~l 152 (853)
T KOG2108|consen 81 ILRTS----KCSKEIIGTFHS-IAVKYSLRDGPLLPLSENCRIQ--DLPDTYAILGD-NIWALLAKIKLPSSSSNRKQRL 152 (853)
T ss_pred HhcCC----CCChhhccccce-eEEEEEecccccccccchhHHh--cchhHHHHhhh-hHHHHHHHhhchhhcchhhhhh
Confidence 011 112111111111 22 88999999888776 77888999999 9999999999999998888877
Q ss_pred hcccCCccccc-ccCCCCccccccccccccccccchhcccccccccCcCCcccchhhhhhhccCChhHHHHHhhcCCHHH
Q 001127 174 KAQNSGIYEET-HQNDNSCTHLNASLESVTTNENIRMDISMDLAGDMKSSMEKTDTIQTIKTQNMPDEYSKYLQSLNDQQ 252 (1148)
Q Consensus 174 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ln~~Q 252 (1148)
..++...+++. .-|+.. ..++.+.. ..+ ++|++.-..+ ..+-.+........+++.-..++..++.-|
T Consensus 153 ~~~~~~~~~t~~~~n~~~---~~~~~~~~-~~~-~~e~~i~~~~------~~d~~~~~~~~~qtl~dsct~~~~~~~~~q 221 (853)
T KOG2108|consen 153 LFPLRRPDSTVTKPNVTE---TLYSIAVL-LLA-MFEEGINVSN------RDDYEIYYYLYLQTLEDSCTLAMNSLKVLQ 221 (853)
T ss_pred cccccccccceecCCccc---CcccHHHH-HHH-hccccccccc------chhhhhhHHhhhccccchHHHHHHHHHHhh
Confidence 76665554332 112211 11222210 111 1111111111 001111111222335666667788888889
Q ss_pred HHHhccCCCCCEEEEecCCCCC-CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 253 LEAACGDMSTPLLIVAGPGSGK-GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 253 r~aV~~~~~~~~lI~G~AGSGK-~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
+..++.....+++|...+|+|| +..|.. ++.+++-.++..+.++|.+.
T Consensus 222 ~~~~~~n~~t~vLvdEfqd~~~~qL~p~~-~~k~~~~a~tGdt~qsIy~f 270 (853)
T KOG2108|consen 222 RPRVCSNKITHVLVDEFQDILKIQLEPLQ-VLKIKAFAGTGDTDQSIYKF 270 (853)
T ss_pred cchhccCCcceEEeeccccccccccchHH-HHhhhhheeecCchHHHHHH
Confidence 9988765567889988889888 443332 33333333334444444433
No 35
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.24 E-value=8.7e-11 Score=147.65 Aligned_cols=82 Identities=28% Similarity=0.318 Sum_probs=55.4
Q ss_pred CcCEEEEecCccCCHHHH-HHHHHHHcCCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCCh--hHHH
Q 001127 475 SWKAIIVDEFQDTSAMQY-SLLQILASHNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRST--RCIV 551 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~-~lL~~L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~--~~I~ 551 (1148)
..++|+|||++-++...+ .+|..+..+++++++||++|-.-=-.| ..|..+... +......|+.+||.. ..|+
T Consensus 416 ~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G---~v~~dl~~~-~~~~~~~L~~i~RQ~~~s~i~ 491 (720)
T TIGR01448 416 DCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG---QVLKDLILS-QAIPVTRLTKVYRQAAGSPII 491 (720)
T ss_pred cCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC---chHHHHHhc-CCCCEEEeCeeeccCCCcHHH
Confidence 456999999999986544 344444446799999999995322222 234444433 223568899999986 5799
Q ss_pred HHHHhhhhh
Q 001127 552 EAASSLIQH 560 (1148)
Q Consensus 552 ~~an~ll~~ 560 (1148)
.+++.+..+
T Consensus 492 ~~a~~i~~g 500 (720)
T TIGR01448 492 TLAHGILHG 500 (720)
T ss_pred HHHHHHHcC
Confidence 988877543
No 36
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=98.96 E-value=3.4e-08 Score=116.81 Aligned_cols=168 Identities=14% Similarity=0.176 Sum_probs=112.0
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCC-cEEEEcCCCCc-----cccc---CCCChHHHHHHHHhcCCceEEEeccCCC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHN-RITIVGDDDQS-----IFSF---NGADISGFDSFRKDFLNYKEIRLTRNYR 545 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~-~l~lvGD~~Qs-----Iy~f---rga~~~lf~~l~~~~~~~~~~~L~~nyR 545 (1148)
..+.|+|.|+-+.- +--+|.+|.++. +++++||++|- .|.- -+-..++|.++.+.- ..-..|+.+||
T Consensus 720 ~pkivivEEAAEVl--EahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL~iSlFERLVe~g--lpfsrLn~QhR 795 (1025)
T KOG1807|consen 720 QPKIVIVEEAAEVL--EAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNLSISLFERLVEAG--LPFSRLNLQHR 795 (1025)
T ss_pred CCcEEEEhhHhHHh--hcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcchhHHHHHHHHHcC--CChhhhhHHhh
Confidence 45689999996543 345677787754 89999999992 2221 134577888887753 23467999999
Q ss_pred ChhHHHHHHHhhhhhhhhhcccccccccCCC-CceeEEecCCCH-----------HHHHHHHHHHHHHHhhcCCCCCCCC
Q 001127 546 STRCIVEAASSLIQHNVKRCQLKNVQTDNSH-GSKIIIKECHNE-----------DAQCAFIIDKILEHASNGPASICSY 613 (1148)
Q Consensus 546 s~~~I~~~an~ll~~~~~~~~~~~~~~~~~~-g~~i~l~~~~~~-----------~~E~~~Va~~I~~Lv~~~~~~g~~~ 613 (1148)
|.+.|.++...-+++..........+.+-++ +....++...++ .-|+..+++-.+-++.+ +|.+
T Consensus 796 M~p~IsrllvpsiYddl~d~esvk~yedI~gms~nlfFv~hnspee~~de~S~~NlhEa~mlv~l~kyli~q----~y~p 871 (1025)
T KOG1807|consen 796 MRPCISRLLVPSIYDDLLDSESVKEYEDIRGMSKNLFFVQHNSPEECMDEMSIGNLHEAGMLVKLTKYLIQQ----QYKP 871 (1025)
T ss_pred hchHHHHHhhHHHhhhhhcchhhccccccccccceeeEEecCCcccCcchhhhhhHHHHHHHHHHHHHHHhc----CCCc
Confidence 9999999887555554333222222222221 233444443332 34788888888888887 9999
Q ss_pred CcEEEEEecCcChHHHHHHHHH-C--CCCeEEcCccccccHH
Q 001127 614 GSIAILYRRQVSGKVFQTAFRE-R--KIPFNIHGVAFYRKKV 652 (1148)
Q Consensus 614 ~DIAVL~r~~~~~~~l~~~L~~-~--gIP~~i~~~~l~~~p~ 652 (1148)
.||.||+.+++|...+++.+.. + +|||. +++.|++.+
T Consensus 872 sdIviLttY~gQk~ci~rllp~~~~stv~Va--tVDsfQGeE 911 (1025)
T KOG1807|consen 872 SDIVILTTYNGQKECIKRLLPQNYRSTVQVA--TVDSFQGEE 911 (1025)
T ss_pred cceEEEeechhHHHHHHHHhHHHhcCcceEE--EeccccCcc
Confidence 9999999999999999998864 2 45554 444454443
No 37
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.82 E-value=1.9e-08 Score=109.83 Aligned_cols=54 Identities=31% Similarity=0.406 Sum_probs=41.8
Q ss_pred cCCHHHHHHhccCCCCC--EEEEecCCCCC----------C---------CCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 247 SLNDQQLEAACGDMSTP--LLIVAGPGSGK----------G---------ISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~--~lI~G~AGSGK----------~---------~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
.||++|++||....+.+ .+|.||||||| . ..+.+||++++||.|++++.++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 38999999996555444 78889999999 2 3458999999999999999999988
No 38
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.77 E-value=3e-08 Score=105.63 Aligned_cols=78 Identities=27% Similarity=0.301 Sum_probs=47.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc--CCcEEEEcCCCC--cccccCCCChHHHHHHHHhcCCceEEEeccCCCCh-hH
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS--HNRITIVGDDDQ--SIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRST-RC 549 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~--~~~l~lvGD~~Q--sIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~-~~ 549 (1148)
.+++|||||+...+..++..|..++. +.+++++||+.| .|.. | ..|..+.+... ....|+..+|.. +.
T Consensus 93 ~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~--g---~~~~~l~~~~~--~~~~L~~i~Rq~~~~ 165 (196)
T PF13604_consen 93 KKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGA--G---SPFADLQESGG--ITVELTEIRRQKDPE 165 (196)
T ss_dssp STSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCST--T---CHHHHHCGCST--TEEEE---SCCCCTH
T ss_pred cccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcC--C---cHHHHHHhcCC--CeEEeChhhcCCChH
Confidence 56699999999999888877666655 468999999999 3322 2 23333333322 278999999987 44
Q ss_pred HHHHHHhhhh
Q 001127 550 IVEAASSLIQ 559 (1148)
Q Consensus 550 I~~~an~ll~ 559 (1148)
+..++..+..
T Consensus 166 ~~~~~~~~~~ 175 (196)
T PF13604_consen 166 LREAAKAIRE 175 (196)
T ss_dssp HHHHHHHHCT
T ss_pred HHHHHHHHHc
Confidence 5555555443
No 39
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=98.68 E-value=1e-07 Score=101.90 Aligned_cols=108 Identities=19% Similarity=0.166 Sum_probs=63.2
Q ss_pred HHHHHHHHhcCCceEEEeccCCCChhHHHHHHHhhhhhhhhhcccc----ccc---ccCCCCceeEEe------------
Q 001127 523 SGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAASSLIQHNVKRCQLK----NVQ---TDNSHGSKIIIK------------ 583 (1148)
Q Consensus 523 ~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~~~----~~~---~~~~~g~~i~l~------------ 583 (1148)
++|.++.+.. ....+.|+.+|||++.|.+|.+.+++++.-..... ... ........+.++
T Consensus 4 Slferl~~~~-~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~ 82 (200)
T PF13087_consen 4 SLFERLIKNG-SVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSESS 82 (200)
T ss_dssp -HHHHHHHCT-----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEETTC
T ss_pred cHHHHHHHcC-CCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccccccccccc
Confidence 5788877765 23568999999999999999999998865221110 000 000111112211
Q ss_pred -cCCCHHHHHHHHHHHHHHHhhcCCCCCCCC---CcEEEEEecCcChHHHHHHHHH
Q 001127 584 -ECHNEDAQCAFIIDKILEHASNGPASICSY---GSIAILYRRQVSGKVFQTAFRE 635 (1148)
Q Consensus 584 -~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~---~DIAVL~r~~~~~~~l~~~L~~ 635 (1148)
....+..|+..|+..+..+... +... .+|+||+++.+|...|++.|..
T Consensus 83 ~~s~~N~~Ea~~i~~~~~~l~~~----~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~ 134 (200)
T PF13087_consen 83 QTSYYNPDEAEFIVELVRDLLDN----GPDSNKPSSIGIITPYRAQVALIRKALRS 134 (200)
T ss_dssp -SCEEEHHHHHHHHHHHHHHHHT----T--G---GGEEEEES-HHHHHHHHHHHHH
T ss_pred ccceechhhHHHHHHHHhhhhhc----cccccccCCceEEcCchHHHHHHHHHHhh
Confidence 1234678999999999999887 4444 7999999999888877776654
No 40
>COG3893 Inactivated superfamily I helicase [DNA replication, recombination, and repair]
Probab=98.62 E-value=2.7e-06 Score=99.71 Aligned_cols=330 Identities=13% Similarity=0.099 Sum_probs=190.9
Q ss_pred eEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEc-CccccccHHHHHHHH
Q 001127 580 IIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIH-GVAFYRKKVVRAIIA 658 (1148)
Q Consensus 580 i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~-~~~l~~~p~v~~i~s 658 (1148)
+.++++.+.++|+..|+-..++.+++ + +.-|.|+++..-...+...|.+.||+..-+ |.++...|-..+++-
T Consensus 306 ~~lieaa~e~dea~aiA~alr~aLe~----~---~~aALVt~DR~lARRV~~~L~R~gv~adds~G~pLs~t~~aal~~~ 378 (697)
T COG3893 306 VTLIEAANERDEAYAIALALREALEA----P---RTAALVTPDRNLARRVATELARFGVEADDSAGTPLSATPQAALLML 378 (697)
T ss_pred hhHHHhhhhhhhHHHHHHHHHHHHhC----c---cccccccCchHHHHHHHHHHHHhCCCcccccCCcccccHHHHHHHH
Confidence 56778899999999999999999887 3 889999999989999999999999999877 789999999999999
Q ss_pred HHHHhCCCCCCchHHHHHHH-hhh--hhHHHHHHHHHHHHHHHhhhccch---HHHHhhhhhccccchhhhh--hhHhh-
Q 001127 659 MLRTTLPGCDDGPYRRVFKA-FLL--LEKEEKKRVIDHIDKISTIRKCSF---ISAACDIFGAKISGTFKRS--QLTQG- 729 (1148)
Q Consensus 659 lL~~~~~~~d~~~~~~llk~-L~~--~~~~~~~~~id~Leny~~~~gi~~---~~~~~~~~~~~~~~~~~~~--~~~~~- 729 (1148)
.++.+.++.|...+..++|. +.. .........-..| +++.-+|.+. +..+...+...+.+.-... ..|..
T Consensus 379 ~ie~v~rpgDPv~Ll~llKhPl~~fg~e~~~~~~aa~~L-El~alrg~~~s~~~~~L~~lle~rl~~~~d~d~~p~~~~~ 457 (697)
T COG3893 379 LIEAVLRPGDPVALLALLKHPLARFGLEFLDLRDAANVL-ELAALRGGKVSPGYGELPALLEARLLGTSDDDLPPAWRAG 457 (697)
T ss_pred HHHHHhCCCChHHHHHHHhCchhhcCCchhhhcChHHHH-HHHHhcCCCCCcchhHHHHHHHHHhhccccccCCcchhhc
Confidence 99999999999999999987 222 2222222222233 3333444442 3333333333211100000 00000
Q ss_pred -----HHHHHHH-HHHHHHHhhCCC-HHHHHHHHHhhcHHHHHHHHhhhcccccccccccchhHHHHHHHHHHH----HH
Q 001127 730 -----RKVLLTL-EMISKLVRREPS-ISAVITSVANMVPQKYLLEQRAVVDFDGGKLLNEDNDLRSVLQYLLAD----VT 798 (1148)
Q Consensus 730 -----r~~~~~l-~~l~~~~~~~~~-~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~e~~q~~~vl~~lld~----l~ 798 (1148)
-.+.+.+ ..+.....--.. ..+....+........ .........+.+. .+...+++ +.
T Consensus 458 ~~~~~i~lA~~L~~~i~~A~~pl~~~~~~~~~~l~~~a~~t~-~ale~l~~dd~g~----------l~~lw~~eage~L~ 526 (697)
T COG3893 458 LDPDNIALARLLLQRISEAKAPLGAGHFEAIADLLALALDTV-RALENLAIDDEGY----------LLALWLGEAGEKLA 526 (697)
T ss_pred cCcchHHHHHHHHHHHHhhhcccccchHHHHhhHHHHHHHHH-HHHHhhcccchhh----------HHHHHHhhhhHHHH
Confidence 0011111 111111000000 0011111111110000 0000000000000 01111122 11
Q ss_pred HHHHhhhhhhhccCCcccccccccchHHHHHHHHHhhhhhhhcccCCCCCCcEEEEccccccCCCCCEEEEeecCCCCCc
Q 001127 799 DFLSTKFTAAKEEGNVDQDKKGCINVLKAFIDYISERETEHFRTQRHDNENSVTLTTIHQSKGLEWDIVFVAKANETEIP 878 (1148)
Q Consensus 799 e~l~~~~~~~~~~~~~~~~~~~~~~~L~~f~~~L~~~~~~~~~~~ip~~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P 878 (1148)
.++.-. .. .+..++..++.++++....+..+...|+....|.|+-.-.+++..||-|+|.|+|||.||
T Consensus 527 ~l~~gl----~~--------~~a~ls~~ew~diLd~L~~ge~vkp~~~~hprv~I~gaLEaRl~~~D~vVi~glNEg~wP 594 (697)
T COG3893 527 ALLRGL----IE--------AGAQLSAPEWPDILDALVAGETVKPAPGTHPRVRIMGALEARLQRFDGVVIVGLNEGVWP 594 (697)
T ss_pred HHHHHH----Hh--------cccccCchhHHHHHHHhcCCccccCCCCCCCceEEecchhhhhcccceEEEecCCcccCC
Confidence 111110 00 112455777778888766666566777888999999999999999999999999999999
Q ss_pred cccccCCccCc----------ccccHHHHHHHHHHHHhcccceEEEEEEeecccccccCCchhHHhhhhhhHHH
Q 001127 879 LVHEFNGAVNE----------KGTSVEEERRLLYVAMTRARKKLFILYVMMDANWQLLQPSRFLKEIPHHLREV 942 (1148)
Q Consensus 879 ~~~~~~g~l~d----------~e~~l~EErrL~YVAlTRAk~~L~LSy~~~d~~g~~~~PS~fl~~l~~~f~~~ 942 (1148)
.....+-.++. .+++.....+- |-.|-.-...+++|+....+ +.+..+|++++++...+-+-
T Consensus 595 ~~~~nd~FlSr~mr~~lgL~pperR~glqAhd-~fqma~na~eVvLt~~~r~g-~ap~v~SrwLeRL~~l~~e~ 666 (697)
T COG3893 595 SKTPNDLFLSRPMRKSLGLPPPERRIGLQAHD-YFQMAKNAPEVVLTRSERSG-EAPAVSSRWLERLLTLLGEA 666 (697)
T ss_pred CCCccchhhchHHHHhcCCCChHHHhhhhhhH-HHHHhcCCCcEEEeehhccC-CCcchhhHHHHHHHHHhhhh
Confidence 88776544432 12222222222 23343445678899987644 56778999999998776543
No 41
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=98.62 E-value=1.4e-06 Score=112.62 Aligned_cols=170 Identities=15% Similarity=0.152 Sum_probs=124.0
Q ss_pred CcCEEEEecC-ccCCHHHHHHHHHHHcCCcEEEEcCCCCc---cc----ccCCCChHHHHHHHHhcCCceEEEeccCCCC
Q 001127 475 SWKAIIVDEF-QDTSAMQYSLLQILASHNRITIVGDDDQS---IF----SFNGADISGFDSFRKDFLNYKEIRLTRNYRS 546 (1148)
Q Consensus 475 ~fd~IiIDEf-QDftp~q~~lL~~L~~~~~l~lvGD~~Qs---Iy----~frga~~~lf~~l~~~~~~~~~~~L~~nyRs 546 (1148)
.||+++|||+ |-+.|..+-.+.. ..+++++||++|- ++ ...+-...+|.++...++ .....|..+|||
T Consensus 488 ~fd~viiDEAsQ~~~~~~~~~l~~---~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~-~~~~~L~~qyRm 563 (767)
T COG1112 488 EFDYVIIDEASQATEPSALIALSR---AKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGP-EVVYLLRVQYRM 563 (767)
T ss_pred ccCEEEEcchhcccchhHHHhHhh---cCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCC-chheeeeeeccc
Confidence 5999999999 6666665444443 6799999999993 22 344566788888888776 466889999999
Q ss_pred hhHHHHHHHhhhhhhhhhcccccccc-------------------cCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCC
Q 001127 547 TRCIVEAASSLIQHNVKRCQLKNVQT-------------------DNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGP 607 (1148)
Q Consensus 547 ~~~I~~~an~ll~~~~~~~~~~~~~~-------------------~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~ 607 (1148)
++.|+.|.+..++++........... ...............+..|+..+...+..++..
T Consensus 564 ~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~e~~~~~~~~~~~~~~-- 641 (767)
T COG1112 564 HPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEEFFESKSKLNELEAEIVKVIVDELLKD-- 641 (767)
T ss_pred ChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCcccccCccceecHHHHHHHHHHHHHHHHc--
Confidence 99999999999987642211110000 000000000111223567888899999998887
Q ss_pred CCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEcCccccccHH
Q 001127 608 ASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIHGVAFYRKKV 652 (1148)
Q Consensus 608 ~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~~~~l~~~p~ 652 (1148)
++.+.+|+|+++++++...+...+..++..+.+.+++.|++.+
T Consensus 642 --~~~~~~igvis~y~~q~~~i~~~~~~~~~~v~v~tvd~fQG~E 684 (767)
T COG1112 642 --GLEENDIGVISPYRAQVSLIRRLLNEAGKGVEVGTVDGFQGRE 684 (767)
T ss_pred --CCcHHHcceecccHHHHHHHHHHHHhcCCceEEeeccccCCcc
Confidence 8899999999999999999999999999888888888888876
No 42
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.60 E-value=2.3e-08 Score=95.02 Aligned_cols=51 Identities=45% Similarity=0.728 Sum_probs=40.6
Q ss_pred CcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEE
Q 001127 849 NSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFIL 915 (1148)
Q Consensus 849 D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LS 915 (1148)
..+.++|+|+|||+|||.|||++.... +.. ...++++|||||||++.|+|.
T Consensus 54 ~~~~~~Tih~akGle~d~V~v~~~~~~--~~~--------------~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 54 SHAYAMTIHKAKGLEFDAVIVVDPDSS--NFD--------------ELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCCSEEETGGCTT--EEEEEEEEGGGG--SGC--------------GCHHHHHHHHHTTEEEEEEEE
T ss_pred CcEEEEEhHHhcCccccEEEEEcCCcc--cCC--------------chhhccEEeeHhHhhhhhCCC
Confidence 389999999999999999999987654 211 245888999999999999984
No 43
>PF13245 AAA_19: Part of AAA domain
Probab=98.41 E-value=2.8e-07 Score=81.98 Aligned_cols=50 Identities=34% Similarity=0.511 Sum_probs=40.2
Q ss_pred CCE-EEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHH
Q 001127 262 TPL-LIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSF 318 (1148)
Q Consensus 262 ~~~-lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~ 318 (1148)
+++ +|.||||||| ...+++||+++||+.|+++|.+|+ ......++|||+|
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl-------~~~~~~~~T~h~~ 75 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL-------GLGVPFAMTIHSL 75 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH-------cCCCcchhhHHHh
Confidence 455 4589999999 122789999999999999999999 1234459999998
No 44
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=98.27 E-value=9.6e-06 Score=94.66 Aligned_cols=88 Identities=16% Similarity=0.255 Sum_probs=67.1
Q ss_pred cCcCEEEEecCccCCH--------HHHHHHHHHHcCC-cEEEEcCCCCcccccCCCChHHHHHHHHhcCCce-E-EEecc
Q 001127 474 DSWKAIIVDEFQDTSA--------MQYSLLQILASHN-RITIVGDDDQSIFSFNGADISGFDSFRKDFLNYK-E-IRLTR 542 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp--------~q~~lL~~L~~~~-~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~-~-~~L~~ 542 (1148)
..||+|+|||+|++.. .+...|..+.+.+ .++++.|+.|.|+...-.+...+..+....+... . +.|..
T Consensus 82 ~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q~i~~~e~~~~~~l~~~~~~~~~~~~~~~~L~~ 161 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQSIRPSEIGTLENLEEIAENLGIEVRHFFELKT 161 (352)
T ss_pred CcCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEccccEeecccCCCHHHHHHHHHhcCCccccCcCcCc
Confidence 5899999999999998 2345565555544 5777899999998766556666777777665432 2 38999
Q ss_pred CCCC--hhHHHHHHHhhhhhh
Q 001127 543 NYRS--TRCIVEAASSLIQHN 561 (1148)
Q Consensus 543 nyRs--~~~I~~~an~ll~~~ 561 (1148)
+||+ +..++++.+.++...
T Consensus 162 q~R~~~~~~~~~wI~~ll~~~ 182 (352)
T PF09848_consen 162 QFRCHGSKEYIDWIDNLLDNK 182 (352)
T ss_pred ceecCCCHHHHHHHHHHHhcc
Confidence 9999 899999999998764
No 45
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=98.20 E-value=3.3e-05 Score=98.13 Aligned_cols=143 Identities=15% Similarity=0.191 Sum_probs=75.0
Q ss_pred CcCEEEEecCccCCHHHHHHHHH-HH-cCCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhH-HH
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQI-LA-SHNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRC-IV 551 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~-L~-~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~-I~ 551 (1148)
..+.|||||+.=.+..++.-|.. .. .++++++|||++|---=-.| ..|..+.+.. ....|+..||.... ..
T Consensus 439 ~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG---~~f~~l~~~~---~~~~Lt~I~RQ~~~~~~ 512 (744)
T TIGR02768 439 DKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG---AAFRAIAERI---GYAELETIRRQREAWAR 512 (744)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC---cHHHHHHHhh---CeEEeeeEEecCCHHHH
Confidence 45699999998877666543333 22 36799999999994221223 2455555543 35789999997644 32
Q ss_pred HHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcE-EEEEecCcChHHHH
Q 001127 552 EAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSI-AILYRRQVSGKVFQ 630 (1148)
Q Consensus 552 ~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DI-AVL~r~~~~~~~l~ 630 (1148)
..+..+..+.... .+......+ .+. ...+.++-+..++......+.. ..+.+. .||++.+..+..|.
T Consensus 513 ~aa~~i~~G~~~~----~l~~~~~~~-~i~--~~~~~~~~~~~i~~~~~~~~~~-----~~~~~~~lIla~tn~~v~~LN 580 (744)
T TIGR02768 513 QASLELARGDVEK----ALAAYRDHG-HIT--IHDTREEAIEQVVADWKQDLRE-----ANPAGSQIMLAHTRKDVRALN 580 (744)
T ss_pred HHHHHHHcCCHHH----HHHHHhhCC-CEe--ecCCHHHHHHHHHHHHHHhhhh-----cCcccceEEEcCchHhHHHHH
Confidence 3333322221100 000000111 122 2334444444455444433221 234566 69999877766665
Q ss_pred HHHHH
Q 001127 631 TAFRE 635 (1148)
Q Consensus 631 ~~L~~ 635 (1148)
..+++
T Consensus 581 ~~ir~ 585 (744)
T TIGR02768 581 EAARE 585 (744)
T ss_pred HHHHH
Confidence 55543
No 46
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=98.17 E-value=5.7e-05 Score=97.16 Aligned_cols=144 Identities=17% Similarity=0.159 Sum_probs=77.2
Q ss_pred CcCEEEEecCccCCHHHHHH-HHHHH-cCCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHH
Q 001127 475 SWKAIIVDEFQDTSAMQYSL-LQILA-SHNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVE 552 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~l-L~~L~-~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~ 552 (1148)
..++|||||+.=.+..++.- |.... .++++++|||++|---=-.| ..|..+.+.++ ...|+..+|-......
T Consensus 433 ~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG---~~f~~L~~~~~---~a~LteI~RQ~~~~~r 506 (988)
T PRK13889 433 SRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG---AAFRSIHERHG---GAEIGEVRRQREDWQR 506 (988)
T ss_pred cCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC---chHHHHHHhcC---eEEeceeecCCCHHHH
Confidence 34599999998777665543 33332 26799999999994211122 34555555444 4789999998654333
Q ss_pred HHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHH
Q 001127 553 AASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTA 632 (1148)
Q Consensus 553 ~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~ 632 (1148)
-+...+..+... ..+...... -.+....+.++-...++........ .-+-.++.||++.+..+..|...
T Consensus 507 ~aa~~i~~G~~~---~al~~~~~~---g~v~~~~~~e~~~~~lv~~~~~~r~-----~~~~~~~lVLaptn~~v~~LN~~ 575 (988)
T PRK13889 507 DATRDLATGRTG---EALDAYEAH---GMVHAAATREQARADLIDRWDRDRQ-----AAPDRSRIILTHTNDEVRALNEA 575 (988)
T ss_pred HHHHHHHcCCch---hhhhhhhcc---CeEeccCCHHHHHHHHHHHHHHhhc-----cCCcccEEEEcCCcccHHHHHHH
Confidence 232223222110 011010111 1233344544444444443322111 11236899999998888777666
Q ss_pred HHH
Q 001127 633 FRE 635 (1148)
Q Consensus 633 L~~ 635 (1148)
+++
T Consensus 576 iR~ 578 (988)
T PRK13889 576 ARE 578 (988)
T ss_pred HHH
Confidence 554
No 47
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=98.01 E-value=0.00017 Score=93.34 Aligned_cols=63 Identities=19% Similarity=0.232 Sum_probs=48.3
Q ss_pred hcCCHHHHHHhcc--CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceE
Q 001127 246 QSLNDQQLEAACG--DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTI 312 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~--~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V 312 (1148)
..||++|++||.. ..++..+|.|+||||| ...+.+|+.+++|.+|+..|.+.. .+..
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~~----------Gi~a 449 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEA----------GIQS 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHhh----------CCCe
Confidence 3699999999942 2345578889999999 235678999999999998886533 2346
Q ss_pred echHHH
Q 001127 313 STFHSF 318 (1148)
Q Consensus 313 ~Tfhs~ 318 (1148)
.|+|+|
T Consensus 450 ~TIas~ 455 (1102)
T PRK13826 450 RTLSSW 455 (1102)
T ss_pred eeHHHH
Confidence 788886
No 48
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.74 E-value=2e-05 Score=83.59 Aligned_cols=69 Identities=23% Similarity=0.234 Sum_probs=30.7
Q ss_pred CEEEEecCccCCHHHHHHHHH-HHcCCcEEEEcCCCCcccccCCCChHHHHHHHHhc---CCceEEEe--ccCCCCh
Q 001127 477 KAIIVDEFQDTSAMQYSLLQI-LASHNRITIVGDDDQSIFSFNGADISGFDSFRKDF---LNYKEIRL--TRNYRST 547 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~-L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~---~~~~~~~L--~~nyRs~ 547 (1148)
.+|+|||+|.+||.|++.+-. +.++++++++||+.|.=-. ......+..+.+.+ +....+.| +...|+.
T Consensus 121 ~~iIvDEaQN~t~~~~k~ilTR~g~~skii~~GD~~Q~D~~--~~~~nGl~~~~~~~~~~~~~~~i~l~~~d~vRs~ 195 (205)
T PF02562_consen 121 AFIIVDEAQNLTPEELKMILTRIGEGSKIIITGDPSQIDLP--LDYNNGLTYAIERLKGEPGIGVIELTLEDIVRSP 195 (205)
T ss_dssp EEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE----------------THHHHHHTTT-TTEEEEE--GGG----H
T ss_pred eEEEEecccCCCHHHHHHHHcccCCCcEEEEecCceeecCC--CCCCchHHHHHHHhcCCCceEEEEEeCCceECcH
Confidence 599999999999999987532 2336799999999994111 11233333333333 33456666 5567774
No 49
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.68 E-value=0.00071 Score=90.26 Aligned_cols=81 Identities=20% Similarity=0.119 Sum_probs=53.1
Q ss_pred cCEEEEecCccCCHHHH-HHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHH
Q 001127 476 WKAIIVDEFQDTSAMQY-SLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEA 553 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~-~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~ 553 (1148)
.++|||||+.=.+-.++ .++..+.. ++++++|||++|---=-. -..|..+.+ ........|+..+|-.+.+..+
T Consensus 931 ~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~a---G~~F~~lq~-~~~~~ta~L~eI~RQ~~elr~A 1006 (1623)
T PRK14712 931 NTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAP---GQPFRLQQT-RSAADVVIMKEIVRQTPELREA 1006 (1623)
T ss_pred CcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCC---CHHHHHHHH-cCCCCeEEeCeeecCCHHHHHH
Confidence 45999999988877665 45554443 579999999999421111 134544433 2234567899999998777666
Q ss_pred HHhhhhh
Q 001127 554 ASSLIQH 560 (1148)
Q Consensus 554 an~ll~~ 560 (1148)
+..+..+
T Consensus 1007 V~~~~~g 1013 (1623)
T PRK14712 1007 VYSLINR 1013 (1623)
T ss_pred HHHHHcC
Confidence 6555543
No 50
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.63 E-value=0.0011 Score=89.93 Aligned_cols=78 Identities=22% Similarity=0.190 Sum_probs=49.3
Q ss_pred CEEEEecCccCCHHHH-HHHHHHHc-CCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHH
Q 001127 477 KAIIVDEFQDTSAMQY-SLLQILAS-HNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAA 554 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~-~lL~~L~~-~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~a 554 (1148)
++|||||+.=.+..++ .++..+.. ++++++|||.+|---=-.| ..|..+.+. .......|+..+|-...+...+
T Consensus 1064 ~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG---~~f~~l~~~-~~i~~~~L~eI~RQ~~~lr~Av 1139 (1747)
T PRK13709 1064 TLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG---QPFRLMQTR-SAADVAIMKEIVRQTPELREAV 1139 (1747)
T ss_pred cEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC---hHHHHHHHh-CCCCeEEeCeEEcCcHHHHHHH
Confidence 5899999987765544 45554443 6799999999994211112 345444432 3345678999999877544444
Q ss_pred Hhhh
Q 001127 555 SSLI 558 (1148)
Q Consensus 555 n~ll 558 (1148)
..+.
T Consensus 1140 ~~~~ 1143 (1747)
T PRK13709 1140 YSLI 1143 (1747)
T ss_pred HHHH
Confidence 4443
No 51
>PRK10536 hypothetical protein; Provisional
Probab=97.54 E-value=0.001 Score=72.77 Aligned_cols=69 Identities=23% Similarity=0.267 Sum_probs=43.6
Q ss_pred CEEEEecCccCCHHHHHHH-HHHHcCCcEEEEcCCCCcccccCCCChHHHHHHHHhc---CCceEEEec--cCCCCh
Q 001127 477 KAIIVDEFQDTSAMQYSLL-QILASHNRITIVGDDDQSIFSFNGADISGFDSFRKDF---LNYKEIRLT--RNYRST 547 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL-~~L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~---~~~~~~~L~--~nyRs~ 547 (1148)
++|||||+|.+++.|...+ ..+..+++++++||+.|.=- .+.....+....+.+ +....+.|+ ..-|+.
T Consensus 178 ~~vIvDEaqn~~~~~~k~~ltR~g~~sk~v~~GD~~QiD~--p~~~~sGL~~~~~~~k~~~~~~~i~l~~~d~vRs~ 252 (262)
T PRK10536 178 AVVILDEAQNVTAAQMKMFLTRLGENVTVIVNGDITQCDL--PRGVKSGLSDALERFEEDEMVGIVRFGKEDCVRSA 252 (262)
T ss_pred CEEEEechhcCCHHHHHHHHhhcCCCCEEEEeCChhhccC--CCCCCCCHHHHHHHhCCCCceEEEEEecCceEecH
Confidence 5999999999999888764 33444779999999999411 112223344444433 333455665 556653
No 52
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=97.21 E-value=0.006 Score=75.71 Aligned_cols=158 Identities=12% Similarity=0.079 Sum_probs=90.8
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc-------CCcEEEEcCCCCcc--------cccCCCChHHHHHHHHhcCCceEEE
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS-------HNRITIVGDDDQSI--------FSFNGADISGFDSFRKDFLNYKEIR 539 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~-------~~~l~lvGD~~QsI--------y~frga~~~lf~~l~~~~~~~~~~~ 539 (1148)
.|+-+++-|.+......-.+...+.. -++.++.||..|.- ......+..+|.++... ....+.
T Consensus 991 ~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~r~vRl--~ip~i~ 1068 (1320)
T KOG1806|consen 991 KYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFTRLVRL--GVPIID 1068 (1320)
T ss_pred eechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhhcceec--ccceec
Confidence 67788888888777665544433332 13789999977743 22334455666665432 235688
Q ss_pred eccCCCChhHHHHHHHhhhhh---hhhhccccccccc----------------CCCCceeEEecCCCHHHHHHHHHHHHH
Q 001127 540 LTRNYRSTRCIVEAASSLIQH---NVKRCQLKNVQTD----------------NSHGSKIIIKECHNEDAQCAFIIDKIL 600 (1148)
Q Consensus 540 L~~nyRs~~~I~~~an~ll~~---~~~~~~~~~~~~~----------------~~~g~~i~l~~~~~~~~E~~~Va~~I~ 600 (1148)
|+.++|--+.|+.+.+..... .....+.+..... .+.|+.-..-.+..+..|+++++.--.
T Consensus 1069 lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~~aNagf~~~~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~ 1148 (1320)
T KOG1806|consen 1069 LNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQYANAGFAYEFQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQ 1148 (1320)
T ss_pred chhhhhHHHHHHHHHHhhhcccccCcCCccchhhhccccCceeeEEEecchhhccccccCCCcccccCCchhhhHHHHHH
Confidence 999999999999887654321 1111000000000 111110000111223345554443333
Q ss_pred HHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCC
Q 001127 601 EHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKI 638 (1148)
Q Consensus 601 ~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gI 638 (1148)
-+.-- ||+++.|.|++-++.+...++.+..++--
T Consensus 1149 YMr~L----gypa~Kisilttyngq~~lirdii~rrc~ 1182 (1320)
T KOG1806|consen 1149 YMRLL----GYPANKISILTTYNGQKSLIRDIINRRCS 1182 (1320)
T ss_pred HHHHh----CCchhHeeEEEeecchHHHHHHHHHHhcc
Confidence 22222 99999999999999999999999987643
No 53
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=97.20 E-value=0.0033 Score=87.54 Aligned_cols=63 Identities=19% Similarity=0.220 Sum_probs=46.8
Q ss_pred hcCCHHHHHHhcc---CCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccC
Q 001127 246 QSLNDQQLEAACG---DMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIGSIVGKATA 307 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~---~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~ 307 (1148)
..||+.|++|+.. ..++.++|.|+||||| ...+.+|+.+++|.+|+.+|++.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~~---------- 1087 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKSA---------- 1087 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHhc----------
Confidence 5799999999953 2234567789999999 12356799999999999999741
Q ss_pred CCceEechHHHH
Q 001127 308 KELTISTFHSFS 319 (1148)
Q Consensus 308 ~~v~V~Tfhs~a 319 (1148)
.+...|+|+|-
T Consensus 1088 -g~~a~Ti~s~l 1098 (1960)
T TIGR02760 1088 -GVQAQTLDSFL 1098 (1960)
T ss_pred -CCchHhHHHHh
Confidence 23467888773
No 54
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.12 E-value=0.00031 Score=87.05 Aligned_cols=175 Identities=15% Similarity=0.104 Sum_probs=111.6
Q ss_pred cCcCEEEEecCc-cCCHHHHHHHHHHHcCCcEEEEcCCCCc---ccccC----CCChHHHHHHHHhc----------CCc
Q 001127 474 DSWKAIIVDEFQ-DTSAMQYSLLQILASHNRITIVGDDDQS---IFSFN----GADISGFDSFRKDF----------LNY 535 (1148)
Q Consensus 474 ~~fd~IiIDEfQ-Dftp~q~~lL~~L~~~~~l~lvGD~~Qs---Iy~fr----ga~~~lf~~l~~~~----------~~~ 535 (1148)
..|.+|++||++ .+.|....-+..+.....+++.||+.|- +++-+ |-+..+|.++.++- ...
T Consensus 441 ~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l 520 (775)
T KOG1804|consen 441 GHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNAL 520 (775)
T ss_pred cceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccc
Confidence 478899999994 5555544445555444479999999993 33322 34455666654321 112
Q ss_pred eEEEeccCCCChhHHHHHHHhhhhhhhhhcc-------------cccccccCCCCceeEEe--cCCCHHHHHHHHHHHHH
Q 001127 536 KEIRLTRNYRSTRCIVEAASSLIQHNVKRCQ-------------LKNVQTDNSHGSKIIIK--ECHNEDAQCAFIIDKIL 600 (1148)
Q Consensus 536 ~~~~L~~nyRs~~~I~~~an~ll~~~~~~~~-------------~~~~~~~~~~g~~i~l~--~~~~~~~E~~~Va~~I~ 600 (1148)
....|-.|||+++.|+...|++++...-... ...+..... |....-. ...-+.+|+..|.+.++
T Consensus 521 ~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~w~~liif~g~~-G~~~r~~~s~S~~n~~Ea~~V~~~~k 599 (775)
T KOG1804|consen 521 CSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLELWSGLILFYGAP-GFTERAGNSPSWLNLEEAAVVVRMTK 599 (775)
T ss_pred cchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHHhcccceeccccc-cccccccCChhhccHHHHHHHHHHHh
Confidence 4567888999999999999999776542110 000011000 0000000 02235678999988888
Q ss_pred HHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCCC-eEEcCccccccHH
Q 001127 601 EHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKIP-FNIHGVAFYRKKV 652 (1148)
Q Consensus 601 ~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP-~~i~~~~l~~~p~ 652 (1148)
.+... +...+.||+||+++.+++..++..+...+++ +-+.++.-+++.+
T Consensus 600 ~l~~~---~~~~~~DIgvitpy~aq~~~i~~~l~~~~~~~~~vgsVe~fqGqE 649 (775)
T KOG1804|consen 600 ALPLG---EVAQPQDIGVITPYTAQVSEIRKALRRLGVPGVKVGSVEEFQGQE 649 (775)
T ss_pred ccCCC---CccccccceeeCcHHHHHHHHHHHhcccCCCCCcccceeeecccc
Confidence 88665 5677789999999999999999999999876 3344555555554
No 55
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=96.96 E-value=0.01 Score=82.70 Aligned_cols=65 Identities=22% Similarity=0.257 Sum_probs=48.8
Q ss_pred cCCHHHHHHhcc---CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceE
Q 001127 247 SLNDQQLEAACG---DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTI 312 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~---~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V 312 (1148)
.||+.|++||.. +.+.-.+|.|+||||| ...+.+|.++++|..|+..|.+.+.. .-
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~~g~----------~A 498 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKIPR----------LA 498 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHhcc----------hh
Confidence 699999999943 2234567779999999 34567999999999999998876532 24
Q ss_pred echHHHHHH
Q 001127 313 STFHSFSLQ 321 (1148)
Q Consensus 313 ~Tfhs~a~r 321 (1148)
.|+|+|-.+
T Consensus 499 ~Ti~~~l~~ 507 (1960)
T TIGR02760 499 STFITWVKN 507 (1960)
T ss_pred hhHHHHHHh
Confidence 677777543
No 56
>PF12705 PDDEXK_1: PD-(D/E)XK nuclease superfamily; PDB: 1W36_B 3K70_B 3U4Q_A 3U44_A.
Probab=96.96 E-value=0.00036 Score=76.58 Aligned_cols=44 Identities=18% Similarity=0.213 Sum_probs=33.3
Q ss_pred ccChhhhhHHhhChhhhHHHhhc-C---c-----ccchhhhHHHHHHHHhhcC
Q 001127 989 GAATESMELLEACNGNSFLRRFS-V---E-----DRSIISHLFHQWAKKKAFQ 1032 (1148)
Q Consensus 989 ~~SvSrlE~~~~CPf~~Fl~~~G-l---~-----~a~~iGtl~H~~le~~~~~ 1032 (1148)
++|+|+|+.|..||++||+++.. + . .+..+|+++|++++.+...
T Consensus 1 ~~S~S~l~~~~~CP~~~~~~~~~~l~~~~~~~~~~~~~~G~~~H~~le~~~~~ 53 (257)
T PF12705_consen 1 RLSASSLETYLRCPRRFYLRYILGLKEPEEKEDSDALEFGTAVHEILERFYRE 53 (257)
T ss_dssp --BHHHHHHHHH-HHHHHHHTTS--------SS--CHHHHHHHHHHHCCCHTH
T ss_pred CCCHHHHHHHHHCHHHHHHHhccCCCCCccccccchhhhhHHHHHHHHHHHHh
Confidence 47999999999999999994422 2 2 3679999999999987765
No 57
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=96.14 E-value=0.0029 Score=69.27 Aligned_cols=78 Identities=21% Similarity=0.194 Sum_probs=50.8
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhHHHHHH
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRCIVEAA 554 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~I~~~a 554 (1148)
.+++++|||+|++.+.++.+|..+.....++++|||.|..|..+....... .+...+ .....+...||++..+..+.
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~r~~~~~~~~~ 138 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLP-HFISDI--SHRFGKRTSYRCPSDRFDII 138 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceec-ccccce--eeeecceeEeecccccceee
Confidence 588999999999999999887777666789999999998775432211110 000000 12344556777776655444
Q ss_pred H
Q 001127 555 S 555 (1148)
Q Consensus 555 n 555 (1148)
+
T Consensus 139 ~ 139 (234)
T PF01443_consen 139 S 139 (234)
T ss_pred e
Confidence 3
No 58
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=95.69 E-value=0.037 Score=71.36 Aligned_cols=161 Identities=16% Similarity=0.135 Sum_probs=101.4
Q ss_pred cCcCEEEEecC-ccCCHHHHHHHHHHHcCCcEEEEcCCCCc---cc----ccCCCChHHHHHHHHhcCCceEEEeccCCC
Q 001127 474 DSWKAIIVDEF-QDTSAMQYSLLQILASHNRITIVGDDDQS---IF----SFNGADISGFDSFRKDFLNYKEIRLTRNYR 545 (1148)
Q Consensus 474 ~~fd~IiIDEf-QDftp~q~~lL~~L~~~~~l~lvGD~~Qs---Iy----~frga~~~lf~~l~~~~~~~~~~~L~~nyR 545 (1148)
..++.++|||+ |...+.-...|... +..+.+++||+.|- |- +--+-...+|.++.... .....|.++||
T Consensus 535 ~p~~~vviDeaaq~~e~~s~~PL~l~-g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf~rl~l~~--~~~~~L~vqyr 611 (827)
T KOG1801|consen 535 PPLDTVVIDEAAQKYEPSSLEPLQLA-GYQHCILVGDLAQLPATVHSSPAGCFKYMTSLFERLELAG--HKTLLLTVQYR 611 (827)
T ss_pred CCceEEEEehhhhhcCccchhhhhhc-CCceEEEecccccCChhhccchhccccchhhHHHHHHHcc--Cccceecceee
Confidence 47889999999 77777765666543 56689999999992 11 12233446666664432 23458999999
Q ss_pred ChhHHHHHHHhhhhhhhhhc--------ccccccccCCCCcee--EEe---------cCCCHHHHHHHHHHHHHHHhhcC
Q 001127 546 STRCIVEAASSLIQHNVKRC--------QLKNVQTDNSHGSKI--IIK---------ECHNEDAQCAFIIDKILEHASNG 606 (1148)
Q Consensus 546 s~~~I~~~an~ll~~~~~~~--------~~~~~~~~~~~g~~i--~l~---------~~~~~~~E~~~Va~~I~~Lv~~~ 606 (1148)
|++.|.+|.+..++.+.-.. ...........|... .+. ...-+-+|+..++..+..+..-.
T Consensus 612 mhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~~~~s~~n~~E~~~~~~~~~~l~~~~ 691 (827)
T KOG1801|consen 612 MHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAGGGKSPVNNEEVRFVGAIYSRLYKVS 691 (827)
T ss_pred cCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEecccccccCCCCCcccHHHHHHHHHHHHHHHhhc
Confidence 99999999999888762100 000000111111111 111 11234578888888888776542
Q ss_pred CCCCCCCCcEEEEEecCcChHHHHHHHHHCC
Q 001127 607 PASICSYGSIAILYRRQVSGKVFQTAFRERK 637 (1148)
Q Consensus 607 ~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~g 637 (1148)
...+....-++|+.+|..++..+.+.+..+-
T Consensus 692 ~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~ 722 (827)
T KOG1801|consen 692 QPQVSVPGSVGVISPYKNQVKALRERFPEAY 722 (827)
T ss_pred cccCCCCcceeeECchHHHHHHHHHHHHHHh
Confidence 2233337789999999999988888776543
No 59
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=95.68 E-value=0.008 Score=76.90 Aligned_cols=51 Identities=39% Similarity=0.514 Sum_probs=41.0
Q ss_pred CCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEE
Q 001127 848 ENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILY 916 (1148)
Q Consensus 848 ~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy 916 (1148)
.+.-..+|||+|.|.|||+|+|+=-. ..| .=+|-|+|||+||||+.|.|-+
T Consensus 619 ~~~ayA~TIHKsQGSef~~v~v~l~~--~~~----------------~l~r~l~YtAiTRar~~l~l~~ 669 (696)
T COG0507 619 LELAYAMTIHKSQGSEFDRVIVLLPS--HSP----------------MLSRELLYTAITRARDRLILYG 669 (696)
T ss_pred hhhheeeeEecccCCCCCeEEEEcCC--Cch----------------hhhhhHHHHHhhhhheeEEEEc
Confidence 45568899999999999999998433 222 1358899999999999999873
No 60
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=94.03 E-value=0.014 Score=63.70 Aligned_cols=50 Identities=42% Similarity=0.598 Sum_probs=38.0
Q ss_pred EEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEE
Q 001127 852 TLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFIL 915 (1148)
Q Consensus 852 ~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LS 915 (1148)
.+.|+|.++|++|+.|.++-..+..... ..+.++.+|||+|||++.|++-
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~~~~~--------------~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDTDNEL--------------YSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCccccc--------------ccCCcccEEEEccccccEEEEE
Confidence 6999999999999999988654432110 0123677999999999999873
No 61
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=93.90 E-value=0.1 Score=54.37 Aligned_cols=58 Identities=22% Similarity=0.235 Sum_probs=46.3
Q ss_pred hcCCHHHHHHhccCCC--CCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 246 QSLNDQQLEAACGDMS--TPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~~--~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
..+++.|.+++..-.. .+++|.|++|||| .....+++++++++..+.++..++.....
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 4578999999844333 6889999999999 12247899999999999999999887654
No 62
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=93.90 E-value=0.063 Score=63.06 Aligned_cols=48 Identities=21% Similarity=0.259 Sum_probs=37.4
Q ss_pred cCCHHHHHHhc-------cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHH
Q 001127 247 SLNDQQLEAAC-------GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEM 294 (1148)
Q Consensus 247 ~Ln~~Qr~aV~-------~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei 294 (1148)
.||++|+.+.. ......++|.|+||||| ......++++++|-.||..+
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 48999999862 13456689999999999 33456899999999988764
No 63
>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=93.70 E-value=0.099 Score=53.71 Aligned_cols=56 Identities=27% Similarity=0.242 Sum_probs=44.0
Q ss_pred CHHHHHHhcc-CCCCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 249 NDQQLEAACG-DMSTPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 249 n~~Qr~aV~~-~~~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
++.|.+++.. ..+.+++|.||.|||| .....+++++++++..+.++.+++......
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc
Confidence 5779998842 2356789999999999 224469999999999999999999876553
No 64
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=93.62 E-value=0.051 Score=69.55 Aligned_cols=66 Identities=18% Similarity=0.259 Sum_probs=45.9
Q ss_pred hcCCHHHHHHhccCC--CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceE
Q 001127 246 QSLNDQQLEAACGDM--STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTI 312 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~--~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V 312 (1148)
..||++|++|+..-. ++.++|.|+||||| ...+.+|+++++|..|+..|.+.. ....
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~----------g~~a 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAES----------GIES 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhcc----------CCce
Confidence 458899999884322 34457779999999 234567888899999888876432 2346
Q ss_pred echHHHHHH
Q 001127 313 STFHSFSLQ 321 (1148)
Q Consensus 313 ~Tfhs~a~r 321 (1148)
.|+|+|..+
T Consensus 421 ~Ti~~~~~~ 429 (744)
T TIGR02768 421 RTLASLEYA 429 (744)
T ss_pred eeHHHHHhh
Confidence 688888544
No 65
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=93.23 E-value=0.3 Score=60.22 Aligned_cols=50 Identities=20% Similarity=0.187 Sum_probs=39.6
Q ss_pred EEEEecCCCCC------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHH
Q 001127 264 LLIVAGPGSGK------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFS 319 (1148)
Q Consensus 264 ~lI~G~AGSGK------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a 319 (1148)
++|.|.||||| -...-+.+++..|..||.++..+|.+. ....|.|+|++.
T Consensus 74 ~~itG~AGsGKst~i~~l~~~l~cvitg~T~vAAqN~~~~L~~a------~S~~~~TI~~~F 129 (828)
T PHA03311 74 YLITGTAGAGKSTSIQTLNENLDCVITGATRVAAQNLSAKLSRA------TSAYINTIFQEF 129 (828)
T ss_pred EEEecCCCCChHHHHHHHHHhcCEEEEcchHHHHHhhhcccccc------cccccccHHHHh
Confidence 68999999999 112238899999999999998888753 345688998875
No 66
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=92.92 E-value=0.078 Score=69.43 Aligned_cols=141 Identities=16% Similarity=0.208 Sum_probs=74.6
Q ss_pred CcCEEEEecCccCCHHHHH-HHHHHH-cCCcEEEEcCCCCcccccCCCChHHHHHHHHhcCCceEEEeccCCCChhH-HH
Q 001127 475 SWKAIIVDEFQDTSAMQYS-LLQILA-SHNRITIVGDDDQSIFSFNGADISGFDSFRKDFLNYKEIRLTRNYRSTRC-IV 551 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~-lL~~L~-~~~~l~lvGD~~QsIy~frga~~~lf~~l~~~~~~~~~~~L~~nyRs~~~-I~ 551 (1148)
..++|||||+.=.+..++. +|.... .++++++|||+.|---=-.| ..|..+.+.. ....|+..+|-... +.
T Consensus 468 ~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG---~~f~~l~~~i---~~a~LteI~RQ~~~~~r 541 (1102)
T PRK13826 468 NKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG---AAFRAIADRI---GYAELETIYRQREQWMR 541 (1102)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC---cHHHHHHhhc---CEEEeeeeeecCChHHH
Confidence 4569999999888776664 554443 36799999999994221222 2455555433 35789999997654 44
Q ss_pred HHHHhhhhhhhhhcccccccccCCCCceeEEecCCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHH
Q 001127 552 EAASSLIQHNVKRCQLKNVQTDNSHGSKIIIKECHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQT 631 (1148)
Q Consensus 552 ~~an~ll~~~~~~~~~~~~~~~~~~g~~i~l~~~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~ 631 (1148)
..+..+..+... ..+......+ .+....+.++-+..++ ..+..+ .-.-+++.||++.+..+..|..
T Consensus 542 ~Aa~~i~~G~~~----~aL~~~~~~g---~v~~~~~~~e~~~~lv---~~~~~~----~~~~~~~lILa~tn~~v~~LN~ 607 (1102)
T PRK13826 542 DASLDLARGNVG----KALDAYRANG---RVIGSRLKAEAVESLI---ADWNRD----YDPTKTTLILAHLRRDVRMLNE 607 (1102)
T ss_pred HHHHHHHcCCch----hhhhHhhcCC---eEeccccHHHHHHHHH---HHHhhc----cCcccceEEECCchHHHHHHHH
Confidence 444433322110 0111111111 1222222222222222 222222 1123578999999877776665
Q ss_pred HHHH
Q 001127 632 AFRE 635 (1148)
Q Consensus 632 ~L~~ 635 (1148)
.+++
T Consensus 608 ~iR~ 611 (1102)
T PRK13826 608 MARA 611 (1102)
T ss_pred HHHH
Confidence 5543
No 67
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=92.70 E-value=0.27 Score=55.84 Aligned_cols=68 Identities=22% Similarity=0.287 Sum_probs=45.3
Q ss_pred EEEEecCccCCHHHHHHHHH-HHcCCcEEEEcCCCC--cccccCCCChHHHHHHHH---hcCCceEEEeccCCCCh
Q 001127 478 AIIVDEFQDTSAMQYSLLQI-LASHNRITIVGDDDQ--SIFSFNGADISGFDSFRK---DFLNYKEIRLTRNYRST 547 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~-L~~~~~l~lvGD~~Q--sIy~frga~~~lf~~l~~---~~~~~~~~~L~~nyRs~ 547 (1148)
+|+|||+|.+||.|..-|-. .-.+.++++.||+.| +.|- +.....+.-+.+ .++-...+.|...-||.
T Consensus 354 FiIIDEaQNLTpheikTiltR~G~GsKIVl~gd~aQiD~~yl--~~~snGLtyvverfk~~~l~~hi~L~r~eRS~ 427 (436)
T COG1875 354 FIIIDEAQNLTPHELKTILTRAGEGSKIVLTGDPAQIDTPYL--DETSNGLTYVVEKFKGHPLSAHITLQRGERSR 427 (436)
T ss_pred eEEEehhhccCHHHHHHHHHhccCCCEEEEcCCHHHcCCccc--cCCCccHHHHHHHhcCCCceeEEEEecccchH
Confidence 89999999999998875433 334679999999999 3442 222222333333 34444668888877774
No 68
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=92.37 E-value=0.084 Score=68.75 Aligned_cols=64 Identities=17% Similarity=0.193 Sum_probs=45.6
Q ss_pred cCCHHHHHHhccCC--CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEe
Q 001127 247 SLNDQQLEAACGDM--STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTIS 313 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~--~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~ 313 (1148)
.||++|++||..-. .+.++|.|+||||| ...+.+|+.+++|..||..|.+. ..+...
T Consensus 346 ~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~----------tGi~a~ 415 (988)
T PRK13889 346 VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGG----------SGIASR 415 (988)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhc----------cCcchh
Confidence 58999999984322 23467779999999 22466899999999999887642 133467
Q ss_pred chHHHHH
Q 001127 314 TFHSFSL 320 (1148)
Q Consensus 314 Tfhs~a~ 320 (1148)
|+|+|-.
T Consensus 416 TI~sll~ 422 (988)
T PRK13889 416 TIASLEH 422 (988)
T ss_pred hHHHHHh
Confidence 8888843
No 69
>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=92.16 E-value=0.46 Score=46.25 Aligned_cols=41 Identities=27% Similarity=0.513 Sum_probs=35.2
Q ss_pred CEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 263 PLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 263 ~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.++|.|++|||| .....+++++++++..+.+..+++.....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 478999999999 22568999999999999999999988664
No 70
>PTZ00424 helicase 45; Provisional
Probab=90.67 E-value=0.68 Score=55.07 Aligned_cols=58 Identities=14% Similarity=0.102 Sum_probs=45.5
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+++.|.+++..- .+.+++|.|+.|||| .....++|++++|+..+.++.+.+....
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~ 120 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALG 120 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHh
Confidence 346899999999432 355688999999999 1235689999999999999988776653
No 71
>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=90.13 E-value=0.59 Score=49.74 Aligned_cols=56 Identities=18% Similarity=0.057 Sum_probs=45.1
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC-------------C---CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK-------------G---ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-------------~---~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.+++-|++++.. ..+.+++|.|+.|+|| . ....+++++++++..+.++.+.+....
T Consensus 21 ~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~ 93 (203)
T cd00268 21 KPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLG 93 (203)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHh
Confidence 578999999843 2367799999999999 1 234589999999999999998887654
No 72
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=89.27 E-value=0.34 Score=50.23 Aligned_cols=53 Identities=23% Similarity=0.252 Sum_probs=40.1
Q ss_pred cCCHHHHHHhccC--------CCCCEEEEecCCCCC---------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 247 SLNDQQLEAACGD--------MSTPLLIVAGPGSGK---------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~--------~~~~~lI~G~AGSGK---------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
.|.+.|.+|+..- ..+.++|.|+.|||| ... .++++++++.....++.+.+..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~-~~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA-RKVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-CEEEEEESSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-cceeEecCHHHHHHHHHHHHHH
Confidence 4678999988321 146789999999999 111 2999999999999999988843
No 73
>PRK09694 helicase Cas3; Provisional
Probab=89.23 E-value=3.6 Score=53.52 Aligned_cols=56 Identities=23% Similarity=0.175 Sum_probs=43.3
Q ss_pred cCCHHHHHHhccCC-CCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACGDM-STPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
..++-|+.+..... .+.++|.|+.|+|| ....+++++..+|...+++|-+|+.+.+
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~ 355 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALA 355 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHH
Confidence 56888998753333 34467779999999 1234799999999999999999998644
No 74
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=88.93 E-value=1.2 Score=53.70 Aligned_cols=58 Identities=26% Similarity=0.232 Sum_probs=45.3
Q ss_pred hcCCHHHHHHhccC-CCCCEEEEecCCCCC-------------C-----CCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 246 QSLNDQQLEAACGD-MSTPLLIVAGPGSGK-------------G-----ISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK-------------~-----~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
..+++-|.+++... .+.++++.|+.|||| . ..+.++|++++|+..+.++.+.+.....
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~ 98 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAK 98 (434)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHc
Confidence 45789999998433 345799999999999 0 1235899999999999999998876643
No 75
>PHA02558 uvsW UvsW helicase; Provisional
Probab=88.58 E-value=1.1 Score=55.14 Aligned_cols=56 Identities=18% Similarity=0.141 Sum_probs=44.1
Q ss_pred cCCHHHHHHhccCC-CCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACGDM-STPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.|.+.|++++.... +...++.++.|||| .....++|++++|+..+.|+.+++.+..
T Consensus 114 ~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred CCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 57899999884322 44578899999999 1222389999999999999999998753
No 76
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=87.41 E-value=0.97 Score=54.94 Aligned_cols=57 Identities=18% Similarity=0.157 Sum_probs=44.3
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
...+++-|++|+..- .+.++++.|+.|||| .....++|++++|+..+.++.+.+...
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~ 95 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRL 95 (460)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 345899999999432 355799999999999 111236899999999999999887654
No 77
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=87.11 E-value=1.8 Score=54.66 Aligned_cols=58 Identities=21% Similarity=0.202 Sum_probs=45.3
Q ss_pred hhcCCHHHHHHhcc-CCCCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAACG-DMSTPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+++.|.+++.. -.+..+++.|+.|||| .....++||+++|+..+.++.+.+....
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 34689999999832 2356789999999999 1233479999999999999988877654
No 78
>COG2887 RecB family exonuclease [DNA replication, recombination, and repair]
Probab=86.39 E-value=0.62 Score=52.16 Aligned_cols=42 Identities=17% Similarity=0.195 Sum_probs=36.1
Q ss_pred cChhhhhHHhhChhhhHHHhhcC----------cccchhhhHHHHHHHHhhc
Q 001127 990 AATESMELLEACNGNSFLRRFSV----------EDRSIISHLFHQWAKKKAF 1031 (1148)
Q Consensus 990 ~SvSrlE~~~~CPf~~Fl~~~Gl----------~~a~~iGtl~H~~le~~~~ 1031 (1148)
+|+|+.|.+..|||.+|..+.+. ..+.+.|+++|++++.+..
T Consensus 1 ls~s~~~~l~r~p~~~~a~~i~~l~~~~~~~e~~~~~~~g~~~h~~~~~~~~ 52 (269)
T COG2887 1 LSVSRAEALRRCPYLFYARRILALPPLGTRAEEPEAAVRGTLLHAILEALVG 52 (269)
T ss_pred CchhhhhhhccCcHHHHHHHHhccCCCCcccccccccccccHHHHHHHHHhh
Confidence 58999999999999999966552 2277889999999999998
No 79
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=85.69 E-value=0.8 Score=58.45 Aligned_cols=57 Identities=19% Similarity=0.194 Sum_probs=45.7
Q ss_pred cCCHHHHHHhc---cCC----CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAAC---GDM----STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~---~~~----~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.|++.|++|+. .+. ..+.++.|+.|||| ...+.+++++++|+..|.++.+++.+.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~ 335 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLE 335 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHh
Confidence 58999999983 111 12579999999999 23456899999999999999999987654
No 80
>PRK05580 primosome assembly protein PriA; Validated
Probab=85.43 E-value=0.89 Score=57.90 Aligned_cols=57 Identities=26% Similarity=0.260 Sum_probs=45.6
Q ss_pred cCCHHHHHHhccC----CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAACGD----MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~----~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.|++.|++++..- ...++++.|+.|||| ...+.++|+++++...+.++.+++.+.++
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg 215 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFG 215 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 5899999988322 135689999999999 12467899999999999999999987543
No 81
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=85.16 E-value=1.6 Score=53.03 Aligned_cols=58 Identities=21% Similarity=0.214 Sum_probs=45.1
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC-------------C-------CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK-------------G-------ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK-------------~-------~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+++-|++++..- .+.++++.++.|||| . ..+-++||+++|+..+.++.+.+....
T Consensus 21 ~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~ 99 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYS 99 (456)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 346799999998432 346799999999999 0 112369999999999999999887653
No 82
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=84.83 E-value=2.5 Score=51.05 Aligned_cols=77 Identities=17% Similarity=0.141 Sum_probs=57.9
Q ss_pred hhcCCHHHHHHhcc--CC---CCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc------
Q 001127 245 LQSLNDQQLEAACG--DM---STPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIVGKA------ 305 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~--~~---~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~------ 305 (1148)
...|.+.|++|+.. .. .+..+|..|+|+|| ..-..++||+++++....|..+++.......
T Consensus 34 ~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~~g~~ 113 (442)
T COG1061 34 EFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKRSTLVLVPTKELLDQWAEALKKFLLLNDEIGIY 113 (442)
T ss_pred CCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcCCEEEEECcHHHHHHHHHHHHHhcCCcccccee
Confidence 44588999999831 11 66789999999999 2234459999999999999998887665321
Q ss_pred -----cCC--CceEechHHHHHH
Q 001127 306 -----TAK--ELTISTFHSFSLQ 321 (1148)
Q Consensus 306 -----~~~--~v~V~Tfhs~a~r 321 (1148)
... .+.|.|+.+++.+
T Consensus 114 ~~~~~~~~~~~i~vat~qtl~~~ 136 (442)
T COG1061 114 GGGEKELEPAKVTVATVQTLARR 136 (442)
T ss_pred cCceeccCCCcEEEEEhHHHhhh
Confidence 123 3889999999886
No 83
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=84.64 E-value=2.3 Score=52.57 Aligned_cols=56 Identities=21% Similarity=0.207 Sum_probs=43.8
Q ss_pred hcCCHHHHHHhcc-CCCCCEEEEecCCCCCC---------------------CCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 246 QSLNDQQLEAACG-DMSTPLLIVAGPGSGKG---------------------ISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK~---------------------~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..+++-|.+++.. -.+.++++.++.||||+ ..+..+|++++|+..+.++.+.+...
T Consensus 142 ~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 142 EFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 4689999999943 23568999999999990 02347999999999999988776543
No 84
>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=83.57 E-value=2 Score=43.11 Aligned_cols=75 Identities=15% Similarity=0.202 Sum_probs=47.9
Q ss_pred EEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc----------cccCCCceEechHHHHHHH
Q 001127 265 LIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSIVG----------KATAKELTISTFHSFSLQL 322 (1148)
Q Consensus 265 lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~----------~~~~~~v~V~Tfhs~a~rI 322 (1148)
+|--.||+|| .....++|||.+|+..+.+|.+.|..... ..+...+.|+|.-.|.+++
T Consensus 8 ~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~~~~~~t~~~~~~~~g~~~i~vMc~at~~~~~ 87 (148)
T PF07652_consen 8 VLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGLPVRFHTNARMRTHFGSSIIDVMCHATYGHFL 87 (148)
T ss_dssp EEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTSSEEEESTTSS----SSSSEEEEEHHHHHHHH
T ss_pred EEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcCCcccCceeeeccccCCCcccccccHHHHHHh
Confidence 4557899999 12568999999999999999999975431 1233457888888888777
Q ss_pred HHHHHHHhcCCCCceecChH
Q 001127 323 CRSHAEKLERTSEFLIYGHG 342 (1148)
Q Consensus 323 l~~~~~~~~~~~~~~i~~~~ 342 (1148)
+. +.. ...-++.|.|+.
T Consensus 88 ~~--p~~-~~~yd~II~DEc 104 (148)
T PF07652_consen 88 LN--PCR-LKNYDVIIMDEC 104 (148)
T ss_dssp HT--SSC-TTS-SEEEECTT
T ss_pred cC--ccc-ccCccEEEEecc
Confidence 65 222 223445666653
No 85
>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=83.04 E-value=2 Score=55.39 Aligned_cols=56 Identities=20% Similarity=0.186 Sum_probs=45.9
Q ss_pred hcCCHHHHHHhcc-CCCCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 246 QSLNDQQLEAACG-DMSTPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..|++-|.+++.. ..+.+++|.++.|||| ..+..++|++++|+..+.++.+++.+.
T Consensus 35 ~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 35 HRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 4689999999943 3356799999999999 223458999999999999999998765
No 86
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=82.68 E-value=2 Score=51.63 Aligned_cols=58 Identities=17% Similarity=0.131 Sum_probs=44.6
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC-------------C--------CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK-------------G--------ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK-------------~--------~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+++-|++++..- .+.++++.|+.|||| . ..+.++||+++|+..+.++.+.+....
T Consensus 28 ~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~ 107 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLA 107 (423)
T ss_pred CCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHHh
Confidence 346799999998432 356799999999999 0 112479999999999999988776543
No 87
>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=82.36 E-value=1.6 Score=58.61 Aligned_cols=56 Identities=20% Similarity=0.104 Sum_probs=45.2
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.+++-|+.++.. -.+.++++.|+.|||| ...+.++|++++|+..+.++.+++....
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~ 145 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLA 145 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHH
Confidence 568899998732 3356789999999999 2235789999999999999999888754
No 88
>PRK02362 ski2-like helicase; Provisional
Probab=82.17 E-value=1.7 Score=56.09 Aligned_cols=57 Identities=25% Similarity=0.135 Sum_probs=46.9
Q ss_pred hhcCCHHHHHHhcc--CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAACG--DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~--~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
...|++.|.+++.. ..+.+++|.+|.|||| -..+.+++++++++..+.+..+++.+.
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHh
Confidence 35689999999842 3467899999999999 125679999999999999999988753
No 89
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=82.03 E-value=4.7 Score=50.39 Aligned_cols=59 Identities=14% Similarity=0.036 Sum_probs=46.0
Q ss_pred hhcCCHHHHHHhccCC-CCCEEEEecCCCCC-------------CC------C--CCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAACGDM-STPLLIVAGPGSGK-------------GI------S--PSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK-------------~~------~--~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+++-|..++..-. +.++++.|+.|||| .. . ..++||+++|+..+.++.+.+.+..
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l~ 108 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFG 108 (572)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 4568999999994333 55799999999999 00 1 2479999999999999999887654
Q ss_pred c
Q 001127 303 G 303 (1148)
Q Consensus 303 ~ 303 (1148)
.
T Consensus 109 ~ 109 (572)
T PRK04537 109 A 109 (572)
T ss_pred c
Confidence 3
No 90
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=81.90 E-value=1.3 Score=56.16 Aligned_cols=57 Identities=19% Similarity=0.191 Sum_probs=45.2
Q ss_pred cCCHHHHHHhc---cCCC----CCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAAC---GDMS----TPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~---~~~~----~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.|++.|++|+. .+.. -+.+|.|+.|||| ...+.+++++++|+..+.++.+.+.+.++
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~ 309 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLA 309 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhc
Confidence 68999999983 1211 2479999999999 23456899999999999999999987654
No 91
>PF08696 Dna2: DNA replication factor Dna2; InterPro: IPR014808 Dna2 is a DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, (5'-flap endonuclease) and helicase activities. It is required for Okazaki fragment processing and is involved in DNA repair pathways []. ; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication
Probab=81.54 E-value=2.3 Score=45.74 Aligned_cols=61 Identities=13% Similarity=0.089 Sum_probs=46.9
Q ss_pred CcccChhhhhHHhhChhhhHHHhhc--C---cccchhhhHHHHHHHHhhcC---CHHHHHHHHHHHHHH
Q 001127 987 LSGAATESMELLEACNGNSFLRRFS--V---EDRSIISHLFHQWAKKKAFQ---EPKRLLNKVDFVIDE 1047 (1148)
Q Consensus 987 ~~~~SvSrlE~~~~CPf~~Fl~~~G--l---~~a~~iGtl~H~~le~~~~~---~~~~~~~~~~~~v~e 1047 (1148)
.+-+|.|.+-.-..||-+.+|+..- . ..+.-+||++|++++..... +.+.+.+.++.++..
T Consensus 57 D~LiS~T~Va~s~~C~RravL~er~~~~~~~s~~ml~GtIvHelfQ~~l~~~~~~~~~l~~~~~~~l~~ 125 (209)
T PF08696_consen 57 DILISATSVASSFFCPRRAVLQERFKGPGESSKPMLIGTIVHELFQKALRTNDFDLEFLEELADRILEK 125 (209)
T ss_pred CceecceeeecccccccHHHHHHHhcCCCCCChhheeeeeHHHHHHHHHhccCcchHHHHHHHHHHHHH
Confidence 3458888888888999999995432 2 33889999999999997744 667777777777665
No 92
>PF12684 DUF3799: PDDEXK-like domain of unknown function (DUF3799); InterPro: IPR024432 This entry represents a PDDEXK-like domain of unknown function found in proteins from bacteria and viruses. Many of these proteins are annotated as exodeoxyribonuclease 8, which is involved in the RecE pathway of recombination. The PD-(D/E)XK domain is ubiquitously found in enzymes involved in metabolism of nucleic acids, mostly in nucleases []. ; PDB: 3L0A_A 3H4R_A.
Probab=81.52 E-value=0.62 Score=51.10 Aligned_cols=39 Identities=5% Similarity=0.159 Sum_probs=30.1
Q ss_pred ccChhhhhHHhhChhhhHHHhhcC------cccchhhhHHHHHHH
Q 001127 989 GAATESMELLEACNGNSFLRRFSV------EDRSIISHLFHQWAK 1027 (1148)
Q Consensus 989 ~~SvSrlE~~~~CPf~~Fl~~~Gl------~~a~~iGtl~H~~le 1027 (1148)
.+|+|++-.|..||..++...-|- ..|..+|+++|.++|
T Consensus 2 y~S~Sq~K~f~~ceA~~~A~l~g~~~~~~~t~All~Gs~vH~~~E 46 (237)
T PF12684_consen 2 YMSVSQFKDFLECEARALAKLNGEWEPEEDTTALLVGSYVHSYFE 46 (237)
T ss_dssp -EEHHHHHHHHH-HHHHHHHCTTS-------CHHCHHHHHHHHCC
T ss_pred CccHHHHhHHhcCHHHHHHHhcCCccCCCCCcHHHhhhHHHHHhc
Confidence 479999999999999888844442 338899999999765
No 93
>PRK09401 reverse gyrase; Reviewed
Probab=81.04 E-value=4 Score=54.99 Aligned_cols=56 Identities=14% Similarity=0.065 Sum_probs=46.0
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.+++-|+.++.. -.+.++++.|+.|||| ...+.+++++++|+..+.++.+++....
T Consensus 80 ~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHh
Confidence 568999998832 3356799999999999 2346789999999999999999988664
No 94
>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=80.98 E-value=3.1 Score=48.68 Aligned_cols=40 Identities=28% Similarity=0.355 Sum_probs=35.0
Q ss_pred EEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 264 LLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 264 ~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
++|.||.|||| .....+++++.+++..+.++.+++...++
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~ 54 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFG 54 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhC
Confidence 67889999999 23467999999999999999999998765
No 95
>PRK01172 ski2-like helicase; Provisional
Probab=80.78 E-value=2.2 Score=54.61 Aligned_cols=54 Identities=15% Similarity=0.116 Sum_probs=43.8
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
.|++.|++++.. ..+.+++|.||.|||| .....+++++++++..+.+..+++.+
T Consensus 22 ~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 22 ELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHH
Confidence 589999999942 3356799999999999 12357899999999999998888765
No 96
>PRK00254 ski2-like helicase; Provisional
Probab=80.46 E-value=2.2 Score=55.00 Aligned_cols=56 Identities=20% Similarity=0.082 Sum_probs=46.0
Q ss_pred hhcCCHHHHHHhc--cCCCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAAC--GDMSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~--~~~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
...|++.|.+++. ...+.+++|.+|.|||| ...+.+++++++++..+.+..+++..
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 3468999999984 24567899999999999 22467999999999999999888765
No 97
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=80.28 E-value=11 Score=47.61 Aligned_cols=57 Identities=16% Similarity=0.084 Sum_probs=41.2
Q ss_pred CCHHHHHHhc------cCCCCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 248 LNDQQLEAAC------GDMSTPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 248 Ln~~Qr~aV~------~~~~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
+-.-|..||. ......++|.=..|||| ...-++||+|+=.+..+++........++.
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~ 241 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPF 241 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCC
Confidence 3456777762 12233477777889999 345689999999999999988887766543
No 98
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=80.12 E-value=2.4 Score=44.01 Aligned_cols=38 Identities=26% Similarity=0.352 Sum_probs=30.1
Q ss_pred EEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 264 LLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 264 ~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
++|+|+||||| ...+++++++.-....-.+|++|+.+.
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H 47 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARH 47 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHH
Confidence 58999999999 234568888877777778899998764
No 99
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=80.09 E-value=2.9 Score=51.10 Aligned_cols=57 Identities=12% Similarity=0.092 Sum_probs=44.6
Q ss_pred hcCCHHHHHHhccCC-CCCEEEEecCCCCC-------------CCC--------CCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 246 QSLNDQQLEAACGDM-STPLLIVAGPGSGK-------------GIS--------PSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK-------------~~~--------~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
..+++-|.+++..-. +.+++|.++.|||| ... ..+.|++++|+..+.++.+.+....
T Consensus 108 ~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~ 186 (475)
T PRK01297 108 PYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALT 186 (475)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhh
Confidence 457999999984333 45789999999999 111 3479999999999999999887653
No 100
>PRK13767 ATP-dependent helicase; Provisional
Probab=79.47 E-value=3.1 Score=54.73 Aligned_cols=56 Identities=18% Similarity=0.112 Sum_probs=44.2
Q ss_pred hcCCHHHHHHhcc-CCCCCEEEEecCCCCC-------------C-------CCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 246 QSLNDQQLEAACG-DMSTPLLIVAGPGSGK-------------G-------ISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-------------~-------~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..|++-|++|+.. ..+.+++|.||.|||| . ...-++|++++++..+.++.+++...
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~~ 107 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEEP 107 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHHH
Confidence 4699999999842 2356799999999999 1 11235999999999999999988753
No 101
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=78.97 E-value=2.6 Score=54.60 Aligned_cols=43 Identities=26% Similarity=0.407 Sum_probs=35.7
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
+..++|.|++|||| .....+|+|+.+++.+|.++.+++.+.++
T Consensus 20 ~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l~ 73 (812)
T PRK11664 20 APQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQLG 73 (812)
T ss_pred CCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHhC
Confidence 56789999999999 22346899999999999999999976543
No 102
>COG1204 Superfamily II helicase [General function prediction only]
Probab=78.41 E-value=3.3 Score=53.21 Aligned_cols=53 Identities=26% Similarity=0.193 Sum_probs=44.2
Q ss_pred cCCHHHHHHhcc-C-CCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 247 SLNDQQLEAACG-D-MSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~-~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.|.+.|+.+|.. . .+++++|.+|-|||| ...+.++++++++++.|.|+.+++.
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~ 97 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS 97 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh
Confidence 677889998832 1 268999999999999 2236799999999999999999998
No 103
>PTZ00110 helicase; Provisional
Probab=78.13 E-value=4.2 Score=50.52 Aligned_cols=57 Identities=18% Similarity=0.205 Sum_probs=43.9
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC-------------CC------CCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK-------------GI------SPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK-------------~~------~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
...+++-|.+++... .+.++++.|+.|||| .. ....+||+++|+..+.++.+.+.+.
T Consensus 150 ~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 150 FTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 346799999998332 356799999999999 00 1235899999999999999888765
No 104
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=77.97 E-value=4.7 Score=51.61 Aligned_cols=59 Identities=25% Similarity=0.275 Sum_probs=47.1
Q ss_pred hhcCCHHHHHHhcc-CCCCCEEEEecCCCCC-------------CC---CC---CCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 245 LQSLNDQQLEAACG-DMSTPLLIVAGPGSGK-------------GI---SP---SNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-------------~~---~~---~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
...+++.|+.|+.. ..+.+++|+||-|||| .. .+ =.+|++|+=++....|++||...+.
T Consensus 20 ~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~ 98 (814)
T COG1201 20 FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLR 98 (814)
T ss_pred cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 45789999999832 3467899999999999 11 11 3589999999999999999987654
No 105
>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=77.11 E-value=2.4 Score=55.56 Aligned_cols=57 Identities=18% Similarity=0.110 Sum_probs=45.4
Q ss_pred cCCHHHHHHhccCC-------CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAACGDM-------STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~-------~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.+++.|.+|+..-. ..+.+|.|+.|||| ...+.+++++++|+..+.+..+.+.+.++
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~ 525 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFA 525 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhc
Confidence 57999999983111 13679999999999 12457899999999999999998887654
No 106
>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=76.12 E-value=3.8 Score=50.02 Aligned_cols=56 Identities=20% Similarity=0.184 Sum_probs=43.3
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
...+++.|++++..- .+.+++|.+|.|||| ...++..||+++++..+.+..+++..
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCSDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHcCCcEEEEecHHHHHHHHHHHHHH
Confidence 456889999998432 345799999999999 23456899999999988877776653
No 107
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=75.96 E-value=69 Score=41.70 Aligned_cols=52 Identities=8% Similarity=0.116 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEc
Q 001127 585 CHNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIH 643 (1148)
Q Consensus 585 ~~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~ 643 (1148)
+.+..+-..+|+..|.++... | +-+.|.|.+-.....+...|.+.|||+.+-
T Consensus 423 ~~t~~~k~~av~~~i~~~~~~----g---~PVLVgt~Sie~sE~ls~~L~~~gi~h~vL 474 (896)
T PRK13104 423 YLTQADKFQAIIEDVRECGVR----K---QPVLVGTVSIEASEFLSQLLKKENIKHQVL 474 (896)
T ss_pred EcCHHHHHHHHHHHHHHHHhC----C---CCEEEEeCcHHHHHHHHHHHHHcCCCeEee
Confidence 345666777899999887654 3 347888888888999999999999999874
No 108
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=75.80 E-value=4.1 Score=52.21 Aligned_cols=59 Identities=27% Similarity=0.304 Sum_probs=49.2
Q ss_pred hhcCCHHHHHHh--ccCCCCCEEEEecCCCCC---------------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAA--CGDMSTPLLIVAGPGSGK---------------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV--~~~~~~~~lI~G~AGSGK---------------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
...||.-|-.+. +...+.+.+|.||-|||| ..+.-+|++++++++.|.||.+...+.
T Consensus 108 f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kk 187 (1230)
T KOG0952|consen 108 FEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKK 187 (1230)
T ss_pred HHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhh
Confidence 456788898876 456688999999999999 224579999999999999999998877
Q ss_pred hc
Q 001127 302 VG 303 (1148)
Q Consensus 302 l~ 303 (1148)
++
T Consensus 188 l~ 189 (1230)
T KOG0952|consen 188 LA 189 (1230)
T ss_pred cc
Confidence 64
No 109
>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=75.51 E-value=3.6 Score=53.33 Aligned_cols=44 Identities=25% Similarity=0.347 Sum_probs=36.6
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.+..++|.|++|||| .....+|+|+.+++.+|.++.+|+.+.++
T Consensus 16 ~~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~~ 70 (819)
T TIGR01970 16 AHPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQLG 70 (819)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 356788999999999 22346999999999999999999986554
No 110
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.33 E-value=13 Score=43.96 Aligned_cols=58 Identities=19% Similarity=0.233 Sum_probs=46.2
Q ss_pred hhcCCHHHHHHhc-cCCCCCEEEEecCCCCC-----------------CCCCC--CEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAAC-GDMSTPLLIVAGPGSGK-----------------GISPS--NILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~-~~~~~~~lI~G~AGSGK-----------------~~~~~--~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...+|+-|-.+|- .-.+..+.|.++.|||| ..+|. .-||+++|+..+.+|.+-+...+
T Consensus 26 F~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~ 103 (567)
T KOG0345|consen 26 FEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFL 103 (567)
T ss_pred CcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHH
Confidence 5567999999983 33466799999999999 34555 67999999999999998776543
No 111
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=73.82 E-value=5.2 Score=51.36 Aligned_cols=70 Identities=19% Similarity=0.175 Sum_probs=54.4
Q ss_pred CCHHHHHHh-ccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEech
Q 001127 248 LNDQQLEAA-CGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTF 315 (1148)
Q Consensus 248 Ln~~Qr~aV-~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tf 315 (1148)
+-..||-=+ ..-.+.++-|+||.|.|| ...+++.+++.+|...+.|..+||.+.....+..++.+. +
T Consensus 83 ~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~-y 161 (1187)
T COG1110 83 PWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV-Y 161 (1187)
T ss_pred chHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee-e
Confidence 345676644 233577899999999999 456699999999999999999999998766555555565 7
Q ss_pred HHH
Q 001127 316 HSF 318 (1148)
Q Consensus 316 hs~ 318 (1148)
|+-
T Consensus 162 h~~ 164 (1187)
T COG1110 162 HSA 164 (1187)
T ss_pred ccc
Confidence 776
No 112
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=73.59 E-value=5.4 Score=51.99 Aligned_cols=60 Identities=22% Similarity=0.323 Sum_probs=48.3
Q ss_pred hhcCCHHHHHHhccCCC-CCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 245 LQSLNDQQLEAACGDMS-TPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~~-~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
...|=..|.+|...-.+ .+++|..|.|||| ..+..+-|++.+||+.+..=.+|+.+....
T Consensus 68 ~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~ 141 (851)
T COG1205 68 IERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISD 141 (851)
T ss_pred cccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHh
Confidence 34578899999965444 5899999999999 233457899999999999999999887654
No 113
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=72.93 E-value=1.7 Score=52.46 Aligned_cols=58 Identities=29% Similarity=0.415 Sum_probs=41.6
Q ss_pred CCCcEEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccceEEEEE
Q 001127 847 NENSVTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKLFILY 916 (1148)
Q Consensus 847 ~~D~V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L~LSy 916 (1148)
....|.|+|+++-.|.|+++|++.=+-.+- ...-|.+. |.|| +-||+||||+++.+..
T Consensus 547 ~~~~veV~TVD~fQGrEkdvVIfsmVRSN~----k~evGFL~-------e~RR-LNVAiTRaRRh~~vIg 604 (649)
T KOG1803|consen 547 DFRDVEVGTVDGFQGREKDVVIFSLVRSND----KGEVGFLG-------ETRR-LNVAITRARRHFVVIG 604 (649)
T ss_pred cCccceeecccccccceeeEEEEEEEeecC----cccccccC-------Ccce-eeEEEEeccceEEEEc
Confidence 345699999999999999999987653221 11123332 3344 7899999999998875
No 114
>PHA02653 RNA helicase NPH-II; Provisional
Probab=72.13 E-value=7.1 Score=49.51 Aligned_cols=54 Identities=20% Similarity=0.137 Sum_probs=40.5
Q ss_pred HHHHHHhc-cCCCCCEEEEecCCCCCCC--------------------------CCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 250 DQQLEAAC-GDMSTPLLIVAGPGSGKGI--------------------------SPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 250 ~~Qr~aV~-~~~~~~~lI~G~AGSGK~~--------------------------~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.-|++++. ...+..+++.|+.||||+. ...+++|+++++.++.++..++.+.+
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHh
Confidence 45666663 2346778999999999911 12479999999999999999887765
Q ss_pred c
Q 001127 303 G 303 (1148)
Q Consensus 303 ~ 303 (1148)
+
T Consensus 247 g 247 (675)
T PHA02653 247 G 247 (675)
T ss_pred C
Confidence 4
No 115
>PRK14701 reverse gyrase; Provisional
Probab=71.59 E-value=5.5 Score=55.27 Aligned_cols=56 Identities=21% Similarity=0.139 Sum_probs=45.6
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.+++-|+.++.. -.+.++++.||.|||| ...+.++||+++|+..+.++.+++....
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~ 146 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFC 146 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHH
Confidence 478999999832 3356799999999999 2245689999999999999999998753
No 116
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=69.97 E-value=3.8 Score=42.77 Aligned_cols=35 Identities=26% Similarity=0.378 Sum_probs=24.7
Q ss_pred EEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 264 LLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 264 ~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
++|.|+||||| ...+++++++++.+. ..++.+++.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~-~~~~~~~~~ 47 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEES-PEELIENAE 47 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCC-HHHHHHHHH
Confidence 68899999999 245678888887543 445544443
No 117
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=69.80 E-value=3.9 Score=42.55 Aligned_cols=40 Identities=28% Similarity=0.336 Sum_probs=27.0
Q ss_pred CEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 263 PLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 263 ~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.++|+|+||||| ...+.+++++.-....-.+|++|+....
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~ 50 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHR 50 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHH
Confidence 378999999999 1223355555544555678888886654
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=69.70 E-value=3.9 Score=51.79 Aligned_cols=58 Identities=24% Similarity=0.283 Sum_probs=46.3
Q ss_pred hcCCHHHHHHhc---cC--CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 246 QSLNDQQLEAAC---GD--MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~---~~--~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
..||++|..|+. .. ...+.++.|..|||| -..++.+|+|.+--..+.+|..|+....+
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC
Confidence 468999999883 12 245789999999999 34568899998888889999999987665
No 119
>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=69.65 E-value=6.4 Score=46.14 Aligned_cols=41 Identities=22% Similarity=0.250 Sum_probs=33.3
Q ss_pred CCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 262 TPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 262 ~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
+.++|.||+|||| -....+.+++.+++..+.+..+++...+
T Consensus 15 ~~~~i~apTGsGKT~~~~~~~l~~~~~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 15 DIIFNTAPTGAGKTLAWLTPLLHGENDTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeChHHHHHHHHHHHHHHH
Confidence 4578889999999 1234578999999999999999988765
No 120
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=69.48 E-value=9.3 Score=44.02 Aligned_cols=57 Identities=21% Similarity=0.179 Sum_probs=44.7
Q ss_pred hhcCCHHHHHHhccCC-CCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAACGDM-STPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
...+++-|+++|-... ++.++..|--|||| .-.+-..||+|+|+..|.+|.+.....
T Consensus 81 ~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 81 WKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred cCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 4457899999994433 55678889999999 122357999999999999999988754
No 121
>PRK10689 transcription-repair coupling factor; Provisional
Probab=66.78 E-value=6.2 Score=53.11 Aligned_cols=60 Identities=17% Similarity=0.132 Sum_probs=46.7
Q ss_pred HhhcCCHHHHHHhccCC-------CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 244 YLQSLNDQQLEAACGDM-------STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 244 ~~~~Ln~~Qr~aV~~~~-------~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
+.-.+++.|.+|+..-. ..+++|.|+.|||| ...+.+++|+++|+..|.++.+.+.+.++
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~ 674 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFA 674 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhc
Confidence 33478999999983211 24689999999999 13467899999999999999998876543
No 122
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=66.23 E-value=9.2 Score=37.25 Aligned_cols=14 Identities=43% Similarity=0.802 Sum_probs=12.6
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..+++|.|+|||||
T Consensus 19 ~~~v~i~G~~G~GK 32 (151)
T cd00009 19 PKNLLLYGPPGTGK 32 (151)
T ss_pred CCeEEEECCCCCCH
Confidence 56789999999999
No 123
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=65.85 E-value=11 Score=42.76 Aligned_cols=63 Identities=16% Similarity=0.107 Sum_probs=50.7
Q ss_pred HHHHhhcCCHHHHHHhc-----cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 241 YSKYLQSLNDQQLEAAC-----GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 241 ~~~~~~~Ln~~Qr~aV~-----~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.-.|-..|++-|+.|.. ......++|.|..|+|| ...+++|.+.++--.-+-++..||.....
T Consensus 91 ~L~W~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~ 169 (441)
T COG4098 91 VLQWKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS 169 (441)
T ss_pred eeeeccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc
Confidence 44688899999999762 23356789999999999 34678888888888889999999988754
No 124
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=65.41 E-value=12 Score=44.87 Aligned_cols=73 Identities=19% Similarity=0.154 Sum_probs=52.0
Q ss_pred cCCHHHHHHhc-cCCCCCEEEEecCCCCC-----------------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 247 SLNDQQLEAAC-GDMSTPLLIVAGPGSGK-----------------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 247 ~Ln~~Qr~aV~-~~~~~~~lI~G~AGSGK-----------------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
..++-|+.||- ...++.++-++-+|||| ...+..-+++.||+..+.+|++.-.+..
T Consensus 267 eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~ 346 (673)
T KOG0333|consen 267 EPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFG 346 (673)
T ss_pred CCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhc
Confidence 45899999983 23467788889999999 1234567899999999999999877765
Q ss_pred ccccCCCceEechHHHH
Q 001127 303 GKATAKELTISTFHSFS 319 (1148)
Q Consensus 303 ~~~~~~~v~V~Tfhs~a 319 (1148)
..-+..-+.|..-|||-
T Consensus 347 ~~lg~r~vsvigg~s~E 363 (673)
T KOG0333|consen 347 KPLGIRTVSVIGGLSFE 363 (673)
T ss_pred ccccceEEEEecccchh
Confidence 44334444555555554
No 125
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=65.28 E-value=19 Score=34.95 Aligned_cols=34 Identities=21% Similarity=0.376 Sum_probs=28.3
Q ss_pred CEEEEecCccC-CHHHHHHHHHHHcCC--cEEEEcCC
Q 001127 477 KAIIVDEFQDT-SAMQYSLLQILASHN--RITIVGDD 510 (1148)
Q Consensus 477 d~IiIDEfQDf-tp~q~~lL~~L~~~~--~l~lvGD~ 510 (1148)
..|+|||+|.+ +...+..|..|.... +++++|-|
T Consensus 89 ~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLFSDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEECh
Confidence 48999999999 988888888887643 78888977
No 126
>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=65.23 E-value=7.6 Score=48.72 Aligned_cols=42 Identities=17% Similarity=0.154 Sum_probs=34.2
Q ss_pred CCCCEEEEecCCCCC------------C-CCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 260 MSTPLLIVAGPGSGK------------G-ISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK------------~-~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
.+..++|.|+.|||| . ....+++|+|.|+..+.++.+.+...
T Consensus 15 ~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l 69 (636)
T TIGR03117 15 QKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERL 69 (636)
T ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHH
Confidence 356688889999999 1 24689999999999999999866544
No 127
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=65.22 E-value=6.6 Score=39.10 Aligned_cols=17 Identities=47% Similarity=0.900 Sum_probs=14.2
Q ss_pred cCCCCCEEEEecCCCCC
Q 001127 258 GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK 274 (1148)
...+.|++|.|.+||||
T Consensus 18 a~~~~pvli~GE~GtGK 34 (138)
T PF14532_consen 18 AKSSSPVLITGEPGTGK 34 (138)
T ss_dssp HCSSS-EEEECCTTSSH
T ss_pred hCCCCcEEEEcCCCCCH
Confidence 35678999999999999
No 128
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=64.95 E-value=15 Score=49.45 Aligned_cols=78 Identities=15% Similarity=0.179 Sum_probs=54.9
Q ss_pred cCCHHHHHHhcc------CCCCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc---
Q 001127 247 SLNDQQLEAACG------DMSTPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIVGK--- 304 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~------~~~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~--- 304 (1148)
.|-+.|.+||.. ......+|..+.|||| .....+||+++.++..+.++.+.+......
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~ 492 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGDQ 492 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhccccccc
Confidence 467899998821 1234688889999999 224579999999999999988877653110
Q ss_pred ----------------ccCCCceEechHHHHHHHHH
Q 001127 305 ----------------ATAKELTISTFHSFSLQLCR 324 (1148)
Q Consensus 305 ----------------~~~~~v~V~Tfhs~a~rIl~ 324 (1148)
....++.|.|+++|..+++.
T Consensus 493 ~~~~i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~ 528 (1123)
T PRK11448 493 TFASIYDIKGLEDKFPEDETKVHVATVQGMVKRILY 528 (1123)
T ss_pred chhhhhchhhhhhhcccCCCCEEEEEHHHHHHhhhc
Confidence 01245677888887776654
No 129
>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity. The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.
Probab=64.59 E-value=10 Score=39.38 Aligned_cols=39 Identities=26% Similarity=0.310 Sum_probs=29.9
Q ss_pred EEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 264 LLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 264 ~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
++|+||+.||| ...+++++++.-.+..=.+|++|+.+.-
T Consensus 1 ilv~GG~rSGKS~~Ae~la~~~~~~~~YiAT~~~~D~em~~RI~~H~ 47 (167)
T PF02283_consen 1 ILVTGGARSGKSSFAERLALSFGGPVTYIATARPFDEEMRERIARHR 47 (167)
T ss_dssp EEEEESTTSSHHHHHHHHHTS--SCEEEEESSHHHHHHHHHHHHHHH
T ss_pred CEEeCCCCcchHHHHHHHHHhcCCCcEEEeCCCCCCHHHHHHHHHHH
Confidence 58999999999 3334777888777777779999998654
No 130
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=64.42 E-value=4.6 Score=56.02 Aligned_cols=67 Identities=21% Similarity=0.225 Sum_probs=47.0
Q ss_pred HhhcCCHHHHHHhccCC---CCCEEEEecCCCCC------------C---CCCCCEEEEeccHHHHHHHHHHHHhhhccc
Q 001127 244 YLQSLNDQQLEAACGDM---STPLLIVAGPGSGK------------G---ISPSNILAMTFTTAAASEMRDRIGSIVGKA 305 (1148)
Q Consensus 244 ~~~~Ln~~Qr~aV~~~~---~~~~lI~G~AGSGK------------~---~~~~~ILvltft~~Aa~ei~~RL~~~l~~~ 305 (1148)
....||+.|++||.... ++.++|.|+||||| . ..+.+|+.+++|.+|+..|++ .
T Consensus 964 ~~~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e-----~--- 1035 (1747)
T PRK13709 964 LMEGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS-----A--- 1035 (1747)
T ss_pred hcCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh-----c---
Confidence 34578999999884322 34567779999999 1 123468889999999988764 1
Q ss_pred cCCCceEechHHHHHH
Q 001127 306 TAKELTISTFHSFSLQ 321 (1148)
Q Consensus 306 ~~~~v~V~Tfhs~a~r 321 (1148)
.+...|+|+|-..
T Consensus 1036 ---Gi~A~TI~s~L~~ 1048 (1747)
T PRK13709 1036 ---GVDAQTLASFLHD 1048 (1747)
T ss_pred ---CcchhhHHHHhcc
Confidence 2357899998653
No 131
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=64.36 E-value=12 Score=49.19 Aligned_cols=51 Identities=27% Similarity=0.290 Sum_probs=38.4
Q ss_pred cCCHHHHHHhc-----cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHH
Q 001127 247 SLNDQQLEAAC-----GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDR 297 (1148)
Q Consensus 247 ~Ln~~Qr~aV~-----~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~R 297 (1148)
...+.|.+.+. ...+..++|.||.|||| ....++++|.|.|+....++..+
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHH
Confidence 35678887431 23456788999999999 22467999999999999988654
No 132
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=63.56 E-value=9.5 Score=48.13 Aligned_cols=56 Identities=18% Similarity=0.131 Sum_probs=43.7
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
...+.+.|++++..- .+.+++|.+|.|||| ....+..||++++...+.+..+++..
T Consensus 23 ~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHcCCCEEEEecHHHHHHHHHHHHHH
Confidence 346789999998432 356799999999999 23456899999999998887777754
No 133
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=63.56 E-value=4 Score=44.33 Aligned_cols=39 Identities=26% Similarity=0.432 Sum_probs=25.8
Q ss_pred CCCCEEEEecCCCCC-----------CCC-CCCEEEEeccHHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GIS-PSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~-~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..++|.|+||||| ... +++++++++.+.. .++.+++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~ 68 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMK 68 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHH
Confidence 455689999999999 234 7889999986655 55555554
No 134
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=63.46 E-value=9.2 Score=50.03 Aligned_cols=62 Identities=19% Similarity=0.162 Sum_probs=51.6
Q ss_pred HHHhhcCCHHHHHHh-ccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 242 SKYLQSLNDQQLEAA-CGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 242 ~~~~~~Ln~~Qr~aV-~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
..+--.|++-|++|+ +.+.+.+++|.|+-|||| ..+++++.++++.++...+.-++|....+
T Consensus 114 ~~~~F~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~~~fg 187 (1041)
T COG4581 114 REYPFELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLLAKFG 187 (1041)
T ss_pred HhCCCCcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHHHHhh
Confidence 345557899999998 456778899999999999 45678899999999999998888877665
No 135
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=62.53 E-value=13 Score=41.12 Aligned_cols=57 Identities=18% Similarity=0.198 Sum_probs=43.8
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
....+.-|+.||..- .+.++...+-.|||| +.+.-.+|++++|+..|.++.+-+...
T Consensus 47 fekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 47 FEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred cCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHh
Confidence 445577788888432 355678889999999 344568999999999999999887654
No 136
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=61.31 E-value=6.9 Score=43.58 Aligned_cols=34 Identities=21% Similarity=0.346 Sum_probs=25.3
Q ss_pred CCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHH
Q 001127 259 DMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAAS 292 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ 292 (1148)
+.++.++|.|+||||| ...+++++++|+.+....
T Consensus 21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~ 65 (260)
T COG0467 21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEE 65 (260)
T ss_pred cCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHH
Confidence 5567789999999999 234678888887665443
No 137
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=61.23 E-value=8.2 Score=40.41 Aligned_cols=43 Identities=26% Similarity=0.318 Sum_probs=28.5
Q ss_pred ccCcCEEEEecCccCCHHHHHHHHHHHcCC-cEEEEc---CCCCccc
Q 001127 473 QDSWKAIIVDEFQDTSAMQYSLLQILASHN-RITIVG---DDDQSIF 515 (1148)
Q Consensus 473 ~~~fd~IiIDEfQDftp~q~~lL~~L~~~~-~l~lvG---D~~QsIy 515 (1148)
...+++|+|||+|=|+++-..++..+...+ .+++.| |-.+..|
T Consensus 74 ~~~~dvI~IDEaQFf~~~i~~l~~~~~~~g~~Vi~~GL~~df~~~~F 120 (176)
T PF00265_consen 74 ENDYDVIGIDEAQFFDEQIVQLVEILANKGIPVICAGLDTDFRGEPF 120 (176)
T ss_dssp CTTCSEEEESSGGGSTTTHHHHHHHHHHTT-EEEEEEESB-TTSSB-
T ss_pred ccCCCEEEEechHhhHHHHHHHHHHHHhCCCeEEEEeeCCccccCcc
Confidence 345999999999999955566777776644 555554 5555544
No 138
>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=61.15 E-value=12 Score=47.25 Aligned_cols=56 Identities=14% Similarity=0.144 Sum_probs=42.9
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
...+++-|++++..- .+.+++|.+|.|+|| ...++..+|++++.....+..+++..
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLLKGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHcCCcEEEEcCCHHHHHHHHHHHHH
Confidence 346899999999432 356799999999999 23466789999999887776666654
No 139
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=61.09 E-value=4.4 Score=46.20 Aligned_cols=36 Identities=28% Similarity=0.395 Sum_probs=30.2
Q ss_pred EEEEecCccCCHHHHHHH-HHHHcCCcEEEEcCCCCc
Q 001127 478 AIIVDEFQDTSAMQYSLL-QILASHNRITIVGDDDQS 513 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL-~~L~~~~~l~lvGD~~Qs 513 (1148)
+|++||+|.+|+.|..+. ..|--+.+.++.||..|.
T Consensus 246 fVIlDEaQNtT~~QmKMfLTRiGf~skmvItGD~tQi 282 (348)
T COG1702 246 FVILDEAQNTTVGQMKMFLTRIGFESKMVITGDITQI 282 (348)
T ss_pred EEEEecccccchhhhceeeeeecCCceEEEEcCcccc
Confidence 899999999999999873 344446799999999994
No 140
>KOG3079 consensus Uridylate kinase/adenylate kinase [Nucleotide transport and metabolism]
Probab=61.03 E-value=4.5 Score=42.08 Aligned_cols=14 Identities=50% Similarity=1.120 Sum_probs=12.0
Q ss_pred CCEEEEecCCCCCC
Q 001127 262 TPLLIVAGPGSGKG 275 (1148)
Q Consensus 262 ~~~lI~G~AGSGK~ 275 (1148)
..++|+|+|||||+
T Consensus 9 ~IifVlGGPGsgKg 22 (195)
T KOG3079|consen 9 PIIFVLGGPGSGKG 22 (195)
T ss_pred CEEEEEcCCCCCcc
Confidence 34799999999995
No 141
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=60.69 E-value=7.9 Score=42.54 Aligned_cols=39 Identities=18% Similarity=0.312 Sum_probs=28.2
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..++|.|+||||| ...+++++++++-+ ...++.++..
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee-~~~~i~~~~~ 69 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE-HPVQVRRNMA 69 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC-CHHHHHHHHH
Confidence 355678899999999 23578899999765 4555666654
No 142
>PRK07952 DNA replication protein DnaC; Validated
Probab=60.58 E-value=4 Score=45.10 Aligned_cols=13 Identities=31% Similarity=0.787 Sum_probs=11.6
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
+++++.|+|||||
T Consensus 100 ~~~~l~G~~GtGK 112 (244)
T PRK07952 100 ASFIFSGKPGTGK 112 (244)
T ss_pred ceEEEECCCCCCH
Confidence 4688999999999
No 143
>PRK13766 Hef nuclease; Provisional
Probab=60.54 E-value=11 Score=49.03 Aligned_cols=56 Identities=16% Similarity=0.131 Sum_probs=45.2
Q ss_pred CCHHHHHHhccCCCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 248 LNDQQLEAACGDMSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
+-+-|+.++.....++.+|.++.|+|| ...++++|++++|+..+.+..+.+.+.++
T Consensus 16 ~r~yQ~~~~~~~l~~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~ 83 (773)
T PRK13766 16 ARLYQQLLAATALKKNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLN 83 (773)
T ss_pred ccHHHHHHHHHHhcCCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 356788887655667899999999999 23468999999999999998888876543
No 144
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=59.17 E-value=13 Score=43.36 Aligned_cols=71 Identities=18% Similarity=0.272 Sum_probs=40.8
Q ss_pred HHHHHHhccCCCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhh---hccccCCCceEechHHH
Q 001127 250 DQQLEAACGDMSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSI---VGKATAKELTISTFHSF 318 (1148)
Q Consensus 250 ~~Qr~aV~~~~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~---l~~~~~~~v~V~Tfhs~ 318 (1148)
..=+++|....-.+.+..||||||| +.......-+.-+...+.++++-+.+. ...+-..-+.|--+|+|
T Consensus 37 ~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRf 116 (436)
T COG2256 37 KPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRF 116 (436)
T ss_pred chHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHHHHHHHhcCCceEEEEehhhhc
Confidence 3456666444445567779999999 333445555555555666666655443 22111223567777888
Q ss_pred HH
Q 001127 319 SL 320 (1148)
Q Consensus 319 a~ 320 (1148)
-.
T Consensus 117 nK 118 (436)
T COG2256 117 NK 118 (436)
T ss_pred Ch
Confidence 53
No 145
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=58.29 E-value=10 Score=36.83 Aligned_cols=44 Identities=20% Similarity=0.403 Sum_probs=24.4
Q ss_pred CCCEEEEecCCCCC---------CC-------CCCCEEEEeccHHH-HHHHHHHHHhhhcc
Q 001127 261 STPLLIVAGPGSGK---------GI-------SPSNILAMTFTTAA-ASEMRDRIGSIVGK 304 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK---------~~-------~~~~ILvltft~~A-a~ei~~RL~~~l~~ 304 (1148)
.+.++|.|+||+|| .. ...+++.+..+... ...+...+...++.
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~ 64 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGL 64 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCc
Confidence 45688999999999 00 14455666555554 45566666655543
No 146
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=58.28 E-value=16 Score=47.80 Aligned_cols=49 Identities=16% Similarity=0.057 Sum_probs=37.5
Q ss_pred CCHHHHH---Hh--ccCCCCCEEEEecCCCCC----------CCCCCCEEEEeccHHHHHHHHH
Q 001127 248 LNDQQLE---AA--CGDMSTPLLIVAGPGSGK----------GISPSNILAMTFTTAAASEMRD 296 (1148)
Q Consensus 248 Ln~~Qr~---aV--~~~~~~~~lI~G~AGSGK----------~~~~~~ILvltft~~Aa~ei~~ 296 (1148)
.-+.|.+ +| ....+..++|.|++|||| .....+++|.|+|+..+.++..
T Consensus 246 ~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~~~~vvI~t~T~~Lq~Ql~~ 309 (820)
T PRK07246 246 ERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSDQRQIIVSVPTKILQDQIMA 309 (820)
T ss_pred cCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHHH
Confidence 4677877 33 234456788999999999 2346799999999999999953
No 147
>PRK08084 DNA replication initiation factor; Provisional
Probab=58.22 E-value=9.2 Score=42.00 Aligned_cols=48 Identities=15% Similarity=0.224 Sum_probs=27.9
Q ss_pred HHHHhhcCCHHHHHHhc----cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccH
Q 001127 241 YSKYLQSLNDQQLEAAC----GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTT 288 (1148)
Q Consensus 241 ~~~~~~~Ln~~Qr~aV~----~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~ 288 (1148)
++.+...-|.....++. .....+++|.|++|||| ...+.+++++++..
T Consensus 21 fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 21 FASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred ccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 34445444555544442 12235688999999999 12345666666643
No 148
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=58.10 E-value=17 Score=44.78 Aligned_cols=59 Identities=19% Similarity=0.130 Sum_probs=45.6
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC------------C--CCCCC--EEEEeccHHHHHHHHHHHHhhhc
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK------------G--ISPSN--ILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK------------~--~~~~~--ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
....++-|..++-.. .+..+++.|..|||| . ..... .||+++|+..|.++.+.+.....
T Consensus 49 f~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~ 124 (513)
T COG0513 49 FEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGK 124 (513)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHh
Confidence 456799999998433 356799999999999 1 22222 89999999999999998877543
No 149
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=56.97 E-value=13 Score=48.28 Aligned_cols=62 Identities=23% Similarity=0.226 Sum_probs=42.3
Q ss_pred HHHHhhcCCHHHHHHhc--cCCCCCEEEE-ecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 241 YSKYLQSLNDQQLEAAC--GDMSTPLLIV-AGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 241 ~~~~~~~Ln~~Qr~aV~--~~~~~~~lI~-G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
+..++..++..|..++. ........+. |++|+|| .....+++.+..++.+.+.+..++.+..
T Consensus 268 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 (767)
T COG1112 268 LVEINKELDNEQKLAVKRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTV 346 (767)
T ss_pred eeccchhccchhHHHHHHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhc
Confidence 34456667777777762 2223444555 8899999 2236788888888888888888887754
No 150
>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]
Probab=56.66 E-value=8.8 Score=39.33 Aligned_cols=40 Identities=33% Similarity=0.437 Sum_probs=32.9
Q ss_pred CEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 263 PLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 263 ~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.++|+|||-||| ...+.+++++.-...+=.+|++|+...-
T Consensus 2 ~ilvtGgaRSGKS~~AE~la~~~~~~v~YvAT~~a~D~Em~~RI~~Hr 49 (175)
T COG2087 2 MILVTGGARSGKSSFAEALAGESGGQVLYVATGRAFDDEMQERIAHHR 49 (175)
T ss_pred eEEEecCccCCchHHHHHHHHhhCCceEEEEecCCCCHHHHHHHHHHH
Confidence 479999999999 4457788888877777799999998653
No 151
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=56.36 E-value=5.5 Score=38.39 Aligned_cols=19 Identities=16% Similarity=0.153 Sum_probs=14.7
Q ss_pred cCEEEEecCccCCHHHHHH
Q 001127 476 WKAIIVDEFQDTSAMQYSL 494 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~l 494 (1148)
++.|+|||.+.+.......
T Consensus 79 ~~viiiDei~~~~~~~~~~ 97 (148)
T smart00382 79 PDVLILDEITSLLDAEQEA 97 (148)
T ss_pred CCEEEEECCcccCCHHHHH
Confidence 5699999998887665554
No 152
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=56.13 E-value=15 Score=48.79 Aligned_cols=49 Identities=24% Similarity=0.309 Sum_probs=38.0
Q ss_pred CHHHHHHh-----ccCCCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHH
Q 001127 249 NDQQLEAA-----CGDMSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDR 297 (1148)
Q Consensus 249 n~~Qr~aV-----~~~~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~R 297 (1148)
-+.|.+.+ ....++.++|.||.|||| ....++++|.|.|....+++..+
T Consensus 259 R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 259 REGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 56787733 234457788999999999 23568999999999999998764
No 153
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=55.84 E-value=17 Score=47.74 Aligned_cols=58 Identities=26% Similarity=0.280 Sum_probs=46.2
Q ss_pred hhcCCHHHHHHh--ccCCCCCEEEEecCCCCC----------------------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAA--CGDMSTPLLIVAGPGSGK----------------------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV--~~~~~~~~lI~G~AGSGK----------------------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
...||..|-.+- ......++++.||+|+|| ...+-+|.++.+....+++|-.-+.+
T Consensus 307 ~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSk 386 (1674)
T KOG0951|consen 307 KQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSK 386 (1674)
T ss_pred chhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHh
Confidence 446899998754 245678899999999999 13456999999999999999887766
Q ss_pred hh
Q 001127 301 IV 302 (1148)
Q Consensus 301 ~l 302 (1148)
.+
T Consensus 387 Rl 388 (1674)
T KOG0951|consen 387 RL 388 (1674)
T ss_pred hc
Confidence 54
No 154
>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=55.56 E-value=16 Score=47.18 Aligned_cols=55 Identities=16% Similarity=0.116 Sum_probs=41.8
Q ss_pred CCHHHHHHhccCCCC--CEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 248 LNDQQLEAACGDMST--PLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~--~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.++-|.+++..-..| ++++.++.|||| ...+++++++++|+..+.++.+.+.+..
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHH
Confidence 689999999543343 477779999999 1234567778899999999998887653
No 155
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=55.51 E-value=6.9 Score=42.16 Aligned_cols=11 Identities=45% Similarity=0.954 Sum_probs=10.0
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
.+|+|||||||
T Consensus 5 qvVIGPPgSGK 15 (290)
T KOG1533|consen 5 QVVIGPPGSGK 15 (290)
T ss_pred eEEEcCCCCCc
Confidence 47899999999
No 156
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=55.22 E-value=17 Score=38.37 Aligned_cols=33 Identities=21% Similarity=0.214 Sum_probs=27.9
Q ss_pred cCEEEEecCccCCHHHHHHHHHHHcC-C-cEEEEc
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQILASH-N-RITIVG 508 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~L~~~-~-~l~lvG 508 (1148)
.+.|+|||+|=|++.+...|..|+.. + .+++.|
T Consensus 83 ~~~v~IDEaQF~~~~~v~~l~~lad~lgi~Vi~~G 117 (201)
T COG1435 83 VDCVLIDEAQFFDEELVYVLNELADRLGIPVICYG 117 (201)
T ss_pred cCEEEEehhHhCCHHHHHHHHHHHhhcCCEEEEec
Confidence 67999999999999999999999985 4 455555
No 157
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=54.93 E-value=14 Score=41.14 Aligned_cols=11 Identities=45% Similarity=0.996 Sum_probs=10.4
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+++.|||||||
T Consensus 169 iLLyGPPGTGK 179 (439)
T KOG0739|consen 169 ILLYGPPGTGK 179 (439)
T ss_pred EEEeCCCCCcH
Confidence 78899999999
No 158
>PRK05973 replicative DNA helicase; Provisional
Probab=54.71 E-value=12 Score=41.22 Aligned_cols=39 Identities=28% Similarity=0.387 Sum_probs=28.0
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
+..++|.|+||+|| ...+++++++++-.. ..++.+|+..
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHH
Confidence 44567789999999 234677888887665 5677777754
No 159
>TIGR00372 cas4 CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.
Probab=54.25 E-value=11 Score=39.32 Aligned_cols=42 Identities=14% Similarity=0.154 Sum_probs=34.3
Q ss_pred cChhhhhHHhhChhhhHHHhhcCcc-----cchhhhHHHHHHHHhhc
Q 001127 990 AATESMELLEACNGNSFLRRFSVED-----RSIISHLFHQWAKKKAF 1031 (1148)
Q Consensus 990 ~SvSrlE~~~~CPf~~Fl~~~Gl~~-----a~~iGtl~H~~le~~~~ 1031 (1148)
+++|.+..|.-||.++|+.++++.. ....|..+|+.++.+.+
T Consensus 1 i~~s~i~~~~~CpR~~~~~~~~~~~~~~~~~~~~G~~~h~~~~~~~~ 47 (178)
T TIGR00372 1 ITVSDVLEYLYCPRKLWYMKKGGSERFSEVRMILGRLIHERAESFLK 47 (178)
T ss_pred CChHHhHHHHhChHHHHHHHhhcccccchhHHHHHHHHHHHhhhhhh
Confidence 4789999999999999997777622 47889999999986543
No 160
>PRK04328 hypothetical protein; Provisional
Probab=53.92 E-value=12 Score=41.40 Aligned_cols=39 Identities=18% Similarity=0.300 Sum_probs=27.2
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..++|.|+||||| ...+++.+++++-+... ++.++..
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~-~i~~~~~ 71 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPV-QVRRNMR 71 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHH-HHHHHHH
Confidence 455678899999999 24567888888766443 3555443
No 161
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=53.67 E-value=5.7 Score=38.51 Aligned_cols=15 Identities=13% Similarity=0.222 Sum_probs=12.0
Q ss_pred CEEEEecCccCCHHH
Q 001127 477 KAIIVDEFQDTSAMQ 491 (1148)
Q Consensus 477 d~IiIDEfQDftp~q 491 (1148)
..|+|||+..+.+..
T Consensus 60 ~vl~iDe~d~l~~~~ 74 (132)
T PF00004_consen 60 CVLFIDEIDKLFPKS 74 (132)
T ss_dssp EEEEEETGGGTSHHC
T ss_pred eeeeeccchhccccc
Confidence 488999998887775
No 162
>PRK04296 thymidine kinase; Provisional
Probab=53.41 E-value=19 Score=38.02 Aligned_cols=37 Identities=22% Similarity=0.255 Sum_probs=26.3
Q ss_pred cCcCEEEEecCccCCHHHH-HHHHHHHc-CCcEEEEcCC
Q 001127 474 DSWKAIIVDEFQDTSAMQY-SLLQILAS-HNRITIVGDD 510 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~-~lL~~L~~-~~~l~lvGD~ 510 (1148)
..++.|+|||+|-++..|. .++..+.. +..++++|=.
T Consensus 77 ~~~dvviIDEaq~l~~~~v~~l~~~l~~~g~~vi~tgl~ 115 (190)
T PRK04296 77 EKIDCVLIDEAQFLDKEQVVQLAEVLDDLGIPVICYGLD 115 (190)
T ss_pred CCCCEEEEEccccCCHHHHHHHHHHHHHcCCeEEEEecC
Confidence 3688999999999987654 46666555 4467777643
No 163
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=53.31 E-value=8.8 Score=45.35 Aligned_cols=17 Identities=29% Similarity=0.511 Sum_probs=14.1
Q ss_pred cCCCCCEEEEecCCCCC
Q 001127 258 GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK 274 (1148)
.+..+-.++.|||||||
T Consensus 232 kawKRGYLLYGPPGTGK 248 (457)
T KOG0743|consen 232 KAWKRGYLLYGPPGTGK 248 (457)
T ss_pred cchhccceeeCCCCCCH
Confidence 35566689999999999
No 164
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=53.25 E-value=22 Score=40.38 Aligned_cols=52 Identities=15% Similarity=0.152 Sum_probs=35.3
Q ss_pred CHHHHHHh-----ccCCCCCEEEEecCCCCC------------CCCC-----CCEEEEeccHHHHHHHHHHHHh
Q 001127 249 NDQQLEAA-----CGDMSTPLLIVAGPGSGK------------GISP-----SNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 249 n~~Qr~aV-----~~~~~~~~lI~G~AGSGK------------~~~~-----~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
-+.|.+.+ ....+++++|.+|.|||| ...+ .+|+++|-|.....+....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 57777743 234567889999999999 1122 3899999988865555444443
No 165
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=53.25 E-value=22 Score=40.38 Aligned_cols=52 Identities=15% Similarity=0.152 Sum_probs=35.3
Q ss_pred CHHHHHHh-----ccCCCCCEEEEecCCCCC------------CCCC-----CCEEEEeccHHHHHHHHHHHHh
Q 001127 249 NDQQLEAA-----CGDMSTPLLIVAGPGSGK------------GISP-----SNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 249 n~~Qr~aV-----~~~~~~~~lI~G~AGSGK------------~~~~-----~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
-+.|.+.+ ....+++++|.+|.|||| ...+ .+|+++|-|.....+....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 57777743 234567889999999999 1122 3899999988865555444443
No 166
>PRK08181 transposase; Validated
Probab=53.14 E-value=11 Score=42.22 Aligned_cols=30 Identities=27% Similarity=0.401 Sum_probs=20.6
Q ss_pred hhcCCHHHHHHhc-----cCCCCCEEEEecCCCCC
Q 001127 245 LQSLNDQQLEAAC-----GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~-----~~~~~~~lI~G~AGSGK 274 (1148)
...++..|..+.. .....++++.|+|||||
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGK 119 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGK 119 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcH
Confidence 3456677766551 12345689999999999
No 167
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=52.97 E-value=8.5 Score=46.15 Aligned_cols=56 Identities=18% Similarity=0.151 Sum_probs=41.3
Q ss_pred hcCCHHHHHHhccCCCCC-EEEEecCCCCC------------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 246 QSLNDQQLEAACGDMSTP-LLIVAGPGSGK------------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~~~~-~lI~G~AGSGK------------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..+++-|++.|-.+..|. ++=-|-.|||| ...+-..||+++|+..|.++-+-|.+.
T Consensus 90 v~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kv 164 (758)
T KOG0343|consen 90 VKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKV 164 (758)
T ss_pred ccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHH
Confidence 356889999986666554 33335679999 334567999999999999888777653
No 168
>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=52.46 E-value=8.5 Score=47.32 Aligned_cols=39 Identities=26% Similarity=0.293 Sum_probs=32.7
Q ss_pred EEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 265 LIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 265 lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
++.|+.|||| ...++++|+++++...+.++.+++.+.++
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~ 50 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFG 50 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 4679999999 23467899999999999999999987654
No 169
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=51.52 E-value=31 Score=41.37 Aligned_cols=39 Identities=18% Similarity=0.202 Sum_probs=26.6
Q ss_pred cCCCCCEEEEecCCCCC---------------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 258 GDMSTPLLIVAGPGSGK---------------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK---------------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..|+.++.=|.|||| .....++++|+=| +-+|++-|.
T Consensus 32 LDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRT---vpEieK~l~ 85 (755)
T KOG1131|consen 32 LDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRT---VPEIEKALE 85 (755)
T ss_pred hccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCc---chHHHHHHH
Confidence 46789999999999999 1234677777655 344444443
No 170
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=51.29 E-value=24 Score=44.53 Aligned_cols=55 Identities=16% Similarity=0.129 Sum_probs=45.3
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
.|-+.|.+++..+...+++|.+|-|+|| ..+.++|+++++|.-.+.+-..++...
T Consensus 62 ~lR~YQ~eivq~ALgkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~ 129 (746)
T KOG0354|consen 62 ELRNYQEELVQPALGKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIY 129 (746)
T ss_pred cccHHHHHHhHHhhcCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhc
Confidence 4678899999878888999999999999 345589999999998887766666543
No 171
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=51.03 E-value=12 Score=47.23 Aligned_cols=35 Identities=29% Similarity=0.551 Sum_probs=24.0
Q ss_pred HHHHHhhcC-CHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 240 EYSKYLQSL-NDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 240 ~~~~~~~~L-n~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
++..+...| |++|....-.....-+++.|||||||
T Consensus 322 El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGK 357 (774)
T KOG0731|consen 322 ELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGK 357 (774)
T ss_pred HHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcH
Confidence 444444444 78887776333444589999999999
No 172
>PRK06526 transposase; Provisional
Probab=50.14 E-value=8.5 Score=42.84 Aligned_cols=14 Identities=29% Similarity=0.712 Sum_probs=12.5
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..++++.|+|||||
T Consensus 98 ~~nlll~Gp~GtGK 111 (254)
T PRK06526 98 KENVVFLGPPGTGK 111 (254)
T ss_pred CceEEEEeCCCCch
Confidence 45789999999999
No 173
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=49.83 E-value=21 Score=41.77 Aligned_cols=40 Identities=20% Similarity=0.386 Sum_probs=33.5
Q ss_pred CEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 263 PLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 263 ~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.++|.|+||||| .....++++++++......+++.+....
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~ 55 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKY 55 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhc
Confidence 368889999999 1356889999999999999999887654
No 174
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=49.68 E-value=12 Score=40.60 Aligned_cols=13 Identities=38% Similarity=0.754 Sum_probs=11.9
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++|+||
T Consensus 35 ~~l~l~G~~G~GK 47 (219)
T PF00308_consen 35 NPLFLYGPSGLGK 47 (219)
T ss_dssp SEEEEEESTTSSH
T ss_pred CceEEECCCCCCH
Confidence 4799999999999
No 175
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=49.64 E-value=9.5 Score=42.44 Aligned_cols=29 Identities=24% Similarity=0.343 Sum_probs=20.4
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTT 288 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~ 288 (1148)
...++++.|+||+|| ...+-+++++++++
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~e 143 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPD 143 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence 456799999999999 22345666666543
No 176
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms.; GO: 0004386 helicase activity, 0005524 ATP binding
Probab=49.50 E-value=13 Score=46.68 Aligned_cols=37 Identities=22% Similarity=0.295 Sum_probs=31.2
Q ss_pred EEEEecCCCCC------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 264 LLIVAGPGSGK------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 264 ~lI~G~AGSGK------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
.+|.|-||+|| -...-.-+|+.-|..||.++-..|.+
T Consensus 62 ylITGtAGaGKStsIq~L~~~ldCviTGaT~vAaQNls~~L~~ 104 (818)
T PF02689_consen 62 YLITGTAGAGKSTSIQTLAENLDCVITGATVVAAQNLSSKLSR 104 (818)
T ss_pred EEEeccCCCCccchHHHHHhhhCeEEecchhhhHhHHHHHhcc
Confidence 58899999999 22345789999999999999999975
No 177
>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=49.41 E-value=45 Score=42.60 Aligned_cols=41 Identities=17% Similarity=0.147 Sum_probs=34.1
Q ss_pred CCEEEEecCCCCC-------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 262 TPLLIVAGPGSGK-------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 262 ~~~lI~G~AGSGK-------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
+..+|..+.|||| .....+||+++..+....|+.+.+....
T Consensus 264 ~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 264 RGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred ceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 3578889999999 2345789999999999999999887754
No 178
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=49.40 E-value=6.7e+02 Score=32.26 Aligned_cols=39 Identities=26% Similarity=0.497 Sum_probs=31.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc---CCcEEEEcCCCCc
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS---HNRITIVGDDDQS 513 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~---~~~l~lvGD~~Qs 513 (1148)
.|.|++|||+|-.-.....+.+.|.. ..++.++|-|-|.
T Consensus 289 ~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQN 330 (971)
T KOG0385|consen 289 NWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQN 330 (971)
T ss_pred CceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccc
Confidence 68899999999997776666655543 5689999999994
No 179
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=48.90 E-value=17 Score=39.46 Aligned_cols=39 Identities=10% Similarity=0.189 Sum_probs=27.8
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
+..++|.|+||+|| ...+++++++++.+ ...++.+++..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHH
Confidence 44578889999999 23567888888766 45666666543
No 180
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=48.70 E-value=14 Score=39.92 Aligned_cols=16 Identities=31% Similarity=0.343 Sum_probs=13.7
Q ss_pred CCCCCEEEEecCCCCC
Q 001127 259 DMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK 274 (1148)
...++++|.|++||||
T Consensus 36 ~~~~~lll~G~~G~GK 51 (226)
T TIGR03420 36 KGDRFLYLWGESGSGK 51 (226)
T ss_pred CCCCeEEEECCCCCCH
Confidence 3466799999999999
No 181
>KOG4284 consensus DEAD box protein [Transcription]
Probab=47.92 E-value=66 Score=39.76 Aligned_cols=57 Identities=19% Similarity=0.191 Sum_probs=43.4
Q ss_pred cCCHHHHHHhccCC-CCCEEEEecCCCCC--------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAACGDM-STPLLIVAGPGSGK--------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK--------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.-++-|.+||-... .-.++|.+-.|||| ....-.++++++|+..|-++++-+.....
T Consensus 47 ~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~ 118 (980)
T KOG4284|consen 47 LPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP 118 (980)
T ss_pred CCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcc
Confidence 34788999883222 23588889999999 22335799999999999999998887653
No 182
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=47.64 E-value=38 Score=41.24 Aligned_cols=57 Identities=18% Similarity=0.098 Sum_probs=42.4
Q ss_pred cCCHHHHHHhccCC-CCCEEEEecCCCCC-------------C-------CCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 247 SLNDQQLEAACGDM-STPLLIVAGPGSGK-------------G-------ISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK-------------~-------~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.+++-|....-... +..++.++.-|||| . ...-.+|||++|+..|.++..-......
T Consensus 113 ~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~ 190 (519)
T KOG0331|consen 113 KPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGK 190 (519)
T ss_pred CCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcC
Confidence 45777887663333 45688899999999 1 1134699999999999999988876543
No 183
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=47.39 E-value=13 Score=41.39 Aligned_cols=27 Identities=19% Similarity=0.204 Sum_probs=20.8
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEecc
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFT 287 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft 287 (1148)
+..++|.|+||||| ...+++++++++-
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E 73 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE 73 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence 34578889999999 2356788888875
No 184
>PF13173 AAA_14: AAA domain
Probab=47.17 E-value=40 Score=32.98 Aligned_cols=36 Identities=25% Similarity=0.295 Sum_probs=26.1
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcC---CcEEEEcCCC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASH---NRITIVGDDD 511 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~---~~l~lvGD~~ 511 (1148)
...+|+|||+|-.. .....++.+... .+++++|-..
T Consensus 61 ~~~~i~iDEiq~~~-~~~~~lk~l~d~~~~~~ii~tgS~~ 99 (128)
T PF13173_consen 61 GKKYIFIDEIQYLP-DWEDALKFLVDNGPNIKIILTGSSS 99 (128)
T ss_pred CCcEEEEehhhhhc-cHHHHHHHHHHhccCceEEEEccch
Confidence 45699999999996 456667777663 3778877544
No 185
>PRK09183 transposase/IS protein; Provisional
Probab=46.87 E-value=18 Score=40.46 Aligned_cols=30 Identities=17% Similarity=0.289 Sum_probs=19.1
Q ss_pred hhcCCHHHHHHhc----cCCCCCEEEEecCCCCC
Q 001127 245 LQSLNDQQLEAAC----GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~----~~~~~~~lI~G~AGSGK 274 (1148)
...+|..|...+. ...+.+++|+|++||||
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGK 115 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGK 115 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCH
Confidence 3455555554441 12345688999999999
No 186
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=46.76 E-value=27 Score=46.44 Aligned_cols=55 Identities=16% Similarity=0.155 Sum_probs=41.7
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
...|.+-|+++|... .+.++++++|.|+|| ...++..||++++...+.+...+|.
T Consensus 458 ~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~~GiTLVISPLiSLmqDQV~~L~ 521 (1195)
T PLN03137 458 NHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALICPGITLVISPLVSLIQDQIMNLL 521 (1195)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHcCCcEEEEeCHHHHHHHHHHHHH
Confidence 457899999998433 356799999999999 2345789999999998765444443
No 187
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=46.50 E-value=9.2 Score=36.74 Aligned_cols=11 Identities=55% Similarity=1.020 Sum_probs=10.1
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|+|||||
T Consensus 2 I~I~G~~gsGK 12 (121)
T PF13207_consen 2 IIISGPPGSGK 12 (121)
T ss_dssp EEEEESTTSSH
T ss_pred EEEECCCCCCH
Confidence 57889999999
No 188
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=46.46 E-value=36 Score=41.01 Aligned_cols=81 Identities=17% Similarity=0.113 Sum_probs=57.1
Q ss_pred hhcCCHHHHHHhc-cCCCCCEEEEecCCCCC--------------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 245 LQSLNDQQLEAAC-GDMSTPLLIVAGPGSGK--------------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~-~~~~~~~lI~G~AGSGK--------------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
+..++.-|+++|- .-.+..++|.+.-|||| ...+-=-||+.+|+..+.++-+-+.+++.
T Consensus 157 i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~ 236 (708)
T KOG0348|consen 157 ISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLK 236 (708)
T ss_pred cCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhc
Confidence 4467888999882 22366799999999999 22334579999999999998887776642
Q ss_pred c-------------c---------cCCCceEechHHHHHHHHHH
Q 001127 304 K-------------A---------TAKELTISTFHSFSLQLCRS 325 (1148)
Q Consensus 304 ~-------------~---------~~~~v~V~Tfhs~a~rIl~~ 325 (1148)
. . .-.++-|+|.-++.-.+...
T Consensus 237 ~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT 280 (708)
T KOG0348|consen 237 PFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNT 280 (708)
T ss_pred CceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhcc
Confidence 1 0 01346678888887766543
No 189
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=46.42 E-value=9.6 Score=39.73 Aligned_cols=12 Identities=58% Similarity=1.348 Sum_probs=10.5
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 2 i~i~G~pGsGKs 13 (183)
T TIGR01359 2 VFVLGGPGSGKG 13 (183)
T ss_pred EEEECCCCCCHH
Confidence 678999999993
No 190
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=46.26 E-value=12 Score=40.07 Aligned_cols=32 Identities=16% Similarity=0.228 Sum_probs=22.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCCcEEE
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHNRITI 506 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~l 506 (1148)
.-.++|+||+..|++.-...|+.-+..+.+.+
T Consensus 106 h~GVLflDE~~ef~~~vld~Lr~ple~g~v~i 137 (206)
T PF01078_consen 106 HRGVLFLDELNEFDRSVLDALRQPLEDGEVTI 137 (206)
T ss_dssp TTSEEEECETTTS-HHHHHHHHHHHHHSBEEE
T ss_pred cCCEEEechhhhcCHHHHHHHHHHHHCCeEEE
Confidence 44599999999999998877776554344433
No 191
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=46.18 E-value=17 Score=36.41 Aligned_cols=28 Identities=18% Similarity=0.376 Sum_probs=20.0
Q ss_pred EEEEecCCCCC-----------CCCCCCEEEEeccHHHH
Q 001127 264 LLIVAGPGSGK-----------GISPSNILAMTFTTAAA 291 (1148)
Q Consensus 264 ~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa 291 (1148)
++|.|+||||| ...+.+++++.+.....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE 40 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence 57899999999 23456777777655433
No 192
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=45.76 E-value=10 Score=39.75 Aligned_cols=22 Identities=32% Similarity=0.360 Sum_probs=14.7
Q ss_pred EEEEecCccCCHHHHHHHHHHHc
Q 001127 478 AIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
.+++|+|=-+.. |.+++..+..
T Consensus 80 ~~I~dg~PR~~~-qa~~l~r~l~ 101 (178)
T COG0563 80 GFILDGFPRTLC-QARALKRLLK 101 (178)
T ss_pred eEEEeCCCCcHH-HHHHHHHHHH
Confidence 688999966554 4666665543
No 193
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=45.58 E-value=8.9 Score=37.99 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=20.9
Q ss_pred CEEEEecCccCCHHHHHHHHHHHcCCcEEE
Q 001127 477 KAIIVDEFQDTSAMQYSLLQILASHNRITI 506 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~L~~~~~l~l 506 (1148)
.++++||+.-.++.-...|..+.....+.+
T Consensus 67 ~il~lDEin~a~~~v~~~L~~ll~~~~~~~ 96 (139)
T PF07728_consen 67 GILVLDEINRAPPEVLESLLSLLEERRIQL 96 (139)
T ss_dssp EEEEESSCGG--HHHHHTTHHHHSSSEEEE
T ss_pred eEEEECCcccCCHHHHHHHHHHHhhCcccc
Confidence 389999999888887777777776655543
No 194
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=45.53 E-value=12 Score=41.34 Aligned_cols=9 Identities=44% Similarity=0.888 Sum_probs=7.8
Q ss_pred EEecCCCCC
Q 001127 266 IVAGPGSGK 274 (1148)
Q Consensus 266 I~G~AGSGK 274 (1148)
|+|+|||||
T Consensus 1 ViGpaGSGK 9 (238)
T PF03029_consen 1 VIGPAGSGK 9 (238)
T ss_dssp -EESTTSSH
T ss_pred CCCCCCCCH
Confidence 689999999
No 195
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=45.46 E-value=49 Score=39.58 Aligned_cols=59 Identities=15% Similarity=0.164 Sum_probs=45.7
Q ss_pred hhcCCHHHHHHhccC-CCCCEEEEecCCCCC------------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 245 LQSLNDQQLEAACGD-MSTPLLIVAGPGSGK------------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~-~~~~~lI~G~AGSGK------------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
...+++-|...+..- .+..+++.|--|||| ..++-.++|+++|+..|.++..-+.+++.
T Consensus 102 F~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~ 179 (543)
T KOG0342|consen 102 FETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLK 179 (543)
T ss_pred ccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHh
Confidence 456789999887322 245788899999999 23456899999999999999888877654
No 196
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=45.10 E-value=27 Score=42.98 Aligned_cols=58 Identities=28% Similarity=0.391 Sum_probs=49.9
Q ss_pred HhhcCCHHHHHHhccCCCCCE-EEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 244 YLQSLNDQQLEAACGDMSTPL-LIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 244 ~~~~Ln~~Qr~aV~~~~~~~~-lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
-+..||.+|..||..-.++|+ +|.||||||| ....++|||++++|.|++++.++|.+.
T Consensus 407 ~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~t 477 (935)
T KOG1802|consen 407 NLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKT 477 (935)
T ss_pred CchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhc
Confidence 467899999999976677776 6779999999 346789999999999999999999863
No 197
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=44.65 E-value=8.7 Score=38.83 Aligned_cols=21 Identities=29% Similarity=0.283 Sum_probs=12.7
Q ss_pred cCEEEEecCccCCHHHHHHHHH
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQI 497 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~ 497 (1148)
..-++||+|=-+. .|...+..
T Consensus 74 ~~g~ildGfPrt~-~Qa~~l~~ 94 (151)
T PF00406_consen 74 NRGFILDGFPRTL-EQAEALEE 94 (151)
T ss_dssp TTEEEEESB-SSH-HHHHHHHH
T ss_pred cceeeeeeccccH-HHHHHHHH
Confidence 4578999996544 44555554
No 198
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=44.31 E-value=27 Score=41.91 Aligned_cols=58 Identities=16% Similarity=0.018 Sum_probs=45.2
Q ss_pred cCCHHHHHHhcc-CCCCCEEEEecCCCCC----------------------CC--CCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 247 SLNDQQLEAACG-DMSTPLLIVAGPGSGK----------------------GI--SPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~-~~~~~~lI~G~AGSGK----------------------~~--~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..++-|+-++.. ..++.+++.|.-|||| .. ..-++|++++|+..+.++-++-.+.
T Consensus 96 ~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~ 175 (482)
T KOG0335|consen 96 KPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKF 175 (482)
T ss_pred CCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhh
Confidence 468999998832 3456789999999999 01 1257999999999999999999876
Q ss_pred hcc
Q 001127 302 VGK 304 (1148)
Q Consensus 302 l~~ 304 (1148)
...
T Consensus 176 ~~~ 178 (482)
T KOG0335|consen 176 SYL 178 (482)
T ss_pred ccc
Confidence 543
No 199
>PRK14532 adenylate kinase; Provisional
Probab=44.11 E-value=11 Score=39.65 Aligned_cols=13 Identities=38% Similarity=0.853 Sum_probs=11.1
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
+++|+|+|||||+
T Consensus 2 ~i~~~G~pGsGKs 14 (188)
T PRK14532 2 NLILFGPPAAGKG 14 (188)
T ss_pred EEEEECCCCCCHH
Confidence 3788999999993
No 200
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=43.71 E-value=11 Score=42.55 Aligned_cols=15 Identities=33% Similarity=0.654 Sum_probs=12.2
Q ss_pred CCCCEEEEecCCCCC
Q 001127 260 MSTPLLIVAGPGSGK 274 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK 274 (1148)
.++-++++|||||||
T Consensus 176 ~NRliLlhGPPGTGK 190 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGK 190 (423)
T ss_pred eeeEEEEeCCCCCCh
Confidence 345578889999999
No 201
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=43.66 E-value=14 Score=41.25 Aligned_cols=31 Identities=16% Similarity=0.335 Sum_probs=24.4
Q ss_pred EEEEecCccCCHHHHHHHHHHHcCCcEEEEc
Q 001127 478 AIIVDEFQDTSAMQYSLLQILASHNRITIVG 508 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~~~~~l~lvG 508 (1148)
.++|||++..++.....|..+.....+++.|
T Consensus 108 ~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~ 138 (262)
T TIGR02640 108 TLVYDEFTRSKPETNNVLLSVFEEGVLELPG 138 (262)
T ss_pred EEEEcchhhCCHHHHHHHHHHhcCCeEEccC
Confidence 8999999999998887777777655555544
No 202
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=43.63 E-value=16 Score=39.60 Aligned_cols=16 Identities=19% Similarity=0.345 Sum_probs=13.2
Q ss_pred CCCCEEEEecCCCCCC
Q 001127 260 MSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK~ 275 (1148)
...+++|.|++||||.
T Consensus 41 ~~~~~~l~G~~G~GKT 56 (227)
T PRK08903 41 ADRFFYLWGEAGSGRS 56 (227)
T ss_pred CCCeEEEECCCCCCHH
Confidence 3467999999999993
No 203
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=43.21 E-value=20 Score=43.98 Aligned_cols=39 Identities=21% Similarity=0.377 Sum_probs=27.5
Q ss_pred CCCCEEEEecCCCCC----------C-CC-CCCEEEEeccHHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK----------G-IS-PSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK----------~-~~-~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..++|.|+||||| + .. +++.++++|- ....++.+...
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~ 70 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNAR 70 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHH
Confidence 455689999999999 2 23 6899999985 34455555443
No 204
>PRK05642 DNA replication initiation factor; Validated
Probab=42.96 E-value=19 Score=39.51 Aligned_cols=13 Identities=15% Similarity=0.406 Sum_probs=11.8
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++||||
T Consensus 46 ~~l~l~G~~G~GK 58 (234)
T PRK05642 46 SLIYLWGKDGVGR 58 (234)
T ss_pred CeEEEECCCCCCH
Confidence 5788999999999
No 205
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=42.69 E-value=11 Score=37.24 Aligned_cols=11 Identities=45% Similarity=1.014 Sum_probs=9.9
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+++.|+|||||
T Consensus 2 ii~~G~pgsGK 12 (143)
T PF13671_consen 2 IILCGPPGSGK 12 (143)
T ss_dssp EEEEESTTSSH
T ss_pred EEEECCCCCCH
Confidence 57889999999
No 206
>PRK14531 adenylate kinase; Provisional
Probab=42.60 E-value=13 Score=39.09 Aligned_cols=13 Identities=54% Similarity=1.037 Sum_probs=11.3
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
.++|.|+|||||+
T Consensus 4 ~i~i~G~pGsGKs 16 (183)
T PRK14531 4 RLLFLGPPGAGKG 16 (183)
T ss_pred EEEEECCCCCCHH
Confidence 4789999999994
No 207
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=42.48 E-value=18 Score=40.70 Aligned_cols=34 Identities=24% Similarity=0.613 Sum_probs=22.0
Q ss_pred CCCCCEEEEecCCCCC---------CCCCCC--EEEEeccHHHHH
Q 001127 259 DMSTPLLIVAGPGSGK---------GISPSN--ILAMTFTTAAAS 292 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK---------~~~~~~--ILvltft~~Aa~ 292 (1148)
..+.|+++.|++|||| ...+.+ +..+.|+-..+.
T Consensus 31 ~~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts 75 (272)
T PF12775_consen 31 SNGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTS 75 (272)
T ss_dssp HCTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHH
T ss_pred HcCCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCH
Confidence 3467899999999999 344555 444555544333
No 208
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=42.30 E-value=33 Score=39.48 Aligned_cols=72 Identities=18% Similarity=0.263 Sum_probs=41.5
Q ss_pred CHHHHHHhccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc-cCC---CceEe
Q 001127 249 NDQQLEAACGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKA-TAK---ELTIS 313 (1148)
Q Consensus 249 n~~Qr~aV~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~-~~~---~v~V~ 313 (1148)
+.--+.+|....-..+++.||||||| ....-+.+-+.-|+.-+.+++.-+.+.-... ... -+++-
T Consensus 150 ~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiD 229 (554)
T KOG2028|consen 150 DGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFID 229 (554)
T ss_pred chHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeH
Confidence 44455566444444566679999999 1122346677778888887776665431110 011 13556
Q ss_pred chHHHHH
Q 001127 314 TFHSFSL 320 (1148)
Q Consensus 314 Tfhs~a~ 320 (1148)
-+|+|-.
T Consensus 230 EiHRFNk 236 (554)
T KOG2028|consen 230 EIHRFNK 236 (554)
T ss_pred Hhhhhhh
Confidence 6777743
No 209
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=42.14 E-value=13 Score=41.39 Aligned_cols=15 Identities=27% Similarity=0.596 Sum_probs=12.5
Q ss_pred CCCEEEEecCCCCCC
Q 001127 261 STPLLIVAGPGSGKG 275 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK~ 275 (1148)
..++++.|+|||||+
T Consensus 42 ~~~vll~GppGtGKT 56 (261)
T TIGR02881 42 VLHMIFKGNPGTGKT 56 (261)
T ss_pred cceEEEEcCCCCCHH
Confidence 456889999999993
No 210
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=41.95 E-value=29 Score=44.23 Aligned_cols=53 Identities=26% Similarity=0.203 Sum_probs=40.4
Q ss_pred CHHHHHHh-----ccCCCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 249 NDQQLEAA-----CGDMSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 249 n~~Qr~aV-----~~~~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
-+.|+.++ ....+..++|.||.|||| ...+.++++.|-|+..-+++.++....
T Consensus 17 r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 17 RPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 46677655 233445589999999999 234589999999999988888888765
No 211
>PRK12377 putative replication protein; Provisional
Probab=41.69 E-value=15 Score=40.61 Aligned_cols=13 Identities=38% Similarity=0.777 Sum_probs=11.8
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.++++.|+|||||
T Consensus 102 ~~l~l~G~~GtGK 114 (248)
T PRK12377 102 TNFVFSGKPGTGK 114 (248)
T ss_pred CeEEEECCCCCCH
Confidence 5689999999999
No 212
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=41.43 E-value=13 Score=39.90 Aligned_cols=32 Identities=25% Similarity=0.241 Sum_probs=19.8
Q ss_pred CEEEEecCccCCHHHHHHHHHHHc-CCcEEEEcC
Q 001127 477 KAIIVDEFQDTSAMQYSLLQILAS-HNRITIVGD 509 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~L~~-~~~l~lvGD 509 (1148)
.-++||+|-. +..|...|..+.. ...+++.-|
T Consensus 79 ~~~ilDGfPr-t~~Qa~~l~~~~~~~~~~vi~L~ 111 (210)
T TIGR01351 79 NGFILDGFPR-TLSQAEALDALLKEKIDAVIELD 111 (210)
T ss_pred CcEEEeCCCC-CHHHHHHHHHHhccCCCEEEEEE
Confidence 3689999843 4667777766665 334444444
No 213
>PF05729 NACHT: NACHT domain
Probab=41.29 E-value=14 Score=37.28 Aligned_cols=12 Identities=58% Similarity=0.844 Sum_probs=10.7
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|.|.||+||
T Consensus 2 ~l~I~G~~G~GK 13 (166)
T PF05729_consen 2 VLWISGEPGSGK 13 (166)
T ss_pred EEEEECCCCCCh
Confidence 478899999999
No 214
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=40.77 E-value=42 Score=34.82 Aligned_cols=32 Identities=31% Similarity=0.618 Sum_probs=19.9
Q ss_pred EEEEecCccCCH-HHHHHHHHHHcCCcEEEEcCC
Q 001127 478 AIIVDEFQDTSA-MQYSLLQILASHNRITIVGDD 510 (1148)
Q Consensus 478 ~IiIDEfQDftp-~q~~lL~~L~~~~~l~lvGD~ 510 (1148)
.+++||..++++ .|.+++..|-. ..+.-+|+.
T Consensus 96 tL~Ld~I~~L~~~~Q~~Ll~~l~~-~~~~~~g~~ 128 (168)
T PF00158_consen 96 TLFLDEIEDLPPELQAKLLRVLEE-GKFTRLGSD 128 (168)
T ss_dssp EEEEETGGGS-HHHHHHHHHHHHH-SEEECCTSS
T ss_pred EEeecchhhhHHHHHHHHHHHHhh-chhcccccc
Confidence 788888888886 55666665543 345555543
No 215
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=40.75 E-value=12 Score=39.23 Aligned_cols=29 Identities=24% Similarity=0.343 Sum_probs=18.1
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTT 288 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~ 288 (1148)
...++++.|++|+|| ...+.+++++++++
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~ 85 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASD 85 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHH
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCc
Confidence 345689999999999 12456677776543
No 216
>PRK14530 adenylate kinase; Provisional
Probab=40.68 E-value=14 Score=39.93 Aligned_cols=14 Identities=43% Similarity=1.030 Sum_probs=11.8
Q ss_pred CCEEEEecCCCCCC
Q 001127 262 TPLLIVAGPGSGKG 275 (1148)
Q Consensus 262 ~~~lI~G~AGSGK~ 275 (1148)
..++|+|+|||||+
T Consensus 4 ~~I~i~G~pGsGKs 17 (215)
T PRK14530 4 PRILLLGAPGAGKG 17 (215)
T ss_pred CEEEEECCCCCCHH
Confidence 35789999999993
No 217
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=40.46 E-value=26 Score=40.23 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=26.4
Q ss_pred HHHHHhhcCCHHHHHHhc------------cCCCCCEEEEecCCCCC
Q 001127 240 EYSKYLQSLNDQQLEAAC------------GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 240 ~~~~~~~~Ln~~Qr~aV~------------~~~~~~~lI~G~AGSGK 274 (1148)
.+..++..|+++|++.+. ......++|+|.+||||
T Consensus 100 ~l~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGK 146 (309)
T PRK08154 100 LIRELLEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGK 146 (309)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCH
Confidence 466778889999988762 12344578889999999
No 218
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=40.16 E-value=14 Score=38.76 Aligned_cols=23 Identities=30% Similarity=0.358 Sum_probs=16.3
Q ss_pred CEEEEecCccCCHHHHHHHHHHHc
Q 001127 477 KAIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
.-++||+|= .+..|...+..+..
T Consensus 78 ~~~vldg~P-r~~~q~~~l~~~~~ 100 (194)
T cd01428 78 KGFILDGFP-RTVDQAEALDELLD 100 (194)
T ss_pred CCEEEeCCC-CCHHHHHHHHHHHh
Confidence 357899984 36667777777664
No 219
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=39.65 E-value=19 Score=40.60 Aligned_cols=27 Identities=22% Similarity=0.282 Sum_probs=21.8
Q ss_pred cCcCEEEEecCccCCHHHHHHHHHHHc
Q 001127 474 DSWKAIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
..|+.||+||++..|...|.-|+..+.
T Consensus 128 ~~fKiiIlDEcdsmtsdaq~aLrr~mE 154 (346)
T KOG0989|consen 128 PPFKIIILDECDSMTSDAQAALRRTME 154 (346)
T ss_pred CcceEEEEechhhhhHHHHHHHHHHHh
Confidence 588999999999998777777666554
No 220
>PRK08118 topology modulation protein; Reviewed
Probab=39.62 E-value=14 Score=38.19 Aligned_cols=12 Identities=33% Similarity=0.800 Sum_probs=10.8
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|+|+|||||
T Consensus 3 rI~I~G~~GsGK 14 (167)
T PRK08118 3 KIILIGSGGSGK 14 (167)
T ss_pred EEEEECCCCCCH
Confidence 378999999999
No 221
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.49 E-value=40 Score=43.45 Aligned_cols=53 Identities=15% Similarity=0.203 Sum_probs=40.0
Q ss_pred CHHHHHHh-----ccCCCCCEEEEecCCCCC------------CCCC--CCEEEEeccHHHHHHHHHHHHhh
Q 001127 249 NDQQLEAA-----CGDMSTPLLIVAGPGSGK------------GISP--SNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 249 n~~Qr~aV-----~~~~~~~~lI~G~AGSGK------------~~~~--~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
=+.|++.+ ....++++++.+|.|||| ...+ .+|+++|=|.+--.+..+.|.+.
T Consensus 12 y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred CHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhh
Confidence 36777755 235577899999999999 2233 68999999998877777777663
No 222
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=39.27 E-value=27 Score=38.15 Aligned_cols=38 Identities=16% Similarity=0.274 Sum_probs=25.8
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL 298 (1148)
.+..++|.|+||||| ...+++++++++-+.. .++.+++
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~-~~~~~~~ 72 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTS-KSYLKQM 72 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCH-HHHHHHH
Confidence 345578889999999 2356788888885433 3444444
No 223
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=39.19 E-value=16 Score=37.71 Aligned_cols=24 Identities=21% Similarity=0.433 Sum_probs=18.9
Q ss_pred EEEEecCccCCHHHHHHHHHHHcC
Q 001127 478 AIIVDEFQDTSAMQYSLLQILASH 501 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~~~ 501 (1148)
+|+||++|.+++..+.+|..|+..
T Consensus 153 vlviDd~d~~~~~~~~~l~~l~~~ 176 (185)
T PF13191_consen 153 VLVIDDLDWADPASLDLLRALARR 176 (185)
T ss_dssp EEEEETTTHHHTTHHHHHHH----
T ss_pred EEEEeCCCCCCcHHHHHHHhcccc
Confidence 899999999999999999998863
No 224
>KOG3125 consensus Thymidine kinase [Nucleotide transport and metabolism]
Probab=38.23 E-value=34 Score=35.95 Aligned_cols=35 Identities=26% Similarity=0.264 Sum_probs=28.2
Q ss_pred hccCcCEEEEecCccCCHHHHHHHHHHHc-CCcEEEE
Q 001127 472 YQDSWKAIIVDEFQDTSAMQYSLLQILAS-HNRITIV 507 (1148)
Q Consensus 472 l~~~fd~IiIDEfQDftp~q~~lL~~L~~-~~~l~lv 507 (1148)
+.+..++|-|||+|=|. -++..++.++. +++.++|
T Consensus 101 ~~~~vdVigIDEaQFf~-dl~efc~evAd~~Gk~Viv 136 (234)
T KOG3125|consen 101 LNGDVDVIGIDEAQFFG-DLYEFCREVADVHGKTVIV 136 (234)
T ss_pred hcCcceEEEecHHHHhH-HHHHHHHHHHhccCCEEEE
Confidence 33467899999999998 78999999998 5555555
No 225
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=37.94 E-value=17 Score=38.59 Aligned_cols=11 Identities=45% Similarity=0.755 Sum_probs=10.3
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
.+|.|||||||
T Consensus 6 ~lV~GpAgSGK 16 (273)
T KOG1534|consen 6 QLVMGPAGSGK 16 (273)
T ss_pred EEEEccCCCCc
Confidence 68999999999
No 226
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=37.83 E-value=40 Score=43.77 Aligned_cols=83 Identities=18% Similarity=0.211 Sum_probs=52.7
Q ss_pred CCCEEEEecCCCCC-----------C-CCCCCEEEEeccHHHHHHHHHHHHhhhcccc----------------CCCceE
Q 001127 261 STPLLIVAGPGSGK-----------G-ISPSNILAMTFTTAAASEMRDRIGSIVGKAT----------------AKELTI 312 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~-~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~----------------~~~v~V 312 (1148)
+..++|.|++|||| + ..++.|.++=+=+-||..+.+|+...++... ..++.+
T Consensus 65 ~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s~~Trik~ 144 (845)
T COG1643 65 NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKV 144 (845)
T ss_pred CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCCCCceeEE
Confidence 45567779999999 2 2345777777778899999999998876421 235677
Q ss_pred echHHHHHHHHHHHHHHhcCCCCceecChHHHHH
Q 001127 313 STFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRR 346 (1148)
Q Consensus 313 ~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~ 346 (1148)
+|=--|...+..... ..+ -...++++.-.+.
T Consensus 145 mTdGiLlrei~~D~~-Ls~--ys~vIiDEaHERS 175 (845)
T COG1643 145 MTDGILLREIQNDPL-LSG--YSVVIIDEAHERS 175 (845)
T ss_pred eccHHHHHHHhhCcc-ccc--CCEEEEcchhhhh
Confidence 776666655554321 111 2235666654443
No 227
>PLN02674 adenylate kinase
Probab=37.81 E-value=15 Score=40.47 Aligned_cols=22 Identities=27% Similarity=0.403 Sum_probs=15.2
Q ss_pred CEEEEecCccCCHHHHHHHHHHH
Q 001127 477 KAIIVDEFQDTSAMQYSLLQILA 499 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~L~ 499 (1148)
.-+++|+|=- |..|...|..+.
T Consensus 110 ~g~ilDGfPR-t~~Qa~~l~~~l 131 (244)
T PLN02674 110 KGFILDGFPR-TVVQAQKLDEML 131 (244)
T ss_pred CcEEEeCCCC-CHHHHHHHHHHH
Confidence 3699999986 555666665543
No 228
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=37.66 E-value=35 Score=43.83 Aligned_cols=36 Identities=28% Similarity=0.374 Sum_probs=30.2
Q ss_pred CCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHH
Q 001127 262 TPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDR 297 (1148)
Q Consensus 262 ~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~R 297 (1148)
+.++|.||.|||| ....++++|-|.|...-+++-.+
T Consensus 50 ~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 50 RILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred ceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 5678889999999 23678999999999999888654
No 229
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=37.55 E-value=29 Score=36.32 Aligned_cols=41 Identities=27% Similarity=0.520 Sum_probs=25.9
Q ss_pred CCCEEEEecCCCCC------------C---------CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 261 STPLLIVAGPGSGK------------G---------ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK------------~---------~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
+.-.+|.|++|+|| . ..+.++|++.+-.. ..++.+|+....
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 44568889999999 1 14567888776555 667888887654
No 230
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=37.44 E-value=43 Score=36.83 Aligned_cols=15 Identities=27% Similarity=0.496 Sum_probs=13.2
Q ss_pred CCCCEEEEecCCCCC
Q 001127 260 MSTPLLIVAGPGSGK 274 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK 274 (1148)
...++++.|..||||
T Consensus 51 pannvLL~G~rGtGK 65 (249)
T PF05673_consen 51 PANNVLLWGARGTGK 65 (249)
T ss_pred CCcceEEecCCCCCH
Confidence 456799999999999
No 231
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=37.44 E-value=29 Score=37.66 Aligned_cols=36 Identities=14% Similarity=0.211 Sum_probs=23.1
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDR 297 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~R 297 (1148)
+..++|.|+||||| ...+++++++++-. .+.++.++
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~-~~~~i~~~ 66 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE-SRESIIRQ 66 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC-CHHHHHHH
Confidence 45578889999999 12456777777633 33444444
No 232
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=37.02 E-value=95 Score=40.66 Aligned_cols=79 Identities=14% Similarity=0.181 Sum_probs=55.6
Q ss_pred CCHHHHHHhc-cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc-----------
Q 001127 248 LNDQQLEAAC-GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGK----------- 304 (1148)
Q Consensus 248 Ln~~Qr~aV~-~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~----------- 304 (1148)
|++.|.+++. ......++..+..|||| ...+..++|+|+|+-.|.+..+-+......
T Consensus 93 ~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG 172 (970)
T PRK12899 93 MVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSG 172 (970)
T ss_pred CChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCC
Confidence 5677777662 22344588889999999 123446899999999999988877654311
Q ss_pred --------ccCCCceEechHHHHHHHHHHH
Q 001127 305 --------ATAKELTISTFHSFSLQLCRSH 326 (1148)
Q Consensus 305 --------~~~~~v~V~Tfhs~a~rIl~~~ 326 (1148)
.....+-|.|..+|++.+++..
T Consensus 173 ~~~~eq~~~y~~DIVygTPgRLgfDyLrd~ 202 (970)
T PRK12899 173 SPLEKRKEIYQCDVVYGTASEFGFDYLRDN 202 (970)
T ss_pred CCHHHHHHHcCCCEEEECCChhHHHHhhCC
Confidence 0123478899999988888764
No 233
>PTZ00293 thymidine kinase; Provisional
Probab=36.88 E-value=47 Score=35.82 Aligned_cols=40 Identities=15% Similarity=0.137 Sum_probs=26.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCC-cEEEEc---CCCCccc
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHN-RITIVG---DDDQSIF 515 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~-~l~lvG---D~~QsIy 515 (1148)
.+++|+|||+|=|+. -..++..+...+ .+++.| |-.+..|
T Consensus 77 ~~dvI~IDEaQFf~~-i~~~~~~l~~~g~~VivaGLd~Df~~~~F 120 (211)
T PTZ00293 77 NYDVIAIDEGQFFPD-LVEFSEAAANLGKIVIVAALDGTFQRKPF 120 (211)
T ss_pred CCCEEEEEchHhhHh-HHHHHHHHHHCCCeEEEEecCcccccCcC
Confidence 578999999999964 456666676544 455554 4444433
No 234
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=36.70 E-value=17 Score=50.23 Aligned_cols=66 Identities=21% Similarity=0.189 Sum_probs=47.4
Q ss_pred hhcCCHHHHHHhccC---CCCCEEEEecCCCCC------------C---CCCCCEEEEeccHHHHHHHHHHHHhhhcccc
Q 001127 245 LQSLNDQQLEAACGD---MSTPLLIVAGPGSGK------------G---ISPSNILAMTFTTAAASEMRDRIGSIVGKAT 306 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~---~~~~~lI~G~AGSGK------------~---~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~ 306 (1148)
...||+.|++||... .++.++|.|+||||| . ..+.+|+.+++|.+|+..|++ .
T Consensus 833 ~~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e-~-------- 903 (1623)
T PRK14712 833 MEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS-A-------- 903 (1623)
T ss_pred hcccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHH-h--------
Confidence 347899999998432 335567779999999 0 124568889999999998864 1
Q ss_pred CCCceEechHHHHHH
Q 001127 307 AKELTISTFHSFSLQ 321 (1148)
Q Consensus 307 ~~~v~V~Tfhs~a~r 321 (1148)
.+...|+|+|-..
T Consensus 904 --Gi~A~TIasfL~~ 916 (1623)
T PRK14712 904 --GVDAQTLASFLHD 916 (1623)
T ss_pred --CchHhhHHHHhcc
Confidence 2457899998653
No 235
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=36.55 E-value=36 Score=38.86 Aligned_cols=27 Identities=30% Similarity=0.406 Sum_probs=18.6
Q ss_pred CCHHHHHHhc--cCCCCCEEEEecCCCCC
Q 001127 248 LNDQQLEAAC--GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 248 Ln~~Qr~aV~--~~~~~~~lI~G~AGSGK 274 (1148)
+++.|.+.+. ....++++|.|++||||
T Consensus 117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGK 145 (299)
T TIGR02782 117 MTAAQRDVLREAVLARKNILVVGGTGSGK 145 (299)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCH
Confidence 4555555431 23467899999999999
No 236
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=36.39 E-value=45 Score=36.15 Aligned_cols=13 Identities=46% Similarity=0.856 Sum_probs=10.8
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.+++|.||||+||
T Consensus 49 P~liisGpPG~GK 61 (333)
T KOG0991|consen 49 PNLIISGPPGTGK 61 (333)
T ss_pred CceEeeCCCCCch
Confidence 3467779999999
No 237
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=36.37 E-value=19 Score=43.08 Aligned_cols=23 Identities=17% Similarity=0.303 Sum_probs=17.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
.-.++|+||+-.|... +|..|..
T Consensus 283 H~GVLFLDElpef~~~---iLe~LR~ 305 (490)
T COG0606 283 HNGVLFLDELPEFKRS---ILEALRE 305 (490)
T ss_pred cCCEEEeeccchhhHH---HHHHHhC
Confidence 4458999999999884 6666654
No 238
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=36.34 E-value=59 Score=41.06 Aligned_cols=80 Identities=18% Similarity=0.168 Sum_probs=54.9
Q ss_pred hcCCHHHHHHhccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhcccc--------
Q 001127 246 QSLNDQQLEAACGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKAT-------- 306 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~-------- 306 (1148)
....+-|..++-.-..|. +..+..|+|| ...+..++|+|+|+-.|.+..+.+......-+
T Consensus 102 ~~p~~VQ~~~~~~ll~G~-Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~g 180 (656)
T PRK12898 102 QRHFDVQLMGGLALLSGR-LAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVE 180 (656)
T ss_pred CCCChHHHHHHHHHhCCC-eeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeC
Confidence 345788888774444555 7779999999 34567899999999999988887776542100
Q ss_pred -----------CCCceEechHHHHHHHHHHH
Q 001127 307 -----------AKELTISTFHSFSLQLCRSH 326 (1148)
Q Consensus 307 -----------~~~v~V~Tfhs~a~rIl~~~ 326 (1148)
...+-++|-..|++..|++.
T Consensus 181 g~~~~~r~~~y~~dIvygT~~e~~FDyLrd~ 211 (656)
T PRK12898 181 DQSPDERRAAYGADITYCTNKELVFDYLRDR 211 (656)
T ss_pred CCCHHHHHHHcCCCEEEECCCchhhhhcccc
Confidence 12355666666666666553
No 239
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=36.25 E-value=22 Score=35.95 Aligned_cols=16 Identities=31% Similarity=0.671 Sum_probs=13.5
Q ss_pred CCCCEEEEecCCCCCC
Q 001127 260 MSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK~ 275 (1148)
...+++|.|.||+||.
T Consensus 6 ~~PNILvtGTPG~GKs 21 (176)
T KOG3347|consen 6 ERPNILVTGTPGTGKS 21 (176)
T ss_pred cCCCEEEeCCCCCCch
Confidence 3567999999999994
No 240
>PRK06620 hypothetical protein; Validated
Probab=36.25 E-value=17 Score=39.30 Aligned_cols=13 Identities=46% Similarity=0.511 Sum_probs=11.6
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.+++|.|+|||||
T Consensus 45 ~~l~l~Gp~G~GK 57 (214)
T PRK06620 45 FTLLIKGPSSSGK 57 (214)
T ss_pred ceEEEECCCCCCH
Confidence 4589999999999
No 241
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=36.25 E-value=26 Score=36.87 Aligned_cols=28 Identities=29% Similarity=0.388 Sum_probs=20.2
Q ss_pred cCCHHHHHHhc--cCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAAC--GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV~--~~~~~~~lI~G~AGSGK 274 (1148)
.+++.|.+.+. ...+..++|.|++||||
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGK 38 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGK 38 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCH
Confidence 45666766652 23466789999999999
No 242
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=35.92 E-value=18 Score=31.31 Aligned_cols=11 Identities=55% Similarity=0.960 Sum_probs=9.8
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+.|.|++||||
T Consensus 2 i~i~G~~gsGK 12 (69)
T cd02019 2 IAITGGSGSGK 12 (69)
T ss_pred EEEECCCCCCH
Confidence 56889999999
No 243
>PLN02200 adenylate kinase family protein
Probab=35.85 E-value=18 Score=39.80 Aligned_cols=12 Identities=58% Similarity=1.262 Sum_probs=10.4
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|.|+|||||+
T Consensus 46 i~I~G~PGSGKs 57 (234)
T PLN02200 46 TFVLGGPGSGKG 57 (234)
T ss_pred EEEECCCCCCHH
Confidence 677899999993
No 244
>PRK06893 DNA replication initiation factor; Validated
Probab=35.67 E-value=27 Score=38.10 Aligned_cols=12 Identities=42% Similarity=0.515 Sum_probs=10.6
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.+++.|+|||||
T Consensus 41 ~l~l~G~~G~GK 52 (229)
T PRK06893 41 FFYIWGGKSSGK 52 (229)
T ss_pred eEEEECCCCCCH
Confidence 368889999999
No 245
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=35.47 E-value=18 Score=37.61 Aligned_cols=13 Identities=69% Similarity=1.267 Sum_probs=10.6
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
-++|.|+|||||+
T Consensus 5 ii~i~G~~GsGKs 17 (188)
T TIGR01360 5 IIFIVGGPGSGKG 17 (188)
T ss_pred EEEEECCCCCCHH
Confidence 3677899999993
No 246
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=35.07 E-value=24 Score=38.36 Aligned_cols=57 Identities=18% Similarity=0.228 Sum_probs=26.4
Q ss_pred CCEEEEecCCCCC--------CCCCCCEEEEeccH-HHHHHHHHHHHhhhccccCCCceEechHHHHHH
Q 001127 262 TPLLIVAGPGSGK--------GISPSNILAMTFTT-AAASEMRDRIGSIVGKATAKELTISTFHSFSLQ 321 (1148)
Q Consensus 262 ~~~lI~G~AGSGK--------~~~~~~ILvltft~-~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a~r 321 (1148)
.+++..||||+|| ..-...+-+++-+. .-+.++..-+.. ++. ..-+.|-=+|+|-..
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il~~-l~~--~~ILFIDEIHRlnk~ 116 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAILTN-LKE--GDILFIDEIHRLNKA 116 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHHHT---T--T-EEEECTCCC--HH
T ss_pred ceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHHHh-cCC--CcEEEEechhhccHH
Confidence 3578889999999 12223344443321 112334433333 221 223577778888654
No 247
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=34.88 E-value=18 Score=34.81 Aligned_cols=11 Identities=55% Similarity=0.715 Sum_probs=9.9
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|.|||||
T Consensus 1 I~i~G~~GsGK 11 (129)
T PF13238_consen 1 IGISGIPGSGK 11 (129)
T ss_dssp EEEEESTTSSH
T ss_pred CEEECCCCCCH
Confidence 57889999999
No 248
>PRK03839 putative kinase; Provisional
Probab=34.77 E-value=18 Score=37.71 Aligned_cols=12 Identities=42% Similarity=0.747 Sum_probs=10.6
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 3 I~l~G~pGsGKs 14 (180)
T PRK03839 3 IAITGTPGVGKT 14 (180)
T ss_pred EEEECCCCCCHH
Confidence 688899999993
No 249
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=34.73 E-value=29 Score=42.57 Aligned_cols=39 Identities=10% Similarity=0.241 Sum_probs=27.0
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
.+..++|.|+||||| ...++++++++|-+. ..++..|..
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs-~~~i~~~~~ 311 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEES-RAQLLRNAY 311 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCC-HHHHHHHHH
Confidence 344578899999999 245678898886554 455555554
No 250
>PRK00279 adk adenylate kinase; Reviewed
Probab=34.68 E-value=19 Score=38.84 Aligned_cols=12 Identities=50% Similarity=1.165 Sum_probs=10.7
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 3 I~v~G~pGsGKs 14 (215)
T PRK00279 3 LILLGPPGAGKG 14 (215)
T ss_pred EEEECCCCCCHH
Confidence 789999999993
No 251
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=34.44 E-value=30 Score=39.94 Aligned_cols=28 Identities=29% Similarity=0.358 Sum_probs=18.9
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
-.|++--+.+--....-++++|||||||
T Consensus 171 L~~PElF~~~GI~PPKGVLLYGPPGTGK 198 (406)
T COG1222 171 LKNPELFEELGIDPPKGVLLYGPPGTGK 198 (406)
T ss_pred ccCHHHHHHcCCCCCCceEeeCCCCCcH
Confidence 3466666665333333489999999999
No 252
>PTZ00088 adenylate kinase 1; Provisional
Probab=34.41 E-value=19 Score=39.39 Aligned_cols=12 Identities=42% Similarity=1.057 Sum_probs=10.7
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 9 Ivl~G~PGsGK~ 20 (229)
T PTZ00088 9 IVLFGAPGVGKG 20 (229)
T ss_pred EEEECCCCCCHH
Confidence 788999999994
No 253
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=34.36 E-value=28 Score=40.16 Aligned_cols=27 Identities=30% Similarity=0.459 Sum_probs=19.0
Q ss_pred CCHHHHHHh--ccCCCCCEEEEecCCCCC
Q 001127 248 LNDQQLEAA--CGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 248 Ln~~Qr~aV--~~~~~~~~lI~G~AGSGK 274 (1148)
++++|.+.+ +....++++|.|++||||
T Consensus 129 ~~~~~~~~L~~~v~~~~nilI~G~tGSGK 157 (323)
T PRK13833 129 MTEAQASVIRSAIDSRLNIVISGGTGSGK 157 (323)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCH
Confidence 556666543 123467899999999999
No 254
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=34.34 E-value=54 Score=41.76 Aligned_cols=42 Identities=14% Similarity=0.207 Sum_probs=35.5
Q ss_pred CEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 263 PLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 263 ~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
+.+|.|.+|||| ...+..+||++.+...|.++.+.|...++.
T Consensus 34 ~~ll~Gl~gs~ka~lia~l~~~~~r~vLIVt~~~~~A~~l~~dL~~~~~~ 83 (652)
T PRK05298 34 HQTLLGVTGSGKTFTMANVIARLQRPTLVLAHNKTLAAQLYSEFKEFFPE 83 (652)
T ss_pred cEEEEcCCCcHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHHHHHhcCC
Confidence 567999999999 234578999999999999999999887653
No 255
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=34.25 E-value=63 Score=40.05 Aligned_cols=62 Identities=26% Similarity=0.272 Sum_probs=37.9
Q ss_pred HHHHHhhcCCHHHHH-----HhccCCCCCEEEEecCCCCC-----------C--CCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 240 EYSKYLQSLNDQQLE-----AACGDMSTPLLIVAGPGSGK-----------G--ISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 240 ~~~~~~~~Ln~~Qr~-----aV~~~~~~~~lI~G~AGSGK-----------~--~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
+++.....|--.|.+ || .....++|.|-+|||| + ..+.+|-|+-+-+.||..+..|+.+.
T Consensus 256 ~iee~RksLPVy~ykdell~av--~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 256 SIEEVRKSLPVYPYKDELLKAV--KEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred HHHHHHhcCCchhhHHHHHHHH--HhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHH
Confidence 444555555444433 44 2345677889999999 2 22334666666667777777777765
Q ss_pred hc
Q 001127 302 VG 303 (1148)
Q Consensus 302 l~ 303 (1148)
.+
T Consensus 334 Mg 335 (902)
T KOG0923|consen 334 MG 335 (902)
T ss_pred hC
Confidence 44
No 256
>PRK14528 adenylate kinase; Provisional
Probab=34.13 E-value=20 Score=37.82 Aligned_cols=21 Identities=24% Similarity=0.365 Sum_probs=14.8
Q ss_pred EEEEecCccCCHHHHHHHHHHH
Q 001127 478 AIIVDEFQDTSAMQYSLLQILA 499 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~ 499 (1148)
-++||+|- -|..|...+..+.
T Consensus 81 g~viDG~P-r~~~qa~~l~~~~ 101 (186)
T PRK14528 81 GFLLDGFP-RTVEQADALDALL 101 (186)
T ss_pred cEEEeCCC-CCHHHHHHHHHHH
Confidence 58999983 4666777776665
No 257
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=34.04 E-value=36 Score=41.83 Aligned_cols=14 Identities=36% Similarity=0.672 Sum_probs=11.9
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..-++++|||||||
T Consensus 223 prGvLlHGPPGCGK 236 (802)
T KOG0733|consen 223 PRGVLLHGPPGCGK 236 (802)
T ss_pred CCceeeeCCCCccH
Confidence 34489999999999
No 258
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=34.02 E-value=27 Score=40.30 Aligned_cols=27 Identities=33% Similarity=0.502 Sum_probs=19.8
Q ss_pred CCHHHHHHhc--cCCCCCEEEEecCCCCC
Q 001127 248 LNDQQLEAAC--GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 248 Ln~~Qr~aV~--~~~~~~~lI~G~AGSGK 274 (1148)
+++.|.+.+. ....++++|.|++||||
T Consensus 133 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGK 161 (319)
T PRK13894 133 MTAAQREAIIAAVRAHRNILVIGGTGSGK 161 (319)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCH
Confidence 5566666552 23567899999999999
No 259
>PRK13342 recombination factor protein RarA; Reviewed
Probab=33.68 E-value=40 Score=40.42 Aligned_cols=49 Identities=18% Similarity=0.340 Sum_probs=0.0
Q ss_pred HHHhccCCCCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 253 LEAACGDMSTPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 253 r~aV~~~~~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
++++......++++.|+||||| .........+..+......++..+...
T Consensus 28 ~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~ 84 (413)
T PRK13342 28 RRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEA 84 (413)
T ss_pred HHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHH
No 260
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=33.63 E-value=32 Score=37.02 Aligned_cols=38 Identities=18% Similarity=0.162 Sum_probs=22.3
Q ss_pred HHhccCcCEEEEecCc-cCCHHHH----HHHHHHHcC-CcEEEE
Q 001127 470 QEYQDSWKAIIVDEFQ-DTSAMQY----SLLQILASH-NRITIV 507 (1148)
Q Consensus 470 ~~l~~~fd~IiIDEfQ-Dftp~q~----~lL~~L~~~-~~l~lv 507 (1148)
.++.-..+.+++||-+ -++|.-. .++..|+.. -+.++|
T Consensus 149 RALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivV 192 (240)
T COG1126 149 RALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIV 192 (240)
T ss_pred HHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEE
Confidence 3344466789999995 4455432 455556653 355555
No 261
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.60 E-value=65 Score=41.24 Aligned_cols=56 Identities=13% Similarity=0.146 Sum_probs=42.3
Q ss_pred hcCCHHHHHHhccCC----CCCEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 246 QSLNDQQLEAACGDM----STPLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~----~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
..|=+.|++|+..-. .+.-+|..|.|+|| ..-.+++||++++..++.+..+.+.+.
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTVKKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHhCCCEEEEeCcHHHHHHHHHHHHHh
Confidence 356788999883211 13568889999999 223478999999999999999888765
No 262
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=33.55 E-value=29 Score=39.91 Aligned_cols=30 Identities=17% Similarity=0.308 Sum_probs=22.0
Q ss_pred EEEEecCccCCHHHHHHHHHHHcC-CcEEEE
Q 001127 478 AIIVDEFQDTSAMQYSLLQILASH-NRITIV 507 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~~~-~~l~lv 507 (1148)
.+++||+--.+|.-...|..+... ..+++.
T Consensus 137 illlDEin~a~p~~~~~L~~lLE~~~~l~i~ 167 (327)
T TIGR01650 137 ALCFDEYDAGRPDVMFVIQRVLEAGGKLTLL 167 (327)
T ss_pred EEEechhhccCHHHHHHHHHHhccCCeEEEC
Confidence 599999998888877777777664 345443
No 263
>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=33.53 E-value=45 Score=45.34 Aligned_cols=83 Identities=19% Similarity=0.197 Sum_probs=50.6
Q ss_pred CCCEEEEecCCCCC-----------CC-CCCCEEEEeccHHHHHHHHHHHHhhhcccc----------------CCCceE
Q 001127 261 STPLLIVAGPGSGK-----------GI-SPSNILAMTFTTAAASEMRDRIGSIVGKAT----------------AKELTI 312 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~-~~~~ILvltft~~Aa~ei~~RL~~~l~~~~----------------~~~v~V 312 (1148)
+..++|.|++|||| +. ..+.|+|+-+-+.||..+.+|+.+.++... ..++.+
T Consensus 82 ~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~vR~~~~~s~~T~I~~ 161 (1283)
T TIGR01967 82 NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFHDQVSSNTLVKL 161 (1283)
T ss_pred CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeEEcCCcccCCCceeee
Confidence 45678889999999 21 234677777888999999999988765321 123556
Q ss_pred echHHHHHHHHHHHHHHhcCCCCceecChHHHHH
Q 001127 313 STFHSFSLQLCRSHAEKLERTSEFLIYGHGQQRR 346 (1148)
Q Consensus 313 ~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~~ 346 (1148)
.|--.|-..+.... .-..-...++|+...++
T Consensus 162 ~TdGiLLr~l~~d~---~L~~~~~IIIDEaHERs 192 (1283)
T TIGR01967 162 MTDGILLAETQQDR---FLSRYDTIIIDEAHERS 192 (1283)
T ss_pred ccccHHHHHhhhCc---ccccCcEEEEcCcchhh
Confidence 66655544443210 11122356777776543
No 264
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=33.08 E-value=27 Score=40.81 Aligned_cols=16 Identities=25% Similarity=0.466 Sum_probs=13.4
Q ss_pred CCCCEEEEecCCCCCC
Q 001127 260 MSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK~ 275 (1148)
..++++|.|+|||||+
T Consensus 39 ~~~~i~I~G~~GtGKT 54 (365)
T TIGR02928 39 RPSNVFIYGKTGTGKT 54 (365)
T ss_pred CCCcEEEECCCCCCHH
Confidence 3467999999999993
No 265
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=33.04 E-value=28 Score=37.14 Aligned_cols=28 Identities=25% Similarity=0.297 Sum_probs=19.6
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTT 288 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~ 288 (1148)
+.-+.|.|+||||| ...+++++++++.+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 34578899999999 12356777777653
No 266
>PRK02496 adk adenylate kinase; Provisional
Probab=32.90 E-value=21 Score=37.30 Aligned_cols=11 Identities=45% Similarity=1.017 Sum_probs=10.2
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|+|||||
T Consensus 4 i~i~G~pGsGK 14 (184)
T PRK02496 4 LIFLGPPGAGK 14 (184)
T ss_pred EEEECCCCCCH
Confidence 68899999999
No 267
>PRK07261 topology modulation protein; Provisional
Probab=32.35 E-value=22 Score=36.92 Aligned_cols=11 Identities=45% Similarity=0.733 Sum_probs=10.3
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|+|++||||
T Consensus 3 i~i~G~~GsGK 13 (171)
T PRK07261 3 IAIIGYSGSGK 13 (171)
T ss_pred EEEEcCCCCCH
Confidence 68999999999
No 268
>PRK14527 adenylate kinase; Provisional
Probab=32.29 E-value=22 Score=37.51 Aligned_cols=13 Identities=38% Similarity=0.928 Sum_probs=10.8
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
-++|.|+|||||+
T Consensus 8 ~i~i~G~pGsGKs 20 (191)
T PRK14527 8 VVIFLGPPGAGKG 20 (191)
T ss_pred EEEEECCCCCCHH
Confidence 4678899999993
No 269
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=32.26 E-value=22 Score=40.33 Aligned_cols=14 Identities=29% Similarity=0.586 Sum_probs=12.1
Q ss_pred CCEEEEecCCCCCC
Q 001127 262 TPLLIVAGPGSGKG 275 (1148)
Q Consensus 262 ~~~lI~G~AGSGK~ 275 (1148)
.++++.|+|||||+
T Consensus 59 ~~vll~G~pGTGKT 72 (284)
T TIGR02880 59 LHMSFTGNPGTGKT 72 (284)
T ss_pred ceEEEEcCCCCCHH
Confidence 37899999999993
No 270
>PRK08727 hypothetical protein; Validated
Probab=32.01 E-value=28 Score=38.15 Aligned_cols=14 Identities=36% Similarity=0.479 Sum_probs=12.1
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..+++|.|++||||
T Consensus 41 ~~~l~l~G~~G~GK 54 (233)
T PRK08727 41 SDWLYLSGPAGTGK 54 (233)
T ss_pred CCeEEEECCCCCCH
Confidence 34589999999999
No 271
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=31.98 E-value=38 Score=37.20 Aligned_cols=31 Identities=26% Similarity=0.362 Sum_probs=21.4
Q ss_pred hhcCCHHHHHHhccCCCCCEEEEecCCCCCC
Q 001127 245 LQSLNDQQLEAACGDMSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK~ 275 (1148)
++-|+++.--..-.+...-+++.|||||||.
T Consensus 195 ~pll~perfv~lgidppkgvllygppgtgkt 225 (435)
T KOG0729|consen 195 LPLLHPERFVNLGIDPPKGVLLYGPPGTGKT 225 (435)
T ss_pred ccccCHHHHhhcCCCCCCceEEeCCCCCchh
Confidence 4567887765543333344899999999993
No 272
>PLN03025 replication factor C subunit; Provisional
Probab=31.88 E-value=29 Score=39.98 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=23.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc----CCcEEEEcCC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS----HNRITIVGDD 510 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~----~~~l~lvGD~ 510 (1148)
.++.|+|||++.++......|..... ...++++...
T Consensus 99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~ 138 (319)
T PLN03025 99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNT 138 (319)
T ss_pred CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCC
Confidence 57799999999999765555444333 2345555543
No 273
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=31.87 E-value=92 Score=38.74 Aligned_cols=53 Identities=13% Similarity=0.093 Sum_probs=33.6
Q ss_pred hhHHHHHhhcCCHHHHHHhc------cCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHH
Q 001127 238 PDEYSKYLQSLNDQQLEAAC------GDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAA 290 (1148)
Q Consensus 238 ~~~~~~~~~~Ln~~Qr~aV~------~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~A 290 (1148)
.+....|...||++|+.+.. ....++++-.|.+|||| ...+...+.++.+..|
T Consensus 108 ~~~~~~~~~~l~~eqk~v~d~~~~~v~~~~g~~ff~g~~gtgKt~l~~t~~~~~~~~g~~~~~v~~s~ia 177 (540)
T KOG0987|consen 108 KEKHAELPKKLTPEQKRVYDAILEAVENNLGGVFFYGFGGTGKTYLLKTLIAALRSRGKIVLNVASSGIA 177 (540)
T ss_pred hhhcchhhhhcCHHHHHHHHHHHHHHhccccceeeeccCCccceeeHHHHHHHHhcCCceEEEeeecchh
Confidence 34455678889999996432 23445554499999999 2225555665655443
No 274
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=31.68 E-value=41 Score=36.87 Aligned_cols=38 Identities=26% Similarity=0.541 Sum_probs=26.8
Q ss_pred EEEEecCCCCC------------------C-----CCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 264 LLIVAGPGSGK------------------G-----ISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 264 ~lI~G~AGSGK------------------~-----~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
.+|.|+||+|| + ..+.++|+++ .+.-..++.+|+....
T Consensus 4 ~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~-~Ed~~~~i~~Rl~~i~ 64 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS-AEDPREEIHRRLEAIL 64 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE-CCCCHHHHHHHHHHHH
Confidence 47889999999 1 1356788887 4444567888887653
No 275
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=31.66 E-value=50 Score=35.20 Aligned_cols=12 Identities=42% Similarity=0.479 Sum_probs=10.0
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
-++|.|.|||||
T Consensus 5 ~i~i~G~~G~GK 16 (197)
T PRK12339 5 IHFIGGIPGVGK 16 (197)
T ss_pred EEEEECCCCCCH
Confidence 357779999999
No 276
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=31.61 E-value=42 Score=36.70 Aligned_cols=38 Identities=13% Similarity=0.177 Sum_probs=24.4
Q ss_pred CCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHH
Q 001127 260 MSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL 298 (1148)
.+..++|.|++|||| ..++.+++++++.+.. .++.+.+
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~-~~~~~~~ 71 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT-TEFIKQM 71 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHH
Confidence 355678899999999 1345677777755433 4444333
No 277
>PRK01184 hypothetical protein; Provisional
Probab=31.41 E-value=22 Score=37.13 Aligned_cols=23 Identities=4% Similarity=0.091 Sum_probs=17.7
Q ss_pred cCEEEEecCccCCHHHHHHHHHHHc
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
...|+||++ .++.|...++.+..
T Consensus 80 ~~~vvidg~--r~~~e~~~~~~~~~ 102 (184)
T PRK01184 80 DEVVVIDGV--RGDAEVEYFRKEFP 102 (184)
T ss_pred CCcEEEeCC--CCHHHHHHHHHhCC
Confidence 357999999 58888877776654
No 278
>PF13479 AAA_24: AAA domain
Probab=31.06 E-value=31 Score=37.18 Aligned_cols=26 Identities=35% Similarity=0.447 Sum_probs=19.3
Q ss_pred CEEEEecCCCCC---CCCCCCEEEEeccH
Q 001127 263 PLLIVAGPGSGK---GISPSNILAMTFTT 288 (1148)
Q Consensus 263 ~~lI~G~AGSGK---~~~~~~ILvltft~ 288 (1148)
.++|.|+||+|| ...-.++|++-+=+
T Consensus 5 ~~lIyG~~G~GKTt~a~~~~k~l~id~E~ 33 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASLPKPLFIDTEN 33 (213)
T ss_pred EEEEECCCCCCHHHHHHhCCCeEEEEeCC
Confidence 478999999999 23337888887643
No 279
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=30.96 E-value=30 Score=37.55 Aligned_cols=28 Identities=32% Similarity=0.589 Sum_probs=20.4
Q ss_pred CCCEEEEecCCCCC----CCCCCCEEEEeccH
Q 001127 261 STPLLIVAGPGSGK----GISPSNILAMTFTT 288 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK----~~~~~~ILvltft~ 288 (1148)
...++|.|.||||| ..-+++.+++.+-.
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~~~~~~~~~~d~ 43 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYLPGKTLVLSFDM 43 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhcCCCCEEEeccc
Confidence 34588999999999 23356777777654
No 280
>PRK14529 adenylate kinase; Provisional
Probab=30.79 E-value=23 Score=38.56 Aligned_cols=13 Identities=54% Similarity=0.851 Sum_probs=11.1
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
.++|+|+|||||+
T Consensus 2 ~I~l~G~PGsGK~ 14 (223)
T PRK14529 2 NILIFGPNGSGKG 14 (223)
T ss_pred EEEEECCCCCCHH
Confidence 3788999999994
No 281
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=30.71 E-value=25 Score=35.19 Aligned_cols=12 Identities=25% Similarity=0.603 Sum_probs=10.7
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
+++|+|+|||||
T Consensus 1 ~i~l~G~~GsGK 12 (154)
T cd00464 1 NIVLIGMMGAGK 12 (154)
T ss_pred CEEEEcCCCCCH
Confidence 478899999999
No 282
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=30.69 E-value=57 Score=39.58 Aligned_cols=13 Identities=46% Similarity=0.823 Sum_probs=12.1
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++|+||
T Consensus 142 npl~i~G~~G~GK 154 (450)
T PRK14087 142 NPLFIYGESGMGK 154 (450)
T ss_pred CceEEECCCCCcH
Confidence 5799999999999
No 283
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=30.61 E-value=39 Score=36.66 Aligned_cols=14 Identities=36% Similarity=0.444 Sum_probs=12.1
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
-.+++|+||||+||
T Consensus 137 ~lntLiigpP~~GK 150 (308)
T COG3854 137 WLNTLIIGPPQVGK 150 (308)
T ss_pred ceeeEEecCCCCCh
Confidence 34689999999999
No 284
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=30.57 E-value=43 Score=39.25 Aligned_cols=38 Identities=16% Similarity=0.258 Sum_probs=33.2
Q ss_pred cCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCCCc
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDDQS 513 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~Qs 513 (1148)
-..+||||.+-||-.|...|-.....+.++++|-.-..
T Consensus 105 ~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGATTEN 142 (436)
T COG2256 105 RTILFLDEIHRFNKAQQDALLPHVENGTIILIGATTEN 142 (436)
T ss_pred ceEEEEehhhhcChhhhhhhhhhhcCCeEEEEeccCCC
Confidence 34899999999999999999899999999999975553
No 285
>PLN02459 probable adenylate kinase
Probab=30.11 E-value=24 Score=39.27 Aligned_cols=13 Identities=38% Similarity=0.797 Sum_probs=10.9
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
.++|+|+|||||+
T Consensus 31 ~ii~~G~PGsGK~ 43 (261)
T PLN02459 31 NWVFLGCPGVGKG 43 (261)
T ss_pred EEEEECCCCCCHH
Confidence 3677899999994
No 286
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=30.10 E-value=51 Score=32.95 Aligned_cols=41 Identities=15% Similarity=0.233 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCcEEEEEecCc--------ChHHHHHHHHHCC
Q 001127 593 AFIIDKILEHASNGPASICSYGSIAILYRRQV--------SGKVFQTAFRERK 637 (1148)
Q Consensus 593 ~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~--------~~~~l~~~L~~~g 637 (1148)
+.|...|.++.+. |+.+..|+|+.||.- .+..|.++|+..|
T Consensus 28 eeVe~~I~klaKk----G~~pSqIG~iLRD~~gi~~vk~vtG~kI~rILk~~G 76 (148)
T PTZ00072 28 SEVEDQICKLAKK----GLTPSQIGVILRDSMGIPQVKNVTGSKILRILKKNG 76 (148)
T ss_pred HHHHHHHHHHHHC----CCCHhHhhhhhhhccCccceeeccchHHHHHHHhcC
Confidence 3456777787776 999999999999862 1556777777777
No 287
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=30.05 E-value=46 Score=41.06 Aligned_cols=38 Identities=16% Similarity=0.301 Sum_probs=27.6
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
+..++|.|+||||| ...+++++++++.+. .+++.+++.
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~ 321 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNAR 321 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHH
Confidence 44578889999999 245789999998765 455555553
No 288
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=29.85 E-value=37 Score=40.47 Aligned_cols=26 Identities=27% Similarity=0.341 Sum_probs=17.0
Q ss_pred CHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 249 NDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 249 n~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
+++-.+.........+++.|+|||||
T Consensus 167 ~~~~~~~~Gl~~pkgvLL~GppGTGK 192 (398)
T PTZ00454 167 CPELYEQIGIDPPRGVLLYGPPGTGK 192 (398)
T ss_pred CHHHHHhcCCCCCceEEEECCCCCCH
Confidence 44444433233455689999999999
No 289
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=29.77 E-value=33 Score=39.56 Aligned_cols=35 Identities=17% Similarity=0.244 Sum_probs=22.3
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHc----CCcEEEEcC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILAS----HNRITIVGD 509 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~----~~~l~lvGD 509 (1148)
.++.|+|||++.+++.....|..+.. .+.+++++.
T Consensus 125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~ 163 (337)
T PRK12402 125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATR 163 (337)
T ss_pred CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeC
Confidence 45699999999998754444444332 234666654
No 290
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=29.63 E-value=58 Score=35.49 Aligned_cols=35 Identities=20% Similarity=0.338 Sum_probs=26.5
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCCcEE-EEcC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHNRIT-IVGD 509 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~-lvGD 509 (1148)
.-+.+||||.+-+++.|..+|...+...++. ++|-
T Consensus 101 ~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~ 136 (233)
T PF05496_consen 101 EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGK 136 (233)
T ss_dssp TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSS
T ss_pred CCcEEEEechhhccHHHHHHHHHHhccCeEEEEecc
Confidence 4569999999999999999998888877774 4454
No 291
>PRK06921 hypothetical protein; Provisional
Probab=29.59 E-value=40 Score=37.79 Aligned_cols=14 Identities=36% Similarity=0.783 Sum_probs=12.5
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..++++.|++|+||
T Consensus 117 ~~~l~l~G~~G~GK 130 (266)
T PRK06921 117 KNSIALLGQPGSGK 130 (266)
T ss_pred CCeEEEECCCCCcH
Confidence 45689999999999
No 292
>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=29.42 E-value=42 Score=32.07 Aligned_cols=22 Identities=23% Similarity=0.342 Sum_probs=18.4
Q ss_pred cCcCEEEEecCccCCHHHHHHH
Q 001127 474 DSWKAIIVDEFQDTSAMQYSLL 495 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~~lL 495 (1148)
..+++|+|||+|.+...+....
T Consensus 102 ~~~~~iiiDE~h~~~~~~~~~~ 123 (144)
T cd00046 102 KKLDLLILDEAHRLLNQGFGLL 123 (144)
T ss_pred hcCCEEEEeCHHHHhhcchHHH
Confidence 4688999999999998876664
No 293
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=29.37 E-value=49 Score=36.90 Aligned_cols=40 Identities=15% Similarity=0.245 Sum_probs=26.1
Q ss_pred CCCCEEEEecCCCCC-----------CCC-CCCEEEEeccHHHHHHHHHHHHh
Q 001127 260 MSTPLLIVAGPGSGK-----------GIS-PSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK-----------~~~-~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
.+..++|.|+||+|| ... +.+++++++-. ...++..|+..
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHH
Confidence 344567789999999 123 66888888654 34555555543
No 294
>CHL00181 cbbX CbbX; Provisional
Probab=29.32 E-value=24 Score=40.03 Aligned_cols=12 Identities=33% Similarity=0.750 Sum_probs=10.8
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
++++.|+|||||
T Consensus 61 ~ill~G~pGtGK 72 (287)
T CHL00181 61 HMSFTGSPGTGK 72 (287)
T ss_pred eEEEECCCCCCH
Confidence 478889999999
No 295
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=29.26 E-value=48 Score=36.18 Aligned_cols=37 Identities=19% Similarity=0.382 Sum_probs=24.0
Q ss_pred CCCEEEEecCCCCC-----------CCC-CCCEEEEeccHHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GIS-PSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~-~~~ILvltft~~Aa~ei~~RL 298 (1148)
+.-++|.|+||+|| ... +.+++++++=.... ++..|+
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~ 61 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRL 61 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHH
Confidence 33567789999999 223 67788887655433 444444
No 296
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=29.13 E-value=93 Score=37.41 Aligned_cols=45 Identities=18% Similarity=0.220 Sum_probs=35.8
Q ss_pred CCCEEEEecCCCCC------------C---CCCCCEEEEeccHHHHHHHHHHHHhhhccc
Q 001127 261 STPLLIVAGPGSGK------------G---ISPSNILAMTFTTAAASEMRDRIGSIVGKA 305 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK------------~---~~~~~ILvltft~~Aa~ei~~RL~~~l~~~ 305 (1148)
.+.+.|.|+-|||| . ++--+-+|+.+|+..+.++..-+.+...+.
T Consensus 183 ~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~t 242 (620)
T KOG0350|consen 183 PRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGT 242 (620)
T ss_pred CCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCC
Confidence 45689999999999 2 223578999999999999998888765543
No 297
>PRK06835 DNA replication protein DnaC; Validated
Probab=29.10 E-value=31 Score=39.91 Aligned_cols=14 Identities=36% Similarity=0.636 Sum_probs=12.5
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..++++.|++||||
T Consensus 183 ~~~Lll~G~~GtGK 196 (329)
T PRK06835 183 NENLLFYGNTGTGK 196 (329)
T ss_pred CCcEEEECCCCCcH
Confidence 36799999999999
No 298
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=29.03 E-value=38 Score=41.56 Aligned_cols=27 Identities=22% Similarity=0.282 Sum_probs=16.9
Q ss_pred CCHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 248 LNDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
++++-.+.........++++|||||||
T Consensus 203 ~~~~l~~~~gl~~p~GILLyGPPGTGK 229 (512)
T TIGR03689 203 LHPELYREYDLKPPKGVLLYGPPGCGK 229 (512)
T ss_pred hCHHHHHhccCCCCcceEEECCCCCcH
Confidence 344333333223345689999999999
No 299
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=28.79 E-value=42 Score=36.98 Aligned_cols=12 Identities=42% Similarity=0.811 Sum_probs=10.9
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.+.|+|++||||
T Consensus 15 r~viIG~sGSGK 26 (241)
T PF04665_consen 15 RMVIIGKSGSGK 26 (241)
T ss_pred eEEEECCCCCCH
Confidence 578999999999
No 300
>PHA00729 NTP-binding motif containing protein
Probab=28.72 E-value=25 Score=38.28 Aligned_cols=12 Identities=42% Similarity=0.637 Sum_probs=11.1
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
+++|.|+|||||
T Consensus 19 nIlItG~pGvGK 30 (226)
T PHA00729 19 SAVIFGKQGSGK 30 (226)
T ss_pred EEEEECCCCCCH
Confidence 588999999999
No 301
>PRK13531 regulatory ATPase RavA; Provisional
Probab=28.67 E-value=27 Score=42.38 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=15.1
Q ss_pred cCCCCCEEEEecCCCCC
Q 001127 258 GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK 274 (1148)
.-.+++++|.|+|||||
T Consensus 36 alag~hVLL~GpPGTGK 52 (498)
T PRK13531 36 ALSGESVFLLGPPGIAK 52 (498)
T ss_pred HccCCCEEEECCCChhH
Confidence 34688999999999999
No 302
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=28.51 E-value=1.1e+02 Score=34.79 Aligned_cols=69 Identities=19% Similarity=0.236 Sum_probs=46.3
Q ss_pred hcCCHHHHHHhccCC----------CCCEEEEe-cCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 246 QSLNDQQLEAACGDM----------STPLLIVA-GPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 246 ~~Ln~~Qr~aV~~~~----------~~~~lI~G-~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
..|++.|.++|..+. .+.-+++| ++|.|| .....+.+.++.++..-..+++-|....
T Consensus 36 g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~DIG 115 (303)
T PF13872_consen 36 GLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLRDIG 115 (303)
T ss_pred ccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHHHhC
Confidence 357888999883221 23346665 899999 1234579999999999999888887643
Q ss_pred ccccCCCceEechHHH
Q 001127 303 GKATAKELTISTFHSF 318 (1148)
Q Consensus 303 ~~~~~~~v~V~Tfhs~ 318 (1148)
...+.|.-+..+
T Consensus 116 ----~~~i~v~~l~~~ 127 (303)
T PF13872_consen 116 ----ADNIPVHPLNKF 127 (303)
T ss_pred ----CCcccceechhh
Confidence 234555555553
No 303
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=28.09 E-value=28 Score=34.94 Aligned_cols=11 Identities=36% Similarity=0.773 Sum_probs=9.8
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|+|||||
T Consensus 2 i~l~G~~GsGK 12 (150)
T cd02021 2 IVVMGVSGSGK 12 (150)
T ss_pred EEEEcCCCCCH
Confidence 57889999999
No 304
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=28.04 E-value=41 Score=39.97 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=13.0
Q ss_pred CCCCEEEEecCCCCCC
Q 001127 260 MSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK~ 275 (1148)
....+++.|+|||||.
T Consensus 164 ~p~gvLL~GppGtGKT 179 (389)
T PRK03992 164 PPKGVLLYGPPGTGKT 179 (389)
T ss_pred CCCceEEECCCCCChH
Confidence 3455899999999993
No 305
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=28.03 E-value=63 Score=40.44 Aligned_cols=58 Identities=21% Similarity=0.211 Sum_probs=46.3
Q ss_pred cCCHHHHHHhc---cCCCCC----EEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 247 SLNDQQLEAAC---GDMSTP----LLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 247 ~Ln~~Qr~aV~---~~~~~~----~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
.||..|++++. .+...+ -+|.|--|||| -..+.+...+.+|+..|.+--+.+.+.++.
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~ 337 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEP 337 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhh
Confidence 68999999982 333333 38899999999 345678999999999999999888887764
No 306
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=27.83 E-value=1.9e+02 Score=34.51 Aligned_cols=31 Identities=23% Similarity=0.294 Sum_probs=20.4
Q ss_pred CCCEEEEecCCCCC--------CCCCCCEEEEeccHHHH
Q 001127 261 STPLLIVAGPGSGK--------GISPSNILAMTFTTAAA 291 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa 291 (1148)
+.-++|.||-|||| -.+...+|++=...-..
T Consensus 17 ~TFIvV~GPrGSGK~elV~d~~L~~r~~vL~IDC~~i~~ 55 (431)
T PF10443_consen 17 NTFIVVQGPRGSGKRELVMDHVLKDRKNVLVIDCDQIVK 55 (431)
T ss_pred CeEEEEECCCCCCccHHHHHHHHhCCCCEEEEEChHhhh
Confidence 33456779999999 23345688876655443
No 307
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=27.81 E-value=51 Score=35.40 Aligned_cols=26 Identities=19% Similarity=0.259 Sum_probs=18.7
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEec
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTF 286 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltf 286 (1148)
+..+.|.|+||||| ...++++++++.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 33468889999999 234567888753
No 308
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=27.80 E-value=52 Score=39.67 Aligned_cols=49 Identities=24% Similarity=0.399 Sum_probs=31.0
Q ss_pred EEEEecCCCCC---------CCCCCCEEEEeccHHHHHHHHHHHHhhhccccCCCceEechHHHH
Q 001127 264 LLIVAGPGSGK---------GISPSNILAMTFTTAAASEMRDRIGSIVGKATAKELTISTFHSFS 319 (1148)
Q Consensus 264 ~lI~G~AGSGK---------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~~~~~v~V~Tfhs~a 319 (1148)
++|.|++|||| .... ..++ .+|.+++.+...++......++.+||++|-
T Consensus 258 il~~G~~G~GKSt~a~~LA~~lg~-~~ii------~tD~iR~~lr~~i~~e~~P~Lh~Sty~A~~ 315 (475)
T PRK12337 258 VLIGGVSGVGKSVLASALAYRLGI-TRIV------STDAVREVLRAMVSKDLLPTLHASTFNAWR 315 (475)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCC-cEEe------ehhHHHHHHHhhcchhhccchhhchhhHHh
Confidence 45668999999 1111 1122 246667777777666555667788888863
No 309
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=27.62 E-value=47 Score=39.91 Aligned_cols=16 Identities=25% Similarity=0.638 Sum_probs=13.9
Q ss_pred CCCCCEEEEecCCCCC
Q 001127 259 DMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK 274 (1148)
...+++++.|+|||||
T Consensus 192 ~~~~~iil~GppGtGK 207 (459)
T PRK11331 192 TIKKNIILQGPPGVGK 207 (459)
T ss_pred hcCCCEEEECCCCCCH
Confidence 3467899999999999
No 310
>PRK08356 hypothetical protein; Provisional
Probab=27.48 E-value=28 Score=36.86 Aligned_cols=18 Identities=17% Similarity=0.176 Sum_probs=13.7
Q ss_pred EEEEecCccCCHHHHHHHHH
Q 001127 478 AIIVDEFQDTSAMQYSLLQI 497 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~ 497 (1148)
.|+||+| -++.|...|..
T Consensus 96 ~ividG~--r~~~q~~~l~~ 113 (195)
T PRK08356 96 NIAIDGV--RSRGEVEAIKR 113 (195)
T ss_pred eEEEcCc--CCHHHHHHHHh
Confidence 5999999 66677777665
No 311
>COG4639 Predicted kinase [General function prediction only]
Probab=27.45 E-value=87 Score=32.06 Aligned_cols=11 Identities=36% Similarity=0.739 Sum_probs=9.5
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+++.|.+||||
T Consensus 5 vvL~G~~~sGK 15 (168)
T COG4639 5 VVLRGASGSGK 15 (168)
T ss_pred EEEecCCCCch
Confidence 46679999999
No 312
>PRK08116 hypothetical protein; Validated
Probab=27.10 E-value=35 Score=38.27 Aligned_cols=13 Identities=38% Similarity=0.606 Sum_probs=11.5
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.++++.|++||||
T Consensus 115 ~gl~l~G~~GtGK 127 (268)
T PRK08116 115 VGLLLWGSVGTGK 127 (268)
T ss_pred ceEEEECCCCCCH
Confidence 3589999999999
No 313
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=27.01 E-value=50 Score=36.95 Aligned_cols=28 Identities=29% Similarity=0.360 Sum_probs=19.8
Q ss_pred cCCHHHHHHhc---cCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAAC---GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV~---~~~~~~~lI~G~AGSGK 274 (1148)
.+.+.|.+++. ....+.++|.|++||||
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGK 93 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGK 93 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcH
Confidence 35666666542 23456789999999999
No 314
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=26.97 E-value=60 Score=38.74 Aligned_cols=13 Identities=54% Similarity=0.938 Sum_probs=11.8
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++||||
T Consensus 137 n~l~l~G~~G~GK 149 (405)
T TIGR00362 137 NPLFIYGGVGLGK 149 (405)
T ss_pred CeEEEECCCCCcH
Confidence 4689999999999
No 315
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=26.84 E-value=42 Score=36.31 Aligned_cols=27 Identities=26% Similarity=0.346 Sum_probs=19.1
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEecc
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFT 287 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft 287 (1148)
+..+.|.|+||||| ...+++++++++-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 44578899999999 2345677777654
No 316
>PRK13949 shikimate kinase; Provisional
Probab=26.77 E-value=30 Score=35.81 Aligned_cols=12 Identities=33% Similarity=0.603 Sum_probs=11.0
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|+|+|||||
T Consensus 3 ~I~liG~~GsGK 14 (169)
T PRK13949 3 RIFLVGYMGAGK 14 (169)
T ss_pred EEEEECCCCCCH
Confidence 478999999999
No 317
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=26.64 E-value=58 Score=39.43 Aligned_cols=13 Identities=38% Similarity=0.790 Sum_probs=12.0
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++|+||
T Consensus 142 npl~L~G~~G~GK 154 (445)
T PRK12422 142 NPIYLFGPEGSGK 154 (445)
T ss_pred ceEEEEcCCCCCH
Confidence 5799999999999
No 318
>PRK14526 adenylate kinase; Provisional
Probab=26.55 E-value=30 Score=37.33 Aligned_cols=12 Identities=58% Similarity=1.118 Sum_probs=10.6
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 3 i~l~G~pGsGKs 14 (211)
T PRK14526 3 LVFLGPPGSGKG 14 (211)
T ss_pred EEEECCCCCCHH
Confidence 678999999993
No 319
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=26.49 E-value=41 Score=39.81 Aligned_cols=16 Identities=38% Similarity=0.594 Sum_probs=13.1
Q ss_pred CCCCEEEEecCCCCCC
Q 001127 260 MSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK~ 275 (1148)
..++++|.|+|||||+
T Consensus 54 ~~~~~lI~G~~GtGKT 69 (394)
T PRK00411 54 RPLNVLIYGPPGTGKT 69 (394)
T ss_pred CCCeEEEECCCCCCHH
Confidence 3456899999999993
No 320
>PRK13947 shikimate kinase; Provisional
Probab=26.48 E-value=31 Score=35.35 Aligned_cols=12 Identities=25% Similarity=0.567 Sum_probs=10.9
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
+++|.|+|||||
T Consensus 3 ~I~l~G~~GsGK 14 (171)
T PRK13947 3 NIVLIGFMGTGK 14 (171)
T ss_pred eEEEEcCCCCCH
Confidence 578999999999
No 321
>PRK00131 aroK shikimate kinase; Reviewed
Probab=26.46 E-value=36 Score=34.76 Aligned_cols=13 Identities=23% Similarity=0.516 Sum_probs=11.1
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
..++|.|+|||||
T Consensus 5 ~~i~l~G~~GsGK 17 (175)
T PRK00131 5 PNIVLIGFMGAGK 17 (175)
T ss_pred CeEEEEcCCCCCH
Confidence 3578889999999
No 322
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=26.34 E-value=69 Score=35.49 Aligned_cols=23 Identities=26% Similarity=0.397 Sum_probs=19.7
Q ss_pred EEEEecCccCCHHHHHHHHHHHc
Q 001127 478 AIIVDEFQDTSAMQYSLLQILAS 500 (1148)
Q Consensus 478 ~IiIDEfQDftp~q~~lL~~L~~ 500 (1148)
.|+|||+|..++..+..|+.|..
T Consensus 126 vliiDe~~~l~~~~~~~l~~l~~ 148 (269)
T TIGR03015 126 LLVVDEAQNLTPELLEELRMLSN 148 (269)
T ss_pred EEEEECcccCCHHHHHHHHHHhC
Confidence 79999999999988888877754
No 323
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=26.18 E-value=49 Score=37.09 Aligned_cols=13 Identities=38% Similarity=0.728 Sum_probs=11.9
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.++++.||||.||
T Consensus 53 DHvLl~GPPGlGK 65 (332)
T COG2255 53 DHVLLFGPPGLGK 65 (332)
T ss_pred CeEEeeCCCCCcH
Confidence 4689999999999
No 324
>PRK06217 hypothetical protein; Validated
Probab=26.13 E-value=31 Score=36.12 Aligned_cols=11 Identities=36% Similarity=0.661 Sum_probs=10.4
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|+|++||||
T Consensus 4 I~i~G~~GsGK 14 (183)
T PRK06217 4 IHITGASGSGT 14 (183)
T ss_pred EEEECCCCCCH
Confidence 78999999999
No 325
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=26.13 E-value=43 Score=34.50 Aligned_cols=37 Identities=16% Similarity=0.252 Sum_probs=21.8
Q ss_pred cCcCEEEEecCccCC--HHHHHHHHHHHc---CCcEEEEcCC
Q 001127 474 DSWKAIIVDEFQDTS--AMQYSLLQILAS---HNRITIVGDD 510 (1148)
Q Consensus 474 ~~fd~IiIDEfQDft--p~q~~lL~~L~~---~~~l~lvGD~ 510 (1148)
..+++|+||..+... .....-+..+.. ...+++|.|+
T Consensus 81 ~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~ 122 (173)
T cd03115 81 ENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDA 122 (173)
T ss_pred CCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEEC
Confidence 467899999987653 333333444433 3356667665
No 326
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=26.12 E-value=60 Score=39.02 Aligned_cols=52 Identities=17% Similarity=0.221 Sum_probs=34.8
Q ss_pred CHHHHHHhccC-CCCCEEEEecCCCCC-----------------CCCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 249 NDQQLEAACGD-MSTPLLIVAGPGSGK-----------------GISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 249 n~~Qr~aV~~~-~~~~~lI~G~AGSGK-----------------~~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
++-|...|-.. .+..+.=.|..|||| ...-.++|||++|+..+-++..-..+
T Consensus 205 TpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~q 274 (691)
T KOG0338|consen 205 TPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQ 274 (691)
T ss_pred CchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHH
Confidence 66676655211 234455557789999 33447999999999998886654443
No 327
>PRK08233 hypothetical protein; Provisional
Probab=25.98 E-value=31 Score=35.62 Aligned_cols=11 Identities=45% Similarity=0.664 Sum_probs=9.7
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+.|.|+|||||
T Consensus 6 I~I~G~~GsGK 16 (182)
T PRK08233 6 ITIAAVSGGGK 16 (182)
T ss_pred EEEECCCCCCH
Confidence 56779999999
No 328
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.66 E-value=1.4e+02 Score=30.23 Aligned_cols=12 Identities=33% Similarity=0.852 Sum_probs=10.8
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|+|++||||
T Consensus 11 Kfl~iG~aGtGK 22 (214)
T KOG0086|consen 11 KFLVIGSAGTGK 22 (214)
T ss_pred eeEEeccCCCCh
Confidence 378999999999
No 329
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=25.65 E-value=53 Score=40.52 Aligned_cols=40 Identities=18% Similarity=0.283 Sum_probs=26.8
Q ss_pred CCCCCEEEEecCCCCC-----------CCC-CCCEEEEeccHHHHHHHHHHHH
Q 001127 259 DMSTPLLIVAGPGSGK-----------GIS-PSNILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK-----------~~~-~~~ILvltft~~Aa~ei~~RL~ 299 (1148)
..+..++|.|+||||| ... +++++++++-+ ...++.+++.
T Consensus 29 p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~ 80 (509)
T PRK09302 29 PKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVA 80 (509)
T ss_pred CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHH
Confidence 3455678889999999 223 67888888766 3444555443
No 330
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=25.61 E-value=56 Score=43.30 Aligned_cols=78 Identities=21% Similarity=0.333 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHH-CCCCCHHHHHHHHHHhhcccHHHHHHhccCcCEEEEecCccCCHHHHHHHHHHHc---CCcEEEEc
Q 001127 433 AAILENYNGILRS-CNALDYHDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQDTSAMQYSLLQILAS---HNRITIVG 508 (1148)
Q Consensus 433 ~~iy~~Y~~~L~~-~~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQDftp~q~~lL~~L~~---~~~l~lvG 508 (1148)
..+..+|+-+... .+.+-|+-+++.-..+|.+.+.+... .|.+++|||++.+-.....+...|.. ..++.+.|
T Consensus 457 r~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk~~L~~i---~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitg 533 (1373)
T KOG0384|consen 457 RQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDKAELSKI---PWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITG 533 (1373)
T ss_pred HHHHHHHHheecCCccccccceeehhhHHHhccHhhhccC---CcceeeecHHhhcCchHHHHHHHHHHhcccceeeecC
Confidence 4566777777666 46677888887777777776665443 78899999999998666666666644 45899999
Q ss_pred CCCCc
Q 001127 509 DDDQS 513 (1148)
Q Consensus 509 D~~Qs 513 (1148)
-|-|.
T Consensus 534 TPlQN 538 (1373)
T KOG0384|consen 534 TPLQN 538 (1373)
T ss_pred CCccc
Confidence 99993
No 331
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=25.51 E-value=69 Score=38.83 Aligned_cols=13 Identities=54% Similarity=0.938 Sum_probs=12.0
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++|+||
T Consensus 149 ~~l~l~G~~G~GK 161 (450)
T PRK00149 149 NPLFIYGGVGLGK 161 (450)
T ss_pred CeEEEECCCCCCH
Confidence 5789999999999
No 332
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=25.50 E-value=45 Score=39.25 Aligned_cols=17 Identities=29% Similarity=0.667 Sum_probs=13.7
Q ss_pred cCCCCCEEEEecCCCCC
Q 001127 258 GDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 258 ~~~~~~~lI~G~AGSGK 274 (1148)
.....+++|.|+|||||
T Consensus 39 ~~~p~n~~iyG~~GTGK 55 (366)
T COG1474 39 GERPSNIIIYGPTGTGK 55 (366)
T ss_pred CCCCccEEEECCCCCCH
Confidence 34455699999999999
No 333
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=25.29 E-value=69 Score=38.74 Aligned_cols=13 Identities=54% Similarity=0.938 Sum_probs=11.9
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
++++|.|++|+||
T Consensus 131 n~l~lyG~~G~GK 143 (440)
T PRK14088 131 NPLFIYGGVGLGK 143 (440)
T ss_pred CeEEEEcCCCCcH
Confidence 4799999999999
No 334
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=25.29 E-value=1.3e+02 Score=29.46 Aligned_cols=43 Identities=12% Similarity=0.195 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcC--------hHHHHHHHHHCCC
Q 001127 592 CAFIIDKILEHASNGPASICSYGSIAILYRRQVS--------GKVFQTAFRERKI 638 (1148)
Q Consensus 592 ~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~--------~~~l~~~L~~~gI 638 (1148)
++.|..+|.++-+. |+++.+|+|+.||.-- +..|-++|+..|+
T Consensus 30 ~ddvkeqI~K~akK----GltpsqIGviLRDshGi~q~r~v~G~kI~Rilk~~Gl 80 (151)
T KOG0400|consen 30 ADDVKEQIYKLAKK----GLTPSQIGVILRDSHGIGQVRFVTGNKILRILKSNGL 80 (151)
T ss_pred HHHHHHHHHHHHHc----CCChhHceeeeecccCcchhheechhHHHHHHHHcCC
Confidence 45567788888766 9999999999998421 2345566666664
No 335
>PF12846 AAA_10: AAA-like domain
Probab=25.18 E-value=41 Score=37.74 Aligned_cols=31 Identities=19% Similarity=0.195 Sum_probs=21.1
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAA 291 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa 291 (1148)
+++++|+|.+|||| ...+..++++=+.....
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~ 42 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYS 42 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHH
Confidence 46789999999999 23445666665543333
No 336
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=25.04 E-value=1.3e+02 Score=38.88 Aligned_cols=79 Identities=15% Similarity=0.159 Sum_probs=55.8
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc---------c
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKA---------T 306 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~---------~ 306 (1148)
...+.|.-+...-..|. +.....|+|| ...+..++|+|+|+..|.+..+.+......- +
T Consensus 78 ~p~~vQl~~~~~l~~G~-Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~ 156 (790)
T PRK09200 78 RPYDVQLIGALVLHEGN-IAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSD 156 (790)
T ss_pred CCchHHHHhHHHHcCCc-eeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCC
Confidence 34666766553333454 7779999999 3467899999999999999888877654210 0
Q ss_pred -----------CCCceEechHHHHHHHHHHH
Q 001127 307 -----------AKELTISTFHSFSLQLCRSH 326 (1148)
Q Consensus 307 -----------~~~v~V~Tfhs~a~rIl~~~ 326 (1148)
...+.++|..+|++..|+..
T Consensus 157 ~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~ 187 (790)
T PRK09200 157 IDDASEKKAIYEADIIYTTNSELGFDYLRDN 187 (790)
T ss_pred CCcHHHHHHhcCCCEEEECCccccchhHHhc
Confidence 12466889999988877764
No 337
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=24.90 E-value=57 Score=38.50 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=24.6
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL 298 (1148)
+.-++|.|+||+|| ....+++++++..+. ..+++.|.
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs-~~qi~~Ra 129 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES-PEQIKLRA 129 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC-HHHHHHHH
Confidence 34468889999999 223468888887543 34555444
No 338
>PRK13808 adenylate kinase; Provisional
Probab=24.76 E-value=35 Score=39.46 Aligned_cols=12 Identities=50% Similarity=1.165 Sum_probs=10.8
Q ss_pred EEEEecCCCCCC
Q 001127 264 LLIVAGPGSGKG 275 (1148)
Q Consensus 264 ~lI~G~AGSGK~ 275 (1148)
++|+|+|||||+
T Consensus 3 Iiv~GpPGSGK~ 14 (333)
T PRK13808 3 LILLGPPGAGKG 14 (333)
T ss_pred EEEECCCCCCHH
Confidence 789999999994
No 339
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=24.64 E-value=59 Score=37.46 Aligned_cols=29 Identities=17% Similarity=0.077 Sum_probs=19.2
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTA 289 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~ 289 (1148)
+.-+.|.|+||||| ...+++++++.+...
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~ 94 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA 94 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccch
Confidence 44578899999999 223456666655443
No 340
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms.; GO: 0004386 helicase activity, 0005524 ATP binding
Probab=24.61 E-value=26 Score=44.04 Aligned_cols=46 Identities=30% Similarity=0.333 Sum_probs=31.6
Q ss_pred EEEEccccccCCCCCEEEEeecCCCCCccccccCCccCcccccHHHHHHHHHHHHhcccc--eEEEE
Q 001127 851 VTLTTIHQSKGLEWDIVFVAKANETEIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARK--KLFIL 915 (1148)
Q Consensus 851 V~V~Tih~sKGlE~~~VfV~Glneg~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~--~L~LS 915 (1148)
-.-||||+|.|+..+.|.|-=-+..+|-. -.+||||+|++. .|.|.
T Consensus 740 ~~AmTIhKSQG~SL~kV~i~l~~~~~F~~-------------------gq~YVAlSRvts~~~L~i~ 787 (818)
T PF02689_consen 740 AFAMTIHKSQGQSLDKVAIDLGKPKVFSH-------------------GQLYVALSRVTSLEGLKIN 787 (818)
T ss_pred eEEEEEeHhhccccceEEEECCCCcccCC-------------------CceEEEEEeeccccccEEe
Confidence 35699999999999998765322223321 238999999974 45543
No 341
>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=24.58 E-value=1.9e+02 Score=37.18 Aligned_cols=95 Identities=18% Similarity=0.203 Sum_probs=61.8
Q ss_pred CHHHHHHhccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhccc------------
Q 001127 249 NDQQLEAACGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVGKA------------ 305 (1148)
Q Consensus 249 n~~Qr~aV~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~~------------ 305 (1148)
.+.|.-....-..|. +.....|+|| ...+..++|+|+|+-.|.+..+.+......-
T Consensus 58 ~~vQlig~~~l~~G~-Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~~~ 136 (745)
T TIGR00963 58 FDVQLIGGIALHKGK-IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSGMS 136 (745)
T ss_pred cchHHhhhhhhcCCc-eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCCCC
Confidence 455655442223443 6779999999 2345689999999999999888776654210
Q ss_pred -------cCCCceEechHHHHHHHHHHHHH-----HhcCCCCceecChHHH
Q 001127 306 -------TAKELTISTFHSFSLQLCRSHAE-----KLERTSEFLIYGHGQQ 344 (1148)
Q Consensus 306 -------~~~~v~V~Tfhs~a~rIl~~~~~-----~~~~~~~~~i~~~~~~ 344 (1148)
....+-++|..+|++..++..-. .....-.+.++|+.+.
T Consensus 137 ~~~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs 187 (745)
T TIGR00963 137 PEERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDS 187 (745)
T ss_pred HHHHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHH
Confidence 11357889999998888876521 1122334667776543
No 342
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=24.53 E-value=34 Score=38.87 Aligned_cols=26 Identities=19% Similarity=0.164 Sum_probs=20.5
Q ss_pred cCEEEEecCccCCHHHHHHHHHHHcC
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQILASH 501 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~L~~~ 501 (1148)
.+.++|||+|.+++.+...|..++..
T Consensus 82 ~~vl~iDEi~~l~~~~~e~l~~~~~~ 107 (305)
T TIGR00635 82 GDVLFIDEIHRLSPAVEELLYPAMED 107 (305)
T ss_pred CCEEEEehHhhhCHHHHHHhhHHHhh
Confidence 35899999999999887777666553
No 343
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=24.44 E-value=56 Score=38.65 Aligned_cols=28 Identities=25% Similarity=0.407 Sum_probs=18.3
Q ss_pred CEEEEecCCCCCC---------CCCCCEEEEeccHHH
Q 001127 263 PLLIVAGPGSGKG---------ISPSNILAMTFTTAA 290 (1148)
Q Consensus 263 ~~lI~G~AGSGK~---------~~~~~ILvltft~~A 290 (1148)
+++|+|+|||||+ ..++.++|+-+--..
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~~~~s~vv~D~Kge~ 37 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLTWPGSVVVLDPKGEN 37 (384)
T ss_pred CeeEecCCCCCCccEEEccchhcCCCCEEEEccchhH
Confidence 4789999999991 234556665554333
No 344
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=24.32 E-value=1.1e+02 Score=39.07 Aligned_cols=42 Identities=14% Similarity=0.226 Sum_probs=35.5
Q ss_pred CEEEEecCCCCC--------CCCCCCEEEEeccHHHHHHHHHHHHhhhcc
Q 001127 263 PLLIVAGPGSGK--------GISPSNILAMTFTTAAASEMRDRIGSIVGK 304 (1148)
Q Consensus 263 ~~lI~G~AGSGK--------~~~~~~ILvltft~~Aa~ei~~RL~~~l~~ 304 (1148)
+..+.|..|||| ...+..+||+++++..|.++...|...++.
T Consensus 31 ~~~l~Gvtgs~kt~~~a~~~~~~~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 31 HQTLLGVTGSGKTFTMANVIAQVNRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred cEEEECCCCcHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 567899999999 234568999999999999999999887764
No 345
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=24.31 E-value=1.2e+02 Score=35.08 Aligned_cols=76 Identities=20% Similarity=0.157 Sum_probs=48.6
Q ss_pred hhcCCHHHHHHhccCCCC-CEEEEecCCCCC------------CCCCC--CEEEEeccHHHHHHHHHHHHhhhccccCCC
Q 001127 245 LQSLNDQQLEAACGDMST-PLLIVAGPGSGK------------GISPS--NILAMTFTTAAASEMRDRIGSIVGKATAKE 309 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~~~-~~lI~G~AGSGK------------~~~~~--~ILvltft~~Aa~ei~~RL~~~l~~~~~~~ 309 (1148)
+..-++-|...|-.-..| .++=.|-.|||| ...|. --||+|+|+..|.++.+++... |. ..+
T Consensus 27 i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~al-Gk--~l~ 103 (442)
T KOG0340|consen 27 IKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIAL-GK--LLN 103 (442)
T ss_pred CCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHh-cc--ccc
Confidence 445688999877322233 333345679999 33443 4689999999999999999754 32 345
Q ss_pred ceEechHHHHHHHH
Q 001127 310 LTISTFHSFSLQLC 323 (1148)
Q Consensus 310 v~V~Tfhs~a~rIl 323 (1148)
+.+.+|-.+--.|.
T Consensus 104 lK~~vivGG~d~i~ 117 (442)
T KOG0340|consen 104 LKVSVIVGGTDMIM 117 (442)
T ss_pred ceEEEEEccHHHhh
Confidence 55666655444333
No 346
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=24.26 E-value=94 Score=37.77 Aligned_cols=46 Identities=9% Similarity=0.088 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEE
Q 001127 590 AQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNI 642 (1148)
Q Consensus 590 ~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i 642 (1148)
.+++.+..+|+..+.. | ..+.|.+-+...+.-|...|.+.||.+..
T Consensus 430 ~QvdDL~~EI~~r~~~----~---eRvLVTtLTKkmAEdLT~Yl~e~gikv~Y 475 (663)
T COG0556 430 GQVDDLLSEIRKRVAK----N---ERVLVTTLTKKMAEDLTEYLKELGIKVRY 475 (663)
T ss_pred CcHHHHHHHHHHHHhc----C---CeEEEEeehHHHHHHHHHHHHhcCceEEe
Confidence 4677888899887765 3 45677777788889999999999999865
No 347
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=24.25 E-value=52 Score=40.49 Aligned_cols=15 Identities=40% Similarity=0.840 Sum_probs=12.6
Q ss_pred CCCCEEEEecCCCCC
Q 001127 260 MSTPLLIVAGPGSGK 274 (1148)
Q Consensus 260 ~~~~~lI~G~AGSGK 274 (1148)
....+++.|||||||
T Consensus 87 ~~~giLL~GppGtGK 101 (495)
T TIGR01241 87 IPKGVLLVGPPGTGK 101 (495)
T ss_pred CCCcEEEECCCCCCH
Confidence 345589999999999
No 348
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=24.13 E-value=40 Score=35.32 Aligned_cols=13 Identities=31% Similarity=0.731 Sum_probs=11.4
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.+++|.||+||||
T Consensus 3 r~ivl~Gpsg~GK 15 (184)
T smart00072 3 RPIVLSGPSGVGK 15 (184)
T ss_pred cEEEEECCCCCCH
Confidence 4678889999999
No 349
>PF13173 AAA_14: AAA domain
Probab=24.11 E-value=72 Score=31.14 Aligned_cols=32 Identities=25% Similarity=0.471 Sum_probs=24.4
Q ss_pred CCEEEEecCCCCC----------CCCCCCEEEEeccHHHHHH
Q 001127 262 TPLLIVAGPGSGK----------GISPSNILAMTFTTAAASE 293 (1148)
Q Consensus 262 ~~~lI~G~AGSGK----------~~~~~~ILvltft~~Aa~e 293 (1148)
..++|.|+.|+|| ...+++++++.+.+.....
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~ 44 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRR 44 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHH
Confidence 3568889999999 2246889999988776644
No 350
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=24.05 E-value=53 Score=38.56 Aligned_cols=14 Identities=36% Similarity=0.733 Sum_probs=11.9
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
...+++.|+|||||
T Consensus 156 p~gvLL~GppGtGK 169 (364)
T TIGR01242 156 PKGVLLYGPPGTGK 169 (364)
T ss_pred CceEEEECCCCCCH
Confidence 34489999999999
No 351
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=23.91 E-value=53 Score=38.01 Aligned_cols=16 Identities=38% Similarity=0.831 Sum_probs=14.5
Q ss_pred CCCCCEEEEecCCCCC
Q 001127 259 DMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK 274 (1148)
..+.|++|.|.+||||
T Consensus 27 ~~~~pVlI~GE~GtGK 42 (326)
T PRK11608 27 PLDKPVLIIGERGTGK 42 (326)
T ss_pred CCCCCEEEECCCCCcH
Confidence 4578999999999999
No 352
>PRK14737 gmk guanylate kinase; Provisional
Probab=23.89 E-value=39 Score=35.62 Aligned_cols=12 Identities=33% Similarity=0.567 Sum_probs=10.1
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|.||+||||
T Consensus 6 ~ivl~GpsG~GK 17 (186)
T PRK14737 6 LFIISSVAGGGK 17 (186)
T ss_pred EEEEECCCCCCH
Confidence 456779999999
No 353
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=23.86 E-value=31 Score=35.17 Aligned_cols=11 Identities=36% Similarity=0.736 Sum_probs=9.5
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|++||||
T Consensus 1 i~l~G~~GsGK 11 (163)
T TIGR01313 1 FVLMGVAGSGK 11 (163)
T ss_pred CEEECCCCCCH
Confidence 35789999999
No 354
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=23.85 E-value=35 Score=39.40 Aligned_cols=28 Identities=18% Similarity=0.184 Sum_probs=21.0
Q ss_pred cCEEEEecCccCCHHHHHHHHHHHcCCc
Q 001127 476 WKAIIVDEFQDTSAMQYSLLQILASHNR 503 (1148)
Q Consensus 476 fd~IiIDEfQDftp~q~~lL~~L~~~~~ 503 (1148)
.+.|+|||++.+++.+...+..++....
T Consensus 103 ~~vl~IDEi~~l~~~~~e~l~~~~e~~~ 130 (328)
T PRK00080 103 GDVLFIDEIHRLSPVVEEILYPAMEDFR 130 (328)
T ss_pred CCEEEEecHhhcchHHHHHHHHHHHhcc
Confidence 4589999999999877777666555433
No 355
>PRK08939 primosomal protein DnaI; Reviewed
Probab=23.80 E-value=59 Score=37.27 Aligned_cols=14 Identities=29% Similarity=0.368 Sum_probs=12.2
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..++++.|++|+||
T Consensus 156 ~~gl~L~G~~G~GK 169 (306)
T PRK08939 156 VKGLYLYGDFGVGK 169 (306)
T ss_pred CCeEEEECCCCCCH
Confidence 34689999999999
No 356
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=23.80 E-value=33 Score=32.48 Aligned_cols=11 Identities=45% Similarity=0.718 Sum_probs=8.6
Q ss_pred EEEecCCCCCC
Q 001127 265 LIVAGPGSGKG 275 (1148)
Q Consensus 265 lI~G~AGSGK~ 275 (1148)
.|.|+||+||.
T Consensus 2 ~i~G~~G~GKS 12 (107)
T PF00910_consen 2 WIYGPPGIGKS 12 (107)
T ss_pred EEECCCCCCHH
Confidence 57788888883
No 357
>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=23.79 E-value=1.1e+02 Score=30.94 Aligned_cols=26 Identities=23% Similarity=0.277 Sum_probs=19.2
Q ss_pred cCcCEEEEecCccCCHHHHHHHHHHH
Q 001127 474 DSWKAIIVDEFQDTSAMQYSLLQILA 499 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~~lL~~L~ 499 (1148)
..|++||+||++-++|........|.
T Consensus 94 ~~yd~II~DEcH~~Dp~sIA~rg~l~ 119 (148)
T PF07652_consen 94 KNYDVIIMDECHFTDPTSIAARGYLR 119 (148)
T ss_dssp TS-SEEEECTTT--SHHHHHHHHHHH
T ss_pred cCccEEEEeccccCCHHHHhhheeHH
Confidence 47999999999999999988766554
No 358
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=23.69 E-value=37 Score=35.21 Aligned_cols=12 Identities=33% Similarity=0.661 Sum_probs=10.4
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.++|.|++||||
T Consensus 3 ~~~i~G~sGsGK 14 (179)
T TIGR02322 3 LIYVVGPSGAGK 14 (179)
T ss_pred EEEEECCCCCCH
Confidence 367889999999
No 359
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=23.66 E-value=65 Score=39.12 Aligned_cols=37 Identities=22% Similarity=0.352 Sum_probs=24.3
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL 298 (1148)
+.-++|.|+||+|| ...+++++++++-+. ..++..|.
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra 141 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRA 141 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHH
Confidence 44568889999999 233467888886543 34454443
No 360
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=23.62 E-value=4.6e+02 Score=31.54 Aligned_cols=64 Identities=17% Similarity=0.208 Sum_probs=39.5
Q ss_pred HHHCCCCCHHHHHHHHHHhhcccHHHHHHhccCcCEEEEecCcc--CCHHHHHHHHHHH----c------------CCcE
Q 001127 443 LRSCNALDYHDLISCSVKLLSTFPEVFQEYQDSWKAIIVDEFQD--TSAMQYSLLQILA----S------------HNRI 504 (1148)
Q Consensus 443 L~~~~~iD~~Dll~~a~~lL~~~~~l~~~l~~~fd~IiIDEfQD--ftp~q~~lL~~L~----~------------~~~l 504 (1148)
+...+..+..+++..+.... .+ .-.++|.|+|||++. ++.. -.++..|. + .+.+
T Consensus 235 ~~sG~f~T~a~Lf~~L~~~~------lg-~v~~~DlLI~DEvgylp~~~~-~~~v~imK~yMesg~fsRG~~~~~a~as~ 306 (449)
T TIGR02688 235 LISGGTITVAKLFYNISTRQ------IG-LVGRWDVVAFDEVATLKFAKP-KELIGILKNYMESGSFTRGDETKSSDASF 306 (449)
T ss_pred HHcCCcCcHHHHHHHHHHHH------Hh-hhccCCEEEEEcCCCCcCCch-HHHHHHHHHHHHhCceeccceeeeeeeEE
Confidence 43447888888887776511 11 225899999999987 4333 33433332 1 1368
Q ss_pred EEEcCCCCcc
Q 001127 505 TIVGDDDQSI 514 (1148)
Q Consensus 505 ~lvGD~~QsI 514 (1148)
+++|.-+|.+
T Consensus 307 vfvGNi~~~v 316 (449)
T TIGR02688 307 VFLGNVPLTS 316 (449)
T ss_pred EEEcccCCcc
Confidence 8889887754
No 361
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=23.61 E-value=50 Score=38.10 Aligned_cols=38 Identities=16% Similarity=0.234 Sum_probs=32.7
Q ss_pred cCcCEEEEecCccCCHHHHHHHHHHHcCCcEEEEcCCC
Q 001127 474 DSWKAIIVDEFQDTSAMQYSLLQILASHNRITIVGDDD 511 (1148)
Q Consensus 474 ~~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lvGD~~ 511 (1148)
.+-..+||||.+.||..|..++-.....+.|+++|-.-
T Consensus 221 krkTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGATT 258 (554)
T KOG2028|consen 221 KRKTILFIDEIHRFNKSQQDTFLPHVENGDITLIGATT 258 (554)
T ss_pred cceeEEEeHHhhhhhhhhhhcccceeccCceEEEeccc
Confidence 35568999999999999999988888888999998644
No 362
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=23.58 E-value=56 Score=40.23 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=20.6
Q ss_pred CHHHHHHhccCCCCCEEEEecCCCCCC
Q 001127 249 NDQQLEAACGDMSTPLLIVAGPGSGKG 275 (1148)
Q Consensus 249 n~~Qr~aV~~~~~~~~lI~G~AGSGK~ 275 (1148)
.+++.+++-....+-+++.|||||||+
T Consensus 533 ~pd~~k~lGi~~PsGvLL~GPPGCGKT 559 (802)
T KOG0733|consen 533 RPDLFKALGIDAPSGVLLCGPPGCGKT 559 (802)
T ss_pred CHHHHHHhCCCCCCceEEeCCCCccHH
Confidence 677777774444555899999999993
No 363
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=23.50 E-value=1.3e+02 Score=35.82 Aligned_cols=53 Identities=21% Similarity=0.164 Sum_probs=39.4
Q ss_pred CHHHHHHhccCC-CCCEEEEecCCCCC--------------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 249 NDQQLEAACGDM-STPLLIVAGPGSGK--------------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 249 n~~Qr~aV~~~~-~~~~lI~G~AGSGK--------------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
|--|..||-... +..++..|+.|||| +..+-.-+++.+|+..+.++..-+.++
T Consensus 43 TlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL 116 (569)
T KOG0346|consen 43 TLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKL 116 (569)
T ss_pred chhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHH
Confidence 566888885444 34677789999999 223346789999999999988776654
No 364
>PRK09087 hypothetical protein; Validated
Probab=23.47 E-value=39 Score=36.86 Aligned_cols=14 Identities=36% Similarity=0.541 Sum_probs=12.0
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
+.+++|.|++||||
T Consensus 44 ~~~l~l~G~~GsGK 57 (226)
T PRK09087 44 SPVVVLAGPVGSGK 57 (226)
T ss_pred CCeEEEECCCCCCH
Confidence 34589999999999
No 365
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=23.43 E-value=95 Score=38.04 Aligned_cols=58 Identities=19% Similarity=0.083 Sum_probs=44.0
Q ss_pred hhcCCHHHHHHhc-cCCCCCEEEEecCCCCC-------------------CCCCCCEEEEeccHHHHHHHHHHHHhhh
Q 001127 245 LQSLNDQQLEAAC-GDMSTPLLIVAGPGSGK-------------------GISPSNILAMTFTTAAASEMRDRIGSIV 302 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~-~~~~~~~lI~G~AGSGK-------------------~~~~~~ILvltft~~Aa~ei~~RL~~~l 302 (1148)
...-++.|+.|+- ......++..||-|||| +..+-+.+|+.+|+..+.++.....++.
T Consensus 156 F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 156 FDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred CCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC
Confidence 3455789999883 33456788889999999 1334678899999999999888887754
No 366
>PRK14873 primosome assembly protein PriA; Provisional
Probab=23.43 E-value=46 Score=42.31 Aligned_cols=53 Identities=13% Similarity=0.201 Sum_probs=38.4
Q ss_pred HHhhcCCHHHHHHhccCCCCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 243 KYLQSLNDQQLEAACGDMSTPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 243 ~~~~~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
.+...|+.+|... .++.|.+|||| ...++.+|++.+.-..+.++.+|+...++
T Consensus 150 ~~~~~l~~~q~~~--------~i~~~~~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~ 213 (665)
T PRK14873 150 RFLAALAAGRAAR--------AVWQALPGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLG 213 (665)
T ss_pred HHHHhhchhhhHH--------HHhhcCCCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcC
Confidence 3455667777631 11224469999 23577899999999999999999998765
No 367
>PRK00625 shikimate kinase; Provisional
Probab=23.20 E-value=37 Score=35.38 Aligned_cols=13 Identities=23% Similarity=0.455 Sum_probs=11.2
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
+++++|.|||||.
T Consensus 2 ~I~LiG~pGsGKT 14 (173)
T PRK00625 2 QIFLCGLPTVGKT 14 (173)
T ss_pred EEEEECCCCCCHH
Confidence 4789999999993
No 368
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=23.06 E-value=39 Score=35.94 Aligned_cols=13 Identities=38% Similarity=0.593 Sum_probs=11.6
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
|-++|.|++||||
T Consensus 2 GlilI~GptGSGK 14 (198)
T cd01131 2 GLVLVTGPTGSGK 14 (198)
T ss_pred cEEEEECCCCCCH
Confidence 5678999999999
No 369
>PRK12338 hypothetical protein; Provisional
Probab=22.92 E-value=62 Score=37.17 Aligned_cols=11 Identities=45% Similarity=0.730 Sum_probs=9.2
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|.|+|||||
T Consensus 7 i~i~G~sGsGK 17 (319)
T PRK12338 7 ILIGSASGIGK 17 (319)
T ss_pred EEEECCCCCCH
Confidence 56668999999
No 370
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=22.76 E-value=56 Score=37.88 Aligned_cols=32 Identities=25% Similarity=0.445 Sum_probs=20.7
Q ss_pred CEEEEecCccCCHH-HHHHHHHHHcCCcEEEEcC
Q 001127 477 KAIIVDEFQDTSAM-QYSLLQILASHNRITIVGD 509 (1148)
Q Consensus 477 d~IiIDEfQDftp~-q~~lL~~L~~~~~l~lvGD 509 (1148)
.++|+||++++++. |..++..|.. ..+.-+|.
T Consensus 95 GtL~Ldei~~L~~~~Q~~Ll~~l~~-~~~~~~g~ 127 (329)
T TIGR02974 95 GTLFLDELATASLLVQEKLLRVIEY-GEFERVGG 127 (329)
T ss_pred CEEEeCChHhCCHHHHHHHHHHHHc-CcEEecCC
Confidence 48999999999876 5556665543 33333443
No 371
>PRK06762 hypothetical protein; Provisional
Probab=22.75 E-value=39 Score=34.49 Aligned_cols=11 Identities=45% Similarity=0.833 Sum_probs=9.6
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+.|.|+|||||
T Consensus 5 i~i~G~~GsGK 15 (166)
T PRK06762 5 IIIRGNSGSGK 15 (166)
T ss_pred EEEECCCCCCH
Confidence 56779999999
No 372
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=22.52 E-value=62 Score=41.00 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=10.8
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
-+++.|||||||
T Consensus 707 GILLYGPPGTGK 718 (953)
T KOG0736|consen 707 GILLYGPPGTGK 718 (953)
T ss_pred eeEEECCCCCch
Confidence 378899999999
No 373
>PHA02244 ATPase-like protein
Probab=22.48 E-value=46 Score=39.03 Aligned_cols=27 Identities=7% Similarity=0.121 Sum_probs=21.7
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcC
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASH 501 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~ 501 (1148)
....+++||+..++|.....|..+...
T Consensus 180 ~GgvLiLDEId~a~p~vq~~L~~lLd~ 206 (383)
T PHA02244 180 KGGLFFIDEIDASIPEALIIINSAIAN 206 (383)
T ss_pred cCCEEEEeCcCcCCHHHHHHHHHHhcc
Confidence 345999999999999988777777653
No 374
>PRK11823 DNA repair protein RadA; Provisional
Probab=22.47 E-value=69 Score=38.83 Aligned_cols=37 Identities=27% Similarity=0.406 Sum_probs=24.9
Q ss_pred CCCEEEEecCCCCC-----------CCCCCCEEEEeccHHHHHHHHHHH
Q 001127 261 STPLLIVAGPGSGK-----------GISPSNILAMTFTTAAASEMRDRI 298 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~~~~ILvltft~~Aa~ei~~RL 298 (1148)
+..++|.|+||+|| ...+++++++++-+. ..++..|.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees-~~qi~~ra 127 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES-ASQIKLRA 127 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc-HHHHHHHH
Confidence 34568889999999 224678888886543 34555543
No 375
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=22.42 E-value=45 Score=42.06 Aligned_cols=42 Identities=29% Similarity=0.351 Sum_probs=29.8
Q ss_pred EEEEccccccCCCCCEEEEeecCCC-CCccccccCCccCcccccHHHHHHHHHHHHhcccceE
Q 001127 851 VTLTTIHQSKGLEWDIVFVAKANET-EIPLVHEFNGAVNEKGTSVEEERRLLYVAMTRARKKL 912 (1148)
Q Consensus 851 V~V~Tih~sKGlE~~~VfV~Glneg-~~P~~~~~~g~l~d~e~~l~EErrL~YVAlTRAk~~L 912 (1148)
-.-||||+|.|+..+.|.|. +..| .|. .--+||||+|++..=
T Consensus 750 ~~AmTI~KSQG~sL~~V~i~-f~~~k~~~-------------------~gq~YVAlSR~~s~~ 792 (828)
T PHA03311 750 KLAMTIAKSQGLSLDKVAIC-FGNHKNLK-------------------LSHVYVAMSRVTSSN 792 (828)
T ss_pred hheeeehHhhCCccceEEEE-CCCccccc-------------------cCcEEEEEEeccCcc
Confidence 35699999999999999885 2122 221 112799999998653
No 376
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=22.34 E-value=1.2e+02 Score=38.93 Aligned_cols=41 Identities=15% Similarity=0.286 Sum_probs=34.5
Q ss_pred CCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhh
Q 001127 261 STPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSI 301 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~ 301 (1148)
.+..+|-+|=|||| ..+..++|++++-+..+.++..|+...
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 34467779999999 246789999999999999999999754
No 377
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=22.01 E-value=44 Score=33.01 Aligned_cols=11 Identities=45% Similarity=0.622 Sum_probs=9.9
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+.|.|+|||||
T Consensus 2 I~i~G~~GsGK 12 (147)
T cd02020 2 IAIDGPAGSGK 12 (147)
T ss_pred EEEECCCCCCH
Confidence 57889999999
No 378
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=22.01 E-value=83 Score=36.58 Aligned_cols=31 Identities=23% Similarity=0.148 Sum_probs=22.2
Q ss_pred HhhcCCHHHHHHhcc--CCCCC-EEEEecCCCCC
Q 001127 244 YLQSLNDQQLEAACG--DMSTP-LLIVAGPGSGK 274 (1148)
Q Consensus 244 ~~~~Ln~~Qr~aV~~--~~~~~-~lI~G~AGSGK 274 (1148)
-+...|.+|+=|+.. +..-+ +.+.|.|||||
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGK 258 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGK 258 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccH
Confidence 366789999998843 22223 46669999999
No 379
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=21.88 E-value=1.1e+02 Score=32.07 Aligned_cols=28 Identities=32% Similarity=0.391 Sum_probs=19.5
Q ss_pred cCCHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
..+.+++.+......-.+...|.+||||
T Consensus 9 ~v~~~~r~~~~~~~~~viW~TGLSGsGK 36 (197)
T COG0529 9 SVTKQEREALKGQKGAVIWFTGLSGSGK 36 (197)
T ss_pred ccCHHHHHHHhCCCCeEEEeecCCCCCH
Confidence 4677888776433333466779999999
No 380
>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=21.76 E-value=3.6e+02 Score=34.90 Aligned_cols=51 Identities=8% Similarity=0.135 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHHHHHCCCCeEEc
Q 001127 586 HNEDAQCAFIIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTAFRERKIPFNIH 643 (1148)
Q Consensus 586 ~~~~~E~~~Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~L~~~gIP~~i~ 643 (1148)
.+..+-...++..|++.... .+-+.|.|.+......+...|...|||+.+-
T Consensus 404 ~~~~~K~~ai~~~i~~~~~~-------~~pvLIft~s~~~se~ls~~L~~~gi~~~~L 454 (762)
T TIGR03714 404 ATLPEKLMATLEDVKEYHET-------GQPVLLITGSVEMSEIYSELLLREGIPHNLL 454 (762)
T ss_pred ECHHHHHHHHHHHHHHHhhC-------CCCEEEEECcHHHHHHHHHHHHHCCCCEEEe
Confidence 34555667788888776433 3458899999888899999999999998753
No 381
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=21.59 E-value=52 Score=34.39 Aligned_cols=14 Identities=43% Similarity=0.854 Sum_probs=11.9
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
..+++|.||+||||
T Consensus 2 ~r~ivl~Gpsg~GK 15 (183)
T PF00625_consen 2 RRPIVLVGPSGSGK 15 (183)
T ss_dssp SSEEEEESSTTSSH
T ss_pred CCEEEEECCCCCCH
Confidence 35678889999999
No 382
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=21.56 E-value=45 Score=34.30 Aligned_cols=26 Identities=19% Similarity=0.115 Sum_probs=17.3
Q ss_pred cCEEEEecCc---cCCHHHHHHHHHHHcC
Q 001127 476 WKAIIVDEFQ---DTSAMQYSLLQILASH 501 (1148)
Q Consensus 476 fd~IiIDEfQ---Dftp~q~~lL~~L~~~ 501 (1148)
-|.|+|||.- -.|+.-...+...++.
T Consensus 101 aDvIIIDEIGpMElks~~f~~~ve~vl~~ 129 (179)
T COG1618 101 ADVIIIDEIGPMELKSKKFREAVEEVLKS 129 (179)
T ss_pred CCEEEEecccchhhccHHHHHHHHHHhcC
Confidence 5799999984 3455555566666653
No 383
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=21.41 E-value=1e+02 Score=41.95 Aligned_cols=82 Identities=17% Similarity=0.189 Sum_probs=50.7
Q ss_pred CCCEEEEecCCCCC-----------CCC-CCCEEEEeccHHHHHHHHHHHHhhhccc----------------cCCCceE
Q 001127 261 STPLLIVAGPGSGK-----------GIS-PSNILAMTFTTAAASEMRDRIGSIVGKA----------------TAKELTI 312 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK-----------~~~-~~~ILvltft~~Aa~ei~~RL~~~l~~~----------------~~~~v~V 312 (1148)
+..++|.|..|||| +.. .+.|.++-+-+.||.++..|+...++.. ....+.|
T Consensus 89 ~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY~vrf~~~~s~~t~I~v 168 (1294)
T PRK11131 89 HQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKL 168 (1294)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcceeceeecCccccCCCCCEEE
Confidence 44567779999999 222 2356666687888888888888765421 0134667
Q ss_pred echHHHHHHHHHHHHHHhcCCCCceecChHHHH
Q 001127 313 STFHSFSLQLCRSHAEKLERTSEFLIYGHGQQR 345 (1148)
Q Consensus 313 ~Tfhs~a~rIl~~~~~~~~~~~~~~i~~~~~~~ 345 (1148)
+|-..+...+.... .-..-.+.++|+...+
T Consensus 169 ~TpG~LL~~l~~d~---~Ls~~~~IIIDEAHER 198 (1294)
T PRK11131 169 MTDGILLAEIQQDR---LLMQYDTIIIDEAHER 198 (1294)
T ss_pred EChHHHHHHHhcCC---ccccCcEEEecCcccc
Confidence 88877776654321 1112235677776543
No 384
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=21.32 E-value=1.2e+02 Score=36.66 Aligned_cols=54 Identities=20% Similarity=0.173 Sum_probs=43.3
Q ss_pred HHHHHHhccCCCCCEEEEecCCCCC------------CCCCCCEEEEeccHHHHHHHHHHHHhhhc
Q 001127 250 DQQLEAACGDMSTPLLIVAGPGSGK------------GISPSNILAMTFTTAAASEMRDRIGSIVG 303 (1148)
Q Consensus 250 ~~Qr~aV~~~~~~~~lI~G~AGSGK------------~~~~~~ILvltft~~Aa~ei~~RL~~~l~ 303 (1148)
..|..++.....++.+|.-|-|=|| ...++++|++++|+-.+.+=.+.+.+..+
T Consensus 18 ~YQ~~i~a~al~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ 83 (542)
T COG1111 18 LYQLNIAAKALFKNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTG 83 (542)
T ss_pred HHHHHHHHHHhhcCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhC
Confidence 4577777667788999999999999 33455899999999999987777776544
No 385
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=21.21 E-value=57 Score=42.00 Aligned_cols=22 Identities=32% Similarity=0.444 Sum_probs=0.0
Q ss_pred HHHhccCCCCCEEEEecCCCCC
Q 001127 253 LEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 253 r~aV~~~~~~~~lI~G~AGSGK 274 (1148)
++++....-+++++.|+|||||
T Consensus 44 ~~~i~~~~~~slLL~GPpGtGK 65 (725)
T PRK13341 44 RRAIKADRVGSLILYGPPGVGK 65 (725)
T ss_pred HHHHhcCCCceEEEECCCCCCH
No 386
>PRK04040 adenylate kinase; Provisional
Probab=21.18 E-value=48 Score=35.04 Aligned_cols=13 Identities=31% Similarity=0.616 Sum_probs=10.7
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
.+.|.|.|||||+
T Consensus 4 ~i~v~G~pG~GKt 16 (188)
T PRK04040 4 VVVVTGVPGVGKT 16 (188)
T ss_pred EEEEEeCCCCCHH
Confidence 3678899999993
No 387
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=21.17 E-value=83 Score=36.51 Aligned_cols=27 Identities=22% Similarity=0.348 Sum_probs=18.7
Q ss_pred ccCcCEEEEecCccCCHHHHHHHHHHHcC
Q 001127 473 QDSWKAIIVDEFQDTSAMQYSLLQILASH 501 (1148)
Q Consensus 473 ~~~fd~IiIDEfQDftp~q~~lL~~L~~~ 501 (1148)
+.+.|.|+|+|.-+-. -+.+|.++..+
T Consensus 233 R~~PD~IivGEiR~~e--a~~~l~a~~tG 259 (332)
T PRK13900 233 RLRPDRIIVGELRGAE--AFSFLRAINTG 259 (332)
T ss_pred ccCCCeEEEEecCCHH--HHHHHHHHHcC
Confidence 4567789999998742 35677776654
No 388
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=21.03 E-value=69 Score=37.75 Aligned_cols=26 Identities=23% Similarity=0.282 Sum_probs=18.0
Q ss_pred CCHHHHHHhccCCCCCEEEEecCCCCC
Q 001127 248 LNDQQLEAACGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 248 Ln~~Qr~aV~~~~~~~~lI~G~AGSGK 274 (1148)
|.+...+.+. ...|.++|.|+.||||
T Consensus 137 l~~~~~~~l~-~~~GlilI~G~TGSGK 162 (372)
T TIGR02525 137 IEPDLFNSLL-PAAGLGLICGETGSGK 162 (372)
T ss_pred CCHHHHHHHH-hcCCEEEEECCCCCCH
Confidence 3444444442 3567889999999999
No 389
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=20.98 E-value=96 Score=39.86 Aligned_cols=23 Identities=30% Similarity=0.460 Sum_probs=17.1
Q ss_pred EEEEecCccCCHH-HHHHHHHHHc
Q 001127 478 AIIVDEFQDTSAM-QYSLLQILAS 500 (1148)
Q Consensus 478 ~IiIDEfQDftp~-q~~lL~~L~~ 500 (1148)
.+++||+..+++. |.+++..|..
T Consensus 473 tL~Ldei~~L~~~~Q~~L~~~l~~ 496 (686)
T PRK15429 473 SLFLDEVGDMPLELQPKLLRVLQE 496 (686)
T ss_pred eEEEechhhCCHHHHHHHHHHHHh
Confidence 8999999999876 5556655543
No 390
>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=20.90 E-value=1.3e+02 Score=33.76 Aligned_cols=13 Identities=38% Similarity=0.662 Sum_probs=11.6
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
.++++.||.|+||
T Consensus 35 PHll~yGPSGaGK 47 (351)
T KOG2035|consen 35 PHLLVYGPSGAGK 47 (351)
T ss_pred CeEEEECCCCCCc
Confidence 4688899999999
No 391
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=20.82 E-value=47 Score=34.39 Aligned_cols=12 Identities=25% Similarity=0.623 Sum_probs=10.1
Q ss_pred CEEEEecCCCCC
Q 001127 263 PLLIVAGPGSGK 274 (1148)
Q Consensus 263 ~~lI~G~AGSGK 274 (1148)
.+++.|+|||||
T Consensus 4 ~i~l~G~~gsGK 15 (175)
T cd00227 4 IIILNGGSSAGK 15 (175)
T ss_pred EEEEECCCCCCH
Confidence 356779999999
No 392
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=20.68 E-value=60 Score=40.28 Aligned_cols=33 Identities=12% Similarity=0.201 Sum_probs=23.5
Q ss_pred CcCEEEEecCccCCHHHHHHHHHHHcCCcEEEE
Q 001127 475 SWKAIIVDEFQDTSAMQYSLLQILASHNRITIV 507 (1148)
Q Consensus 475 ~fd~IiIDEfQDftp~q~~lL~~L~~~~~l~lv 507 (1148)
....++|||++.+++.+...|..+.....+++.
T Consensus 175 ~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~ 207 (531)
T TIGR02902 175 HGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLD 207 (531)
T ss_pred CCcEEEEechhhCCHHHHHHHHHHHHhCeeeec
Confidence 446999999999998877665555554445443
No 393
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=20.67 E-value=98 Score=37.95 Aligned_cols=28 Identities=21% Similarity=0.283 Sum_probs=19.8
Q ss_pred cCCHHHHHHh---ccCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAA---CGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV---~~~~~~~~lI~G~AGSGK 274 (1148)
.++++|.+.+ .....|-++|.|+.||||
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGK 255 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGK 255 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCH
Confidence 3567666554 234456688999999999
No 394
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=20.66 E-value=55 Score=37.97 Aligned_cols=56 Identities=16% Similarity=0.227 Sum_probs=42.1
Q ss_pred hhcCCHHHHHHhccCC-CCCEEEEecCCCCC----------C----CCCCCEEEEeccHHHHHHHHHHHHh
Q 001127 245 LQSLNDQQLEAACGDM-STPLLIVAGPGSGK----------G----ISPSNILAMTFTTAAASEMRDRIGS 300 (1148)
Q Consensus 245 ~~~Ln~~Qr~aV~~~~-~~~~lI~G~AGSGK----------~----~~~~~ILvltft~~Aa~ei~~RL~~ 300 (1148)
....+.-|++||.--. +.++.+.+-+|||| . .....+|++.+|+..+.++.+....
T Consensus 46 FekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~ 116 (397)
T KOG0327|consen 46 FEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRA 116 (397)
T ss_pred cCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHh
Confidence 5566888999984334 45688889999999 1 1235789999999999999855544
No 395
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=20.62 E-value=1.1e+02 Score=37.25 Aligned_cols=55 Identities=22% Similarity=0.257 Sum_probs=37.0
Q ss_pred CHHHHHHhccCCCCCEEEEec--CCCCC----C---------------------CCCCC--EEEEeccHHHHHHHHHHHH
Q 001127 249 NDQQLEAACGDMSTPLLIVAG--PGSGK----G---------------------ISPSN--ILAMTFTTAAASEMRDRIG 299 (1148)
Q Consensus 249 n~~Qr~aV~~~~~~~~lI~G~--AGSGK----~---------------------~~~~~--ILvltft~~Aa~ei~~RL~ 299 (1148)
++-|...+-.+..+.+=|+|. .|||| + ...-+ -||+|+|+..|-++..-|.
T Consensus 205 t~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ 284 (731)
T KOG0347|consen 205 TEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLK 284 (731)
T ss_pred ccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHHHHHHH
Confidence 455555443344565667765 59999 0 11123 7999999999999999988
Q ss_pred hhhc
Q 001127 300 SIVG 303 (1148)
Q Consensus 300 ~~l~ 303 (1148)
....
T Consensus 285 ai~~ 288 (731)
T KOG0347|consen 285 AIAE 288 (731)
T ss_pred Hhcc
Confidence 7654
No 396
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.61 E-value=89 Score=37.89 Aligned_cols=28 Identities=25% Similarity=0.313 Sum_probs=19.5
Q ss_pred cCCHHHHHHh---ccCCCCCEEEEecCCCCC
Q 001127 247 SLNDQQLEAA---CGDMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 247 ~Ln~~Qr~aV---~~~~~~~~lI~G~AGSGK 274 (1148)
.+++.|.+.+ .....|-++|.||.||||
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGK 271 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGK 271 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCH
Confidence 3466665544 234566789999999999
No 397
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=20.56 E-value=47 Score=38.84 Aligned_cols=13 Identities=38% Similarity=0.746 Sum_probs=11.4
Q ss_pred CEEEEecCCCCCC
Q 001127 263 PLLIVAGPGSGKG 275 (1148)
Q Consensus 263 ~~lI~G~AGSGK~ 275 (1148)
+++..|||||||.
T Consensus 386 NilfyGPPGTGKT 398 (630)
T KOG0742|consen 386 NILFYGPPGTGKT 398 (630)
T ss_pred heeeeCCCCCCch
Confidence 5789999999993
No 398
>PF11181 YflT: Heat induced stress protein YflT
Probab=20.52 E-value=1.5e+02 Score=27.99 Aligned_cols=34 Identities=12% Similarity=0.066 Sum_probs=25.3
Q ss_pred HHHHHHHHhhcCCCCCCCCCcEEEEEecCcChHHHHHH
Q 001127 595 IIDKILEHASNGPASICSYGSIAILYRRQVSGKVFQTA 632 (1148)
Q Consensus 595 Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~~~~~l~~~ 632 (1148)
+...|.+|..+ ||...||.|++.+......|...
T Consensus 12 ~~~~I~~L~~~----Gy~~ddI~Vva~d~~~~~~l~~~ 45 (103)
T PF11181_consen 12 ALSAIEELKAQ----GYSEDDIYVVAKDKDRTERLADQ 45 (103)
T ss_pred HHHHHHHHHHc----CCCcccEEEEEcCchHHHHHHHh
Confidence 34566777666 99999999999887666655543
No 399
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=20.46 E-value=84 Score=36.63 Aligned_cols=16 Identities=31% Similarity=0.405 Sum_probs=14.1
Q ss_pred CCCCCEEEEecCCCCC
Q 001127 259 DMSTPLLIVAGPGSGK 274 (1148)
Q Consensus 259 ~~~~~~lI~G~AGSGK 274 (1148)
....+++|.|+.||||
T Consensus 160 ~~~~nilI~G~tGSGK 175 (344)
T PRK13851 160 VGRLTMLLCGPTGSGK 175 (344)
T ss_pred HcCCeEEEECCCCccH
Confidence 4577899999999999
No 400
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=20.45 E-value=50 Score=34.63 Aligned_cols=13 Identities=31% Similarity=0.570 Sum_probs=11.2
Q ss_pred CCEEEEecCCCCC
Q 001127 262 TPLLIVAGPGSGK 274 (1148)
Q Consensus 262 ~~~lI~G~AGSGK 274 (1148)
..+.|+|++||||
T Consensus 3 ~~i~l~G~sGsGK 15 (186)
T PRK10078 3 KLIWLMGPSGSGK 15 (186)
T ss_pred cEEEEECCCCCCH
Confidence 3578889999999
No 401
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=20.42 E-value=1e+02 Score=33.70 Aligned_cols=14 Identities=43% Similarity=0.534 Sum_probs=11.7
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
+.-+.|.||.||||
T Consensus 31 Ge~vaI~GpSGSGK 44 (226)
T COG1136 31 GEFVAIVGPSGSGK 44 (226)
T ss_pred CCEEEEECCCCCCH
Confidence 34578889999999
No 402
>CHL00195 ycf46 Ycf46; Provisional
Probab=20.40 E-value=50 Score=40.38 Aligned_cols=14 Identities=43% Similarity=0.631 Sum_probs=12.2
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
...+++.|||||||
T Consensus 259 pkGILL~GPpGTGK 272 (489)
T CHL00195 259 PRGLLLVGIQGTGK 272 (489)
T ss_pred CceEEEECCCCCcH
Confidence 45589999999999
No 403
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=20.37 E-value=51 Score=34.26 Aligned_cols=11 Identities=45% Similarity=0.848 Sum_probs=10.1
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
+.|.|.||+||
T Consensus 3 I~ITGTPGvGK 13 (180)
T COG1936 3 IAITGTPGVGK 13 (180)
T ss_pred EEEeCCCCCch
Confidence 67889999999
No 404
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=20.35 E-value=69 Score=32.34 Aligned_cols=39 Identities=28% Similarity=0.318 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCCCCCCCCCcEEEEEecCc--------ChHHHHHHHHHCC
Q 001127 595 IIDKILEHASNGPASICSYGSIAILYRRQV--------SGKVFQTAFRERK 637 (1148)
Q Consensus 595 Va~~I~~Lv~~~~~~g~~~~DIAVL~r~~~--------~~~~l~~~L~~~g 637 (1148)
|...|.++.+. |+.+..|+|+.||.- .+..|.++|++.|
T Consensus 33 ve~~I~~lakk----G~~pSqIG~~LRD~~gip~Vk~vtG~ki~~iLk~~g 79 (151)
T PRK08561 33 IEELVVELAKQ----GYSPSMIGIILRDQYGIPDVKLITGKKITEILEENG 79 (151)
T ss_pred HHHHHHHHHHC----CCCHHHhhhhHhhccCCCceeeeccchHHHHHHHcC
Confidence 55667777776 999999999999862 1344555555555
No 405
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=20.29 E-value=54 Score=34.81 Aligned_cols=10 Identities=60% Similarity=1.086 Sum_probs=7.2
Q ss_pred EEEecCCCCC
Q 001127 265 LIVAGPGSGK 274 (1148)
Q Consensus 265 lI~G~AGSGK 274 (1148)
+|-|+|||||
T Consensus 19 i~aG~~GsGK 28 (199)
T PF06414_consen 19 IIAGQPGSGK 28 (199)
T ss_dssp EEES-TTSTT
T ss_pred EEeCCCCCCH
Confidence 4449999999
No 406
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=20.18 E-value=47 Score=31.50 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=9.8
Q ss_pred EEEEecCCCCC
Q 001127 264 LLIVAGPGSGK 274 (1148)
Q Consensus 264 ~lI~G~AGSGK 274 (1148)
++|+|++|+||
T Consensus 2 I~V~G~~g~GK 12 (119)
T PF08477_consen 2 IVVLGDSGVGK 12 (119)
T ss_dssp EEEECSTTSSH
T ss_pred EEEECcCCCCH
Confidence 67889999999
No 407
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=20.10 E-value=1.2e+02 Score=36.05 Aligned_cols=14 Identities=50% Similarity=0.826 Sum_probs=13.1
Q ss_pred CCCEEEEecCCCCC
Q 001127 261 STPLLIVAGPGSGK 274 (1148)
Q Consensus 261 ~~~~lI~G~AGSGK 274 (1148)
.+|++|.|+.|+||
T Consensus 113 ~nplfi~G~~GlGK 126 (408)
T COG0593 113 YNPLFIYGGVGLGK 126 (408)
T ss_pred CCcEEEECCCCCCH
Confidence 67899999999999
No 408
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=20.07 E-value=53 Score=37.95 Aligned_cols=32 Identities=16% Similarity=0.248 Sum_probs=21.8
Q ss_pred CEEEEecCccCCHHHHHHHHHHHcCCcEEEEc
Q 001127 477 KAIIVDEFQDTSAMQYSLLQILASHNRITIVG 508 (1148)
Q Consensus 477 d~IiIDEfQDftp~q~~lL~~L~~~~~l~lvG 508 (1148)
.++++||.-...|.-...|-..+....+++-|
T Consensus 114 ~ill~DEInra~p~~q~aLl~~l~e~~vtv~~ 145 (329)
T COG0714 114 VILLLDEINRAPPEVQNALLEALEERQVTVPG 145 (329)
T ss_pred eEEEEeccccCCHHHHHHHHHHHhCcEEEECC
Confidence 38999999999887666655555544444443
Done!